Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 198 of 230
Found at i:59602227 original size:14 final size:15
Alignment explanation
Indices: 59602208--59602240 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
59602198 TGGCCTCTCA
*
59602208 TTTTTCCTTTTC-TT
1 TTTTTCATTTTCATT
59602222 TTTTTCATTTTCATT
1 TTTTTCATTTTCATT
59602237 TTTT
1 TTTT
59602241 AATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCATTTTCATT
Found at i:59602266 original size:20 final size:20
Alignment explanation
Indices: 59602223--59602260 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59602213 CCTTTTCTTT
59602223 TTTTCATTTTCATTTTTTAA
1 TTTTCATTTTCATTTTTTAA
* *
59602243 TTTTGATTTTGATTTTTT
1 TTTTCATTTTCATTTTTT
59602261 TCTTTTTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTCATTTTCATTTTTTAA
Found at i:59608197 original size:23 final size:22
Alignment explanation
Indices: 59608171--59608215 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
59608161 AAATTAAATC
59608171 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
59608194 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
59608216 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:59608218 original size:19 final size:19
Alignment explanation
Indices: 59608194--59608230 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
59608184 AATCATATCT
59608194 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
59608213 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
59608231 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:59608238 original size:17 final size:19
Alignment explanation
Indices: 59608197--59608238 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
59608187 CATATCTTCT
*
59608197 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
59608216 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
59608233 AAGATT
1 AAGATT
59608239 ATGTTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:59611937 original size:19 final size:19
Alignment explanation
Indices: 59611901--59611939 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
59611891 TTCCGTCTCG
*
59611901 TTTTATTTTATAGCAAATT
1 TTTTATTTTATAGAAAATT
* *
59611920 TTTTATTTTTTTGAAAATT
1 TTTTATTTTATAGAAAATT
59611939 T
1 T
59611940 AACTAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTATTTTATAGAAAATT
Found at i:59611983 original size:31 final size:31
Alignment explanation
Indices: 59611946--59612004 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
59611936 ATTTAACTAA
59611946 ATTTGTTATTATTATTTTCAATTTATATGTT
1 ATTTGTTATTATTATTTTCAATTTATATGTT
59611977 ATTTGTTATTATTATTTTCAATTTATAT
1 ATTTGTTATTATTATTTTCAATTTATAT
59612005 ATATTTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (31 bp):
ATTTGTTATTATTATTTTCAATTTATATGTT
Found at i:59612002 original size:17 final size:17
Alignment explanation
Indices: 59611951--59612011 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
59611941 ACTAAATTTG
59611951 TTATTATTATTTTCAAT
1 TTATTATTATTTTCAAT
* *
59611968 TTATATGTTA-TTT---G
1 TTAT-TATTATTTTCAAT
59611982 TTATTATTATTTTCAAT
1 TTATTATTATTTTCAAT
59611999 TTA-TATATATTTT
1 TTATTAT-TATTTT
59612012 GGAGTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
13 4 0.12
14 7 0.21
16 3 0.09
17 16 0.47
18 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (17 bp):
TTATTATTATTTTCAAT
Found at i:59612062 original size:22 final size:21
Alignment explanation
Indices: 59612037--59612084 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
59612027 TATATTTCTG
*
59612037 TTTAACAATTTTTTTAAAAAAT
1 TTTAA-AATTTTTTAAAAAAAT
**
59612059 TTTAAGGTTTTTTAAAAAAAT
1 TTTAAAATTTTTTAAAAAAAT
59612080 TTTAA
1 TTTAA
59612085 GAATGATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
TTTAAAATTTTTTAAAAAAAT
Found at i:59612071 original size:21 final size:21
Alignment explanation
Indices: 59612045--59612085 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
59612035 TGTTTAACAA
*
59612045 TTTTTTTAAAAAATTTTAAGG
1 TTTTTTAAAAAAATTTTAAGG
59612066 TTTTTTAAAAAAATTTTAAG
1 TTTTTTAAAAAAATTTTAAG
59612086 AATGATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTTTTAAAAAAATTTTAAGG
Found at i:59612094 original size:21 final size:21
Alignment explanation
Indices: 59612052--59612095 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
59612042 CAATTTTTTT
** **
59612052 AAAAAATTTTAAGGTTTTTTA
1 AAAAAATTTTAAGAATGATTA
59612073 AAAAAATTTTAAGAATGATTA
1 AAAAAATTTTAAGAATGATTA
59612094 AA
1 AA
59612096 GATGAATCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAAATTTTAAGAATGATTA
Found at i:59622447 original size:51 final size:51
Alignment explanation
Indices: 59622351--59622447 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
59622341 CAGTGTATAA
* * **
59622351 CGTAAGACCATAGATGAAAGATGCTATATCAGCCTGATATGAGGTACGTAG
1 CGTAAGACCATAGATGAAAGATGCTATAGCAGCATGATACAAGGTACGTAG
* * * *
59622402 CGTAAGACCATGGATGAAAGATGTTATGGCAGCATGGTACAAGGTA
1 CGTAAGACCATAGATGAAAGATGCTATAGCAGCATGATACAAGGTA
59622448 AAAGGTATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (51 bp):
CGTAAGACCATAGATGAAAGATGCTATAGCAGCATGATACAAGGTACGTAG
Found at i:59622464 original size:58 final size:58
Alignment explanation
Indices: 59622399--59622550 Score: 178
Period size: 58 Copynumber: 2.6 Consensus size: 58
59622389 ATGAGGTACG
* **
59622399 TAGCGTAAGACCATGGATGAAAGATGTTATGGCAGCATGGTACAAGGTAAAAGGTATA
1 TAGCGTAAGACCATGGATGAAAGATGCTATGGCAGCACAGTACAAGGTAAAAGGTATA
* ** * *
59622457 TAGCGTAAGACCATGGAAGAAAGACACTATGGCGGCACAGTACAAGGTATAAGGTATA
1 TAGCGTAAGACCATGGATGAAAGATGCTATGGCAGCACAGTACAAGGTAAAAGGTATA
** ** * *
59622515 CGGTATAAGACCATAGATGAAAGATGCTATGACAGC
1 TAGCGTAAGACCATGGATGAAAGATGCTATGGCAGC
59622551 CAGGCATGAT
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 76 1.00
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.20
Consensus pattern (58 bp):
TAGCGTAAGACCATGGATGAAAGATGCTATGGCAGCACAGTACAAGGTAAAAGGTATA
Found at i:59622637 original size:32 final size:32
Alignment explanation
Indices: 59622600--59622661 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
59622590 GCATCCACAG
59622600 AGATAAGCCTGCTGAGACAGTAAACACAGAAT
1 AGATAAGCCTGCTGAGACAGTAAACACAGAAT
* *
59622632 AGATAAGTCTGCTGGGACAGTAAACACAGA
1 AGATAAGCCTGCTGAGACAGTAAACACAGA
59622662 TGAATTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (32 bp):
AGATAAGCCTGCTGAGACAGTAAACACAGAAT
Found at i:59636756 original size:12 final size:11
Alignment explanation
Indices: 59636737--59636766 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
59636727 CTGTGTGTTC
59636737 TTTATTTTTAT
1 TTTATTTTTAT
59636748 TTCTATTTTTAT
1 TT-TATTTTTAT
59636760 TTTATTT
1 TTTATTT
59636767 GCGATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:59638526 original size:21 final size:22
Alignment explanation
Indices: 59638499--59638552 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
59638489 AACAGCGGTG
*
59638499 GCAGTGAGATTAG-TTACTGTA
1 GCAGTGAGATTAGAATACTGTA
*
59638520 GCGGTGAGATT-GAATACTGTA
1 GCAGTGAGATTAGAATACTGTA
59638541 GCAGTGAGATTA
1 GCAGTGAGATTA
59638553 AAACAGCGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (22 bp):
GCAGTGAGATTAGAATACTGTA
Found at i:59638684 original size:11 final size:10
Alignment explanation
Indices: 59638663--59638719 Score: 52
Period size: 9 Copynumber: 6.1 Consensus size: 10
59638653 AATAGAAGTT
59638663 TTTAAAATTA
1 TTTAAAATTA
59638673 TTTAACAATTA
1 TTTAA-AATTA
59638684 --TAAAATTA
1 TTTAAAATTA
*
59638692 -AT-AAATTA
1 TTTAAAATTA
*
59638700 TTAAAAATTA
1 TTTAAAATTA
59638710 -TTAAAATTA
1 TTTAAAATTA
59638719 T
1 T
59638720 ATTTATTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
8 11 0.28
9 12 0.31
10 11 0.28
11 5 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:59638689 original size:19 final size:17
Alignment explanation
Indices: 59638665--59638720 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 17
59638655 TAGAAGTTTT
59638665 TAAAATTATTTAACAATTA
1 TAAAATTA-TTAA-AATTA
*
59638684 TAAAATTAAT-AAATTA
1 TAAAATTATTAAAATTA
59638700 TTAAAAATTATTAAAATTA
1 -T-AAAATTATTAAAATTA
59638719 TA
1 TA
59638721 TTTATTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.16
17 3 0.09
18 10 0.31
19 14 0.44
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATTATTAAAATTA
Found at i:59638700 original size:27 final size:27
Alignment explanation
Indices: 59638667--59638718 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
59638657 GAAGTTTTTA
*
59638667 AAATTATTTAACAATTA-TAAAATTAAT
1 AAATTA-TTAAAAATTATTAAAATTAAT
59638694 AAATTATTAAAAATTATTAAAATTA
1 AAATTATTAAAAATTATTAAAATTA
59638719 TATTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATTATTAAAAATTATTAAAATTAAT
Found at i:59638715 original size:9 final size:9
Alignment explanation
Indices: 59638664--59638719 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 9
59638654 ATAGAAGTTT
59638664 TTAAAATTA
1 TTAAAATTA
59638673 TTTAACAATTA
1 -TTAA-AATTA
59638684 -TAAAATTA
1 TTAAAATTA
*
59638692 AT-AAATTA
1 TTAAAATTA
59638700 TTAAAAATTA
1 TT-AAAATTA
59638710 TTAAAATTA
1 TTAAAATTA
59638719 T
1 T
59638720 ATTTATTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
8 12 0.29
9 12 0.29
10 12 0.29
11 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTAAAATTA
Found at i:59655184 original size:14 final size:13
Alignment explanation
Indices: 59655157--59655196 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
59655147 CCCTCCTTTC
*
59655157 TTTCTTTCTTTTT
1 TTTCTTTGTTTTT
*
59655170 TTTTTTTGGTTTTT
1 TTTCTTT-GTTTTT
59655184 TTTCTTTGTTTTT
1 TTTCTTTGTTTTT
59655197 GTTGCAGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (13 bp):
TTTCTTTGTTTTT
Found at i:59656178 original size:14 final size:15
Alignment explanation
Indices: 59656159--59656190 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
59656149 ATATTAAAAG
59656159 ATAATAATATT-ATT
1 ATAATAATATTAATT
59656173 ATAATAATATTAATT
1 ATAATAATATTAATT
59656188 ATA
1 ATA
59656191 TTTTAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATAATATTAATT
Found at i:59659649 original size:20 final size:20
Alignment explanation
Indices: 59659604--59659650 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
59659594 TTCAATAAAA
*
59659604 TATAAAAATTTAAAATTTAT
1 TATAAAAAATTAAAATTTAT
* * *
59659624 TA-AAAAAATTAGAGTTTTT
1 TATAAAAAATTAAAATTTAT
59659643 TATAAAAA
1 TATAAAAA
59659651 TCGTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TATAAAAAATTAAAATTTAT
Found at i:59659917 original size:29 final size:28
Alignment explanation
Indices: 59659884--59659981 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 28
59659874 TTACATTTTG
*
