Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 64 of 425
Found at i:17640012 original size:51 final size:50
Alignment explanation
Indices: 17639881--17640058 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 50
17639871 ACTGCTACTG
* * *
17639881 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTAC-----TGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATGTTACCA
17639926 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTA----T-TGTTACCA
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATGTTACCA
* * **
17639971 TTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACTG
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTA-TGTTACCA
** * * *
17640022 TTATTGATTCGACACTTTGTGTGTCGAGTACTGTTAC
1 TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
17640059 CATTACTGTT
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
45 76 0.67
49 1 0.01
51 36 0.32
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (50 bp):
TTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATGTTACCA
Found at i:17640057 original size:90 final size:87
Alignment explanation
Indices: 17639881--17640064 Score: 203
Period size: 90 Copynumber: 2.0 Consensus size: 87
17639871 ACTGCTACTG
*
17639881 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGGCACTTTGT
1 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGACACTTTGT
*
17639946 GTGTCGAATATTGTTATTGTTACCA
66 GTGTCG-A-A-TGTTACTGTTACCA
* * * **
17639971 TTACCGATTTGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTACTGTTATTGATTCGACA
1 TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACC---A---TTACCGATTCGACA
17640036 CTTTGTGTGTCG-A-G-TACTGTTACCA
60 CTTTGTGTGTCGAATGTTACTGTTACCA
17640061 TTAC
1 TTAC
17640065 TGTTACAGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
90 55 0.68
91 1 0.01
93 2 0.02
96 23 0.28
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (87 bp):
TTACCAATTGGGCACTTTGTATGTCGAATATTGTTACTGTTACCATTACCGATTCGACACTTTGT
GTGTCGAATGTTACTGTTACCA
Found at i:17640106 original size:6 final size:6
Alignment explanation
Indices: 17640095--17640138 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
17640085 TTTTGTTAAA
* * *
17640095 TACTGT TACTGT TACTAT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
17640139 TAGGTACTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:17640110 original size:45 final size:45
Alignment explanation
Indices: 17640005--17640115 Score: 114
Period size: 45 Copynumber: 2.5 Consensus size: 45
17639995 CGAATATTGT
** * * *
17640005 TACTGTTACCGTTACTGTTATTGATTCGACACTTTGTGTGTCGAG
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCAAA
* * * * *
17640050 TACTGTTACCATTACTGTTACAGATTCAACATTTTTTTTGTTAAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCAAA
* *
17640095 TACTGTTACTGTTACTATTAC
1 TACTGTTACCGTTACTGTTAC
17640116 TGCTACCGTT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.45
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCAAA
Found at i:17640126 original size:18 final size:19
Alignment explanation
Indices: 17640095--17640136 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
17640085 TTTTGTTAAA
* *
17640095 TACTGTTACTGTTACT-AT
1 TACTGCTACCGTTACTGAT
17640113 TACTGCTACCGTTACTGAT
1 TACTGCTACCGTTACTGAT
17640132 TACTG
1 TACTG
17640137 TTTAGGTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (19 bp):
TACTGCTACCGTTACTGAT
Found at i:17640976 original size:3 final size:3
Alignment explanation
Indices: 17640963--17641000 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
17640953 TATAATTCAA
*
17640963 ATT ATTT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT A
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
17641001 AATGTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17642298 original size:17 final size:19
Alignment explanation
Indices: 17642258--17642298 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
17642248 ACATAAAAAT
17642258 TATATAAAAATATTTTTAA
1 TATATAAAAATATTTTTAA
*
17642277 AATAT-AAAATA-TTTTAA
1 TATATAAAAATATTTTTAA
17642294 TATAT
1 TATAT
17642299 TTTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.50
18 6 0.30
19 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATAAAAATATTTTTAA
Found at i:17651055 original size:53 final size:54
Alignment explanation
Indices: 17650998--17651245 Score: 333
Period size: 53 Copynumber: 4.6 Consensus size: 54
17650988 CTTACCATTA
*
17650998 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCA-CTAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATC-AATG
* * * *
17651051 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCGATG
1 CCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAATG
*
17651106 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* * *
17651159 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
* * *
17651213 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
17651246 ATCTTACCAA
Statistics
Matches: 172, Mismatches: 17, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
52 2 0.01
53 81 0.47
54 43 0.25
55 43 0.25
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATG
Found at i:17651194 original size:108 final size:107
Alignment explanation
Indices: 17650998--17651245 Score: 363
Period size: 108 Copynumber: 2.3 Consensus size: 107
17650988 CTTACCATTA
* * *
17650998 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACTAATGCCATGCCTTGGC
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGAC
*
17651063 ATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCGATG
66 ATGGTCTTACATGGGACCTTTGCCTTATAG-AACTCATCAATG
*
17651106 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGTCTTGAC
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGAC
*** *
17651171 ATGGTCTTACATGATTTCC-TTGCCTTATAGAACTTATCAATG
66 ATGGTCTTACATG-GGACCTTTGCCTTATAGAACTCATCAATG
* * *
17651213 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
17651246 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
107 40 0.31
108 85 0.67
109 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (107 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGAC
ATGGTCTTACATGGGACCTTTGCCTTATAGAACTCATCAATG
Found at i:17651276 original size:47 final size:47
Alignment explanation
Indices: 17651224--17651345 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
17651214 CATGCCTTGG
* * *
17651224 CATGGTCTTACATGATATCCTTATCTTACCAAATGCTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
17651271 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
17651318 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
17651346 ATGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:17651533 original size:44 final size:44
Alignment explanation
Indices: 17651484--17651567 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
17651474 TCCTTAACAG
* *
17651484 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGAATTTTTCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGAATTTTTCA
* *
17651528 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGAATTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTT
17651568 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTTTTCA
Found at i:17652980 original size:14 final size:14
Alignment explanation
Indices: 17652954--17652991 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17652944 AAAAAATCTA
*
17652954 TTTTT-TTAATATT
1 TTTTTCTTATTATT
17652967 TTTTTCTTATTATT
1 TTTTTCTTATTATT
*
17652981 TTTTCCTTATT
1 TTTTTCTTATT
17652992 TTGCTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTTATTATT
Found at i:17653258 original size:12 final size:12
Alignment explanation
Indices: 17653228--17653260 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
17653218 TATATATTTT
17653228 AAAATT-ATATA
1 AAAATTAATATA
17653239 AAAA-TAATATA
1 AAAATTAATATA
17653250 AAAATTAATAT
1 AAAATTAATAT
17653261 GGGCAGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:17665141 original size:24 final size:24
Alignment explanation
Indices: 17665123--17665177 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
17665113 TGAATGGTTT
17665123 CTCCTTAGATTTGGTGAATTCGATG
1 CTCCTTAGATTTGGTGAA-TCGATG
*
17665148 CTCTTTAGATTTGGTGAATTCGATG
1 CTCCTTAGATTTGGTGAA-TCGATG
17665173 CTCCT
1 CTCCT
17665178 AATCCTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (24 bp):
CTCCTTAGATTTGGTGAATCGATG
Found at i:17665156 original size:25 final size:25
Alignment explanation
Indices: 17665127--17665175 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
17665117 TGGTTTCTCC
17665127 TTAGATTTGGTGAATTCGATGCTCT
1 TTAGATTTGGTGAATTCGATGCTCT
17665152 TTAGATTTGGTGAATTCGATGCTC
1 TTAGATTTGGTGAATTCGATGCTC
17665176 CTAATCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.43
Consensus pattern (25 bp):
TTAGATTTGGTGAATTCGATGCTCT
Found at i:17666710 original size:60 final size:60
Alignment explanation
Indices: 17666617--17666731 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
17666607 GTCAGTCAAG
*
17666617 ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACCGTACATATGCTAGGCTGA
1 ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACCATACATATGCTAGGCTGA
*
17666677 ACGTAACTACATGGTGCTGCTCACACAATCTGTCAAGTAACCATACATATGCTAG
1 ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACCATACATATGCTAG
17666732 TATATTCAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (60 bp):
