Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 199 of 208
Found at i:60514538 original size:11 final size:10
Alignment explanation
Indices: 60514490--60514550 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
60514480 CAACTAAATC
60514490 ATTTCTCTCA
1 ATTTCTCTCA
60514500 ATTTCTCTCTA
1 ATTTCTCTC-A
*
60514511 ATATTCTCTTAA
1 AT-TTCTC-TCA
*
60514523 ATTCCTCTCA
1 ATTTCTCTCA
60514533 ATTTCCTCTCAA
1 ATTT-CTCTC-A
60514545 ATTTCT
1 ATTTCT
60514551 ATTTAAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
10 14 0.33
11 14 0.33
12 13 0.31
13 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:60516388 original size:18 final size:18
Alignment explanation
Indices: 60516365--60516408 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
60516355 TGCCAGGTGC
60516365 GTATCCTAGCCTTTTTAT
1 GTATCCTAGCCTTTTTAT
*
60516383 GTATCCTAGCCTTTTTTT
1 GTATCCTAGCCTTTTTAT
60516401 GTATCCTA
1 GTATCCTA
60516409 ACCCTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (18 bp):
GTATCCTAGCCTTTTTAT
Found at i:60517678 original size:9 final size:9
Alignment explanation
Indices: 60517664--60517712 Score: 82
Period size: 9 Copynumber: 5.4 Consensus size: 9
60517654 TTTGGTTAAA
60517664 AATTAACCG
1 AATTAACCG
60517673 AATTAACCG
1 AATTAACCG
60517682 AATT-ACCTG
1 AATTAACC-G
60517691 AATTAACCG
1 AATTAACCG
60517700 AATTAACCG
1 AATTAACCG
60517709 AATT
1 AATT
60517713 GAATCACTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
8 3 0.08
9 32 0.84
10 3 0.08
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:60522197 original size:22 final size:22
Alignment explanation
Indices: 60522169--60522212 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
60522159 TAAATCACAA
60522169 AATAATGCGAAAAACAAAGATG
1 AATAATGCGAAAAACAAAGATG
60522191 AATAATGCGAAAAACAAAGATG
1 AATAATGCGAAAAACAAAGATG
60522213 GGGTTACCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.18, T:0.14
Consensus pattern (22 bp):
AATAATGCGAAAAACAAAGATG
Found at i:60523730 original size:30 final size:30
Alignment explanation
Indices: 60523691--60523759 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
60523681 TTATAAAAAT
* * *
60523691 TTTCAATTTAGTTACCAATATTTTAGATCA
1 TTTCTATTTAGTCACCAACATTTTAGATCA
** **
60523721 TTTCTATTTAGTCACTTACATTTTAGATTG
1 TTTCTATTTAGTCACCAACATTTTAGATCA
60523751 TTTCTATTT
1 TTTCTATTT
60523760 TGGTCACACT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (30 bp):
TTTCTATTTAGTCACCAACATTTTAGATCA
Found at i:60524211 original size:37 final size:37
Alignment explanation
Indices: 60524170--60524254 Score: 86
Period size: 37 Copynumber: 2.3 Consensus size: 37
60524160 ATCTAATTTT
* *
60524170 TTATAAAAATATT-TAAAAATTTAAAA-TAATATATATA
1 TTATAAAAATATTCTAAAAATATAAAAGAAAT-TATA-A
* *
60524207 TTATATAAAT-TTCTTAAAATATAAAAGAAATTATAA
1 TTATAAAAATATTCTAAAAATATAAAAGAAATTATAA
*
60524243 ATATAAAAATAT
1 TTATAAAAATAT
60524255 ATGTATCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
36 11 0.28
37 25 0.64
38 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (37 bp):
TTATAAAAATATTCTAAAAATATAAAAGAAATTATAA
Found at i:60528942 original size:30 final size:30
Alignment explanation
Indices: 60528899--60528974 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
60528889 GACCTGTTGG
* *
60528899 ATGCTGGGGTTTGAACCGTAAGCCTAATGA
1 ATGCTGAGATTTGAACCGTAAGCCTAATGA
*
60528929 ATGCTGAGATTTGAACTGTAAGCCTAATGA
1 ATGCTGAGATTTGAACCGTAAGCCTAATGA
60528959 ATGCTGAGATTTGAAC
1 ATGCTGAGATTTGAAC
60528975 ATCTTAACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (30 bp):
ATGCTGAGATTTGAACCGTAAGCCTAATGA
Found at i:60534276 original size:6 final size:6
Alignment explanation
Indices: 60534265--60534313 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
60534255 TTTTCTTGGT
* *
60534265 TAGGAA TGGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TTGGAA
1 TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA
60534313 T
1 T
60534314 CCCATTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (6 bp):
TAGGAA
Found at i:60549913 original size:18 final size:17
Alignment explanation
Indices: 60549890--60549935 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
60549880 ATTTAAATTG
60549890 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCG-TTT
*
60549908 CGGTCGC-GTCACGTTT
1 CGGTCGCGGTCGCGTTT
60549924 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
60549936 GACATAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
16 3 0.12
17 5 0.20
18 7 0.28
ACGTcount: A:0.02, C:0.30, G:0.39, T:0.28
Consensus pattern (17 bp):
CGGTCGCGGTCGCGTTT
Found at i:60551575 original size:14 final size:14
Alignment explanation
Indices: 60551537--60551579 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
60551527 TAAAATGTAC
60551537 AATATAATTAAA-T
1 AATATAATTAAATT
60551550 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
60551565 AA-ATAATTTAATT
1 AATATAATTAAATT
60551578 AA
1 AA
60551580 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:60554060 original size:3 final size:3
Alignment explanation
Indices: 60554052--60554089 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
60554042 TAAAACAATT
60554052 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
60554090 TATCATGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:60554100 original size:3 final size:3
Alignment explanation
Indices: 60554094--60554123 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
60554084 ATAATATATC
60554094 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
60554124 GTATTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:60561246 original size:31 final size:29
Alignment explanation
Indices: 60561206--60561321 Score: 96
Period size: 31 Copynumber: 3.9 Consensus size: 29
60561196 AACTTTAAAA
60561206 AAAAATGTCAAGTCTAGGTACCAAATTAGG
1 AAAAATGTCAAGT-TAGGTACCAAATTAGG
*
60561236 AAAAAGTGTCAAGTTTGAGTACCAAATT-GG
1 AAAAA-TGTCAAGTTAG-GTACCAAATTAGG
* *
60561266 ACCAAAA---AAAGTTTAGGTATCAAATTAGG
1 A--AAAATGTCAAG-TTAGGTACCAAATTAGG
*
60561295 AAAAATTGTCAAGTTCAGATACCAAAT
1 AAAAA-TGTCAAGTT-AGGTACCAAAT
60561322 ATTATATTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
27 4 0.06
28 12 0.18
29 6 0.09
30 12 0.18
31 30 0.44
32 4 0.06
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (29 bp):
AAAAATGTCAAGTTAGGTACCAAATTAGG
Found at i:60561461 original size:16 final size:17
Alignment explanation
Indices: 60561430--60561466 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
60561420 TTATTGAGAT
60561430 ATTATAAAATAATAAAA
1 ATTATAAAATAATAAAA
60561447 ATTATAAAA-AATAAAA
1 ATTATAAAATAATAAAA
60561463 ATTA
1 ATTA
60561467 CTTTTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTATAAAATAATAAAA
Found at i:60562497 original size:17 final size:18
Alignment explanation
Indices: 60562475--60562508 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60562465 TTAATGTCGA
60562475 AGAAAAA-GTTCATGAAT
1 AGAAAAATGTTCATGAAT
*
60562492 AGAAAAATTTTCATGAA
1 AGAAAAATGTTCATGAA
60562509 GTTATTCAAA
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:0.06, G:0.15, T:0.26
Consensus pattern (18 bp):
AGAAAAATGTTCATGAAT
Found at i:60572987 original size:30 final size:28
Alignment explanation
Indices: 60572947--60573047 Score: 114
Period size: 30 Copynumber: 3.5 Consensus size: 28
60572937 TTGAAAAAAT
60572947 AAAATATAGAAAAATATTAAAATTTATGA
1 AAAATATAGAAAAATATTAAAATTTAT-A
* * *
60572976 AAACGTATAGAAAAATTTTAAATTTTATA
1 AAA-ATATAGAAAAATATTAAAATTTATA
*
60573005 AAAATATA-AAAAATTACTAAAATTTATTA
1 AAAATATAGAAAAA-TATTAAAATTTA-TA
60573034 TAAAATATAGAAAA
1 -AAAATATAGAAAA
60573048 TACAGAAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.08
28 13 0.22
29 9 0.15
30 29 0.48
31 4 0.07
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAATATAGAAAAATATTAAAATTTATA
Found at i:60573057 original size:30 final size:31
Alignment explanation
Indices: 60573000--60573073 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
60572990 ATTTTAAATT
*
60573000 TTATAAAAATATAAAAAATTACTAAAATTTA
1 TTATAAAAATATAAAAAATTACGAAAATTTA
*
60573031 TTAT-AAAATATAGAAAA-TACAGAAAA--TA
1 TTATAAAAATATAAAAAATTAC-GAAAATTTA
60573059 TTA-AAAAATA-AAAAA
1 TTATAAAAATATAAAAA
60573074 TTTATCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 4 0.11
28 11 0.29
29 3 0.08
30 16 0.42
31 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (31 bp):
TTATAAAAATATAAAAAATTACGAAAATTTA
Found at i:60573068 original size:10 final size:9
Alignment explanation
Indices: 60573004--60573092 Score: 54
Period size: 9 Copynumber: 9.3 Consensus size: 9
60572994 TAAATTTTAT
60573004 AAAAATATA
1 AAAAATATA
60573013 AAAAATTACTA
1 AAAAA-TA-TA
**
60573024 AAATTTATTA
1 AAAAATA-TA
*
60573034 TAAAATATA
1 AAAAATATA
* *
60573043 GAAAATACA
1 AAAAATATA
*
60573052 GAAAATATTA
1 AAAAATA-TA
60573062 AAAAATA-A
1 AAAAATATA
*
60573070 AAAATTTATCA
1 AAAA-ATAT-A
60573081 AAAAATATA
1 AAAAATATA
60573090 AAA
1 AAA
60573093 TATAAAATAT
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
8 5 0.08
9 27 0.44
10 20 0.32
11 10 0.16
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATATA
Found at i:60573279 original size:39 final size:37
Alignment explanation
Indices: 60573206--60573295 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 37
60573196 AAACTCTTTA
*
60573206 AAAAATTAAAAATTATTATAAATTTATCATAAAAGAT
1 AAAAATTAAAAATTATTAAAAATTTATCATAAAAGAT
60573243 AAAAATATAGAAAATTTATTAAAAA-TTAT-ATAAAAAGA-
1 AAAAAT-TA-AAAA-TTATTAAAAATTTATCAT-AAAAGAT
*
60573281 AAGAAATTATAAATT
1 AA-AAATTAAAAATT
60573296 TTTGGCAGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
36 2 0.04
37 9 0.20
38 8 0.17
39 18 0.39
40 9 0.20
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (37 bp):
AAAAATTAAAAATTATTAAAAATTTATCATAAAAGAT
Found at i:60580272 original size:23 final size:22
Alignment explanation
Indices: 60580246--60580295 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
60580236 GCTTTGGTTA
*
60580246 TATTGGATTTGGTCTTTCACTTT
1 TATTGGA-TTGGTCGTTCACTTT
* *
60580269 TATTTTGATTGGTCGTTGACTTT
1 TA-TTGGATTGGTCGTTCACTTT
60580292 TATT
1 TATT
60580296 TTAAACGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 2 0.09
23 17 0.74
24 4 0.17
ACGTcount: A:0.14, C:0.10, G:0.18, T:0.58
Consensus pattern (22 bp):
TATTGGATTGGTCGTTCACTTT
Found at i:60580296 original size:23 final size:23
Alignment explanation
Indices: 60580254--60580297 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
60580244 TATATTGGAT
*
60580254 TTGGTCTTTCACTTTTATTTTGA
1 TTGGTCGTTCACTTTTATTTTGA
*
60580277 TTGGTCGTTGACTTTTATTTT
1 TTGGTCGTTCACTTTTATTTT
60580298 AAACGACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.61
Consensus pattern (23 bp):
TTGGTCGTTCACTTTTATTTTGA