59659884 TATAATTTTCTTACGACTTTATAAAATTT
1 TATAATTTTTTTACGA-TTTATAAAATTT
* * *
59659913 TATAATTTTTTTA-TATTTCTATATATTT
1 TATAATTTTTTTACGATTTATA-AAATTT
*
59659941 TATAATTTTTTTACGATTTTTATACAATTT
1 TATAATTTTTTTACGA--TTTATAAAATTT
59659971 T-TATATTTTTT
1 TATA-ATTTTTT
59659982 ACAAATTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 5 0.09
28 19 0.34
29 15 0.27
30 12 0.21
31 5 0.09
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (28 bp):
TATAATTTTTTTACGATTTATAAAATTT
Found at i:59660009 original size:19 final size:18
Alignment explanation
Indices: 59659956--59660009 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
59659946 TTTTTTTACG
59659956 ATTTTTATACAATTTTTAT
1 ATTTTT-TACAATTTTTAT
*
59659975 ATTTTTTACAAATTTTAT
1 ATTTTTTACAATTTTTAT
*
59659993 ATTTTTTTCTAATTTTT
1 ATTTTTTAC-AATTTTT
59660010 TTCTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 19 0.61
19 12 0.39
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTACAATTTTTAT
Found at i:59660233 original size:87 final size:89
Alignment explanation
Indices: 59660098--59660314 Score: 246
Period size: 87 Copynumber: 2.4 Consensus size: 89
59660088 AATTTTTAAT
** * *
59660098 AAAAGTAGGGGTTTAATTGCTTTTTTTAAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGT
1 AAAAGTAGGGAATTAATT-CTTTTTTTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTAAAAGT
*
59660163 TCAAGTACCCAATTGAGTAC-AAAA
65 TCAAGTACCCAAATGAGTACGAAAA
* * * *
59660187 AAAAGTAGGGAATTAATT-TTTTTTTGAAAAGGTTTGAGGG-CTTTTTTTATATATTTTAAAAGT
1 AAAAGTAGGGAATTAATTCTTTTTTTAAAAAAGTTTGAGGGTC-TTTTTGATACATTTTAAAAGT
*
59660250 TCAAGTACCCAAATGAGTGCGAAAA
65 TCAAGTACCCAAATGAGTACGAAAA
* * *
59660275 AAAAGTA-AGAACTTAATTAC-TTTTTAAAAAAAATTTGAGG
1 AAAAGTAGGGAA-TTAATT-CTTTTTTTAAAAAAGTTTGAGG
59660315 ACTTTTTACC
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
86 1 0.01
87 58 0.54
88 17 0.16
89 32 0.30
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.36
Consensus pattern (89 bp):
AAAAGTAGGGAATTAATTCTTTTTTTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTAAAAGTT
CAAGTACCCAAATGAGTACGAAAA
Found at i:59663822 original size:41 final size:40
Alignment explanation
Indices: 59663770--59663849 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 40
59663760 CATTTTAACG
*
59663770 CATATCGATGCCACTGTCCAAGACAAGGTCTTATACGAAT
1 CATATCGATGCCAATGTCCAAGACAAGGTCTTATACGAAT
* *
59663810 CATATACGATGCCAATGTCCCAGACATGGTCTTATACGAA
1 CATAT-CGATGCCAATGTCCAAGACAAGGTCTTATACGAA
59663850 ATCACACCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 5 0.14
41 31 0.86
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
CATATCGATGCCAATGTCCAAGACAAGGTCTTATACGAAT
Found at i:59664039 original size:30 final size:30
Alignment explanation
Indices: 59663999--59664281 Score: 316
Period size: 30 Copynumber: 9.3 Consensus size: 30
59663989 ATATATGTAA
* *
59663999 ACATATACAAATCATTTCGGCAATATATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* * *
59664029 ACATGTACAAATCAATTCGGCAACGTATCT
1 ACATATACAAATCAATTCGGCAATGTATAT
* *
59664059 CCATATAAAAATCAATTCGGCAATGTATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
**
59664089 ACATATACAAATCAATTCGATAATGTATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* *
59664119 CCATATACAAATCAATTCGGCTATGTATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* *
59664149 CCATATACAAATCAATTCGGCAATATATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* * *
59664179 ATCCATATACAAATCAATTCGACAATATATGTAA
1 A--CATATACAAATCAATTCGGCAATGTA--TAT
* * **
59664213 ACATATACAAATC-ATTTGACAATACATAT
1 ACATATACAAATCAATTCGGCAATGTATAT
* *
59664242 ACATGTACAAATCAATTCGGCAATGTATAAA
1 ACATATACAAATCAATTCGGCAATGTAT-AT
59664273 ACATATACA
1 ACATATACA
59664282 TTTGAATTCA
Statistics
Matches: 214, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
29 14 0.07
30 140 0.65
31 20 0.09
32 37 0.17
34 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (30 bp):
ACATATACAAATCAATTCGGCAATGTATAT
Found at i:59668044 original size:14 final size:14
Alignment explanation
Indices: 59668025--59668058 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
59668015 AACCTTCTGT
59668025 TTTGCCACCCACAC
1 TTTGCCACCCACAC
59668039 TTTGCCACCCACAC
1 TTTGCCACCCACAC
59668053 TATTGC
1 T-TTGC
59668059 TACGTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.21, C:0.44, G:0.09, T:0.26
Consensus pattern (14 bp):
TTTGCCACCCACAC
Found at i:59669054 original size:30 final size:30
Alignment explanation
Indices: 59669018--59669140 Score: 219
Period size: 30 Copynumber: 4.1 Consensus size: 30
59669008 ACTTATTTTA
*
59669018 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTCTAAAGGCAT
59669048 TTGTTAATTTTGTTATTATTCTAAAGGCAT
1 TTGTTAATTTTGTTATTATTCTAAAGGCAT
59669078 TTGTTAATTTTGTTATTATTCTAAAGGCAT
1 TTGTTAATTTTGTTATTATTCTAAAGGCAT
* *
59669108 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTCTAAAGGCAT
59669138 TTG
1 TTG
59669141 CTTGTTAAGT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 90 1.00
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTCTAAAGGCAT
Found at i:59678334 original size:13 final size:13
Alignment explanation
Indices: 59678316--59678343 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59678306 TGAACCCGAG
59678316 AACCAAAACCCAA
1 AACCAAAACCCAA
59678329 AACCAAAACCCAA
1 AACCAAAACCCAA
59678342 AA
1 AA
59678344 ACTGGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (13 bp):
AACCAAAACCCAA
Found at i:59678673 original size:12 final size:12
Alignment explanation
Indices: 59678653--59678682 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59678643 AATATTGTTT
*
59678653 TAATGAATTTAA
1 TAATTAATTTAA
59678665 TAATTAATTTAA
1 TAATTAATTTAA
59678677 TAATTA
1 TAATTA
59678683 TCTAGATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TAATTAATTTAA
Found at i:59678767 original size:31 final size:30
Alignment explanation
Indices: 59678667--59678768 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 30
59678657 GAATTTAATA
* *
59678667 ATTAATTTAATAATTATCTAGATAGT-TTTT
1 ATTAATTTAAT-ATTATATAGATAATATTTT
* * **
59678697 GATTAATTTAATATGA-ATACGA-GATATTAA
1 -ATTAATTTAATATTATATA-GATAATATTTT
59678727 ATTTAATTTAATATTTATATAGATAATATTTT
1 A-TTAATTTAATA-TTATATAGATAATATTTT
59678759 ATTAATTTAA
1 ATTAATTTAA
59678769 AATTGATGTG
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
29 4 0.07
30 18 0.33
31 24 0.44
32 9 0.16
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (30 bp):
ATTAATTTAATATTATATAGATAATATTTT
Found at i:59679343 original size:42 final size:42
Alignment explanation
Indices: 59679283--59679494 Score: 352
Period size: 42 Copynumber: 5.0 Consensus size: 42
59679273 TTACAAACAA
*
59679283 AAGCGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
**
59679325 AAATGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
*
59679367 AAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
59679409 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
* * * *
59679451 AAGCGCCGCTAAAGAACATATTCTTTAGTGGCGCTTTTATAC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
59679493 AA
1 AA
59679495 AAACGCCACT
Statistics
Matches: 159, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 159 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
Found at i:59683655 original size:16 final size:17
Alignment explanation
Indices: 59683634--59683712 Score: 74
Period size: 16 Copynumber: 4.6 Consensus size: 17
59683624 TGATATATAT
*
59683634 TTATGTA-TTAAGTAAA
1 TTATGTAGTTAAGTAAG
* *
59683650 TTATGTAAGTTATGTACG
1 TTATGT-AGTTAAGTAAG
*
59683668 TGTAT-AAGTTAAGTAAG
1 T-TATGTAGTTAAGTAAG
59683685 TTATGTA-TTAAGTAAG
1 TTATGTAGTTAAGTAAG
59683701 TTATGTAAGTTA
1 TTATGT-AGTTA
59683713 TGAAAGTAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
16 24 0.48
17 13 0.26
18 10 0.20
19 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (17 bp):
TTATGTAGTTAAGTAAG
Found at i:59683662 original size:9 final size:9
Alignment explanation
Indices: 59683645--59683999 Score: 186
Period size: 9 Copynumber: 40.4 Consensus size: 9
59683635 TATGTATTAA
*
59683645 GTAAATTAT
1 GTAAGTTAT
59683654 GTAAGTTAT
1 GTAAGTTAT
*
59683663 GTACGTGTA-
1 GTAAGT-TAT
*
59683672 -TAAGTTAA
1 GTAAGTTAT
59683680 GTAAGTTAT
1 GTAAGTTAT
*
59683689 GT-A-TTAA
1 GTAAGTTAT
59683696 GTAAGTTAT
1 GTAAGTTAT
59683705 GTAAGTTAT
1 GTAAGTTAT
* *
59683714 GAAAGTAAT
1 GTAAGTTAT
* *
59683723 GTATGTAAT
1 GTAAGTTAT
59683732 GTAAG-T-T
1 GTAAGTTAT
59683739 GTAAGTTAT
1 GTAAGTTAT
*
59683748 -TATGTATTAT
1 GTAAG--TTAT
59683758 GTAAGTTAT
1 GTAAGTTAT
59683767 GTAAGTTAAAT
1 GTAAGTT--AT
59683778 GT-A-TTAT
1 GTAAGTTAT
59683785 GTAAG-T-T
1 GTAAGTTAT
59683792 GTAAGTTAAAT
1 GTAAGTT--AT
59683803 GT-A-TTAT
1 GTAAGTTAT
59683810 GTAAGTTAT
1 GTAAGTTAT
*
59683819 -TATGTATTAT
1 GTAAG--TTAT
59683829 GTAAG-T-T
1 GTAAGTTAT
59683836 GTAAGTTAAGT
1 GTAAGTT-A-T
59683847 GT-A-TTAT
1 GTAAGTTAT
59683854 GTAAG-T-T
1 GTAAGTTAT
59683861 GTAAGTTAT
1 GTAAGTTAT
*
59683870 -TATGTATTAT
1 GTAAG--TTAT
59683880 GTAAG-T-T
1 GTAAGTTAT
59683887 GTAAGTTAT
1 GTAAGTTAT
*
59683896 -TATGTATTAT
1 GTAAG--TTAT
59683906 GTAAGTTAT
1 GTAAGTTAT
59683915 GTAAGTTAAAT
1 GTAAGTT--AT
59683926 GT-A-TTAT
1 GTAAGTTAT
*
59683933 GTAGGTTAT
1 GTAAGTTAT
*
59683942 GTAAGTTGT
1 GTAAGTTAT
**
59683951 GTAAGAGAT
1 GTAAGTTAT
*
59683960 TTAAGTTAT
1 GTAAGTTAT
*
59683969 GTAGGTTAT
1 GTAAGTTAT
* *
59683978 TTAGGTTAT
1 GTAAGTTAT
*
59683987 GTAAGTTTT
1 GTAAGTTAT
59683996 GTAA
1 GTAA
59684000 TGTGCAAGTG
Statistics
Matches: 268, Mismatches: 35, Indels: 86
0.69 0.09 0.22
Matches are distributed among these distances:
7 52 0.19
8 31 0.12
9 137 0.51
10 22 0.08
11 26 0.10
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:59683662 original size:25 final size:25
Alignment explanation
Indices: 59683634--59683714 Score: 103
Period size: 25 Copynumber: 3.2 Consensus size: 25
59683624 TGATATATAT
*
59683634 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
59683659 TTATGTACGTGT-A-TAAGTTAAGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
59683685 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
59683710 TTATG
1 TTATG
59683715 AAAGTAATGT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 24 0.50
26 18 0.38
27 2 0.04
28 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:59683727 original size:22 final size:24
Alignment explanation
Indices: 59683634--59683818 Score: 85
Period size: 25 Copynumber: 7.8 Consensus size: 24
59683624 TGATATATAT
*
59683634 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTA-TAAGTAAGTTATGTAAG
* *
59683659 TTATGTACGTGTA-TAAGTTAAGTAAG
1 TTATGTA--T-AAGTAAGTTATGTAAG
