Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
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 197 of 438
Found at i:61109247 original size:14 final size:15
Alignment explanation
Indices: 61109228--61109272 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
61109218 TCAAATTCCT
*
61109228 AAATAAAAAATAAA-
1 AAATAAAAAACAAAC
61109242 AAATAAAAAACAAAC
1 AAATAAAAAACAAAC
61109257 AAAT--AAAACAAAC
1 AAATAAAAAACAAAC
61109270 AAA
1 AAA
61109273 ACAATACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.41
14 13 0.45
15 4 0.14
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (15 bp):
AAATAAAAAACAAAC
Found at i:61109249 original size:6 final size:7
Alignment explanation
Indices: 61109228--61109264 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
61109218 TCAAATTCCT
61109228 AAATAAA
1 AAATAAA
61109235 AAATAAA
1 AAATAAA
61109242 AAATAAA
1 AAATAAA
*
61109249 AAACAAA
1 AAATAAA
61109256 CAAATAAA
1 -AAATAAA
61109264 A
1 A
61109265 CAAACAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (7 bp):
AAATAAA
Found at i:61109260 original size:22 final size:23
Alignment explanation
Indices: 61109235--61109282 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
61109225 CCTAAATAAA
61109235 AAATAAAA-AATAAAAAACAA-AC
1 AAATAAAACAA-AAAAAACAATAC
*
61109257 AAATAAAACAAACAAAACAATAC
1 AAATAAAACAAAAAAAACAATAC
61109280 AAA
1 AAA
61109283 AGATCTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.08
Consensus pattern (23 bp):
AAATAAAACAAAAAAAACAATAC
Found at i:61109264 original size:13 final size:13
Alignment explanation
Indices: 61109248--61109272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61109238 TAAAAAATAA
61109248 AAAACAAACAAAT
1 AAAACAAACAAAT
61109261 AAAACAAACAAA
1 AAAACAAACAAA
61109273 ACAATACAAA
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:0.80, C:0.16, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAACAAACAAAT
Found at i:61113539 original size:46 final size:46
Alignment explanation
Indices: 61113480--61113568 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
61113470 TGCAGTGGGA
* *
61113480 TACAAATCTTATACCCCTGAGCTATAGTGGGATGGATTGAAGATGG
1 TACAAATCTTATACCCCTGAGCTACAGTGGGATGGATGGAAGATGG
* *
61113526 TACAAATGC-TATACCCCTGAGTTGCAGTGGGATGGATGGAAGA
1 TACAAAT-CTTATACCCCTGAGCTACAGTGGGATGGATGGAAGA
61113569 AACCACAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 37 0.97
47 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (46 bp):
TACAAATCTTATACCCCTGAGCTACAGTGGGATGGATGGAAGATGG
Found at i:61113577 original size:46 final size:46
Alignment explanation
Indices: 61113481--61113583 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
61113471 GCAGTGGGAT
* * ****
61113481 ACAAATCTTATACCCCTGAGCTATAGTGGGATGGATTGAAGATGGT
1 ACAAATCTTATACCCCTGAGCTACAGTGGGATGGATGGAAGAAACC
* *
61113527 ACAAATGC-TATACCCCTGAGTTGCAGTGGGATGGATGGAAGAAACC
1 ACAAAT-CTTATACCCCTGAGCTACAGTGGGATGGATGGAAGAAACC
*
61113573 ACAAATTTTAT
1 ACAAATCTTAT
61113584 CTTCCTGAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (46 bp):
ACAAATCTTATACCCCTGAGCTACAGTGGGATGGATGGAAGAAACC
Found at i:61122634 original size:45 final size:45
Alignment explanation
Indices: 61122569--61122659 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
61122559 CCAAAACATG
* *
61122569 TGTCACATACATCATAAACTCAGACCATAACTCAATGAGTTCAGA
1 TGTCACATACATCATAAACTCAGACCACAACTCAATGAGCTCAGA
* * *
61122614 TGTCACATATATCATGAACTCAGATCACAACTCAATGAGCTCAGA
1 TGTCACATACATCATAAACTCAGACCACAACTCAATGAGCTCAGA
61122659 T
1 T
61122660 CACATAGTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATAAACTCAGACCACAACTCAATGAGCTCAGA
Found at i:61122656 original size:21 final size:21
Alignment explanation
Indices: 61122587--61122663 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
61122577 ACATCATAAA
* *
61122587 CTCAGACCATAACTCAATGAG
1 CTCAGATCACAACTCAATGAG
* * *
61122608 TTCAGATGTCACATATATC-ATGAA
1 CTCAGA--TCACA-A-CTCAATGAG
61122632 CTCAGATCACAACTCAATGAG
1 CTCAGATCACAACTCAATGAG
61122653 CTCAGATCACA
1 CTCAGATCACA
61122664 TAGTTCCTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
20 2 0.05
21 21 0.49
22 5 0.12
23 3 0.07
24 10 0.23
25 2 0.05
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (21 bp):
CTCAGATCACAACTCAATGAG
Found at i:61125199 original size:24 final size:24
Alignment explanation
Indices: 61125172--61125229 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
61125162 ACAAAGCCTA
*
61125172 CTAAATACACCTGCTTGAGGTCTG
1 CTAAATACACCTACTTGAGGTCTG
*
61125196 CTAAATACACCTACTTGAGGTTTG
1 CTAAATACACCTACTTGAGGTCTG
61125220 CTAAATACAC
1 CTAAATACAC
61125230 TAGCATGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (24 bp):
CTAAATACACCTACTTGAGGTCTG
Found at i:61126394 original size:4 final size:4
Alignment explanation
Indices: 61126380--61126412 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
61126370 AATAACCCTG
61126380 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
61126413 CTAACTCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:61128650 original size:40 final size:40
Alignment explanation
Indices: 61128584--61128750 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
61128574 AAATTGAATG
* * *
61128584 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
61128623 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
61128663 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
61128703 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
61128743 ATATCCGG
1 ATATCCGG
61128751 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:61134881 original size:40 final size:40
Alignment explanation
Indices: 61134822--61134963 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
61134812 AAATTGAATG
* * *
61134822 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
61134862 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
61134902 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
61134942 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
61134964 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:61134964 original size:40 final size:39
Alignment explanation
Indices: 61134861--61134989 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
61134851 TGCTGGAAAT
* * *
61134861 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
61134901 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
61134941 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
61134981 TATATCCGG
1 TATATCCGG
61134990 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:61136628 original size:39 final size:36
Alignment explanation
Indices: 61136525--61136670 Score: 130
Period size: 39 Copynumber: 3.8 Consensus size: 36
61136515 ATCACGATTT
*
61136525 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAAAACTA
**
61136562 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGA--TAAAACTA
* * **
61136601 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA-AAACT-A
* * *
61136640 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
61136671 TCATTCAATT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
37 30 0.34
38 3 0.03
39 56 0.63
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (36 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAAAACTA
Found at i:61146907 original size:43 final size:43
Alignment explanation
Indices: 61146846--61146980 Score: 225
Period size: 43 Copynumber: 3.1 Consensus size: 43
61146836 CCTTGCTCGA
** * *
61146846 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
61146889 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
61146932 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
61146975 ATCACC
1 ATCACC
61146981 AGCATGACTG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:61147154 original size:42 final size:42
Alignment explanation
Indices: 61146963--61147174 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
61146953 AGGCACGAAG
* * * * * * *
61146963 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
61147005 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
61147045 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
61147085 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
61147125 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
61147167 GCCCGGAT
1 GCCCGGAT
61147175 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:61149281 original size:49 final size:47
Alignment explanation
Indices: 61149107--61149423 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
61149097 CCCTTCGGGA
* * * * * *
61149107 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
