Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 121 of 284
Found at i:40092219 original size:116 final size:117
Alignment explanation
Indices: 40092044--40092265 Score: 365
Period size: 116 Copynumber: 1.9 Consensus size: 117
40092034 TGAAACCATC
* * * *
40092044 CCTTTTTCATTAATTGATAGTCGTCACCATTCCTTTTCATAGTTGATGGTCATCTCCATCCCTTT
1 CCTTTTTCATTAATTGATAGTCGTCACCATCCCTTTTCATAATTGACGGTCATCACCATCCCTTT
40092109 TCACAATCGATAGCCAAAGCTATCCCTTTTCATATTCGATTGCTGAAGCTAT
66 TCACAATCGATAGCCAAAGCTATCCCTTTTCATATTCGATTGCTGAAGCTAT
* * *
40092161 CCTTTTTCATT-TTTTATGGTCGTCACCATCCCTTTTCATAATTGACGGTCATCACCATCCCTTT
1 CCTTTTTCATTAATTGATAGTCGTCACCATCCCTTTTCATAATTGACGGTCATCACCATCCCTTT
*
40092225 TCATAATCGATAGCCAAAGCTATCCCTTTTCATATTCGATT
66 TCACAATCGATAGCCAAAGCTATCCCTTTTCATATTCGATT
40092266 ATCGTTGATA
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
116 86 0.89
117 11 0.11
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.40
Consensus pattern (117 bp):
CCTTTTTCATTAATTGATAGTCGTCACCATCCCTTTTCATAATTGACGGTCATCACCATCCCTTT
TCACAATCGATAGCCAAAGCTATCCCTTTTCATATTCGATTGCTGAAGCTAT
Found at i:40104484 original size:15 final size:15
Alignment explanation
Indices: 40104443--40104505 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
40104433 GAAAACCAGA
*
40104443 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
* * *
40104458 ACAGAGGAATCCAAG
1 ATAAAGAAATCCAAG
*
40104473 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
40104488 GTACAGAAATCCAAG
1 ATAAAGAAATCCAAG
40104503 ATA
1 ATA
40104506 CCATATCATA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:40115484 original size:29 final size:27
Alignment explanation
Indices: 40115466--40115535 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
40115456 ATATTAAGTC
40115466 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
40115493 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
40115521 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
40115536 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:40115529 original size:28 final size:28
Alignment explanation
Indices: 40115466--40115563 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
40115456 ATATTAAGTC
*
40115466 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40115493 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40115521 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40115550 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40115564 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40121493 original size:19 final size:19
Alignment explanation
Indices: 40121457--40121493 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
40121447 CAGCTCATCA
*
40121457 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
40121476 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
40121494 TCAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:40122467 original size:20 final size:20
Alignment explanation
Indices: 40122434--40122487 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
40122424 AAATAGGGGT
*
40122434 CACACGCCCATGTGGCTTGG
1 CACATGCCCATGTGGCTTGG
* *
40122454 GACATGCCCGTGTGGCTTGG
1 CACATGCCCATGTGGCTTGG
*
40122474 CACATGCCCTTGTG
1 CACATGCCCATGTG
40122488 AGTAGGCCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.31, G:0.31, T:0.24
Consensus pattern (20 bp):
CACATGCCCATGTGGCTTGG
Found at i:40125059 original size:43 final size:42
Alignment explanation
Indices: 40124997--40125160 Score: 170
Period size: 42 Copynumber: 3.9 Consensus size: 42
40124987 TAAGATGCCA
* * *
40124997 ATGCCATATCCCAGATATGGTCTTATATGGGATCACATATCG
1 ATGCCATAGCCCAGATATGGTCTTACATGAGATCACATATCG
* * *
40125039 ATGCCGATAGCCCAGCTATGGTCTTACATGATG-TCTCATATCA
1 ATGCC-ATAGCCCAGATATGGTCTTACATGA-GATCACATATCG
* * *
40125082 ATGCCAT-GTCCCAGACATGTTCTTACATGAAATCACATATCG
1 ATGCCATAG-CCCAGATATGGTCTTACATGAGATCACATATCG
* * * *
40125124 ATGCCATATCCTAGATATGGTCTTACACGAAATCACA
1 ATGCCATAGCCCAGATATGGTCTTACATGAGATCACA
40125161 CATAACCCTA
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 64 0.64
43 34 0.34
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACATGAGATCACATATCG
Found at i:40133388 original size:18 final size:17
Alignment explanation
Indices: 40133365--40133400 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
40133355 CACTGCCTGG
40133365 TTTTTTTTACTTTGTTTT
1 TTTTTTTTACTTT-TTTT
40133383 TTTTTTTTACTTTTTTT
1 TTTTTTTTACTTTTTTT
40133400 T
1 T
40133401 AACTTTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.86
Consensus pattern (17 bp):
TTTTTTTTACTTTTTTT
Found at i:40133525 original size:23 final size:23
Alignment explanation
Indices: 40133494--40133564 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
40133484 AAAAAACTTA
*
40133494 AAATGTATA-TTTGAAATATTTT
1 AAATATATATTTTGAAATATTTT
*
40133516 ATAATATATATTTTTTAAA-ATTTT
1 A-AATATATA-TTTTGAAATATTTT
40133540 AAATATATATTATTGAAATTATTTT
1 AAATATATATT-TTGAAA-TATTTT
40133565 TTAAAATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 3 0.08
23 20 0.50
24 6 0.15
25 11 0.28
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
AAATATATATTTTGAAATATTTT
Found at i:40133563 original size:25 final size:25
Alignment explanation
Indices: 40133504--40133564 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 25
40133494 AAATGTATAT
*
40133504 TTGAAATATTTTATAATATATATTT
1 TTGAAATATTTTATAATATATATTA
*
40133529 TTTAAA-ATTTTA-AATATATATTA
1 TTGAAATATTTTATAATATATATTA
40133552 TTGAAATTATTTT
1 TTGAAA-TATTTT
40133565 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 15 0.48
24 6 0.19
25 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (25 bp):
TTGAAATATTTTATAATATATATTA
Found at i:40133583 original size:22 final size:21
Alignment explanation
Indices: 40133557--40133625 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
40133547 TATTATTGAA
*
40133557 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTT-AAATATTAAAT
40133579 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
* *
40133600 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTTA-AATATTAAAT
40133623 ATT
1 ATT
40133626 TAAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 12 0.29
22 19 0.45
23 11 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:40133592 original size:21 final size:22
Alignment explanation
Indices: 40133557--40133625 Score: 88
Period size: 21 Copynumber: 3.1 Consensus size: 22
40133547 TATTATTGAA
*
40133557 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATATTAAAT
40133579 ATTATTTTTT-AAATATTAAAT
1 ATTATTTTTTAAAATATTAAAT
*
40133600 A-TATATTTTTAATAATATAAAAT
1 ATTAT-TTTTTAA-AATATTAAAT
40133623 ATT
1 ATT
40133626 TAAATATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.07
21 16 0.39
22 11 0.27
23 10 0.24
24 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATTTTTTAAAATATTAAAT
Found at i:40133704 original size:29 final size:29
Alignment explanation
Indices: 40133664--40133723 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
40133654 ATTTTATTAG
*
40133664 TTTTATAATATTTTAAATGTATATTTTAAA
1 TTTTATAATATTTTAAAT-AATATTTTAAA
**
40133694 TTTTA-AATATTTTTTATAATATTTTAAA
1 TTTTATAATATTTTAAATAATATTTTAAA
40133722 TT
1 TT
40133724 ATGATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 10 0.37
30 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTATAATATTTTAAATAATATTTTAAA
Found at i:40133704 original size:123 final size:122
Alignment explanation
Indices: 40133546--40133817 Score: 331
Period size: 123 Copynumber: 2.2 Consensus size: 122
40133536 TTTTAAATAT
* *
40133546 ATATTATTGAAATTATTTTTTAAAATTTTAAATATTATTTTTTAA-ATATTAAATATAT-ATTTT
1 ATATT-TT-AAATTATATTTT-AAATTTTAAATATT-TTTTATAATATATTAAAT-TATGATTTT
*
40133609 T-AATAATATAAAATAT-TTAAATATTTTAAAGATATGACCTTTCAAA-TT-TTATTAGTTTTAT
61 TAAATAATATAAAATATATT--AT-TTTTAAAGA-ATGACCTCTCAAATTTATTATTAGTTTTAT
40133670 A
122 A
*
40133671 ATATTTTAAATGTATATTTTAAATTTTAAATATTTTTTATAATATTTTAAATTATGATTTTTAAA
1 ATATTTTAAAT-TATATTTTAAATTTTAAATATTTTTTATAATATATTAAATTATGATTTTTAAA
* * *
40133736 TTATTTAAAATATATTATTTTTAAAGAATGACCTCTCAAATTTATTATTTGTTTTATA
65 TAATATAAAATATATTATTTTTAAAGAATGACCTCTCAAATTTATTATTAGTTTTATA
*
40133794 ATATTTTAAATATACATTTTAAAT
1 ATATTTTAAAT-TATATTTTAAAT
40133818 ATTTTTTAAA
Statistics
Matches: 131, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
121 12 0.09
122 21 0.16
123 69 0.53
124 22 0.17
125 7 0.05
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (122 bp):
ATATTTTAAATTATATTTTAAATTTTAAATATTTTTTATAATATATTAAATTATGATTTTTAAAT
AATATAAAATATATTATTTTTAAAGAATGACCTCTCAAATTTATTATTAGTTTTATA
Found at i:40133740 original size:24 final size:22
Alignment explanation
Indices: 40133664--40133760 Score: 87
Period size: 24 Copynumber: 4.3 Consensus size: 22
40133654 ATTTTATTAG
40133664 TTTTATAATATTTTAAATGTATA-
1 TTTTA-AATATTTTAAAT-TATAT
40133687 TTTT-AA-ATTTTAAA-TAT-T
1 TTTTAAATATTTTAAATTATAT
40133705 TTTTATAATATTTTAAATTATGAT
1 TTTTA-AATATTTTAAATTAT-AT
*
40133729 TTTTAAATTATTTAAAATATATTAT
1 TTTTAAA-TATTTTAAAT-TA-TAT
40133754 TTTTAAA
1 TTTTAAA
40133761 GAATGACCTC
Statistics
Matches: 63, Mismatches: 1, Indels: 18
0.77 0.01 0.22
Matches are distributed among these distances:
18 7 0.11
20 10 0.16
21 10 0.16
22 3 0.05
23 6 0.10
24 15 0.24
25 11 0.17
26 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAAATATTTTAAATTATAT
Found at i:40133918 original size:20 final size:20
Alignment explanation
Indices: 40133890--40133929 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
40133880 TTCAAATACT
* *
40133890 TTTTTAAATTTAAATTTAAA
1 TTTTAAAATATAAATTTAAA
*
40133910 TTTTAAAATATACATTTAAA
1 TTTTAAAATATAAATTTAAA
40133930 ATATTACAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTAAAATATAAATTTAAA
Found at i:40134020 original size:20 final size:20
Alignment explanation
Indices: 40133995--40134134 Score: 100
Period size: 20 Copynumber: 7.7 Consensus size: 20
40133985 TTTTATATTA
*
40133995 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAAAAT
40134015 TT-AAAAATCATAATTTAAAAT
1 TTAAAAAAT-AT-ATTTAAAAT
40134036 TTAAAAAA-A-A-TTAAAAT
1 TTAAAAAATATATTTAAAAT
40134053 TT----AAT-T-TTTAAAAT
1 TTAAAAAATATATTTAAAAT
40134067 TT-AAAAATAATATTTAAAAT
1 TTAAAAAAT-ATATTTAAAAT
