Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 80 of 318
Found at i:27347780 original size:12 final size:12
Alignment explanation
Indices: 27347756--27347800 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
27347746 GAGGGCATAT
27347756 ATAATAT-AATA
1 ATAATATAAATA
27347767 ATAATATAAATA
1 ATAATATAAATA
* *
27347779 ATAGTAAAAATA
1 ATAATATAAATA
*
27347791 ATAAAATAAA
1 ATAATATAAA
27347801 AAAATAAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:27347806 original size:13 final size:14
Alignment explanation
Indices: 27347761--27347809 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 14
27347751 CATATATAAT
*
27347761 ATAATAATAATATAA
1 ATAATAA-AATAAAA
*
27347776 ATAAT--AGTAAAA
1 ATAATAAAATAAAA
27347788 ATAATAAAATAAAA
1 ATAATAAAATAAAA
27347802 A-AATAAAA
1 ATAATAAAA
27347810 CAAAGCTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 10 0.34
13 7 0.24
14 7 0.24
15 5 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
ATAATAAAATAAAA
Found at i:27348152 original size:13 final size:13
Alignment explanation
Indices: 27348119--27348209 Score: 101
Period size: 13 Copynumber: 7.6 Consensus size: 13
27348109 TTTGTTGGCA
27348119 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
27348131 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
27348141 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
27348154 AGTAGG-GTGG-TT
1 AGT-GGAGTGGTTT
27348166 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
27348176 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
*
27348189 AGTGTAGTGGTTT
1 AGTGGAGTGGTTT
27348202 AGTGGAGT
1 AGTGGAGT
27348210 AGTTGCAGTG
Statistics
Matches: 68, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
9 10 0.15
10 6 0.09
11 4 0.06
12 6 0.09
13 40 0.59
14 2 0.03
ACGTcount: A:0.13, C:0.00, G:0.49, T:0.37
Consensus pattern (13 bp):
AGTGGAGTGGTTT
Found at i:27348187 original size:48 final size:48
Alignment explanation
Indices: 27348134--27348263 Score: 145
Period size: 48 Copynumber: 2.6 Consensus size: 48
27348124 AGTGGTTGGG
* **
27348134 GTGGTTTAGTGGAGTGGTTTAGTAGG-GTGGTTGGGGTGGTTTAGTGGA
1 GTGGTTTAGTGGAGTGGTTTAGT-GGAGTAGTTGCAGTGGTTTAGTGGA
*
27348182 GTGGTTTAGTGTAGTGGTTTAGTGGAGTAGTTGCAGTGGTTTAGTGGA
1 GTGGTTTAGTGGAGTGGTTTAGTGGAGTAGTTGCAGTGGTTTAGTGGA
* *
27348230 GTAGTTGGAGTGGTTGGAGTGGTTTAGTGGAGTA
1 GTGGTT----TAG-TGGAGTGGTTTAGTGGAGTA
27348264 AAGATATTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
47 2 0.03
48 46 0.67
52 2 0.03
53 19 0.28
ACGTcount: A:0.15, C:0.01, G:0.46, T:0.38
Consensus pattern (48 bp):
GTGGTTTAGTGGAGTGGTTTAGTGGAGTAGTTGCAGTGGTTTAGTGGA
Found at i:27348199 original size:35 final size:35
Alignment explanation
Indices: 27348119--27348262 Score: 156
Period size: 35 Copynumber: 4.2 Consensus size: 35
27348109 TTTGTTGGCA
*
27348119 AGTGGAGTGGTTGGGGTGGTTTAGTGGAGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTTAGTGGAGTGGTTT
*
27348154 AGTAGG-GTGGTTGGGGTGGTTTAGTGGAGTGGTTT
1 AGT-GGAGTGGTTGGAGTGGTTTAGTGGAGTGGTTT
* * ** *
27348189 AGTGTAGTGGTT-TAGTGGAGTAGTTGCAGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTTAG-TGGAGTGGTTT
*
27348224 AGTGGAGTAGTTGGAGTGG--T--TGGAGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTTAGTGGAGTGGTTT
27348255 AGTGGAGT
1 AGTGGAGT
27348263 AAAGATATTT
Statistics
Matches: 95, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
31 18 0.19
34 9 0.09
35 61 0.64
36 7 0.07
ACGTcount: A:0.15, C:0.01, G:0.48, T:0.37
Consensus pattern (35 bp):
AGTGGAGTGGTTGGAGTGGTTTAGTGGAGTGGTTT
Found at i:27348222 original size:22 final size:22
Alignment explanation
Indices: 27348194--27348244 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
27348184 GGTTTAGTGT
27348194 AGTGGTTTAGTGGAGTAGTTGC
1 AGTGGTTTAGTGGAGTAGTTGC
*
27348216 AGTGGTTTAGTGGAGTAGTTGG
1 AGTGGTTTAGTGGAGTAGTTGC
27348238 AGTGGTT
1 AGTGGTT
27348245 GGAGTGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.18, C:0.02, G:0.43, T:0.37
Consensus pattern (22 bp):
AGTGGTTTAGTGGAGTAGTTGC
Found at i:27348251 original size:31 final size:31
Alignment explanation
Indices: 27348204--27348263 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
27348194 AGTGGTTTAG
27348204 TGGAGTAGTTGCAGTGGTTTAGTGGAGTAGT
1 TGGAGTAGTTGCAGTGGTTTAGTGGAGTAGT
* *
27348235 TGGAGTGGTTGGAGTGGTTTAGTGGAGTA
1 TGGAGTAGTTGCAGTGGTTTAGTGGAGTA
27348264 AAGATATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.02, G:0.45, T:0.35
Consensus pattern (31 bp):
TGGAGTAGTTGCAGTGGTTTAGTGGAGTAGT
Found at i:27348260 original size:22 final size:21
Alignment explanation
Indices: 27348180--27348262 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
27348170 TGGTTTAGTG
* *
27348180 GAGTGGTTTAGTGTAGTGGTT
1 GAGTGGTGTAGTGGAGTGGTT
* * *
27348201 TAGTGGAGTAGTTGCAGTGGTT
1 GAGTGGTGTAG-TGGAGTGGTT
* *
27348223 TAGTGGAGTAGTTGGAGTGGTT
1 GAGTGGTGTAG-TGGAGTGGTT
*
27348245 GGAGTGGTTTAGTGGAGT
1 -GAGTGGTGTAGTGGAGT
27348263 AAAGATATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
21 8 0.15
22 36 0.69
23 8 0.15
ACGTcount: A:0.17, C:0.01, G:0.45, T:0.37
Consensus pattern (21 bp):
GAGTGGTGTAGTGGAGTGGTT
Found at i:27350854 original size:23 final size:23
Alignment explanation
Indices: 27350828--27350872 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
27350818 TATATAATAA
*
27350828 ATATATATTTTTTATTTTTAATC
1 ATATATATATTTTATTTTTAATC
*
27350851 ATATTTATATTTTATTTTTAAT
1 ATATATATATTTTATTTTTAAT
27350873 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATATATATTTTATTTTTAATC
Found at i:27350971 original size:38 final size:39
Alignment explanation
Indices: 27350895--27350972 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
27350885 AATTTTTATT
* *
27350895 ATATTTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTAATTTGTGTATTGTTTTAAGAATTATTTTA
* * * *
27350934 ATATATTTT-ATTTGTTTCTTGTTTTAATATTTATTTTA
1 ATATATTTTAATTTGTGTATTGTTTTAAGAATTATTTTA
27350972 A
1 A
27350973 ATGTATTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
38 25 0.76
39 8 0.24
ACGTcount: A:0.26, C:0.01, G:0.09, T:0.64
Consensus pattern (39 bp):
ATATATTTTAATTTGTGTATTGTTTTAAGAATTATTTTA
Found at i:27351306 original size:23 final size:23
Alignment explanation
Indices: 27351276--27351324 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
27351266 GAGTTTTCTC
27351276 CTTGGCCGAAATCCTCAAAATAT
1 CTTGGCCGAAATCCTCAAAATAT
27351299 CTTGGCCGAAATCCTCAAAATAT
1 CTTGGCCGAAATCCTCAAAATAT
27351322 CTT
1 CTT
27351325 TCCTTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (23 bp):
CTTGGCCGAAATCCTCAAAATAT
Found at i:27358929 original size:41 final size:39
Alignment explanation
Indices: 27358842--27358920 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 39
27358832 TAGATAGGCA
*
27358842 AAAAAAGAGAAAATAAAATGAATAGCTCACAGAATTAGGCC
1 AAAAAAGAGAAAATAAAATGAATAGCT-ACAGAACTA-GCC
*
27358883 AAAAAAGAGAAAATAACATGAATAGCT-CAGAACT-GCC
1 AAAAAAGAGAAAATAAAATGAATAGCTACAGAACTAGCC
27358920 A
1 A
27358921 GAAGAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 4 0.11
39 6 0.17
41 26 0.72
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (39 bp):
AAAAAAGAGAAAATAAAATGAATAGCTACAGAACTAGCC
Found at i:27365913 original size:25 final size:25
Alignment explanation
Indices: 27365885--27365935 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
27365875 CTTTTTTTTT
27365885 AATACAATGCCTAAGATTATTCATA
1 AATACAATGCCTAAGATTATTCATA
27365910 AATACAATGCCTAAGATTATTCATA
1 AATACAATGCCTAAGATTATTCATA
27365935 A
1 A
27365936 GTCCTCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
AATACAATGCCTAAGATTATTCATA
Found at i:27366089 original size:52 final size:52
Alignment explanation
Indices: 27366011--27366116 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
27366001 TTAAACTACA
27366011 ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGAATGGTGTT
1 ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGAATGGTGTT
*
27366063 ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGTATGGTGTT
1 ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGAATGGTGTT
27366115 AC
1 AC
27366117 GGGTAAAACA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (52 bp):
ACTCAATTAGCTAGTTTCTCTTATTTTTTATTAGCTTAGCTGGAATGGTGTT
Found at i:27380815 original size:17 final size:17
Alignment explanation
Indices: 27380793--27380828 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27380783 TTTGTTAACT
*
27380793 TTTTAAAGAGAAATATA
1 TTTTAAAGAAAAATATA
*
27380810 TTTTAAGGAAAAATATA
1 TTTTAAAGAAAAATATA
27380827 TT
1 TT
27380829 GGTATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
TTTTAAAGAAAAATATA
Found at i:27384691 original size:13 final size:13
Alignment explanation
Indices: 27384675--27384699 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27384665 ACCGAGTTCG
27384675 TAAATATTTTCAT
1 TAAATATTTTCAT
27384688 TAAATATTTTCA
1 TAAATATTTTCA
27384700 AAATTGTTAT
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:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATATTTTCAT
Found at i:27386439 original size:22 final size:21
Alignment explanation
Indices: 27386414--27386457 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27386404 ACATTATTTG
27386414 AATAG-TATATGATGTATAATGA
1 AATAGTTATAT-ATGTAT-ATGA
*
27386436 AATAGTTTTATATGTATATGA
1 AATAGTTATATATGTATATGA
27386457 A
1 A
27386458 TTGAGTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (21 bp):
AATAGTTATATATGTATATGA