Found at i:60586229 original size:11 final size:11
Alignment explanation
Indices: 60586215--60586313 Score: 51
Period size: 11 Copynumber: 9.7 Consensus size: 11
60586205 TAAAAAAAGT
60586215 ATTTTAAAAAA
1 ATTTTAAAAAA
60586226 ATTTT---AAA
1 ATTTTAAAAAA
60586234 A--TTAAAAAA
1 ATTTTAAAAAA
60586243 A--TTAAAAAA
1 ATTTTAAAAAA
60586252 AGTATTTAAAAAA
1 A-T-TTTAAAAAA
*
60586265 AATTT---AAA
1 ATTTTAAAAAA
60586273 A--TTAAAAAA
1 ATTTTAAAAAA
60586282 ATTTTAAAAAA
1 ATTTTAAAAAA
**
60586293 GTATTTTAAAAGT
1 --ATTTTAAAAAA
60586306 ATTTTAAA
1 ATTTTAAA
60586314 GTTAAAAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 28
0.70 0.03 0.27
Matches are distributed among these distances:
6 4 0.06
8 8 0.11
9 17 0.24
11 24 0.34
13 18 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:60586238 original size:17 final size:17
Alignment explanation
Indices: 60586218--60586290 Score: 74
Period size: 17 Copynumber: 4.0 Consensus size: 17
60586208 AAAAAGTATT
60586218 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
**
60586235 TTAAAAAAATTAAAAAAAGTA
1 TTAAAAAAATT--TTAAA--A
*
60586256 TTTAAAAAAAATTTAAAA
1 -TTAAAAAAATTTTAAAA
60586274 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
60586291 AAGTATTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
17 27 0.60
18 1 0.02
19 3 0.07
20 3 0.07
21 1 0.02
22 10 0.22
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:60586260 original size:39 final size:40
Alignment explanation
Indices: 60586199--60586329 Score: 187
Period size: 40 Copynumber: 3.3 Consensus size: 40
60586189 AAATTAAAAT
60586199 AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
*
60586239 AAAAATTAAAAAAAGTA-TTTAAAAAAAATTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
* ** *
60586278 AAAAATTTTAAAAAAGTATTTTAAAAGTATTTTAAAGTT-A
1 AAAAA-TTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
60586318 AAAAA-TAAAAAA
1 AAAAATTAAAAAA
60586330 TAAAAATAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
38 6 0.07
39 26 0.32
40 34 0.41
41 16 0.20
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
Found at i:60586741 original size:9 final size:9
Alignment explanation
Indices: 60586727--60586803 Score: 55
Period size: 9 Copynumber: 7.8 Consensus size: 9
60586717 CCATTTATTG
60586727 ATTTTTAAT
1 ATTTTTAAT
60586736 ATTTTTAAT
1 ATTTTTAAT
*
60586745 AATATTTGAAT
1 -AT-TTTTAAT
60586756 ATTTTTATAATT
1 A-TTTT-TAA-T
* *
60586768 GTCTTTTAAC
1 AT-TTTTAAT
60586778 ATTTTTATAT
1 ATTTTTA-AT
60586788 ATTTTTAAT
1 ATTTTTAAT
*
60586797 AATTTTA
1 ATTTTTA
60586804 TTTTTAAAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
9 22 0.41
10 15 0.28
11 13 0.24
12 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:60592537 original size:42 final size:42
Alignment explanation
Indices: 60592271--60592539 Score: 396
Period size: 42 Copynumber: 6.4 Consensus size: 42
60592261 GAACAGAAGT
* * *
60592271 ATCCTACTTGA-GTAGGGATTAAATGAAAAAGTAAAAACATAA
1 ATCCTAATTGAGGT-GGGATTAAATGAAAAACTACAAACATAA
* * * *
60592313 ATCTTAATTGATGTAGGATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAACATAA
** * *
60592355 ATCCTAATTGACCTGAGATTAAATGAAAAACTAGAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAACATAA
*
60592397 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAACATAA
*
60592439 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAACATAA
*
60592481 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAACATAA
60592523 ATCCTAATTGAGGTGGG
1 ATCCTAATTGAGGTGGG
60592540 TCTAATTGTG
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
42 209 0.99
43 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (42 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAACATAA
Found at i:60596140 original size:21 final size:21
Alignment explanation
Indices: 60596116--60596156 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60596106 GTTGCTACCT
*
60596116 TTTCCACCACTTCCGCCACCG
1 TTTCCACCACTTCCACCACCG
*
60596137 TTTCCACCCCTTCCACCACC
1 TTTCCACCACTTCCACCACC
60596157 ATCTCTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.56, G:0.05, T:0.24
Consensus pattern (21 bp):
TTTCCACCACTTCCACCACCG
Found at i:60600208 original size:30 final size:30
Alignment explanation
Indices: 60600154--60600247 Score: 129
Period size: 29 Copynumber: 3.2 Consensus size: 30
60600144 TACTTTTCAC
*
60600154 AATTTACATTTTGACCC-CAAACTTTCTAA
1 AATTTACATTTTGACCCTAAAACTTTCTAA
60600183 AATTTACATTTTGACCCTAAAACTTTCTAA
1 AATTTACATTTTGACCCTAAAACTTTCTAA
* * *
60600213 AA-TTACATTTCGACCCTTAGACTTTCTCAA
1 AATTTACATTTTGACCCTAAAACTTTCT-AA
60600243 AATTT
1 AATTT
60600248 CACTTTAACC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
29 39 0.67
30 17 0.29
31 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.39
Consensus pattern (30 bp):
AATTTACATTTTGACCCTAAAACTTTCTAA
Found at i:60600921 original size:28 final size:32
Alignment explanation
Indices: 60600849--60600921 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 32
60600839 AATAGGTAAC
60600849 TGAAGAGAAAAAAGAAGAGAAGAAACAGAAAGA
1 TGAA-AGAAAAAAGAAGAGAAGAAACAGAAAGA
** * *
60600882 TGAAAGGCAAAAG-AGAGAA-AAAGATAAA-A
1 TGAAAGAAAAAAGAAGAGAAGAAACAGAAAGA
60600911 T-AAAGAAAAAA
1 TGAAAGAAAAAA
60600922 TGTAAAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 8 0.24
29 2 0.06
30 7 0.21
31 6 0.18
32 7 0.21
33 4 0.12
ACGTcount: A:0.68, C:0.03, G:0.23, T:0.05
Consensus pattern (32 bp):
TGAAAGAAAAAAGAAGAGAAGAAACAGAAAGA
Found at i:60601553 original size:17 final size:17
Alignment explanation
Indices: 60601531--60601569 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
60601521 TCGTTTTTAA
60601531 AAAATTT-TCATGTCTTC
1 AAAATTTCTCATGT-TTC
*
60601548 AAAATTTCTCGTGTTTC
1 AAAATTTCTCATGTTTC
60601565 AAAAT
1 AAAAT
60601570 AATAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (17 bp):
AAAATTTCTCATGTTTC
Found at i:60601633 original size:27 final size:25
Alignment explanation
Indices: 60601588--60601637 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 25
60601578 TAAAATTCCT
60601588 GTGTTTTAAAAAAATTCGTGTTTTC
1 GTGTTTTAAAAAAATTCGTGTTTTC
60601613 GTGTTTTCAAAAAAATCTCGTGTTT
1 GTGTTTT-AAAAAAAT-TCGTGTTT
60601638 CAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (25 bp):
GTGTTTTAAAAAAATTCGTGTTTTC
Found at i:60601740 original size:18 final size:18
Alignment explanation
Indices: 60601719--60602077 Score: 156
Period size: 17 Copynumber: 21.0 Consensus size: 18
60601709 AAATTTTGTG
60601719 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
60601737 TTTTCATGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
* *
60601754 TCTTCGTGTTTTTAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
60601772 -TTCCG-GCGTTTCAAAAA
1 TTTTCGTG-TTTTCAAAAA
*
60601789 TTTTCGTGTTTTTAAAAAA
1 TTTTCGTG-TTTTCAAAAA
** * *
60601808 AATACGTGTTTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
60601826 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
60601843 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
60601861 -CTCCG-GTGTTTC-AAAG
1 TTTTCGTGT-TTTCAAAAA
*
60601877 TTTTCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
60601895 TTCTCGCG-TTTAAAAAA
1 TTTTCGTGTTTTCAAAAA
**
60601912 AATTCGTG-TTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
* * *
60601928 TATTCTTGCATTTC----A
1 TTTTCGTG-TTTTCAAAAA
* **
60601943 TTTT-TTGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
**
60601959 ---TCGTGTTTAAAAAAAA
1 TTTTCGTGTTT-TCAAAAA
* *
60601975 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
60601992 TTTTCGT-TCTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
60602010 TTTTCGCG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
60602027 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
60602043 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
60602061 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
60602078 AAACTTTCGT
Statistics
Matches: 257, Mismatches: 58, Indels: 53
0.70 0.16 0.14
Matches are distributed among these distances:
13 4 0.02
14 8 0.03
15 4 0.02
16 33 0.13
17 101 0.39
18 85 0.33
19 22 0.09
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:60601760 original size:35 final size:36
Alignment explanation
Indices: 60601721--60601895 Score: 130
Period size: 35 Copynumber: 5.0 Consensus size: 36
60601711 ATTTTGTGTT
*
60601721 TTCGTGTTTTCAAAAATTTTCATGTTTT-AAAAATC
1 TTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATC
* * * *
60601756 TTCGTGTTTTTAAAAA-TTCCG-GCGTTTCAAAAATT
1 TTCGTGTTTTCAAAAATTTTCGTG-TTTTCAAAAATC
* ** * * *
60601791 TTCGTGTTTTTAAAAAAAATACGTGTTTTCACAAATT
1 TTCGTG-TTTTCAAAAATTTTCGTGTTTTCAAAAATC
* *
60601828 TTCGTG-TTTCACAAATTCTCGTGTTTTCAAAAA-C
1 TTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATC
* * *
60601862 TCCG-GTGTTTC-AAAGTTTTCATGTTTTCAAAAAT
1 TTCGTGT-TTTCAAAAATTTTCGTGTTTTCAAAAAT
60601896 TCTCGCGTTT
Statistics
Matches: 109, Mismatches: 23, Indels: 16
0.74 0.16 0.11
Matches are distributed among these distances:
33 2 0.02
34 27 0.25
35 51 0.47
36 9 0.08
37 19 0.17
38 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (36 bp):
TTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATC
Found at i:60601763 original size:43 final size:43
Alignment explanation
Indices: 60601679--60601765 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
60601669 TTTGATATTA
* * *
60601679 TCGTGTTTTCAAAAAATTTTCGTGTTCGACAAATTTTGTGTTT
1 TCGTGTTTTCAAAAAATTTTCATGTTCGAAAAATTTCGTGTTT
**
60601722 TCGTGTTTTC-AAAAATTTTCATGTTTTAAAAATCTTCGTGTTT
1 TCGTGTTTTCAAAAAATTTTCATGTTCGAAAAAT-TTCGTGTTT
60601765 T
1 T
60601766 TAAAAATTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 19 0.50
43 19 0.50
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (43 bp):
TCGTGTTTTCAAAAAATTTTCATGTTCGAAAAATTTCGTGTTT
Found at i:60601827 original size:89 final size:88
Alignment explanation
Indices: 60601723--60601894 Score: 229
Period size: 89 Copynumber: 1.9 Consensus size: 88
60601713 TTTGTGTTTT
* * *
60601723 CGTGTTTTCAAAAATTTTCATGTTTTAAAAA-TCTTCGTGTTTTTAAAAATTCCGGCGTTTCAAA
1 CGTGTTTTCAAAAATTTTCATGTTTCAAAAATTC-TCGTGTTTTCAAAAACTCCGGCGTTTC-AA
* *
60601787 AATTTTCGTGTTTTTAAAAAAAATA
64 AATTTTCATGTTTTCAAAAAAAATA
* * * * *
60601812 CGTGTTTTCACAAATTTTCGTGTTTCACAAATTCTCGTGTTTTCAAAAACTCCGGTGTTTCAAAG
1 CGTGTTTTCAAAAATTTTCATGTTTCAAAAATTCTCGTGTTTTCAAAAACTCCGGCGTTTCAAAA
60601877 TTTTCATGTTTTCAAAAA
66 TTTTCATGTTTTCAAAAA
60601895 TTCTCGCGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
88 19 0.26
89 51 0.71
90 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (88 bp):
CGTGTTTTCAAAAATTTTCATGTTTCAAAAATTCTCGTGTTTTCAAAAACTCCGGCGTTTCAAAA
TTTTCATGTTTTCAAAAAAAATA
Found at i:60601896 original size:52 final size:53
Alignment explanation