61149154 CCTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
61149201 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
61149248 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
61149297 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
*
61149346 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
61149393 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
61149424 GCGTAAAATC
Statistics
Matches: 248, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 158 0.64
48 2 0.01
49 88 0.35
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:61149303 original size:96 final size:94
Alignment explanation
Indices: 61149107--61149423 Score: 483
Period size: 96 Copynumber: 3.3 Consensus size: 94
61149097 CCCTTCGGGA
* * * * * *
61149107 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
61149172 CTTCACATTCATCACATTGGCCATTCGGC
66 CTTCACATTCATCACATCGGCCATTAGGC
*
61149201 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTCGGCCTTATCAC--ATATATA
*
61149265 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
61149297 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
61149362 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTAGGC
*
61149393 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
61149424 GCGTAAAATC
Statistics
Matches: 204, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
94 58 0.28
95 1 0.00
96 110 0.54
97 2 0.01
98 33 0.16
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:61155055 original size:20 final size:20
Alignment explanation
Indices: 61155030--61155079 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
61155020 AGGGACTAAA
* *
61155030 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
61155050 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
61155070 ATGAATAAAT
1 ATGAA-AAAT
61155080 GTAATGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:61157347 original size:2 final size:2
Alignment explanation
Indices: 61157340--61157371 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
61157330 ATTTCAGTGT
61157340 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
61157372 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:61161062 original size:18 final size:18
Alignment explanation
Indices: 61161036--61161071 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61161026 TTTATATTAT
61161036 AGGGAATTTAGCCTGGAC
1 AGGGAATTTAGCCTGGAC
*
61161054 AGGGGATTTAGCCTGGAC
1 AGGGAATTTAGCCTGGAC
61161072 TGGTAATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.22
Consensus pattern (18 bp):
AGGGAATTTAGCCTGGAC
Found at i:61161098 original size:72 final size:72
Alignment explanation
Indices: 61160981--61161125 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
61160971 ATTGTCGTTG
61160981 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTATAGGGAATTTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTATAGGGAATTTA
61161046 GCCTGGA
66 GCCTGGA
*
61161053 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTATAGGGGATTTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTATAGGGAATTTA
61161118 GCCTGGA
66 GCCTGGA
61161125 C
1 C
61161126 TGGAAATCCC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (72 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTATAGGGAATTTA
GCCTGGA
Found at i:61161219 original size:46 final size:46
Alignment explanation
Indices: 61161169--61161340 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
61161159 AGTGTGCTCT
61161169 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG-AAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-C
61161215 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
61161261 ATGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
61161307 ATGACA-GAAAATGAGTAAGAGCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
61161341 CATTATGGCA
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.01
46 112 0.97
47 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:61163501 original size:25 final size:25
Alignment explanation
Indices: 61163473--61163582 Score: 87
Period size: 25 Copynumber: 4.3 Consensus size: 25
61163463 ATATTTTATT
61163473 AATATTTTATTTTAAATTATATTAA
1 AATATTTTATTTTAAATTATATTAA
* *
61163498 AATATTTTTTAGTTTTATATTAAATTAA
1 AATA--TTTTA-TTTTAAATTATATTAA
* *** * *
61163526 ATTAAAGTATTTTATATTGA-AATAA
1 AATATTTTATTTTAAATT-ATATTAA
* *
61163551 AATATTTTATATTAACTTATATTAA
1 AATATTTTATTTTAAATTATATTAA
61163576 AATATTT
1 AATATTT
61163583 CATATATTTT
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
24 1 0.02
25 39 0.60
26 3 0.05
27 5 0.08
28 17 0.26
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (25 bp):
AATATTTTATTTTAAATTATATTAA
Found at i:61163521 original size:33 final size:36
Alignment explanation
Indices: 61163449--61163540 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 36
61163439 TCAATTAGTC
* *
61163449 TAAATTATATAAAAATATTTTATTAATATTTTATTT
1 TAAATTATATTAAAATATTTTATTAATATTTTATAT
*
61163485 TAAATTATATTAAAATATTTT-TT-A-GTTTTATAT
1 TAAATTATATTAAAATATTTTATTAATATTTTATAT
* *
61163518 TAAATTAAATTAAAGTATTTTAT
1 TAAATTATATTAAAATATTTTAT
61163541 ATTGAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
33 26 0.52
34 2 0.04
35 2 0.04
36 20 0.40
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (36 bp):
TAAATTATATTAAAATATTTTATTAATATTTTATAT
Found at i:61164392 original size:22 final size:22
Alignment explanation
Indices: 61164357--61164404 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
61164347 AAGGACATCC
61164357 AAAAATAAGATTTT-TTGGGCTA
1 AAAAATAAGATTTTCTT-GGCTA
*
61164379 GAAAAATGAG-TTTTCTTGGCTA
1 -AAAAATAAGATTTTCTTGGCTA
61164401 AAAA
1 AAAA
61164405 TACAGCAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 9 0.39
23 10 0.43
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (22 bp):
AAAAATAAGATTTTCTTGGCTA
Found at i:61173687 original size:31 final size:31
Alignment explanation
Indices: 61173650--61173712 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
61173640 CATCAAATCA
61173650 GCCGGAAAGCACAAATCTCGAACCATCAAAG
1 GCCGGAAAGCACAAATCTCGAACCATCAAAG
*
61173681 GCCGGAAAGCACGAATCTCGAACCATCAAAG
1 GCCGGAAAGCACAAATCTCGAACCATCAAAG
61173712 G
1 G
61173713 ACAATTCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.29, G:0.22, T:0.10
Consensus pattern (31 bp):
GCCGGAAAGCACAAATCTCGAACCATCAAAG
Found at i:61177117 original size:40 final size:41
Alignment explanation
Indices: 61177071--61177165 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
61177061 TCATCGCATA
61177071 AAGCCTGCTAGGCAAAAAGTCTG-TATCACACACCGGCACG-
1 AAGCCTGCTAGGCAAAAAGTCTGATATCACACACCGGCA-GT
* * ** * * *
61177111 AGGCCTGCTAGACTCAAAGTCTGATTTTATACACCGGCAGT
1 AAGCCTGCTAGGCAAAAAGTCTGATATCACACACCGGCAGT
61177152 AAGCCTGCTAGGCA
1 AAGCCTGCTAGGCA
61177166 TAAGTTCCGA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
40 20 0.47
41 23 0.53
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.20
Consensus pattern (41 bp):
AAGCCTGCTAGGCAAAAAGTCTGATATCACACACCGGCAGT
Found at i:61180242 original size:28 final size:28
Alignment explanation
Indices: 61180195--61180290 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
61180185 ATTTAAACCC
61180195 TAGGGGT-ATATT-GGTAATTTTGCTCTT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
61180222 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
61180250 TAGGTGTAA-TTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
61180277 TAAGGGTAATTTCG
1 TAGGGGTAATTTCG
61180291 TGTTCTACGT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
27 34 0.54
28 29 0.46
ACGTcount: A:0.20, C:0.09, G:0.25, T:0.46
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:61181941 original size:20 final size:20
Alignment explanation
Indices: 61181918--61181955 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61181908 CACATCCAAA
*
61181918 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
61181938 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
61181956 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:61188191 original size:27 final size:27
Alignment explanation
Indices: 61188160--61188251 Score: 134
Period size: 27 Copynumber: 3.4 Consensus size: 27
61188150 ATTTAAACCC
*
61188160 TAGGGGTATATT-GGTAATTTTGCTCCT
1 TAGGGGTA-ATTCGGTAATTTTGCTCTT
61188187 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAA-TTCGGTAATTTTGCTCTT
61188215 TA-GGGTAATTCGGTAATTTTGCTCTT
1 TAGGGGTAATTCGGTAATTTTGCTCTT
*
61188241 TAAGGGTAATT
1 TAGGGGTAATT
61188252 TCGTGTTCTA
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
26 21 0.34
27 24 0.39
28 16 0.26
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.45
