Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 118 of 259
Found at i:38362923 original size:21 final size:21
Alignment explanation
Indices: 38362897--38362959 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
38362887 TTGGTATTTA
38362897 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
38362918 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
38362939 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
38362960 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:38363110 original size:10 final size:10
Alignment explanation
Indices: 38363095--38363156 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
38363085 TTTGAACCAT
*
38363095 TACCAATTCG
1 TACCAATTCA
*
38363105 TACCAAATACCA
1 TACC-AAT-TCA
*
38363117 TACCATTTCA
1 TACCAATTCA
38363127 TACCAATTCCA
1 TACCAATT-CA
* *
38363138 TACCATTTCG
1 TACCAATTCA
38363148 TACCAATTC
1 TACCAATTC
38363157 CTAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:38363140 original size:21 final size:21
Alignment explanation
Indices: 38363095--38363157 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
38363085 TTTGAACCAT
* *
38363095 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
38363117 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
38363138 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
38363158 TAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:38367975 original size:10 final size:10
Alignment explanation
Indices: 38367960--38368021 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
38367950 TTTGAACCAT
*
38367960 TACCAATTCG
1 TACCAATTCA
*
38367970 TACCAAATACCA
1 TACC-AAT-TCA
*
38367982 TACCATTTCA
1 TACCAATTCA
38367992 TACCAATTCCA
1 TACCAATT-CA
* *
38368003 TACCATTTCG
1 TACCAATTCA
38368013 TACCAATTC
1 TACCAATTC
38368022 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:38368005 original size:21 final size:21
Alignment explanation
Indices: 38367960--38368022 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
38367950 TTTGAACCAT
* *
38367960 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
38367982 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
38368003 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
38368023 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:38369630 original size:13 final size:13
Alignment explanation
Indices: 38369612--38369636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38369602 TGGTCATCAT
38369612 GGTGTGAACACAA
1 GGTGTGAACACAA
38369625 GGTGTGAACACA
1 GGTGTGAACACA
38369637 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:38370155 original size:10 final size:10
Alignment explanation
Indices: 38370142--38370179 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
38370132 TTGTAGCTAA
38370142 ATTGAGCTCG
1 ATTGAGCTCG
38370152 ATTGAGCT-G
1 ATTGAGCTCG
38370161 ACTTGAGCTCG
1 A-TTGAGCTCG
*
38370172 AGTGAGCT
1 ATTGAGCT
38370180 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:38370159 original size:20 final size:20
Alignment explanation
Indices: 38370119--38370179 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
38370109 ACCAATAAAA
38370119 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
38370139 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * *
38370159 TGACTTGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
38370179 T
1 T
38370180 GGAAACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.69
21 10 0.28
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:38370180 original size:20 final size:20
Alignment explanation
Indices: 38370143--38370180 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38370133 TGTAGCTAAA
*
38370143 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
38370163 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
38370181 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:38372272 original size:30 final size:30
Alignment explanation
Indices: 38372238--38372334 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38372228 TAAACTAAAA
*
38372238 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
38372268 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38372298 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38372327 ATGAGCTA
1 -TGAGCTA
38372335 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:38374495 original size:12 final size:12
Alignment explanation
Indices: 38374457--38374488 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
38374447 CACTCTCAAA
38374457 TTTC-TTTTCAT
1 TTTCTTTTTCAT
38374468 TTTCTTTTTCAT
1 TTTCTTTTTCAT
38374480 TTTCTTTTT
1 TTTCTTTTT
38374489 GCTTTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTTTCAT
Found at i:38374586 original size:6 final size:6
Alignment explanation
Indices: 38374570--38374619 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
38374560 TTTCTTTTTA
*
38374570 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
38374619 T
1 T
38374620 ATTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:38374602 original size:37 final size:37
Alignment explanation
Indices: 38374559--38374629 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
38374549 CTTGCCTCTC
38374559 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTATT-TTCTCTTGCT
*
38374596 TTTTCTTTTTCTTTTCTTTTCTTTATTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTATTTTCTCTT
38374630 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTATTTTCTCTTGCT
Found at i:38375532 original size:11 final size:12
Alignment explanation
Indices: 38375518--38375554 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
38375508 TTTTTTTTCC
38375518 TTTTTTTCG-AT
1 TTTTTTTCGAAT
38375529 TTTTTTT-GAAT
1 TTTTTTTCGAAT
38375540 TTTTTTTCTGAAT
1 TTTTTTTC-GAAT
38375553 TT
1 TT
38375555 CTTCTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.04
11 16 0.70
13 6 0.26
ACGTcount: A:0.14, C:0.05, G:0.08, T:0.73
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:38375651 original size:12 final size:12
Alignment explanation
Indices: 38375634--38375681 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
38375624 CAACTCAAAA
38375634 ATTTTTTTTTTG
1 ATTTTTTTTTTG
38375646 ATTTTTTTTTTG
1 ATTTTTTTTTTG
*
38375658 ACTTCCTTTTTTTTT
1 A-TT--TTTTTTTTG
38375673 ATTTTTTTT
1 ATTTTTTTT
38375682 CGTTACGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 19 0.59
13 2 0.06
14 2 0.06
15 9 0.28
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.81
Consensus pattern (12 bp):
ATTTTTTTTTTG
Found at i:38377296 original size:30 final size:30
Alignment explanation
Indices: 38377262--38377358 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38377252 TAAACTAAAA
*
38377262 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
38377292 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38377322 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38377351 ATGAGCTA
1 -TGAGCTA
38377359 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:38382308 original size:15 final size:14
Alignment explanation
Indices: 38382288--38382335 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
38382278 CTCATTTTCA
38382288 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
38382303 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
*
38382317 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTT
38382332 TCTT
1 TCTT
38382336 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:38382340 original size:22 final size:21
Alignment explanation
Indices: 38382288--38382346 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
38382278 CTCATTTTCA
* *
38382288 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
38382309 TCTTTTTCTCTCATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
38382330 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