Found at i:27388743 original size:14 final size:14
Alignment explanation
Indices: 27388724--27388753 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
27388714 TGTGTTTATC
27388724 GATGGGTAAAATCA
1 GATGGGTAAAATCA
27388738 GATGGGTAAAATCA
1 GATGGGTAAAATCA
27388752 GA
1 GA
27388754 AAGTCTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.30, T:0.20
Consensus pattern (14 bp):
GATGGGTAAAATCA
Found at i:27389048 original size:50 final size:53
Alignment explanation
Indices: 27388993--27389099 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 53
27388983 AAGTAATTAC
27388993 AAAAGAC-TT-GAAATAAAATCCAAATTGACATCAAA-TTCGAGTTCAATCCT
1 AAAAGACTTTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
*
27389043 AAAAGACTTGTGTTAGAAATAAAATCTAAATTGACATCAAATTTCGAGTTCAATCCT
1 AAAAGAC---T-TTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
27389100 TGCATAGTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
50 7 0.14
55 2 0.04
56 25 0.51
57 15 0.31
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (53 bp):
AAAAGACTTTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
Found at i:27409412 original size:46 final size:46
Alignment explanation
Indices: 27409356--27409555 Score: 301
Period size: 46 Copynumber: 4.3 Consensus size: 46
27409346 GTGCTCTCTA
* *
27409356 ATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*
27409402 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*
27409448 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*** ** *
27409494 ACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGTCAACATG
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
27409541 ATATGAAATGTGTAA
1 ATATGAAATGTGTAA
27409556 CCATGGCAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 98 0.71
47 41 0.29
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:27409544 original size:93 final size:92
Alignment explanation
Indices: 27409356--27409555 Score: 301
Period size: 93 Copynumber: 2.2 Consensus size: 92
27409346 GTGCTCTCTA
* * * * **
27409356 ATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAATGTGTAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACC
*
27409421 ATGGTTGAAAGATACCATGGCAACCTG
66 ATGGTTGAAAGATACCATGGCAACATG
* *
27409448 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGAC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAATAAGAC
*
27409513 CATGGTTGAAAGATACCATGTCAACATG
65 CATGGTTGAAAGATACCATGGCAACATG
27409541 ATATGAAATGTGTAA
1 ATATGAAATGTGTAA
27409556 CCATGGCAAC
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 45 0.47
93 51 0.53
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (92 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACC
ATGGTTGAAAGATACCATGGCAACATG
Found at i:27409589 original size:74 final size:75
Alignment explanation
Indices: 27409480--27409624 Score: 220
Period size: 74 Copynumber: 1.9 Consensus size: 75
27409470 GTTGAAAGAT
* *
27409480 ACCATGGCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGTCAACATGATAT
1 ACCATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
27409545 GAAATGTGTA
66 GAAATGTGTA
* * * *
27409555 ACCATGGCAACATGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATAT
1 ACCATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
*
27409619 TAAATG
66 GAAATG
27409625 AATAAGACCA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 47 0.75
75 16 0.25
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (75 bp):
ACCATGGCAACATGACAGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
GAAATGTGTA
Found at i:27409591 original size:30 final size:28
Alignment explanation
Indices: 27409527--27409583 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
27409517 GTTGAAAGAT
* *
27409527 ACCATGTCAACATGATATGAAATGTGTA
1 ACCATGGCAACATGATATGAAATGAGTA
27409555 ACCATGGCAACATGATATGAAATGAGTA
1 ACCATGGCAACATGATATGAAATGAGTA
27409583 A
1 A
27409584 GACCATGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (28 bp):
ACCATGGCAACATGATATGAAATGAGTA
Found at i:27409617 original size:46 final size:46
Alignment explanation
Indices: 27409555--27409787 Score: 315
Period size: 46 Copynumber: 5.0 Consensus size: 46
27409545 GAAATGTGTA
*
27409555 ACCATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
* * * *
27409601 ACCATGGCAACGTGATATTAAATGAATAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
* *
27409647 ACCATGGAAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
* ** *
27409693 ACCATGGCAACATGGCGGGAAAATGAATAAGACCATGGTTGAAAGAT
1 ACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGAT
* * *
27409740 ACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGAT
1 ACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGAT
27409786 AC
1 AC
27409788 TATGACATCA
Statistics
Matches: 166, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 125 0.75
47 41 0.25
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGAT
Found at i:27409707 original size:24 final size:24
Alignment explanation
Indices: 27409679--27409753 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
27409669 TGAGTAAGAC
27409679 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
** * *
27409703 CATGGCGGGAAA-ATGA--ATAAG-AC
1 CATGG-TTGAAAGAT-ACCAT-GGCAA
27409726 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
27409750 CATG
1 CATG
27409754 ACAGAAAACG
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 11 0.31
24 15 0.42
25 5 0.14
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:27409734 original size:213 final size:213
Alignment explanation
Indices: 27409356--27409754 Score: 708
Period size: 213 Copynumber: 1.9 Consensus size: 213
27409346 GTGCTCTCTA
* * * **
27409356 ATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAATGTGTAAGACC
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACC
* *
27409421 ATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATG
66 ATGGTTGAAAGATACCATGGAAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATG
*
27409486 GCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGTCAACATGATATGAAATG
131 GCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATG
27409551 TGTAACCATGGCAACATG
196 TGTAACCATGGCAACATG
*
27409569 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATTAAATGAATAAGACC
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACC
27409634 ATGGTTGAAAGATACCATGGAAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATG
66 ATGGTTGAAAGATACCATGGAAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATG
*
27409699 GCAACATGGCGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
131 GCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
27409755 CAGAAAACGA
Statistics
Matches: 176, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
213 176 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (213 bp):
ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACC
ATGGTTGAAAGATACCATGGAAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATG
GCAACATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATG
TGTAACCATGGCAACATG
Found at i:27409767 original size:93 final size:92
Alignment explanation
Indices: 27409555--27409787 Score: 333
Period size: 93 Copynumber: 2.5 Consensus size: 92
27409545 GAAATGTGTA
* * * **
27409555 ACCATGGCAACATGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATT
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGA
27409620 AAATGAATAAGACCATGGTTGAAAGAT
66 AAATGAATAAGACCATGGTTGAAAGAT
* * * *
27409647 ACCATGGAAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGGCGGG
1 ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAT-GAGAG
27409712 AAAATGAATAAGACCATGGTTGAAAGAT
65 AAAATGAATAAGACCATGGTTGAAAGAT
* * *
27409740 ACCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 ACCATGGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGATAC
27409788 TATGACATCA
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
92 56 0.45
93 69 0.55
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (92 bp):
ACCATGGCAACATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGA
AAATGAATAAGACCATGGTTGAAAGAT
Found at i:27411783 original size:14 final size:15
Alignment explanation
Indices: 27411754--27411783 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27411744 AATTTTTTGA
27411754 TTAATTATGTTTTTT
1 TTAATTATGTTTTTT
27411769 TTAATTATGTTTTTT
1 TTAATTATGTTTTTT
27411784 CTTACTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
TTAATTATGTTTTTT
Found at i:27412101 original size:44 final size:44
Alignment explanation
Indices: 27412052--27412138 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
27412042 GAAAATGAGG
27412052 GGAAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTT
1 GGAAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTT
*
27412096 GGAAAGAGTAAAAAAATCAACTTTGAGGCTAATGAACAATTCT
1 GGAAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCT
27412139 CTCACACCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (44 bp):
GGAAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTT
Found at i:27413097 original size:5 final size:5
Alignment explanation
Indices: 27413087--27413141 Score: 74
Period size: 5 Copynumber: 10.8 Consensus size: 5
27413077 GATCGAATCT
* * *
27413087 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTTG TTTTG TTTTA TTTTG
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA
27413138 TTTT
1 TTTT
27413142 TCAGGTACTC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