Indices: 60601779--60601922 Score: 152
Period size: 52 Copynumber: 2.7 Consensus size: 53
60601769 AAATTCCGGC
* *
60601779 GTTTCAAAAATTTTCGTGTTTTTAAAAAAAATACGTGTTTTCACAAATTTTCGT
1 GTTTCAAAAATTCTCGTG-TTTTAAAAAAAATACGTGTTTTCACAAATTTTCAT
* * * * *
60601833 GTTTCACAAATTCTCGTGTTTT-CAAAAACTCCG-GTGTTTCA-AAGTTTTCAT
1 GTTTCAAAAATTCTCGTGTTTTAAAAAAAATACGTGT-TTTCACAAATTTTCAT
* *
60601884 GTTTTCAAAAATTCTCGCG-TTTAAAAAAAATTCGTGTTT
1 G-TTTCAAAAATTCTCGTGTTTTAAAAAAAATACGTGTTT
60601923 CAAAATATTC
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
51 14 0.19
52 38 0.51
53 6 0.08
54 16 0.22
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (53 bp):
GTTTCAAAAATTCTCGTGTTTTAAAAAAAATACGTGTTTTCACAAATTTTCAT
Found at i:60602078 original size:18 final size:17
Alignment explanation
Indices: 60601719--60602077 Score: 143
Period size: 18 Copynumber: 21.0 Consensus size: 17
60601709 AAATTTTGTG
60601719 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTT-AAAAA
*
60601737 TTTTCATGTTTTAAAAA
1 TTTTCGTGTTTTAAAAA
*
60601754 TCTTCGTGTTTTTAAAAA
1 TTTTCGTG-TTTTAAAAA
* * *
60601772 -TTCCGGCGTTTCAAAAA
1 TTTTC-GTGTTTTAAAAA
60601789 TTTTCGTGTTTTTAAAAAA
1 TTTTCGTG-TTTT-AAAAA
** * *
60601808 AATACGTGTTTTCACAAA
1 TTTTCGTGTTTT-AAAAA
* *
60601826 TTTTCGTGTTTCACAAA
1 TTTTCGTGTTTTAAAAA
*
60601843 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTT-AAAAA
* * * *
60601861 -CTCCG-GTGTTTCAAAG
1 TTTTCGTGT-TTTAAAAA
*
60601877 TTTTCATGTTTTCAAAAA
1 TTTTCGTGTTTT-AAAAA
* * *
60601895 TTCTCGCGTTTAAAAAA
1 TTTTCGTGTTTTAAAAA
** *
60601912 AATTCGTG-TTTCAAAA
1 TTTTCGTGTTTTAAAAA
* * * *
60601928 TATTCTTGCATTT---CA
1 TTTTCGTG-TTTTAAAAA
* **
60601943 TTTT-TTGTTTTTTAAA
1 TTTTCGTGTTTTAAAAA
*
60601959 ---TCGTGTTTAAAAAAAA
1 TTTTCGTGTTT--TAAAAA
* *
60601975 ATGTCGTGTTTTAAAAA
1 TTTTCGTGTTTTAAAAA
60601992 TTTTCGT-TCTTCTAAAAA
1 TTTTCGTGT-TT-TAAAAA
*
60602010 TTTTCGCGTTTCT-AAAA
1 TTTTCGTGTTT-TAAAAA
*
60602027 TTTTCGTG-TTTACAAA
1 TTTTCGTGTTTTAAAAA
*
60602043 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTT-AAAAA
*
60602061 TTCTCGTGTTTTAAAAA
1 TTTTCGTGTTTTAAAAA
60602078 AAACTTTCGT
Statistics
Matches: 254, Mismatches: 60, Indels: 55
0.69 0.16 0.15
Matches are distributed among these distances:
13 4 0.02
14 8 0.03
15 5 0.02
16 34 0.13
17 88 0.35
18 96 0.38
19 19 0.07
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (17 bp):
TTTTCGTGTTTTAAAAA
Found at i:60609140 original size:14 final size:15
Alignment explanation
Indices: 60609118--60609147 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
60609108 TTAGATTAGT
60609118 TTTTATTTAAAAATA
1 TTTTATTTAAAAATA
60609133 TTTT-TTTAAAAATA
1 TTTTATTTAAAAATA
60609147 T
1 T
60609148 AATACACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTATTTAAAAATA
Found at i:60611625 original size:26 final size:27
Alignment explanation
Indices: 60611589--60611639 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
60611579 TTATTTTTTT
**
60611589 TATATAAAATA-AATTTAAAAATATAA
1 TATATAAAATACAATAAAAAAATATAA
*
60611615 TATATCAAATACAATAAAAAAATAT
1 TATATAAAATACAATAAAAAAATAT
60611640 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (27 bp):
TATATAAAATACAATAAAAAAATATAA
Found at i:60612737 original size:21 final size:21
Alignment explanation
Indices: 60612711--60612750 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
60612701 CAAAACGACG
60612711 TAGTTTT-ACCTTTTAACTTAA
1 TAGTTTTGA-CTTTTAACTTAA
60612732 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
60612751 TAGAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:60614457 original size:16 final size:16
Alignment explanation
Indices: 60614412--60614474 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
60614402 TTTGATAAAA
60614412 TTAAATATTAATT-TT
1 TTAAATATTAATTATT
* * *
60614427 TAAAATACTATTTATT
1 TTAAATATTAATTATT
*
60614443 TTAAATATTAATTATA
1 TTAAATATTAATTATT
60614459 TT-AATA-TAA-TATT
1 TTAAATATTAATTATT
60614472 TTA
1 TTA
60614475 TATTATTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
13 5 0.13
14 3 0.08
15 14 0.37
16 16 0.42
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAATATTAATTATT
Found at i:60614460 original size:18 final size:17
Alignment explanation
Indices: 60614412--60614488 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 17
60614402 TTTGATAAAA
60614412 TTAAATATTAA-TT-TT
1 TTAAATATTAATTTATT
* *
60614427 TAAAATACT-ATTTATT
1 TTAAATATTAATTTATT
60614443 TTAAATATTAATTATATT
1 TTAAATATTAATT-TATT
* *
60614461 AATATAATATTTTATATTATT
1 -TTA-AATA-TTAAT-TTATT
60614482 TTAAATA
1 TTAAATA
60614489 GTTTTAGATG
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
14 1 0.02
15 9 0.19
16 9 0.19
17 3 0.06
18 4 0.09
19 6 0.13
20 6 0.13
21 8 0.17
22 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAATATTAATTTATT
Found at i:60614813 original size:18 final size:19
Alignment explanation
Indices: 60614772--60614813 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
60614762 CCTTATTTAC
60614772 TATTAATAATTAATAAATG
1 TATTAATAATTAATAAATG
* *
60614791 T-TTAATAATT-CTCAATG
1 TATTAATAATTAATAAATG
60614808 TATTAA
1 TATTAA
60614814 AAAGTGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 13 0.65
19 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTAATAATTAATAAATG
Found at i:60615933 original size:32 final size:32
Alignment explanation
Indices: 60615887--60615952 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
60615877 ATTATAATCC
*
60615887 AATTAAGATGGGTGAAATGATAGTAAAATAGT
1 AATTAAGATAGGTGAAATGATAGTAAAATAGT
*
60615919 AATTAAGATAGGTGAAATTATAGTAAAATAGT
1 AATTAAGATAGGTGAAATGATAGTAAAATAGT
60615951 AA
1 AA
60615953 AAAAAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (32 bp):
AATTAAGATAGGTGAAATGATAGTAAAATAGT
Found at i:60617456 original size:17 final size:16
Alignment explanation
Indices: 60617431--60617475 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
60617421 TAAAATTAAG
60617431 AAAATAAAAAATAATA
1 AAAATAAAAAATAATA
* *
60617447 AAACATAAAAGATTATA
1 AAA-ATAAAAAATAATA
60617464 AAAACTAAAAAA
1 AAAA-TAAAAAA
60617476 ATTATAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAATAATA
Found at i:60637190 original size:16 final size:15
Alignment explanation
Indices: 60637160--60637195 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
60637150 TTATATTATC
60637160 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
60637175 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
60637191 TATAT
1 TATAT
60637196 AAGATCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:60638171 original size:16 final size:16
Alignment explanation
Indices: 60638152--60638188 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
60638142 TTTTAATAAT
60638152 TTAAATTT-AAATTTGG
1 TTAAATTTCAAA-TTGG
60638168 TTAAATTTCAAATTGG
1 TTAAATTTCAAATTGG
60638184 TTAAA
1 TTAAA
60638189 CCAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAAATTTCAAATTGG
Found at i:60649368 original size:45 final size:44
Alignment explanation
Indices: 60649279--60649373 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
60649269 TTACACCTCT
*
60649279 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
60649323 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
60649368 ATTACA
1 ATTACA
60649374 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:60649373 original size:16 final size:16
Alignment explanation
Indices: 60649354--60649405 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
60649344 GATTTGCTAT
* *
60649354 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
60649370 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60649386 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60649402 TACA
1 TACA
60649406 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60652872 original size:2 final size:2
Alignment explanation
Indices: 60652867--60652907 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
60652857 TCACACATTA
60652867 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
60652908 ACCATCACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:60655900 original size:14 final size:15
Alignment explanation
Indices: 60655851--60655902 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
60655841 ATAAAATATA
60655851 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
60655866 TATTAAATATATTAT
1 AATTAAATATATTAT
60655881 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
60655894 AATTTAATA
1 AATTAAATA
60655903 AAATTCTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:60655909 original size:104 final size:104
Alignment explanation
Indices: 60655801--60656011 Score: 352
Period size: 104 Copynumber: 2.0 Consensus size: 104
60655791 AATAATCAAT
*
60655801 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-AACATAATTA
1 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTGAA-ATAATTA
*
60655865 TTATTAAATATATTATAATTAAAATATATAATTTAATAAA
65 ATATTAAATATATTATAATTAAAATATATAATTTAATAAA
* *
60655905 ATTCTTATATGAATTTACTCAAATCATAATATTTGATACTATAAAAGATAATTTGAAATAATTAA
1 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTGAAATAATTAA
* *
60655970 TATTAAATATATTTTAATTAAAATATATGATTTAATAAA
66 TATTAAATATATTATAATTAAAATATATAATTTAATAAA
60656009 ATT
1 ATT
60656012 TAAAATAATT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 98 0.98
105 2 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (104 bp):
ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTGAAATAATTAA
TATTAAATATATTATAATTAAAATATATAATTTAATAAA
Found at i:60659298 original size:21 final size:20
Alignment explanation
Indices: 60659274--60659312 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
60659264 GTTAAAAATA
60659274 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
60659295 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
60659313 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:60667384 original size:73 final size:73
Alignment explanation
Indices: 60667160--60667375 Score: 344
Period size: 73 Copynumber: 2.9 Consensus size: 73
60667150 TCGAGCTTAG
* * **
60667160 AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGATATTATTTAAAAAC
1 AAAAGGGATCATGCCCAGTAAGTTAGGACACTATCTTTTCTTAATTCCCAATATCGTTT-AAAAC
60667225 TTGAGGAAA
65 TTGAGGAAA
* *
60667234 AAAAGGGATCATGCCCGGTAAGTTAGGACA-TGATCTTTTCTTAATTCCCAAGATCGTTTAAAAC
1 AAAAGGGATCATGCCCAGTAAGTTAGGACACT-ATCTTTTCTTAATTCCCAATATCGTTTAAAAC
60667298 TTGAGGAAA
65 TTGAGGAAA
*
60667307 AAAAGGGATCATGCCCAGTAAGTTAGGACACTATCTCTTCTTAATTCCCAATATCGTTTAAAACT
1 AAAAGGGATCATGCCCAGTAAGTTAGGACACTATCTTTTCTTAATTCCCAATATCGTTTAAAACT
60667372 TGAG
66 TGAG
60667376 TTTGAAAAGA
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
73 78 0.60
74 53 0.40
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (73 bp):