Consensus pattern (27 bp):
TAGGGGTAATTCGGTAATTTTGCTCTT
Found at i:61188207 original size:28 final size:28
Alignment explanation
Indices: 61188160--61188254 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
61188150 ATTTAAACCC
*
61188160 TAGGGGT-ATATT-GGTAATTTTGCTCCT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
61188187 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
61188215 TA-GGGTAA-TTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
61188241 TAAGGGTAATTTCG
1 TAGGGGTAATTTCG
61188255 TGTTCTACGT
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
26 20 0.32
27 21 0.33
28 22 0.35
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:61198841 original size:23 final size:23
Alignment explanation
Indices: 61198811--61198856 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
61198801 GTTTTGTATG
61198811 TTTGTGAATCTTTGAGTTCGGTA
1 TTTGTGAATCTTTGAGTTCGGTA
61198834 TTTGTGAATCTTTGAGTTCGGTA
1 TTTGTGAATCTTTGAGTTCGGTA
61198857 ACGCCTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.48
Consensus pattern (23 bp):
TTTGTGAATCTTTGAGTTCGGTA
Found at i:61200994 original size:39 final size:39
Alignment explanation
Indices: 61200944--61201060 Score: 130
Period size: 40 Copynumber: 2.9 Consensus size: 39
61200934 AGCCCGGTTA
61200944 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCTCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCTCGGAAT
** *
61200983 TAGTAACTCGCACAAATGCCTTCTGATCTTAG-TCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGGCTTAGCT-CGGAAT
* * *
61201023 TAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCTCGGA
61201061 CATCATTCGA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
39 25 0.38
40 32 0.49
41 8 0.12
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGCTCGGAAT
Found at i:61201026 original size:40 final size:39
Alignment explanation
Indices: 61200916--61201060 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 39
61200906 GCTACTCGTT
* * *
61200916 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGAG-CTTAGCTCGGAAT-TAGTAACTCGCA
*
61200956 CAAATGCCTTCGGGCTTAGCTCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGAGCTTAGCTCGGAATTAGTAACTCGCA
* * * *
61200995 CAAATGCCTTCTGATCTTAG-TCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTC-GAGCTTAGCT-CGGAATTAGTAAC-TCGCA
* *
61201036 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGAG-CTTAGCTCGGA
61201061 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
39 33 0.38
40 46 0.53
41 8 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGAGCTTAGCTCGGAATTAGTAACTCGCA
Found at i:61205876 original size:43 final size:42
Alignment explanation
Indices: 61205788--61205879 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
61205778 ATTTACGTGC
* * * *
61205788 AAGACCATGTCTAGGACATTGACATCGTATATGAATTCGTGT
1 AAGACCATGTCTAGGACAATGACATCATATATGAATACATGT
* * *
61205830 AAGACCCTGTCTAGGACAATGGCATCAATATATGACTACATGT
1 AAGACCATGTCTAGGACAATGACATC-ATATATGAATACATGT
61205873 AAGACCA
1 AAGACCA
61205880 GGTTTGGGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 23 0.56
43 18 0.44
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (42 bp):
AAGACCATGTCTAGGACAATGACATCATATATGAATACATGT
Found at i:61211121 original size:46 final size:46
Alignment explanation
Indices: 61211071--61211196 Score: 209
Period size: 46 Copynumber: 2.7 Consensus size: 46
61211061 TGGTTGAGCA
*
61211071 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
61211117 TCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
61211163 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61211197 GGGGCGAGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.03
46 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:61213014 original size:39 final size:39
Alignment explanation
Indices: 61212967--61213149 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
61212957 AATGTTCGAG
61212967 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
61213006 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
61213045 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
61213084 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
61213124 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
61213150 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:61217883 original size:31 final size:30
Alignment explanation
Indices: 61217841--61217908 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 30
61217831 TCGGAGTTTC
61217841 AAATCGTGATGACGATTGTTTGAGGTTGAG
1 AAATCGTGATGACGATTGTTTGAGGTTGAG
61217871 AAATCGATGATGACGATTGTTTGAGGTTGAG
1 AAATCG-TGATGACGATTGTTTGAGGTTGAG
*
61217902 AACTCGT
1 AAATCGT
61217909 CTGTGTGTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 7 0.19
31 29 0.81
ACGTcount: A:0.28, C:0.09, G:0.31, T:0.32
Consensus pattern (30 bp):
AAATCGTGATGACGATTGTTTGAGGTTGAG
Found at i:61220918 original size:39 final size:39
Alignment explanation
Indices: 61220871--61221053 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
61220861 AATGTTCGAG
61220871 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
61220910 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
61220949 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
61220988 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
61221028 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
61221054 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:61226825 original size:39 final size:39
Alignment explanation
Indices: 61226778--61226960 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
61226768 AATGTTCGAG
61226778 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
61226817 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
61226856 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
61226895 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
61226935 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
61226961 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:61232781 original size:40 final size:40
Alignment explanation
Indices: 61232679--61232862 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
61232669 AAATTGAATG
* * * * *
61232679 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
61232719 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
61232759 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
61232799 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
61232839 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
61232863 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:61232887 original size:80 final size:80
Alignment explanation
Indices: 61232721--61232907 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
61232711 TGAAAATTAT
* * *
61232721 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
* *
61232786 CGTGCAAGTTGTTAA
66 CGTGCAAGTTATCAA
* * * * * *
61232801 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
* **
61232865 TGGTGCGGGTTATCATA
65 TCGTGCAAGTTATCA-A
* * *
61232882 A-CCGGGCTATGTCCCGAAGGCGATTG
1 ATCCGGGCTAAGACCCGAAGGCAATTG
61232908 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTATCAA
Found at i:61251231 original size:8 final size:8
Alignment explanation
Indices: 61251218--61251253 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
61251208 TGTACGCTTT
61251218 TGAAATTG
1 TGAAATTG
61251226 TGAAATTG
1 TGAAATTG
*
61251234 TGAAGTTG
1 TGAAATTG
*
61251242 TGAAATTA
1 TGAAATTG
61251250 TGAA
1 TGAA
61251254 CATACATGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (8 bp):
TGAAATTG
Found at i:61254048 original size:19 final size:19
Alignment explanation
Indices: 61254024--61254121 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
61254014 AATCTTTAAG
61254024 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61254043 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
61254062 GATA--CTATCTTAGATAT
1 GATATGCAATCTTAGATAT
61254079 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61254098 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
61254119 GAT
1 GAT
61254122 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:61254055 original size:36 final size:35
Alignment explanation
Indices: 61254014--61254121 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
61254004 ATGAAAATAT
61254014 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
*
61254050 AATC-TT-AGATATGATACTATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
61254086 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
61254122 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.46
37 1 0.02
38 6 0.10
40 10 0.17