ACGTAACTACATGGTGCTGCTCACACAAGCTGTCAAGTAACCATACATATGCTAGGCTGA
Found at i:17671738 original size:17 final size:18
Alignment explanation
Indices: 17671696--17671744 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
17671686 AGTTGAAAAG
17671696 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
17671715 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
17671732 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
17671745 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:17672627 original size:40 final size:40
Alignment explanation
Indices: 17672561--17672727 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
17672551 AAATTGAATG
* * *
17672561 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
17672600 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
17672640 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
17672680 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
17672720 ATATCCGG
1 ATATCCGG
17672728 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:17679733 original size:17 final size:18
Alignment explanation
Indices: 17679691--17679739 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
17679681 AGTTGAAAAG
17679691 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
17679710 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
17679727 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
17679740 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:17680626 original size:40 final size:40
Alignment explanation
Indices: 17680560--17680725 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
17680550 AAATTGAATG
* * *
17680560 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
17680599 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
17680639 A-ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
17680678 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
17680718 ATATCCGG
1 ATATCCGG
17680726 TTATATTCCG
Statistics
Matches: 103, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 41 0.40
40 57 0.55
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:17680644 original size:39 final size:40
Alignment explanation
Indices: 17680600--17680709 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
17680590 CTGGAAATTA
* *
17680600 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-T-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
**
17680638 TAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 T-ATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAGGC
*
17680679 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
17680710 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
38 4 0.06
39 27 0.44
40 27 0.44
41 4 0.06
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
Found at i:17686442 original size:28 final size:28
Alignment explanation
Indices: 17686377--17686447 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
17686367 ATAGTGAATC
*
17686377 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
17686406 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
17686434 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17686448 CAATCTTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 18 0.45
29 18 0.45
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:17694363 original size:28 final size:28
Alignment explanation
Indices: 17694298--17694368 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
17694288 ATAGTGAATC
*
17694298 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
17694327 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
17694355 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17694369 CAATCTTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 18 0.45
29 18 0.45
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:17702808 original size:11 final size:11
Alignment explanation
Indices: 17702792--17702816 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17702782 GCATAGGATA
17702792 AAAATATGTAT
1 AAAATATGTAT
17702803 AAAATATGTAT
1 AAAATATGTAT
17702814 AAA
1 AAA
17702817 TTACGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAATATGTAT
Found at i:17704453 original size:40 final size:40
Alignment explanation
Indices: 17704394--17704562 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
17704384 CGGGACTTTA
* * *
17704394 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
17704434 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
17704474 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
17704514 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
17704554 CCCGGATAT
1 CCCGGATAT
17704563 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:17712537 original size:39 final size:40
Alignment explanation
Indices: 17712360--17712541 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
17712350 CCGCACCAAG
* * * * * * *
17712360 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
17712399 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
17712439 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
17712479 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
17712518 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
17712542 CATTCAATTT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 43 0.35
40 77 0.63
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:17719407 original size:15 final size:15
Alignment explanation
Indices: 17719387--17719426 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
17719377 ATGCTTTTCA
17719387 CAACATGTATTCATT
1 CAACATGTATTCATT
17719402 CAACATGTATTCATT
1 CAACATGTATTCATT
*
17719417 TAACATGTAT
1 CAACATGTAT
17719427 AGACCATCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.40
Consensus pattern (15 bp):
CAACATGTATTCATT
Found at i:17720805 original size:21 final size:20
Alignment explanation
Indices: 17720776--17720817 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
17720766 TGTAAAAGTT
*
17720776 ATTTATCTATCATGAATATTTC
1 ATTTATCTACCAT-AA-ATTTC
17720798 ATTT-TCTACCATAAATTTC
1 ATTTATCTACCATAAATTTC
17720817 A
1 A
17720818 AATTTTTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.32
20 2 0.11
21 7 0.37
22 4 0.21
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTATCTACCATAAATTTC
Found at i:17724121 original size:42 final size:42
Alignment explanation
Indices: 17724014--17724181 Score: 141
Period size: 43 Copynumber: 3.9 Consensus size: 42
17724004 CAAAAAGCTC
* * * * * *
17724014 ATACAATGCCAACATCCTAGACGAGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCTAGACGAGGTCTTACACGAAATTAT
17724056 ATATCGATGCC-ACTGT-CTCAGAC-AGGGTCTTACACGAAATTAT
1 ATA-CGATGCCAAC-GTCCT-AGACGA-GGTCTTACACGAAATTAT
* *
17724099 ATACGATGCCAATGTCCTAGAC-ATAGTCTTACACGTAAATCTCAT
1 ATACGATGCCAACGTCCTAGACGA-GGTCTTACACG-AAAT-T-AT
17724144 AT-CGATGCCAACGTTCC-AGACGAGGTCTTACACGAAAT
1 ATACGATGCCAACG-TCCTAGACGAGGTCTTACACGAAAT
17724182 CACATATCGG
Statistics
Matches: 104, Mismatches: 11, Indels: 21
0.76 0.08 0.15
Matches are distributed among these distances:
42 32 0.31
43 39 0.38
44 25 0.24
45 8 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
ATACGATGCCAACGTCCTAGACGAGGTCTTACACGAAATTAT
Found at i:17725318 original size:13 final size:13
Alignment explanation
Indices: 17725300--17725324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17725290 ACAAACGATA
17725300 AAATTTTCACACG
1 AAATTTTCACACG
17725313 AAATTTTCACAC
1 AAATTTTCACAC
17725325 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:17725954 original size:42 final size:42
Alignment explanation
Indices: 17725873--17725955 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
17725863 TAGGTGTAGA
* * * *
17725873 CTTCACACGGTCAGGACACACGCCCGTGCCTGAGGTCGTGTC
1 CTTCACACGGTCAAGACACACACCCGTGCCTCAGCTCGTGTC
* *
17725915 CTTCACACGG-CTAAGACACACACCCGTGTCTCTGCTCGTGT
1 CTTCACACGGTC-AAGACACACACCCGTGCCTCAGCTCGTGT
17725956 GCTCAATTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.18, C:0.36, G:0.24, T:0.22
Consensus pattern (42 bp):
CTTCACACGGTCAAGACACACACCCGTGCCTCAGCTCGTGTC
Found at i:17732355 original size:20 final size:20
Alignment explanation
Indices: 17732330--17732375 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
17732320 TAGGGACTAA
* *
17732330 AATGAAAAGTTGTAAAATTT
1 AATGAAAAATTCTAAAATTT
17732350 AATGAAAAATTCTAAAATTT
1 AATGAAAAATTCTAAAATTT
*
17732370 TATGAA
1 AATGAA
17732376 TACATGTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGAAAAATTCTAAAATTT
Found at i:17734250 original size:21 final size:21
Alignment explanation
Indices: 17734218--17734272 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
17734208 AGCCTCTAGT
*
17734218 ACGGGTGTGTCCCAGGGTCAC
1 ACGGGCGTGTCCCAGGGTCAC
*
17734239 ATGGGCGTGTCCCAGGGTCAC
1 ACGGGCGTGTCCCAGGGTCAC
17734260 ACGGGCGTGTCCC
1 ACGGGCGTGTCCC
17734273 TTGGACCACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.13, C:0.31, G:0.38, T:0.18
Consensus pattern (21 bp):
ACGGGCGTGTCCCAGGGTCAC
Found at i:17737890 original size:25 final size:24
Alignment explanation
Indices: 17737860--17738128 Score: 277
Period size: 25 Copynumber: 11.3 Consensus size: 24
17737850 GACTTCAGCA
17737860 TGCTCTCTGAATATTAGCACGTCAG
1 TGCTCTCTG-ATATTAGCACGTCAG
* **
17737885 TGCTCTCTG--ATTAGCACATTTG
1 TGCTCTCTGATATTAGCACGTCAG
*
17737907 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATA-TTAGCACGTCAG