AAAAGGGATCATGCCCAGTAAGTTAGGACACTATCTTTTCTTAATTCCCAATATCGTTTAAAACT
TGAGGAAA
Found at i:60669485 original size:107 final size:107
Alignment explanation
Indices: 60669289--60669506 Score: 321
Period size: 107 Copynumber: 2.0 Consensus size: 107
60669279 AGTCTGTTCC
* *
60669289 ATCTGTGCCAGGGAAATAAGGTTTGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
1 ATCTGTGCCAGGGAAATAAGGTTCGTCAGGGAAGTAAGATTCGCTATTGTAGCTTCAATCTGTTC
*
60669354 CACTGCAACGCCAGGCCAACAAGATTAGCCGTTGTAGCTTCA
66 CACTGCAACGCCAGGCCAACAAGATTAGCCGTCGTAGCTTCA
* * *
60669396 ATCTGTGCCATGGAAGTAAGGTTCGTCAGGGGAGTAAGATTCGCTATTGTAGCTTCAATCTGTTC
1 ATCTGTGCCAGGGAAATAAGGTTCGTCAGGGAAGTAAGATTCGCTATTGTAGCTTCAATCTGTTC
* ** * *
60669461 CACTGCAACGCCAGG-GAGGTAAGATTCGCTGTCGTAGCTTCA
66 CACTGCAACGCCAGGCCA-ACAAGATTAGCCGTCGTAGCTTCA
60669503 ATCT
1 ATCT
60669507 TTTTAACTAC
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 1 0.01
107 98 0.99
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (107 bp):
ATCTGTGCCAGGGAAATAAGGTTCGTCAGGGAAGTAAGATTCGCTATTGTAGCTTCAATCTGTTC
CACTGCAACGCCAGGCCAACAAGATTAGCCGTCGTAGCTTCA
Found at i:60669498 original size:50 final size:50
Alignment explanation
Indices: 60669422--60669987 Score: 414
Period size: 50 Copynumber: 11.3 Consensus size: 50
60669412 TAAGGTTCGT
* * * *
60669422 CAGGGGAGTAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCAACGC
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
* * * * * *
60669472 CAGGGAGGTAAGATTCGCTGTCGTAGCTTCAATCTTTTTAACTACAATGT
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
** * * * * *
60669522 TGGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGTACCGC
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
* * * * * * *
60669572 CAGGAAAGTAAAATCCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGT
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
* * * * * * * * *
60669622 CGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTATTCCACTACACCGC
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
* * * * * * * * *
60669672 CAGGAAAATAATATCCGTTGTTGTAGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
* * * * * * * * *
60669722 CGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCAC
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
** * * * * *
60669772 CAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
* * * * *
60669822 CAGGGAAGCAAGATTCGCCT-TTGTAGCTTCAATCTGTTCCACTACACCGC
1 CAGGGAAGTAAGATTCG-CTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
* * * * * * *
60669872 CTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
* * ** * * * *
60669922 CGGGGAAGCAAGATTCATTGTTGTAGCTTCAATCTATTCTACTGCACCAC
1 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
60669972 CAGGGAAGTAAGATTC
1 CAGGGAAGTAAGATTC
60669988 ACCATTGTGG
Statistics
Matches: 371, Mismatches: 143, Indels: 4
0.72 0.28 0.01
Matches are distributed among these distances:
49 1 0.00
50 368 0.99
51 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAACGC
Found at i:60669598 original size:100 final size:100
Alignment explanation
Indices: 60669431--60670018 Score: 710
Period size: 100 Copynumber: 5.9 Consensus size: 100
60669421 TCAGGGGAGT
* * * * * * * *
60669431 AAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAGGTAAGATTCGCTGTCGT
1 AAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
* * * *
60669496 AGCTTCAATCTTTTTAACTACAATGTTGGGGAAGT
66 AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
** * *
60669531 AAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGTACCGCCAGGAAAGTAAAATCCACTGTTGT
1 AAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
*
60669596 AGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGC
66 AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * * * * *
60669631 AAGATTCGCCGTTGTGGCTTTAATCTATTCCACTACACCGCCAGGAAAATAATATCCGTTGTTGT
1 AAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
*
60669696 AGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGC
66 AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * *
60669731 AAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCACCAGAAAAGTAAGATCCGCTGTTGT
1 AAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
* *
60669796 AGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGC
66 AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * *
60669831 AAGATTCGCCT-TTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGCCGTTG
1 AAGATTC-ACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTG
*
60669895 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
65 TAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * * * * * **
60669931 AAGATTCATTGTTGTAGCTTCAATCTATTCTACTGCACCACCAGGGAAGTAAGATTCACCATTGT
1 AAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
* * *
60669996 GGCTTTAATATTTTTAATTGCAA
66 AGCTTCAATCTTTTTAATTGCAA
60670019 CATCAGGGGT
Statistics
Matches: 428, Mismatches: 58, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
99 1 0.00
100 426 1.00
101 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (100 bp):
AAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
Found at i:60669747 original size:200 final size:200
Alignment explanation
Indices: 60669420--60670018 Score: 793
Period size: 200 Copynumber: 3.0 Consensus size: 200
60669410 AGTAAGGTTC
* * * * * *
60669420 GTCAGGGGAGTAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAGGTAAGA
1 GTCAGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGA
* * * * *
60669485 TTCGCTGTCGTAGCTTCAATCTTTTTAACTACAATGTTGGGGAAGTAAGATTCACTGTTGTAGCT
66 TTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACTGTTGTAGCT
* * * *
60669550 TCAATCTGTTCCACTGTACCGCCAGGAAAGTAAAATCCACTGTTGTAGCTTCAATCTTTTTAACT
131 TCAATCTGTTCCACTGCACCACCAGGAAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATT
60669615 GCAAT
196 GCAAT
* * * * * * * *
60669620 GTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTATTCCACTACACCGCCAGGAAAATAATA
1 GTCAGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGA
* * * *
60669685 TCCGTTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCT
66 TTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACTGTTGTAGCT
* * * *
60669750 TCAATCTGTTCCACTACACCACCAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAAATT
131 TCAATCTGTTCCACTGCACCACCAGGAAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATT
60669815 GCAAT
196 GCAAT
* *
60669820 GTCAGGGAAGCAAGATTCGCCTTTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGA
1 GTCAGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGA
* * *
60669885 TTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCATTGTTGTAGCT
66 TTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACTGTTGTAGCT
* * * * ** * * *
60669950 TCAATCTATTCTACTGCACCACCAGGGAAGTAAGATTCACCATTGTGGCTTTAATATTTTTAATT
131 TCAATCTGTTCCACTGCACCACCAGGAAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATT
60670015 GCAA
196 GCAA
60670019 CATCAGGGGT
Statistics
Matches: 339, Mismatches: 60, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
200 339 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (200 bp):
GTCAGGGAAGCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGA
TTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACTGTTGTAGCT
TCAATCTGTTCCACTGCACCACCAGGAAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATT
GCAAT
Found at i:60670327 original size:24 final size:24
Alignment explanation
Indices: 60670295--60670352 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
60670285 CAGCTTGCCC
* *
60670295 CCACTGTAATATTCAATGTCCGAT
1 CCACTGTAATATTCAAAGTCCAAT
* *
60670319 CCACTGTAATTTTCAAAGTTCAAT
1 CCACTGTAATATTCAAAGTCCAAT
60670343 CCACTGTAAT
1 CCACTGTAAT
60670353 CTCTGGGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (24 bp):
CCACTGTAATATTCAAAGTCCAAT
Found at i:60675764 original size:74 final size:73
Alignment explanation
Indices: 60675649--60675791 Score: 232
Period size: 74 Copynumber: 1.9 Consensus size: 73
60675639 TTGAGTTTAG
* * * *
60675649 AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAAAC
1 AAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCAAGATCGTTT-AAAAC
60675714 TTGAGGAAA
65 TTGAGGAAA
*
60675723 AAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCTCAAGATCGTTTAAAACT
1 AAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCAAGATCGTTTAAAACT
60675788 TGAG
66 TGAG
60675792 TTTGAAAAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
73 10 0.16
74 54 0.84
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (73 bp):
AAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCAAGATCGTTTAAAACT
TGAGGAAA
Found at i:60678386 original size:24 final size:24
Alignment explanation
Indices: 60678353--60678570 Score: 195
Period size: 24 Copynumber: 8.6 Consensus size: 24
60678343 GCAATATAGG
60678353 AGGAAGTGGTGGAATTGGTAAGCT
1 AGGAAGTGGTGGAATTGGTAAGCT
*
60678377 GGGAAGTGGTGGAATTGGTAAGCT
1 AGGAAGTGGTGGAATTGGTAAGCT
* * *
60678401 GGGAAGTGGTGGAAGAATGGGGGTAAGGTT
1 AGGAAGTGGT-G--GAAT--TGGTAA-GCT
*
60678431 AGGAAGTGGTGGAATTGGTAATCT
1 AGGAAGTGGTGGAATTGGTAAGCT
* **
60678455 GGGAAGTGGTGGAATTGGTACTCT
1 AGGAAGTGGTGGAATTGGTAAGCT
60678479 AGGAAGTGGTGGAATTGGTACA-CT
1 AGGAAGTGGTGGAATTGGTA-AGCT
* *
60678503 AGGAAGTGGTGGAAGAATGGGGGTAAGGTT
1 AGGAAGTGGT-G--GAAT--TGGTAA-GCT
**
60678533 AGGAAGTGGTGGAATTGGTACTCT
1 AGGAAGTGGTGGAATTGGTAAGCT
*
60678557 AGGAAATGGTGGAA
1 AGGAAGTGGTGGAA
60678571 GAGTAGTTAC
Statistics
Matches: 162, Mismatches: 18, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
24 101 0.62
25 11 0.07
27 16 0.10
28 1 0.01
29 11 0.07
30 22 0.14
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (24 bp):
AGGAAGTGGTGGAATTGGTAAGCT
Found at i:60678439 original size:54 final size:54
Alignment explanation
Indices: 60678378--60678572 Score: 253
Period size: 54 Copynumber: 3.7 Consensus size: 54
60678368 TGGTAAGCTG
* *
60678378 GGAAGTGGTGGAATTGGTAAGCTGGGAAGTGGTGGAAGAATGGGGGTAAGGTTA
1 GGAAGTGGTGGAATTGGTAATCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTA
* * *
60678432 GGAAGTGGTGGAATTGGTAATCTGGGAAGTGGT-G--GAAT--TGGT-A-CTCTA
1 GGAAGTGGTGGAATTGGTAATCTAGGAAGTGGTGGAAGAATGGGGGTAAGGT-TA
60678480 GGAAGTGGTGGAATTGGTACA-CTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTA
1 GGAAGTGGTGGAATTGGTA-ATCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTA
* *
60678534 GGAAGTGGTGGAATTGGTACTCTAGGAAATGGTGGAAGA
1 GGAAGTGGTGGAATTGGTAATCTAGGAAGTGGTGGAAGA
60678573 GTAGTTACTT
Statistics
Matches: 123, Mismatches: 8, Indels: 20
0.81 0.05 0.13
Matches are distributed among these distances:
47 1 0.01
48 33 0.27
49 5 0.04
51 8 0.07
53 4 0.03
54 71 0.58
55 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (54 bp):
GGAAGTGGTGGAATTGGTAATCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTA
Found at i:60678472 original size:102 final size:102
Alignment explanation
Indices: 60678353--60678570 Score: 357
Period size: 102 Copynumber: 2.1 Consensus size: 102
60678343 GCAATATAGG
* *
60678353 AGGAAGTGGTGGAATTGGTAAGCTGGGAAGTGGTGGAATTGGTA-AGCTGGGAAGTGGTGGAAGA
1 AGGAAGTGGTGGAATTGGTAAGCTAGGAAGTGGTGGAATTGGTACA-CTAGGAAGTGGTGGAAGA
60678417 ATGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTAATCT
65 ATGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTAATCT
* **
60678455 GGGAAGTGGTGGAATTGGTACTCTAGGAAGTGGTGGAATTGGTACACTAGGAAGTGGTGGAAGAA
1 AGGAAGTGGTGGAATTGGTAAGCTAGGAAGTGGTGGAATTGGTACACTAGGAAGTGGTGGAAGAA
*
60678520 TGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTACTCT
66 TGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTAATCT
*
60678557 AGGAAATGGTGGAA
1 AGGAAGTGGTGGAA
60678571 GAGTAGTTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 106 0.99
103 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.44, T:0.24
Consensus pattern (102 bp):
AGGAAGTGGTGGAATTGGTAAGCTAGGAAGTGGTGGAATTGGTACACTAGGAAGTGGTGGAAGAA
TGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTAATCT
Found at i:60681622 original size:196 final size:196
Alignment explanation
Indices: 60681277--60681636 Score: 567
Period size: 196 Copynumber: 1.8 Consensus size: 196
60681267 CTCAGTCGAA
* * * * *
60681277 TAGGTTCGACCTAAATTTGGCGAGCTACATTAGCCACCGAAGTGACTTTCCATTAACTCCCAATC
1 TAGGTTCGACCCAAATTTGGAGAGCTACATTAGCCACCGAAGTGACTCTCCATCAACTCCCAACC
* * *
60681342 TAACCTCTAACACACCACTTACTTGCAACGTATATTATGATAAGTTATATAATAACAATGGAATA
66 TAACCTCCAACACACCACTTACTTGCAACGTATATTATGATAAGTTATAGAATAACAATGAAATA
* * *
60681407 ATATAATACATATAATGTAAATCATGCAAGCTTAAAACCAATGTAACACCCCAAAACCCGGCTGA
131 ATATAACACATAGAATGTAAATCATGCAACCTTAAAACCAATGTAACACCCCAAAACCCGGCTGA
60681472 G
196 G
*
60681473 TAGGTTCGACCCAAATTTGGAGAGTTACATTAGCCACCGAAGTGACTCTCCATCAACTCCCAACC
1 TAGGTTCGACCCAAATTTGGAGAGCTACATTAGCCACCGAAGTGACTCTCCATCAACTCCCAACC
* * *
60681538 TAACCTCCAACACACCACTTACTTGCAACGTATGTTATGATAAGTTATAGCATAACAGTGAAATA
66 TAACCTCCAACACACCACTTACTTGCAACGTATATTATGATAAGTTATAGAATAACAATGAAATA
* *
60681603 ATATCACATATAGAATGTAAATCATGCAACCTTA
131 ATATAACACATAGAATGTAAATCATGCAACCTTA
60681637 TCAAACAAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
196 147 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (196 bp):
TAGGTTCGACCCAAATTTGGAGAGCTACATTAGCCACCGAAGTGACTCTCCATCAACTCCCAACC
TAACCTCCAACACACCACTTACTTGCAACGTATATTATGATAAGTTATAGAATAACAATGAAATA
ATATAACACATAGAATGTAAATCATGCAACCTTAAAACCAATGTAACACCCCAAAACCCGGCTGA
G
Found at i:60682240 original size:18 final size:18
Alignment explanation
Indices: 60682217--60682251 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60682207 TATCGCGTGT
60682217 TGGGTTCGCAGTGAATGC
1 TGGGTTCGCAGTGAATGC
60682235 TGGGTTCGCAGTGAATG
1 TGGGTTCGCAGTGAATG
60682252 TGCGAGACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.14, G:0.40, T:0.29
Consensus pattern (18 bp):
TGGGTTCGCAGTGAATGC
Found at i:60682848 original size:13 final size:13
Alignment explanation
Indices: 60682830--60682874 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
60682820 GGAGCATACG
60682830 TAAAACATATCTT
1 TAAAACATATCTT
*
60682843 TAAAACATAGC-T
1 TAAAACATATCTT
60682855 TAAAACATATCTT
1 TAAAACATATCTT
*
60682868 GAAAACA
1 TAAAACA
60682875 AATTATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (13 bp):
TAAAACATATCTT
Found at i:60686278 original size:28 final size:26
Alignment explanation
Indices: 60686216--60686282 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
60686206 GCCATGTTAG
* *
60686216 AAAATCATAAAATATTAAAAAATTAC
1 AAAATTATAAAATATTAAAAAATAAC
60686242 AAAAGTTATAAAAT-TATATAAAAATGAAC
1 AAAA-TTATAAAATAT-TA-AAAAAT-AAC
60686271 AAAATTATAAAA
1 AAAATTATAAAA
60686283 AGTAGTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 5 0.14
27 10 0.29
28 14 0.40
29 6 0.17
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (26 bp):
AAAATTATAAAATATTAAAAAATAAC
Found at i:60688098 original size:18 final size:17
Alignment explanation
Indices: 60688075--60688123 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
60688065 GTTAGTGAAC
*
60688075 AAAAATATATAAATATA
1 AAAAATAAATAAATATA
*
60688092 AATAAATAAATATATATA
1 AA-AAATAAATAAATATA
60688110 AAAAATAAAATAAA
1 AAAAAT-AAATAAA
60688124 GTGAATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATAAATAAATATA
Found at i:60688100 original size:14 final size:14
Alignment explanation
Indices: 60688077--60688123 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
60688067 TAGTGAACAA
*
60688077 AAATATATAAATAT
1 AAATAAATAAATAT
60688091 AAATAAATAAATAT
1 AAATAAATAAATAT
*
60688105 ATATAAA-AAATA-
1 AAATAAATAAATAT
60688117 AAATAAA
1 AAATAAA
60688124 GTGAATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
12 6 0.20
13 5 0.17
14 19 0.63
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAAATAAATAT
Found at i:60689658 original size:28 final size:26
Alignment explanation
Indices: 60689620--60689706 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 26
60689610 ACTTTTTTTA
*
60689620 TTATAAATTTTATGCTTTTTATAATATT
1 TTATAACTTTTATG-TTTTTA-AATATT
** *
60689648 TTATATGTTTTAGTATTTTTAAAATATT
1 TTATAACTTTTA-TGTTTTT-AAATATT
60689676 TTAATAACTTTCTATGTTTTTAAATATT
1 TT-ATAACTTT-TATGTTTTTAAATATT
60689704 TTA
1 TTA
60689707 ATTTTTTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 1 0.02
28 32 0.65
29 14 0.29
30 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (26 bp):
TTATAACTTTTATGTTTTTAAATATT
Found at i:60689723 original size:28 final size:28
Alignment explanation
Indices: 60689635--60689723 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
60689625 AATTTTATGC
* *
60689635 TTTTTATAATATTTT-ATATGTTTTAGTAT
1 TTTTTA-AATATTTTAAT-TATTTTACTAT
* * *
60689664 TTTTAAAATATTTTAATAACTTT-CTAT
1 TTTTTAAATATTTTAATTATTTTACTAT
* *
60689691 GTTTTTAAATATTTTAATTTTTTTACCAT
1 -TTTTTAAATATTTTAATTATTTTACTAT
60689720 TTTT
1 TTTT
60689724 ATTTTTTAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
27 3 0.06
28 34 0.72
29 10 0.21
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTTTAAATATTTTAATTATTTTACTAT
Found at i:60689776 original size:10 final size:10
Alignment explanation
Indices: 60689761--60689806 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
60689751 CCAATTTTCT
60689761 ATATTTTATA
1 ATATTTTATA
60689771 ATATTTTTAATA
1 ATA-TTTT-ATA
60689783 ATATTTTAT-
1 ATATTTTATA
60689792 ATA-TTTA-A
1 ATATTTTATA
60689800 ATATTTT
1 ATATTTT
60689807 TTCATAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.22
9 6 0.19
10 5 0.16
11 8 0.25
12 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTTTATA
Found at i:60689827 original size:29 final size:30
Alignment explanation
Indices: 60689760--60689835 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
60689750 TCCAATTTTC
*
60689760 TATA-TTTTATAATA-TTTTTAATAATATTT
1 TATATTTTTA-AATATTTTTTAATAATATTA
* *
60689789 TATATATTTAAATATTTTTTCATAAT-TTA
1 TATATTTTTAAATATTTTTTAATAATATTA
*
60689818 TATGTTTTTAAA-ATTTTT
1 TATATTTTTAAATATTTTT
60689836 ATTTTAGTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.15
29 20 0.50
30 14 0.35
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (30 bp):
TATATTTTTAAATATTTTTTAATAATATTA
Found at i:60689894 original size:18 final size:18
Alignment explanation
Indices: 60689867--60689980 Score: 81
Period size: 18 Copynumber: 6.3 Consensus size: 18
60689857 TTTCACAATT
60689867 TTTA-ATAATTTTTATAA
1 TTTATATAATTTTTATAA
* **
60689884 TTTATATAATTTTTTTCG
1 TTTATATAATTTTTATAA
* *
60689902 TCTATAATCATTTTTATAA
1 TTTAT-ATAATTTTTATAA
* *
60689921 TTTATATATATATTTGTAA
1 TTTATATA-ATTTTTATAA
60689940 TTT-TAT-ATATTTTATAA
1 TTTATATAAT-TTTTATAA
* ** *
60689957 TTTTTGCAATTTTTATAT
1 TTTATATAATTTTTATAA
60689975 TTTATA
1 TTTATA
60689981 AAATAATTTT
Statistics
Matches: 72, Mismatches: 19, Indels: 11
0.71 0.19 0.11
Matches are distributed among these distances:
16 2 0.03
17 13 0.18
18 31 0.43
19 26 0.36
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTATATAATTTTTATAA
Found at i:60689928 original size:9 final size:8
Alignment explanation
Indices: 60689913--60689981 Score: 52
Period size: 9 Copynumber: 8.0 Consensus size: 8
60689903 CTATAATCAT
60689913 TTTTATAA
1 TTTTATAA
60689921 TTTATATATA
1 TTT-TATA-A
*
60689931 TATTTGTAA
1 T-TTTATAA
60689940 TTTTATATA
1 TTTTATA-A
60689949 TTTTATAA
1 TTTTATAA
60689957 TTTT-TGCAA
1 TTTTAT--AA
60689966 TTTT-TATA
1 TTTTATA-A
60689974 TTTTATAA
1 TTTTATAA
60689982 AATAATTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
7 2 0.04
8 19 0.37
9 23 0.45
10 5 0.10
11 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTATAA
Found at i:60689955 original size:27 final size:26
Alignment explanation
Indices: 60689913--60689981 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
60689903 CTATAATCAT
*
60689913 TTTTATA-ATTTATATATATATTTGTAA
1 TTTTATATATTT-TATA-ATATTTGCAA
*
60689940 TTTTATATATTTTATAATTTTTGCAA
1 TTTTATATATTTTATAATATTTGCAA
60689966 TTTT-TATATTTTATAA
1 TTTTATATATTTTATAA
60689982 AATAATTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 12 0.31
26 12 0.31
27 11 0.28
28 4 0.10
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATATATTTTATAATATTTGCAA
Found at i:60691802 original size:27 final size:27
Alignment explanation
Indices: 60691758--60691822 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
60691748 ACAATGGAGG
* *
60691758 TGGCAATGGTACCGGTAAATATGCAAA
1 TGGCAATGGTACCAGTAAAGATGCAAA
* * **
60691785 TGGCAATGGTACTAGTAAAGATGGAGG
1 TGGCAATGGTACCAGTAAAGATGCAAA
60691812 TGGCAATGGTA
1 TGGCAATGGTA
60691823 TTGGTGGCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (27 bp):
TGGCAATGGTACCAGTAAAGATGCAAA
Found at i:60692992 original size:24 final size:24
Alignment explanation
Indices: 60692965--60693012 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
60692955 ATGAAAAGTT
*
60692965 ATATAAAATTTC-TAAAAATAAAAA
1 ATAT-AAATTTCAAAAAAATAAAAA
*
60692989 ATATAATTTTCAAAAAAATAAAAA
1 ATATAAATTTCAAAAAAATAAAAA
60693013 TATTTTAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
ATATAAATTTCAAAAAAATAAAAA
Found at i:60696314 original size:27 final size:27
Alignment explanation
Indices: 60696276--60696429 Score: 108
Period size: 27 Copynumber: 5.8 Consensus size: 27
60696266 AGGAGGTTAC
60696276 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATTAAGAATTTAAATT
* *
60696303 AAATTAGGATAATT-AGAGTTTTAAATT
1 AAATTAAGATAATTAAGA-ATTTAAATT
* *
60696330 AGA-TAAGATAATTAGGAATTT-AATT
1 AAATTAAGATAATTAAGAATTTAAATT
* * * *
60696355 -AA-TAGGTTAAATAA-AATTATAGATTT
1 AAATTAAGATAATTAAGAATT-TA-AATT