41 6 0.10
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:61256974 original size:33 final size:34
Alignment explanation
Indices: 61256912--61257010 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 34
61256902 TTACACATTA
** * * *
61256912 CCAGAAACATATGTCAAATTAGAACGTCATATTT
1 CCAGAAACATATACCAGATCAGAAAGTCATATTT
*
61256946 CCA-TAACATATACCAGATCAGAAAGTCATATTT
1 CCAGAAACATATACCAGATCAGAAAGTCATATTT
* * *
61256979 TCAGAAACATATATCATATCA-AAATGTCATAT
1 CCAGAAACATATACCAGATCAGAAA-GTCATAT
61257011 CATATCAGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 29 0.55
34 24 0.45
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.29
Consensus pattern (34 bp):
CCAGAAACATATACCAGATCAGAAAGTCATATTT
Found at i:61259054 original size:11 final size:11
Alignment explanation
Indices: 61259040--61259121 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 11
61259030 GAAAGCATGT
61259040 AAAAAGAAAAG
1 AAAAAGAAAAG
61259051 -AAAAGAAAAATG
1 AAAAAG-AAAA-G
61259063 AAAGAAG-AAAG
1 AAA-AAGAAAAG
*
61259074 AAGAAGAAAAGG
1 AAAAAGAAAA-G
61259086 AAAAAGAAAA-
1 AAAAAGAAAAG
* *
61259096 ATAAAG-TAAG
1 AAAAAGAAAAG
61259106 AAAAA-AAAATG
1 AAAAAGAAAA-G
61259117 AAAAA
1 AAAAA
61259122 ATGTTAAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
9 2 0.04
10 19 0.34
11 16 0.29
12 14 0.25
13 2 0.04
14 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:61259072 original size:7 final size:6
Alignment explanation
Indices: 61259040--61259121 Score: 57
Period size: 6 Copynumber: 13.8 Consensus size: 6
61259030 GAAAGCATGT
* *
61259040 AAAAAG -AAAAG -AAAAG AAAAATG --AAAG AAGAAAG AAGAAG AAAAGG
1 AAAAAG AAAAAG AAAAAG AAAAA-G AAAAAG AA-AAAG AAAAAG AAAAAG
* *
61259086 AAAAAG AAAAAT AAAGTAAG AAAAA- AAAATG AAAAA
1 AAAAAG AAAAAG AAA--AAG AAAAAG AAAAAG AAAAA
61259122 ATGTTAAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
4 1 0.02
5 17 0.28
6 30 0.50
7 7 0.12
8 5 0.08
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:61259075 original size:18 final size:18
Alignment explanation
Indices: 61259052--61259119 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
61259042 AAAGAAAAGA
61259052 AAAGAAAAATGAAAGAAG
1 AAAGAAAAATGAAAGAAG
*
61259070 AAAGAAGAA-GAAAAGGAA-
1 AAAGAAAAATG-AAA-GAAG
61259088 AAAGAAAAAT-AAAGTAAG
1 AAAGAAAAATGAAAG-AAG
*
61259106 AAAAAAAAATGAAA
1 AAAGAAAAATGAAA
61259120 AAATGTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
16 1 0.02
17 6 0.15
18 28 0.68
19 6 0.15
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAGAAAAATGAAAGAAG
Found at i:61259082 original size:29 final size:27
Alignment explanation
Indices: 61259042--61259121 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 27
61259032 AAGCATGTAA
61259042 AAAGAAAAGAAAAGAAAAATGAAAGAAG
1 AAAGAAAAGAAAAGAAAAATGAAA-AAG
*
61259070 AAAGAAGAAGAAAAGGAAAAA-GAAAAAT
1 AAAGAA-AAGAAAA-GAAAAATGAAAAAG
*
61259098 AAAG-TAAGAAAA-AAAAATGAAAAA
1 AAAGAAAAGAAAAGAAAAATGAAAAA
61259122 ATGTTAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
24 5 0.11
25 6 0.13
26 7 0.15
28 12 0.26
29 11 0.23
30 6 0.13
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (27 bp):
AAAGAAAAGAAAAGAAAAATGAAAAAG
Found at i:61263662 original size:7 final size:7
Alignment explanation
Indices: 61263650--61263686 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
61263640 GTAAGCAATA
61263650 GAATTGT
1 GAATTGT
61263657 GAATTGT
1 GAATTGT
61263664 GAATTGT
1 GAATTGT
61263671 GAATTGT
1 GAATTGT
61263678 GAATTGT
1 GAATTGT
61263685 GA
1 GA
61263687 GATATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (7 bp):
GAATTGT
Found at i:61264042 original size:17 final size:19
Alignment explanation
Indices: 61264020--61264054 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
61264010 TATGTGTATA
61264020 GTAAGTA-AAAT-TTTAAG
1 GTAAGTATAAATATTTAAG
61264037 GTAAGTATAAATATTTAA
1 GTAAGTATAAATATTTAA
61264055 TTTAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
GTAAGTATAAATATTTAAG
Found at i:61264700 original size:22 final size:23
Alignment explanation
Indices: 61264675--61264719 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
61264665 GGGTTTACCG
61264675 ATCAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
61264697 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
61264720 TTTAGGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:61264962 original size:19 final size:19
Alignment explanation
Indices: 61264938--61264975 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
61264928 CTATTGAAAG
61264938 TATGAAAAATTGGAATTAA
1 TATGAAAAATTGGAATTAA
61264957 TATGAAAAATTGGAATTAA
1 TATGAAAAATTGGAATTAA
61264976 GAATTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (19 bp):
TATGAAAAATTGGAATTAA
Found at i:61265000 original size:18 final size:19
Alignment explanation
Indices: 61264977--61265015 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
61264967 TGGAATTAAG
*
61264977 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
61264995 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
61265014 AA
1 AA
61265016 GCTTGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:61267317 original size:80 final size:80
Alignment explanation
Indices: 61267233--61267381 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
61267223 TATGGTAACC
* * * *
61267233 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
61267297 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
61267313 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
61267378 CCGG
66 CCGG
61267382 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:61267323 original size:40 final size:38
Alignment explanation
Indices: 61267274--61267381 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
61267264 ATCACGATTT
*
61267274 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
61267314 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
61267354 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
61267382 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:61275482 original size:39 final size:39
Alignment explanation
Indices: 61275378--61275525 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 39
61275368 ATCACGATTT
*
61275378 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
61275418 GC-GAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCACTA
1 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTA
* * * ** *
61275455 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
61275495 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
61275526 TCATTCAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
36 1 0.01
37 7 0.08
38 27 0.31
39 21 0.24
40 31 0.36
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:61276625 original size:40 final size:40
Alignment explanation
Indices: 61276576--61276782 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
61276566 TCTTCGGAAT
* * *
61276576 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
61276615 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
*
61276655 TTAGCCCGGATATAACAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
61276694 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
61276734 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
61276774 TTAGCCCGG
1 TTAGCCCGG
61276783 GTATCATTCA
Statistics
Matches: 144, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 41 0.28
40 102 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:61276704 original size:79 final size:79
Alignment explanation
Indices: 61276576--61276782 Score: 256
Period size: 79 Copynumber: 2.6 Consensus size: 79
61276566 TCTTCGGAAT
* * * * *** *
61276576 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
61276640 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
*
61276655 TTAGCCCGGATATAACAACTCGCACAAATGCCTTC-GGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
*
61276719 GAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
61276734 TTAGCCCGGATATAATCATTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
61276783 GTATCATTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 72 0.65
80 38 0.35
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACA
AATGCCTTCGGGTC
Found at i:61284741 original size:40 final size:40
Alignment explanation
Indices: 61284692--61284896 Score: 217
Period size: 40 Copynumber: 5.2 Consensus size: 40
61284682 TCTTCGGAAT
* **
61284692 TTAG-CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTTGCACGAA-TGCCTTCGGGTC
* * *** *
61284731 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTC
*
61284771 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTC
61284811 TTAGCCCGGATAT-ACAAC-TGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTC
** *
61284849 TTAGCCCGGATATAATC-A-TTAGCATAAATGCCTTC-GGAC
1 TTAGCCCGGATATAA-CAACTT-GCACGAATGCCTTCGGGTC
61284888 TTAGCCCGG
1 TTAGCCCGG
61284897 GTATCATTCA
Statistics
Matches: 141, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 32 0.23
39 23 0.16
40 84 0.60
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTTGCACGAATGCCTTCGGGTC
Found at i:61284879 original size:78 final size:79
Alignment explanation
Indices: 61284692--61284896 Score: 247
Period size: 78 Copynumber: 2.6 Consensus size: 79
61284682 TCTTCGGAAT
* * * * **
61284692 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTTGCAC
61284756 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
61284771 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ACAAC-TGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTTGCAC
*
61284834 GAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
61284849 TTAGCCCGGATATAATCATTAGCATAAATGCCTTC-GGACTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
61284897 GTATCATTCA
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
77 12 0.11
78 48 0.44
79 9 0.08
80 40 0.37
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTTGCACA
AATGCCTTCGGGTC
Found at i:61289998 original size:21 final size:23
Alignment explanation
Indices: 61289972--61290020 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
61289962 CTACAAGCAT
*
61289972 CAAATTCACAA-CATTTTA-TAC
1 CAAATTCACAACCATTTTACAAC
*
61289993 CAAATTCTCAACCATTTTACAAC
1 CAAATTCACAACCATTTTACAAC
61290016 CAAAT
1 CAAAT
61290021 CATACATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 7 0.29
23 7 0.29
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.31
Consensus pattern (23 bp):
CAAATTCACAACCATTTTACAAC
Found at i:61290616 original size:24 final size:24
Alignment explanation
Indices: 61290589--61290670 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
61290579 AAATACTATC
61290589 ATCAACCATATGATTAATATATAT
1 ATCAACCATATGATTAATATATAT
* *
61290613 ATC-A-CATATTTCCAATTCATAAATACTAT
1 ATCAACCATA--T--GATT-A-ATATA-TAT
61290642 CATCAACCATATGATTAATATATAT
1 -ATCAACCATATGATTAATATATAT
61290667 ATCA
1 ATCA
61290671 CATATTTCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 20
0.65 0.06 0.29
Matches are distributed among these distances:
22 4 0.09
23 1 0.02
24 8 0.18
25 3 0.07
26 7 0.16
27 2 0.05
28 7 0.16
29 3 0.07
30 4 0.09
31 1 0.02
32 4 0.09
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (24 bp):
ATCAACCATATGATTAATATATAT
Found at i:61290640 original size:54 final size:54
Alignment explanation
Indices: 61290578--61290686 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
61290568 AATTCATAAC
61290578 TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
1 TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
61290632 TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
1 TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
61290686 T
1 T
61290687 TTGCACATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (54 bp):
TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
Found at i:61301716 original size:55 final size:55
Alignment explanation
Indices: 61301645--61301752 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
61301635 ATGCCCATAG
*
61301645 CTCGTGTGCAACACTGACT-TCAACACACGGCCATGGCACACGCCCGTGTGGCCTA
1 CTCGTGTACAACACTGACTCT-AACACACGGCCATGGCACACGCCCGTGTGGCCTA
* **
61301700 CTCGTGTACAATACTGACTCTAAGGCACGGCCATGGCACACGCCCGTGTGGCC
1 CTCGTGTACAACACTGACTCTAACACACGGCCATGGCACACGCCCGTGTGGCC
61301753 AAAAGGAGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
55 47 0.98
56 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (55 bp):
CTCGTGTACAACACTGACTCTAACACACGGCCATGGCACACGCCCGTGTGGCCTA
Found at i:61304887 original size:50 final size:50
Alignment explanation
Indices: 61304795--61304963 Score: 270
Period size: 50 Copynumber: 3.4 Consensus size: 50
61304785 TATCCTAGAT
* *
61304795 ATGGTCTTACATGGGA--TCATATACCGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
* * * *
61304843 ATGGTCCTACATGGGATCTCACATATCAATGCCAATGCCATGTCCTAGAC
1 ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
61304893 ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
61304943 ATGGTCTTACATGGGATCTCA
1 ATGGTCTTACATGGGATCTCA
61304964 TTACTCACGG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 15 0.14
50 94 0.86
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
Found at i:61304954 original size:100 final size:98
Alignment explanation
Indices: 61304773--61304963 Score: 301
Period size: 100 Copynumber: 1.9 Consensus size: 98
61304763 ACACAATAAG
* * *
61304773 ATGCCAAGGTCATATCCTAGATATGGTCTTACATGGGATCATATACCGATGCCAATGCCATGTCC
1 ATGCCAAGGCCATATCCTAGACATGGTCTTACATGGGATCACATACCGATGCCAATGCCATGTCC
61304838 CAAACATGGTCCTACATGGGATCTCACATATCA
66 CAAACATGGTCCTACATGGGATCTCACATATCA
* * *
61304871 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGT
1 ATGCCAAGGCCATATCCTAGACATGGTCTTACATGGGA--TCACATACCGATGCCAATGCCATGT
*
61304936 CCCAAACATGGTCTTACATGGGATCTCA
64 CCCAAACATGGTCCTACATGGGATCTCA
61304964 TTACTCACGG
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 34 0.40
100 50 0.60
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (98 bp):
ATGCCAAGGCCATATCCTAGACATGGTCTTACATGGGATCACATACCGATGCCAATGCCATGTCC
CAAACATGGTCCTACATGGGATCTCACATATCA
Found at i:61307069 original size:21 final size:19
Alignment explanation
Indices: 61307045--61307089 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
61307035 ATAAATTTAG
*
61307045 AAAATAAGAAAGGAAATAACA
1 AAAATAAGAAA-AAAATAA-A
*
61307066 AAAAGAAGAAAAAAATAAA
1 AAAATAAGAAAAAAATAAA
61307085 AAAAT
1 AAAAT
61307090 TAAAGGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 6 0.29
21 10 0.48
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (19 bp):
AAAATAAGAAAAAAATAAA
Found at i:61311108 original size:50 final size:50
Alignment explanation
Indices: 61311010--61311110 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
61311000 ACACTGCTGT
* * * * *
61311010 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCACCGGCCTCGATA
1 TATGAGAGCTAGTGTAAGACCATATCAGGGACATGGCACCGACATCGATA
* * *
61311060 TATGAGAGCTAGTGTAAGATCATATCAGGGATATGGCATCGACATCGATA
1 TATGAGAGCTAGTGTAAGACCATATCAGGGACATGGCACCGACATCGATA
61311110 T
1 T
61311111 GTGGAAGATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (50 bp):
TATGAGAGCTAGTGTAAGACCATATCAGGGACATGGCACCGACATCGATA
Found at i:61321201 original size:93 final size:92
Alignment explanation
Indices: 61321043--61321212 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
61321033 GGATGGTTGA
* *
61321043 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
61321108 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
61321135 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61321200 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
61321213 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 24 0.32
93 50 0.68
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61321211 original size:46 final size:46
Alignment explanation
Indices: 61321047--61321220 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
61321037 GGTTGAGCAT
* *
61321047 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
61321092 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
61321137 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
61321185 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61321221 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 23 0.21
46 42 0.38
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:61323640 original size:50 final size:50
Alignment explanation
Indices: 61323501--61323642 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 50
61323491 TGATATGTGT
* * * * * *
61323501 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCACCGAGAGATGAGAGC
1 CAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATATGACAGC
* ** *
61323551 TAGTGTAAGACCATATCTGGGACATGGCATCAACCTCGATATATGACAGC
1 CAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATATGACAGC
* *
61323601 CAGTGTAAGACCATATCTGGGATATGGCATTGGCATCGATAT
1 CAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATAT
61323643 GTGTAAGATT
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (50 bp):
CAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATATGACAGC
Found at i:61325929 original size:164 final size:164
Alignment explanation
Indices: 61325658--61325991 Score: 632
Period size: 164 Copynumber: 2.0 Consensus size: 164
61325648 CTCGGTTTTT
*