40134087 TTAAATAAATA-A--T----T
1 TTAAA-AAATATATTTAAAAT
40134101 TTAAAAATATATATTTAAAAT
1 TTAAAAA-ATATATTTAAAAT
40134122 TTAAAAAATATAT
1 TTAAAAAATATAT
40134135 ATTATAAAAT
Statistics
Matches: 97, Mismatches: 1, Indels: 44
0.68 0.01 0.31
Matches are distributed among these distances:
13 4 0.04
14 18 0.19
15 1 0.01
17 13 0.13
18 2 0.02
19 7 0.07
20 22 0.23
21 21 0.22
22 9 0.09
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:40134021 original size:21 final size:21
Alignment explanation
Indices: 40133997--40134137 Score: 67
Period size: 21 Copynumber: 6.6 Consensus size: 21
40133987 TTATATTATT
40133997 AAAAAATATATTTAATATTTA
1 AAAAAATATATTTAATATTTA
* *
40134018 AAAATCATA-ATTTAAAATTTAA
1 AAAA-AATATATTTAATATTT-A
* *
40134040 AAAAAATTAAAATTTAAT-TTTT
1 AAAAAA-T-ATATTTAATATTTA
** * **
40134062 AAAATTTAAAAATAATATTTA
1 AAAAAATATATTTAATATTTA
*
40134083 AAATTTAAATA-A-ATAAT-TTTA
1 AAA---AAATATATTTAATATTTA
* *
40134104 AAAATATATATTTAAAATTTA
1 AAAAAATATATTTAATATTTA
40134125 AAAAATATATATT
1 AAAAA-ATATATT
40134138 ATAAAATATT
Statistics
Matches: 91, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
18 4 0.04
19 1 0.01
20 10 0.11
21 37 0.41
22 25 0.27
23 5 0.05
24 9 0.10
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAAATATATTTAATATTTA
Found at i:40134036 original size:7 final size:7
Alignment explanation
Indices: 40134006--40134091 Score: 65
Period size: 7 Copynumber: 13.0 Consensus size: 7
40133996 TAAAAAATAT
*
40134006 ATTTAAT
1 ATTTAAA
40134013 ATTTAAA
1 ATTTAAA
* * *
40134020 AATCATA
1 ATTTAAA
40134027 ATTTAAA
1 ATTTAAA
40134034 ATTTAAA
1 ATTTAAA
40134041 A---AAA
1 ATTTAAA
40134045 A-TTAAA
1 ATTTAAA
*
40134051 ATTTAAT
1 ATTTAAA
*
40134058 TTTTAAA
1 ATTTAAA
40134065 ATTTAAA
1 ATTTAAA
* *
40134072 A-ATAAT
1 ATTTAAA
40134078 ATTTAAA
1 ATTTAAA
40134085 ATTTAAA
1 ATTTAAA
40134092 TAAATAATTT
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
4 4 0.07
6 8 0.13
7 48 0.80
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTTAAA
Found at i:40134122 original size:22 final size:23
Alignment explanation
Indices: 40134097--40134144 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
40134087 TTAAATAAAT
*
40134097 AATTTTAAAAATATATATT-TAA
1 AATTTAAAAAATATATATTATAA
40134119 AATTTAAAAAATATATATTATAA
1 AATTTAAAAAATATATATTATAA
40134142 AAT
1 AAT
40134145 ATTTCAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTTAAAAAATATATATTATAA
Found at i:40134122 original size:35 final size:35
Alignment explanation
Indices: 40134066--40134146 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
40134056 ATTTTTAAAA
40134066 TTTAAAAATA-ATATTTAAAATTTAAATAAATA-AT
1 TTTAAAAATATATATTTAAAATTTAAA-AAATATAT
40134100 TTTAAAAATATATATTTAAAATTTAAAAAATATAT
1 TTTAAAAATATATATTTAAAATTTAAAAAATATAT
*
40134135 ATTATAAAATAT
1 TTTA-AAAATAT
40134147 TTCAAATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
34 15 0.35
35 21 0.49
36 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (35 bp):
TTTAAAAATATATATTTAAAATTTAAAAAATATAT
Found at i:40147722 original size:18 final size:19
Alignment explanation
Indices: 40147699--40147736 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
40147689 ATTTTATCGT
40147699 ATTATTAAA-AAAATTTTA
1 ATTATTAAATAAAATTTTA
*
40147717 ATTATTAAATAATATTTTA
1 ATTATTAAATAAAATTTTA
40147736 A
1 A
40147737 CAATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTAAATAAAATTTTA
Found at i:40147879 original size:39 final size:39
Alignment explanation
Indices: 40147822--40147905 Score: 89
Period size: 39 Copynumber: 2.2 Consensus size: 39
40147812 CTTATATAAC
* *
40147822 TTTAAAATTAAACCTTTAAAAT-TAAACTTTGAATTCAAA
1 TTTAAAATCAAACCTTT-AAATCTAAACTTTAAATTCAAA
* * * *
40147861 TTTAAACTCAAACTTTTAACTCTAAACTTTAAATTTAAA
1 TTTAAAATCAAACCTTTAAATCTAAACTTTAAATTCAAA
*
40147900 GTTAAA
1 TTTAAA
40147906 TCTTGAATTC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
38 3 0.08
39 34 0.92
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (39 bp):
TTTAAAATCAAACCTTTAAATCTAAACTTTAAATTCAAA
Found at i:40147891 original size:13 final size:13
Alignment explanation
Indices: 40147819--40147893 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 13
40147809 AAACTTATAT
* *
40147819 AACTTTAAAATTA
1 AACTTTAAACTCA
* *
40147832 AACCTTTAAAATTA
1 AA-CTTTAAACTCA
* *
40147846 AACTTTGAATTCA
1 AACTTTAAACTCA
40147859 AA-TTTAAACTCA
1 AACTTTAAACTCA
*
40147871 AACTTTTAACTCTA
1 AACTTTAAACTC-A
40147885 AACTTTAAA
1 AACTTTAAA
40147894 TTTAAAGTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.19
13 20 0.38
14 22 0.42
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (13 bp):
AACTTTAAACTCA
Found at i:40147899 original size:13 final size:13
Alignment explanation
Indices: 40147819--40147934 Score: 67
Period size: 13 Copynumber: 8.9 Consensus size: 13
40147809 AAACTTATAT
*
40147819 AACTTTAAAATTA
1 AACTTTAAATTTA
*
40147832 AACCTTTAAAATTA
1 AA-CTTTAAATTTA
* *
40147846 AACTTTGAATTCA
1 AACTTTAAATTTA
* *
40147859 AA-TTTAAACTCA
1 AACTTTAAATTTA
* *
40147871 AACTTTTAACTCTA
1 AAC-TTTAAATTTA
40147885 AACTTTAAATTTA
1 AACTTTAAATTTA
* *
40147898 AA-GTTAAATCTTG
1 AACTTTAAAT-TTA
* *
40147911 AA-TTCAAACTTA
1 AACTTTAAATTTA
*
40147923 AACTCTAAATTT
1 AACTTTAAATTT
40147935 TAAATCTCGA
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
12 20 0.26
13 36 0.46
14 22 0.28
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.39
Consensus pattern (13 bp):
AACTTTAAATTTA
Found at i:40147905 original size:19 final size:19
Alignment explanation
Indices: 40147836--40147934 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 19
40147826 AAATTAAACC
* *
40147836 TTTAAAATTAAACTTTGAA
1 TTTAAACTTAAACTTTAAA
* * *
40147855 TTCAAATTTAAAC-TCAAA
1 TTTAAACTTAAACTTTAAA
*
40147873 CTTTTAACTCTAAACTTTAAA
1 -TTTAAACT-TAAACTTTAAA
* *
40147894 TTTAAAGTTAAA-TCTTGAA
1 TTTAAACTTAAACT-TTAAA
* *
40147913 TTCAAACTTAAACTCTAAA
1 TTTAAACTTAAACTTTAAA
40147932 TTT
1 TTT
40147935 TAAATCTCGA
Statistics
Matches: 59, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
18 4 0.07
19 39 0.66
20 12 0.20
21 4 0.07
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.40
Consensus pattern (19 bp):
TTTAAACTTAAACTTTAAA
Found at i:40147953 original size:18 final size:20
Alignment explanation
Indices: 40147923--40147973 Score: 79
Period size: 18 Copynumber: 2.6 Consensus size: 20
40147913 TTCAAACTTA
40147923 AACTCTAAATTTTAAATCTCG
1 AACT-TAAATTTTAAATCTCG
40147944 AA-TT-AATTTTAAATCTCG
1 AACTTAAATTTTAAATCTCG
40147962 AACTTAAATTTT
1 AACTTAAATTTT
40147974 GAATTTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 16 0.57
19 3 0.11
20 7 0.25
21 2 0.07
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (20 bp):
AACTTAAATTTTAAATCTCG
Found at i:40148171 original size:29 final size:29
Alignment explanation
Indices: 40148138--40148201 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
40148128 GCTTACTTTT
40148138 TTTAGAAAAGTTTTAGAGAAGATATTAGA
1 TTTAGAAAAGTTTTAGAGAAGATATTAGA
40148167 TTTAGAAAAGTTTTAGAGAAGATATTAGA
1 TTTAGAAAAGTTTTAGAGAAGATATTAGA
*
40148196 TATAGA
1 TTTAGA
40148202 TGAGTGTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.34
Consensus pattern (29 bp):
TTTAGAAAAGTTTTAGAGAAGATATTAGA
Found at i:40150209 original size:43 final size:43
Alignment explanation
Indices: 40150148--40150231 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
40150138 TTAAACCTCG
40150148 TACATGAAACAAAATCGTGCTATTTTAATCTCATAAATAAATT
1 TACATGAAACAAAATCGTGCTATTTTAATCTCATAAATAAATT
40150191 TACATGAAACAAAATCGTGCTATTTTAATCTCATAAATAAA
1 TACATGAAACAAAATCGTGCTATTTTAATCTCATAAATAAA
40150232 ACAAAAACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (43 bp):
TACATGAAACAAAATCGTGCTATTTTAATCTCATAAATAAATT
Found at i:40157417 original size:12 final size:13
Alignment explanation
Indices: 40157395--40157427 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
40157385 AATTGAGGAA
*
40157395 AAAAAAGAAAAAT
1 AAAAAAGAAAAAC
40157408 AAAAAA-AAAAAC
1 AAAAAAGAAAAAC
40157420 AAAAAAGA
1 AAAAAAGA
40157428 CAACTTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (13 bp):
AAAAAAGAAAAAC
Found at i:40157591 original size:23 final size:23
Alignment explanation
Indices: 40157565--40157639 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
40157555 AAAATACCCA
40157565 TCTCTACTTTTCATATATGTTAT
1 TCTCTACTTTTCATATATGTTAT
* * *
40157588 TCTCTTTCATTTCTCATATTTAATTAT
1 TCTC-TAC-TTT-TCATATAT-GTTAT
* *
40157615 T-TTTATTTTTCATATATGTTAT
1 TCTCTACTTTTCATATATGTTAT
40157637 TCT
1 TCT
40157640 TTTTATTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
22 5 0.13
23 12 0.31
24 5 0.13
25 4 0.10
26 8 0.21
27 5 0.13
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.61
Consensus pattern (23 bp):
TCTCTACTTTTCATATATGTTAT
Found at i:40157605 original size:26 final size:25
Alignment explanation
Indices: 40157575--40157647 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
40157565 TCTCTACTTT
*
40157575 TCATATATGTTATTCTCTTTCATTTC
1 TCATATATGTTATTCT-TTTTATTTC
* * *
40157601 TCATAT-T-TAATTATTTTTATTTT
1 TCATATATGTTATTCTTTTTATTTC
40157624 TCATATATGTTATTCTTTTTATTT
1 TCATATATGTTATTCTTTTTATTT
40157648 TCCCATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 13 0.33
24 6 0.15
25 14 0.36
26 6 0.15
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.64
Consensus pattern (25 bp):
TCATATATGTTATTCTTTTTATTTC
Found at i:40157648 original size:24 final size:24
Alignment explanation
Indices: 40157572--40157649 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
40157562 CCATCTCTAC
*
40157572 TTTTCATATATGTTATTCTCTTTCA
1 TTTTCATATATGTTATTCT-TTTTA
* *
40157597 TTTCTCATAT-T-TAATTATTTTTA
1 TTT-TCATATATGTTATTCTTTTTA
40157620 TTTTTCATATATGTTATTCTTTTTA
1 -TTTTCATATATGTTATTCTTTTTA
40157645 TTTTC
1 TTTTC
40157650 CCATATTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
23 10 0.23
24 14 0.32
25 14 0.32
26 6 0.14
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (24 bp):
TTTTCATATATGTTATTCTTTTTA
Found at i:40157665 original size:26 final size:25
Alignment explanation
Indices: 40157572--40157655 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
40157562 CCATCTCTAC
*
40157572 TTTT-CATATATGTTATTCTCTTTCA