59683685 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTA-TAAGTAAGTTATGTAAG
59683710 TTATG-A-AAGTAA-TGTATGTAA-
1 TTATGTATAAGTAAGT-TATGTAAG
* *
59683731 TGTAAGT-T--GTAAGTTAT-TATG
1 T-TATGTATAAGTAAGTTATGTAAG
59683752 -TAT-TAT--GTAAGTTATGTAAG
1 TTATGTATAAGTAAGTTATGTAAG
*
59683772 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTA-TAAGTAAGTTATGTAAG
*
59683797 TTAAATGTATTATGTAAGTTAT
1 TT--ATGTA-TAAGTAAGTTAT
59683819 TATGTATTAT
Statistics
Matches: 129, Mismatches: 11, Indels: 38
0.72 0.06 0.21
Matches are distributed among these distances:
18 1 0.01
19 12 0.09
20 5 0.04
21 10 0.08
22 17 0.13
23 2 0.02
24 4 0.03
25 50 0.39
26 21 0.16
27 7 0.05
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (24 bp):
TTATGTATAAGTAAGTTATGTAAG
Found at i:59683760 original size:19 final size:19
Alignment explanation
Indices: 59683738--59683914 Score: 103
Period size: 19 Copynumber: 9.5 Consensus size: 19
59683728 TAATGTAAGT
59683738 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
59683757 TGTAAG---TTATGTA--A
1 TGTAAGTTATTATGTATTA
* *
59683771 -GTTAAATGTATTATGTAAGT-
1 TG-TAAGT-TATTATGT-ATTA
*
59683791 TGTAAGTTA-AATGTATTA
1 TGTAAGTTATTATGTATTA
59683809 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
59683828 TGTAAGTTGTAAGTTAAGTGTATTA
1 TGTAAG-T-T-A-TT-A-TGTATTA
* *
59683853 TGTAAGTT-GTAAG--TTA
1 TGTAAGTTATTATGTATTA
* *
59683869 T-TATG-TATTATGTAAGT-
1 TGTAAGTTATTATGT-ATTA
59683886 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
59683905 TGTAAGTTAT
1 TGTAAGTTAT
59683915 GTAAGTTAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 48
0.66 0.07 0.26
Matches are distributed among these distances:
13 1 0.01
14 5 0.04
15 6 0.05
16 11 0.09
17 3 0.02
18 26 0.21
19 42 0.35
20 6 0.05
21 2 0.02
22 1 0.01
23 3 0.02
24 2 0.02
25 13 0.11
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (19 bp):
TGTAAGTTATTATGTATTA
Found at i:59683762 original size:62 final size:58
Alignment explanation
Indices: 59683672--59683818 Score: 164
Period size: 62 Copynumber: 2.6 Consensus size: 58
59683662 TGTACGTGTA
* *
59683672 TAAGT-TAAGTAAGTTATGTATTAAGTAAGTTATGTAAGTTATGAAAGTAATGTATGTAATG
1 TAAGTGTAAGTTA-TTATGTATTATGTAAGTTATGTAAGTTAT-AAAGT-AT-TATGTAATG
*
59683733 TAAGTTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTA-AATGTATTATGTAA-G
1 TAAG-TGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATAAAGTATTATGTAATG
*
59683790 T---TGTAAGTTA-AATGTATTATGTAAGTTAT
1 TAAGTGTAAGTTATTATGTATTATGTAAGTTAT
59683819 TATGTATTAT
Statistics
Matches: 80, Mismatches: 4, Indels: 13
0.82 0.04 0.13
Matches are distributed among these distances:
52 18 0.22
53 9 0.11
57 2 0.03
58 7 0.09
59 2 0.03
60 4 0.05
61 4 0.05
62 28 0.35
63 6 0.08
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (58 bp):
TAAGTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTATAAAGTATTATGTAATG
Found at i:59683831 original size:44 final size:44
Alignment explanation
Indices: 59683763--59683914 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 44
59683753 ATTATGTAAG
*
59683763 TTATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
*
59683806 TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAGTGTATTA
1 TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATG---TA
*
59683853 TGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTA
1 T-T-A--TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTA
59683902 TTATGTAAGTTAT
1 TTATGTAAGTTAT
59683915 GTAAGTTAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 16
0.83 0.03 0.14
Matches are distributed among these distances:
43 12 0.12
44 27 0.28
45 10 0.10
47 4 0.04
48 2 0.02
49 4 0.04
51 35 0.36
52 2 0.02
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (44 bp):
TTATGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA
Found at i:59686544 original size:84 final size:83
Alignment explanation
Indices: 59686451--59686610 Score: 266
Period size: 84 Copynumber: 1.9 Consensus size: 83
59686441 CAAATTTTAA
* * *
59686451 TTCATGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTGTTTGCGGCGTTTTTGTAAAAAAAC
1 TTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGT-TAAAAAAAC
59686516 GCCACTAAATTAATTTCAT
65 GCCACTAAATTAATTTCAT
* *
59686535 TTCACGAAACGGCTCCGTTTTATTCAATTTTTCAAATATTATTTGCGGCGTTTGTTACAAAAACG
1 TTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGTTAAAAAAACG
59686600 CCACTAAATTA
66 CCACTAAATTA
59686611 TTTATATTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
83 20 0.28
84 51 0.72
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (83 bp):
TTCACGAAACGGCTCCGTTTTATTCAATTTTCCAAATATTATTTGCGGCGTTTGTTAAAAAAACG
CCACTAAATTAATTTCAT
Found at i:59687383 original size:39 final size:40
Alignment explanation
Indices: 59687318--59687394 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
59687308 ACCCATAACC
*
59687318 CCTAAATCCCCCTTAACCCTTAAAGCATAAA-CCCTAAACT
1 CCTAAATCCCCCTTAACCCCTAAAGCA-AAACCCCTAAACT
*
59687358 CCTAAATCTCCC-TAACCCCTAAAGCAAAACCCCTAAA
1 CCTAAATCCCCCTTAACCCCTAAAGCAAAACCCCTAAA
59687395 AAATTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 3 0.09
39 20 0.59
40 11 0.32
ACGTcount: A:0.39, C:0.39, G:0.03, T:0.19
Consensus pattern (40 bp):
CCTAAATCCCCCTTAACCCCTAAAGCAAAACCCCTAAACT
Found at i:59687444 original size:15 final size:15
Alignment explanation
Indices: 59687420--59687461 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
59687410 TTTTACTATT
*
59687420 TAAATTTTATGTAAA
1 TAAATATTATGTAAA
*
59687435 TAAATATTAT-TTAA
1 TAAATATTATGTAAA
59687449 -AAATATTATGTAA
1 TAAATATTATGTAA
59687462 TATTTAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 5 0.22
15 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
TAAATATTATGTAAA
Found at i:59687570 original size:15 final size:16
Alignment explanation
Indices: 59687545--59687576 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
59687535 TTAAATAATA
59687545 TAAACTATATTAAATT
1 TAAACTATATTAAATT
59687561 TAAA-TATATTAAATT
1 TAAACTATATTAAATT
59687576 T
1 T
59687577 CTTATTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAACTATATTAAATT
Found at i:59687702 original size:23 final size:22
Alignment explanation
Indices: 59687657--59687705 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
59687647 CTTTACTGTT
* *
59687657 TAAACTCTAAACCCCAAATCCC
1 TAAACTCTAAACCACAAACCCC
*
59687679 TAAACTCTTAAACCATAAACCCC
1 TAAACTC-TAAACCACAAACCCC
59687702 TAAA
1 TAAA
59687706 TCCCTAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACTCTAAACCACAAACCCC
Found at i:59687718 original size:15 final size:16
Alignment explanation
Indices: 59687663--59687719 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 16
59687653 TGTTTAAACT
*
59687663 CTAAAC-CCCAAATCC
1 CTAAACTCCTAAATCC
*
59687678 CTAAACTCTTAAA-CC
1 CTAAACTCCTAAATCC
* *
59687693 ATAAACCCCTAAATCC
1 CTAAACTCCTAAATCC
59687709 CTAAA-TCCTAA
1 CTAAACTCCTAA
59687720 CTCTTAAATC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
15 23 0.70
16 10 0.30
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (16 bp):
CTAAACTCCTAAATCC
Found at i:59687780 original size:14 final size:13
Alignment explanation
Indices: 59687763--59687796 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
59687753 CATAAACCCT
59687763 AAACCCTAAATCTC
1 AAACCCTAAAT-TC
59687777 AAACCCTAAATTC
1 AAACCCTAAATTC
*
59687790 ATACCCT
1 AAACCCT
59687797 GACCTACTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (13 bp):
AAACCCTAAATTC
Found at i:59690769 original size:26 final size:23
Alignment explanation
Indices: 59690738--59690790 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
59690728 ATAAAGTACA
59690738 AAATATTAAAA-TTATGAATAATAGTT
1 AAATA-TAAAATTTAT-AA-AAT-GTT
59690764 AAATATAAAATTTATAAAATGTT
1 AAATATAAAATTTATAAAATGTT
59690787 AAAT
1 AAAT
59690791 GTATTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.27
24 3 0.12
25 7 0.27
26 9 0.35
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
AAATATAAAATTTATAAAATGTT
Found at i:59695268 original size:7 final size:7
Alignment explanation
Indices: 59695256--59695280 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59695246 ATTATTGTTC
59695256 AGTGCTA
1 AGTGCTA
59695263 AGTGCTA
1 AGTGCTA
59695270 AGTGCTA
1 AGTGCTA
59695277 AGTG
1 AGTG
59695281 GACTATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (7 bp):
AGTGCTA
Found at i:59697853 original size:41 final size:41
Alignment explanation
Indices: 59697802--59697960 Score: 185
Period size: 41 Copynumber: 3.9 Consensus size: 41
59697792 TTTAAACAGA
* * * *
59697802 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGTCTGATTCAG
* *
59697843 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAG
* * * *
59697884 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAG
** *
59697925 TTCACCGGCACTTAGCCTGCTAAACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGA
59697961 ATAATTTCAC
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 102 0.99
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAG
Found at i:59697970 original size:41 final size:40
Alignment explanation
Indices: 59697843--59697975 Score: 158
Period size: 41 Copynumber: 3.2 Consensus size: 40
59697833 TTTAATTCAG
* * * * *
59697843 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATT-AA
*
59697884 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATT-AA
* *
59697925 TTCACCGGCACTTAGCCTGCTAAACGTATAGTCTGAATAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATTAA
*
59697965 TTTCACTGGCA
1 -TTCACCGGCA
59697976 ATAAATCCGA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 2 0.02
41 79 0.98
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATTAA
Found at i:59711410 original size:9 final size:9
Alignment explanation
Indices: 59711398--59711456 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
59711388 AAATTTAAAA
59711398 AATATTTTT
1 AATATTTTT
59711407 AATATTTTT
1 AATATTTTT
* *
59711416 AACACTTTT
1 AATATTTTT
59711425 AA-ATTTTT
1 AATATTTTT
*
59711433 AAATAAATTTT
1 -AAT-ATTTTT
59711444 -ATATTTTT
1 AATATTTTT
59711452 -ATATT
1 AATATT
59711457 AAAAAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
8 15 0.36
9 22 0.52
11 5 0.12
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
AATATTTTT
Found at i:59713827 original size:12 final size:12
Alignment explanation
Indices: 59713810--59713835 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59713800 GGGTTCATTT
59713810 AACCAAAAAAGA
1 AACCAAAAAAGA
59713822 AACCAAAAAAGA
1 AACCAAAAAAGA
59713834 AA
1 AA
59713836 TTGTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AACCAAAAAAGA
Found at i:59717032 original size:2 final size:2
Alignment explanation