* *
17737932 TGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGA-TATTAGCACGTCAG
17737957 TGCTCTCTGATATTAGCACGTCAG
1 TGCTCTCTGATATTAGCACGTCAG
* **
17737981 TGCTCTCTG--ATTAGCACATTTG
1 TGCTCTCTGATATTAGCACGTCAG
*
17738003 TGCTCTCTGATATTTAGCACGCCAG
1 TGCTCTCTGATA-TTAGCACGTCAG
* *
17738028 TGCTCTCTGATTACTAGCACGCCAG
1 TGCTCTCTGA-TATTAGCACGTCAG
17738053 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGATA-TTAGCACGTCAG
* **
17738078 TGCTCTCTG--ATTAGCACATTTG
1 TGCTCTCTGATATTAGCACGTCAG
*
17738100 TGCTCTCTG-TA-TAGCACTTC-G
1 TGCTCTCTGATATTAGCACGTCAG
17738121 TGCTCTCT
1 TGCTCTCT
17738129 ATTCATTAGT
Statistics
Matches: 209, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
21 9 0.04
22 63 0.30
23 2 0.01
24 25 0.12
25 106 0.51
26 4 0.02
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (24 bp):
TGCTCTCTGATATTAGCACGTCAG
Found at i:17738034 original size:96 final size:96
Alignment explanation
Indices: 17737860--17738108 Score: 480
Period size: 96 Copynumber: 2.6 Consensus size: 96
17737850 GACTTCAGCA
17737860 TGCTCTCTGAATATTAGCACGTCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGC
1 TGCTCTCTG-ATATTAGCACGTCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGC
17737925 ACGCCAGTGCTCTCTGATTACTAGCACGCCAG
65 ACGCCAGTGCTCTCTGATTACTAGCACGCCAG
17737957 TGCTCTCTGATATTAGCACGTCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCA
1 TGCTCTCTGATATTAGCACGTCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCA
17738022 CGCCAGTGCTCTCTGATTACTAGCACGCCAG
66 CGCCAGTGCTCTCTGATTACTAGCACGCCAG
17738053 TGCTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTG
1 TGCTCTCTGATA-TTAGCACGTCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTG
17738109 TATAGCACTT
Statistics
Matches: 151, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
96 99 0.66
97 52 0.34
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.35
Consensus pattern (96 bp):
TGCTCTCTGATATTAGCACGTCAGTGCTCTCTGATTAGCACATTTGTGCTCTCTGATATTTAGCA
CGCCAGTGCTCTCTGATTACTAGCACGCCAG
Found at i:17738079 original size:121 final size:118
Alignment explanation
Indices: 17737906--17738128 Score: 308
Period size: 121 Copynumber: 1.9 Consensus size: 118
17737896 TAGCACATTT
*
17737906 GTGCTCTCTGATATTTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAGTGCTCTCTGATATT
1 GTGCTCTCTGATATCTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAGTGCTCTCTG--ATT
* *
17737971 AGCACGTCAGTGCTCTCTG-ATTAGCACATTTGTGCTCTCTGATATTTAGCACGCCA
64 AGCACATCAGTGCTCTCTGTA-TAGCAC-TTCGTGCTCTCTGATATTTAGCACGCCA
* *
17738027 GTGCTCTCTGAT-TACTAGCACGCCAGTGCTCTCTGA-TATTTAGCACGTCAGTGCTCTCTGATT
1 GTGCTCTCTGATAT-CTAGCACGCCAGTGCTCTCTGATTA-CTAGCACGCCAGTGCTCTCTGATT
**
17738090 AGCACATTTGTGCTCTCTGTATAGCACTTCGTGCTCTCT
64 AGCACATCAGTGCTCTCTGTATAGCACTTCGTGCTCTCT
17738129 ATTCATTAGT
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
118 11 0.12
119 25 0.27
120 4 0.04
121 52 0.57
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (118 bp):
GTGCTCTCTGATATCTAGCACGCCAGTGCTCTCTGATTACTAGCACGCCAGTGCTCTCTGATTAG
CACATCAGTGCTCTCTGTATAGCACTTCGTGCTCTCTGATATTTAGCACGCCA
Found at i:17744291 original size:5 final size:5
Alignment explanation
Indices: 17744281--17744328 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
17744271 CCAAAAATAA
17744281 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TAT
17744329 GGTTGCCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:17753413 original size:15 final size:16
Alignment explanation
Indices: 17753393--17753424 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17753383 GTTATAATTC
17753393 TAATC-ATTACTATCA
1 TAATCAATTACTATCA
17753408 TAATCAATTACTATCA
1 TAATCAATTACTATCA
17753424 T
1 T
17753425 GCATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATCAATTACTATCA
Found at i:17759891 original size:29 final size:29
Alignment explanation
Indices: 17759847--17759934 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
17759837 GCTAAGTATT
17759847 GTTCTAGAAAAAATAATTTTAACAAGATGG
1 GTTCT-GAAAAAATAATTTTAACAAGATGG
* * ** *
17759877 GTTCTGAAAAAATAAATTTGACGTGATGT
1 GTTCTGAAAAAATAATTTTAACAAGATGG
* * *
17759906 GTTTTGAAAAAATTATTTTAATAAGATGG
1 GTTCTGAAAAAATAATTTTAACAAGATGG
17759935 ATTTTGTTTT
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
29 40 0.89
30 5 0.11
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (29 bp):
GTTCTGAAAAAATAATTTTAACAAGATGG
Found at i:17764014 original size:6 final size:6
Alignment explanation
Indices: 17764003--17764028 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17763993 TATAATAATT
17764003 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
17764029 AATAGAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:17764447 original size:14 final size:14
Alignment explanation
Indices: 17764428--17764455 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17764418 TGAGTAAATG
17764428 AATATCTTTGACTA
1 AATATCTTTGACTA
17764442 AATATCTTTGACTA
1 AATATCTTTGACTA
17764456 TCCGACGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
AATATCTTTGACTA
Found at i:17767394 original size:3 final size:3
Alignment explanation
Indices: 17767386--17767424 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
17767376 TAGCGAGAGT
17767386 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
17767425 GCTCCTGTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:17768496 original size:16 final size:16
Alignment explanation
Indices: 17768475--17768506 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17768465 TAAAAAAAAC
17768475 ATACCTTACAAACAAT
1 ATACCTTACAAACAAT
17768491 ATACCTTACAAACAAT
1 ATACCTTACAAACAAT
17768507 GATAATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
ATACCTTACAAACAAT
Found at i:17769670 original size:14 final size:13
Alignment explanation
Indices: 17769644--17769690 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
17769634 TTTAAAATGT
17769644 ATAATATAATTAA
1 ATAATATAATTAA
17769657 ATAATATAAATTAA
1 ATAATAT-AATTAA
17769671 AT--TA-AATTAA
1 ATAATATAATTAA
*
17769681 ATAATTTAAT
1 ATAATATAAT
17769691 AAAGTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
10 8 0.28
12 3 0.10
13 10 0.34
14 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATATAATTAA
Found at i:17780096 original size:40 final size:40
Alignment explanation
Indices: 17780041--17780125 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
17780031 CCCCCTAACC
*
17780041 AGTGCTATTTATAGCCGAAGCTATCTTGAAATGCACACTA
1 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
17780081 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
1 AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
17780121 AGTGC
1 AGTGC
17780126 CAAACATAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (40 bp):
AGTGCTATTTATAGCCGAAGCTATCTTGAAACGCACACTA
Found at i:17780683 original size:22 final size:22
Alignment explanation
Indices: 17780658--17780699 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
17780648 CAAACATTCA
17780658 AAAACTCA-AACATTCATCAATG
1 AAAACTCACAA-ATTCATCAATG
17780680 AAAACTCACAAATTCATCAA
1 AAAACTCACAAATTCATCAA
17780700 AAAATTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAACTCACAAATTCATCAATG
Found at i:17796179 original size:88 final size:87
Alignment explanation
Indices: 17796014--17796290 Score: 351
Period size: 88 Copynumber: 3.1 Consensus size: 87
17796004 CTTGAAAAGA
* *
17796014 TTATGTGATGTATGAACATTGATGAAATTTAGAAGTTTAATAAGACATA-TTTATGATGAGGCAT
1 TTATGTGATGTATGAACATCGATGAAAGTTAGAAGTTTAATAA-ACATATTTTATGATGAGGCAT
17796078 AACATACTAGCAACTCTTGAATT
65 AACATACTAGCAACTCTTGAATT
* * * * *
17796101 TTATGTGATGTATGAACATCGATAAAAGTTAAAAATTCAATCAAACATATTTTATGATAAGGCAT
1 TTATGTGATGTATGAACATCGATGAAAGTTAGAAGTTTAAT-AAACATATTTTATGATGAGGCAT
*
17796166 AACATCCTAGCAACTCTTGAATT
65 AACATACTAGCAACTCTTGAATT
* * * * *
17796189 TTATGTGATGTATAAACATCAATGAAAGTTAGCAGTTTAATTAGCTATATTTTATGATGAGGCAT
1 TTATGTGATGTATGAACATCGATGAAAGTTAGAAGTTTAATAAAC-ATATTTTATGATGAGGCAT
* *
17796254 AACTTGA-TAGTAACTCTTGAATT
65 AACAT-ACTAGCAACTCTTGAATT
*
17796277 TTATGGTGAAGTAT
1 TTAT-GTGATGTAT
17796291 CATGTGTCAC
Statistics
Matches: 163, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
87 42 0.26
88 113 0.69
89 8 0.05
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (87 bp):
TTATGTGATGTATGAACATCGATGAAAGTTAGAAGTTTAATAAACATATTTTATGATGAGGCATA
ACATACTAGCAACTCTTGAATT
Found at i:17798318 original size:40 final size:40
Alignment explanation
Indices: 17798235--17798346 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
17798225 TCGAATGATG
* *
17798235 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
17798275 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
17798315 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
17798347 CTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.85
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:17807243 original size:28 final size:29
Alignment explanation
Indices: 17807176--17807276 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
17807166 ATAGTGAATC
*
17807176 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
17807205 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
17807233 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