1 TTTTCCATATATGTTATTCT-TTTTA
* *
40157597 -TTTCTCATAT-T-TAATTATTTTTA
1 TTTTC-CATATATGTTATTCTTTTTA
*
40157620 TTTTTCATATATGTTATTCTTTTTA
1 TTTTCCATATATGTTATTCTTTTTA
40157645 TTTTCCCATAT
1 TTTT-CCATAT
40157656 TTGATTTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
23 9 0.20
24 12 0.26
25 15 0.33
26 10 0.22
ACGTcount: A:0.21, C:0.13, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTCCATATATGTTATTCTTTTTA
Found at i:40157732 original size:21 final size:22
Alignment explanation
Indices: 40157674--40157735 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 22
40157664 CTCTTTGGTA
*
40157674 TCTCTATTTTGCATATTTGTTAT
1 TCTCTATTTTTCATATTTG-TAT
*
40157697 TCTCTTTTCTTTTCATATTTG-AT
1 TCTC-TAT-TTTTCATATTTGTAT
40157720 TCTCTATTTTTCATAT
1 TCTCTATTTTTCATAT
40157736 ATATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.26
22 2 0.06
23 10 0.29
24 2 0.06
25 11 0.32
ACGTcount: A:0.16, C:0.16, G:0.05, T:0.63
Consensus pattern (22 bp):
TCTCTATTTTTCATATTTGTAT
Found at i:40157846 original size:25 final size:25
Alignment explanation
Indices: 40157813--40157861 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
40157803 TATATATTTA
40157813 TTTTACATATTTGT-TATTCTCTTTT
1 TTTTACATATTTGTCT-TTCTCTTTT
*
40157838 TTTTTCATATTTGTCTTTCTCTTT
1 TTTTACATATTTGTCTTTCTCTTT
40157862 CTCATTCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTACATATTTGTCTTTCTCTTTT
Found at i:40160409 original size:15 final size:15
Alignment explanation
Indices: 40160389--40160442 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
40160379 ATACTACAAA
40160389 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
40160404 ATATTTATAATCGTAAT
1 ATATTTATTAT--TAAT
*
40160421 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
40160438 ATATT
1 ATATT
40160443 AATATGAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 15 0.47
17 7 0.22
19 10 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:40160563 original size:16 final size:16
Alignment explanation
Indices: 40160524--40160568 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
40160514 ATAAAATTGA
* *
40160524 AATAATTTAATAAATT
1 AATAATTTATTATATT
40160540 -AT-ATTTATTATATT
1 AATAATTTATTATATT
40160554 AATAATTTATTATAT
1 AATAATTTATTATAT
40160569 GACTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
16 11 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAATTTATTATATT
Found at i:40162014 original size:38 final size:38
Alignment explanation
Indices: 40161951--40162023 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
40161941 GAATAGGTTT
** * *
40161951 TGAGCTCTTGCATATGTTATGGACTCGAGAATACATTC
1 TGAGCTCTTGCATATACTATAGACTCAAGAATACATTC
*
40161989 TGAGCTCTTGCATATACTGTAGACTCAAGAATACA
1 TGAGCTCTTGCATATACTATAGACTCAAGAATACA
40162024 GATTTAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (38 bp):
TGAGCTCTTGCATATACTATAGACTCAAGAATACATTC
Found at i:40164553 original size:22 final size:19
Alignment explanation
Indices: 40164528--40164567 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
40164518 TTCGATGAGT
40164528 TTGATATGACTTTTAGTATGAA
1 TTGAT-TGA-TTTTA-TATGAA
40164550 TTGATTGATTTTATATGA
1 TTGATTGATTTTATATGA
40164568 TACTCTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
21 3 0.17
22 5 0.28
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (19 bp):
TTGATTGATTTTATATGAA
Found at i:40167673 original size:40 final size:40
Alignment explanation
Indices: 40167435--40167659 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
40167425 TTGAATGATG
* * * *
40167435 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
40167475 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
40167515 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40167554 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40167594 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40167635 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40167660 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40167681 original size:119 final size:119
Alignment explanation
Indices: 40167435--40167692 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
40167425 TTGAATGATG
* *
40167435 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
40167500 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
* * * **
40167554 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
40167617 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAA
* *
40167674 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40167693 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:40170723 original size:35 final size:35
Alignment explanation
Indices: 40170676--40170770 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 35
40170666 GTCACTCTAT
*
40170676 AGGACCTGTATACCATTTACACGGTATCACCCTGA
1 AGGACCTATATACCATTTACACGGTATCACCCTGA
* * **
40170711 AGGACCTATATACCGTTTACACGGTGTTGCCCTGA
1 AGGACCTATATACCATTTACACGGTATCACCCTGA
* * *
40170746 AAGACTTATATATCATCTT-CACGGT
1 AGGACCTATATACCAT-TTACACGGT
40170771 GTTGCCCCGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 48 0.96
36 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (35 bp):
AGGACCTATATACCATTTACACGGTATCACCCTGA
Found at i:40172251 original size:20 final size:19
Alignment explanation
Indices: 40172226--40172266 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
40172216 ACAAAAATTA
*
40172226 TTATTCCCAGAAAATATAAT
1 TTATTCCAAGAAAATA-AAT
*
40172246 TTATTCTAAGAAAATAAAT
1 TTATTCCAAGAAAATAAAT
40172265 TT
1 TT
40172267 TCATTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (19 bp):
TTATTCCAAGAAAATAAAT
Found at i:40172616 original size:9 final size:9
Alignment explanation
Indices: 40172595--40172627 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
40172585 CAAAATAATT
40172595 ATTAATT-A
1 ATTAATTAA
40172603 ATTAATTAA
1 ATTAATTAA
*
40172612 ATTAAATAA
1 ATTAATTAA
40172621 ATTAATT
1 ATTAATT
40172628 TCTCAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTAATTAA
Found at i:40172644 original size:16 final size:18
Alignment explanation
Indices: 40172618--40172651 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
40172608 TTAAATTAAA
40172618 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
40172635 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
40172652 CCGATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:40177278 original size:40 final size:39
Alignment explanation
Indices: 40177247--40177456 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
40177237 GGACTAAGAT
* *
40177247 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
40177287 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
40177327 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
40177367 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
40177407 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
40177446 CCGAAGGCATT
1 CCGAAGGCATT
40177457 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:40177410 original size:120 final size:120
Alignment explanation
Indices: 40177194--40177456 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
40177184 TTGAATGCTG
* *
40177194 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
40177258 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
40177314 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
40177377 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
40177433 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
40177457 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:40177476 original size:79 final size:80
Alignment explanation
Indices: 40177195--40177491 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
40177185 TGAATGCTGT
* ** * * * **
40177195 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
40177258 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
40177275 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
40177339 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
40177355 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
40177419 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
40177434 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
40177492 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:40187106 original size:40 final size:40
Alignment explanation
Indices: 40187062--40187325 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
40187052 GCTCCTCGTT
* *
40187062 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40187102 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40187142 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
40187182 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40187222 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
40187261 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
40187302 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40187326 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40193788 original size:29 final size:29
Alignment explanation
Indices: 40193725--40193792 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
40193715 TAATCAACCG
*
40193725 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
40193754 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
40193783 CGCACACTTA
1 CGCACACTTA
40193793 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:40193905 original size:174 final size:174
Alignment explanation
Indices: 40193614--40193941 Score: 595
Period size: 174 Copynumber: 1.9 Consensus size: 174
40193604 AACTCAAGGT
* *
40193614 ACTTACCTTTTCCGCTGTCCAAAATTCACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTCACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
40193679 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
40193744 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
40193788 ACTTACCTTTTCCGCTGTCCAAAA-TCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACCTTTTCCGCTGTCCAAAATTC-ACTCGATAAAGTCGCACCCTTAATGTAAATAATTTAT
40193852 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
*
40193917 TACTTTAAACTCGCACACTTAGTGC
130 TACTTTAAACTCACACACTTAGTGC
40193942 TGTACAATTT
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
173 2 0.01
174 146 0.99