Indices: 59717025--59717049 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59717015 ACTTACATTA
59717025 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 A
59717050 AAAAGCCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:59718320 original size:17 final size:16
Alignment explanation
Indices: 59718295--59718345 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
59718285 ACATATGGCA
59718295 AAAATTTATAAAAAAAT
1 AAAA-TTATAAAAAAAT
*
59718312 AAAAGTTATAAAAATTAT
1 AAAA-TTATAAAAA-AAT
*
59718330 TAAATTATAAAAAAAT
1 AAAATTATAAAAAAAT
59718346 TATAAAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 2 0.07
17 22 0.76
18 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
AAAATTATAAAAAAAT
Found at i:59718343 original size:19 final size:20
Alignment explanation
Indices: 59718321--59718424 Score: 72
Period size: 20 Copynumber: 5.2 Consensus size: 20
59718311 TAAAAGTTAT
* *
59718321 AAAAATTAT-TAAATTATAA
1 AAAAATTATAAAAATCATAA
59718340 AAAAATTATAAAAATCATAA
1 AAAAATTATAAAAATCATAA
* * * *
59718360 AAATATAAAAAAAAT-TTATA
1 AAAAATTATAAAAATCATA-A
**
59718380 AAATTTTATAAAAATCATAA
1 AAAAATTATAAAAATCATAA
59718400 AAATAGA-TAT-AAAATGCATAA
1 AAA-A-ATTATAAAAAT-CATAA
59718421 AAAA
1 AAAA
59718425 TGACCTTTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
19 11 0.16
20 43 0.64
21 13 0.19
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATTATAAAAATCATAA
Found at i:59718348 original size:28 final size:29
Alignment explanation
Indices: 59718307--59718423 Score: 96
Period size: 30 Copynumber: 3.9 Consensus size: 29
59718297 AATTTATAAA
* * *
59718307 AAAATAAAAGTTATAAAAATTATTAAATTAT
1 AAAA-AAAA-TTATAAAAATCATAAAAATAT
59718338 -AAAAAAATTATAAAAATCATAAAAATAT
1 AAAAAAAATTATAAAAATCATAAAAATAT
* *
59718366 AAAAAAAATTTATAAAATTTTATAAAAATCAT
1 AAAAAAAA-TTATAAAA-ATCATAAAAAT-AT
*
59718398 AAAAATAGA-TAT-AAAATGCATAAAAA
1 AAAAA-AAATTATAAAAAT-CATAAAAA
59718424 ATGACCTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
28 18 0.25
29 12 0.17
30 21 0.29
31 12 0.17
32 7 0.10
33 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAAAAAATTATAAAAATCATAAAAATAT
Found at i:59718393 original size:11 final size:10
Alignment explanation
Indices: 59718294--59718403 Score: 65
Period size: 10 Copynumber: 11.6 Consensus size: 10
59718284 GACATATGGC
59718294 AAAAATTTAT
1 AAAAATTTAT
*
59718304 AAAAA--AAT
1 AAAAATTTAT
*
59718312 -AAAAGTTAT
1 AAAAATTTAT
59718321 AAAAA-TTAT
1 AAAAATTTAT
*
59718330 -TAAA-TTAT
1 AAAAATTTAT
*
59718338 AAAAAAATTAT
1 -AAAAATTTAT
*
59718349 AAAAA-TCAT
1 AAAAATTTAT
* *
59718358 AAAAATATAAA
1 AAAAAT-TTAT
59718369 AAAAATTTAT
1 AAAAATTTAT
*
59718379 AAAATTTTAT
1 AAAAATTTAT
*
59718389 AAAAA-TCAT
1 AAAAATTTAT
59718398 AAAAAT
1 AAAAAT
59718404 AGATATAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
7 4 0.05
8 9 0.11
9 22 0.28
10 32 0.41
11 12 0.15
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:59718410 original size:21 final size:21
Alignment explanation
Indices: 59718331--59718423 Score: 79
Period size: 20 Copynumber: 4.6 Consensus size: 21
59718321 AAAAATTATT
* *
59718331 AAATTATAAAAAAAT-TATAA
1 AAATCATAAAAATATATATAA
*
59718351 AAATCATAAAAATATA-AAAA
1 AAATCATAAAAATATATATAA
* *
59718371 AAAT-TTATAAAAT-TTTATAA
1 AAATCATA-AAAATATATATAA
*
59718391 AAATCATAAAAATAGATAT-A
1 AAATCATAAAAATATATATAA
59718411 AAATGCATAAAAA
1 AAAT-CATAAAAA
59718424 ATGACCTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.05
20 42 0.72
21 13 0.22
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATCATAAAAATATATATAA
Found at i:59718421 original size:40 final size:40
Alignment explanation
Indices: 59718345--59718422 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
59718335 TATAAAAAAA
* **
59718345 TTATAAAAATCATAAAAATATAAAAAAAATTTATAAAATT
1 TTATAAAAATCATAAAAATAGAAAAAAAATGCATAAAATT
* *
59718385 TTATAAAAATCATAAAAATAGATATAAAATGCATAAAA
1 TTATAAAAATCATAAAAATAGAAAAAAAATGCATAAAA
59718423 AATGACCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (40 bp):
TTATAAAAATCATAAAAATAGAAAAAAAATGCATAAAATT
Found at i:59718659 original size:27 final size:29
Alignment explanation
Indices: 59718626--59718691 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
59718616 TTTACATTTT
59718626 TTTATAATTTTCT-TATGATTT-TATAAAA
1 TTTATAATTTTCTCTAT-ATTTATATAAAA
*
59718654 -TTATAATTTTTTTCTATATTTATATAAAA
1 TTTATAA-TTTTCTCTATATTTATATAAAA
59718683 TTTATAATT
1 TTTATAATT
59718692 ACAAATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 6 0.18
28 9 0.27
29 12 0.36
30 6 0.18
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTATAATTTTCTCTATATTTATATAAAA
Found at i:59718680 original size:29 final size:31
Alignment explanation
Indices: 59718633--59718691 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
59718623 TTTTTTATAA
59718633 TTTTCTTATGATTTTATAAAA-TTATAATTT
1 TTTTCTTATGATTTTATAAAATTTATAATTT
59718663 TTTTC-TAT-ATTTATATAAAATTTATAATT
1 TTTTCTTATGATTT-TATAAAATTTATAATT
59718692 ACAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 4 0.15
29 10 0.37
30 13 0.48
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (31 bp):
TTTTCTTATGATTTTATAAAATTTATAATTT
Found at i:59718714 original size:19 final size:18
Alignment explanation
Indices: 59718690--59718728 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
59718680 AAATTTATAA
59718690 TTACAAATTTTATAA-AATT
1 TTAC-AATTTT-TAATAATT
59718709 TTACAATTTTTAATAATT
1 TTACAATTTTTAATAATT
59718727 TT
1 TT
59718729 TAATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 12 0.63
19 4 0.21
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTACAATTTTTAATAATT
Found at i:59718726 original size:10 final size:10
Alignment explanation
Indices: 59718713--59718778 Score: 57
Period size: 10 Copynumber: 6.8 Consensus size: 10
59718703 AAAATTTTAC
59718713 AATTTTTAAT
1 AATTTTTAAT
59718723 AATTTTTAAT
1 AATTTTTAAT
59718733 -ATTTTT-AT
1 AATTTTTAAT
* *
59718741 ATTCTTTTATT
1 AAT-TTTTAAT
**
59718752 AAAATTTAAT
1 AATTTTTAAT
59718762 AATTTTT-AT
1 AATTTTTAAT
*
59718771 AACTTTTA
1 AATTTTTA
59718779 TTGATTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
8 2 0.05
9 15 0.35
10 24 0.56
11 2 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:59723229 original size:9 final size:9
Alignment explanation
Indices: 59723212--59723248 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
59723202 TGAGTTTTTA
59723212 AATTCGAAT
1 AATTCGAAT
*
59723221 AACTCGAAT
1 AATTCGAAT
*
59723230 AATTCAAAT
1 AATTCGAAT
59723239 AATTCGAAT
1 AATTCGAAT
59723248 A
1 A
59723249 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:59724191 original size:5 final size:5
Alignment explanation
Indices: 59724181--59724207 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
59724171 AAATATATTT
59724181 GATTC GATTC GATTC GATTC GATTC GA
1 GATTC GATTC GATTC GATTC GATTC GA
59724208 ATTCCATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (5 bp):
GATTC
Found at i:59727327 original size:41 final size:41
Alignment explanation
Indices: 59727278--59727416 Score: 208
Period size: 41 Copynumber: 3.4 Consensus size: 41
59727268 ATATGATTGA
* *
59727278 CACTAAGTGTGCGAAATTAAATAATGATGTTGAATAACGAG
1 CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGAG
*
59727319 CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACAAG
1 CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGAG
* * *
59727360 CACTAAGTGTGCGAAACCAAGTAATTATGTT-AATAACGGG
1 CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGAG
*
59727400 CACTAAGTGTGCAAAAC
1 CACTAAGTGTGCGAAAC
59727417 GGAGATCAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 23 0.26
41 67 0.74
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGAG
Found at i:59731426 original size:264 final size:265
Alignment explanation
Indices: 59730946--59731451 Score: 888
Period size: 264 Copynumber: 1.9 Consensus size: 265
59730936 TTCTCCCACT
*
59730946 CAATATTTTAAAAAAAAATATGCAAGGTTTTTTATCCTAGATTTCAAGAATGATGATACAACAGT
1 CAATATTTTAAAAAAAAATATGCAAGGTTTTTTATCCTAAATTTCAAGAATGATGATACAACAGT
* * * *
59731011 CCTAGTGGCATTCTTACCTAATTTACATGTCATGCTTTCAGTATATGCATGACATGTTATGAAAA
66 CCTAGTAGCATTCTTACCTAATCTACATGACATGCTTTCAGTATATGCATGACATGCTATGAAAA
59731076 TTTTATAATATTCACATTCATTCAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
131 TTTTATAATATTCACATTCATTCAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
* *
59731141 TTCCACAATTTTTCGTTTAAGGGAAAAACCAAAGAAGTGAATGTGAACATTTCAGGGACCTTCTC
196 CTCCACAATTTTTCGTTTAAGGAAAAAACCAAAGAAGTGAATGTGAACATTTCAGGGACCTTCTC
59731206 TTACA
261 TTACA
*
59731211 CAATATTTT-AAAAAAAATATGCAAGGTTTTTTATCCTAAATTTCAAGAATGATGATACAATAGT
1 CAATATTTTAAAAAAAAATATGCAAGGTTTTTTATCCTAAATTTCAAGAATGATGATACAACAGT
* * *
59731275 CCTAGTAGCATTCTTACCTAATCTATATGACATGCTTTCAGTATATGCATGACATGCTATGATAG
66 CCTAGTAGCATTCTTACCTAATCTACATGACATGCTTTCAGTATATGCATGACATGCTATGAAAA
*
59731340 TTTTATAATATTCACATTCATTTAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
131 TTTTATAATATTCACATTCATTCAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
*
59731405 CTCCACAATTTTTCGTTTAAGGAAAAAACCGAAGAAGTGAATGTGAA
196 CTCCACAATTTTTCGTTTAAGGAAAAAACCAAAGAAGTGAATGTGAA
59731452 TAGTGCACCA
Statistics
Matches: 228, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
264 219 0.96
265 9 0.04
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (265 bp):
CAATATTTTAAAAAAAAATATGCAAGGTTTTTTATCCTAAATTTCAAGAATGATGATACAACAGT
CCTAGTAGCATTCTTACCTAATCTACATGACATGCTTTCAGTATATGCATGACATGCTATGAAAA
TTTTATAATATTCACATTCATTCAGAAGAAGAATCAATCAACCATAAAAACAAACAATTTTGATT
CTCCACAATTTTTCGTTTAAGGAAAAAACCAAAGAAGTGAATGTGAACATTTCAGGGACCTTCTC
TTACA
Found at i:59734260 original size:23 final size:23
Alignment explanation
Indices: 59734230--59734277 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
59734220 TATCATCTGT
* *
59734230 TTTATGATATGAGATTAGTCTTA
1 TTTATGATATGAGATCACTCTTA
59734253 TTTATGATATGAGATCACTCTTA
1 TTTATGATATGAGATCACTCTTA
59734276 TT
1 TT
59734278 GGATTAGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (23 bp):
TTTATGATATGAGATCACTCTTA
Found at i:59742117 original size:19 final size:20
Alignment explanation
Indices: 59742093--59742143 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
59742083 CCAATCATAT
59742093 GTATCGATACCTT-TGTAAA
1 GTATCGATACCTTGTGTAAA
**
59742112 GTATCGATACCTTGGTGTAGG
1 GTATCGATACCTT-GTGTAAA
59742133 GTATCGATACC
1 GTATCGATACC
59742144 AAATTGGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
21 15 0.54
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
GTATCGATACCTTGTGTAAA
Found at i:59744567 original size:23 final size:23
Alignment explanation
Indices: 59744541--59744608 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