17807263 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17807277 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:17809354 original size:40 final size:40
Alignment explanation
Indices: 17809271--17809382 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
17809261 TCGAATGATG
* *
17809271 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
17809311 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
17809351 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
17809383 CTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.85
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:17812167 original size:69 final size:69
Alignment explanation
Indices: 17812056--17812764 Score: 345
Period size: 69 Copynumber: 10.3 Consensus size: 69
17812046 ACATTTTTGC
* * * * * * *
17812056 CATACTAAGGCTCGCAGGTGAAGAGCCACAGCCTCTAACACAGTTAGCATGAGCAAAGGTCTCAG
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
17812121 CTAT
66 CTAT
* **
17812125 CATACTAAAGCTTGCAGGCT-AAGAGCCGTAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCA
1 CATACTAAAGCTCGCAGG-TGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCA
17812189 ACTAT
65 ACTAT
* ** * * * * ** **
17812194 CATGCTATGGCTCGCAAGTGAATAG---CAGCCTTCAACACAATTAGGGAGAGTAAAGCTCCCAA
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
**
17812256 CTGC
66 CTAT
* * * * ** * * ** * * *
17812260 CACACTAAGGTTCACAGACGAAGAGTCACAGCCTCCAACATAGTTAGTTAGAGCCAAGCTCCCAG
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
*
17812325 CTGT
66 CTAT
* * * * * *** * *
17812329 CAAACTAAGGATTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAA-AGCAAAGCTCACA
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGC-AAGAACAAAGCTCCCA
17812393 ACTATT
65 ACTA-T
* ** * * * * * ** * *
17812399 C-CACTAGGGCTCGTAGGTGAAGAACCGCAGCCTCCAACAAAATTAGTGAGAGCAAAGCT-TCAA
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
*
17812462 GCTGT
66 -CTAT
* ** * * ** *
17812467 CATACTAAGGCTCGCATTTAAAGAGCCACAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCCAA
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
*
17812532 CTGT
66 CTAT
* * * * * * ** * *
17812536 CATACTGAGGCTCGCAGGCGAAAAGTCACAGCCTCCAACATAGTTAGCGGGATCAAAGCT-CCTA
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
*
17812600 GTAGT
66 CTA-T
* * * * * * * * * * * * * * *
17812605 TACACTAAGGCTCGGAGGCGAAGAGTCACAGCTTCTAACATATTTAGCGATAGCAAAGTTTCCAA
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
*
17812670 CTGT
66 CTAT
* * ** ** **
17812674 CACACTAAATCTCGCAGACGAAGAGCCACAGCCTCCAACGTAGTTAGCAAGAACAAAGCTCCTGA
1 CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
*
17812739 CTAC
66 CTAT
* * *
17812743 CATATTAAAGCTAGAAGGTGAA
1 CATACTAAAGCTCGCAGGTGAA
17812765 AAACCGCGAC
Statistics
Matches: 488, Mismatches: 139, Indels: 26
0.75 0.21 0.04
Matches are distributed among these distances:
66 48 0.10
68 11 0.02
69 418 0.86
70 11 0.02
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (69 bp):
CATACTAAAGCTCGCAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCCAA
CTAT
Found at i:17812529 original size:207 final size:203
Alignment explanation
Indices: 17812059--17812735 Score: 608
Period size: 207 Copynumber: 3.3 Consensus size: 203
17812049 TTTTTGCCAT
** * * * * * * *
17812059 ACTAAGGCTCGCAGGTGAAGAGCCACAGCCTCTAACACAGTTAGCATGAGCAAAGGTCTCAGCTA
1 ACTAAGGCTCGCAGACGAAGAGCCACAGCCTCCAACATAGTTAGTAAGAGCAAAGCTCCCAGCTG
* * *
17812124 TCATACTAAAGCTTGCAGGCTAAGAGCCGTAGCCTCCAACACAGTTAGC-AAGAACAAAGCTCCC
66 TCATACTAAGGCTTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAA-AACAAAGCT-CC
* * * * * * *
17812188 AACTA-TCATGCTATGGCTCGCAAGTGAA-TA-GCAGCCTTCAACACAATTAGGGAGAGTAAAGC
129 AACTATTCA--CTAAGGCTCGCAGGTGAAGAACGCAGCCTCCAACAAAATTAGCGAGAGCAAAGC
* *
17812250 TCCCAACTGCCAC
192 T-TCAACTGTCAC
* * * * *
17812263 ACTAAGGTTCACAGACGAAGAGTCACAGCCTCCAACATAGTTAGTTAGAGCCAAGCTCCCAGCTG
1 ACTAAGGCTCGCAGACGAAGAGCCACAGCCTCCAACATAGTTAGTAAGAGCAAAGCTCCCAGCTG
* * *
17812328 TCAAACTAAGGATTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAAAGCAAAGCTCACA
66 TCATACTAAGGCTTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAAAACAAAGCTC-CA
* * *
17812393 ACTATTCCACTAGGGCTCGTAGGTGAAGAACCGCAGCCTCCAACAAAATTAGTGAGAGCAAAGCT
130 ACTATT-CACTAAGGCTCGCAGGTGAAGAA-CGCAGCCTCCAACAAAATTAGCGAGAGCAAAGCT
*
17812458 TCAAGCTGTCAT
193 TCAA-CTGTCAC
**** * *
17812470 ACTAAGGCTCGCATTTAAAGAGCCACAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCCAACTG
1 ACTAAGGCTCGCAGACGAAGAGCCACAGCCTCCAACATAGTTAGTAAGAGCAAAGCTCCCAGCTG
* * * ** * ** * *
17812535 TCATACTGAGGCTCGCAGGCGAAAAG-TCACAGCCTCCAACATAGTTAGCGGGATCAAAGCTCCT
66 TCATACTAAGGCTTGCAGGCGAAGAGCT-GTAGCCTCCAACACAGTTAGCGAAAACAAAGCTCCA
* * * * * * * * * * *
17812599 AGTAGTTACACTAAGGCTCGGAGGCGAAGAGTCACAGCTTCTAACATATTTAGCGATAGCAAAGT
130 ACTA-TT-CACTAAGGCTCGCAGGTGAAGA-ACGCAGCCTCCAACAAAATTAGCGAGAGCAAAGC
17812664 TTCCAACTGTCAC
192 TT-CAACTGTCAC
** * * *
17812677 ACTAAATCTCGCAGACGAAGAGCCACAGCCTCCAACGTAGTTAGCAAGAACAAAGCTCC
1 ACTAAGGCTCGCAGACGAAGAGCCACAGCCTCCAACATAGTTAGTAAGAGCAAAGCTCC
17812736 TGACTACCAT
Statistics
Matches: 383, Mismatches: 78, Indels: 21
0.79 0.16 0.04
Matches are distributed among these distances:
203 1 0.00
204 124 0.32
205 4 0.01
206 10 0.03
207 241 0.63
208 3 0.01
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (203 bp):
ACTAAGGCTCGCAGACGAAGAGCCACAGCCTCCAACATAGTTAGTAAGAGCAAAGCTCCCAGCTG
TCATACTAAGGCTTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAAAACAAAGCTCCAA
CTATTCACTAAGGCTCGCAGGTGAAGAACGCAGCCTCCAACAAAATTAGCGAGAGCAAAGCTTCA
ACTGTCAC
Found at i:17812736 original size:138 final size:138
Alignment explanation
Indices: 17812059--17812736 Score: 402
Period size: 138 Copynumber: 4.9 Consensus size: 138
17812049 TTTTTGCCAT
* * * * * * *
17812059 ACTAAGGCTCGCAGGTGAAGAGCCACAGCCTCTAACACAGTTAGC-ATGAGCAAAGGTCTCAGCT
1 ACTAAGGCTCGGAGGCGAAGAGCCACAGCCTCCAACATAGTTAGCGA-GAGCAAAGCTCCCAACT
* * * * * * ** *
17812123 ATCATACTAAAGCTTGCAGGCTAAGAGCCGTAGCCTCCAACACAGTTAGCAAGAACAAAGCTCCC
65 GTCACACTAAAGCTCGCAGACGAAAAGCCACAGCCTCCAACATAGTTAGCAAGAACAAAGCT-CC
* * * *
17812188 AACTA-TCAT
129 TAGTAGTTAC
* * * * * * * * * * *
17812197 GCTATGGCTCGCAAGTGAATAG---CAGCCTTCAACACAATTAGGGAGAGTAAAGCTCCCAACTG
1 ACTAAGGCTCGGAGGCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTG
* * * * * * ** * * *
17812259 CCACACTAAGGTTCACAGACGAAGAGTCACAGCCTCCAACATAGTTAGTTAGAGCCAAGCTCCCA
66 TCACACTAAAGCTCGCAGACGAAAAGCCACAGCCTCCAACATAGTTAGCAAGAACAAAGCTCCTA
* *
17812324 GCT-GTCAA
131 G-TAGTTAC
* * * *** * * *
17812332 ACTAAGGATTGCAGGCGAAGAGCTGTAGCCTCCAACACAGTTAGCGAAAGCAAAGCTCACAACTA
1 ACTAAGGCTCGGAGGCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACT-
* ** * ** * * * ** * *
17812397 TTC-CACTAGGGCTCGTAGGTGAAGAA-CCGCAGCCTCCAACAAAATTAGTGAGAGCAAAGCTTC
65 GTCACACTAAAGCTCGCAGACGAA-AAGCCACAGCCTCCAACATAGTTAGCAAGAACAAAGCTCC
* * *
17812460 AAGCT-GTCAT
129 TAG-TAGTTAC
* **** *
17812470 ACTAAGGCTCGCATTTAAAGAGCCACAGCCTCCAACATAGTTAGTGAGAGCAAAGCTCCCAACTG
1 ACTAAGGCTCGGAGGCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTG
* * * * * ** *
17812535 TCATACTGAGGCTCGCAGGCGAAAAGTCACAGCCTCCAACATAGTTAGCGGGATCAAAGCTCCTA
66 TCACACTAAAGCTCGCAGACGAAAAGCCACAGCCTCCAACATAGTTAGCAAGAACAAAGCTCCTA
17812600 GTAGTTAC
131 GTAGTTAC
* * * * * * *
17812608 ACTAAGGCTCGGAGGCGAAGAGTCACAGCTTCTAACATATTTAGCGATAGCAAAGTTTCCAACTG
1 ACTAAGGCTCGGAGGCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTG
* * *
17812673 TCACACTAAATCTCGCAGACGAAGAGCCACAGCCTCCAACGTAGTTAGCAAGAACAAAGCTCCT
66 TCACACTAAAGCTCGCAGACGAAAAGCCACAGCCTCCAACATAGTTAGCAAGAACAAAGCTCCT
17812737 GACTACCATA
Statistics
Matches: 411, Mismatches: 118, Indels: 22
0.75 0.21 0.04
Matches are distributed among these distances:
134 3 0.01
135 93 0.23
136 1 0.00
137 5 0.01
138 307 0.75
139 2 0.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (138 bp):
ACTAAGGCTCGGAGGCGAAGAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTG
TCACACTAAAGCTCGCAGACGAAAAGCCACAGCCTCCAACATAGTTAGCAAGAACAAAGCTCCTA
GTAGTTAC
Found at i:17816968 original size:8 final size:8
Alignment explanation
Indices: 17816955--17817000 Score: 74
Period size: 8 Copynumber: 5.8 Consensus size: 8
17816945 AGATCGACAC
17816955 AAGCCGAA
1 AAGCCGAA
17816963 AAGCCGAA
1 AAGCCGAA
*
17816971 ATGCCGAA
1 AAGCCGAA
17816979 AAGCCGAA
1 AAGCCGAA
*
17816987 ATGCCGAA
1 AAGCCGAA
17816995 AAGCCG
1 AAGCCG
17817001 GTATTTTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.43, C:0.26, G:0.26, T:0.04
Consensus pattern (8 bp):
AAGCCGAA
Found at i:17816978 original size:16 final size:16
Alignment explanation
Indices: 17816957--17817000 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
17816947 ATCGACACAA
17816957 GCCGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
17816973 GCCGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
17816989 GCCGAAAAGCCG
1 GCCGAAAAGCCG
17817001 GTATTTTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.41, C:0.27, G:0.27, T:0.05
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:17817430 original size:27 final size:27
Alignment explanation
Indices: 17817390--17817526 Score: 183
Period size: 27 Copynumber: 5.1 Consensus size: 27
17817380 AGGAAGCGTC
*
17817390 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
17817417 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
17817443 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