5 42 0.91
6 4 0.09
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:27420872 original size:52 final size:50
Alignment explanation
Indices: 27420663--27420875 Score: 170
Period size: 52 Copynumber: 4.3 Consensus size: 50
27420653 TTGCACATAG
* *
27420663 TCACATATCACA--CACCGAAGCCATAGCCCTGCCATGGTCTTACACGGA
1 TCACATATCACATTCACCGAAGCCATAGCCCAGCTATGGTCTTACACGGA
* * * * * *
27420711 TCACATAT-A-A-T-ACCGAGGCCATATCCCAGATATGGTTTTATACAGAA
1 TCACATATCACATTCACCGAAGCCATAGCCCAGCTATGGTCTTACAC-GGA
* * **
27420758 TCACATTATCACATCACACCGACA-CCATAGCCCAACTATGGTCTTATTCGGGA
1 TCACA-TATCACAT-TCACCGA-AGCCATAGCCCAGCTATGGTCTTACAC-GGA
* * * *
27420811 ACACGTATCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTACACGGG
1 TCACATATCACATT-CACCGAAGCCATAGCCCAGCTATGGTCTTACACGGA
27420862 TGCACATATCACAT
1 T-CACATATCACAT
27420876 CTTTTTTGTC
Statistics
Matches: 126, Mismatches: 27, Indels: 20
0.73 0.16 0.12
Matches are distributed among these distances:
46 26 0.21
47 8 0.06
48 11 0.09
49 1 0.01
50 1 0.01
51 2 0.02
52 47 0.37
53 30 0.24
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (50 bp):
TCACATATCACATTCACCGAAGCCATAGCCCAGCTATGGTCTTACACGGA
Found at i:27423900 original size:17 final size:18
Alignment explanation
Indices: 27423878--27423913 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27423868 TTATTTTCAT
27423878 TTTGAA-TTTAATTATAA
1 TTTGAAGTTTAATTATAA
*
27423895 TTTGAAGTTTCATTATAA
1 TTTGAAGTTTAATTATAA
27423913 T
1 T
27423914 ATTTTAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTGAAGTTTAATTATAA
Found at i:27428568 original size:21 final size:21
Alignment explanation
Indices: 27428542--27428582 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
27428532 AACTAATTAT
27428542 TATCAATAAACCAGTTTAAAG
1 TATCAATAAACCAGTTTAAAG
27428563 TATCAATAAACCAGTTTAAA
1 TATCAATAAACCAGTTTAAA
27428583 AGTACATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (21 bp):
TATCAATAAACCAGTTTAAAG
Found at i:27435693 original size:15 final size:16
Alignment explanation
Indices: 27435673--27435710 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27435663 AGGTAAAAAA
*
27435673 TTTATTT-TTTTATTT
1 TTTATTTCTTGTATTT
27435688 TTTATTTCTTGTATTT
1 TTTATTTCTTGTATTT
27435704 TTATATT
1 TT-TATT
27435711 ATACTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 9 0.45
17 4 0.20
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTATTTCTTGTATTT
Found at i:27437135 original size:72 final size:72
Alignment explanation
Indices: 27436904--27438179 Score: 435
Period size: 76 Copynumber: 16.8 Consensus size: 72
27436894 TGTGAACTGT
* * * *
27436904 GGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTGACAACAGAAATTGAAACTACCTCAGC
1 GGCTCAACTCA-TTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAAATACCTCAAC
*
27436968 GTGTCCTGA
64 GTGTCTTGA
27436977 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACG
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAACG
27437042 TGTCTTGA
65 TGTCTTGA
* * *
27437050 GGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAATGT
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGT
27437115 GTCTTGA
66 GTCTTGA
* * * * * **
27437122 GGCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATG
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTT-GAAAACAGAA-ATTG-AAA-ATACCT-
* ** *
27437187 GAAAATACCTCGGTGTGA
60 CAACGT--GTC--T-TGA
* * ** * *
27437205 CCTGAG-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAGAAA-TCAAAA
1 ---G-GCTC-AA-CTCATTTCTCGCAATATGAGTTGA----ATTTTG-AAAACAGAAATTGAAAA
** * * * * *
27437268 GGCTTAATTGAAAATACCTCGGCGTGT
55 ----TACCT---CA-ACGT-GTCTTGA
* * * * * * *
27437295 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTTAAAAGAAA
1 G-GCTCA-ACTC-A-T---TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA-TT--GA-AAA
* **
27437360 TACCTCGGAATGTGATC-CAA
55 TACCTC--AACGTG-TCTTGA
** * * * *
27437380 GGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATTTAAAAGAAATACCTCG
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA-TT--GA-AAATACCTCA
* * * **
27437445 GCATGACCCGA
62 ACGTGTCTTGA
** * *
27437456 GGCTCAACTCACCTCT-GTATTATGAGTTG-ATTTTGAAAAACAGAAATTGAAAAGAAATACCTC
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTG---A-AAATACCTC
* * **
27437519 GGCATGTGATC-CAA
61 --AACGTG-TCTTGA
** * *
27437533 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACGAAAATTTGAAAGAAATACTT
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-G-AAA-TTG--A-AAATACCT
** * * **
27437597 CGGCATGACCCGA
60 CAACGTGTCTTGA
** * * * * *
27437610 GGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACGAAAAATTAAAAGAAATACCTC
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAAC-AGAAATT--GA-AAATACCTC
** * * *
27437674 GGCATGACTCGA
61 AACGTGTCTTGA
** * * * *
27437686 GGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAA-ATGGAAATTTAAAAGAAATACCT
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA--GAAA-TT--GA-AAATACCT
** * * *
27437749 CGGCATGACCTGA
60 CAACGTGTCTTGA
** * * * * * *
27437762 GGCTCAACTCACCTCT-GTATTATGAGTTG-ATTTTAAAAAACATAAATTAAAAATACCTCAGCG
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT-GAAAACAGAAATTGAAAATACCTCAACG
* **
27437825 TGACCCGA
65 TGTCTTGA
* ** * * * * * * *
27437833 GGCCCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAATCATAAATTAAAAATACCTCAGCG
1 GGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAAATACCTCAACG
* **
27437897 TGACCCGA
65 TGTCTTGA
** * *
27437905 GGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAAC
1 GGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCTCAAC
27437970 GTGTCTTGA
64 GTGTCTTGA
* * * *
27437979 GGCTCAACTCATTTCTCGCAATATAAGTCGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGT
*
27438044 GTCCTGA
66 GTCTTGA
* *
27438051 GGCTCAACTCATTTCTCGCAATATGAGTT-AATTTTTTTTTAACAACAGAAATTGAAATTACCTC
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAA----TTTTGAA-AACAGAAATTGAAAATACCTC
* *
27438115 AGCGTGTCCTGA
61 AACGTGTCTTGA
** * *
27438127 GGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
27438180 GGCTTAACTC
Statistics
Matches: 987, Mismatches: 135, Indels: 164
0.77 0.10 0.13
Matches are distributed among these distances:
71 51 0.05
72 199 0.20
73 116 0.12
74 80 0.08
75 55 0.06
76 220 0.22
77 51 0.05
78 70 0.07
79 21 0.02
80 5 0.01
82 2 0.00
83 6 0.01
84 3 0.00
85 2 0.00
86 5 0.01
87 17 0.02
88 35 0.04
89 2 0.00
90 3 0.00
91 15 0.02
92 24 0.02
93 3 0.00
94 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (72 bp):
GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGT
GTCTTGA
Found at i:27437234 original size:88 final size:85
Alignment explanation
Indices: 27437085--27437663 Score: 349
Period size: 78 Copynumber: 7.1 Consensus size: 85
27437075 AGTTGAATTT
* ** * **
27437085 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
27437150 TGATTCTTTCAAAAACATAATAA
66 TGATT-TTTGAAAAACA-AA-AA
* *
27437173 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
27437238 TGATTTTTTTTTGAAAAACAGAAA
66 TGA----TTTTTGAAAAACAAAAA
* **
27437262 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
27437326 GAGTTGATTTTTG-AAAACAAAAA
62 GAGTTGATTTTTGAAAAACAAAAA
** * *
27437349 T----TTA-AAA--G-AAATACCTCGGAATGTGATCC-AAGGCTCAACTCACCTCTCACAATATG
1 TGAAAACAGAAATTGAAAATACCTCGG--TGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
*
27437405 AGTTGATTTTTG-AAAACAGAAA
63 AGTTGATTTTTGAAAAACAAAAA
** ** * * * *
27437427 T----TTA-AAA--G-AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
27437483 TGA-TTTTGAAAAACAGAAAT
66 TGATTTTTGAAAAACA-AAAA
*
27437503 TG-----A-AAA--G-AAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAACAGAAATTGAAAATACCTCGG--TGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
*
27437558 AGTTGATTTTTGAAAAACGAAAA
63 AGTTGATTTTTGAAAAACAAAAA
** * ** * * * *
27437581 T-----TTGAAA--G-AAATACTTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
27437637 TGATTTTTGAAAAACGAAAAA
66 TGATTTTTGAAAAAC-AAAAA
*
27437658 TTAAAA
1 TGAAAA
27437664 GAAATACCTC
Statistics
Matches: 413, Mismatches: 48, Indels: 66
0.78 0.09 0.13
Matches are distributed among these distances:
74 5 0.01
75 35 0.08
76 49 0.12
77 44 0.11
78 96 0.23
79 29 0.07
81 2 0.00
87 10 0.02
88 66 0.16
89 7 0.02
90 15 0.04
91 12 0.03
92 43 0.10
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (85 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAACAAAAA
Found at i:27437654 original size:76 final size:76
Alignment explanation
Indices: 27437300--27437960 Score: 787
Period size: 76 Copynumber: 8.7 Consensus size: 76
27437290 CGTGTGTCCT
* * *
27437300 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAAAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
* *
27437364 TCGGAATGTGATCC
65 TCGGCA--TGACCC
* ** *
27437378 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG-AAAACAGAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACC
27437442 TCGGCATGACCC
65 TCGGCATGACCC
*
27437454 GAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTGAAAAACAGAAATTGAAAAGAAATACCT
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
*
27437518 CGGCATGTGATCC
66 CGGCA--TGACCC
* * * *
27437531 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-GAAAATTTGAAAGAAATAC
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACAG-AAATTTAAAAGAAATAC
*
27437595 TTCGGCATGACCC
64 CTCGGCATGACCC
*
27437608 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAC-GAAAAATTAAAAGAAATACC