59744531 TGTTATTGAT
59744541 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
**
59744564 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACATAA
59744587 CAGTGGTAGCTTCGGCTACATA
1 CAGTGGTAGCTTCGGCTACATA
59744609 TTAGTGTTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:59745209 original size:24 final size:27
Alignment explanation
Indices: 59745163--59745212 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 27
59745153 ATAAAAATTA
59745163 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
59745190 ACCAAAATA-T-T-ACTTTTTTTATT
1 ACCAAAATATTATAACTTTTTTTATT
59745213 ATTTACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.52
25 1 0.04
26 1 0.04
27 9 0.39
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:59745329 original size:27 final size:27
Alignment explanation
Indices: 59745299--59745350 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
59745289 GGTCAATCAC
59745299 ATTGGCCGCACCAAAGGTGCCAAAGAG
1 ATTGGCCGCACCAAAGGTGCCAAAGAG
** *
59745326 ATTGGTGGCACCAATGGTGCCAAAG
1 ATTGGCCGCACCAAAGGTGCCAAAG
59745351 TGATGGACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (27 bp):
ATTGGCCGCACCAAAGGTGCCAAAGAG
Found at i:59745456 original size:19 final size:19
Alignment explanation
Indices: 59745429--59745498 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
59745419 TCAACTCATT
*
59745429 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
59745448 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
59745466 -TTTACATTTAATAACTCTA
1 TTTTA-ATTTAATAACTCTA
59745485 TTTTAATTTAATAA
1 TTTTAATTTAATAA
59745499 ACTATTAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
17 4 0.09
18 12 0.27
19 25 0.56
20 4 0.09
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:59745479 original size:37 final size:37
Alignment explanation
Indices: 59745434--59745504 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
59745424 TCATTTTTTT
59745434 ATTTAATAACTCTATTTTAATTTAATAAACTATTTAC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTTAC
59745471 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
59745505 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTTAC
Found at i:59745751 original size:19 final size:19
Alignment explanation
Indices: 59745724--59745795 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
59745714 TCAACTCATT
*
59745724 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
* **
59745743 TTTTAATTTGATAA-AATA
1 TTTTAATTTAATAACTCTA
* *
59745761 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
59745780 TTTTAATTTAATAACT
1 TTTTAATTTAATAACT
59745796 ATTAAGTAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 13 0.32
19 28 0.68
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:59745970 original size:293 final size:295
Alignment explanation
Indices: 59745361--59746063 Score: 1268
Period size: 293 Copynumber: 2.4 Consensus size: 295
59745351 TGATGGACTA
59745361 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
59745426 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATT-TACATTTAATAACTCTATTTTA
66 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCT-CATTTAATAACTCTATTTTA
59745490 ATTTAATAAACTATTAAGTAATACTTAATTTTTTAAAAATTAAAATAGAGTTATTAAATGAGAGA
130 ATTTAATAAACTATTAAGTAATACTTAATTTTTTAAAAATTAAAATAGAGTTATTAAATGAGAGA
* * *
59745555 ATTCTAATTAAGTGACCATTTGCAGTTTTGAGGACTTGACATGCAAATTTACCATTTTGAATTTT
195 ATTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGCAAATTTACCATTTTAAATTTT
*
59745620 GAAAGTGAATTGCTGTTGCTGTGCGCACTAAAATTG
260 GAAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTG
* *
59745656 AAATGTGGCTAATTTCCTTCTAATCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
* *
59745721 ATTTTTTTATTTAATAACTCTATTTTAATTTGATAAAATATTCTCATTTAATAACTCTATTTTAA
66 ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
*
59745786 TTTAAT-AACTATTAAGTAATACTTAATTTTTT-TAAATTAAAATAGAGTTATTAAATGAGAGAA
131 TTTAATAAACTATTAAGTAATACTTAATTTTTTAAAAATTAAAATAGAGTTATTAAATGAGAGAA
59745849 TTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGCAAATTTACCATTTTAAATTTTG
196 TTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGCAAATTTACCATTTTAAATTTTG
59745914 AAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTG
261 AAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTG
*
59745949 AAATGTGACTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
1 AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
*
59746014 ATTTTTTTTATTTAATAACTCTATTTTAATTTAAGAAACTATTCTCATTT
66 A-TTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTT
59746064 TTTTATTTAA
Statistics
Matches: 391, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
293 189 0.48
294 71 0.18
295 130 0.33
296 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (295 bp):
AAATGTGGCTAATTGCCTTCTAAGCCCTCCTTATTTATTATTTTCTTTTTATTCCCCTTCAACTC
ATTTTTTTATTTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAA
TTTAATAAACTATTAAGTAATACTTAATTTTTTAAAAATTAAAATAGAGTTATTAAATGAGAGAA
TTCTAATTAAGTGACCATTTGCAGTTTTAAGGACGTGACATGCAAATTTACCATTTTAAATTTTG
AAAGTGAATTGCTGCTGCTGTGCGCACTAAAATTG
Found at i:59750278 original size:46 final size:46
Alignment explanation
Indices: 59750228--59750317 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
59750218 GGTAACACAC
*
59750228 ATATGACAAGGTCA-TTGGAAAAAGCAGTTGGACGAATTGCTTTCGT
1 ATATGACAAGGTCATTTGG-AAAAGCAGTTAGACGAATTGCTTTCGT
*
59750274 ATATGATAAGGTCATTTGGAAAAGCAGTTAGACGAATTGCTTTC
1 ATATGACAAGGTCATTTGGAAAAGCAGTTAGACGAATTGCTTTC
59750318 ATAAAGAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 37 0.90
47 4 0.10
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (46 bp):
ATATGACAAGGTCATTTGGAAAAGCAGTTAGACGAATTGCTTTCGT
Found at i:59752650 original size:24 final size:24
Alignment explanation
Indices: 59752541--59752652 Score: 82
Period size: 25 Copynumber: 4.6 Consensus size: 24
59752531 GTACATGTAT
* ** *
59752541 GCTCATACAAGCAAAAAACGGTAA
1 GCTCATACGAGCTGAAATCGGTAA
* * *
59752565 GCTCCTCCGAGCTAGATATCGGTAA
1 GCTCATACGAGCT-GAAATCGGTAA
* *
59752590 GCTCATACGAGTTGTGAATCGGTAA
1 GCTCATACGAGCTG-AAATCGGTAA
* * *
59752615 GTTC-TGATGAGCTGAAATCGGAAA
1 GCTCAT-ACGAGCTGAAATCGGTAA
59752639 GCTCATACGAGCTG
1 GCTCATACGAGCTG
59752653 TGGTGTGTTT
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
24 29 0.45
25 36 0.55
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGGTAA
Found at i:59757562 original size:31 final size:30
Alignment explanation
Indices: 59757518--59757631 Score: 104
Period size: 31 Copynumber: 3.7 Consensus size: 30
59757508 TTAATATGAG
* * *
59757518 ATATTTAATTTAATTTAATATTTTTCTAAAT
1 ATATTTTA-TTAATTTAATATTTATCTAGAT
* * *
59757549 AGTATTTTATTAATTTAATATTAATAT-GAG
1 A-TATTTTATTAATTTAATATTTATCTAGAT
**
59757579 ATATTAAATTTAATTTAATATTTATCTAGAT
1 ATATTTTA-TTAATTTAATATTTATCTAGAT
*
59757610 AATATTTTATTATTTTAATATT
1 -ATATTTTATTAATTTAATATT
59757632 AATGTGATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
29 5 0.08
30 18 0.28
31 30 0.46
32 12 0.18
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (30 bp):
ATATTTTATTAATTTAATATTTATCTAGAT
Found at i:59757576 original size:61 final size:61
Alignment explanation
Indices: 59757505--59757634 Score: 215
Period size: 61 Copynumber: 2.1 Consensus size: 61
59757495 ATTTATCTAG
* * *
59757505 ATATTAATATGAGATATTTAATTTAATTTAATATTTTTCTAAATAGTATTTTATTAATTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAATATTTTATTAATTTA
* *
59757566 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTATTTTA
1 ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAATATTTTATTAATTTA
59757627 ATATTAAT
1 ATATTAAT
59757635 GTGATTAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (61 bp):
ATATTAATATGAGATATTAAATTTAATTTAATATTTATCTAAATAATATTTTATTAATTTA
Found at i:59762112 original size:16 final size:17
Alignment explanation
Indices: 59762078--59762112 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59762068 TTTGTCTTTG
*
59762078 AATTTTTGGTGAGATTA
1 AATTTTTGGTGAGACTA
59762095 AATTTTTGGTG-GACTA
1 AATTTTTGGTGAGACTA
59762111 AA
1 AA
59762113 ATGTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.43
Consensus pattern (17 bp):
AATTTTTGGTGAGACTA
Found at i:59763408 original size:41 final size:41
Alignment explanation
Indices: 59763371--59763448 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
59763361 GAAGGCTTAT
*
59763371 TGCCAGTGAAATAATTCAGACTCTATGTCTAGCAGGCTGGA
1 TGCCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCTGGA
* *
59763412 TGCCGGTGAAACAATTCAGACTCTATGTCTGGCAGGC
1 TGCCAGTGAAACAATTCAGACTCTATGTCTAGCAGGC
59763449 CAAAAGCCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
TGCCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCTGGA
Found at i:59763458 original size:41 final size:41
Alignment explanation
Indices: 59763376--59763460 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
59763366 CTTATTGCCA
* *** *
59763376 GTGAAATAATTCAGACTCTATGTCTAGCAGGCTGGATGCCG
1 GTGAAACAATTCAGACTCTATGTCTAGCAGGCCAAAAGCCG
*
59763417 GTGAAACAATTCAGACTCTATGTCTGGCAGGCCAAAAGCCG
1 GTGAAACAATTCAGACTCTATGTCTAGCAGGCCAAAAGCCG
59763458 GTG
1 GTG
59763461 TACTGAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (41 bp):
GTGAAACAATTCAGACTCTATGTCTAGCAGGCCAAAAGCCG
Found at i:59772946 original size:98 final size:98
Alignment explanation
Indices: 59772834--59773039 Score: 385
Period size: 98 Copynumber: 2.1 Consensus size: 98
59772824 TAAAGAAAAA
* *
59772834 TATATAGATAGAAATTATAAAATATGTATGGAAAGTATAATATATATACGTACATATATATATAA
1 TATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACATATATATATAA
59772899 GTTAATAAATATATAGATCATAAAGATAATGAT
66 GTTAATAAATATATAGATCATAAAGATAATGAT
59772932 TATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACATATATATATAA
1 TATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACATATATATATAA
59772997 GTTAATAAATATATAGATCATAAAGATAATGAT
66 GTTAATAAATATATAGATCATAAAGATAATGAT
*
59773030 TACATATATA
1 TATATATATA
59773040 AACTTAAAAA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 105 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.35
Consensus pattern (98 bp):
TATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACATATATATATAA
GTTAATAAATATATAGATCATAAAGATAATGAT
Found at i:59772961 original size:20 final size:20
Alignment explanation
Indices: 59772933--59772979 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
59772923 GATAATGATT
*
59772933 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
59772953 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
59772973 ATATATA
1 ATATATA
59772980 CGTACATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:59772989 original size:48 final size:48