17817471 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
17817498 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
17817525 CT
1 CT
17817527 AGTGACTTCG
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 11 0.11
27 83 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:17817469 original size:54 final size:54
Alignment explanation
Indices: 17817387--17817526 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
17817377 TGGAGGAAGC
17817387 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
17817441 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
17817495 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCT
17817527 AGTGACTTCG
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:17822181 original size:2 final size:2
Alignment explanation
Indices: 17822170--17822210 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
17822160 ATATCCCACC
17822170 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17822211 GACTATTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:17831033 original size:41 final size:40
Alignment explanation
Indices: 17830886--17831055 Score: 180
Period size: 41 Copynumber: 4.1 Consensus size: 40
17830876 GCAAAAATTG
* * ** *
17830886 TAAAACACATAGCAATAGCGGCG-TTTTACCAAAAACGCCAC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTTGGC-AAAACGCCGC
* * **
17830927 TAAAAACAGAGCAATAGCGGCGTTTTTTTTTCTAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCG--CTTTTGGC-AAAACGCCGC
* *
17830970 GAAAAACAGAGAATTAGCGGCGCTTTTGGCAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGC
17831010 TAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGC
17831051 TAAAA
1 TAAAA
17831056 GTCATATAAC
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
40 31 0.28
41 48 0.43
43 33 0.29
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGC
Found at i:17831248 original size:21 final size:21
Alignment explanation
Indices: 17831224--17831304 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
17831214 ATAGTTTATG
*
17831224 GTTTATGGTTTAAGATATATA
1 GTTTAGGGTTTAAGATATATA
* *
17831245 GTTTAGGGTTTAAGATTTTTGA
1 GTTTAGGGTTTAAGATATAT-A
* *
17831267 GTTAACTATGGTTTAAGATATATG
1 GTT---TAGGGTTTAAGATATATA
17831291 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
17831305 GTTTAGGAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 27 0.56
22 4 0.08
24 3 0.06
25 14 0.29
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATATATA
Found at i:17831295 original size:46 final size:46
Alignment explanation
Indices: 17831227--17831320 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
17831217 GTTTATGGTT
**
17831227 TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTTTGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
* *
17831273 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
17831319 TA
1 TA
17831321 GTATTTGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
Found at i:17831376 original size:7 final size:7
Alignment explanation
Indices: 17831364--17831445 Score: 51
Period size: 7 Copynumber: 11.7 Consensus size: 7
17831354 GGGATTATAA
17831364 TTTAGGG
1 TTTAGGG
17831371 TTTAGGG
1 TTTAGGG
* *
17831378 GTTAAGG
1 TTTAGGG
17831385 -TT-GGAG
1 TTTAGG-G
*
17831391 TTTAAGG
1 TTTAGGG
*
17831398 TGTAAGGG
1 T-TTAGGG
*
17831406 TTTGGGG
1 TTTAGGG
*
17831413 TTAAGGG
1 TTTAGGG
*
17831420 TTAAGGG
1 TTTAGGG
*
17831427 TTAAGGG
1 TTTAGGG
*
17831434 TTTAGAG
1 TTTAGGG
17831441 TTTAG
1 TTTAG
17831446 AAAAATAATA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 49 0.83
8 6 0.10
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (7 bp):
TTTAGGG
Found at i:17831419 original size:14 final size:14
Alignment explanation
Indices: 17831364--17831438 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
17831354 GGGATTATAA
*
17831364 TTTAGGGTTTAGGG
1 TTTAGGGTTAAGGG
* *
17831378 GTTAAGGTT--GGAG
1 TTTAGGGTTAAGG-G
*
17831391 TTTAAGGTGTAAGGG
1 TTTAGGGT-TAAGGG
*
17831406 TTTGGGGTTAAGGG
1 TTTAGGGTTAAGGG
*
17831420 TTAAGGGTTAAGGG
1 TTTAGGGTTAAGGG
17831434 TTTAG
1 TTTAG
17831439 AGTTTAGAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.04
13 8 0.16
14 30 0.61
15 7 0.14
16 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (14 bp):
TTTAGGGTTAAGGG
Found at i:17831963 original size:23 final size:23
Alignment explanation
Indices: 17831901--17831964 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
17831891 TAATATCCTA
*
17831901 TATATGTAATTTGTATTTAAATTT
1 TATATGTAA-TTGTATTAAAATTT
*
17831925 T-TAATTTATATT-TATTAAAATTT
1 TAT-ATGTA-ATTGTATTAAAATTT
17831948 TATATGTAATTGTATTA
1 TATATGTAATTGTATTA
17831965 GCATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
22 3 0.09
23 21 0.64
24 8 0.24
25 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (23 bp):
TATATGTAATTGTATTAAAATTT
Found at i:17834549 original size:71 final size:71
Alignment explanation
Indices: 17834465--17834628 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17834455 CGATTTGTCT
17834465 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17834530 CTTTCA
66 CTTTCA
17834536 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17834601 CTTTCA
66 CTTTCA
17834607 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17834629 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17834666 original size:71 final size:70
Alignment explanation
Indices: 17834465--17834662 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
17834455 CGATTTGTCT
* * * *
17834465 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17834530 CTTTCA
65 CTTTCA
* * * *
17834536 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17834601 CTTTCA
65 CTTTCA
* *
17834607 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
17834663 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17842142 original size:71 final size:71
Alignment explanation
Indices: 17842026--17842189 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17842016 CGATTTGTCT
17842026 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17842091 CTTTCA
66 CTTTCA
17842097 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17842162 CTTTCA
66 CTTTCA
17842168 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17842190 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17842227 original size:71 final size:70
Alignment explanation
Indices: 17842026--17842223 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
17842016 CGATTTGTCT
* * * *
17842026 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17842091 CTTTCA
65 CTTTCA
* * * *
17842097 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17842162 CTTTCA
65 CTTTCA
* *
17842168 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
17842224 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17848499 original size:71 final size:71
Alignment explanation
Indices: 17848415--17848578 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17848405 CGATTTGTCT
17848415 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17848480 CTTTCA
66 CTTTCA
17848486 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17848551 CTTTCA
66 CTTTCA
17848557 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17848579 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17848616 original size:71 final size:70
Alignment explanation
Indices: 17848415--17848612 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
17848405 CGATTTGTCT
* * * *
17848415 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17848480 CTTTCA
65 CTTTCA
* * * *
17848486 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17848551 CTTTCA
65 CTTTCA
* *
17848557 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
17848613 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17856079 original size:71 final size:71
Alignment explanation
Indices: 17855995--17856158 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17855985 CGATTTGTCT
17855995 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17856060 CTTTCA
66 CTTTCA
17856066 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
17856131 CTTTCA
66 CTTTCA
17856137 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
17856159 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:17856196 original size:71 final size:70
Alignment explanation
Indices: 17855995--17856192 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
17855985 CGATTTGTCT
* * * *
17855995 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17856060 CTTTCA
65 CTTTCA
* * * *
17856066 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
17856131 CTTTCA
65 CTTTCA
* *
17856137 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
17856193 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:17861237 original size:43 final size:44
Alignment explanation
Indices: 17861189--17861362 Score: 162
Period size: 43 Copynumber: 4.1 Consensus size: 44
17861179 AATAAATTTT
* *
17861189 TAAAAGGTCAT-ATTTTTGGCGGCGTTTTTAGGAAAAGCGCCGC
1 TAAAAGGTCATGATCTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
* * *
17861232 TAAAA-GTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAAGGTCATGATCTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
* * * * *
17861275 -GAAAGATCCTGGTCTTTAGCGGCGTTTTTA--AAAAGAGCCGC
1 TAAAAGGTCATGATCTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