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAG-AAATTTAAAAGAAATACC
*
27437672 TCGGCATGACTC
65 TCGGCATGACCC
**
27437684 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAATGGAAATTTAAAAGAAATACCT
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
*
27437749 CGGCATGACCT
66 CGGCATGACCC
* *
27437760 GAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTAAAAAACATAAA-TT--AA-AAATACCT
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
* *
27437820 CAGCGTGACCC
66 CGGCATGACCC
* * *
27437831 GAGGCCCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAATCATAAA-TT--AA-AAATACC
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACC
* *
27437891 TCAGCGTGACCC
65 TCGGCATGACCC
* * * *
27437903 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG-AAAACAGAAATTGAAAA
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGA--TTTTTGAAAAACAGAAATTTAAAA
27437961 TACCTCAACG
Statistics
Matches: 523, Mismatches: 46, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
71 47 0.09
72 51 0.10
73 15 0.03
74 22 0.04
75 54 0.10
76 176 0.34
77 47 0.09
78 79 0.15
79 32 0.06
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (76 bp):
GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT
CGGCATGACCC
Found at i:27437699 original size:153 final size:151
Alignment explanation
Indices: 27437300--27437940 Score: 808
Period size: 153 Copynumber: 4.2 Consensus size: 151
27437290 CGTGTGTCCT
* *
27437300 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAAAAATTTAAAAGAAATACC
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACAAAAA-TTAAAAGAAATACC
* *
27437364 TCGGAATGTGATCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATT
64 TCGGCA-GTGATCCAAGGCTCAACTCACCTCT-GCAATATGAGTTGATTTTTGAAAACAGAAATT
27437429 TAAAAGAAATACCTCGGCATGACCC
127 TAAAAGAAATACCTCGGCATGACCC
*
27437454 GAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTGAAAAACAGAAATTGAAAAGAAATACCT
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAAAAATT-AAAAGAAATACCT
27437518 CGGCATGTGATCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACGAAAAT
65 CGGCA-GTGATCCAAGGCTCAACTCACCTCT-GCAATATGAGTTGATTTTTGAAAACA-G-AAAT
* *
27437582 TTGAAAGAAATACTTCGGCATGACCC
126 TTAAAAGAAATACCTCGGCATGACCC
27437608 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACGAAAAATTAAAAGAAATACCT
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAC-AAAAATTAAAAGAAATACCT
* * *
27437673 CGGCA-TGA-CTCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAA-ATGGAAATT
65 CGGCAGTGATC-CAAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTGAAAACA--GAAATT
*
27437735 TAAAAGAAATACCTCGGCATGACCT
127 TAAAAGAAATACCTCGGCATGACCC
* *
27437760 GAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTAAAAAACATAAATT--AA-AAATACCTC
1 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAAAAATTAAAAGAAATACCTC
* * * * * * * *
27437821 AGC-GTGACCCGAGGCCCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAATCATAAA-TT--
66 GGCAGTGATCCAAGGCTCAACTCACCTCTGCAATATGAGTTGA-TTTTTGAAAACAGAAATTTAA
* *
27437882 AA-AAATACCTCAGCGTGACCC
130 AAGAAATACCTCGGCATGACCC
* * *
27437903 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT
1 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTT
27437941 TTGAAAACAG
Statistics
Matches: 446, Mismatches: 27, Indels: 37
0.87 0.05 0.07
Matches are distributed among these distances:
143 34 0.08
144 13 0.03
145 4 0.01
146 2 0.00
147 49 0.11
148 12 0.03
149 1 0.00
150 6 0.01
151 10 0.02
152 91 0.20
153 111 0.25
154 78 0.17
155 29 0.07
156 6 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (151 bp):
GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACAAAAATTAAAAGAAATACCTC
GGCAGTGATCCAAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAA
AGAAATACCTCGGCATGACCC
Found at i:27437987 original size:146 final size:146
Alignment explanation
Indices: 27437300--27438180 Score: 788
Period size: 153 Copynumber: 5.9 Consensus size: 146
27437290 CGTGTGTCCT
*
27437300 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTTAAAAGAAATACCT
1 GAGGCTCAACTCACCTCT-GCAATATGAGTTGATTTTTGAAAACAGAAA-TT--AAGAAATACCT
* * *
27437365 CGGAATGTGATCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATTT
62 C--AACGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTT
27437430 AAAAGAAATACCTCGGCATGACCC
124 -AAAGAAATACCTCGGCATGACCC
* *
27437454 GAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTGAAAAACAGAAATTGAAAAGAAATACCT
1 GAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTG-AAAACAGAAATT---AAGAAATACCT
* * *
27437518 CGGCATGTGATCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ACGAAAAT
62 C--AACGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA-G-AAAT
*
27437582 TTGAAAGAAATACTTCGGCATGACCC
122 TT-AAAGAAATACCTCGGCATGACCC
* * *
27437608 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAACGAAAAATTAAAAGAAATACCT
1 GAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTG-AAAAC-AGAAATT--AAGAAATACCT
** * * * *
27437673 CGGCATGACTCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAA-ATGGAAATTT
62 CAACGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA--GAAATTT
*
27437736 AAAAGAAATACCTCGGCATGACCT
124 -AAAGAAATACCTCGGCATGACCC
* * ** * *
27437760 GAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTAAAAAACATAAATTAA-AAATACCTCAGC
1 GAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTGAAAACAGAAATTAAGAAATACCTCAAC
* * * * * *
27437824 GTGACCCGAGGCCCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAATCATAAA-TT-AA-A
66 GTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTTAAAGA
* *
27437885 AATACCTCAGCGTGACCC
129 AATACCTCGGCATGACCC
* *
27437903 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGA-AAATACCTC
1 GAGGCTCAACTCACCTCT-GCAATATGAGTTGA--TTTTTGAAAACAGAAATTAAGAAATACCTC
* ** * * *
27437967 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTCGAATTTTGAAAACAGAAA-TT---
63 AACGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAA
* * * *
27438028 GAAATTACCTCAGCGTGTCCT
127 GAAA-TACCTCGGCATGACCC
** * *
27438049 GAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTTTTTTAACAACAGAAATT--GAAATTAC
1 GAGGCTCAACTCACCTCT-GCAATATGAGTTGA---TTTTTGAA-AACAGAAATTAAGAAA-TAC
* * *
27438112 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT
60 CTCAACGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATT
*
27438176 AAAAG
123 TAAAG
27438181 GCTTAACTCA
Statistics
Matches: 631, Mismatches: 68, Indels: 58
0.83 0.09 0.08
Matches are distributed among these distances:
143 34 0.05
144 13 0.02
145 4 0.01
146 105 0.17
147 75 0.12
148 72 0.11
149 2 0.00
150 6 0.01
151 5 0.01
152 96 0.15
153 110 0.17
154 78 0.12
155 25 0.04
156 6 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (146 bp):
GAGGCTCAACTCACCTCTGCAATATGAGTTGATTTTTGAAAACAGAAATTAAGAAATACCTCAAC
GTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTTAAAGAAA
TACCTCGGCATGACCC
Found at i:27438109 original size:76 final size:74
Alignment explanation
Indices: 27437273--27438161 Score: 628
Period size: 76 Copynumber: 11.8 Consensus size: 74
27437263 CAAAAGGCTT
*
27437273 AATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 AATTGAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
27437336 TTGAAAACAAA
64 TTGAAAACAGA
* ** * *
27437347 AATTTAAAAGAAATACCTCGGAATGTGATCC-AAGGCTCAACTCACCTCTCACAATATGAGTTGA
1 AA-TT--GA-AAATACCTC--AGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
27437411 --TTTTTGAAAACAGA
59 TTTTTTTGAAAACAGA
* * * * * * *
27437425 AATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA---
1 AA-TT--GA-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
27437486 TTTTGAAAAACAGA
62 TTTTG-AAAACAGA
* *
27437500 AATTGAAAAGAAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AATTG---A-AAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
27437564 --TTTTTGAAAA-ACGAA
59 TTTTTTTGAAAACA-G-A
* * * * * * *
27437579 AATTTGAAAGAAATACTTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA--T
1 AA-TTG--A-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
27437641 TTTTGAAAAACGAAA
62 TTTTG-AAAAC-AGA
* * * * * *
27437656 AATTAAAAGAAATACCTCGGCATG-ACTCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA--T
1 AATT--GA-AAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
27437717 TTTTGAAAA-ATGGA
62 TTTTGAAAACA--GA
* * * * * *
27437731 AATTTAAAAGAAATACCTCGGCATGACCTGAGGCTCAACTCACCTCT-GTATTATGAGTTGA--T
1 AA-TT--GA-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
** *
27437793 TTTAAAAAACATA
62 TTTTGAAAACAGA
* * * * * *
27437806 AATTAAAAATACCTCAGCGTGACCCGAGGCCCAACTCACCTCT-GTATTATGAGTTGA-TTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
27437869 GAAATCATA
66 GAAAACAGA
* * * *
27437878 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
27437943 GAAAACAGA
66 GAAAACAGA
* * ** * * *
27437952 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTCGA--ATTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
27438015 GAAAACAGA
66 GAAAACAGA
* ** *
27438024 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
*
27438089 TTAACAACAGA
65 TGAA-AACAGA
* *
27438100 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
27438162 GAAAAACAAA
Statistics
Matches: 704, Mismatches: 72, Indels: 77
0.83 0.08 0.09
Matches are distributed among these distances:
71 47 0.07
72 120 0.17
73 12 0.02
74 74 0.11
75 60 0.09
76 217 0.31
77 50 0.07
78 94 0.13
79 27 0.04