Alignment explanation
Indices: 59772841--59772989 Score: 141
Period size: 44 Copynumber: 3.1 Consensus size: 48
59772831 AAATATATAG
*
59772841 ATAGAAATTATAAAATATGTATGGAAAGTATAATATATATACGTACATAT
1 ATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTAC--AT
* *
59772891 ATATATAAGTTAATAAATATATAG-ATCATAAAG-ATAATGAT-TATA--T--AT
1 ATAGA-AA-TT-ATAAA-ATAT-GTAT-AGAAAGTATAAT-ATATATACGTACAT
59772939 ATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACAT
1 ATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACAT
59772987 ATA
1 ATA
59772990 TATATAAGTT
Statistics
Matches: 80, Mismatches: 5, Indels: 30
0.70 0.04 0.26
Matches are distributed among these distances:
43 8 0.10
44 15 0.19
45 5 0.06
46 3 0.04
47 2 0.03
48 11 0.14
50 4 0.05
51 2 0.03
52 3 0.04
53 5 0.06
54 15 0.19
55 7 0.09
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (48 bp):
ATAGAAATTATAAAATATGTATAGAAAGTATAATATATATACGTACAT
Found at i:59774392 original size:44 final size:44
Alignment explanation
Indices: 59774326--59774610 Score: 297
Period size: 44 Copynumber: 6.4 Consensus size: 44
59774316 TATGGGCAGG
* * *
59774326 CAAGATCTGCTACCTTTTATCTATTTCATGCC-GATACATGAAGA
1 CAAGATCTGCTATCTTTGATCTACTTCATGCCAG-TACATGAAGA
* * *
59774370 CAAGATCTACTTTCTTTGATCTACTTCACGCCAGTACATGAAGA
1 CAAGATCTGCTATCTTTGATCTACTTCATGCCAGTACATGAAGA
* * * *
59774414 CAAGATCCGCTATATTTGATCTACTTCACGCCAGTACATAAAGA
1 CAAGATCTGCTATCTTTGATCTACTTCATGCCAGTACATGAAGA
* * * *
59774458 CAAGATCTGCTTTTTTTGATCTACCTCATGCCAATACATGAAGA
1 CAAGATCTGCTATCTTTGATCTACTTCATGCCAGTACATGAAGA
* * * ** *
59774502 CAAGATCCGCTTTCTTCGATTCTACTT--TGCCACCAGTATGGAAAGA
1 CAAGATCTGCTATCTTTGA-TCTACTTCATGCCAGTA-CAT-G-AAGA
* * *
59774548 CAAGATCTGCTATCTTCGATCTAATTCATGCCAATACATGAAGA
1 CAAGATCTGCTATCTTTGATCTACTTCATGCCAGTACATGAAGA
59774592 CAAGATCTGCTATCTTTGA
1 CAAGATCTGCTATCTTTGA
59774611 CCTATTCCGC
Statistics
Matches: 202, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
43 6 0.03
44 152 0.75
45 15 0.07
46 23 0.11
47 6 0.03
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
CAAGATCTGCTATCTTTGATCTACTTCATGCCAGTACATGAAGA
Found at i:59774569 original size:90 final size:88
Alignment explanation
Indices: 59774366--59774607 Score: 306
Period size: 90 Copynumber: 2.7 Consensus size: 88
59774356 CCGATACATG
* * * * *
59774366 AAGACAAGATCTACTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTATATTT
1 AAGACAAGATCTGCTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCCGCTATCTTC
* *
59774431 GATCTACTTCACGCCAGTACATA
66 GATCTACTTCACACCAGTACAGA
* * *
59774454 AAGACAAGATCTGCTTTTTTTGATCTACCTCATGCCAATACATGAAGACAAGATCCGCTTTCTTC
1 AAGACAAGATCTGCTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCCGCTATCTTC
**
59774519 GATTCTACTTTGC-CACCAGTATGGA
66 GA-TCTAC-TT-CACACCAGTACAGA
* * * *
59774544 AAGACAAGATCTGCTATCTTCGATCTAATTCATGCCAATACATGAAGACAAGATCTGCTATCTT
1 AAGACAAGATCTGCTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCCGCTATCTT
59774608 TGACCTATTC
Statistics
Matches: 132, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 59 0.45
89 5 0.04
90 67 0.51
91 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (88 bp):
AAGACAAGATCTGCTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCCGCTATCTTC
GATCTACTTCACACCAGTACAGA
Found at i:59774721 original size:88 final size:88
Alignment explanation
Indices: 59774582--59775434 Score: 1211
Period size: 88 Copynumber: 9.7 Consensus size: 88
59774572 TTCATGCCAA
* * ** ** * * *
59774582 TACATGAAGACAAGATCTGCTATCTTTGACCTATTCCGCTACAACCTAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
* *
59774647 TCTTCAATCTACTTCACTGTCGG
66 TCTTCGATCTGCTTCACTGTCGG
59774670 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
* * * *
59774735 CCTTTGATCTGCGTCACTATCGG
66 TCTTCGATCTGCTTCACTGTCGG
* *
59774758 TATAGGAAAGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
* * * *
59774823 TCTTTGATCTGCTTCATTTTCAG
66 TCTTCGATCTGCTTCACTGTCGG
*
59774846 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTAGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
* * * *
59774911 CCTTCGATTTGCTTCACTATTGG
66 TCTTCGATCTGCTTCACTGTCGG
* *
59774934 TACAGGAAGGCAAGATCTGCTATATTCAACCTGCTCCACTACGACCCAGGGAGGTAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
59774999 TCTTCGATCTGCTTCACTGTCGG
66 TCTTCGATCTGCTTCACTGTCGG
* *
59775022 TACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTAGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
*
59775087 TCTTCGATCTGCTTCACTATCGG
66 TCTTCGATCTGCTTCACTGTCGG
*
59775110 TACAGGAAGGCAATATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
59775175 TCTTCGATCTGCTTCACTGTCGG
66 TCTTCGATCTGCTTCACTGTCGG
* * * * *
59775198 TATAGAAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACGACCCAGAGAGACAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
* * *
59775263 TCTTCGATCTGCTTCGCTGTTGA
66 TCTTCGATCTGCTTCACTGTCGG
* * *
59775286 TGCAGGAAGGCAAGGTCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAAGCAAGGCTGGTA
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
* *
59775351 TCTTCGATCTGCTTCGCTGTCGA
66 TCTTCGATCTGCTTCACTGTCGG
** * * ** * * * *
59775374 CGCAGGAAGGCAAGATCTGTTATTTTCAAATTGCTCCGCTGCAAACCAGGGAGGCAAGGCT
1 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCT
59775435 TTGTGCTTTC
Statistics
Matches: 688, Mismatches: 77, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 688 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (88 bp):
TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTA
TCTTCGATCTGCTTCACTGTCGG
Found at i:59781816 original size:104 final size:105
Alignment explanation
Indices: 59781609--59781820 Score: 358
Period size: 105 Copynumber: 2.0 Consensus size: 105
59781599 AATAAAGAAA
*
59781609 ATATATATATAGAAATTATAAAATATGTATGGAAAGTATAATATATAGACATACATATATATATA
1 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATAGACATACATATATATATA
59781674 AGTTAATAAATATATAGATCATAAAGATAATGATACATAT
66 AGTTAATAAATATATAGATCATAAAGATAATGATACATAT
* *
59781714 ATATATATATAGAAATTAT-AAATATGTATAG-AAGTATAATACATATATACGTACATATATATA
1 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAAT--ATATAGACATACATATATATA
59781777 TAAGTTAAT-AATATATAGATCATAAAGATAATGATACATAT
64 TAAGTTAATAAATATATAGATCATAAAGATAATGATACATAT
59781818 ATA
1 ATA
59781821 AACTTAACAA
Statistics
Matches: 102, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
103 9 0.09
104 46 0.45
105 47 0.46
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (105 bp):
ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATAGACATACATATATATATA
AGTTAATAAATATATAGATCATAAAGATAATGATACATAT
Found at i:59781841 original size:104 final size:104
Alignment explanation
Indices: 59781628--59781842 Score: 294
Period size: 104 Copynumber: 2.1 Consensus size: 104
59781618 TAGAAATTAT
*
59781628 AAAATATGTATGGAAAGTATAATATATAGACATACATATATATATAAGTTAATAAATATATAGAT
1 AAAATATGTATAGAAAGTATAATATATAGACATACATATATATATAAGTTAATAAATATATAGAT
* * **
59781693 CATAAAGATAATGATACATATATATATATATAGAAATTA
66 CATAAAGATAATGATACATATATAAATATATACAAAGAA
* * *
59781732 TAAATATGTATAG-AAGTATAATACATATATACGTACATATATATATAAGTTAAT-AATATATAG
1 AAAATATGTATAGAAAGTATAAT--ATATAGACATACATATATATATAAGTTAATAAATATATAG
59781795 ATCATAAAGATAATGATACATATATAAACT-TA-ACAAAGGAA
64 ATCATAAAGATAATGATACATATATAAA-TATATACAAA-GAA
59781836 AAAATAT
1 AAAATAT
59781843 TTGAAATTAA
Statistics
Matches: 98, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
103 13 0.13
104 56 0.57
105 29 0.30
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (104 bp):
AAAATATGTATAGAAAGTATAATATATAGACATACATATATATATAAGTTAATAAATATATAGAT
CATAAAGATAATGATACATATATAAATATATACAAAGAA
Found at i:59782591 original size:14 final size:14
Alignment explanation
Indices: 59782557--59782594 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
59782547 TTATTTATTT
*
59782557 TAGTAAA-ATAAAA
1 TAGTAAACAAAAAA
59782570 TA-TAAACAAAAAA
1 TAGTAAACAAAAAA
59782583 TAGTAAACAAAA
1 TAGTAAACAAAA
59782595 GTAAGCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 4 0.18
13 9 0.41
14 9 0.41
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (14 bp):
TAGTAAACAAAAAA
Found at i:59795162 original size:13 final size:13
Alignment explanation
Indices: 59795146--59795171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59795136 TATAGTAATT
59795146 AATATAAATATAA
1 AATATAAATATAA
59795159 AATATAAATATAA
1 AATATAAATATAA
59795172 TTTTAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATATAAATATAA
Found at i:59796028 original size:17 final size:17
Alignment explanation
Indices: 59796006--59796040 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
59795996 TTATTAAATT
*
59796006 ACATTGTTAAATTAAAA
1 ACATTGTTAAATGAAAA
*
59796023 ACATTGTTTAATGAAAA
1 ACATTGTTAAATGAAAA
59796040 A
1 A
59796041 AATAAAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (17 bp):
ACATTGTTAAATGAAAA
Found at i:59797188 original size:27 final size:27
Alignment explanation
Indices: 59797132--59797189 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
59797122 AAAACTATTT
*
59797132 CTTTTTTTTTTCTTTCTTCCCAATTTC
1 CTTTTTTTTTTCTTTCTTCCCAATTAC
* *
59797159 CTTTTTTTCTTTCTTT-TTCTCTATTAC
1 CTTTTTTT-TTTCTTTCTTCCCAATTAC
59797186 CTTT
1 CTTT
59797190 CTTCTTCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (27 bp):
CTTTTTTTTTTCTTTCTTCCCAATTAC
Found at i:59797198 original size:46 final size:46
Alignment explanation
Indices: 59797140--59797263 Score: 148
Period size: 44 Copynumber: 2.8 Consensus size: 46
59797130 TTCTTTTTTT
* * * *
59797140 TTTCTTTCTTCCCAATTTCCTTTTTTTCTTTCTTTTTCTCTATTACC
1 TTTC-TTCTTCCCAATTTCCTTTTTCTCTTTCTTTTTCCCGATGACC
59797187 TTTCTTCTTCCCAATTTCC-TTTTCT-TTTCTTTTTCCCGATGACC
1 TTTCTTCTTCCCAATTTCCTTTTTCTCTTTCTTTTTCCCGATGACC
* * *
59797231 TTTTTTCTTCCTAATGT-CTTTTTCTC-TTCTTTT
1 TTTCTTCTTCCCAATTTCCTTTTTCTCTTTCTTTT
59797264 CTTTGCTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 43 0.63
45 5 0.07
46 15 0.22
47 4 0.06
ACGTcount: A:0.08, C:0.27, G:0.02, T:0.62
Consensus pattern (46 bp):
TTTCTTCTTCCCAATTTCCTTTTTCTCTTTCTTTTTCCCGATGACC
Found at i:59798848 original size:16 final size:16
Alignment explanation
Indices: 59798827--59798865 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
59798817 TATCTTTAAA
*
59798827 AATAATTTTAAAAGAT
1 AATAATTTTAAAAAAT
59798843 AATAATTTTAAAAAAT
1 AATAATTTTAAAAAAT
59798859 AATAATT
1 AATAATT
59798866 AAAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AATAATTTTAAAAAAT
Found at i:59798889 original size:22 final size:22
Alignment explanation
Indices: 59798846--59798909 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