* * * * *
17861316 TAAAA-GTCCTGGTCTTTAGCGGCGTTTTTTAGAAAAAACGCCAC
1 TAAAAGGTCATGATCTTTAGCGGCG-TTTTTAGGAAAAGCGCCGC
17861360 TAA
1 TAA
17861363 TTTTTGCGGC
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
41 28 0.26
42 17 0.16
43 51 0.48
44 11 0.10
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
TAAAAGGTCATGATCTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
Found at i:17868012 original size:18 final size:18
Alignment explanation
Indices: 17867969--17868006 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17867959 TGGTATGTTT
*
17867969 ATAATTTGGATTAACATG
1 ATAATTTGGATTAAAATG
17867987 ATAATTTGGATTAAAATG
1 ATAATTTGGATTAAAATG
17868005 AT
1 AT
17868007 GCTTTGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (18 bp):
ATAATTTGGATTAAAATG
Found at i:17873071 original size:24 final size:24
Alignment explanation
Indices: 17873037--17873088 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17873027 TTTCTAGAAG
* * *
17873037 ATTTAGTATTTGTGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
17873061 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
17873085 ATTT
1 ATTT
17873089 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:17877449 original size:24 final size:24
Alignment explanation
Indices: 17877415--17877466 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
17877405 TTTCTAGAAA
*
17877415 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
*
17877439 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
17877463 ATTT
1 ATTT
17877467 GAATTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATGAGTATAATAT
Found at i:17877477 original size:24 final size:24
Alignment explanation
Indices: 17877415--17877478 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
17877405 TTTCTAGAAA
* *
17877415 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGAATTTATTAGTATAATAT
*
17877439 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGAATTTATTAGTATAATAT
17877463 ATTT-GAATTTGATTAG
1 ATTTAGAATTT-ATTAG
17877479 AATTAGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAGAATTTATTAGTATAATAT
Found at i:17877803 original size:28 final size:29
Alignment explanation
Indices: 17877773--17877879 Score: 103
Period size: 28 Copynumber: 3.7 Consensus size: 29
17877763 AATTTTTTCT
* *
17877773 TAAAAATTA-TAAAAATAATT-AAATCTA
1 TAAAAATTAGTAAAAATAATTAAAAACCA
* * *
17877800 TTAAAAATTATTAGAAACTAATTGAAAACCA
1 -TAAAAATTAGTA-AAAATAATTAAAAACCA
* *
17877831 TAAAAATTA-TAAAAAAAATTAAAACCCA
1 TAAAAATTAGTAAAAATAATTAAAAACCA
*
17877859 TAAAAATTAGAAAAAATAATT
1 TAAAAATTAGTAAAAATAATT
17877880 TATAAAATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 31 0.47
29 13 0.20
30 17 0.26
31 5 0.08
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.28
Consensus pattern (29 bp):
TAAAAATTAGTAAAAATAATTAAAAACCA
Found at i:17879779 original size:42 final size:43
Alignment explanation
Indices: 17879594--17879756 Score: 283
Period size: 43 Copynumber: 3.8 Consensus size: 43
17879584 TTTATTGGAA
*
17879594 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
17879637 AAAAGCGCCGCTAAAGGTAAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
17879680 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
17879723 AAAAGCGCCGCTAAACGTCAAGGC-TTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
17879757 CTTTTTTTAC
Statistics
Matches: 115, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 10 0.09
43 105 0.91
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:17879865 original size:31 final size:31
Alignment explanation
Indices: 17879830--17879910 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
17879820 CTTCCTGCAT
* *
17879830 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
17879861 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
17879892 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
17879911 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:17880180 original size:21 final size:21
Alignment explanation
Indices: 17880156--17880201 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
17880146 GCTCGTGCCT
*
17880156 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
17880177 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
17880198 CTGC
1 CTGC
17880202 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:17885860 original size:9 final size:9
Alignment explanation
Indices: 17885846--17886071 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
17885836 TATTTAAGTA
17885846 TTATGTAAG
1 TTATGTAAG
*
17885855 TTATGTAAT
1 TTATGTAAG
*
17885864 TTATGATATG
1 TTATG-TAAG
* * *
17885874 ATATAT-AT
1 TTATGTAAG
*
17885882 TTATGTAAA
1 TTATGTAAG
* *
17885891 TTATAT-AT
1 TTATGTAAG
*
17885899 TTATCTAAG
1 TTATGTAAG
*
17885908 TTATATAAG
1 TTATGTAAG
17885917 TTATGTAAG
1 TTATGTAAG
*
17885926 TTATGTAAA
1 TTATGTAAG
*
17885935 TTATGATATAAAA
1 TTATG---T-AAG
*
17885948 TATATTTAAG
1 T-TATGTAAG
17885958 TATTATGTAAG
1 --TTATGTAAG
17885969 TTATGTAAG
1 TTATGTAAG
* *
17885978 TTATAT-AT
1 TTATGTAAG
*
17885986 TTATCTAAG
1 TTATGTAAG
*
17885995 TTATATAAG
1 TTATGTAAG
*
17886004 TTATATAAG
1 TTATGTAAG
*
17886013 TTATGTATG
1 TTATGTAAG
*
17886022 TTATATAAG
1 TTATGTAAG
17886031 TTATGTAAG
1 TTATGTAAG
* *
17886040 TTATATATG
1 TTATGTAAG
*
17886049 TTATATAAG
1 TTATGTAAG
*
17886058 TTATGTAAA
1 TTATGTAAG
17886067 TTATG
1 TTATG
17886072 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:17885925 original size:18 final size:18
Alignment explanation
Indices: 17885846--17886071 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
17885836 TATTTAAGTA
* *
17885846 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
17885864 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
17885882 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
17885899 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
17885917 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
17885935 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
17885958 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
17885978 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
17885995 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
17886013 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
17886031 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
17886049 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
17886067 TTATG
1 TTATG
17886072 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:17885938 original size:27 final size:27
Alignment explanation
Indices: 17885899--17886071 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
17885889 AATTATATAT
*
17885899 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
17885926 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
17885958 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
17885986 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
17886013 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
17886040 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
17886067 TTATG
1 TTATG
17886072 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:17885956 original size:114 final size:114
Alignment explanation
Indices: 17885822--17886043 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
17885812 ACTAGTTATG
* * * *
17885822 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
17885886 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
17885936 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
17886001 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
17886044 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:17886196 original size:15 final size:15
Alignment explanation
Indices: 17886176--17886231 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
17886166 AAGTAGCGGG
17886176 ATTAAATAATATTTA
1 ATTAAATAATATTTA
17886191 ATTAAATAATATTT-
1 ATTAAATAATATTTA
17886205 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
17886220 ATTAAATAATAT
1 ATTAAATAATAT
17886232 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:17886436 original size:24 final size:24
Alignment explanation
Indices: 17886408--17886475 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
17886398 ACTTAAATGG
17886408 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
17886432 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
17886456 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
17886476 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:17887785 original size:373 final size:372
Alignment explanation
Indices: 17886563--17887848 Score: 2545
Period size: 372 Copynumber: 3.5 Consensus size: 372
17886553 AATTGAAACA
17886563 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
17886628 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
17886693 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
17886758 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
196 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
17886823 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
261 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
17886888 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
326 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
17886935 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
17887000 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