38382347 ATTCAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:38389749 original size:20 final size:20
Alignment explanation
Indices: 38389726--38389772 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38389716 GGGTTAAAAT
*
38389726 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
38389746 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
38389766 TGAGCTG
1 TGAGCTG
38389773 GAAACGAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:38392616 original size:10 final size:9
Alignment explanation
Indices: 38392603--38392637 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
38392593 ACTTTTCACT
38392603 TTTTTTGTTC
1 TTTTTT-TTC
*
38392613 TTTTTTTAC
1 TTTTTTTTC
38392622 TTTTTTTTC
1 TTTTTTTTC
38392631 TTTTTTT
1 TTTTTTT
38392638 GCTCACTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:38394193 original size:20 final size:20
Alignment explanation
Indices: 38394170--38394216 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38394160 GGGTTAAAAT
*
38394170 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
38394190 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
38394210 TGAGCTG
1 TGAGCTG
38394217 GAAACGAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:38397058 original size:10 final size:9
Alignment explanation
Indices: 38397045--38397080 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
38397035 CTTTTCACTT
38397045 TTTTTTGTTC
1 TTTTTT-TTC
38397055 TTTTTTTTAC
1 TTTTTTTT-C
38397065 TTTTTTTTC
1 TTTTTTTTC
38397074 TTTTTTT
1 TTTTTTT
38397081 GCTCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:38397066 original size:22 final size:21
Alignment explanation
Indices: 38397036--38397099 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
38397026 CTCACAAGAC
*
38397036 TTTTCACTTTTTTTTGTTCTTT
1 TTTTCACTTTTTTTTCTT-TTT
*
38397058 TTTTTACTTTTTTTTCTTTTT
1 TTTTCACTTTTTTTTCTTTTT
* *
38397079 TTGCTCACTTCTTTTT-TTTTT
1 TT-TTCACTTTTTTTTCTTTTT
38397100 GAATTTTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTCACTTTTTTTTCTTTTT
Found at i:38398629 original size:20 final size:20
Alignment explanation
Indices: 38398606--38398652 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38398596 GGGTTAAAAT
*
38398606 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
38398626 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
38398646 TGAGCTG
1 TGAGCTG
38398653 GAAACGAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:38401492 original size:11 final size:10
Alignment explanation
Indices: 38401476--38401514 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
38401466 AGACTTTTCA
38401476 CTTTTTTTGTT
1 CTTTTTTT-TT
*
38401487 CTTTTTTTTA
1 CTTTTTTTTT
38401497 CTTTTTTTTT
1 CTTTTTTTTT
38401507 CTTTTTTT
1 CTTTTTTT
38401515 GCTCACTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:38401522 original size:23 final size:21
Alignment explanation
Indices: 38401470--38401530 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 21
38401460 CTCACAAGAC
38401470 TTTTCACTTTTTTTGTTCTTTT
1 TTTTCACTTTTTTT-TTCTTTT
38401492 TTTT-ACTTTTTTTTTCTTTT
1 TTTTCACTTTTTTTTTCTTTT
38401512 TTTGCTCACTTCTTTTTTT
1 TTT--TCACTT-TTTTTTT
38401531 TTGAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.29
21 9 0.26
22 5 0.14
23 4 0.11
24 7 0.20
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (21 bp):
TTTTCACTTTTTTTTTCTTTT
Found at i:38403064 original size:20 final size:20
Alignment explanation
Indices: 38403041--38403087 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38403031 GGGTTAAAAT
*
38403041 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
38403061 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
38403081 TGAGCTG
1 TGAGCTG
38403088 GAAACGAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:38407132 original size:30 final size:30
Alignment explanation
Indices: 38407098--38407194 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38407088 TAAACTAAAA
*
38407098 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
38407128 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38407158 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38407187 ATGAGCTA
1 -TGAGCTA
38407195 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:38409253 original size:12 final size:12
Alignment explanation
Indices: 38409225--38409274 Score: 82
Period size: 12 Copynumber: 4.0 Consensus size: 12
38409215 ATAGGTGCGT
38409225 AAAAAAAAAGTTCG
1 AAAAAAAAA-TT-G
38409239 AAAAAAAAATTG
1 AAAAAAAAATTG
38409251 AAAAAAAAATTG
1 AAAAAAAAATTG
38409263 AAAAAAAAATTG
1 AAAAAAAAATTG
38409275 TATACGGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
12 25 0.69
13 2 0.06
14 9 0.25
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.16
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:38410465 original size:17 final size:18
Alignment explanation
Indices: 38410433--38410466 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38410423 AAAAGAGAGT
*
38410433 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
38410451 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
38410467 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:38415408 original size:13 final size:13
Alignment explanation
Indices: 38415372--38415408 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
38415362 TTGTAGATTC
*
38415372 AAAAAAAAAATCG
1 AAAAAAAAAATTG
38415385 -AAAAAAAAATTG
1 AAAAAAAAAATTG
38415397 AAAAAAAAAATT
1 AAAAAAAAAATT
38415409 TGCATACGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (13 bp):
AAAAAAAAAATTG
Found at i:38420127 original size:20 final size:20
Alignment explanation
Indices: 38420081--38420127 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38420071 AGCTTGTTTC
*
38420081 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
38420101 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38420121 CAGCTCA
1 CAGCTCA
38420128 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38421670 original size:24 final size:25
Alignment explanation
Indices: 38421643--38421691 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
38421633 AGAAGTGAGC
* *
38421643 AAAAAAAGAAAAAAAAAGTA-AAAG
1 AAAAAAACAAAAAAAAAGTGAAAAG
*
38421667 AAAAGAACAAAAAAAAAGTGAAAAG
1 AAAAAAACAAAAAAAAAGTGAAAAG
38421692 TATTGCGAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAAAACAAAAAAAAAGTGAAAAG
Found at i:38421681 original size:16 final size:16
Alignment explanation
Indices: 38421627--38421681 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
38421617 AAATTCAAAA
** *
38421627 AAAAAAAGAAGTGAGC
1 AAAAAAAGAAAAGAAC
38421643 AAAAAAAGAAAA-AA-
1 AAAAAAAGAAAAGAAC
38421657 AAAGTAAAAGAAAAGAAC
1 AAA--AAAAGAAAAGAAC
38421675 AAAAAAA
1 AAAAAAA
38421682 AAGTGAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 3 0.09
15 1 0.03
16 23 0.72
17 2 0.06
18 3 0.09
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAAAAAGAAAAGAAC
Found at i:38422788 original size:48 final size:47
Alignment explanation
Indices: 38422709--38422814 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
38422699 GAGTGTCATG
*
38422709 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
38422757 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
38422805 GAAAAAGAAA
1 GAAAAAGAAA
38422815 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:38424531 original size:20 final size:20
Alignment explanation
Indices: 38424485--38424531 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38424475 AGCTTGTTTC
*
38424485 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
38424505 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
38424525 CAGCTCA
1 CAGCTCA
38424532 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:38428594 original size:29 final size:29
Alignment explanation
Indices: 38428561--38428620 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
38428551 ATAACCAAAC
*