80 3 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (74 bp):
AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAACAGA
Found at i:27438148 original size:148 final size:145
Alignment explanation
Indices: 27437273--27438179 Score: 597
Period size: 146 Copynumber: 6.1 Consensus size: 145
27437263 CAAAAGGCTT
* * * * * *
27437273 AATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 AATTAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTT
* * ** * *
27437336 TTGAAAACAAAAATTTAAAAGAAATACCTCGGAATGTGATCC-AAGGCTCAACTCACCTCTCACA
64 TTGAAAACAGAAA-TT--GA-AAATACCTC--AGCGTG-TCCTGAGGCTCAACTCACCTCT-GCA
*
27437400 ATATGAGTTGATTTTTGAAAACAGAA
121 ATATGAGTTGAATTTTGAAAACA-AA
* * * * * * *
27437426 ATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA---T
1 AATT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
* *
27437487 TTTGAAAAACAGAAATTGAAAAGAAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCG
63 TTTG-AAAACAGAAATTG---A-AAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCT-G
*
27437551 CAATATGAGTTGATTTTTGAAAAACGAAA
119 CAATATGAGTTGAATTTTG-AAAAC-AAA
* * * * * * * *
27437580 ATTTGAAAGAAATACTTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA--TT
1 AATT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
* * * * * * *
27437642 TTTGAAAAACGAAAAATTAAAAGAAATACCTCGGCATG-ACTCGAGGCTCAACTCACCTCTGTAT
63 TTTG-AAAAC-AGAAATT--GA-AAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTGCAA
*
27437706 TATGAGTTGATTTTTGAAAA-ATGGAA
122 TATGAGTTGAATTTTGAAAACA---AA
* * * * * * * *
27437732 ATTTAAAAGAAATACCTCGGCATGACCTGAGGCTCAACTCACCTCT-GTATTATGAGTTGA--TT
1 AATT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
** * * * * * * *
27437794 TTAAAAAACATAAATTAAAAATACCTCAGCGTGACCCGAGGCCCAACTCACCTCTGTATTATGAG
63 TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTGCAATATGAG
* * *
27437859 TTGATTTTTTGAAATCATA
128 TTGA-ATTTTGAAAACAAA
*
27437878 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT
1 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTTT
* * ** * *
27437943 GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTC
66 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT-GCAATATGAGTT
*
27438008 GAATTTTGAAAACAGA
130 GAATTTTGAAAACAAA
* * * * ** *
27438024 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTTTT
1 AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAA-TTTTTT
* *
27438089 TTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAG
65 TGAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT-GCAATATGAG
27438154 TTG-ATTTTGAAAAACAAA
128 TTGAATTTTG-AAAACAAA
27438172 AATTAAAA
1 AATTAAAA
27438180 GGCTTAACTC
Statistics
Matches: 645, Mismatches: 79, Indels: 65
0.82 0.10 0.08
Matches are distributed among these distances:
143 34 0.05
144 13 0.02
146 111 0.17
147 69 0.11
148 81 0.13
149 2 0.00
150 6 0.01
151 10 0.02
152 88 0.14
153 99 0.15
154 87 0.13
155 27 0.04
156 18 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (145 bp):
AATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTTT
GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTGCAATATGAGTTG
AATTTTGAAAACAAA
Found at i:27438399 original size:73 final size:72
Alignment explanation
Indices: 27438318--27438557 Score: 369
Period size: 73 Copynumber: 3.3 Consensus size: 72
27438308 TCAACCCACC
*
27438318 TCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCT
1 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCT
27438382 CAACTCATT
64 CAACTCATT
* * *
27438391 TCTCGCAATATGAGTTGAATTTTGAAAAGTAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTC
27438456 AACTCATT
65 AACTCATT
*
27438464 TCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAAT-GTGTCTTGAGGCTC
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC-ATCGTGTCTTGAGGCTC
*
27438528 AACTCATC
65 AACTCATT
27438536 TCTCGCAATATGAGTTG-ATTTT
1 TCTCGCAATATGAGTTGAATTTT
27438558 CCTTGGAAAG
Statistics
Matches: 155, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
71 5 0.03
72 57 0.37
73 90 0.58
74 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (72 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCA
ACTCATT
Found at i:27438399 original size:127 final size:123
Alignment explanation
Indices: 27438088--27438432 Score: 444
Period size: 124 Copynumber: 2.7 Consensus size: 123
27438078 TTAATTTTTT
27438088 TTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTTAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
* * *
27438153 GTTGATTTTGAAAAA-CAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAA
65 GTTGATTTTGAAAAAGTAGAAATTAAAAGGCTTAACCCACCTCTCGCAATATGAGTCAA
* * * * *
27438211 TTTAAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATG
1 TTTAAAAC--AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
* * *
27438276 AGCTGATTTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGTTGAT
64 AGTTGATTTTGAAAAAGTAGAAATTAAAAGGCTT-AACCCACCTCTCGCAATATGAG-TCAA
* ** *
27438337 TCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
1 T-TT-A-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
27438402 GAGTTGAATTTTG-AAAAGTAGAAATTGAAAA
63 GAGTTG-ATTTTGAAAAAGTAGAAATT-AAAA
27438433 TACCTCAACG
Statistics
Matches: 192, Mismatches: 20, Indels: 15
0.85 0.09 0.07
Matches are distributed among these distances:
122 3 0.02
123 5 0.03
124 67 0.35
125 33 0.17
126 3 0.02
127 66 0.34
128 11 0.06
129 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (123 bp):
TTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAG
TTGATTTTGAAAAAGTAGAAATTAAAAGGCTTAACCCACCTCTCGCAATATGAGTCAA
Found at i:27443051 original size:23 final size:22
Alignment explanation
Indices: 27443024--27443080 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
27443014 TATTATGAAC
*
27443024 TATAAAAATTCAAAAAATGAATA
1 TATAAAAATT-AAAAAATGAAAA
* *
27443047 TATAAAAAATGAAAAATGAAAA
1 TATAAAAATTAAAAAATGAAAA
*
27443069 TAAAAAAATTAA
1 TATAAAAATTAA
27443081 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (22 bp):
TATAAAAATTAAAAAATGAAAA
Found at i:27445361 original size:16 final size:16
Alignment explanation
Indices: 27445340--27445371 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27445330 CAAACAGAAA
27445340 AAATAGTAGTAAGTTT
1 AAATAGTAGTAAGTTT
27445356 AAATAGTAGTAAGTTT
1 AAATAGTAGTAAGTTT
27445372 GGTGTTTTAT
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:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AAATAGTAGTAAGTTT
Found at i:27445529 original size:13 final size:13
Alignment explanation
Indices: 27445500--27445536 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
27445490 GAAAATAATT
27445500 TAAAAATTATAAA
1 TAAAAATTATAAA
*
27445513 -AAAAATTGTAAA
1 TAAAAATTATAAA
27445525 TAAAAATTATAA
1 TAAAAATTATAA
27445537 TTTGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
TAAAAATTATAAA
Found at i:27446259 original size:20 final size:20
Alignment explanation
Indices: 27446234--27446274 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27446224 TTACTACAAT
27446234 TATTCACTACTAACCCTAAA
1 TATTCACTACTAACCCTAAA
27446254 TATTCACTACTAACCCTAAA
1 TATTCACTACTAACCCTAAA
27446274 T
1 T
27446275 CTAAATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (20 bp):
TATTCACTACTAACCCTAAA
Found at i:27448745 original size:53 final size:53
Alignment explanation
Indices: 27448664--27448812 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
27448654 GACGAAAAAT
* *
27448664 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
*
27448716 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* *
27448769 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGC
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGC
27448813 TTCTGTAACA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
51 4 0.04
52 11 0.12
53 74 0.83
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:27450249 original size:50 final size:50
Alignment explanation
Indices: 27450125--27450373 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
27450115 GATAATAACA
* * ** * *
27450125 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
27450176 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
27450226 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
27450276 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
27450331 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
27450374 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:27450303 original size:100 final size:104
Alignment explanation
Indices: 27450124--27450373 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
27450114 TGATAATAAC
**
27450124 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
27450189 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
27450226 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
27450289 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
27450331 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27450374 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:27450489 original size:13 final size:13
Alignment explanation
Indices: 27450468--27450499 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27450458 GCTTGGATCA
*
27450468 TCATCAAATAAAT
1 TCATAAAATAAAT
27450481 TCATAAAATAAAT
1 TCATAAAATAAAT
27450494 TCATAA
1 TCATAA
27450500 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:27450746 original size:30 final size:30
Alignment explanation
Indices: 27450711--27450768 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