* * *
60696381 TAGTTAAAGATAATTAAGAGTTTAAATT
1 AAATT-AAGATAATTAAGAATTTAAATT
60696409 AAATT-AGTATAATTAA-AATTT
1 AAATTAAG-ATAATTAAGAATTT
60696430 TAATATATTT
Statistics
Matches: 96, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
23 4 0.04
24 10 0.10
25 4 0.04
26 24 0.25
27 34 0.35
28 7 0.07
29 10 0.10
30 3 0.03
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (27 bp):
AAATTAAGATAATTAAGAATTTAAATT
Found at i:60696352 original size:53 final size:54
Alignment explanation
Indices: 60696280--60696435 Score: 176
Period size: 53 Copynumber: 2.9 Consensus size: 54
60696270 GGTTACAAAT
* *
60696280 TAAGATAATTAAGAATTTAAATTAAATTAGGATAATTAGAGTTTTAA-ATTAGA
1 TAAGATAATTAAGAATTTAAATTAAATTAGGATAATTAAAATTTTAATATTAGA
* * * * * *
60696333 TAAGATAATTAGGAATTT-AATT-AA-TAGGTTAAATAAAATTATAGATTTTAGT
1 TAAGATAATTAAGAATTTAAATTAAATTAGGATAATTAAAATTTTA-ATATTAGA
* *
60696385 TAAAGATAATTAAGAGTTTAAATTAAATTAGTATAATTAAAATTTTAATAT
1 T-AAGATAATTAAGAATTTAAATTAAATTAGGATAATTAAAATTTTAATAT
60696436 ATTTAAAAAG
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
50 14 0.17
51 3 0.04
52 9 0.11
53 32 0.39
54 4 0.05
55 5 0.06
56 15 0.18
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (54 bp):
TAAGATAATTAAGAATTTAAATTAAATTAGGATAATTAAAATTTTAATATTAGA
Found at i:60696395 original size:23 final size:22
Alignment explanation
Indices: 60696360--60696404 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
60696350 TAATTAATAG
* *
60696360 GTTAAATAAAATTATAGATTTTA
1 GTTAAAGAAAATTA-AGAGTTTA
*
60696383 GTTAAAGATAATTAAGAGTTTA
1 GTTAAAGAAAATTAAGAGTTTA
60696405 AATTAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (22 bp):
GTTAAAGAAAATTAAGAGTTTA
Found at i:60697502 original size:168 final size:168
Alignment explanation
Indices: 60697224--60697564 Score: 558
Period size: 168 Copynumber: 2.0 Consensus size: 168
60697214 CTTTGGGAAC
* *
60697224 TCATGTTTATGTTCCTTACCCTCATCTTGCTTTTTCTTGTATTCGGGTATTTCCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGAC
* *
60697289 TTCGTGTTTCTGGTGCTCTTTAGGCTTTTCTAATTTAGGGAACTCGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTAGGGAACTCGGGTTTTTCTTTCTCGTACT
*
60697354 CTTCGTGCTCCTTCGATTCGCGTGATTCGTGGTACTCT
131 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
* *
60697392 TCATGTTTATGTTCCTTGCCCTCATCTTG-TTTTACCTTGTACTCGGGTATTTTCGGATATTCGA
1 TCATGTTTATGTTCCTTACCCTCATCTTGCTTTT-CCTTGTACTCGGGTATTTCCGGATATTCGA
* *
60697456 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAACTCGGGTTTTTCTTTCTCGTAC
65 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTAGGGAACTCGGGTTTTTCTTTCTCGTAC
* * *
60697521 TCTTTGTGCTCCTTTGATTCGTGTGACTCGTGGTACTCT
130 TCTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
60697560 TCATG
1 TCATG
60697565 CTGTTTGCAG
Statistics
Matches: 160, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
167 4 0.03
168 156 0.98
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (168 bp):
TCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGAC
TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTAGGGAACTCGGGTTTTTCTTTCTCGTACT
CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
Found at i:60708978 original size:54 final size:54
Alignment explanation
Indices: 60708914--60709022 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
60708904 GAATTATGTG
*
60708914 AACATGAATTGAGTTGTTAATTTTGCAAATTAGGCATGGTATGAATGATTGTAT
1 AACATGAATTGAGTTGTTAATTTTGAAAATTAGGCATGGTATGAATGATTGTAT
* * * * *
60708968 AACATTAATTGATTTGTTAATTTTTAAAATTGGGCATGGTTTGAATGATTGTAT
1 AACATGAATTGAGTTGTTAATTTTGAAAATTAGGCATGGTATGAATGATTGTAT
60709022 A
1 A
60709023 TGATATGGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (54 bp):
AACATGAATTGAGTTGTTAATTTTGAAAATTAGGCATGGTATGAATGATTGTAT
Found at i:60711713 original size:18 final size:18
Alignment explanation
Indices: 60711692--60711729 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
60711682 GGAAACAAAC
60711692 AAGAAAAAAGAAAAAGAA
1 AAGAAAAAAGAAAAAGAA
* *
60711710 AAGATAAAAGAAATAGAA
1 AAGAAAAAAGAAAAAGAA
60711728 AA
1 AA
60711730 CTAAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (18 bp):
AAGAAAAAAGAAAAAGAA
Found at i:60715802 original size:54 final size:54
Alignment explanation
Indices: 60715737--60715845 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
60715727 GAATTATGTG
*
60715737 AACATGAATTGAGTTGTTAATTTTGCAAATTGGGCATGGTATGAATGATTGTAT
1 AACATGAATTGAGTTGTTAATTTTGAAAATTGGGCATGGTATGAATGATTGTAT
* * * *
60715791 AACATTAATTGATTTGTTAATTTTTAAAATTGGGCATGGTTTGAATGATTGTAT
1 AACATGAATTGAGTTGTTAATTTTGAAAATTGGGCATGGTATGAATGATTGTAT
60715845 A
1 A
60715846 TGATATGGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (54 bp):
AACATGAATTGAGTTGTTAATTTTGAAAATTGGGCATGGTATGAATGATTGTAT
Found at i:60719206 original size:26 final size:26
Alignment explanation
Indices: 60719131--60719283 Score: 82
Period size: 27 Copynumber: 5.8 Consensus size: 26
60719121 AGGAGGTTAC
*
60719131 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
* * *
60719158 AAATTAGGATATTTAGATTTTTAATTT
1 AAATTAAGATAATTAGA-ATTTAATTT
*
60719185 AGA-TAAGATAATTAGGAATTTAA-TT
1 AAATTAAGATAATTA-GAATTTAATTT
* * * *
60719210 -AA-TAGGTTAAATAAAATTTTAGATTT
1 AAATTAAGATAATTAGAA-TTTA-ATTT
* * * *
60719236 TAGTTAAGATAATTAATAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
*
60719263 AAATT-AGTATAATTAAAATTT
1 AAATTAAG-ATAATTAGAATTT
60719284 TAATATATTT
Statistics
Matches: 95, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
23 2 0.02
24 13 0.14
25 3 0.03
26 27 0.28
27 36 0.38
28 11 0.12
29 3 0.03
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (26 bp):
AAATTAAGATAATTAGAATTTAATTT
Found at i:60719244 original size:52 final size:52
Alignment explanation
Indices: 60719134--60719287 Score: 168
Period size: 52 Copynumber: 2.9 Consensus size: 52
60719124 AGGTTACAAA
** * *
60719134 TTAAGATAATTAAGAATTTAAATTAAATTAGGATATTTAGATTTTTAATTTAG
1 TTAAGATAATTAAGAATTTAAATT-AATTAGGATAAATAAAATTTTAATTTAG
* * *
60719187 ATAAGATAATTAGGAATTT-AATTAA-TAGGTTAAATAAAATTTTAGATTTTAG
1 TTAAGATAATTAAGAATTTAAATTAATTAGGATAAATAAAATTTTA-A-TTTAG
* * *
60719239 TTAAGATAATTAATAATTTAAATTAAATTAGTATAATTAAAATTTTAAT
1 TTAAGATAATTAAGAATTTAAATT-AATTAGGATAAATAAAATTTTAAT
60719288 ATATTTAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 10
0.78 0.12 0.09
Matches are distributed among these distances:
50 14 0.17
51 3 0.04
52 25 0.30
53 22 0.27
54 3 0.04
55 16 0.19
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.44
Consensus pattern (52 bp):
TTAAGATAATTAAGAATTTAAATTAATTAGGATAAATAAAATTTTAATTTAG
Found at i:60720774 original size:168 final size:168
Alignment explanation
Indices: 60720100--60720771 Score: 1139
Period size: 168 Copynumber: 4.0 Consensus size: 168
60720090 GCTTTTGGAA
*
60720100 CTCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
1 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* *
60720165 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTAC
66 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCACTTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
60720230 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
131 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
* *
60720268 CTCATGTTTATGTTCCTTGCCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
1 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* * * *
60720333 CTTCATGTTTCTCGTGCTCTTTGGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTAC
66 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCACTTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
60720398 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
131 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
*
60720436 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGA
1 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* *
60720501 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAACTCGGGTTTTTCTTTCTCGTAC
66 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCACTTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* * * *
60720566 TCTTTGTGCTCCTTCGATTCGCGTGATTCGTGGTACTC
131 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
*
60720604 TTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
1 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
*
60720669 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAAC-TTGGGGAACTCGGGTTTTTCTTTCTCGTA
66 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCC-ACTTTGGGGAAATCGGGTTTTTCTTTCTCGTA
* * *
60720733 CTCTTTGTGCTCCTTCGATTTGTGTGACTCGTGGTACTC
130 CTCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
60720772 TTCCTGTTGC
Statistics
Matches: 481, Mismatches: 22, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
168 480 1.00
169 1 0.00
ACGTcount: A:0.10, C:0.25, G:0.20, T:0.45
Consensus pattern (168 bp):
CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCACTTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
Found at i:60721593 original size:10 final size:10
Alignment explanation
Indices: 60721578--60721605 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
60721568 AATTTCCATA
60721578 AAATTATGAT
1 AAATTATGAT
60721588 AAATTATGAT
1 AAATTATGAT
60721598 AAATTATG
1 AAATTATG
60721606 TATTAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (10 bp):
AAATTATGAT
Found at i:60722167 original size:21 final size:21
Alignment explanation
Indices: 60722143--60722196 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
60722133 TGCCTTTATA
60722143 CATTATAGGCAAAAATTGGCT
1 CATTATAGGCAAAAATTGGCT
60722164 CATTATAGGCAAAAATTGGCT
1 CATTATAGGCAAAAATTGGCT
60722185 CATTGA-AGGCAA
1 CATT-ATAGGCAA
60722197 CTCAAACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (21 bp):
CATTATAGGCAAAAATTGGCT
Found at i:60722348 original size:2 final size:2
Alignment explanation
Indices: 60722343--60722378 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
60722333 CATAAAAAAA
60722343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60722379 GGTCAATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60728297 original size:17 final size:17
Alignment explanation
Indices: 60728247--60728298 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
60728237 AATTAGTAAC
60728247 AAAAATGAAAG-ACGAA
1 AAAAATGAAAGAACGAA
* * *
60728263 GAAAA-GAAACAAAGGAA
1 AAAAATGAAA-GAACGAA
60728280 AAAAATGAAAGAACGAA
1 AAAAATGAAAGAACGAA
60728297 AA
1 AA
60728299 CAAAATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 15 0.56
18 4 0.15
ACGTcount: A:0.71, C:0.06, G:0.19, T:0.04
Consensus pattern (17 bp):
AAAAATGAAAGAACGAA
Found at i:60737817 original size:26 final size:26
Alignment explanation
Indices: 60737742--60737894 Score: 82
Period size: 27 Copynumber: 5.8 Consensus size: 26