38428561 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
38428590 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
38428619 CT
1 CT
38428621 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:38428613 original size:15 final size:15
Alignment explanation
Indices: 38428567--38428614 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
38428557 AAACCTACAA
*
38428567 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
38428582 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
38428596 AAACTTCATATCCAT
1 AAACTTCATATCCAT
38428611 AAAC
1 AAAC
38428615 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:38429967 original size:18 final size:18
Alignment explanation
Indices: 38429944--38429993 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
38429934 GAAAGACAAA
*
38429944 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
38429962 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
38429980 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
38429994 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:38429970 original size:24 final size:24
Alignment explanation
Indices: 38429941--38430018 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
38429931 AATGAAAGAC
* *
38429941 AAAGAAAAAGAGATTGAGAGTGAA
1 AAAGAAAAAGAGATTGAGAGAGAG
* * *
38429965 AAAGAAAATGAGATTGAAAAAGAG
1 AAAGAAAAAGAGATTGAGAGAGAG
* *
38429989 AATGAAAAAGAGTTTGAGAGAGAG
1 AAAGAAAAAGAGATTGAGAGAGAG
38430013 AAAGAA
1 AAAGAA
38430019 TGTGAACAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (24 bp):
AAAGAAAAAGAGATTGAGAGAGAG
Found at i:38430913 original size:30 final size:30
Alignment explanation
Indices: 38430879--38430975 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38430869 AGCTCACTCC
38430879 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
38430909 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
38430939 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
38430969 TAGCTCA
1 TAGCTCA
38430976 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:38432000 original size:7 final size:7
Alignment explanation
Indices: 38431988--38432017 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
38431978 ATTTGTAAGG
38431988 GACTTTT
1 GACTTTT
38431995 GACTTTT
1 GACTTTT
38432002 GACTTTT
1 GACTTTT
38432009 GACTTTT
1 GACTTTT
38432016 GA
1 GA
38432018 TCATTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (7 bp):
GACTTTT
Found at i:38432707 original size:11 final size:11
Alignment explanation
Indices: 38432687--38432725 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
38432677 AGAGAAGAGG
*
38432687 AAATTTAAAAA
1 AAATTCAAAAA
38432698 AAATTCAAAAAA
1 AAATTC-AAAAA
38432710 AAATTCAAAAA
1 AAATTCAAAAA
38432721 AAATT
1 AAATT
38432726 TTTTTTGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:38432710 original size:12 final size:12
Alignment explanation
Indices: 38432693--38432723 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38432683 GAGGAAATTT
38432693 AAAAAAAATTCA
1 AAAAAAAATTCA
38432705 AAAAAAAATTCA
1 AAAAAAAATTCA
38432717 AAAAAAA
1 AAAAAAA
38432724 TTTTTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:38433682 original size:37 final size:37
Alignment explanation
Indices: 38433631--38433701 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
38433621 CATTCTTGTA
38433631 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
38433668 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
38433702 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:38433701 original size:6 final size:6
Alignment explanation
Indices: 38433641--38433690 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
38433631 AAGAGAAAAC
*
38433641 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
38433690 A
1 A
38433691 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:38433783 original size:11 final size:12
Alignment explanation
Indices: 38433751--38433781 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38433741 TTGAGAGAAC
38433751 TTGAAAAAGCCT
1 TTGAAAAAGCCT
38433763 TTGAAAAAGCCT
1 TTGAAAAAGCCT
38433775 TTGAAAA
1 TTGAAAA
38433782 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:38433933 original size:11 final size:12
Alignment explanation
Indices: 38433901--38433931 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38433891 TTGAGAGAAC
38433901 TTGAAAAAGCCT
1 TTGAAAAAGCCT
38433913 TTGAAAAAGCCT
1 TTGAAAAAGCCT
38433925 TTGAAAA
1 TTGAAAA
38433932 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:38433946 original size:150 final size:150
Alignment explanation
Indices: 38433675--38433990 Score: 623
Period size: 150 Copynumber: 2.1 Consensus size: 150
38433665 AGCAAGAGAA
38433675 GAAAAAGAAAATGAAATAAAAAGAAAAGAGAGGCAAGAGGCAAGTAAGAGAGAAAATGAGCGAAT
1 GAAAAAGAAAATGAAATAAAAAGAAAAGAGAGGCAAGAGGCAAGTAAGAGAGAAAATGAGCGAAT
38433740 CTTGAGAGAACTTGAAAAAGCCTTTGAAAAAGCCTTTGAAAAGCAAAAAGAAAATGAAAAAGGAA
66 CTTGAGAGAACTTGAAAAAGCCTTTGAAAAAGCCTTTGAAAAGCAAAAAGAAAATGAAAAAGGAA
38433805 ATGAAAAGAAATTTGAGAGT
131 ATGAAAAGAAATTTGAGAGT
38433825 GAAAAAGAAAATGAAATAAAAAGAAAAGAGAGGCAAGAGGCAAGTAAGAGAGAAAATGAGCGAAT
1 GAAAAAGAAAATGAAATAAAAAGAAAAGAGAGGCAAGAGGCAAGTAAGAGAGAAAATGAGCGAAT
38433890 CTTGAGAGAACTTGAAAAAGCCTTTGAAAAAGCCTTTGAAAAGCAAAAAGAAAATGAAAAAGGAA
66 CTTGAGAGAACTTGAAAAAGCCTTTGAAAAAGCCTTTGAAAAGCAAAAAGAAAATGAAAAAGGAA
38433955 ATGAAAAGAAATTTGAGAGT
131 ATGAAAAGAAATTTGAGAGT
*
38433975 GAAAAAGAAGATGAAA
1 GAAAAAGAAAATGAAA
38433991 AAGAAATTGA
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 165 1.00
ACGTcount: A:0.56, C:0.06, G:0.24, T:0.14
Consensus pattern (150 bp):
GAAAAAGAAAATGAAATAAAAAGAAAAGAGAGGCAAGAGGCAAGTAAGAGAGAAAATGAGCGAAT
CTTGAGAGAACTTGAAAAAGCCTTTGAAAAAGCCTTTGAAAAGCAAAAAGAAAATGAAAAAGGAA
ATGAAAAGAAATTTGAGAGT
Found at i:38436146 original size:30 final size:30
Alignment explanation
Indices: 38436112--38436208 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38436102 AGCTCACTCC
38436112 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
38436142 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
38436172 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
38436202 TAGCTCA
1 TAGCTCA
38436209 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:38437233 original size:7 final size:7
Alignment explanation
Indices: 38437221--38437250 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
38437211 ATTTGTAAGG
38437221 GACTTTT
1 GACTTTT
38437228 GACTTTT
1 GACTTTT
38437235 GACTTTT
1 GACTTTT
38437242 GACTTTT
1 GACTTTT
38437249 GA
1 GA
38437251 TCATTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (7 bp):
GACTTTT
Found at i:38438102 original size:21 final size:22
Alignment explanation
Indices: 38438063--38438106 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
38438053 ATGCATACTC
38438063 CTTCAAGCTCAAATCAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
* *
38438085 CTTCAA-CTCAACTTAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
38438106 C
1 C
38438107 GAGCTCGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.25
Consensus pattern (22 bp):
CTTCAAGCTCAAATCAGCTCAA
Found at i:38440903 original size:11 final size:11
Alignment explanation
Indices: 38440852--38440891 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
38440842 TTGTAGATTC
*
38440852 AAAAAAATTGA
1 AAAAAAATCGA
38440863 AAAAAAATCGA
1 AAAAAAATCGA
38440874 AAAAAAATCGA
1 AAAAAAATCGA
38440885 AAAAAAA
1 AAAAAAA
38440892 ATTTGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (11 bp):
AAAAAAATCGA
Found at i:38440909 original size:13 final size:11
Alignment explanation
Indices: 38440852--38440904 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
38440842 TTGTAGATTC
38440852 AAAAAAATTGA
1 AAAAAAATTGA
*
38440863 AAAAAAATCGA
1 AAAAAAATTGA
*
38440874 AAAAAAATCGAA
1 AAAAAAATTG-A
38440886 AAAAAAATTTGA
1 AAAAAAA-TTGA