17887065 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
17887130 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
196 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
17887195 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
261 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
17887260 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
326 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
17887307 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
17887372 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
17887437 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAAGTTTTGATAAAAAGTAGTTATAACTTTTAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAA-TTTTGATAAAAAGTAGTTATAACTTTTAA
17887502 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
195 AGAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATA
*
17887567 TAATAATATCAGAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
260 TAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTAT
17887632 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
325 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
17887680 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
17887745 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
17887810 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT
17887849 AATGGACAAG
Statistics
Matches: 911, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
372 541 0.59
373 370 0.41
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (372 bp):
TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
Found at i:17892058 original size:28 final size:27
Alignment explanation
Indices: 17892006--17892058 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
17891996 GGTCTCTCTA
*
17892006 ATATATTTAAATTTTAGATTTATTTGC
1 ATATATTTAAATTTTAGATTCATTTGC
*
17892033 ATATACTTTAATTTTTA-ATATCATTT
1 ATATA-TTTAAATTTTAGAT-TCATTT
17892059 AGTCTATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTTAAATTTTAGATTCATTTGC
Found at i:17892241 original size:12 final size:12
Alignment explanation
Indices: 17892224--17892256 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
17892214 CATTAATATC
17892224 TATATATATCAA
1 TATATATATCAA
*
17892236 TATATATATCCA
1 TATATATATCAA
17892248 TATATATAT
1 TATATATAT
17892257 ATTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATCAA
Found at i:17892369 original size:15 final size:15
Alignment explanation
Indices: 17892333--17892376 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
17892323 ATAGTTTAAG
*
17892333 GTTTTATGGTTT-TA
1 GTTTTAAGGTTTATA
*
17892347 GATTTAAGGTTTATA
1 GTTTTAAGGTTTATA
*
17892362 GTTTTAAGTTTTATA
1 GTTTTAAGGTTTATA
17892377 ATTTAGGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (15 bp):
GTTTTAAGGTTTATA
Found at i:17892374 original size:22 final size:22
Alignment explanation
Indices: 17892327--17892367 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
17892317 TTGTCTATAG
*
17892327 TTTAAGGTTTTATGGTTTTAGA
1 TTTAAGGTTTTATAGTTTTAGA
17892349 TTTAAGG-TTTATAGTTTTA
1 TTTAAGGTTTTATAGTTTTA
17892368 AGTTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (22 bp):
TTTAAGGTTTTATAGTTTTAGA
Found at i:17892905 original size:40 final size:40
Alignment explanation
Indices: 17892819--17892908 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
17892809 TCTTTAATAT
* * * *
17892819 TTTAGCGGCGCTTACGTAAAAACGCCGCTATAGGTCGGTC
1 TTTAGCGGCGCTTACCTAAAAACGCCACTATAGCTCGATC
*
17892859 TATAGCGGCGCTT-CTCTAAAAACGCCACTA-ATGCTCGATC
1 TTTAGCGGCGCTTAC-CTAAAAACGCCACTATA-GCTCGATC
17892899 TTTAGCGGCG
1 TTTAGCGGCG
17892909 TTTTTTGAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 2 0.05
40 40 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
TTTAGCGGCGCTTACCTAAAAACGCCACTATAGCTCGATC
Found at i:17893097 original size:12 final size:12
Alignment explanation
Indices: 17893080--17893105 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17893070 TTTTCTATTC
17893080 AAACGCCGCTAA
1 AAACGCCGCTAA
17893092 AAACGCCGCTAA
1 AAACGCCGCTAA
17893104 AA
1 AA
17893106 CCCTATTTCG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:17894451 original size:3 final size:3
Alignment explanation
Indices: 17894443--17894655 Score: 219
Period size: 3 Copynumber: 71.7 Consensus size: 3
17894433 ATACTATATA
17894443 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
17894491 AGAA AAT AAT AAT AGT ACT AAT AGT AAT AAT AAT GAT AAC AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
17894537 AAT -AT AA- AAA AAT AA- AA- AAT AAT GAT ATT AAT ACAT AAAT AGA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT A-AT
17894580 AAT AGA- AAT -AT AAT ACAT AGA- AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
17894624 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17894656 AAGTTTTAAA
Statistics
Matches: 179, Mismatches: 17, Indels: 28
0.80 0.08 0.12
Matches are distributed among these distances:
2 15 0.08
3 151 0.84
4 12 0.07
5 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17894799 original size:31 final size:30
Alignment explanation
Indices: 17894735--17894814 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
17894725 TATAAGACAA
* * *
17894735 ATAAAAAT-GAAAATAATATTAGTATATAC
1 ATAAAAATAGAAAATAATAATAGTAGAGAC
*
17894764 ATAAAAATAGAAATATAATAATAGTAGAGAG
1 ATAAAAATAGAAA-ATAATAATAGTAGAGAC
17894795 AT--AAATAGATAAATAATAAT
1 ATAAAAATAGA-AAATAATAAT
17894815 TAGATAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 23 0.52
30 6 0.14
31 15 0.34
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (30 bp):
ATAAAAATAGAAAATAATAATAGTAGAGAC
Found at i:17894829 original size:15 final size:15
Alignment explanation
Indices: 17894795--17894829 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
17894785 TAGTAGAGAG
*
17894795 ATAAATAGATAAATA
1 ATAATTAGATAAATA
17894810 ATAATTAGATAAATA
1 ATAATTAGATAAATA
17894825 ATAAT
1 ATAAT
17894830 AGTATTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
ATAATTAGATAAATA
Found at i:17897503 original size:53 final size:54
Alignment explanation
Indices: 17897434--17897538 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 54
17897424 AACCCATTTT
* * *
17897434 GGTCTTAAAGCACCCTTTATGGGTTTTCGCCTT-GACTCTCCATTTTTTTAGAA
1 GGTCTCAAAGCACCCTTTACGGGTTTTCGCCTTAGACTCTCCACTTTTTTAGAA
* * *
17897487 GGTCTCAAAGCGCCCTTTACGGGTTTTCGCCTTAGCCTCTCCCCTTTTTTAG
1 GGTCTCAAAGCACCCTTTACGGGTTTTCGCCTTAGACTCTCCACTTTTTTAG
17897539 GTGAAGCACC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
53 30 0.67
54 15 0.33
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.39
Consensus pattern (54 bp):
GGTCTCAAAGCACCCTTTACGGGTTTTCGCCTTAGACTCTCCACTTTTTTAGAA
Found at i:17911229 original size:3 final size:3
Alignment explanation
Indices: 17911217--17911390 Score: 161
Period size: 3 Copynumber: 59.3 Consensus size: 3
17911207 AATATACTAT
* * * *
17911217 ATA A-A ATA ATA ATA GTA CTA ATA GTA ATA ATA ATG ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
17911263 ATA A-A A-A ATA A-A AAA ATA ATG ATA TTA ATA CATAA ATA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA -ATA ATA
17911307 GA-A ATA A-A ATA CATA GA-A AT- ATA ATA ATA ATA ATA ATA ATA ATA
1 -ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17911351 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17911391 AAATTTTAAA
Statistics
Matches: 144, Mismatches: 13, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
2 17 0.12
3 116 0.81
4 10 0.07
5 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:17911552 original size:15 final size:15
Alignment explanation
Indices: 17911532--17911577 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
17911522 ATATAAATAG
17911532 AAATAGAAATATAAT
1 AAATAGAAATATAAT
*
17911547 AAATAGAAAAATAAT
1 AAATAGAAATATAAT
17911562 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
17911578 ATAGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:17911592 original size:15 final size:14
Alignment explanation
Indices: 17911532--17911592 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 14
17911522 ATATAAATAG
17911532 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
17911547 AAATAGAAAAATAAT
1 AAATAG-AAAATAAT
17911562 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
17911576 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
17911591 AA
1 AA
17911593 CAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 13 0.32
15 24 0.60
16 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:17919882 original size:40 final size:40
Alignment explanation
Indices: 17919776--17919959 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
17919766 TGCTGGAAAT
* * * * * **
17919776 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
17919816 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
17919856 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
17919894 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
17919935 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
17919960 GATTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:17924573 original size:15 final size:15
Alignment explanation
Indices: 17924535--17924574 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17924525 TAATTGGCTA
17924535 ATTATATTAATC-AT
1 ATTATATTAATCAAT
17924549 -TTA-A-TAATCAAT
1 ATTATATTAATCAAT