61325658 GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGACGTCGGACATGGGTAA
1 GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGACGTCAGACATGGGTAA
61325723 GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
66 GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
*
61325788 GTAAGTTGCACTTATGCCTATTTTAGTGTTATGA
131 ATAAGTTGCACTTATGCCTATTTTAGTGTTATGA
*
61325822 GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGGCGTCAGACATGGGTAA
1 GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGACGTCAGACATGGGTAA
61325887 GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
66 GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
*
61325952 ATAAGTTGCGCTTATGCCTATTTTAGTGTTATGA
131 ATAAGTTGCACTTATGCCTATTTTAGTGTTATGA
61325986 GCATGA
1 GCATGA
61325992 TGATGAATGG
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 166 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (164 bp):
GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGACGTCAGACATGGGTAA
GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
ATAAGTTGCACTTATGCCTATTTTAGTGTTATGA
Found at i:61334771 original size:16 final size:16
Alignment explanation
Indices: 61334747--61334778 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61334737 TATACTGTTC
61334747 AAAGATAGAGTTTGTG
1 AAAGATAGAGTTTGTG
*
61334763 AAAGGTAGAGTTTGTG
1 AAAGATAGAGTTTGTG
61334779 TATGCAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (16 bp):
AAAGATAGAGTTTGTG
Found at i:61336209 original size:28 final size:28
Alignment explanation
Indices: 61336144--61336244 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
61336134 ATAGTGAATC
*
61336144 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
61336173 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61336201 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
61336231 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61336245 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61344115 original size:28 final size:28
Alignment explanation
Indices: 61344050--61344150 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
61344040 ATAGTGAATC
*
61344050 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
61344079 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61344107 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
61344137 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61344151 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61346209 original size:29 final size:29
Alignment explanation
Indices: 61346147--61346220 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
61346137 GTGACAAGAT
* * *
61346147 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
61346176 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
*
61346205 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
61346221 GGGCTATATC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:61354968 original size:40 final size:40
Alignment explanation
Indices: 61354883--61355033 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
61354873 AATTGAATGA
* * * **
61354883 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
61354923 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
61354964 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
61355003 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
61355034 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:61355047 original size:40 final size:40
Alignment explanation
Indices: 61354920--61355049 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
61354910 ATGCTGGAAA
* * *
61354920 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
61354960 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
61355000 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
61355040 TTATATCCGG
1 TTATATCCGG
61355050 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:61362903 original size:40 final size:40
Alignment explanation
Indices: 61362818--61362968 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
61362808 AATTGAATGA
* * * **
61362818 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
61362858 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
61362899 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
61362938 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
61362969 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:61362982 original size:40 final size:40
Alignment explanation
Indices: 61362855--61362984 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
61362845 ATGCTGGAAA
* * *
61362855 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
61362895 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
61362935 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
61362975 TTATATCCGG
1 TTATATCCGG
61362985 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:61365605 original size:5 final size:5
Alignment explanation
Indices: 61365595--61365640 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
61365585 TCTCTTTTAT
*
61365595 TATAA TATAA TAT-A -ATAA TGTAA TATAA TAT-A -ATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
61365641 CATTTACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
3 4 0.11
4 4 0.11
5 27 0.77
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:61365620 original size:18 final size:18
Alignment explanation
Indices: 61365595--61365640 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
61365585 TCTCTTTTAT
61365595 TATAATATAATATAATAA
1 TATAATATAATATAATAA
*
61365613 TGTAATATAATATAATAA
1 TATAATATAATATAATAA
61365631 TATAATATAA
1 TATAATATAA
61365641 CATTTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TATAATATAATATAATAA
Found at i:61365640 original size:13 final size:13
Alignment explanation
Indices: 61365596--61365637 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
61365586 CTCTTTTATT
61365596 ATAATATAATATA
1 ATAATATAATATA
*
61365609 ATAATGTAATATA
1 ATAATATAATATA
61365622 AT-ATAATAATATA
1 ATAAT-ATAATATA
61365635 ATA
1 ATA
61365638 TAACATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:61377055 original size:27 final size:26
Alignment explanation
Indices: 61377018--61377079 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
61377008 TTTATTTTCA
*
61377018 AAAATTAAATAACATAT-TTAAT-ATG
1 AAAATAAAAT-ACATATATTAATAATG
*
61377043 TAAAACTAAAATATATATATTAATAATG
1 -AAAA-TAAAATACATATATTAATAATG
61377071 AAAATAAAA
1 AAAATAAAA
61377080 AATATGTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 14 0.45
27 14 0.45
28 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAATAAAATACATATATTAATAATG
Found at i:61380528 original size:28 final size:29
Alignment explanation
Indices: 61380470--61380537 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
61380460 ATACTTTTTA
* *
61380470 TATTATTTATTTTTATAAATATTAGTTAT
1 TATTATTTATTTATATAAATATTAGTCAT
*
61380499 TATT-TTTATTTATATATATATTA-TCCAT
1 TATTATTTATTTATATAAATATTAGT-CAT
61380527 TA-TATTATATT
1 TATTATT-TATT
61380538 ATTGTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 23 0.70
29 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (29 bp):
TATTATTTATTTATATAAATATTAGTCAT
Found at i:61380546 original size:33 final size:32
Alignment explanation
Indices: 61380504--61380600 Score: 78
Period size: 33 Copynumber: 3.1 Consensus size: 32
61380494 GTTATTATTT
**
61380504 TTATTTATATATATAT-TATCCATTATATTATA
1 TTATTTATAT-TATATCTATAAATTATATTATA
* *
61380536 TTATTGTATATTTTATCTATAAATTATATTTTA
1 TTATT-TATATTATATCTATAAATTATATTATA
*
61380569 TTA--TATATT-TCAT-TATATATTATATATATA
1 TTATTTATATTAT-ATCTATAAATTATAT-TATA
61380599 TT
1 TT
61380601 TTGTGCATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
29 12 0.22
30 13 0.24
32 9 0.16
33 21 0.38
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (32 bp):
TTATTTATATTATATCTATAAATTATATTATA
Found at i:61380551 original size:40 final size:39
Alignment explanation
Indices: 61380505--61380600 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 39
61380495 TTATTATTTT
61380505 TATTTATATATATATTATCCATTATATTATATTATTGT-A-TA
1 TATTTATATATATATTAT--ATTATATTATA-TATT-TCATTA
* * *
61380546 T-TTTATCTATAAATTATATTTTATTATATATTTCATTA
1 TATTTATATATATATTATATTATATTATATATTTCATTA
61380584 TATATTATATATATATT
1 TAT-TTATATATATATT
61380601 TTGTGCATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
36 1 0.02
37 5 0.11
38 13 0.28
39 1 0.02
40 25 0.54
41 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (39 bp):
TATTTATATATATATTATATTATATTATATATTTCATTA
Found at i:61380577 original size:12 final size:12
Alignment explanation