38440898 AAAAAAA
1 AAAAAAA
38440905 ATTTGCATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
11 20 0.53
12 16 0.42
13 2 0.05
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.13
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:38449225 original size:14 final size:14
Alignment explanation
Indices: 38449206--38449250 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
38449196 AACTCATCGT
*
38449206 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
38449220 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
38449233 AATTTAATTTAATG
1 AGTTTAATTTAATG
38449247 AGTT
1 AGTT
38449251 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:38451748 original size:30 final size:30
Alignment explanation
Indices: 38451714--38451810 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
38451704 TAAACTAAAA
*
38451714 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
38451744 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
*
38451774 TGAGCTAAGGTTTAGCTCGGGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38451803 ATGAGCTA
1 -TGAGCTA
38451811 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:38452059 original size:29 final size:29
Alignment explanation
Indices: 38452026--38452085 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
38452016 ATAACCAAAC
*
38452026 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
38452055 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
38452084 CT
1 CT
38452086 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:38452078 original size:15 final size:15
Alignment explanation
Indices: 38452032--38452079 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
38452022 AAACCTACAA
*
38452032 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
38452047 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
38452061 AAACTTCATATCCAT
1 AAACTTCATATCCAT
38452076 AAAC
1 AAAC
38452080 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:38458305 original size:12 final size:12
Alignment explanation
Indices: 38458288--38458312 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38458278 GGAATTTTAG
38458288 ACCATTTAAATA
1 ACCATTTAAATA
38458300 ACCATTTAAATA
1 ACCATTTAAATA
38458312 A
1 A
38458313 GTTTCATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ACCATTTAAATA
Found at i:38460529 original size:12 final size:12
Alignment explanation
Indices: 38460498--38460572 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 12
38460488 TTGGAGTAAC
*
38460498 AAAAAAAA-TCA
1 AAAAAAAATTCG
38460509 AAAAAAAATTCG
1 AAAAAAAATTCG
*
38460521 AAAAAAAATTGATTG
1 AAAAAAAA-T--TCG
*
38460536 AAAAAACAATTCA
1 AAAAAA-AATTCG
*
38460549 AAAAAAAAGT-G
1 AAAAAAAATTCG
*
38460560 AAAAAAAAATCG
1 AAAAAAAATTCG
38460572 A
1 A
38460573 GCAAAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
11 17 0.33
12 15 0.29
13 8 0.16
15 9 0.18
16 2 0.04
ACGTcount: A:0.71, C:0.07, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:38460567 original size:28 final size:28
Alignment explanation
Indices: 38460508--38460620 Score: 88
Period size: 28 Copynumber: 4.0 Consensus size: 28
38460498 AAAAAAAATC
* * **
38460508 AAAAAAA-AATTCGAAAAAAAATTGATT
1 AAAAAAACAATTCAAAAAAAAAGTGAAA
*
38460535 GAAAAAACAATTCAAAAAAAAAGTGAAA
1 AAAAAAACAATTCAAAAAAAAAGTGAAA
* * * *
38460563 AAAAAATCGA-GCAAAAAAAAAGGTGACCA
1 AAAAAAACAATTCAAAAAAAAA-GTGA-AA
*
38460592 AAAAAATCAAGTT-AAAAAAAAAGTGAAA
1 AAAAAAACAA-TTCAAAAAAAAAGTGAAA
38460620 A
1 A
38460621 GTCTTGCGAG
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
27 16 0.24
28 29 0.43
29 14 0.21
30 9 0.13
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.13
Consensus pattern (28 bp):
AAAAAAACAATTCAAAAAAAAAGTGAAA
Found at i:38460580 original size:40 final size:38
Alignment explanation
Indices: 38460498--38460583 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 38
38460488 TTGGAGTAAC
* *
38460498 AAAAAAAATCAAAAAAAAATTCGAAAAAAAATTGATTG-A
1 AAAAAAAATCAAAAAAAAAGTCGAAAAAAAATCGA--GCA
*
38460537 AAAAACAATTCAAAAAAAAAGT-GAAAAAAAAATCGAGCA
1 AAAAA-AAATCAAAAAAAAAGTCG-AAAAAAAATCGAGCA
38460576 AAAAAAAA
1 AAAAAAAA
38460584 GGTGACCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
38 3 0.08
39 12 0.30
40 25 0.62
ACGTcount: A:0.72, C:0.07, G:0.08, T:0.13
Consensus pattern (38 bp):
AAAAAAAATCAAAAAAAAAGTCGAAAAAAAATCGAGCA
Found at i:38461668 original size:17 final size:18
Alignment explanation
Indices: 38461636--38461669 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38461626 AAAAGAGAGT
*
38461636 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
38461654 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
38461670 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:38464267 original size:10 final size:10
Alignment explanation
Indices: 38464252--38464289 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
38464242 GCTCGTTTCC
*
38464252 AGCTCACTCG
1 AGCTCAATCG
38464262 AGCTCAAGTC-
1 AGCTCAA-TCG
38464272 AGCTCAATCG
1 AGCTCAATCG
38464282 AGCTCAAT
1 AGCTCAAT
38464290 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:38464295 original size:20 final size:20
Alignment explanation
Indices: 38464251--38464288 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38464241 AGCTCGTTTC
*
38464251 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
38464271 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
38464289 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:38466040 original size:14 final size:13
Alignment explanation
Indices: 38466021--38466059 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
38466011 TTGGAGTAAC
*
38466021 AAAAAAAAAGTTCG
1 AAAAAAAAAATT-G
38466035 AAAAAAAAAATTG
1 AAAAAAAAAATTG
38466048 AAAAAAAAAATT
1 AAAAAAAAAATT
38466060 TGCATACGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAAAAAAAATTG
Found at i:38470777 original size:11 final size:13
Alignment explanation
Indices: 38470751--38470782 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
38470741 GGAGTAACAA
38470751 AAAAAAAAGTTCG
1 AAAAAAAAGTTCG
38470764 AAAAAAAA-TT-G
1 AAAAAAAAGTTCG
38470775 AAAAAAAA
1 AAAAAAAA
38470783 AATTTGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 2 0.11
13 8 0.42
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAAAAAAGTTCG
Found at i:38471883 original size:18 final size:18
Alignment explanation
Indices: 38471845--38471883 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
38471835 AAATCGAAAG
* **
38471845 AAAAGAAAAAGAGATTGA
1 AAAAGAAAAAGAAATCCA
38471863 AAAAGAAAAAGAAATCCA
1 AAAAGAAAAAGAAATCCA
38471881 AAA
1 AAA
38471884 GAGAGTGAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCCA
Found at i:38473594 original size:10 final size:10
Alignment explanation
Indices: 38473579--38473616 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
38473569 GCTCGTTTCC
*
38473579 AGCTCACTCG
1 AGCTCAATCG
38473589 AGCTCAAGTC-
1 AGCTCAA-TCG
38473599 AGCTCAATCG
1 AGCTCAATCG
38473609 AGCTCAAT
1 AGCTCAAT
38473617 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:38473622 original size:20 final size:20
Alignment explanation
Indices: 38473578--38473615 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38473568 AGCTCGTTTC
*
38473578 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
38473598 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
38473616 TTTAGCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:38475858 original size:20 final size:20
Alignment explanation
Indices: 38475835--38475880 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
38475825 CCAGCTCGAA
*
38475835 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
38475855 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
38475875 TTAGCT
1 TTAGCT
38475881 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:38475862 original size:30 final size:30