59798836 AAAAGATAAT
59798846 AATTTTAAAAAATAATAATTAAA
1 AATTTTAAAAAATAAT-ATTAAA
*
59798869 AATTTTAAAATATACAT-TTAAA
1 AATTTTAAAAAATA-ATATTAAA
* *
59798891 TATTATAAACCAAATAATA
1 AATTTTAAA--AAATAATA
59798910 AATTTGAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 12 0.36
23 15 0.45
24 6 0.18
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTTTAAAAAATAATATTAAA
Found at i:59798969 original size:19 final size:20
Alignment explanation
Indices: 59798953--59798998 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
59798943 TTTTAAATTT
59798953 TTTATAATATTAAAAATTATA
1 TTTA-AATATTAAAAATTATA
* *
59798974 TTTAAATTTTAAAAATAAT-
1 TTTAAATATTAAAAATTATA
59798993 TTTAAA
1 TTTAAA
59798999 AAATATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAATATTAAAAATTATA
Found at i:59798998 original size:32 final size:34
Alignment explanation
Indices: 59798956--59799036 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 34
59798946 TAAATTTTTT
* *
59798956 ATAATATTAAAAATTATATTT-AAATTTTAAA-A
1 ATAATTTTAAAAATTATATTTAAAAATTTAAATA
59798988 ATAATTTTAAAAA--ATATTTAAAAATTTAAATA
1 ATAATTTTAAAAATTATATTTAAAAATTTAAATA
59799020 ATAATATTATAAAAATT
1 ATAAT-TT-TAAAAATT
59799037 TAAAATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 6 0.15
31 9 0.22
32 18 0.44
33 2 0.05
34 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (34 bp):
ATAATTTTAAAAATTATATTTAAAAATTTAAATA
Found at i:59799038 original size:31 final size:31
Alignment explanation
Indices: 59798956--59799064 Score: 105
Period size: 31 Copynumber: 3.5 Consensus size: 31
59798946 TAAATTTTTT
* *
59798956 ATAATATTAAAAATTATATTTAAATTTTAAA-A
1 ATAATATTATAAA--ATATTTAAAATTTAAATA
* *
59798988 ATAATTTTAAAAAATATTTAAAAATTTAAATA
1 ATAATATTATAAAATATTT-AAAATTTAAATA
* *
59799020 ATAATATTATAAAA-ATTTAAAATATATATCA
1 ATAATATTATAAAATATTTAAAATTTAAAT-A
*
59799051 AAAATATTATAAAA
1 ATAATATTATAAAA
59799065 CAAATAATAA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
30 15 0.22
31 27 0.40
32 25 0.37
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (31 bp):
ATAATATTATAAAATATTTAAAATTTAAATA
Found at i:59799048 original size:22 final size:21
Alignment explanation
Indices: 59798993--59799048 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
59798983 TAAAAATAAT
59798993 TTTAAAA-A-ATATTTAAAAA
1 TTTAAAATATATATTTAAAAA
59799012 TTT-AAATAATAATATTATAAAAA
1 TTTAAAAT-AT-ATATT-TAAAAA
59799035 TTTAAAATATATAT
1 TTTAAAATATATAT
59799049 CAAAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 1 0.03
22 9 0.29
23 11 0.35
24 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTAAAATATATATTTAAAAA
Found at i:59800214 original size:17 final size:17
Alignment explanation
Indices: 59800170--59800221 Score: 77
Period size: 18 Copynumber: 3.0 Consensus size: 17
59800160 TTTTCTCTAT
59800170 TTTTTAAATATTTATAA
1 TTTTTAAATATTTATAA
*
59800187 TTTAATAAATATTTATAA
1 TTT-TTAAATATTTATAA
*
59800205 TTTTTAAATATATATAA
1 TTTTTAAATATTTATAA
59800222 CTATTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTTAAATATTTATAA
Found at i:59802307 original size:16 final size:16
Alignment explanation
Indices: 59802266--59802312 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
59802256 ACTTGAATTT
* *
59802266 TTATAAACTA-AAATA
1 TTATAAACTACTAACA
* *
59802281 TTATTACCTACTAACA
1 TTATAAACTACTAACA
59802297 TTATAAACTACTAACA
1 TTATAAACTACTAACA
59802313 ATCCCCACTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (16 bp):
TTATAAACTACTAACA
Found at i:59809530 original size:22 final size:21
Alignment explanation
Indices: 59809500--59809603 Score: 83
Period size: 19 Copynumber: 5.0 Consensus size: 21
59809490 GGGTATCTAC
* *
59809500 AAATTATATCTCTAAGATTACA
1 AAATCATATCTC-AAGATTGCA
59809522 AAATCATATCTTCCAAGATTGC-
1 AAATCATATC-T-CAAGATTGCA
*
59809544 ATATCATATC-CAAGATTGCA
1 AAATCATATCTCAAGATTGCA
* *
59809564 TATATCATATCT-AAAATTGC-
1 -AAATCATATCTCAAGATTGCA
*
59809584 ATATCATATCT-AAGATTGCA
1 AAATCATATCTCAAGATTGCA
59809604 TATCCTTGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
19 27 0.38
21 17 0.24
22 18 0.25
23 8 0.11
24 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (21 bp):
AAATCATATCTCAAGATTGCA
Found at i:59809570 original size:21 final size:19
Alignment explanation
Indices: 59809533--59809607 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
59809523 AATCATATCT
59809533 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
59809552 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
* *
59809573 TCTAAAATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
59809592 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
59809608 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 34 0.67
21 17 0.33
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:59810223 original size:44 final size:44
Alignment explanation
Indices: 59809980--59810225 Score: 309
Period size: 44 Copynumber: 5.8 Consensus size: 44
59809970 ACCAGTATGG
* * * *
59809980 GAAGACAAGATCTGCTACCTTTGATCTATTTCATGCCGATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* *
59810024 GAAGACAAGATCTGCTTTCTTCGATCTAC-T--CGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
* * *
59810065 GAAAACAAGATCTACT-TCTTCGATCTAC-T--CGCCACAT--AT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCA-ATACAT
59810104 GGAAGACAA-ATCTGCTATC-TTGATCTACTTCACGCCAATACAT
1 -GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
59810147 GAA-ACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
59810190 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGC
59810226 TACATAAGAC
Statistics
Matches: 180, Mismatches: 11, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
39 16 0.09
40 28 0.16
41 31 0.17
42 18 0.10
43 30 0.17
44 57 0.32
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
Found at i:59810237 original size:125 final size:123
Alignment explanation
Indices: 59809980--59810219 Score: 324
Period size: 125 Copynumber: 1.9 Consensus size: 123
59809970 ACCAGTATGG
* * * *
59809980 GAAGACAAGATCTGCTACCTTTGATCTATTTCATGCCGATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTACCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
59810045 CGATCTACTCGCCAATACATGAAAACAAGATCTACTTCTTCGATCTACTCGCCACATAT
66 CGATCTACTCGCCAATACATGAAAACAAGATCTACTTCTTCGATCTACTCGCCACA-AT
*
59810104 GGAAGACAA-ATCTGCTATC-TTGATCTACTTCACGCCAATACATGAA-ACAAGATCTGCTATCT
1 -GAAGACAAGATCTGCTACCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCT
* * * *
59810166 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTACT
65 TCGATCTAC-T--CGCCAATACATGAAAACAAGATCTACT-TCTTCGATCTACT
59810220 TCACGCTACA
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
122 23 0.23
123 25 0.25
124 9 0.09
125 33 0.32
126 12 0.12
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (123 bp):
GAAGACAAGATCTGCTACCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
CGATCTACTCGCCAATACATGAAAACAAGATCTACTTCTTCGATCTACTCGCCACAAT
Found at i:59810589 original size:86 final size:87
Alignment explanation
Indices: 59810341--59811128 Score: 1097
Period size: 86 Copynumber: 9.2 Consensus size: 87
59810331 CTTACAACCT
59810341 AGGGAGGCAAGGCTGGTATCTTC-ATCT-CTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC-GTACAGGAAGGCAAGATCTGCTATC
59810404 TTCAACCTGCTCCACTACGA-CC
65 TTCAACCTGCTCCACTACGACCC
* * * *
59810426 AGGGAGGCAAGGCTGGTA-CTTTGATCTGC-TCACTATCGGTATAGGAAAGC-AGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC-GTACAGGAAGGCAAGATCTGCTATC
59810488 TTCAACCTGCTCCACTAC-ACCC
65 TTCAACCTGCTCCACTACGACCC
* * *
59810510 AGGGAGGCAAGGCTGGTATCTTTGATCTGCTTCATTTTCGTACAGGAAGGCAAGATCTGCTATCT
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGTACAGGAAGGCAAGATCTGCTATCT
59810575 TCAACCTGCTCCACTACGACCC
66 TCAACCTGCTCCACTACGACCC
* * * *
59810597 AGGGAGGCAAGGCTAGTA-CTTCGAT-TGCTTCACTATTGGTACAGGAAGGCAAGATCTGCTATA
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACT-GTCGTACAGGAAGGCAAGATCTGCTATC
59810660 TTCAACCTGCTCCACTACGACCC
65 TTCAACCTGCTCCACTACGACCC
*
59810683 AGGGAGGTAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACA-GAAGGCAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC-GTACAGGAAGGCAAGATCTGCTATC
59810747 TTCAACCTGCTCCACTAC-ACCC
65 TTCAACCTGCTCCACTACGACCC
* * *
59810769 AGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTATCGTACAGGAAGGCAATATCTGCTATCT
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGTACAGGAAGGCAAGATCTGCTATCT
59810834 TCAACCTGCTCCACTACGACCC
66 TCAACCTGCTCCACTACGACCC
* *
59810856 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTATA-GAAGGCAAGATCTGTTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC-GTACAGGAAGGCAAGATCTGCTATC
59810920 TTCAACCTGCTCCACTACGA-CC
65 TTCAACCTGCTCCACTACGACCC
* * * * *
59810942 AGAGAGACAAGGCTGGTATCTTCGATCTGCTTCGCTGT-GATGCAGGAAGGCAAGGTCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCG-TACAGGAAGGCAAGATCTGCTATC
59811006 TTCAACCTGCTCCACTAC-ACCC
65 TTCAACCTGCTCCACTACGACCC
* * *
59811028 A-GGAAGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCG-ACGCAGGAAGGCAAGATCTGTTAT
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGTA--CAGGAAGGCAAGATCTGCTAT
* ** * * * *
59811091 TTTCAAATTGCTCCGCTGCAAACC
64 CTTCAACCTGCTCCACTACGACCC
59811115 AGGGAGGCAAGGCT
1 AGGGAGGCAAGGCT
59811129 TTGTGCTTTC
Statistics
Matches: 634, Mismatches: 47, Indels: 41
0.88 0.07 0.06
Matches are distributed among these distances:
83 1 0.00
84 54 0.09
85 110 0.17
86 293 0.46
87 147 0.23
88 29 0.05
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (87 bp):
AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGTACAGGAAGGCAAGATCTGCTATCT
TCAACCTGCTCCACTACGACCC
Found at i:59810738 original size:173 final size:174
Alignment explanation
Indices: 59810341--59811128 Score: 1127
Period size: 173 Copynumber: 4.6 Consensus size: 174
59810331 CTTACAACCT
59810341 AGGGAGGCAAGGCTGGTATCTTC-ATCT-CTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
* * *
59810404 TTCAACCTGCTCCACTACGACCAGGGAGGCAAGGCTGGTA-CTTTGATCTGC-TCACTATCGGTA
66 TTCAACCTGCTCCACTACGACCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTATTGGTA
* *
59810467 TAGGAAAGC-AGATCTGCTATCTTCAACCTGCTCCACTACACCC
131 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACACCC
* * *
59810510 AGGGAGGCAAGGCTGGTATCTTTGATCTGCTTCATTTTC-GTACAGGAAGGCAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
59810574 TTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTAGTA-CTTCGAT-TGCTTCACTATTGGT
66 TTCAACCTGCTCCACTACGA-CCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTATTGGT
*
59810637 ACAGGAAGGCAAGATCTGCTATATTCAACCTGCTCCACTACGACCC
130 ACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC-ACCC