60737732 AGGAGGTTAC
*
60737742 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
* * *
60737769 AAATTAGGATATTTAGATTTTTAATTT
1 AAATTAAGATAATTAGA-ATTTAATTT
*
60737796 AGA-TAAGATAATTAGGAATTTAA-TT
1 AAATTAAGATAATTA-GAATTTAATTT
* * * *
60737821 -AA-TAGGTTAAATAAAATTTTAGATTT
1 AAATTAAGATAATTAGAA-TTTA-ATTT
* * * *
60737847 TAGTTAAGATAATTAATAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
*
60737874 AAATT-AGTATAATTAAAATTT
1 AAATTAAG-ATAATTAGAATTT
60737895 TAATATATTT
Statistics
Matches: 95, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
23 2 0.02
24 13 0.14
25 3 0.03
26 27 0.28
27 36 0.38
28 11 0.12
29 3 0.03
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (26 bp):
AAATTAAGATAATTAGAATTTAATTT
Found at i:60737855 original size:52 final size:52
Alignment explanation
Indices: 60737745--60737898 Score: 168
Period size: 52 Copynumber: 2.9 Consensus size: 52
60737735 AGGTTACAAA
** * *
60737745 TTAAGATAATTAAGAATTTAAATTAAATTAGGATATTTAGATTTTTAATTTAG
1 TTAAGATAATTAAGAATTTAAATT-AATTAGGATAAATAAAATTTTAATTTAG
* * *
60737798 ATAAGATAATTAGGAATTT-AATTAA-TAGGTTAAATAAAATTTTAGATTTTAG
1 TTAAGATAATTAAGAATTTAAATTAATTAGGATAAATAAAATTTTA-A-TTTAG
* * *
60737850 TTAAGATAATTAATAATTTAAATTAAATTAGTATAATTAAAATTTTAAT
1 TTAAGATAATTAAGAATTTAAATT-AATTAGGATAAATAAAATTTTAAT
60737899 ATATTTAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 10
0.78 0.12 0.09
Matches are distributed among these distances:
50 14 0.17
51 3 0.04
52 25 0.30
53 22 0.27
54 3 0.04
55 16 0.19
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.44
Consensus pattern (52 bp):
TTAAGATAATTAAGAATTTAAATTAATTAGGATAAATAAAATTTTAATTTAG
Found at i:60738989 original size:168 final size:168
Alignment explanation
Indices: 60738711--60739390 Score: 1137
Period size: 168 Copynumber: 4.0 Consensus size: 168
60738701 GCTTTTGGAA
*
60738711 CTCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
1 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* *
60738776 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTAC
66 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCACTTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
60738841 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
131 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
* *
60738879 CTCATGTTTATGTTCCTTGCCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
1 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* * * *
60738944 CTTCATGTTTCTCGTGCTCTTTGGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTAC
66 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCACTTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
60739009 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
131 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
*
60739047 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGA
1 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* *
60739112 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAACTCGGGTTTTTCTTTCTCGTAC
66 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCACTTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* * * *
60739177 TCTTTGTGCTCCTTCGATTCGCGTGATTCGTGGTACTC
131 TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
*
60739215 TTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
1 CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* * *
60739280 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAAC-TTGGGGAACTCGGGTTTTTCTTTTTGGTA
66 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCC-ACTTTGGGGAAATCGGGTTTTTCTTTCTCGTA
* *
60739344 CTCTTCGTGCTCCTTCGATTTGTGTGACTCGTGGTACTC
130 CTCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
*
60739383 TTCATGTT
1 CTCATGTT
60739391 GCTTGCAGGG
Statistics
Matches: 486, Mismatches: 25, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
168 485 1.00
169 1 0.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.45
Consensus pattern (168 bp):
CTCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCACTTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
TCTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTC
Found at i:60740204 original size:10 final size:10
Alignment explanation
Indices: 60740189--60740216 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
60740179 AATTTCCATA
60740189 AAATTATGAT
1 AAATTATGAT
60740199 AAATTATGAT
1 AAATTATGAT
60740209 AAATTATG
1 AAATTATG
60740217 TATTAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (10 bp):
AAATTATGAT
Found at i:60740778 original size:21 final size:21
Alignment explanation
Indices: 60740754--60740807 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
60740744 TGCCTTTATA
60740754 CATTATAGGCAAAAATTGGCT
1 CATTATAGGCAAAAATTGGCT
60740775 CATTATAGGCAAAAATTGGCT
1 CATTATAGGCAAAAATTGGCT
60740796 CATTGA-AGGCAA
1 CATT-ATAGGCAA
60740808 CTCAAACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (21 bp):
CATTATAGGCAAAAATTGGCT
Found at i:60740958 original size:2 final size:2
Alignment explanation
Indices: 60740951--60740984 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
60740941 AAACATAAAA
60740951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60740985 GGTCAATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60746898 original size:17 final size:17
Alignment explanation
Indices: 60746848--60746899 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
60746838 AATTAGTAAC
60746848 AAAAATGAAAG-ACGAA
1 AAAAATGAAAGAACGAA
* * *
60746864 GAAAA-GAAACAAAGGAA
1 AAAAATGAAA-GAACGAA
60746881 AAAAATGAAAGAACGAA
1 AAAAATGAAAGAACGAA
60746898 AA
1 AA
60746900 CAAAATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 15 0.56
18 4 0.15
ACGTcount: A:0.71, C:0.06, G:0.19, T:0.04
Consensus pattern (17 bp):
AAAAATGAAAGAACGAA
Found at i:60756485 original size:26 final size:26
Alignment explanation
Indices: 60756410--60756562 Score: 82
Period size: 27 Copynumber: 5.8 Consensus size: 26
60756400 AGGAGGTTAC
*
60756410 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
* * *
60756437 AAATTAGGATATTTAGATTTTTAATTT
1 AAATTAAGATAATTAGA-ATTTAATTT
*
60756464 AGA-TAAGATAATTAGGAATTTAA-TT
1 AAATTAAGATAATTA-GAATTTAATTT
* * * *
60756489 -AA-TAGGTTAAATAAAATTTTAGATTT
1 AAATTAAGATAATTAGAA-TTTA-ATTT
* * * *
60756515 TAGTTAAGATAATTAATAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
*
60756542 AAATT-AGTATAATTAAAATTT
1 AAATTAAG-ATAATTAGAATTT
60756563 TAATATATTT
Statistics
Matches: 95, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
23 2 0.02
24 13 0.14
25 3 0.03
26 27 0.28
27 36 0.38
28 11 0.12
29 3 0.03
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (26 bp):
AAATTAAGATAATTAGAATTTAATTT
Found at i:60756523 original size:52 final size:52
Alignment explanation
Indices: 60756413--60756566 Score: 168
Period size: 52 Copynumber: 2.9 Consensus size: 52
60756403 AGGTTACAAA
** * *
60756413 TTAAGATAATTAAGAATTTAAATTAAATTAGGATATTTAGATTTTTAATTTAG
1 TTAAGATAATTAAGAATTTAAATT-AATTAGGATAAATAAAATTTTAATTTAG
* * *
60756466 ATAAGATAATTAGGAATTT-AATTAA-TAGGTTAAATAAAATTTTAGATTTTAG
1 TTAAGATAATTAAGAATTTAAATTAATTAGGATAAATAAAATTTTA-A-TTTAG
* * *
60756518 TTAAGATAATTAATAATTTAAATTAAATTAGTATAATTAAAATTTTAAT
1 TTAAGATAATTAAGAATTTAAATT-AATTAGGATAAATAAAATTTTAAT
60756567 ATATTTAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 10
0.78 0.12 0.09
Matches are distributed among these distances:
50 14 0.17
51 3 0.04
52 25 0.30
53 22 0.27
54 3 0.04
55 16 0.19
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.44
Consensus pattern (52 bp):
TTAAGATAATTAAGAATTTAAATTAATTAGGATAAATAAAATTTTAATTTAG
Found at i:60757540 original size:33 final size:33
Alignment explanation
Indices: 60757477--60757540 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
60757467 CTTTTCCAAC
* *
60757477 TTGGGGAACTCGGGTTTTTCTTTTTGGTACTGT
1 TTGGGGAACTCGGGTTTTTCTTTCTCGTACTGT
60757510 TTGGGGAACTCGGGTTTTTCTTTCTCGTACT
1 TTGGGGAACTCGGGTTTTTCTTTCTCGTACT
60757541 CTTCATGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (33 bp):
TTGGGGAACTCGGGTTTTTCTTTCTCGTACTGT
Found at i:60758227 original size:21 final size:22
Alignment explanation
Indices: 60758195--60758236 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
60758185 GGGATGTTCC
60758195 GTATGTTATATTATCTTATTTT
1 GTATGTTATATTATCTTATTTT
60758217 GTATG-TATATTATCTTATTT
1 GTATGTTATATTATCTTATTT
60758237 CATTCATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (22 bp):
GTATGTTATATTATCTTATTTT
Found at i:60758489 original size:12 final size:12
Alignment explanation
Indices: 60758472--60758496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60758462 TTGTATCACC
60758472 AATCATAATTAT
1 AATCATAATTAT
60758484 AATCATAATTAT
1 AATCATAATTAT
60758496 A
1 A
60758497 CTAATAAATA
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:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AATCATAATTAT
Found at i:60764189 original size:24 final size:23
Alignment explanation
Indices: 60764129--60764197 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
60764119 ATAAATTATT
60764129 TATAAAATTTAATTTAT-ATATAA
1 TATAAAATTTAATTTATGA-ATAA
60764152 -ATAAAAATTGTAATTTATGAATAA
1 TAT-AAAATT-TAATTTATGAATAA
* *
60764176 TATAAACTTATAATTTAAGAAT
1 TATAAAATT-TAATTTATGAAT
60764198 CGATGCTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.05
23 6 0.15
24 28 0.72
25 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (23 bp):
TATAAAATTTAATTTATGAATAA
Found at i:60765890 original size:25 final size:25
Alignment explanation
Indices: 60765853--60765964 Score: 93
Period size: 25 Copynumber: 4.5 Consensus size: 25
60765843 GGCTCACCAC
*
60765853 AGCTCGTATGAGCTTACCGATTTAT
1 AGCTCGTAGGAGCTTACCGATTTAT
**
60765878 AGCTCGTAGGAGCTTACCGATTTGC
1 AGCTCGTAGGAGCTTACCGATTTAT
* * * *
60765903 AGTTCATAGGAACTTTCCGATATT-T
1 AGCTCGTAGGAGCTTACCGAT-TTAT
* * *
60765928 AGCTCGGAAGAGCTTACTG-TTTAT
1 AGCTCGTAGGAGCTTACCGATTTAT
* *
60765952 CGCTCGTATGAGC
1 AGCTCGTAGGAGC
60765965 CTACATGTAC
Statistics
Matches: 67, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
23 2 0.03
24 12 0.18
25 51 0.76
26 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (25 bp):
AGCTCGTAGGAGCTTACCGATTTAT
Found at i:60770932 original size:51 final size:50
Alignment explanation
Indices: 60770863--60771027 Score: 179
Period size: 51 Copynumber: 3.2 Consensus size: 50
60770853 GTAGTATTGT
*
60770863 GTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTACTAA
1 GTGAAGGCTACTACGTGTATCGATAAAT-ATTGTCACATGTGTAGTACTAA
* * * * * * * *
60770914 GTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACGTGTGTAGCACTAT
1 GTGAAGGCTACTACGTGTATCGATAA-ATATT-GTCACATGTGTAGTACTAA
* *
60770965 GTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