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTCACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:40193933 original size:29 final size:30
Alignment explanation
Indices: 40193894--40193972 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
40193884 CTTAATAATC
40193894 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
40193924 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
40193953 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
40193973 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:40201074 original size:42 final size:42
Alignment explanation
Indices: 40200947--40201112 Score: 127
Period size: 42 Copynumber: 3.9 Consensus size: 42
40200937 AGTAACATGC
* * ****
40200947 CAATGCCATATCCCAGATATGGTCTTACATGGGATCACATAT
1 CAATGCCATATCCCAGACATGGACTTACACAAAATCACATAT
* * * * ** *
40200989 CGATGCCGATAGCCCAG-CTATGGTCTTACACGATGTCTCATAT
1 CAATGCC-ATATCCCAGAC-ATGGACTTACACAAAATCACATAT
* *
40201032 CAATGCCATGTCCCAGACATGGACTTATACAAAATCACATAT
1 CAATGCCATATCCCAGACATGGACTTACACAAAATCACATAT
* * * * *
40201074 CGATGCCATATCCTAGATATGGTCTTACACGAAATCACA
1 CAATGCCATATCCCAGACATGGACTTACACAAAATCACA
40201113 CATAACCCTA
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 63 0.65
43 34 0.35
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
CAATGCCATATCCCAGACATGGACTTACACAAAATCACATAT
Found at i:40212478 original size:18 final size:16
Alignment explanation
Indices: 40212454--40212490 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
40212444 CGCTGCTACC
40212454 CAAAACAACAGAGTTAA
1 CAAAA-AACAGAGTTAA
40212471 C-AAAAACAGAGTTAA
1 CAAAAAACAGAGTTAA
40212486 CAAAA
1 CAAAA
40212491 TGAAGGCGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 12 0.63
16 6 0.32
17 1 0.05
ACGTcount: A:0.62, C:0.16, G:0.11, T:0.11
Consensus pattern (16 bp):
CAAAAAACAGAGTTAA
Found at i:40212480 original size:15 final size:15
Alignment explanation
Indices: 40212460--40212490 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
40212450 TACCCAAAAC
40212460 AACAGAGTTAACAAA
1 AACAGAGTTAACAAA
40212475 AACAGAGTTAACAAA
1 AACAGAGTTAACAAA
40212490 A
1 A
40212491 TGAAGGCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
AACAGAGTTAACAAA
Found at i:40217900 original size:22 final size:23
Alignment explanation
Indices: 40217857--40217901 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
40217847 AAGTAGTTTC
* * *
40217857 AATATATTCTAATCATACTTTTA
1 AATATATTCTAAACAGAATTTTA
40217880 AATA-ATTCTAAACAGAATTTTA
1 AATATATTCTAAACAGAATTTTA
40217902 GAAACTTACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (23 bp):
AATATATTCTAAACAGAATTTTA
Found at i:40222951 original size:41 final size:41
Alignment explanation
Indices: 40222906--40222990 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
40222896 TCGCTTTGAA
40222906 ACTAATCTTTGTATCATACTAGCTCAAGGGTCATCTATTAT
1 ACTAATCTTTGTATCATACTAGCTCAAGGGTCATCTATTAT
40222947 ACTAATCTTTGTATCATACTAGCTCAAGGGTCATCTATTAT
1 ACTAATCTTTGTATCATACTAGCTCAAGGGTCATCTATTAT
40222988 ACT
1 ACT
40222991 TTCATTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (41 bp):
ACTAATCTTTGTATCATACTAGCTCAAGGGTCATCTATTAT
Found at i:40223675 original size:16 final size:17
Alignment explanation
Indices: 40223646--40223678 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
40223636 TTAAGTTGTT
40223646 TTTTAGTTTAGTTTTTC
1 TTTTAGTTTAGTTTTTC
*
40223663 TTTTA-TTTTGTTTTTC
1 TTTTAGTTTAGTTTTTC
40223679 GCGGGGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTTAGTTTAGTTTTTC
Found at i:40229508 original size:71 final size:71
Alignment explanation
Indices: 40229392--40229534 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
40229382 TTTTTGGAGG
40229392 TAAAATGGGATAAAATTACCCAAAAAAACTTTAAATATCAATTAAATTTAAGGTATAATTTAGGG
1 TAAAATGGGATAAAATTACCCAAAAAAACTTTAAATATCAATTAAATTTAAGGTATAATTTAGGG
40229457 ATCCAT
66 ATCCAT
40229463 TAAAATGGGATAAAATTACCCAAAAAAACTTTAAATATCAATTAAATTTAAGGTATAATTTAGGG
1 TAAAATGGGATAAAATTACCCAAAAAAACTTTAAATATCAATTAAATTTAAGGTATAATTTAGGG
40229528 ATCCAT
66 ATCCAT
40229534 T
1 T
40229535 TACTAATAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (71 bp):
TAAAATGGGATAAAATTACCCAAAAAAACTTTAAATATCAATTAAATTTAAGGTATAATTTAGGG
ATCCAT
Found at i:40238318 original size:260 final size:260
Alignment explanation
Indices: 40237844--40238326 Score: 921
Period size: 260 Copynumber: 1.9 Consensus size: 260
40237834 GGAGTTTAGC
40237844 CACAGCTGCTAGTGATGTTACGTGGCTGGTTTCCTTATTGACAGAGTTAAACCTTAGTTCAGTTG
1 CACAGCTGCTAGTGATGTTACGTGGCTGGTTTCCTTATTGACAGAGTTAAACCTTAGTTCAGTTG
40237909 ATCTTCCGACAGTGTAGTGTGATAATTCTAGTGCTGTTGCTGTTGTAGCTAACCCGGTCTTGCAC
66 ATCTTCCGACAGTGTAGTGTGATAATTCTAGTGCTGTTGCTGTTGTAGCTAACCCGGTCTTGCAC
*
40237974 TCTAAGTTCAAACATGTTGAACTTGATCTATTTTTTATTTGGGAAAAGGTCGCTCATGGTGAGTT
131 TCTAAGTTCAAACATGTTGAACTTGATCTATTTTTTATTCGGGAAAAGGTCGCTCATGGTGAGTT
40238039 GGTTGCTAGCAAAGTTCCTGCATGTGACCAAGTGGCGGATGTTCTTACTAAACCATTGTCCGCTT
196 GGTTGCTAGCAAAGTTCCTGCATGTGACCAAGTGGCGGATGTTCTTACTAAACCATTGTCCGCTT
40238104 CACAGCTGCTAGTGATGTTACGTGGCTGGTTTCCTTATTGACAGAGTTAAACCTTAGTTCAGTTG
1 CACAGCTGCTAGTGATGTTACGTGGCTGGTTTCCTTATTGACAGAGTTAAACCTTAGTTCAGTTG
40238169 ATCTTCCGACAGTGTAGTGTGATAATTCTAGTGCTGTTGCTGTTGTAGCTAACCCGGTCTTGCAC
66 ATCTTCCGACAGTGTAGTGTGATAATTCTAGTGCTGTTGCTGTTGTAGCTAACCCGGTCTTGCAC
*
40238234 TCTAAGTTCAAACATGTTGAACTTGATCTATTTTTTGTTCGGGAAAAGGTCGCTCATGGTGAGTT
131 TCTAAGTTCAAACATGTTGAACTTGATCTATTTTTTATTCGGGAAAAGGTCGCTCATGGTGAGTT
* * *
40238299 GGTTGTTAGCGATGTTCCTGCATGTGAC
196 GGTTGCTAGCAAAGTTCCTGCATGTGAC
40238327 AGCCAACATC
Statistics
Matches: 218, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
260 218 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (260 bp):
CACAGCTGCTAGTGATGTTACGTGGCTGGTTTCCTTATTGACAGAGTTAAACCTTAGTTCAGTTG
ATCTTCCGACAGTGTAGTGTGATAATTCTAGTGCTGTTGCTGTTGTAGCTAACCCGGTCTTGCAC
TCTAAGTTCAAACATGTTGAACTTGATCTATTTTTTATTCGGGAAAAGGTCGCTCATGGTGAGTT
GGTTGCTAGCAAAGTTCCTGCATGTGACCAAGTGGCGGATGTTCTTACTAAACCATTGTCCGCTT
Found at i:40239623 original size:129 final size:129
Alignment explanation
Indices: 40239393--40239651 Score: 446
Period size: 129 Copynumber: 2.0 Consensus size: 129
40239383 TCGACATTTG
*
40239393 TCAAGTTCTACTAAGGGGAAACTAGATATATATATTGTGAGAAGGATTAGTCGAGATGGTTTTTT
1 TCAAGTTCCACTAAGGGGAAACTAGATATATATATTGTGAGAAGGATTAGTCGAGATGGTTTTTT
* * *
40239458 CTTCTTTTAAAATATACTTTATGTTTTTTCGTTTTAAAACTTATAAGTTTTCTTCTTTGGAAGC
66 CTTCTTTTAAAATATACTTTATGGTTCTTCCTTTTAAAACTTATAAGTTTTCTTCTTTGGAAGC
* *
40239522 TCAAGTTCCACTAAGGGGAAACTGGATATATATATTGTGAGAAGGATTAGTCGGGATGGTTTTTT
1 TCAAGTTCCACTAAGGGGAAACTAGATATATATATTGTGAGAAGGATTAGTCGAGATGGTTTTTT
* *
40239587 TTTCTTTTAAAATATACTTTATGGTTCTTCCTTTTAAAACTTATATGTTTTCTTCTTTGGAAGC
66 CTTCTTTTAAAATATACTTTATGGTTCTTCCTTTTAAAACTTATAAGTTTTCTTCTTTGGAAGC
40239651 T
1 T
40239652 AAGGATTTTG
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 122 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (129 bp):
TCAAGTTCCACTAAGGGGAAACTAGATATATATATTGTGAGAAGGATTAGTCGAGATGGTTTTTT
CTTCTTTTAAAATATACTTTATGGTTCTTCCTTTTAAAACTTATAAGTTTTCTTCTTTGGAAGC
Found at i:40255584 original size:41 final size:42
Alignment explanation
Indices: 40255475--40255589 Score: 126
Period size: 41 Copynumber: 2.7 Consensus size: 42
40255465 ATATTGTACA
* *
40255475 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCAAATATCG
** * * *
40255518 ATGCCATTGTCCTAGATAG-GGTCTTACACGAATCAAATA-CT
1 ATGCCAACGTCCCAGA-CGTGGTCTTACACGAATCAAATATCG
*
40255559 ATGCCAACGTCCCAGACGTGATCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
40255590 GAATACATAT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
40 1 0.02
41 25 0.43
42 8 0.14
43 23 0.40
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCAAATATCG
Found at i:40260771 original size:16 final size:17
Alignment explanation
Indices: 40260750--40260781 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
40260740 TAGTTGGAGT
40260750 AAACT-AAAACTGTAGG
1 AAACTAAAAACTGTAGG
40260766 AAACTAAAAACTGTAG
1 AAACTAAAAACTGTAG
40260782 TGAGACCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (17 bp):
AAACTAAAAACTGTAGG
Found at i:40267412 original size:84 final size:84
Alignment explanation
Indices: 40267268--40267423 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
40267258 ACACATATCG
* * * * ** * ***
40267268 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATTACATATCGATGTCATTGTCCCAAACA
1 TACAATACCAACGTCCCAGACATGGTCTTACACGTAACCACATATCGATGCCAACATCCCAAACA
40267333 GGGTCTTACACGAATCAAA
66 GGGTCTTACACGAATCAAA
* *
40267352 TACAATACCAATGTCCCAGACATGGTCTTACACGTAACCACATATCGATGCCAACATCCCAGACA
1 TACAATACCAACGTCCCAGACATGGTCTTACACGTAACCACATATCGATGCCAACATCCCAAACA
*
40267417 TGGTCTT
66 GGGTCTT
40267424 GGACGAGAAC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 59 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (84 bp):
TACAATACCAACGTCCCAGACATGGTCTTACACGTAACCACATATCGATGCCAACATCCCAAACA
GGGTCTTACACGAATCAAA
Found at i:40267418 original size:43 final size:43
Alignment explanation
Indices: 40267272--40267423 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 43
40267262 ATATCGTACA
* * * *
40267272 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATTACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* ** * * * *
40267315 ATGTCATTGTCCCAAACAGGGTCTTACACG-AATCAAATA-CA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
40267356 ATACCAATGTCCCAGACATGGTCTTACACGTAACCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
*
40267399 ATGCCAACATCCCAGACATGGTCTT
1 ATGCCAACGTCCCAGACATGGTCTT
40267424 GGACGAGAAC
Statistics
Matches: 85, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
41 26 0.31
42 14 0.16
43 45 0.53
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:40271945 original size:21 final size:21
Alignment explanation
Indices: 40271877--40271954 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
40271867 TTAGCTCTCA
* * *
40271877 TGAGCTTCAG-TTAACTCATA
1 TGAGTTTCAGTTTAACTCCTC
*
40271897 TGAGTTTCAGTTTAAC-CCTT
1 TGAGTTTCAGTTTAACTCCTC
* *
40271917 TTAGGTTTCAGTTTAGCTCCTC
1 TGA-GTTTCAGTTTAACTCCTC
* *
40271939 TGAGTTTTAGATTAAC
1 TGAGTTTCAGTTTAAC
40271955 CTTTATGGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 13 0.29
21 27 0.60
22 5 0.11