Alignment explanation
Indices: 38475827--38475900 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
38475817 AGTTTTTCCC
38475827 AGCTCGAATT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-ATTGAGCTCA-ATTGAGCTTAATTT
* * *
38475857 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGATTGAGCTCAATTGAGCTTAATTT
*
38475887 AGCTCGTTTGAGCT
1 AGCTCGATTGAGCT
38475901 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (30 bp):
AGCTCGATTGAGCTCAATTGAGCTTAATTT
Found at i:38477542 original size:13 final size:13
Alignment explanation
Indices: 38477482--38477546 Score: 69
Period size: 13 Copynumber: 4.7 Consensus size: 13
38477472 ATTGGAGTAA
38477482 CAAAAAAAAAA-T
1 CAAAAAAAAAATT
38477494 CAAAAAAAAAATT
1 CAAAAAAAAAATT
38477507 CGAAAAAAAAAATTGATT
1 C--AAAAAAAAA---ATT
*
38477525 GAAAAAAAAAATT
1 CAAAAAAAAAATT
38477538 CAAAAAAAA
1 CAAAAAAAA
38477547 TGTGAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 11 0.24
13 13 0.29
15 9 0.20
16 9 0.20
18 3 0.07
ACGTcount: A:0.75, C:0.06, G:0.05, T:0.14
Consensus pattern (13 bp):
CAAAAAAAAAATT
Found at i:38477556 original size:14 final size:13
Alignment explanation
Indices: 38477483--38477558 Score: 59
Period size: 12 Copynumber: 5.6 Consensus size: 13
38477473 TTGGAGTAAC
*
38477483 AAAAAAAAAA-TC
1 AAAAAAAAAATTG
38477495 AAAAAAAAAATTCG
1 AAAAAAAAAATT-G
38477509 AAAAAAAAAATTGATTG
1 -AAAAAAAAA---ATTG
38477526 AAAAAAAAAATT-
1 AAAAAAAAAATTG
*
38477538 -CAAAAAAAATGTG
1 AAAAAAAAAAT-TG
38477551 AAAAAAAA
1 AAAAAAAA
38477559 TCGAGCAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
11 9 0.17
12 11 0.21
13 4 0.08
14 6 0.12
15 9 0.17
16 9 0.17
17 1 0.02
18 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAAAAAAATTG
Found at i:38481816 original size:22 final size:23
Alignment explanation
Indices: 38481791--38481850 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
38481781 TGGACTGAAT
38481791 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
38481813 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
38481835 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
38481851 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:38481818 original size:4 final size:4
Alignment explanation
Indices: 38481800--38481833 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
38481790 TATAAAAATT
38481800 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
38481834 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:38483085 original size:13 final size:13
Alignment explanation
Indices: 38483067--38483091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38483057 TGGTCATCAT
38483067 GGTGTGAACACAA
1 GGTGTGAACACAA
38483080 GGTGTGAACACA
1 GGTGTGAACACA
38483092 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:38483328 original size:13 final size:13
Alignment explanation
Indices: 38483310--38483334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38483300 TGGTCATCAT
38483310 GGTGTGAACACAA
1 GGTGTGAACACAA
38483323 GGTGTGAACACA
1 GGTGTGAACACA
38483335 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:38483424 original size:243 final size:243
Alignment explanation
Indices: 38482996--38483480 Score: 970
Period size: 243 Copynumber: 2.0 Consensus size: 243
38482986 CTTCATGAAG
38482996 GATCAAACTTGGTGTGAACAAGGAGCTTGAGTAGACTCTTGTGTGTGAACATCCAACTGAATGGT
1 GATCAAACTTGGTGTGAACAAGGAGCTTGAGTAGACTCTTGTGTGTGAACATCCAACTGAATGGT
38483061 CATCATGGTGTGAACACAAGGTGTGAACACATGATCAATACATGAACCGTCCAATGCATGGTCCA
66 CATCATGGTGTGAACACAAGGTGTGAACACATGATCAATACATGAACCGTCCAATGCATGGTCCA
38483126 TCATTAATTTGATCCATGAATCTTCAAATACATGAATGACCATCATGAACATGCAAATGCCTCTT
131 TCATTAATTTGATCCATGAATCTTCAAATACATGAATGACCATCATGAACATGCAAATGCCTCTT
38483191 GATTGCCGTCCATTGAACCTTTCTATGCATGCACCTTGCATTAATTCA
196 GATTGCCGTCCATTGAACCTTTCTATGCATGCACCTTGCATTAATTCA
38483239 GATCAAACTTGGTGTGAACAAGGAGCTTGAGTAGACTCTTGTGTGTGAACATCCAACTGAATGGT
1 GATCAAACTTGGTGTGAACAAGGAGCTTGAGTAGACTCTTGTGTGTGAACATCCAACTGAATGGT
38483304 CATCATGGTGTGAACACAAGGTGTGAACACATGATCAATACATGAACCGTCCAATGCATGGTCCA
66 CATCATGGTGTGAACACAAGGTGTGAACACATGATCAATACATGAACCGTCCAATGCATGGTCCA
38483369 TCATTAATTTGATCCATGAATCTTCAAATACATGAATGACCATCATGAACATGCAAATGCCTCTT
131 TCATTAATTTGATCCATGAATCTTCAAATACATGAATGACCATCATGAACATGCAAATGCCTCTT
38483434 GATTGCCGTCCATTGAACCTTTCTATGCATGCACCTTGCATTAATTC
196 GATTGCCGTCCATTGAACCTTTCTATGCATGCACCTTGCATTAATTC
38483481 CTTACATGCA
Statistics
Matches: 242, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
243 242 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (243 bp):
GATCAAACTTGGTGTGAACAAGGAGCTTGAGTAGACTCTTGTGTGTGAACATCCAACTGAATGGT
CATCATGGTGTGAACACAAGGTGTGAACACATGATCAATACATGAACCGTCCAATGCATGGTCCA
TCATTAATTTGATCCATGAATCTTCAAATACATGAATGACCATCATGAACATGCAAATGCCTCTT
GATTGCCGTCCATTGAACCTTTCTATGCATGCACCTTGCATTAATTCA
Found at i:38483922 original size:120 final size:120
Alignment explanation
Indices: 38483709--38483949 Score: 482
Period size: 120 Copynumber: 2.0 Consensus size: 120
38483699 AAATTTAGAC
38483709 AAACTAAATAAAATCAAGACATCTTTAATTTAACTAGATCAAGACAAATTAATTAACTCAACTTA
1 AAACTAAATAAAATCAAGACATCTTTAATTTAACTAGATCAAGACAAATTAATTAACTCAACTTA
38483774 TTAATGCCGAAAATAATAAGACACATTAAATGACTTAAAGGCACAATTAACACCT
66 TTAATGCCGAAAATAATAAGACACATTAAATGACTTAAAGGCACAATTAACACCT
38483829 AAACTAAATAAAATCAAGACATCTTTAATTTAACTAGATCAAGACAAATTAATTAACTCAACTTA
1 AAACTAAATAAAATCAAGACATCTTTAATTTAACTAGATCAAGACAAATTAATTAACTCAACTTA
38483894 TTAATGCCGAAAATAATAAGACACATTAAATGACTTAAAGGCACAATTAACACCT
66 TTAATGCCGAAAATAATAAGACACATTAAATGACTTAAAGGCACAATTAACACCT
38483949 A
1 A
38483950 GTTAAATTAG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (120 bp):
AAACTAAATAAAATCAAGACATCTTTAATTTAACTAGATCAAGACAAATTAATTAACTCAACTTA
TTAATGCCGAAAATAATAAGACACATTAAATGACTTAAAGGCACAATTAACACCT
Found at i:38485817 original size:4 final size:4
Alignment explanation
Indices: 38485799--38485832 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
38485789 ATATAAAATT
38485799 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
38485833 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:38487236 original size:23 final size:22
Alignment explanation
Indices: 38487184--38487236 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38487174 TCCACGTCTT
*
38487184 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38487206 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38487229 TTTCTTTT
1 TTTCTTTT
38487237 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38489402 original size:30 final size:30
Alignment explanation
Indices: 38489368--38489464 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38489358 TAAACTAAAA
*
38489368 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
38489398 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38489428 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38489457 ATGAGCTA
1 -TGAGCTA
38489465 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:38491658 original size:12 final size:12
Alignment explanation
Indices: 38491643--38491673 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38491633 TTTCTTTTGC
38491643 TTTTCAAAGGCT
1 TTTTCAAAGGCT
38491655 TTTTCAAAGGCT
1 TTTTCAAAGGCT
38491667 TTTTCAA
1 TTTTCAA
38491674 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:38491747 original size:6 final size:6
Alignment explanation
Indices: 38491733--38491782 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
38491723 TTTCTTTTTA
*
38491733 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
38491782 T
1 T
38491783 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:38491778 original size:16 final size:16
Alignment explanation
Indices: 38491723--38491782 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
38491713 CTTGCCTCTC
*
38491723 TTTCTTTTT-ATTTCAT
1 TTTCTTTTTCTTTTC-T
*
38491739 TTTCTTTTTCTTCTC-