1 GTGAAGGCTACTACGTGTATCGATAAAT-ATTGTCACATGTGTAGTACTAA
*
60771016 GTAAAGGCTACT
1 GTGAAGGCTACT
60771028 GTGTGTAGTA
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
50 3 0.03
51 85 0.94
52 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (50 bp):
GTGAAGGCTACTACGTGTATCGATAAATATTGTCACATGTGTAGTACTAA
Found at i:60771033 original size:26 final size:26
Alignment explanation
Indices: 60771003--60771053 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
60770993 GATGGTCACA
60771003 TGTGTAGTACTAAGTAAAGGCTACTG
1 TGTGTAGTACTAAGTAAAGGCTACTG
* *
60771029 TGTGTAGTACTATGTGAAGGCTACT
1 TGTGTAGTACTAAGTAAAGGCTACT
60771054 ACGTGAACCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTAAAGGCTACTG
Found at i:60771084 original size:77 final size:76
Alignment explanation
Indices: 60770951--60771104 Score: 211
Period size: 77 Copynumber: 2.0 Consensus size: 76
60770941 CTTTGGTCAC
* * *
60770951 GTGTGTAGCACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
1 GTGTGTAGCACTATGTGAAGGCTACTACGTGAACCGAAAAAT-ATGATCACATGTGTAGTACTAA
60771016 GTAAAGGCTACT
65 GTAAAGGCTACT
* *
60771028 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACT-TGATCACGTGTGTAGTACTA
1 GTGTGTAGCACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TATGATCACATGTGTAGTACTA
* *
60771092 TGTGAAGGCTACT
64 AGTAAAGGCTACT
60771105 ACGTGAACCG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
77 63 0.93
78 4 0.06
79 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (76 bp):
GTGTGTAGCACTATGTGAAGGCTACTACGTGAACCGAAAAATATGATCACATGTGTAGTACTAAG
TAAAGGCTACT
Found at i:60771141 original size:50 final size:51
Alignment explanation
Indices: 60771028--60771159 Score: 248
Period size: 50 Copynumber: 2.6 Consensus size: 51
60771018 AAAGGCTACT
60771028 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCAC
60771079 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGT-AAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCAC
*
60771129 GTGTGTAGTACTATGTGGAGGCTACTACGTG
1 GTGTGTAGTACTATGTGAAGGCTACTACGTG
60771160 TATTGAATGA
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
50 43 0.54
51 37 0.46
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (51 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCAC
Found at i:60776971 original size:64 final size:64
Alignment explanation
Indices: 60776865--60776984 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 64
60776855 CTAGCATCTC
* * **
60776865 GATCGGTATTGATCATGCATGTGTTGCGGACATACCGCAGCTCTTTGTGAGCGTCCTATTATAT
1 GATCGGTATTGATCATGCATGTATTGCGGACATACCACAGCTCTTAATGAGCGTCCTATTATAT
* * *
60776929 GATCGGTATTGATCCTGCATGTATTGTGGACATACCATAGCTCTTAATGAGCGTCC
1 GATCGGTATTGATCATGCATGTATTGCGGACATACCACAGCTCTTAATGAGCGTCC
60776985 CAATATTTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (64 bp):
GATCGGTATTGATCATGCATGTATTGCGGACATACCACAGCTCTTAATGAGCGTCCTATTATAT
Found at i:60779070 original size:20 final size:20
Alignment explanation
Indices: 60779035--60779073 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60779025 TCTACACTTT
*
60779035 TGAAAATTTTGAAAGTTTTC
1 TGAAAATTTTCAAAGTTTTC
*
60779055 TGAAAATTTTCTAAGTTTT
1 TGAAAATTTTCAAAGTTTT
60779074 AGATTTAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (20 bp):
TGAAAATTTTCAAAGTTTTC
Found at i:60779336 original size:25 final size:25
Alignment explanation
Indices: 60779308--60779402 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
60779298 GGACTCATCA
*
60779308 CAGCTCGTATGAGCTTACCGATTTG
1 CAGCTCGTAGGAGCTTACCGATTTG
* *
60779333 CAGCTCGTAAGAGCTTACCAATTTG
1 CAGCTCGTAGGAGCTTACCGATTTG
*
60779358 CAGCTCGTAGGAGCTTACTGATATT-
1 CAGCTCGTAGGAGCTTACCGAT-TTG
*
60779383 CAGCTCGGAGGAGCTTACCG
1 CAGCTCGTAGGAGCTTACCG
60779403 TTTATCGCTC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 60 0.97
26 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.27
Consensus pattern (25 bp):
CAGCTCGTAGGAGCTTACCGATTTG
Found at i:60782076 original size:46 final size:46
Alignment explanation
Indices: 60781989--60782145 Score: 172
Period size: 46 Copynumber: 3.4 Consensus size: 46
60781979 TAATAGTGCA
* * ** * *
60781989 TGGTCACCCGTTAGGGTTGAACCTACCCAAATTGAAA-AATAATGTT
1 TGGTCACCCGTTAAGGTTGGACCTATACAAA-TCAAACAATAATGTC
* * **
60782035 TGGTCACCCGTTAGGGTTGGACTTATATGAATCAAACAATAATGTC
1 TGGTCACCCGTTAAGGTTGGACCTATACAAATCAAACAATAATGTC
* * *
60782081 TGGTCACCCGTTAAGGTTGGACCTATACAAATCAGATAATAGTGTC
1 TGGTCACCCGTTAAGGTTGGACCTATACAAATCAAACAATAATGTC
*
60782127 TGGTCACCCATTAAGGTTG
1 TGGTCACCCGTTAAGGTTG
60782146 AAATAACATA
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 4 0.04
46 90 0.96
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (46 bp):
TGGTCACCCGTTAAGGTTGGACCTATACAAATCAAACAATAATGTC
Found at i:60785351 original size:25 final size:25
Alignment explanation
Indices: 60785294--60785340 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
60785284 TGGCTCTCAC
* *
60785294 GAGCTTCCCATTATATGGTTCTTGT
1 GAGCTTCCCATTATATAGCTCTTGT
60785319 GAGCTTCCCATTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
60785341 CGGAGCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGT
Found at i:60787127 original size:43 final size:43
Alignment explanation
Indices: 60787018--60787145 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
60787008 TAAAAGCTGC
* * * * *
60787018 ACAGAAGCACATAAGTGCTAAACGGAAACCCATAAGGATT-GA
1 ACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTTAAA
* * *
60787060 ACAGAAGCTCATAGGAGCTAAACGGAAACCCAAAAGGGTTAAA
1 ACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTTAAA
** * *
60787103 ACTTAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGTTAAA
1 ACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTTAAA
60787146 CTAAAACTCA
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 35 0.49
43 37 0.51
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (43 bp):
ACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAGGGTTAAA
Found at i:60788238 original size:44 final size:43
Alignment explanation
Indices: 60788170--60788418 Score: 308
Period size: 44 Copynumber: 5.7 Consensus size: 43
60788160 AGCAGTAACA
* *
60788170 GTAACAGTATTCAACACACAAAGTGTCGAATCTGTAATAGTACG
1 GTAACAGTATTCGACACACAAAGTGCCGAATC-GTAATAGTACG
* *
60788214 GTAATAGTATTCGACACACAAAGTGCCAAATCGATAATAGTACG
1 GTAACAGTATTCGACACACAAAGTGCCGAATCG-TAATAGTACG
*
60788258 GTAACAGTATTTGACACACAAAGTGCCGAATCGGTAATAGTAACG
1 GTAACAGTATTCGACACACAAAGTGCCGAATC-GTAATAGT-ACG
* *
60788303 GTAACAGTATTCGACACACAAAGTGCCGAATC--AGTA--ACA
1 GTAACAGTATTCGACACACAAAGTGCCGAATCGTAATAGTACG
* * *
60788342 GTAACAGTATTCGACACACAAAGTGCCGAATATGTAACAGTAACA
1 GTAACAGTATTCGACACACAAAGTGCCGAAT-CGTAATAGT-ACG
* *
60788387 GTAATAGTATTCGACACATAAAGTGCCGAATC
1 GTAACAGTATTCGACACACAAAGTGCCGAATC
60788419 AGCAACAGTA
Statistics
Matches: 180, Mismatches: 16, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
39 33 0.18
42 5 0.03
43 1 0.01
44 74 0.41
45 67 0.37
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (43 bp):
GTAACAGTATTCGACACACAAAGTGCCGAATCGTAATAGTACG
Found at i:60788301 original size:39 final size:39
Alignment explanation
Indices: 60788162--60788441 Score: 236
Period size: 44 Copynumber: 6.6 Consensus size: 39
60788152 GTAACGGTAG
* *
60788162 CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * * *
60788201 CTGTAATAGTACGGTAATAGTATTCGACACACAAAGTGCCAAAT
1 C---AGTA--ACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
60788245 CGATAATAGTACGGTAACAGTATTTGACACACAAAGTGCCGAAT
1 C---AGTA--ACAGTAACAGTATTCGACACACAAAGTGCCGAAT
*
60788289 CGGTAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAAT
1 C------AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
60788334 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATATGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A-A--T
* *
60788377 AACAGTAACAGTAATAGTATTCGACACATAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
60788418 CAGCAACAGTAACAGTAGTCGACA
1 CAGTAACAGTAACAGTATTCGACA
60788442 TATAAATGCC
Statistics
Matches: 207, Mismatches: 20, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
39 56 0.27
40 1 0.00
41 2 0.01
42 3 0.01
43 2 0.01
44 70 0.34
45 68 0.33
47 5 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:60788319 original size:45 final size:45
Alignment explanation
Indices: 60788163--60788434 Score: 326
Period size: 45 Copynumber: 6.2 Consensus size: 45
60788153 TAACGGTAGC
* * *
60788163 AGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCTGTAAT
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAAT
* * * *
60788208 AGT-ACGGTAATAGTATTCGACACACAAAGTGCCAAATCGATAAT
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAAT
* *
60788252 AGT-ACGGTAACAGTATTTGACACACAAAGTGCCGAATCGGTAAT
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAAT
*
60788296 AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATC------
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAAT
** *
60788335 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATATGTAAC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAAT
* * * * *
60788380 AGTAACAGTAATAGTATTCGACACATAAAGTGCCGAATCAGCAAC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAAT
60788425 AGTAACAGTA
1 AGTAACAGTA
60788435 GTCGACATAT
Statistics
Matches: 201, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
39 37 0.18
44 77 0.38
45 87 0.43
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAAT
Found at i:60788371 original size:84 final size:84
Alignment explanation
Indices: 60788162--60788441 Score: 382
Period size: 84 Copynumber: 3.3 Consensus size: 84
60788152 GTAACGGTAG
* *
60788162 CAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCTGTAATAGT-ACGGTAATAGTATTC
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCTGTAATAGTAACGGTAATAGTATTC
*
60788226 GACACACAAAGTGCCAAAT
66 GACACACAAAGTGCCGAAT
* * * * *
60788245 CGATAATAGTACGGTAACAGTATTTGACACACAAAGTGCCGAATCGGTAATAGTAACGGTAACAG
1 C---AGTA--ACAGTAACAGTATTCGACACACAAAGTGCCGAATCTGTAATAGTAACGGTAATAG
60788310 TATTCGACACACAAAGTGCCGAAT
61 TATTCGACACACAAAGTGCCGAAT
* * *
60788334 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATATGTAACAGTAACAGTAATAGTATTC
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCTGTAATAGTAACGGTAATAGTATTC
*
60788399 GACACATAAAGTGCCGAAT
66 GACACACAAAGTGCCGAAT
* *
60788418 CAGCAACAGTAACAGTAGTCGACA
1 CAGTAACAGTAACAGTATTCGACA
60788442 TATAAATGCC
Statistics
Matches: 172, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
83 1 0.01
84 93 0.54
86 6 0.03
88 39 0.23
89 33 0.19
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (84 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCTGTAATAGTAACGGTAATAGTATTC
GACACACAAAGTGCCGAAT
Done.