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (21 bp):
TGAGTTTCAGTTTAACTCCTC
Found at i:40271945 original size:42 final size:42
Alignment explanation
Indices: 40271882--40272017 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 42
40271872 TCTCATGAGC
* *
40271882 TTCAG-TTAACTCATATGAGTTTCAGTTTAACCCTTT-TAGGT
1 TTCAGTTTAGCTCCTATGAGTTTCAGTTTAA-CCTTTATAGGT
* * * *
40271923 TTCAGTTTAGCTCCTCTGAGTTTTAGATTAACCTTTATGGGT
1 TTCAGTTTAGCTCCTATGAGTTTCAGTTTAACCTTTATAGGT
* * *
40271965 TTCTGTTTAGCTCCTATGAGTTTTCA-TTTAATGC-TTACAGGT
1 TTCAGTTTAGCTCCTATGAG-TTTCAGTTTAA-CCTTTATAGGT
*
40272007 TTCTGTTTAGC
1 TTCAGTTTAGC
40272018 ACTTATGCAC
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.81
43 5 0.06
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (42 bp):
TTCAGTTTAGCTCCTATGAGTTTCAGTTTAACCTTTATAGGT
Found at i:40274284 original size:29 final size:29
Alignment explanation
Indices: 40274242--40274352 Score: 168
Period size: 29 Copynumber: 3.8 Consensus size: 29
40274232 TGCAATGAGA
*
40274242 TCGCACACTTAGTGCTCGATAGTTTTACT
1 TCGCACACTTAGTGCTCGATAATTTTACT
**
40274271 TCGCACACTTAGTGCTTAATAATTTTACT
1 TCGCACACTTAGTGCTCGATAATTTTACT
* *
40274300 TCGCACACTTAGTGCTCGTTAATTTTTCT
1 TCGCACACTTAGTGCTCGATAATTTTACT
*
40274329 TTGCACACTTAGTGCTCGATAATT
1 TCGCACACTTAGTGCTCGATAATT
40274353 CACATATATA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.41
Consensus pattern (29 bp):
TCGCACACTTAGTGCTCGATAATTTTACT
Found at i:40280533 original size:107 final size:107
Alignment explanation
Indices: 40280344--40280543 Score: 260
Period size: 107 Copynumber: 1.9 Consensus size: 107
40280334 GTTTGCAGGA
* *
40280344 TGAGGATCCAAATACTCACTTAGCGAATTTTCTGAAACTTTACGAATTATTTAAAATCAATGGCG
1 TGAGGATCCAAATACTAACTTAGCGAATTTTCTGAAACTTTACGAATCATTTAAAATCAATGGCG
* *
40280409 TCTCTGATGATGTCATTCATCTTCGGTTATTTGCATTTTCAT
66 TCTCTGATGATGCCATTCACCTTCGGTTATTTGCATTTTCAT
* * * * * *
40280451 TGAGGATCCAAATACTAATTTGGTGAATTTTCT-AAAGTTTTGCGACA-CATTTAAGATCAATGG
1 TGAGGATCCAAATACTAACTTAGCGAATTTTCTGAAA-CTTTACGA-ATCATTTAAAATCAATGG
* *
40280514 CGTTTCTGATGATGCCATTCACCTTTGGTT
64 CGTCTCTGATGATGCCATTCACCTTCGGTT
40280544 GTTTCCCTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 3 0.04
107 75 0.95
108 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (107 bp):
TGAGGATCCAAATACTAACTTAGCGAATTTTCTGAAACTTTACGAATCATTTAAAATCAATGGCG
TCTCTGATGATGCCATTCACCTTCGGTTATTTGCATTTTCAT
Found at i:40293110 original size:4 final size:4
Alignment explanation
Indices: 40293101--40293157 Score: 114
Period size: 4 Copynumber: 14.2 Consensus size: 4
40293091 TCTTAAAAAA
40293101 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
40293149 ACAT ACAT A
1 ACAT ACAT A
40293158 TTAGTAGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:40302057 original size:46 final size:47
Alignment explanation
Indices: 40301809--40302129 Score: 253
Period size: 46 Copynumber: 6.8 Consensus size: 47
40301799 CATAGGGTAT
*
40301809 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT-C-TC
* * * **
40301857 AA-GTCGATGCCATGTCCCAGACGTGGTCTTACACTGACTATCGAAATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-C-ATCTC
* * * * *
40301905 AACGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ACATCTC
* * * * * **
40301955 CATGCCAATGCCATGTCCCAAACATGGTTTTACCCTAAC-ACATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTC
*
40302001 -GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTC
* * * * * *
40302047 GAGGTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ACATCTC
* *
40302093 AATGCCGATGCCATGTCCCTGACATGGTCTTCCACTG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
40302130 TCTCTCCAAT
Statistics
Matches: 221, Mismatches: 38, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
44 9 0.04
45 15 0.07
46 63 0.29
47 48 0.22
48 16 0.07
49 30 0.14
50 36 0.16
51 3 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTC
Found at i:40306743 original size:23 final size:23
Alignment explanation
Indices: 40306716--40306762 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
40306706 AAACAAGTAC
40306716 TAATATTTATATAAT-TAAAATAT
1 TAATATTT-TATAATATAAAATAT
*
40306739 TAATATTTTATACTATAAAATAT
1 TAATATTTTATAATATAAAATAT
40306762 T
1 T
40306763 TATAAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTTTATAATATAAAATAT
Found at i:40310001 original size:17 final size:17
Alignment explanation
Indices: 40309979--40310012 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
40309969 TTGAAACACA
40309979 AAACTAAAAAAAGTTTT
1 AAACTAAAAAAAGTTTT
*
40309996 AAACTAGAAAAAGTTTT
1 AAACTAAAAAAAGTTTT
40310013 CTCTCTTTTA
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:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
AAACTAAAAAAAGTTTT
Found at i:40310684 original size:6 final size:6
Alignment explanation
Indices: 40310673--40310706 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
40310663 CAAATGGACC
40310673 ATTTCT ATTTCT ATTTCT ATTTCT ATTTCT ATTT
1 ATTTCT ATTTCT ATTTCT ATTTCT ATTTCT ATTT
40310707 TTGGGAACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTCT
Found at i:40312208 original size:56 final size:56
Alignment explanation
Indices: 40312147--40312260 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
40312137 AAGCTTAATT
*
40312147 GGCTTGGTAATGGTAAAAATGACCTATTTATAAGAAAAACAAAAGTTGAGATGGAG
1 GGCTTGGTAATGGTAAAAATCACCTATTTATAAGAAAAACAAAAGTTGAGATGGAG
* *
40312203 GGCTTGGTAATGGTAAAGATCACCTATTTATAAGAAAAACAAAAGTTTAGATGGAG
1 GGCTTGGTAATGGTAAAAATCACCTATTTATAAGAAAAACAAAAGTTGAGATGGAG
40312259 GG
1 GG
40312261 TTATGAAGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (56 bp):
GGCTTGGTAATGGTAAAAATCACCTATTTATAAGAAAAACAAAAGTTGAGATGGAG
Found at i:40317258 original size:40 final size:40
Alignment explanation
Indices: 40317203--40317280 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
40317193 ATGGAACTCT
40317203 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
40317243 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCT
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCT
40317281 ACTGTATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (40 bp):
ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTGC
Found at i:40319757 original size:24 final size:24
Alignment explanation
Indices: 40319727--40319812 Score: 69
Period size: 24 Copynumber: 3.8 Consensus size: 24
40319717 AATAATAATT
40319727 TTATATTAA-AATTATTATTAAAAA
1 TTATATTAATAA-TATTATTAAAAA
*
40319751 TTATATTAATAATGTTATT--AAA
1 TTATATTAATAATATTATTAAAAA
* *
40319773 TTATA-T-ATTATTTTATT--AAA
1 TTATATTAATAATATTATTAAAAA
40319793 TTATATTTAATAATAATTAT
1 TTATA-TTAATAAT-ATTAT
40319813 GTTAAAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 17 0.33
21 1 0.02
22 9 0.17
23 4 0.08
24 19 0.37
25 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
TTATATTAATAATATTATTAAAAA
Found at i:40319969 original size:44 final size:46
Alignment explanation
Indices: 40319899--40319992 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
40319889 ATTACAACAT
*
40319899 CATTCCATTCAATCAAACACAAGAATT-CT-ATTACAGCTCTACTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
*** *
40319943 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
40319989 CATT
1 CATT
40319993 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTC
Found at i:40319995 original size:16 final size:16
Alignment explanation
Indices: 40319974--40320044 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
40319964 TGAATTACTG
40319974 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
40319990 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
40320006 ATGACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
40320022 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
40320038 ATTACAG
1 ATTACAG
40320045 TGAACCAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.34
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:40323417 original size:85 final size:84
Alignment explanation
Indices: 40323271--40323553 Score: 422
Period size: 85 Copynumber: 3.3 Consensus size: 84
40323261 TAAGATCTGC
* * * * *
40323271 AATTTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGTCTTCGACCTACTCTACCACTAC
1 AATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGA-TCTTCGACCTGCTCCACCACTGC
* *
40323336 TCGGAGAGCTAGGATTTGTA
65 TCGGAGAGCCAGGATCTGTA
*
40323356 AATTTTAGCCTGTTACCCTATTACTTAGGGGGTTAAGGCGGATCTTCGACCTGCTCCACCACTGC
1 AATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGC-GATCTTCGACCTGCTCCACCACTGC
*
40323421 TCGGAGAGCCAGAATCTGTA
65 TCGGAGAGCCAGGATCTGTA
* * *
40323441 AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCAAATCTTCGACCTGCTCCACCATTGC
1 AATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGC-GATCTTCGACCTGCTCCACCACTGC
*
40323506 TCGGAGAGCCAGGATCGGTA
65 TCGGAGAGCCAGGATCTGTA
40323526 AATTTTAGCCTGTTACCCTACTACTTAG
1 AATTTTAGCCTGTTACCCTACTACTTAG
40323554 TAAAGATAAA
Statistics
Matches: 180, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 178 0.99
86 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (84 bp):
AATTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCGATCTTCGACCTGCTCCACCACTGCT
CGGAGAGCCAGGATCTGTA
Found at i:40323990 original size:133 final size:133
Alignment explanation
Indices: 40323556--40324931 Score: 1947
Period size: 133 Copynumber: 10.3 Consensus size: 133
40323546 CTACTTAGTA
* * * *
40323556 AAGATAAAGCTAATGATTGGAATCTGCTCCATCGTCAGTACGTGGAGATAAGATTCTCTAAAATT
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCTCCAAAATT
* * * *
40323621 CGATCTGCTTCACTCCTGCTTAATGAAGATAAGATCTGGTATATTTAGCCTGCTTCGCTCCTGCT
66 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGG--TATTTAGCCTGCTCCACTCCTGCT
40323686 CAGTG
129 CAGTG
* * ** * * * * * *
40323691 AAGATAAGGTTGGTGGCTGAAACCTGCTCCATTGCC-GATACATGGAGATAAGATTCACAAAAAT
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAG-TACGTGGAGATAAGATTCTCCAAAAT
* * * * * * *
40323755 TTGATCAGCTCCGCTCTTACTCAGCGAAGATAAGA-CATGGTATATTTAGCCTGCTCCACTCCTG
65 TCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATC-TGG--TATTTAGCCTGCTCCACTCCTG
40323819 CTCAGTG
127 CTCAGTG
*
40323826 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGTCAGTACGTGGAGATAAGATTCTCCAAAATT