*
59810683 AGGGAGGTAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACA-GAAGGCAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
*
59810747 TTCAACCTGCTCCACTAC-ACCCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTA-TCGT
66 TTCAACCTGCTCCACTACGA-CCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTATTGGT
*
59810810 ACAGGAAGGCAATATCTGCTATCTTCAACCTGCTCCACTACGACCC
130 ACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC-ACCC
* *
59810856 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTATA-GAAGGCAAGATCTGTTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
* * * * * * *
59810920 TTCAACCTGCTCCACTACGACCAGAGAGACAAGGCTGGTATCTTCGATCTGCTTCGCT-GTGATG
66 TTCAACCTGCTCCACTACGACCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTATTGGTA
*
59810984 CAGGAAGGCAAGGTCTGCTATCTTCAACCTGCTCCACTACACCC
131 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACACCC
* * *** * *
59811028 A-GGAAGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGACGCAGGAAGGCAAGATCTGTTATT
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
** * * *
59811092 TTCAAATTGCTCCGCTGCAAACCAGGGAGGCAAGGCT
66 TTCAACCTGCTCCACTAC-GACCAGGGAGGCAAGGCT
59811129 TTGTGCTTTC
Statistics
Matches: 564, Mismatches: 42, Indels: 22
0.90 0.07 0.04
Matches are distributed among these distances:
169 22 0.04
170 52 0.09
171 88 0.16
172 88 0.16
173 298 0.53
174 16 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (174 bp):
AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
TTCAACCTGCTCCACTACGACCAGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCACTATTGGTA
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACACCC
Found at i:59810812 original size:259 final size:261
Alignment explanation
Indices: 59810341--59811128 Score: 1168
Period size: 259 Copynumber: 3.1 Consensus size: 261
59810331 CTTACAACCT
59810341 AGGGAGGCAAGGCTGGTATCTTC-ATCT-CTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
* *
59810404 TTCAACCTGCTCCACTACGACCAGGGAGGCAAGGCTGGTA-CTTTGATCTGC-TCACTATCGGTA
66 TTCAACCTGCTCCACTACGACCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTA
* *
59810467 TAGGAAAGC-AGATCTGCTATCTTCAACCTGCTCCACTACACCCAGGGAGGCAAGGCTGGTATCT
131 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACACCCAGGGAGGCAAGGCTGGTATCT
* * *
59810531 TTGATCTGCTTCATTTTCGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
196 TCGATCTGCTTCACTATCGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
59810596 C
261 C
* * * *
59810597 AGGGAGGCAAGGCTAGTA-CTTCGAT-TGCTTCACTATTGGTACAGGAAGGCAAGATCTGCTATA
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
*
59810660 TTCAACCTGCTCCACTACGACCCAGGGAGGTAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGT
66 TTCAACCTGCTCCACTACGA-CCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGT
*
59810725 ACA-GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACACCCAGGGAGGCAAGGCTAGTATC
130 ACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACACCCAGGGAGGCAAGGCTGGTATC
*
59810789 TTCGATCTGCTTCACTATCGTACAGGAAGGCAATATCTGCTATCTTCAACCTGCTCCACTACGAC
195 TTCGATCTGCTTCACTATCGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGAC
59810854 CC
260 CC
* *
59810856 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTATA-GAAGGCAAGATCTGTTATC
1 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
* * * * *
59810920 TTCAACCTGCTCCACTACGACCAGAGAGACAAGGCTGGTATCTTCGATCTGCTTCGCTGT-GATG
66 TTCAACCTGCTCCACTACGACCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTA
* *
59810984 CAGGAAGGCAAGGTCTGCTATCTTCAACCTGCTCCACTACACCCA-GGAAGCAAGGCTGGTATCT
131 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACACCCAGGGAGGCAAGGCTGGTATCT
* * * * ** * * *
59811048 TCGATCTGCTTCGCTGTCG-ACGCAGGAAGGCAAGATCTGTTATTTTCAAATTGCTCCGCTGCAA
196 TCGATCTGCTTCACTATCGTA--CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGA
*
59811112 ACC
259 CCC
59811115 AGGGAGGCAAGGCT
1 AGGGAGGCAAGGCT
59811129 TTGTGCTTTC
Statistics
Matches: 481, Mismatches: 40, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
255 5 0.01
256 72 0.15
257 20 0.04
258 53 0.11
259 272 0.57
260 44 0.09
261 15 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (261 bp):
AGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATC
TTCAACCTGCTCCACTACGACCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGGTA
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACACCCAGGGAGGCAAGGCTGGTATCT
TCGATCTGCTTCACTATCGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
C
Found at i:59817357 original size:54 final size:53
Alignment explanation
Indices: 59817299--59817471 Score: 171
Period size: 52 Copynumber: 3.2 Consensus size: 53
59817289 ATAAAGAAAA
59817299 ATATATATATAGAAATTATAAAATATGTATGGAAAGTATAAT-ATATAGACATAC
1 ATATATATATAGAAATTATAAAATATGTAT-GAAAGTATAATAATATA-ACATAC
* * *
59817353 ATATATATAT--AAGTTAATAAATATATAGATCAT-AAAG-ATAATGAT-T-ACATAT
1 ATATATATATAGAAATT-ATAAA-ATAT-G-T-ATGAAAGTATAATAATATAACATAC
*
59817405 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATACATATATACGTAC
1 ATATATATATAGAAATTATAAAATATGTAT-GAAAGTATAATA-ATATA-ACATAC
59817461 ATATATATATA
1 ATATATATATA
59817472 AGTTAATAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
49 2 0.02
50 1 0.01
51 5 0.05
52 28 0.29
53 12 0.12
54 25 0.26
55 7 0.07
56 16 0.16
57 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (53 bp):
ATATATATATAGAAATTATAAAATATGTATGAAAGTATAATAATATAACATAC
Found at i:59817412 original size:108 final size:107
Alignment explanation
Indices: 59817299--59817515 Score: 391
Period size: 108 Copynumber: 2.0 Consensus size: 107
59817289 ATAAAGAAAA
*
59817299 ATATATATATAGAAATTATAAAATATGTATGGAAAGTATAAT-ATATAGACATACATATATATAT
1 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATAATATAGACATACATATATATAT
59817363 AAGTTAATAAATATATAGATCATAAAGATAATGATTACATAT
66 AAGTTAATAAATATATAGATCATAAAGATAATGATTACATAT
* *
59817405 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATACATATATACGTACATATATATA
1 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATA-ATATAGACATACATATATATA
59817470 TAAGTTAATAAATATATAGATCATAAAGATAATGATTACATAT
65 TAAGTTAATAAATATATAGATCATAAAGATAATGATTACATAT
59817513 ATA
1 ATA
59817516 AACTTAACAA
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
106 41 0.39
108 65 0.61
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (107 bp):
ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATAATATAGACATACATATATATAT
AAGTTAATAAATATATAGATCATAAAGATAATGATTACATAT
Found at i:59817435 original size:20 final size:20
Alignment explanation
Indices: 59817407--59817455 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
59817397 TTACATATAT
*
59817407 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
*
59817427 ATATGTATAGAAAGTATAATA
1 ATATATATAGAAAGTATAA-A
59817448 CATATATA
1 -ATATATA
59817456 CGTACATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 1 0.04
22 6 0.25
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:59817483 original size:54 final size:53
Alignment explanation
Indices: 59817301--59817486 Score: 173
Period size: 54 Copynumber: 3.5 Consensus size: 53
59817291 AAAGAAAAAT
* * *
59817301 ATATATATAGAAATTATAAAATATGTATGGAAAGTATAAT-ATATAGACATAC
1 ATATATATATAAATTATAAAATATGTATAGAAAGTATAATAATATATACATAC
* * * * * *
59817353 ATATATATATAAGTTAATAAATATATAG-ATCATAAAG-ATAATGAT-TACATATAT
1 ATATATATATAAATT-ATAAA-ATAT-GTAT-AGAAAGTATAATAATATATACATAC
* *
59817407 ATATATATAGAAATTATAAAATATGTATAGAAAGTATAATACATATATACGTAC
1 ATATATATATAAATTATAAAATATGTATAGAAAGTATAATA-ATATATACATAC
*
59817461 ATATATATATAAGTTAATAAATATAT
1 ATATATATATAAATT-ATAAA-ATAT
59817487 AGATCATAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
51 6 0.06
52 24 0.23
53 12 0.11
54 48 0.45
55 12 0.11
56 4 0.04
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (53 bp):
ATATATATATAAATTATAAAATATGTATAGAAAGTATAATAATATATACATAC
Found at i:59817488 original size:52 final size:51
Alignment explanation
Indices: 59817330--59817489 Score: 157
Period size: 56 Copynumber: 3.0 Consensus size: 51
59817320 AATATGTATG
*
59817330 GAAAGTATAAT-ATATAGACATACATATATATATAAGTTAATAAATATATA
1 GAAAGTATAATAATATATACATACATATATATATAAGTTAATAAATATATA
* * * *
59817380 GATCA-TAAAGATAATGAT-TACATATATATATATATAGAAATT-ATAAAATATGTATA
1 GA-AAGTATA-ATAAT-ATATACATACATATATATAT--AAGTTAAT-AAATA--TATA
*
59817436 GAAAGTATAATACATATATACGTACATATATATATAAGTTAATAAATATATA
1 GAAAGTATAATA-ATATATACATACATATATATATAAGTTAATAAATATATA
59817488 GA
1 GA
59817490 TCATAAAGAT
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
50 5 0.06
51 3 0.03
52 23 0.26
53 4 0.05
54 18 0.21
55 8 0.09
56 26 0.30
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (51 bp):
GAAAGTATAATAATATATACATACATATATATATAAGTTAATAAATATATA
Found at i:59817502 original size:56 final size:55
Alignment explanation
Indices: 59817341--59817504 Score: 178
Period size: 54 Copynumber: 3.0 Consensus size: 55
59817331 AAAGTATAAT
*
59817341 ATATAGACATACATATATATATAAGTTAATAAATATATAGATCATAAAGATAATGA
1 ATATATAC-TACATATATATATAAGTTAATAAATATATAGATCATAAAGATAATGA
* * * * * *
59817397 TTACATA-TATATATATATAGAAATT-ATAAA-ATAT-GTAT-AGAAAGTATAAT-A
1 ATATATACTACATATATATATAAGTTAATAAATATATAG-ATCATAAAG-ATAATGA
59817448 CATATATACGTACATATATATATAAGTTAATAAATATATAGATCATAAAGATAATGA
1 -ATATATAC-TACATATATATATAAGTTAATAAATATATAGATCATAAAGATAATGA
59817505 TTACATATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
51 7 0.08
52 16 0.19
53 5 0.06
54 30 0.35
55 5 0.06
56 15 0.18
57 7 0.08
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (55 bp):
ATATATACTACATATATATATAAGTTAATAAATATATAGATCATAAAGATAATGA
Found at i:59817536 original size:108 final size:106
Alignment explanation
Indices: 59817318--59817538 Score: 320
Period size: 108 Copynumber: 2.1 Consensus size: 106
59817308 TAGAAATTAT
*
59817318 AAAATATGTATGGAAAGTATAATATATAGACATACATATATATATAAGTTAATAAATATATAGAT
1 AAAATATGTATAGAAAGTATAATATATAGACATACATATATATATAAGTTAATAAATATATAGAT
* * ** *
59817383 CATAAAGATAATGATTACATATATATATATATAGAAATTAT
66 CATAAAGATAATGATTACATATATAAATATATACAAAGAAA
* *
59817424 AAAATATGTATAGAAAGTATAATACATATATACGTACATATATATATAAGTTAATAAATATATAG
1 AAAATATGTATAGAAAGTATAAT--ATATAGACATACATATATATATAAGTTAATAAATATATAG
59817489 ATCATAAAGATAATGATTACATATATAAACT-TA-ACAAAGGAAA
64 ATCATAAAGATAATGATTACATATATAAA-TATATACAAA-GAAA
59817532 AAAATAT
1 AAAATAT
59817539 TTTGAAATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
106 22 0.21
107 4 0.04
108 76 0.74
109 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (106 bp):
AAAATATGTATAGAAAGTATAATATATAGACATACATATATATATAAGTTAATAAATATATAGAT
CATAAAGATAATGATTACATATATAAATATATACAAAGAAA
Done.