27450701 CCTCGACTCT
* *
27450711 AACTTTTTCAAAATTATAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
27450741 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
27450769 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:27457838 original size:50 final size:50
Alignment explanation
Indices: 27457716--27457964 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
27457706 GATAATAACA
* * ** * *
27457716 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
27457767 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
27457817 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
27457867 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
27457922 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
27457965 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 19, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 94 0.55
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:27457894 original size:100 final size:104
Alignment explanation
Indices: 27457715--27457964 Score: 366
Period size: 100 Copynumber: 2.4 Consensus size: 104
27457705 TGATAATAAC
* **
27457715 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
27457780 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
*
27457817 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
27457880 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
27457922 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27457965 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.01
106 41 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:27458080 original size:13 final size:13
Alignment explanation
Indices: 27458059--27458090 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27458049 GCTTGGATCA
*
27458059 TCATCAAATAAAT
1 TCATAAAATAAAT
27458072 TCATAAAATAAAT
1 TCATAAAATAAAT
27458085 TCATAA
1 TCATAA
27458091 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:27458337 original size:30 final size:30
Alignment explanation
Indices: 27458303--27458360 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
27458293 CCTCGACTCT
**
27458303 AACTTTTTTAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
27458333 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
27458361 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:27461199 original size:16 final size:16
Alignment explanation
Indices: 27461178--27461224 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
27461168 AAGATTATTT
27461178 TTTATATTTTATGTTA
1 TTTATATTTTATGTTA
*
27461194 TTTATATATTTAT-ATA
1 TTTATAT-TTTATGTTA
*
27461210 TTATATAATTTATGT
1 TT-TATATTTTATGT
27461225 CATATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TTTATATTTTATGTTA
Found at i:27462894 original size:24 final size:25
Alignment explanation
Indices: 27462828--27462894 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 25
27462818 TTTTAAATAA
27462828 TTTAATTATATTCAAA-ATTTAATTTT
1 TTTAATT-TATT-AAATATTTAATTTT
*
27462854 TTAATATTTATCT-AATATTT-ATTTT
1 TTTA-ATTTAT-TAAATATTTAATTTT
27462879 TTTAATTTATTAAATA
1 TTTAATTTATTAAATA
27462895 CAGACTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
23 1 0.03
24 10 0.29
25 10 0.29
26 10 0.29
27 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTAATTTATTAAATATTTAATTTT
Found at i:27468502 original size:25 final size:25
Alignment explanation
Indices: 27468468--27468515 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
27468458 GTTTTGGAGG
*
27468468 TTTTACTTCAACAAACTCTTATAAAT
1 TTTTACTTCAACAAA-TATTATAAAT
*
27468494 TTTTA-TTCACCAAATATTATAA
1 TTTTACTTCAACAAATATTATAA
27468516 TTAGAGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 8 0.40
26 5 0.25
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTACTTCAACAAATATTATAAAT
Found at i:27473903 original size:54 final size:52
Alignment explanation
Indices: 27473696--27473903 Score: 197
Period size: 54 Copynumber: 3.9 Consensus size: 52
27473686 TACCATACCA
* * * * * *
27473696 ATGCCATATCCCAGATATGGTCTTACACGGAAGCACTTATCA-TTATTCTCC
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTGTTATCC
* * * *
27473747 GATGCCATAGCGCAGCTATGGTCTTATACGG-ATCACTTGTATCACAT-TAATCTG
1 -ATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATCACTTGTTATC-C
* * ** *
27473801 AAGCCATAACCCAGCTATGGTCTTATACGGAAATCACTTATCTTTTGTTTTCC
1 ATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCACTTGTTATCC
27473854 ATTGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTTGTT
1 A-TGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTTGTT
27473904 GCCATGGTCC
Statistics
Matches: 125, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
51 4 0.03
52 27 0.22
53 42 0.34
54 47 0.38
55 5 0.04
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTGTTATCC
Found at i:27476858 original size:5 final size:5
Alignment explanation
Indices: 27476848--27476900 Score: 97
Period size: 5 Copynumber: 10.4 Consensus size: 5
27476838 TTACGTTTTA
27476848 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATATAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT
27476899 AT
1 AT
27476901 AAACTAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 42 0.89
6 5 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:27478194 original size:15 final size:15
Alignment explanation
Indices: 27478174--27478230 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
27478164 CGATGAATTT
27478174 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
27478189 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
27478204 ATTGAATTTATATTG
1 ATTGAATTTATATTG
27478219 ATTGAA-TTATAT
1 ATTGAATTTATAT
27478231 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:27478656 original size:21 final size:21
Alignment explanation
Indices: 27478613--27478673 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
27478603 AGGCACTTTA
* *
27478613 TGTGTCGTATTTCAAGCATCTCG
1 TGTGTCGTA--TCAGGCACCTCG
27478636 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
27478657 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
27478674 TTTATGTGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 25 0.74
23 9 0.26
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:27478681 original size:21 final size:21
Alignment explanation
Indices: 27478603--27478685 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
27478593 TTTATCGATC
*
27478603 AGGCACTTTATGTGTCGTATTT
1 AGGCACTTCATGTGTCGT-TTT
* * * *
27478625 CAAGCA-TCTCGTGTGTCGTATC
1 -AGGCACT-TCATGTGTCGTTTT
* *
27478647 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTCATGTGTCGTTTT
*
27478668 AGGCACTTTATGTGTCGT
1 AGGCACTTCATGTGTCGT
27478686 ACTCTGATCA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 31 0.67
22 2 0.04
23 13 0.28
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (21 bp):
AGGCACTTCATGTGTCGTTTT
Found at i:27480158 original size:26 final size:26
Alignment explanation
Indices: 27480129--27480236 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27480119 TGGTACAAAT
27480129 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
27480155 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27480181 TGACAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27480207 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27480233 TGAT
1 TGAT
27480237 GGACATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27487223 original size:26 final size:26
Alignment explanation
Indices: 27487194--27487301 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27487184 TGGTACAAAT
27487194 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
27487220 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27487246 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27487272 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27487298 TGAT
1 TGAT
27487302 GGACATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27490325 original size:20 final size:20
Alignment explanation
Indices: 27490300--27490339 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27490290 AACGAGAGTA
27490300 AGCTTATATAAATTATTATT
1 AGCTTATATAAATTATTATT
27490320 AGCTTATATAAATTATTATT
1 AGCTTATATAAATTATTATT
27490340 TAAATAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
AGCTTATATAAATTATTATT
Found at i:27496396 original size:35 final size:34
Alignment explanation
Indices: 27496350--27496478 Score: 141
Period size: 35 Copynumber: 3.7 Consensus size: 34
27496340 TTTCCTCATT
* **
27496350 GAAATACCATACCTACATTTCACAACTTGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTAT-G
* **
27496385 GAAATGCCATACCTACGTTTCTTAACTCAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* *
27496419 GATAATACCATACCTACGTTTCACAACTCAATACG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
27496454 GTTAATATCATACCTACGTTTCACA
1 G-AAATACCATACCTACGTTTCACA
27496479 TCTTATCATG
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
34 3 0.04
35 76 0.96
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:27499704 original size:20 final size:21
Alignment explanation
Indices: 27499663--27499705 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
27499653 TAAAAATGAT
*
27499663 ATTAAATGTTTAATTGATTTA
1 ATTAAATGTTTAAATGATTTA
27499684 ATTAAA-GTTTAAAT-ATATTA
1 ATTAAATGTTTAAATGAT-TTA
27499704 AT
1 AT
27499706 ATCCGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
ATTAAATGTTTAAATGATTTA
Found at i:27500207 original size:29 final size:29
Alignment explanation