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCTCCAAAATT
*
40323891 TGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
66 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
40323956 GTG
131 GTG
* * * * *
40323959 AAGATAAGGCTGATGATTGGAATTTGTTCCATCTCTAGTACATGGAGATAAGATTCTCCAAAATT
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCTCCAAAATT
40324024 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
66 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
40324089 GTG
131 GTG
* * *
40324092 AAGATAAGGCTTATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGCTAAGATTCTCTAAAATT
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCTCCAAAATT
40324157 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
66 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
40324222 GTG
131 GTG
* * *
40324225 AAGATAAGGCTTATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGCTAAGATTCTCTAAAATT
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCTCCAAAATT
*
40324290 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTTA
66 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
40324355 GTG
131 GTG
* *
40324358 AAGATAAGGCTTATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCTCCAAAATT
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCTCCAAAATT
*
40324423 TGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
66 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
40324488 GTG
131 GTG
* * * *
40324491 AAAATAAGGCTTATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGCTAAGATTCTCTAAAATT
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCTCCAAAATT
40324556 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
66 CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
40324621 GTG
131 GTG
* * * * *
40324624 AAGATAAGGCTTATGATTGGAATCTACGCCATTGCC-GATACATGGAGATAAGATTCAT-CAAAA
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAG-TACGTGGAGATAAGATTC-TCCAAAA
* ** ** * * *
40324687 TTTGATCTGCTTTGCTCCTGCTCAGCAAAGATAAGATCTAGTATATAGCCTACTCCACTCCTGCT
64 TTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCT
40324752 CAGTG
129 CAGTG
* * * * *
40324757 AAGATAAGGTTGGT-AGTTGAAATCTGCTCCATTGCC-GATACATGGAGATAAGATT-TACCAAA
1 AAGATAAGGCTGATGA-TTGGAATCTGCTCCATCGCCAG-TACGTGGAGATAAGATTCT-CCAAA
* * * * ** *
40324819 ATTTGATCTGCTCCGCTCATGCTCAACGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGC
63 ATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGC
*
40324884 TTAGTG
128 TCAGTG
*
40324890 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
1 AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACG
40324932 GATAAGGTTG
Statistics
Matches: 1129, Mismatches: 101, Indels: 24
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.00
132 2 0.00
133 929 0.82
134 5 0.00
135 190 0.17
136 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (133 bp):
AAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCAGTACGTGGAGATAAGATTCTCCAAAATT
CGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCA
GTG
Found at i:40324310 original size:90 final size:90
Alignment explanation
Indices: 40323938--40324589 Score: 266
Period size: 90 Copynumber: 7.3 Consensus size: 90
40323928 GGTATTTAGC
* * * * * *
40323938 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGATTGGAATTTGTTCCATCTCTAG-TACA
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTTATGATTGGAATCTGCTCCA-CGCCAGCTACG
* *
40324001 TGGAGATAAGATTCTCCAAAATTCGAT
65 TGAAGATAAGA-TCTCTAAAATTCGAT
* * ** * ** * *
40324028 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGT-ATT-TAGCCTGCTCCACTCCTGCT-CAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTTATGATTGGAATCTGCTCCACGCCAGCTAC-G
* ** *
40324090 TGAAGATAAG-GCT-TATGATTGGAAT
65 TGAAGATAAGATCTCTAAAATTCG-AT
* * * * * ** * * * *
40324115 CTGCTCCATCGCCAG-T-ACGTGGAGCTAAGATTCTCTAAAATTCG-ATCTGCTTCACTCCTGCT
1 CTGCTCCA-CTCCTGCTCA-GTGAAGATAAGA-GCT-TATGATTGGAATCTGCTCCACGCCAGCT
* * * *
40324177 -CAGTGAAGATAAGATCTGGT--ATTTAG-C
62 AC-GTGAAGATAAGATCT-CTAAAATTCGAT
40324204 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTTATGATTGGAATCTGCTCCATCGCCAG-TACG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTTATGATTGGAATCTGCTCCA-CGCCAGCTACG
* *
40324267 TGGAGCTAAGATTCTCTAAAATTCGAT
65 TGAAGATAAGA-TCTCTAAAATTCGAT
* * ** * ** * *
40324294 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGT-ATT-TAGCCTGCTCCACTCCTGCTTA-G
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTTATGATTGGAATCTGCTCCACGCCAGC-TACG
* ** *
40324356 TGAAGATAAG-GCT-TATGATTGGAAT
65 TGAAGATAAGATCTCTAAAATTCG-AT
* * * * * ** * * * *
40324381 CTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCTCCAAAATTTG-ATCTGCTTCACTCCTGCT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-GCT-TATGATTGGAATCTGCTCCACGCCAGCT
* * * *
40324443 -CAGTGAAGATAAGATCTGGT--ATTTAG-C
62 AC-GTGAAGATAAGATCT-CTAAAATTCGAT
*
40324470 CTGCTCCACTCCTGCTCAGTGAAAATAAG-GCTTATGATTGGAATCTGCTCCATCGCCAG-TACG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTTATGATTGGAATCTGCTCCA-CGCCAGCTACG
* *
40324533 TGGAGCTAAGATTCTCTAAAATTCGAT
65 TGAAGATAAGA-TCTCTAAAATTCGAT
*
40324560 CTGCTTCACTCCTGCTCAGTGAAGATAAGA
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGA
40324590 TCTGGTATTT
Statistics
Matches: 413, Mismatches: 102, Indels: 93
0.68 0.17 0.15
Matches are distributed among these distances:
86 26 0.06
87 93 0.23
88 39 0.09
89 82 0.20
90 154 0.37
91 17 0.04
93 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (90 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGAGCTTATGATTGGAATCTGCTCCACGCCAGCTACGT
GAAGATAAGATCTCTAAAATTCGAT
Found at i:40324947 original size:173 final size:173
Alignment explanation
Indices: 40324759--40325079 Score: 633
Period size: 173 Copynumber: 1.9 Consensus size: 173
40324749 GCTCAGTGAA
40324759 GATAAGGTTGGTAGTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCAAAATTTG
1 GATAAGGTTGGTAGTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCAAAATTTG
*
40324824 ATCTGCTCCGCTCATGCTCAACGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTTAGT
66 ATCTGCTCCGCTCATGCTCAACGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGT
40324889 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
131 GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
40324932 GATAAGGTTGGTAGTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCAAAATTTG
1 GATAAGGTTGGTAGTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCAAAATTTG
40324997 ATCTGCTCCGCTCATGCTCAACGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGT
66 ATCTGCTCCGCTCATGCTCAACGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGT
40325062 GAAGATAAGGCTGATGAT
131 GAAGATAAGGCTGATGAT
40325080 ATCTGTAATC
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 147 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (173 bp):
GATAAGGTTGGTAGTTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTTACCAAAATTTG
ATCTGCTCCGCTCATGCTCAACGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGT
GAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
Found at i:40341865 original size:30 final size:30
Alignment explanation
Indices: 40341805--40341867 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
40341795 TTAACAAAAT
40341805 AATTAATTTACTCTTTAATTTAATATATAAA
1 AATTAATTTACTCTTT-ATTTAATATATAAA
40341836 AATTAATTTACTCATTT-TTTAA-ATAATAAA
1 AATTAATTTACTC-TTTATTTAATAT-ATAAA
40341866 AA
1 AA
40341868 AATAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 2 0.07
30 12 0.40
31 13 0.43
32 3 0.10
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (30 bp):
AATTAATTTACTCTTTATTTAATATATAAA
Found at i:40354942 original size:27 final size:28
Alignment explanation
Indices: 40354858--40354955 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
40354848 CATGAGATTG
* * * *
40354858 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
40354887 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
40354915 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40354942 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
40354956 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40354966 original size:27 final size:27
Alignment explanation
Indices: 40354886--40354968 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
40354876 TAAATTGTAC
* *
40354886 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
40354914 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
40354941 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
40354968 A
1 A
40354969 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:40354969 original size:29 final size:27
Alignment explanation
Indices: 40354858--40354969 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
40354848 CATGAGATTG
** * *
40354858 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
40354887 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
40354915 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
40354942 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
40354970 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:40357991 original size:6 final size:6
Alignment explanation
Indices: 40357971--40358094 Score: 104
Period size: 6 Copynumber: 20.3 Consensus size: 6
40357961 ATATGAAAAC
* * * * *
40357971 AAAATA AACATA AAAAGA AAAATA ATAATA AACATA AAAAGA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* ** * * * *
40358019 ATAATA AACCTA AAAATA AACATA AAGAGA AAAATA AAAATA AAGATAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA-A-ATA
* *
40358069 AAAATA AAAATA AACATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
40358095 TGGATTCAAT
Statistics
Matches: 91, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
6 85 0.93
7 2 0.02
8 4 0.04
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:40358000 original size:24 final size:24
Alignment explanation
Indices: 40357973--40358043 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
40357963 ATGAAAACAA
40357973 AATAAACATAAAAAGAAAAATAAT
1 AATAAACATAAAAAGAAAAATAAT
40357997 AATAAACATAAAAAGAAAAATAAT
1 AATAAACATAAAAAGAAAAATAAT
* * *
40358021 AATAAACCTAAAAATAAACATAA
1 AATAAACATAAAAAGAAAAATAA
40358044 AGAGAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (24 bp):