17924561 ATTATATTAATCAA
1 ATTATATTAATCAA
17924575 ATTTTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.23
12 3 0.14
13 6 0.27
14 1 0.05
15 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATATTAATCAAT
Found at i:17932636 original size:17 final size:15
Alignment explanation
Indices: 17932599--17932643 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
17932589 ATGAGAGTGA
17932599 AATTTTAAAAATAAT
1 AATTTTAAAAATAAT
* *
17932614 ATTTTTAAGATAATAGT
1 AATTTTAA-A-AATAAT
17932631 AATTTTAAAAATA
1 AATTTTAAAAATA
17932644 GAGATGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 11 0.44
16 2 0.08
17 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (15 bp):
AATTTTAAAAATAAT
Found at i:17937141 original size:6 final size:6
Alignment explanation
Indices: 17937131--17937169 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
17937121 TAGTGACTGT
* *
17937131 TCTTCT TCTTCT TCTTCC TCTTCC TCTTCC TCTTCC TCT
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCT
17937170 GTTAAAGGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (6 bp):
TCTTCC
Found at i:17937200 original size:15 final size:15
Alignment explanation
Indices: 17937180--17937209 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17937170 GTTAAAGGGA
*
17937180 TTTTTTTAAGTTTTT
1 TTTTTTTAACTTTTT
17937195 TTTTTTTAACTTTTT
1 TTTTTTTAACTTTTT
17937210 CATCCAACGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTTTAACTTTTT
Found at i:17937252 original size:21 final size:21
Alignment explanation
Indices: 17937226--17937265 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17937216 ACGTGGCAAG
17937226 TTAACTGGCCACATCAGCTAA
1 TTAACTGGCCACATCAGCTAA
*
17937247 TTAACTTGCCACATCAGCT
1 TTAACTGGCCACATCAGCT
17937266 GTTTTGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (21 bp):
TTAACTGGCCACATCAGCTAA
Found at i:17939433 original size:21 final size:21
Alignment explanation
Indices: 17939407--17939450 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17939397 TTCATCATTC
* *
17939407 TTTTATTTTCTTTTATATTAT
1 TTTTATCTTCTATTATATTAT
*
17939428 TTTTATCTTCTATTATTTTAT
1 TTTTATCTTCTATTATATTAT
17939449 TT
1 TT
17939451 CATGAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTATCTTCTATTATATTAT
Found at i:17950741 original size:8 final size:8
Alignment explanation
Indices: 17950699--17950723 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17950689 ATATAGACTA
17950699 AATAAAAT
1 AATAAAAT
17950707 AATAAAAT
1 AATAAAAT
17950715 AATAAAAT
1 AATAAAAT
17950723 A
1 A
17950724 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:17950747 original size:29 final size:31
Alignment explanation
Indices: 17950696--17950768 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
17950686 TATATATAGA
*
17950696 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
17950725 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
17950756 CTAATT-AAATAAT
1 CTAATTAAAATAAT
17950769 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:17950773 original size:29 final size:30
Alignment explanation
Indices: 17950703--17950774 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
17950693 AGACTAAATA
*
17950703 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
17950731 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
17950762 AAATAATTATAAA
1 AAATAATTATAAA
17950775 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:17951042 original size:30 final size:31
Alignment explanation
Indices: 17950976--17951045 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
17950966 CCACCATTGA
* * *
17950976 AATATTTTCACTATTAGTCCTTCAAAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
*
17951007 CATATTTACACT-TTAATCCCTC-AAATTTT
1 AATATTTACACTATTAATCCCTCAAAATTTT
17951036 GAATATTTAC
1 -AATATTTAC
17951046 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 16 0.48
31 10 0.30
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.46
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAAAATTTT
Found at i:17958532 original size:2 final size:2
Alignment explanation
Indices: 17958520--17958550 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
17958510 ATATAGTTGA
17958520 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
17958551 GTTTGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17958632 original size:32 final size:32
Alignment explanation
Indices: 17958571--17958661 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 32
17958561 ACTAAGTGTG
**
17958571 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
17958603 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * * *
17958635 TATCTAGGTGTAGTTTGATATAGCCGA
1 TATATATGTGTAGTTGGATAAAGCCGA
17958662 TTGAGATGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.04
32 43 0.90
33 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:17958829 original size:26 final size:26
Alignment explanation
Indices: 17958800--17958890 Score: 101
Period size: 26 Copynumber: 3.5 Consensus size: 26
17958790 TTTGAGGGAT
17958800 GCACTAAGTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
* * * * * *
17958826 GCACTATGTGTACGAATTTGATACTGA
1 GCACTAAGTGTGCGAGTTGGAT-TTAA
*
17958853 GCACTAAGTTTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAGTTGGATTTAA
*
17958879 GCACTATGTGTG
1 GCACTAAGTGTG
17958891 TGAATTAATT
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
26 30 0.61
27 19 0.39
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGTTGGATTTAA
Found at i:17958896 original size:53 final size:53
Alignment explanation
Indices: 17958800--17958918 Score: 177
Period size: 53 Copynumber: 2.2 Consensus size: 53
17958790 TTTGAGGGAT
*
17958800 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTACGAATTTGA-TACTGA
1 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTACGAA-TTAATTACTGA
* ** *
17958853 GCACTAAGTTTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGA
1 GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTACGAATTAATTACTGA
17958906 GCACTAAGTGTGC
1 GCACTAAGTGTGC
17958919 AAAATCAGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 3 0.05
53 56 0.95
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (53 bp):
GCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTGTACGAATTAATTACTGA
Found at i:17960148 original size:14 final size:14
Alignment explanation
Indices: 17960129--17960179 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
17960119 GATGTTGAAA
17960129 TTAGCTAAGTTCAC
1 TTAGCTAAGTTCAC
*
17960143 TTAGCTAACAATTCA-
1 TTAGCT-A-AGTTCAC
*
17960158 -TAGCCAAGTTCAC
1 TTAGCTAAGTTCAC
17960171 TTAGCTAAG
1 TTAGCTAAG
17960180 ATAAAGTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 17 0.59
15 1 0.03
16 5 0.17
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (14 bp):
TTAGCTAAGTTCAC
Found at i:17962945 original size:4 final size:4
Alignment explanation
Indices: 17962928--17963050 Score: 89
Period size: 4 Copynumber: 31.0 Consensus size: 4
17962918 ACATTTTTCT
*
17962928 AGGG AGGG AAGG AGGG AGGG AGGG AGGG AGGG A--G AGGG AGAGG AGAGG
1 AGGG AGGG AGGG AGGG AGGG AGGG AGGG AGGG AGGG AGGG AG-GG AG-GG
* * * *
17962976 -GGAG AGAG AGAG AAGG AGGG A--G AGGG AGAGG -GGG AGGG AGAG AGGG
1 AGG-G AGGG AGGG AGGG AGGG AGGG AGGG AG-GG AGGG AGGG AGGG AGGG
*
17963022 AGAGG -GGAG AGAG AGGG AGGG AGGG AGGG
1 AG-GG AGG-G AGGG AGGG AGGG AGGG AGGG
17963051 GAGAGAGAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
2 4 0.04
3 4 0.04
4 76 0.78
5 13 0.13
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (4 bp):
AGGG
Found at i:17962984 original size:2 final size:2
Alignment explanation
Indices: 17962959--17963305 Score: 351
Period size: 2 Copynumber: 180.0 Consensus size: 2
17962949 GGGAGGGAGG
* * *
17962959 GA GA GG GA GA G- GA GA G- GG GA GA GA GA GA GA -A G- GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * *
17962997 GA GG GA GA GG GG GA GG GA GA GA GG GA GA G- GG GA GA GA GA GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
17963038 GA GG GA GG GA G- GG GA GA GA GA GA GA TA GA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
17963079 GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
17963120 GA GA GA -A G- GA GA GG GA GG GA GA GG GG GA GA GA CA GA GA TA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
17963160 GA GA GA GA TA GA GA GG GA GA GG GA GA GA GA AA G- GA -A GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
17963200 GG GA GA GA GA G- GA -A GA GA GG GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
17963240 GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
17963282 GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA
17963306 AACCTATAAT
Statistics
Matches: 283, Mismatches: 49, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
1 13 0.05
2 270 0.95
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.01
Consensus pattern (2 bp):
GA
Found at i:17963918 original size:27 final size:27
Alignment explanation
Indices: 17963888--17963947 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
17963878 AATGTTTAAA
17963888 AAATAAATATA-ATGATTA-ATGATATTT
1 AAATAAATATATATG--TAGATGATATTT
*
17963915 AAATAAATATATTTGTAGATGATATTT
1 AAATAAATATATATGTAGATGATATTT
17963942 AAATAA
1 AAATAA
17963948 TTAAATACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (27 bp):
AAATAAATATATATGTAGATGATATTT
Done.