Indices: 27500143--27500214 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
27500133 AAATTCTTGA
*
27500143 AGGATTATTTAAATATTAAACTAAAAAAT
1 AGGATGATTTAAATATTAAACTAAAAAAT
* * *
27500172 -GGATGATTTAAATATTAACCTCAAAATT
1 AGGATGATTTAAATATTAAACTAAAAAAT
27500200 AGGATGATTTAAATA
1 AGGATGATTTAAATA
27500215 GAGTCAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 24 0.63
29 14 0.37
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.35
Consensus pattern (29 bp):
AGGATGATTTAAATATTAAACTAAAAAAT
Found at i:27500513 original size:19 final size:19
Alignment explanation
Indices: 27500489--27500543 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
27500479 AAATTCAAGG
27500489 AAATACATTAAAAATATAA
1 AAATACATTAAAAATATAA
*
27500508 AAATACTTTTAAAAAATATAA
1 AAATAC-ATT-AAAAATATAA
* *
27500529 TAATAAATTTAAAAA
1 AAATACA-TTAAAAA
27500544 ATAGTGGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.21
20 7 0.24
21 16 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATACATTAAAAATATAA
Found at i:27500522 original size:21 final size:21
Alignment explanation
Indices: 27500498--27500546 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
27500488 GAAATACATT
**
27500498 AAAAATATAAAAATACTTTTA
1 AAAAATATAAAAATAAATTTA
*
27500519 AAAAATATAATAATAAATTTA
1 AAAAATATAAAAATAAATTTA
27500540 AAAAATA
1 AAAAATA
27500547 GTGGTGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAATATAAAAATAAATTTA
Found at i:27501037 original size:29 final size:29
Alignment explanation
Indices: 27500974--27501038 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
27500964 GTAATTATAA
* *
27500974 ACATAAAATTTTAATTATAGTTTAAATAT
1 ACATAAAAATTTAATTATAATTTAAATAT
* * *
27501003 ATATAAAAATTTAATTATAATTTAATTGT
1 ACATAAAAATTTAATTATAATTTAAATAT
27501032 ACATAAA
1 ACATAAA
27501039 TAAATATGTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
ACATAAAAATTTAATTATAATTTAAATAT
Found at i:27508799 original size:75 final size:75
Alignment explanation
Indices: 27508717--27508870 Score: 308
Period size: 75 Copynumber: 2.1 Consensus size: 75
27508707 GACTGATAGT
27508717 ACATCGGACTAGACCCAAAAAGAATAGATCCTAAACCCGTTTATAAACTTATTCACTTGTAACGT
1 ACATCGGACTAGACCCAAAAAGAATAGATCCTAAACCCGTTTATAAACTTATTCACTTGTAACGT
27508782 TCAAAGTGTG
66 TCAAAGTGTG
27508792 ACATCGGACTAGACCCAAAAAGAATAGATCCTAAACCCGTTTATAAACTTATTCACTTGTAACGT
1 ACATCGGACTAGACCCAAAAAGAATAGATCCTAAACCCGTTTATAAACTTATTCACTTGTAACGT
27508857 TCAAAGTGTG
66 TCAAAGTGTG
27508867 ACAT
1 ACAT
27508871 ACCTTAATCA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (75 bp):
ACATCGGACTAGACCCAAAAAGAATAGATCCTAAACCCGTTTATAAACTTATTCACTTGTAACGT
TCAAAGTGTG
Found at i:27510779 original size:11 final size:11
Alignment explanation
Indices: 27510765--27510807 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
27510755 ATATAATTTA
27510765 AATATATTAAT
1 AATATATTAAT
*
27510776 AATATATAAAT
1 AATATATTAAT
27510787 -A-ATATTAAT
1 AATATATTAAT
*
27510796 AATATAATAAT
1 AATATATTAAT
27510807 A
1 A
27510808 TAAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATTAAT
Found at i:27510787 original size:8 final size:9
Alignment explanation
Indices: 27510757--27510811 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
27510747 ATTTCAATAT
*
27510757 ATAATTTAA
1 ATAATATAA
*
27510766 AT-ATATTA
1 ATAATATAA
27510774 ATAATATATAA
1 AT-A-ATATAA
*
27510785 ATAATATTA
1 ATAATATAA
27510794 ATAATAT-A
1 ATAATATAA
27510802 ATAATATAA
1 ATAATATAA
27510811 A
1 A
27510812 AAGAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 14 0.37
9 16 0.42
10 1 0.03
11 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAATATAA
Found at i:27510795 original size:17 final size:17
Alignment explanation
Indices: 27510768--27510808 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 17
27510758 TAATTTAAAT
27510768 ATATTAATAATATATAAATA
1 ATATTAAT-A-ATAT-AATA
27510788 ATATTAATAATATAATA
1 ATATTAATAATATAATA
27510805 ATAT
1 ATAT
27510809 AAAAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 1 0.05
20 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATTAATAATATAATA
Found at i:27510807 original size:20 final size:20
Alignment explanation
Indices: 27510763--27510801 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
27510753 ATATATAATT
27510763 TAAAT-ATATTAATAATATA
1 TAAATAATATTAATAATATA
27510782 TAAATAATATTAATAATATA
1 TAAATAATATTAATAATATA
27510802 ATAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATAATATTAATAATATA
Found at i:27520511 original size:3 final size:3
Alignment explanation
Indices: 27520465--27520499 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
27520455 AATAGGAAGA
* *
27520465 AAT AAT AAT AAT GAT AAT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27520500 ACTCAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:27530739 original size:18 final size:17
Alignment explanation
Indices: 27530716--27530770 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
27530706 AAAATTAATT
27530716 TATTTTTAATGTTTTTA
1 TATTTTTAATGTTTTTA
* *
27530733 GTATTTTTGATGTATTATA
1 -TATTTTTAATGT-TTTTA
*
27530752 TTTTTTTAAT-TTTTTA
1 TATTTTTAATGTTTTTA
27530768 TAT
1 TAT
27530771 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 6 0.20
17 1 0.03
18 19 0.63
19 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (17 bp):
TATTTTTAATGTTTTTA
Found at i:27531708 original size:48 final size:48
Alignment explanation
Indices: 27531637--27531734 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
27531627 TTTTGGATTA
27531637 GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
1 GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
27531685 GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
1 GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
27531733 GT
1 GT
27531735 CTCGATCCCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (48 bp):
GTTCATATTTATCATATAAATAAATTTTGTGTCTTCATATTGTATTGT
Found at i:27534657 original size:15 final size:15
Alignment explanation
Indices: 27534637--27534691 Score: 56
Period size: 15 Copynumber: 3.3 Consensus size: 15
27534627 CCAAATACGC
27534637 CACCTACCTCCACTA
1 CACCTACCTCCACTA
*
27534652 CACCTATCCATCACATTCAA
1 CACCTA-CC-TC-CA--CTA
27534672 CACCTACCTCCACTA
1 CACCTACCTCCACTA
27534687 CACCT
1 CACCT
27534692 TTTCCATCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
15 13 0.39
16 2 0.06
17 4 0.12
18 4 0.12
19 2 0.06
20 8 0.24
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (15 bp):
CACCTACCTCCACTA
Found at i:27534677 original size:35 final size:36
Alignment explanation
Indices: 27534637--27534707 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
27534627 CCAAATACGC
27534637 CACCTACCTCCACTACACC-TATCCATCACATTCAA
1 CACCTACCTCCACTACACCTTATCCATCACATTCAA
* *
27534672 CACCTACCTCCACTACACCTTTTCCATCCCATTCAA
1 CACCTACCTCCACTACACCTTATCCATCACATTCAA
27534708 TGTCTCACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 19 0.58
36 14 0.42
ACGTcount: A:0.28, C:0.46, G:0.00, T:0.25
Consensus pattern (36 bp):
CACCTACCTCCACTACACCTTATCCATCACATTCAA
Found at i:27538022 original size:61 final size:60
Alignment explanation
Indices: 27537903--27538073 Score: 184
Period size: 61 Copynumber: 2.8 Consensus size: 60
27537893 ACATACCATT
* * *
27537903 CTTAACCTTAAAATCAAACTCTAAACCCCAAATCATTAAACCTTAAACTTTATTATCATC
1 CTTATCCTTAAAATCAAACTCTAAACCCCAAACCATTAAACCTTAAACCTTATTATCATC
* * *
27537963 TTTATCCTTAAAATCAATC-CTTAAACCCCTAAACCATTAAA-CTATAAACCTTCTTATCATC
1 CTTATCCTTAAAATCAAACTC-TAAACCCC-AAACCATTAAACCT-TAAACCTTATTATCATC
* * * * **
27538024 CTTATCCTCAAAATCAAACCCCAAACCTCAAATTTATTAAACCTTAAACC
1 CTTATCCTTAAAATCAAACTCTAAACCCCAAA-CCATTAAACCTTAAACC
27538074 CTCTTTATCA
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
59 1 0.01
60 29 0.32
61 59 0.64
62 3 0.03
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (60 bp):
CTTATCCTTAAAATCAAACTCTAAACCCCAAACCATTAAACCTTAAACCTTATTATCATC
Found at i:27541165 original size:16 final size:17
Alignment explanation
Indices: 27541134--27541166 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27541124 TTAAGATTCA
*
27541134 ATGATTTTGGGATTTAG
1 ATGATTTTGAGATTTAG
27541151 ATGATTTTGAG-TTTAG
1 ATGATTTTGAGATTTAG
27541167 GGATGGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (17 bp):
ATGATTTTGAGATTTAG
Found at i:27543699 original size:16 final size:15
Alignment explanation
Indices: 27543674--27543733 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
27543664 TAAAAATATA
27543674 TTTATAATTATTTTAT
1 TTTAT-ATTATTTTAT
*
27543690 TTTAATATTA-TTAAT
1 TTT-ATATTATTTTAT
27543705 TTTATA-TATTTTTAT
1 TTTATATTA-TTTTAT
*
27543720 TTT-TATAATTTTAT
1 TTTATATTATTTTAT
27543734 ATATAGCGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
13 2 0.05
14 11 0.30
15 15 0.41
16 7 0.19
17 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATATTATTTTAT
Found at i:27543731 original size:14 final size:14
Alignment explanation
Indices: 27543683--27543733 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
27543673 ATTTATAATT
*
27543683 ATTTTATTTTAAT-
1 ATTTTATTTTTATA
27543696 ATTATTAATTTTATATA
1 ATT-TT-ATTTT-TATA
*
27543713 TTTTTATTTTTATA
1 ATTTTATTTTTATA
27543727 ATTTTAT
1 ATTTTAT
27543734 ATATAGCGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 3 0.10
14 12 0.39
15 10 0.32
16 4 0.13
17 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTTTTATA
Found at i:27543804 original size:15 final size:16
Alignment explanation