Indices: 61380560--61380602 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
61380550 ATCTATAAAT
61380560 TATATTTTATTA
1 TATATTTTATTA
*
61380572 TATATTTCATTA
1 TATATTTTATTA
*
61380584 TATATTATA-TA
1 TATATTTTATTA
61380595 TATATTTT
1 TATATTTT
61380603 GTGCATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:61384930 original size:46 final size:46
Alignment explanation
Indices: 61384863--61385037 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
61384853 TGTAACCCGC
*
61384863 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
61384909 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * *
61384959 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
61385002 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
61385038 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 62 0.57
47 26 0.24
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:61384984 original size:93 final size:93
Alignment explanation
Indices: 61384871--61385042 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
61384861 GCCCATAAGT
* * *
61384871 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
61384936 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
61384964 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
61385029 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
61385043 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:61385057 original size:46 final size:44
Alignment explanation
Indices: 61384868--61385057 Score: 118
Period size: 46 Copynumber: 4.1 Consensus size: 44
61384858 CCCGCCCATA
* * ** ** *
61384868 AGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* * *
61384913 AAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
61384963 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
61385006 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
61385053 AGTGA
1 AGTGA
61385058 CATGTCACTT
Statistics
Matches: 112, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 64 0.57
47 27 0.24
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:61388573 original size:46 final size:46
Alignment explanation
Indices: 61388522--61388614 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
61388512 CAATATATAT
*
61388522 ATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATACACATCTCATACATATCTCACATTAGCCATTCGGCTTTACC
* * * *
61388568 ATATACCCATCTCATACATGTTTCGCATTAGCCATTCGGCTTTACC
1 ATATACACATCTCATACATATCTCACATTAGCCATTCGGCTTTACC
61388614 A
1 A
61388615 CATATATACA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (46 bp):
ATATACACATCTCATACATATCTCACATTAGCCATTCGGCTTTACC
Found at i:61390388 original size:25 final size:25
Alignment explanation
Indices: 61390359--61390406 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61390349 TTATAATATG
* * *
61390359 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61390384 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61390407 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61390457 original size:9 final size:9
Alignment explanation
Indices: 61390445--61390501 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61390435 TTTGATAAAC
61390445 ATGATATGT
1 ATGATATGT
*
61390454 ATGATATGCAC
1 ATGATATG--T
*
61390465 ATGACATGT
1 ATGATATGT
*
61390474 ATGATATGCAC
1 ATGATATG--T
61390485 ATGATATGT
1 ATGATATGT
61390494 ATGATATG
1 ATGATATG
61390502 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:61390468 original size:20 final size:20
Alignment explanation
Indices: 61390443--61390505 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
61390433 ATTTTGATAA
61390443 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61390463 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61390483 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61390503 ACA
1 ACA
61390506 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61390654 original size:23 final size:24
Alignment explanation
Indices: 61390558--61390674 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
61390548 GAGGAAGTGC
61390558 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61390582 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61390605 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61390628 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61390651 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61390675 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
23 65 0.74
24 15 0.17
25 8 0.09
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61398449 original size:25 final size:25
Alignment explanation
Indices: 61398420--61398467 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61398410 TTATAATATG
* * *
61398420 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61398445 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61398468 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61398518 original size:9 final size:9
Alignment explanation
Indices: 61398506--61398561 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
61398496 TTTGATAAAC
61398506 ATGATATGT
1 ATGATATGT
*
61398515 ATGATATGCAC
1 ATGATATG--T
*
61398526 ATGACATGT
1 ATGATATGT
*
61398535 ATGATATGCC
1 ATGATATG-T
61398545 ATGATATGT
1 ATGATATGT
61398554 ATGATATG
1 ATGATATG
61398562 CACAGGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 23 0.61
10 8 0.21
11 7 0.18
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:61398529 original size:20 final size:20
Alignment explanation
Indices: 61398504--61398565 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
61398494 ATTTTGATAA
61398504 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61398524 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61398544 -CATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61398563 ACA
1 ACA
61398566 GGAGATGTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 18 0.46
20 21 0.54
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61398708 original size:24 final size:24
Alignment explanation
Indices: 61398619--61398736 Score: 154
Period size: 23 Copynumber: 5.0 Consensus size: 24
61398609 GAGGAAGTGC
61398619 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61398643 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61398666 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61398689 AAAAAGGGCTT-TGCCCTAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
61398713 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61398737 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
23 51 0.59
24 19 0.22
25 16 0.19
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61399735 original size:47 final size:47
Alignment explanation
Indices: 61399661--61399845 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
61399651 CACGTCAGAT
* *
61399661 TTGGCCATTCGGCCTTATCACACATATGCATGTTCACATACATCACA
1 TTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACA
* *
61399708 TTGGCCATTCGGCCTTAACACATATATGCATGTTCACGTTCATCACA
1 TTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACA
*
61399755 TTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACA
* * * **
61399802 TTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATC
1 TTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
61399846 TCATAAAATC
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
TTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACA
Found at i:61403524 original size:28 final size:28
Alignment explanation
Indices: 61403492--61403591 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
61403482 CTGACTGATT
*
61403492 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * ** *
61403520 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * *
61403549 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
61403577 TTGCACACACAGTGC
1 TCGCACACATAGTGC
61403592 CTCATAATTC
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
28 33 0.60
29 22 0.40
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:61403547 original size:57 final size:57
Alignment explanation
Indices: 61403470--61403595 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
61403460 CACTTCACCT
*
61403470 ACACAGTGCC-C-ACTGACTGATTTCGCACACATAGCGCTCGATTAAAGAACTCGCAC
1 ACACAGTGCCTCAACT-ACTGATCTCGCACACATAGCGCTCGATTAAAGAACTCGCAC
* * * * * *
61403526 ACATAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCGGTTGAAGAACTTGCAC
1 ACACAGTGCCTCAACTACTGATCTCGCACACATAGCGCTCGATTAAAGAACTCGCAC
61403583 ACACAGTGCCTCA
1 ACACAGTGCCTCA
61403596 TAATTCCAGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 9 0.15
57 48 0.80
58 3 0.05
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (57 bp):