1 TTTCTTTTTCTTTTCT
*
38491754 TTGCTTTTTCTTTTTCT
1 TTTCTTTTTC-TTTTCT
38491771 TTTC-TTTTCTTT
1 TTTCTTTTTCTTT
38491783 GTTTTCTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 12 0.33
16 18 0.50
17 6 0.17
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTCTTTTTCTTTTCT
Found at i:38492747 original size:11 final size:11
Alignment explanation
Indices: 38492707--38492764 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 11
38492697 TTTTTTTAAC
38492707 TCGATTTTTTT
1 TCGATTTTTTT
38492718 GTC-ACTTTTTTT
1 -TCGA-TTTTTTT
*
38492730 TC-CTTTTTTT
1 TCGATTTTTTT
38492740 TCGATTTTTTT
1 TCGATTTTTTT
*
38492751 TTGAATTTTTTT
1 TCG-ATTTTTTT
38492763 TC
1 TC
38492765 TGAATTTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.23
11 12 0.31
12 18 0.46
ACGTcount: A:0.09, C:0.12, G:0.07, T:0.72
Consensus pattern (11 bp):
TCGATTTTTTT
Found at i:38492760 original size:13 final size:13
Alignment explanation
Indices: 38492733--38492771 Score: 57
Period size: 11 Copynumber: 3.2 Consensus size: 13
38492723 TTTTTTTTCC
38492733 TTTTTTTTC-G-A
1 TTTTTTTTCTGAA
38492744 TTTTTTTT-TGAA
1 TTTTTTTTCTGAA
38492756 TTTTTTTTCTGAA
1 TTTTTTTTCTGAA
38492769 TTT
1 TTT
38492772 CTTCTCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.36
12 9 0.36
13 7 0.28
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (13 bp):
TTTTTTTTCTGAA
Found at i:38494509 original size:30 final size:30
Alignment explanation
Indices: 38494475--38494571 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38494465 TAAACTAAAA
*
38494475 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
38494505 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38494535 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
38494564 ATGAGCTA
1 -TGAGCTA
38494572 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:38497584 original size:987 final size:987
Alignment explanation
Indices: 38495664--38498321 Score: 5264
Period size: 987 Copynumber: 2.7 Consensus size: 987
38495654 GATACCAAAT
*
38495664 GATAGAAGAATGCGCGCGGACCAAGATCGAGTTGCCGAGTCACGAGAAACTCCTACGAAAACCCT
1 GATAGAGGAATGCGCGCGGACCAAGATCGAGTTGCCGAGTCACGAGAAACTCCTACGAAAACCCT
38495729 AAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATTTTTGAATTTTCAGATCTGAA
66 AAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATTTTTGAATTTTCAGATCTGAA
*
38495794 ATAAAATTCCTAAATCAGCAAAGAATCAATTGAGAATAGAAATAAGTGTTAGGGTTCTTGAAACC
131 ATAAAATTCCCAAATCAGCAAAGAATCAATTGAGAATAGAAATAAGTGTTAGGGTTCTTGAAACC
38495859 CTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAATCT
196 CTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAATCT
38495924 AATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTAAG
261 AATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTAAG
38495989 ATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGTAG
326 ATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGTAG
38496054 AAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCGAA
391 AAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCGAA
38496119 AGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAGAA
456 AGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAGAA
38496184 GGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAA
521 GGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAA
38496249 AATCCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAAATTTTCAATGTAATTGTA
586 AATCCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAAATTTTCAATGTAATTGTA
38496314 ATGTAATGTAGGGTGGCTGGCCAAGCCATATAAATAGGCCTTTCAAATGTTTTCCTAATTTAATT
651 ATGTAATGTAGGGTGGCTGGCCAAGCCATATAAATAGGCCTTTCAAATGTTTTCCTAATTTAATT
38496379 ACAACACTAAAACTAAAACAAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGCCAAGGGT
716 ACAACACTAAAACTAAAACAAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGCCAAGGGT
38496444 CTTTTATTTGGGACTCTTGGACTGAATATAAAAATTTAAACTAAGTAAAATAAATAAATAAATAA
781 CTTTTATTTGGGACTCTTGGACTGAATATAAAAATTTAAACTAAGTAAAATAAATAAATAAATAA
38496509 ATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGTATGG
846 ATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGTATGG
38496574 GTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTGGGCTTTTG
911 GTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTGGGCTTTTG
38496639 TGACTCGTATCA
976 TGACTCGTATCA
38496651 GATAGAGGAATGCGCGCGGACCAAGATCGAGTTGCCGAGTCACGAGAAACTCCTACGAAAACCCT
1 GATAGAGGAATGCGCGCGGACCAAGATCGAGTTGCCGAGTCACGAGAAACTCCTACGAAAACCCT
38496716 AAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATTTTTGAATTTTCAGATCTGAA
66 AAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATTTTTGAATTTTCAGATCTGAA
*
38496781 ATAAAATTCCCAAATTAGCAAAGAATCAATTGAGAATAGAAATAAGTGTTAGGGTTCTTGAAACC
131 ATAAAATTCCCAAATCAGCAAAGAATCAATTGAGAATAGAAATAAGTGTTAGGGTTCTTGAAACC
38496846 CTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAATCT
196 CTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAATCT
38496911 AATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTAAG
261 AATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTAAG
38496976 ATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGTAG
326 ATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGTAG
38497041 AAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCGAA
391 AAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCGAA
*
38497106 AGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCGAAGAATATCAATGGCAAGAAGAA
456 AGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAGAA
38497171 GGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAA
521 GGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAA
38497236 AATCCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAAATTTTCAATGTAATTGTA
586 AATCCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAAATTTTCAATGTAATTGTA
38497301 ATGTAATGTAGGGTGGCTGGCCAAGCCATATAAATAGGCCTTTCAAATGTTTTCCTAATTTAATT
651 ATGTAATGTAGGGTGGCTGGCCAAGCCATATAAATAGGCCTTTCAAATGTTTTCCTAATTTAATT
38497366 ACAACACTAAAACTAAAACAAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGCCAAGGGT
716 ACAACACTAAAACTAAAACAAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGCCAAGGGT
38497431 CTTTTATTTGGGACTCTTGGACTGAATATAAAAATTTAAACTAAGTAAAATAAATAAATAAATAA
781 CTTTTATTTGGGACTCTTGGACTGAATATAAAAATTTAAACTAAGTAAAATAAATAAATAAATAA
38497496 ATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGTATGG
846 ATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGTATGG
38497561 GTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTGGGCTTTTG
911 GTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTGGGCTTTTG
38497626 TGACTCGTATCA
976 TGACTCGTATCA
38497638 GATAGAGGAATGCGCGCGGACCAAGATCGAGTTGCCGAGTCACGAGAAACTCCTACGAAAACCCT
1 GATAGAGGAATGCGCGCGGACCAAGATCGAGTTGCCGAGTCACGAGAAACTCCTACGAAAACCCT
38497703 AAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATTTTTGAATTTTCAGATCTGAA
66 AAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATTTTTGAATTTTCAGATCTGAA
38497768 ATAAAATTCCCAAATCAGCAAAGAATCAATTGAGAATAGAAATAAGTGTTAGGGTTCTTGAAACC
131 ATAAAATTCCCAAATCAGCAAAGAATCAATTGAGAATAGAAATAAGTGTTAGGGTTCTTGAAACC
38497833 CTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAATCT
196 CTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAATCT
38497898 AATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTAAG
261 AATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTAAG
38497963 ATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGTAG
326 ATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGTAG
38498028 AAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCGAA
391 AAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCGAA
38498093 AGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAGAA
456 AGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAGAA
*
38498158 GGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCTAAAGAAAACTTAAGAGAA
521 GGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAA
38498223 AATCCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAAATTTTCAATGTAATTGTA
586 AATCCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAAATTTTCAATGTAATTGTA
38498288 ATGTAATGTAGGGTGGCTGGCCAAGCCA-ATAAAT
651 ATGTAATGTAGGGTGGCTGGCCAAGCCATATAAAT
38498322 TAACCTAGTA
Statistics
Matches: 1664, Mismatches: 7, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
986 6 0.00
987 1658 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (987 bp):
GATAGAGGAATGCGCGCGGACCAAGATCGAGTTGCCGAGTCACGAGAAACTCCTACGAAAACCCT
AAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATTTTTGAATTTTCAGATCTGAA
ATAAAATTCCCAAATCAGCAAAGAATCAATTGAGAATAGAAATAAGTGTTAGGGTTCTTGAAACC
CTCAAGGAGATTGTGATTCTGCCCAATTGAACACCAAGATAGTTTTCCCCAAATTTCGACAATCT
AATTTCACCCAAAAAGAGTATGGAAAAACCCTAGAAATTGGGGATTTTTGGGCTGATTCCTTAAG
ATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAGATTAGATAATGATTCAGCACAAGTAG
AAATAAAGAAAGAATTGACAGTAAGAAATTAAAAGATAAGTCCTAAGAAGCCTTGAAATCTCGAA
AGATCTCACAACTCCCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCAATGGCAAGAAGAA
GGTTGAAGATGGCTCCCACAATCAAAAAGATTGTTAAAACAACTTCTAAAGAAAACTCAAGAGAA
AATCCTTGAAGAACTCAAAGAGAATTTTCACTCAAATCAAATCTGAAATTTTCAATGTAATTGTA
ATGTAATGTAGGGTGGCTGGCCAAGCCATATAAATAGGCCTTTCAAATGTTTTCCTAATTTAATT
ACAACACTAAAACTAAAACAAAAAAAAACTCCTAATTATTTTAATATGGAAATTCGGCCAAGGGT
CTTTTATTTGGGACTCTTGGACTGAATATAAAAATTTAAACTAAGTAAAATAAATAAATAAATAA
ATAAAAATAAAACTTTACAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGTATGG
GTGGATTTCTTGATTGGGCTTGGAATCTTCTTATTGGGCCTTGCCCTCAAGAATTTGGGCTTTTG
TGACTCGTATCA
Found at i:38503890 original size:16 final size:17
Alignment explanation
Indices: 38503801--38503891 Score: 61
Period size: 18 Copynumber: 5.5 Consensus size: 17
38503791 TTTTCTCTCG
38503801 TTTCTTCTTCAA-CATCTT
1 TTTCTT-TTCAATC-TCTT
38503819 TTTCTTTTTCAAT-T-TT
1 TTTC-TTTTCAATCTCTT
**
38503835 TTTC---TCAATCTCAA
1 TTTCTTTTCAATCTCTT
38503849 TTTCTTTTTCAATCTCTT
1 TTTC-TTTTCAATCTCTT
*
38503867 TTTGCTTTTCACTCTC-T
1 TTT-CTTTTCAATCTCTT
38503884 TTTCTTTT
1 TTTCTTTT
38503892 TGAAATCTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
12 5 0.08
13 1 0.02
14 4 0.07
16 11 0.19
17 5 0.08
18 30 0.51
19 3 0.05
ACGTcount: A:0.13, C:0.23, G:0.01, T:0.63
Consensus pattern (17 bp):
TTTCTTTTCAATCTCTT
Found at i:38504929 original size:30 final size:29
Alignment explanation
Indices: 38504872--38504929 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
38504862 TTAAACTTGA
*
38504872 TTTTTTTGCTCACCTTTTTTTTTCTTTTCT
1 TTTTTTTGCTCA-CTTTTTTTTACTTTTCT
38504902 TTTTTTTGCTCGA-TTTTTTTTCACTTTT
1 TTTTTTTGCTC-ACTTTTTTTT-ACTTTT
38504930 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 16 0.64
31 1 0.04
ACGTcount: A:0.05, C:0.17, G:0.05, T:0.72
Consensus pattern (29 bp):
TTTTTTTGCTCACTTTTTTTTACTTTTCT
Found at i:38504942 original size:13 final size:13
Alignment explanation
Indices: 38504926--38504983 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
38504916 TTTTTTTCAC
38504926 TTTTTTT-GAATT
1 TTTTTTTCGAATT
*
38504938 TTTTTTCAATCAAATT
1 TTTTTT---TCGAATT
38504954 TTTTTTTCGAATT
1 TTTTTTTCGAATT
38504967 TTTTTTT-G-ATT
1 TTTTTTTCGAATT
38504978 TTTTTT
1 TTTTTT
38504984 GTTACTCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 9 0.22
12 7 0.17
13 13 0.32
15 1 0.03
16 10 0.25
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTTTTCGAATT
Found at i:38505537 original size:16 final size:16
Alignment explanation
Indices: 38505516--38505551 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
38505506 CAGGATTCTT
38505516 TTTTACAAACAAATTC
1 TTTTACAAACAAATTC
38505532 TTTTACAAACAAATTC
1 TTTTACAAACAAATTC
38505548 TTTT
1 TTTT
38505552 TTTCGAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTACAAACAAATTC
Found at i:38509980 original size:24 final size:25
Alignment explanation
Indices: 38509927--38509980 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
38509917 AACAAATTCT
* *
38509927 TTTTTTCATTTTCATCACTCGTTTC
1 TTTTTTCATTTTAATCACTCGTCTC
38509952 -TTTTTC-TTTTGAATCACTC-TCTC
1 TTTTTTCATTTT-AATCACTCGTCTC
38509975 TTTTTT
1 TTTTTT
38509981 TATCACTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTCATTTTAATCACTCGTCTC
Found at i:38512250 original size:14 final size:14
Alignment explanation
Indices: 38512231--38512257 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38512221 CTAGACCGTA
38512231 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
38512245 TGCAATTTTTTTT
1 TGCAATTTTTTTT
38512258 CCTTCTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
TGCAATTTTTTTTT
Found at i:38516132 original size:12 final size:12
Alignment explanation
Indices: 38516073--38516132 Score: 93
Period size: 12 Copynumber: 5.0 Consensus size: 12
38516063 AGACCGTATG
38516073 CAATTTTTTTTT
1 CAATTTTTTTTT
*
38516085 CAAATTTTTTTT
1 CAATTTTTTTTT
38516097 CAATTTTTTTTT
1 CAATTTTTTTTT
*
38516109 CGATTTTTTTTT
1 CAATTTTTTTTT
*
38516121 CGATTTTTTTTT
1 CAATTTTTTTTT
38516133 GAATCTACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.73
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:38518101 original size:18 final size:18
Alignment explanation
Indices: 38518075--38518160 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 18
38518065 AAATTGAAAG
*
38518075 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAAACGA
* *
38518093 AAAAGAAAAAGAAATCAA
1 AAAAGAAAAAGAAAACGA
** * *
38518111 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAACGA
* *
38518129 AAATGAAGTAAAGAAAATTGA
1 AAAAGAA--AAAGAAAA-CGA
38518150 AAAAGAAAAAG
1 AAAAGAAAAAG
38518161 CGAAAAAAGA
Statistics
Matches: 50, Mismatches: 15, Indels: 5
0.71 0.21 0.07
Matches are distributed among these distances:
18 31 0.62
19 4 0.08
20 7 0.14
21 8 0.16
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAACGA
Found at i:38518103 original size:6 final size:6
Alignment explanation
Indices: 38518071--38518160 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
38518061 AAAGAAATTG
* * * **
38518071 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATCA-AA AAAGTG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A-AAGAA AAAGAA
* * *
38518118 AGAGAA AAAGAA AATGAA GTAAAGAA AATTGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA --AAAGAA AA-AGAA AAAGAA AAAG
38518161 CGAAAAAAGA
Statistics
Matches: 63, Mismatches: 16, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
5 4 0.06
6 48 0.76
7 6 0.10
8 5 0.08
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:38518159 original size:14 final size:13
Alignment explanation
Indices: 38518121--38518158 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
38518111 AAAAGTGAGA
38518121 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
38518133 GAAGTAAAGAAAATT
1 GAA--AAAGAAAATT
38518148 GAAAAAGAAAA
1 GAAAAAGAAAA
38518159 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 8 0.35
15 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:38520044 original size:20 final size:20
Alignment explanation
Indices: 38520021--38520066 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
38520011 CCAGCTCGAA
*
38520021 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
38520041 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
38520061 TTAGCT
1 TTAGCT
38520067 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:38520048 original size:30 final size:30
Alignment explanation
Indices: 38520013--38520086 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
38520003 AGTTTTTCCC
38520013 AGCTCGAATT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-ATTGAGCTCA-ATTGAGCTTAATTT
* * *
38520043 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGATTGAGCTCAATTGAGCTTAATTT
*
38520073 AGCTCGTTTGAGCT
1 AGCTCGATTGAGCT