AATAAACATAAAAAGAAAAATAAT
Found at i:40358069 original size:36 final size:36
Alignment explanation
Indices: 40357971--40358070 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 36
40357961 ATATGAAAAC
* * * *
40357971 AAAATAAACATAAAAAGAAAAATAATAATAAACATA
1 AAAAGAAAAATAAAAATAAAAATAAAAATAAACATA
* **
40358007 AAAAGAAAAATAATAATAAACCTAAAAATAAACATA
1 AAAAGAAAAATAAAAATAAAAATAAAAATAAACATA
* *
40358043 AAGAGAAAAATAAAAATAAAGATAAAAA
1 AAAAGAAAAATAAAAATAAAAATAAAAA
40358071 AATAAAAATA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (36 bp):
AAAAGAAAAATAAAAATAAAAATAAAAATAAACATA
Found at i:40358073 original size:20 final size:20
Alignment explanation
Indices: 40358030--40358088 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
40358020 TAATAAACCT
* *
40358030 AAAAATAAACATAAAG--AG
1 AAAAATAAAAATAAAGATAA
40358048 AAAAATAAAAATAAAGATAA
1 AAAAATAAAAATAAAGATAA
*
40358068 AAAAATAAAAATAAACATAA
1 AAAAATAAAAATAAAGATAA
40358088 A
1 A
40358089 GATAAATGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 15 0.42
20 21 0.58
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (20 bp):
AAAAATAAAAATAAAGATAA
Found at i:40362598 original size:41 final size:41
Alignment explanation
Indices: 40362476--40362632 Score: 129
Period size: 40 Copynumber: 3.8 Consensus size: 41
40362466 TTTTATCAAA
* * * *
40362476 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
*** * * * *
40362516 TCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
*
40362557 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATA-TCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGA-ACTCA-T
* * **
40362599 TAACTGGCATTATAGCCTGCTAGGCCCGAAGCCC
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAAGCCC
40362633 AATAATATTA
Statistics
Matches: 91, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
40 31 0.34
41 30 0.33
42 11 0.12
43 19 0.21
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (41 bp):
TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
Found at i:40362883 original size:28 final size:28
Alignment explanation
Indices: 40362795--40362901 Score: 124
Period size: 28 Copynumber: 3.8 Consensus size: 28
40362785 GAATCATTCG
* * *
40362795 ATATTTTGCACACGAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
40362823 ATATCTCACACACTAAGTGCCATTCTTA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
40362851 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
40362879 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
40362902 ATTTGATTGC
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:40371595 original size:19 final size:20
Alignment explanation
Indices: 40371558--40371595 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40371548 ATAAGGTGGT
40371558 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40371578 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40371596 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40375503 original size:50 final size:49
Alignment explanation
Indices: 40375428--40375611 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 49
40375418 TGAATACACG
* *
40375428 TGTGTAGCACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCA-AATGTTAAGTCGCA
* * * * *
40375478 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGATGAGGTCACG
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATG-TTAAGTCGCA
* * * * *
40375528 TGTGTAGTACTAAGTGTAGGCTAATACGTGTACCGGATTGTTGA-TCGCA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATC-AAATGTTAAGTCGCA
* *
40375577 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCA
40375612 GATAGCTTCG
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 36 0.33
50 71 0.65
51 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGTTAAGTCGCA
Found at i:40375608 original size:99 final size:100
Alignment explanation
Indices: 40375424--40375611 Score: 288
Period size: 100 Copynumber: 1.9 Consensus size: 100
40375414 ATTGTGAATA
* * *
40375424 CACGTGTGTAGCACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGCACTAAGTGTAGGCTAATACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
*
40375489 AAGTGCAGGCTACTACGTGTATCAAATGATGAGGT
66 AAGTGAAGGCTACTACGTGTATCAAATGATGAGGT
* * * *
40375524 CACGTGTGTAGTACTAAGTGTAGGCTAATACGTGTACCGGATTGTTGA-TCGCATGTGTAGTACT
1 CACGTGTGTAGCACTAAGTGTAGGCTAATACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
*
40375588 AAGTGAAGGCTACTATGTGTATCA
66 AAGTGAAGGCTACTACGTGTATCA
40375612 GATAGCTTCG
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
99 38 0.48
100 41 0.52
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (100 bp):
CACGTGTGTAGCACTAAGTGTAGGCTAATACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
AAGTGAAGGCTACTACGTGTATCAAATGATGAGGT
Found at i:40381664 original size:72 final size:72
Alignment explanation
Indices: 40381578--40381737 Score: 250
Period size: 72 Copynumber: 2.2 Consensus size: 72
40381568 GTGGGTCTGC
* * * *
40381578 ATACTGACTGTGTGTATAAACTCGTGAGTAACTCACTGAGCGAGCATATCATGTTAATGCTTTGG
1 ATACTGACTTTGTGTATAAACCCGTGAGAAACTCACTGAGCAAGCATATCATGTTAATGCTTTGG
40381643 GGTTC-G
66 GGTTCGG
40381649 AGTACTGACTTTGTGTATAAACCCGTGAGAAACTCACTGAGCAAGCATATCATGTTAATGCTTTG
1 A-TACTGACTTTGTGTATAAACCCGTGAGAAACTCACTGAGCAAGCATATCATGTTAATGCTTTG
40381714 GGGTTCGG
65 GGGTTCGG
* *
40381722 ATGCTGACATTGTGTA
1 ATACTGACTTTGTGTA
40381738 CAGATCCATG
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
71 1 0.01
72 78 0.96
73 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (72 bp):
ATACTGACTTTGTGTATAAACCCGTGAGAAACTCACTGAGCAAGCATATCATGTTAATGCTTTGG
GGTTCGG
Found at i:40382817 original size:17 final size:17
Alignment explanation
Indices: 40382795--40382828 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
40382785 GAATAAATTA
40382795 CTTATTTTTTTCATATG
1 CTTATTTTTTTCATATG
40382812 CTTATTTTTTTCATATG
1 CTTATTTTTTTCATATG
40382829 AACTTACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
CTTATTTTTTTCATATG
Found at i:40382834 original size:19 final size:18
Alignment explanation
Indices: 40382794--40382834 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
40382784 TGAATAAATT
40382794 ACTTATTTTTTTCATATG
1 ACTTATTTTTTTCATATG
40382812 -CTTATTTTTTTCATATG
1 ACTTATTTTTTTCATATG
40382829 AACTTA
1 -ACTTA
40382835 CTAAGCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.81
19 4 0.19
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (18 bp):
ACTTATTTTTTTCATATG
Found at i:40389582 original size:47 final size:46
Alignment explanation
Indices: 40389531--40389663 Score: 203
Period size: 46 Copynumber: 2.9 Consensus size: 46
40389521 GAATTATGAG
* *
40389531 GCATCCGAACTCGTTGAGTTGCATTCCGAGTTCACTTATGGATGCAA
1 GCATCCGAGCTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAA
* *
40389578 GCATCTGAGCTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCAA
1 GCATCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAA
* *
40389624 ACACCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 GCATCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
40389664 GTGAGATTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 48 0.62
47 30 0.38
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (46 bp):
GCATCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAA
Found at i:40392197 original size:20 final size:20
Alignment explanation
Indices: 40392156--40392197 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
40392146 AGCACATGTA
* *
40392156 TTAATAAAATTTTATAATTT
1 TTAATAAAATTTTACAACTT
*
40392176 TTAATCAAATTTTACAACTT
1 TTAATAAAATTTTACAACTT
40392196 TT
1 TT
40392198 CATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATAAAATTTTACAACTT
Found at i:40413232 original size:72 final size:72
Alignment explanation
Indices: 40413147--40413281 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 72
40413137 GCCAGCACCT
* * * *
40413147 GGACCCCAAAGCATTAACATGATATGCTGGCTCAACAAGTTACTCATGAGTTTATACACAAAATT
1 GGACCCCAAAGCATTAACACGATATGCTCGCTCAACAAGTTAATCACGAGTTTATACACAAAATT
40413212 AGTACTC
66 AGTACTC
*** *
40413219 GGACCCCAAAGCATTAACACGATATGCTCGCTCAGTGAGTTAATCACGGGTTTATACACAAAA
1 GGACCCCAAAGCATTAACACGATATGCTCGCTCAACAAGTTAATCACGAGTTTATACACAAAA
40413282 GTCAGTACCC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (72 bp):
GGACCCCAAAGCATTAACACGATATGCTCGCTCAACAAGTTAATCACGAGTTTATACACAAAATT
AGTACTC
Found at i:40422394 original size:238 final size:238
Alignment explanation
Indices: 40421976--40422451 Score: 889
Period size: 238 Copynumber: 2.0 Consensus size: 238
40421966 TGTAAACAAC
40421976 ATTAAATTGCTTAAAACAGCAATTATGTTACCTCATTTACTCATGAACTTACCTCGTATGCAAAA
1 ATTAAATTGCTTAAAACAGCAATTATGTTACCTCATTTACTCATGAACTTACCTCGTATGCAAAA
*
40422041 ATGATCATTTTTACCATTTTGTCCATAACTTGGTATTTTGCCGATTTTAGCCCGAATTTCGATTT
66 ATGATCATTTTTACCATTTTGTCCACAACTTGGTATTTTGCCGATTTTAGCCCGAATTTCGATTT
* *
40422106 TCCTTGCTCTATCATTTCAAATATAGCCTAATTAGGACTCATATTATTCAAATCAACCCAAAATC
131 TCCTTACTCTATCATTTCAAATATAGCCTAATTAGGACTCATATTATTCAAATCAACCAAAAATC
40422171 ATATTTTTGAAAAATTACAATTTTGACCCTAACTTTCACATGT
196 ATATTTTTGAAAAATTACAATTTTGACCCTAACTTTCACATGT
* **
40422214 ATTAAATTGCTTAAAATAGCAATTATGTTACCTCATTTACTCATGAACTTACCTCGTATGTGAAA
1 ATTAAATTGCTTAAAACAGCAATTATGTTACCTCATTTACTCATGAACTTACCTCGTATGCAAAA
40422279 ATGATCATTTTTACCATTTTGTCCACAACTTGGTATTTTGCCGATTTTAGCCCGAATTTCGATTT
66 ATGATCATTTTTACCATTTTGTCCACAACTTGGTATTTTGCCGATTTTAGCCCGAATTTCGATTT
40422344 TCCTTACTCTATCATTTCAAATATAGCCTAATTAGGACTCATATTATTCAAATCAACCAAAAATC
131 TCCTTACTCTATCATTTCAAATATAGCCTAATTAGGACTCATATTATTCAAATCAACCAAAAATC
*
40422409 CTATTTTTGAAAAATTACAATTTTGACCCTAACTTTCACATGT
196 ATATTTTTGAAAAATTACAATTTTGACCCTAACTTTCACATGT
40422452 CCCAAATCTC
Statistics
Matches: 231, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
238 231 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (238 bp):
ATTAAATTGCTTAAAACAGCAATTATGTTACCTCATTTACTCATGAACTTACCTCGTATGCAAAA
ATGATCATTTTTACCATTTTGTCCACAACTTGGTATTTTGCCGATTTTAGCCCGAATTTCGATTT
TCCTTACTCTATCATTTCAAATATAGCCTAATTAGGACTCATATTATTCAAATCAACCAAAAATC
ATATTTTTGAAAAATTACAATTTTGACCCTAACTTTCACATGT
Found at i:40424870 original size:43 final size:44
Alignment explanation
Indices: 40424791--40424946 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 44