ACACAGTGCCTCAACTACTGATCTCGCACACATAGCGCTCGATTAAAGAACTCGCAC
Found at i:61403667 original size:40 final size:40
Alignment explanation
Indices: 61403623--61403917 Score: 518
Period size: 40 Copynumber: 7.4 Consensus size: 40
61403613 CCTTCGAGGT
*
61403623 TTAGCCCGGATATATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
61403663 TTAGCCCGGATATATCACTAGCACAAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
61403703 TTAGCCCGGATATATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
61403743 TTAGCCCGGATATATCACTAGCACGAATGCTCTGCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
61403783 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
61403823 TTAGCCCGGATATATCACTAGCACGAATGCTATTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
61403863 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
61403903 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
61403918 ATAACTCTAA
Statistics
Matches: 245, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 245 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:61405474 original size:45 final size:46
Alignment explanation
Indices: 61405402--61405495 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 46
61405392 ATATATATAT
* *
61405402 ATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACCAC
1 ATACACATCTCATACACATCTCACATTAGCCATTCGGCTTTACCAC
* * *
61405448 ATAC-CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCAC
1 ATACACATCTCATACACATCTCACATTAGCCATTCGGCTTTACCAC
61405493 ATA
1 ATA
61405496 TATACACTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 39 0.91
46 4 0.09
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (46 bp):
ATACACATCTCATACACATCTCACATTAGCCATTCGGCTTTACCAC
Found at i:61405510 original size:45 final size:45
Alignment explanation
Indices: 61405422--61405592 Score: 137
Period size: 47 Copynumber: 3.7 Consensus size: 45
61405412 CATACATATC
* * *
61405422 TCACATTAGCCATTTGGCTTTACCACATACCATCTCATACACGTT-
1 TCACATTAGCCATTCGGCTTTACCACATA-TATCACATACACGTTA
* * *
61405467 TCGCATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCA
1 TCACATTAGCCATTCGGCTTTACCACATATAT-CACATACACGTT-A
* * * * ** * *
61405514 TCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGGCTTTACCACATATAT-CACATACACGTT-A
* * *
61405561 TCACATTGGCCATTCGGCCTTATCACATATAT
1 TCACATTAGCCATTCGGCTTTACCACATATAT
61405593 GCATGTTCAC
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
44 2 0.02
45 36 0.34
47 68 0.64
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.34
Consensus pattern (45 bp):
TCACATTAGCCATTCGGCTTTACCACATATATCACATACACGTTA
Found at i:61405539 original size:22 final size:22
Alignment explanation
Indices: 61405513--61405588 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
61405503 TTCCACGTTC
61405513 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
61405535 ATCACATATATG-CATGT-T-CACATT
1 ATCACAT-T-GGCCAT-TCTGC-C-TT
*
61405559 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
61405582 ATCACAT
1 ATCACAT
61405589 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:61405541 original size:47 final size:47
Alignment explanation
Indices: 61405470--61405761 Score: 442
Period size: 47 Copynumber: 6.2 Consensus size: 47
61405460 ACACGTTTCG
* * * * * *
61405470 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
61405517 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
61405564 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
61405611 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCAGATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
61405658 CATTGGCCATTCAGCCTTATCACACATATGCATGTTCACATTGATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
61405705 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
61405752 CATTGGCCAT
1 CATTGGCCAT
61405762 ATGCATGTTC
Statistics
Matches: 226, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 225 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:61405770 original size:77 final size:77
Alignment explanation
Indices: 61405682--61405831 Score: 228
Period size: 77 Copynumber: 1.9 Consensus size: 77
61405672 CCTTATCACA
* * **
61405682 CATATGCATGTTCACATTGATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
1 CATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATT
61405747 CATCACATTGGC
66 CATCACATTGGC
** * *
61405759 CATATGCATGTTCACATTCATCACATTTTCCATTCGTCCTTATCTCATATATACACATTCACATT
1 CATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATT
61405824 CATCACAT
66 CATCACAT
61405832 AAAATCCTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 65 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (77 bp):
CATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATT
CATCACATTGGC
Found at i:61420720 original size:40 final size:39
Alignment explanation
Indices: 61420552--61420722 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
61420542 AGAAATTGAA
* *
61420552 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
61420592 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
61420632 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
61420672 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
61420712 TGATATCCGGG
1 TGATATCCGGG
61420723 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:61428625 original size:39 final size:40
Alignment explanation
Indices: 61428567--61428667 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
61428557 AAATTGAATG
* *
61428567 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
61428606 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
61428646 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
61428668 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:61428660 original size:40 final size:40
Alignment explanation
Indices: 61428567--61428717 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
61428557 AAATTGAATG
* * * * *
61428567 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
61428606 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
61428646 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
61428686 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
61428718 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:61428732 original size:40 final size:38
Alignment explanation
Indices: 61428563--61428734 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
61428553 TGAGAAATTG
* *
61428563 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
61428602 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
61428639 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
61428679 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
61428719 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
61428735 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:61436450 original size:20 final size:20
Alignment explanation
Indices: 61436425--61436462 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61436415 GTCACATATA
61436425 TCATGAACTCAAACCACAAC
1 TCATGAACTCAAACCACAAC
* *
61436445 TCATGAGCTCAAATCACA
1 TCATGAACTCAAACCACA
61436463 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.32, G:0.08, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAAACCACAAC
Found at i:61438169 original size:18 final size:18
Alignment explanation
Indices: 61438142--61438185 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
61438132 GAGTTGAATT
*
61438142 GTTTTGAAAACAAGTATC
1 GTTTTAAAAACAAGTATC
61438160 GTTTTAAAAACAAGTATC
1 GTTTTAAAAACAAGTATC
61438178 GTTTTAAA
1 GTTTTAAA
61438186 TCGATTAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
GTTTTAAAAACAAGTATC
Found at i:61438643 original size:31 final size:31
Alignment explanation
Indices: 61438608--61438667 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
61438598 CCTTTTCATA
*
61438608 TTTCATATTTCATAACACTGGGCCGAAGCAT
1 TTTCATATTTCATAACACTGAGCCGAAGCAT
**
61438639 TTTCATATTTCATATTACTGAGCCGAAGC
1 TTTCATATTTCATAACACTGAGCCGAAGC
61438668 CTTTACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGAGCCGAAGCAT
Found at i:61438954 original size:26 final size:25
Alignment explanation
Indices: 61438895--61438962 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 25
61438885 TTTTAATAAT
61438895 TGGGGC-AAAGCCCTTTTGATAAAC
1 TGGGGCAAAAGCCCTTTTGATAAAC
* *
61438919 TGGGGAAAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAAGCCCTTTT-GATAAAC
61438945 TGGGGCAAAAGCCCTTTT
1 TGGGGCAAAAGCCCTTTT
61438963 TGCACTTCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 5 0.13
25 11 0.28
26 23 0.59
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (25 bp):
TGGGGCAAAAGCCCTTTTGATAAAC
Done.