38520087 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (30 bp):
AGCTCGATTGAGCTCAATTGAGCTTAATTT
Found at i:38523526 original size:21 final size:21
Alignment explanation
Indices: 38523502--38523544 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
38523492 TGAGAGAAGA
* *
38523502 AAAAAGAAATGAGAGAAAAAG
1 AAAAAGAAATAAAAGAAAAAG
38523523 AAAAAGAAATAAAAGAAAAAG
1 AAAAAGAAATAAAAGAAAAAG
38523544 A
1 A
38523545 TGAAAATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (21 bp):
AAAAAGAAATAAAAGAAAAAG
Found at i:38523612 original size:15 final size:15
Alignment explanation
Indices: 38523594--38523627 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38523584 AAAAGAGATT
38523594 GAAAAAGAAGAAAAA
1 GAAAAAGAAGAAAAA
**
38523609 GAAAAAGTGGAAAAA
1 GAAAAAGAAGAAAAA
38523624 GAAA
1 GAAA
38523628 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
GAAAAAGAAGAAAAA
Found at i:38528689 original size:17 final size:18
Alignment explanation
Indices: 38528667--38528707 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
38528657 CATTTCTTTT
38528667 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
38528684 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
38528702 T-TTTTG
1 TCTTTTG
38528708 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:38530972 original size:10 final size:10
Alignment explanation
Indices: 38530959--38530997 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
38530949 TTTTCAAATT
38530959 TTTTTTTCAA
1 TTTTTTTCAA
38530969 TTTTTTTTTCAA
1 --TTTTTTTCAA
*
38530981 TTTTTTTCGA
1 TTTTTTTCAA
38530991 TTTTTTT
1 TTTTTTT
38530998 TGAATCTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
12 10 0.38
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:38530998 original size:13 final size:12
Alignment explanation
Indices: 38530945--38530987 Score: 77
Period size: 12 Copynumber: 3.5 Consensus size: 12
38530935 CCGTATGCAA
38530945 TTTTTTTTCAAAT
1 TTTTTTTTC-AAT
38530958 TTTTTTTTCAAT
1 TTTTTTTTCAAT
38530970 TTTTTTTTCAAT
1 TTTTTTTTCAAT
38530982 TTTTTT
1 TTTTTT
38530988 CGATTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCAAT
Found at i:38532302 original size:12 final size:12
Alignment explanation
Indices: 38532285--38532309 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38532275 GTAATGAAAC
38532285 TTATTTAAATGG
1 TTATTTAAATGG
38532297 TTATTTAAATGG
1 TTATTTAAATGG
38532309 T
1 T
38532310 CTAAAATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATTTAAATGG
Found at i:38532540 original size:13 final size:13
Alignment explanation
Indices: 38532522--38532569 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
38532512 TTTGATTCGA
*
38532522 TTTTTTTTCACTT
1 TTTTTTTTCAATT
*
38532535 TTTTTTTTGAATT
1 TTTTTTTTCAATT
*
38532548 TTTTTTCAATCAATT
1 TTTTTT--TTCAATT
38532563 TTTTTTT
1 TTTTTTT
38532570 GATTTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 17 0.61
15 11 0.39
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTTTTTCAATT
Found at i:38535332 original size:4 final size:4
Alignment explanation
Indices: 38535323--38535350 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
38535313 TTAAACTAAG
38535323 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
38535351 AATAAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:38536776 original size:11 final size:10
Alignment explanation
Indices: 38536754--38536814 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
38536744 ACCAATAAAA
38536754 TAAA-TGAGC
1 TAAATTGAGC
38536763 TAAATTGTAGC
1 TAAATTG-AGC
38536774 TAAATTGAGC
1 TAAATTGAGC
**
38536784 TCGATTGAGC
1 TAAATTGAGC
38536794 TGAAA-TGAGC
1 T-AAATTGAGC
*
38536804 TCAATTGAGC
1 TAAATTGAGC
38536814 T
1 T
38536815 GGTCGGAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 6 0.14
10 26 0.60
11 11 0.26
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:38536794 original size:20 final size:20
Alignment explanation
Indices: 38536755--38536815 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
38536745 CCAATAAAAT
*
38536755 AAATGAGCTAAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
38536775 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
38536796 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
38536816 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:38538908 original size:18 final size:18
Alignment explanation
Indices: 38538887--38538921 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38538877 TTTTTCTTTT
38538887 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
38538905 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
38538922 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:38539866 original size:12 final size:12
Alignment explanation
Indices: 38539851--38539907 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 12
38539841 TTTTTTTCAC
38539851 TTTTTTTGAATT
1 TTTTTTTGAATT
*
38539863 TTTTTTTCAATCAAT
1 TTTTTTTGAAT---T
38539878 TTTTTTTCGAATT
1 TTTTTTT-GAATT
38539891 TTTTTTTG-ATT
1 TTTTTTTGAATT
38539902 TTTTTT
1 TTTTTT
38539908 GTTACTCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 9 0.23
12 11 0.28
13 8 0.21
15 8 0.21
16 3 0.08
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:38541274 original size:11 final size:10
Alignment explanation
Indices: 38541252--38541312 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
38541242 ACCAATAAAA
38541252 TAAA-TGAGC
1 TAAATTGAGC
38541261 TAAATTGTAGC
1 TAAATTG-AGC
38541272 TAAATTGAGC
1 TAAATTGAGC
**
38541282 TCGATTGAGC
1 TAAATTGAGC
38541292 TGAAA-TGAGC
1 T-AAATTGAGC
*
38541302 TCAATTGAGC
1 TAAATTGAGC
38541312 T
1 T
38541313 GGTCGGAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 6 0.14
10 26 0.60
11 11 0.26
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:38541292 original size:20 final size:20
Alignment explanation
Indices: 38541253--38541313 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
38541243 CCAATAAAAT
*
38541253 AAATGAGCTAAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
38541273 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
38541294 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
38541314 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:38548535 original size:18 final size:18
Alignment explanation
Indices: 38548508--38548557 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
38548498 CAAACTCTTT
38548508 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
38548526 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
38548544 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
38548558 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:38553021 original size:15 final size:15
Alignment explanation
Indices: 38553001--38553048 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
38552991 TCAAAGATGG
38553001 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
38553016 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
38553030 GTTTATGGATATAAA
1 GTTTATGGATATGAA
38553045 GTTT
1 GTTT
38553049 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:38553035 original size:14 final size:14
Alignment explanation
Indices: 38552995--38553038 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
38552985 AAGGATTCAA
38552995 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
38553009 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
38553024 AGATGGGTTTATGG
1 AGATGGGTTTATGG
38553038 A
1 A
38553039 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:38553064 original size:29 final size:29
Alignment explanation
Indices: 38552995--38553054 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
38552985 AAGGATTCAA
*
38552995 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
38553024 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
38553053 AG
1 AG
38553055 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Done.