40424781 TGTTTTATCA
* * * *
40424791 TGTAAGGCCACGT-TAGGACGTTGGCATCGATTTATGATTTACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTTACG
* * * *
40424834 TGTAAGACAAAGTCTAGGACATTGGCATAG-TATATGATTT-TG
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTTACG
* * * * *
40424876 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTTACG
* *
40424919 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT
40424947 TGTACGAGTT
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
42 27 0.30
43 50 0.55
44 14 0.15
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (44 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATATATGATTTACG
Found at i:40427089 original size:42 final size:42
Alignment explanation
Indices: 40427042--40427154 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 42
40427032 CAGAATTGGA
*
40427042 CACATGGGC-AGAGACACGGGCGTGTGTCTCAGCCGTGTGTGC
1 CACATGGCCTAGA-ACACGGGCGTGTGTCTCAGCCGTGTGTGC
* *
40427084 CACATGGCCTAGAACACGGGCATGTGTCTCAGTCGTGTGTGC
1 CACATGGCCTAGAACACGGGCGTGTGTCTCAGCCGTGTGTGC
* *
40427126 CACACGACCTAGAACACGGGCGTGTGTCT
1 CACATGGCCTAGAACACGGGCGTGTGTCT
40427155 TAGCTATGTG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 61 0.95
43 3 0.05
ACGTcount: A:0.19, C:0.27, G:0.33, T:0.20
Consensus pattern (42 bp):
CACATGGCCTAGAACACGGGCGTGTGTCTCAGCCGTGTGTGC
Found at i:40429191 original size:19 final size:20
Alignment explanation
Indices: 40429167--40429204 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40429157 GGTACCACCA
40429167 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40429186 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40429205 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40429500 original size:46 final size:46
Alignment explanation
Indices: 40429433--40429554 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
40429423 TGCCCGTAAG
* * *
40429433 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* * *
40429479 TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
40429525 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
40429555 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:40429573 original size:46 final size:45
Alignment explanation
Indices: 40429431--40429573 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
40429421 CCTGCCCGTA
* ** *
40429431 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* * ** **
40429476 AAATGAACTCGGACTCAACTCAACGAGTTCAGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
40429522 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
40429569 AGTGA
1 AGTGA
40429574 CATGTCACTT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
46 76 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:40436710 original size:19 final size:20
Alignment explanation
Indices: 40436686--40436723 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40436676 GGTACCACCA
40436686 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
40436705 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
40436724 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:40437070 original size:46 final size:46
Alignment explanation
Indices: 40436946--40437073 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
40436936 TAACCCGCCC
40436946 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * * *
40436994 CTCA-CGAACTCGGACTCAACTCAACAAGTTCGGA-C-ATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
40437037 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
40437074 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.41
47 28 0.41
48 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:40437092 original size:46 final size:45
Alignment explanation
Indices: 40436949--40437092 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
40436939 CCCGCCCCTA
40436949 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
40436996 CA-CGAACTCGGACTCAACTCAACAAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
40437042 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
40437088 AGTGA
1 AGTGA
40437093 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 30 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:40437530 original size:30 final size:30
Alignment explanation
Indices: 40437496--40437555 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
40437486 ATTTAATACG
40437496 AACTTTAAAAAAAGTACACTTTTGCCCCTA
1 AACTTTAAAAAAAGTACACTTTTGCCCCTA
*** * *
40437526 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAAGTACACTTTTGCCCCTA
40437556 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (30 bp):
AACTTTAAAAAAAGTACACTTTTGCCCCTA
Found at i:40440875 original size:46 final size:46
Alignment explanation
Indices: 40440825--40440997 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
40440815 TGGTTGAGCA
*
40440825 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
40440871 TCCGAACTCGTTGAGTTGAGTCCAAGTT-AGTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
40440918 TCCGAACTCGTTGAGTTGAGCCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * **
40440964 CCCGAGCTTATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40440998 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 56 0.55
47 26 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40440981 original size:93 final size:93
Alignment explanation
Indices: 40440822--40440991 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
40440812 GGATGGTTGA
* * * *
40440822 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
40440887 TGAGTCCAAGTTAGTGAGATGTAACTAG
66 TGAGTCCAAGTTAGTGAGATGTAACTAG
* * * *
40440915 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCATTTATGGATGCGAACGCCCGAGCTTATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
40440980 TGAGTCCGAGTT
66 TGAGTCCAAGTT
40440992 CACTTAGGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCAAGTTAGTGAGATGTAACTAG
Found at i:40448240 original size:47 final size:47
Alignment explanation
Indices: 40448171--40448326 Score: 162
Period size: 47 Copynumber: 3.3 Consensus size: 47
40448161 GGATGGTTGA
* *
40448171 GCATCCGAACTCATTGAGTTGAGTCCGAGTACGAGAGATATAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACGAGAGATGTAACTAG
* * * *
40448218 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-T-AC-GA-GAGATGTAACTAG
*
40448266 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTACGAGAGATGTAACTAG
40448311 GCATCC-AAGCTCGTTG
1 GCATCCGAA-CTCGTTG
40448327 TGAGTTCATT
Statistics
Matches: 88, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
42 1 0.01
43 7 0.08
44 1 0.01
45 3 0.03
46 27 0.31
47 37 0.42
48 3 0.03
49 2 0.02
50 6 0.07
51 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTACGAGAGATGTAACTAG
Found at i:40454003 original size:40 final size:39
Alignment explanation
Indices: 40453942--40454166 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 39
40453932 CTTGCACAAG
* * * *
40453942 GCCTTCGGGGCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTC-GGGCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
40453982 GCCTACGGGACTTTGCCCGGATATTGTCGCTAGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
40454022 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
40454062 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGG-CTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * *
40454102 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGG-GCTTAGCCCGGATATAGTC-GCTAGCACAAAT
40454143 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGG-CTTAGCCCGGATAT
40454167 CATTCGAATA
Statistics
Matches: 153, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.03
40 119 0.78
41 30 0.20
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:40454040 original size:80 final size:80
Alignment explanation
Indices: 40453906--40454166 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 80
40453896 CTCAAGAAAT
* * * * * * * * *
40453906 CTTCGGGATTTAG-CCGGATGTAACTACTTGCAC-AAGGCCTTCGGGGCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
40453969 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * * * * *
40453984 CTACGGGACTTTGCCCGGATATTGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
40454048 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
40454064 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
40454129 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
40454145 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
40454167 CATTCGAATA
Statistics
Matches: 147, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
78 10 0.07
79 14 0.10
80 90 0.61
81 33 0.22
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:40455913 original size:27 final size:27
Alignment explanation
Indices: 40455873--40455925 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
40455863 GTTAATTATT
*
40455873 TTTATGACTTGGTTTAGTGGTCCCGAC
1 TTTATGACTCGGTTTAGTGGTCCCGAC
40455900 TTTATGACTCGGTTTAGTGGTCCCGA
1 TTTATGACTCGGTTTAGTGGTCCCGA
40455926 AACCACTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.40
Consensus pattern (27 bp):
TTTATGACTCGGTTTAGTGGTCCCGAC
Found at i:40462213 original size:40 final size:40
Alignment explanation
Indices: 40462167--40462472 Score: 274
Period size: 40 Copynumber: 7.6 Consensus size: 40
40462157 CTTGCACAAG
* * * * *
40462167 GCCTTCGGGTCTTAGCCTGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
40462207 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
40462247 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
40462287 GCCTTCGGGTGTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * * *
40462327 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCAAAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * *
40462368 GCCTTCGTGACTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * * *
40462408 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCAAAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* *
40462449 GCCTTCGTGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
40462473 CATTCGAATA
Statistics
Matches: 213, Mismatches: 50, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.00
40 154 0.72
41 58 0.27
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Done.