Indices: 27543777--27543824 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
27543767 TCATAGTAGT
*
27543777 ATTATATATTTTATAA
1 ATTATAAATTTTATAA
**
27543793 ATT-TAAATTTTATGT
1 ATTATAAATTTTATAA
*
27543808 ATTATAAATTATATAA
1 ATTATAAATTTTATAA
27543824 A
1 A
27543825 ATAAAACATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTATAAATTTTATAA
Found at i:27544254 original size:2 final size:2
Alignment explanation
Indices: 27544209--27544237 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27544199 TATATTTAGA
27544209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27544238 CGTGTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27545459 original size:13 final size:14
Alignment explanation
Indices: 27545430--27545456 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27545420 TACATAACCA
27545430 ATTGGCCCTTTTTT
1 ATTGGCCCTTTTTT
27545444 ATTGGCCCTTTTT
1 ATTGGCCCTTTTT
27545457 ATTTTTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.15, T:0.56
Consensus pattern (14 bp):
ATTGGCCCTTTTTT
Found at i:27545787 original size:27 final size:27
Alignment explanation
Indices: 27545750--27545802 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
27545740 AGTGTGAAGA
*
27545750 AAACTTGTACTATTGACTCTACTATGG
1 AAACTTATACTATTGACTCTACTATGG
*
27545777 AAACTTATACTGTTGACTCTACTATG
1 AAACTTATACTATTGACTCTACTATG
27545803 AAGGTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (27 bp):
AAACTTATACTATTGACTCTACTATGG
Found at i:27546419 original size:9 final size:9
Alignment explanation
Indices: 27546403--27546445 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
27546393 GGTATTTTTC
27546403 GGTAATTCG
1 GGTAATTCG
*
27546412 GTTAATTCG
1 GGTAATTCG
27546421 GGTAATTCG
1 GGTAATTCG
27546430 GGTAATTCG
1 GGTAATTCG
27546439 GGTAATT
1 GGTAATT
27546446 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:27546623 original size:12 final size:12
Alignment explanation
Indices: 27546606--27546630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27546596 AGTAATTTCG
27546606 GGTCGGTTAACC
1 GGTCGGTTAACC
27546618 GGTCGGTTAACC
1 GGTCGGTTAACC
27546630 G
1 G
27546631 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:27578024 original size:176 final size:176
Alignment explanation
Indices: 27577816--27578185 Score: 395
Period size: 181 Copynumber: 2.1 Consensus size: 176
27577806 AATTCTGAAC
** * * *
27577816 AAAGAAGCTAAACTGAAAGACTAGTGGAAAGCAAGATTTAACCTAGTACAACAC-GATCACAAGA
1 AAAGAAGCTAAACCAAAAAACTAATGGAAAGCAAGATTCAACCTAGTACAACACAGATCACAAG-
* * * * * * * * ** ***
27577880 TTGTTTCCGGGACAAAGTTCTGGAGTTTGATTTGTGTATAAATGAAGACCTATTTTTGTATGTAG
65 TTGTTTCAGGCACAAAGTTCGGGAGTTCGAATTGGGTATAAATCAAGACCTATATACGTAACCAG
* * * * *
27577945 TCCAACACAACAACTA-CTATCACAATTAATCCATAG-TAATTCAGATG
130 TCAAACACAACAACAATC-ATCACAATTAAT-AATAGATAATTAAGAAG
* * * *
27577992 AAAGAAGCTAAACCAAAAAACTAATTGAAAGCAAGATTCAAGCTATTTCAACACATAGATGATCA
1 AAAGAAGCTAAACCAAAAAACTAATGGAAAGCAAGATTCAACCTAGTACAACAC----A-GATCA
27578057 CAAGTTGTTTCAGGCACAAAGTTCGGGAGTTCGAATTGGGTATAAATCAAGACCTATATACGTAA
61 CAAGTTGTTTCAGGCACAAAGTTCGGGAGTTCGAATTGGGTATAAATCAAGACCTATATACGTAA
*
27578122 CCAGTCAAACACAACAACAATCATCATAATTAATAATAGATAATTAAGAAG
126 CCAGTCAAACACAACAACAATCATCACAATTAATAATAGATAATTAAGAAG
27578173 AAAGAAGCTAAAC
1 AAAGAAGCTAAAC
27578186 AACAACTCAC
Statistics
Matches: 158, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
176 45 0.28
180 4 0.03
181 99 0.63
182 10 0.06
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (176 bp):
AAAGAAGCTAAACCAAAAAACTAATGGAAAGCAAGATTCAACCTAGTACAACACAGATCACAAGT
TGTTTCAGGCACAAAGTTCGGGAGTTCGAATTGGGTATAAATCAAGACCTATATACGTAACCAGT
CAAACACAACAACAATCATCACAATTAATAATAGATAATTAAGAAG
Found at i:27580090 original size:23 final size:23
Alignment explanation
Indices: 27580063--27580116 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
27580053 ATAATCATAA
* *
27580063 TTAAATTGTATATTTTTATCA-TT
1 TTAAATTG-ATATCTTTATAACTT
27580086 TTAAAGTTGATATCTTTATAACTT
1 TTAAA-TTGATATCTTTATAACTT
27580110 TTAAATT
1 TTAAATT
27580117 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (23 bp):
TTAAATTGATATCTTTATAACTT
Found at i:27585658 original size:53 final size:53
Alignment explanation
Indices: 27585577--27585727 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
27585567 CTTACACGGT
* * *
27585577 TCACATATCATACCGAAGACATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
27585632 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
27585685 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
27585728 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:27590022 original size:17 final size:17
Alignment explanation
Indices: 27590002--27590039 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
27589992 AAAATATTAA
*
27590002 AAAAGTAAATTAATTCT
1 AAAACTAAATTAATTCT
27590019 AAAACTAAATTAATTCT
1 AAAACTAAATTAATTCT
27590036 AAAA
1 AAAA
27590040 AAAGTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAACTAAATTAATTCT
Found at i:27595839 original size:23 final size:24
Alignment explanation
Indices: 27595790--27595852 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
27595780 ACAAAAAATA
*
27595790 AAATCT-ATTCTAAAAAGAAAAGGG
1 AAATCTAATT-TAAAAAGAAAAGAG
27595814 AAATCTAATTTAAAAAGAAAA-AG
1 AAATCTAATTTAAAAAGAAAAGAG
*
27595837 AAA-CATAATCTAAAAA
1 AAATC-TAATTTAAAAA
27595853 TATGGGAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 1 0.03
23 14 0.40
24 17 0.49
25 3 0.09
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (24 bp):
AAATCTAATTTAAAAAGAAAAGAG
Found at i:27596067 original size:21 final size:21
Alignment explanation
Indices: 27596041--27596082 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27596031 TTTTGATCTC
27596041 GGGGCTTGGTGTCGTGACTTT
1 GGGGCTTGGTGTCGTGACTTT
27596062 GGGGCTTGGTGTCGTGACTTT
1 GGGGCTTGGTGTCGTGACTTT
27596083 AATGACAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.14, G:0.43, T:0.38
Consensus pattern (21 bp):
GGGGCTTGGTGTCGTGACTTT
Found at i:27597193 original size:5 final size:5
Alignment explanation
Indices: 27597185--27597209 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27597175 TTTGTTAAAG
27597185 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
27597210 GTTACATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:27600555 original size:21 final size:21
Alignment explanation
Indices: 27600530--27600572 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27600520 CAAACAAATC
27600530 AAAATCTGAATAAATTGGAGA
1 AAAATCTGAATAAATTGGAGA
*
27600551 AAAATCTGAGTAAATTGGAGA
1 AAAATCTGAATAAATTGGAGA
27600572 A
1 A
27600573 TAATGATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (21 bp):
AAAATCTGAATAAATTGGAGA
Found at i:27601621 original size:15 final size:14
Alignment explanation
Indices: 27601591--27601639 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
27601581 ATTGTATTGG
*
27601591 TAAAAAAATATTTT
1 TAAAATAATATTTT
*
27601605 TAAAATAGATATATT
1 TAAAATA-ATATTTT
* *
27601620 TATAATATTATTTT
1 TAAAATAATATTTT
27601634 TAAAAT
1 TAAAAT
27601640 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TAAAATAATATTTT
Found at i:27603020 original size:15 final size:14
Alignment explanation
Indices: 27603000--27603033 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
27602990 TTATTTTTAA
27603000 TTATAATTAATATTT
1 TTATAA-TAATATTT
*
27603015 TTATAATGATATTT
1 TTATAATAATATTT
27603029 TTATA
1 TTATA
27603034 TCATCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TTATAATAATATTT
Found at i:27617000 original size:46 final size:44
Alignment explanation
Indices: 27616897--27617004 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
27616887 TATCTTTGAC
** * * *
27616897 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
27616941 ATGGACTTACATGGCTCAATCCTGTGTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
27616987 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
27617005 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:27624330 original size:46 final size:44
Alignment explanation
Indices: 27624227--27624334 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
27624217 TATCTTTGAC
** * * *
27624227 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
27624271 ATGGACTTACATGGCTCAATCCTGTGTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
27624317 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
27624335 TTTCTGTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:27630610 original size:38 final size:38
Alignment explanation
Indices: 27630559--27630637 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
27630549 GTTATGGTTA
27630559 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
1 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
*
27630597 TTAAAGATTGAGATAATTGACATAGTGCCACTATATCT
1 TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
27630635 TTA
1 TTA
27630638 TATGTTCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (38 bp):
TTAAAGATTGAGATAATTGACATAATGCCACTATATCT
Found at i:27637815 original size:46 final size:45
Alignment explanation
Indices: 27637753--27637843 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
27637743 CCCAACAAAC
* * * *
27637753 AAACATGATCAAGATCTGTGGTGTGTTCTATATTCAAGTGTAACAA
1 AAACATGATCAAGATCTG-GATATGCTCTATATTCAACTGTAACAA
* * *
27637799 AAACATTATCGAGATCTGGATATGCTCTTTATTCAACTGTAACAA
1 AAACATGATCAAGATCTGGATATGCTCTATATTCAACTGTAACAA
27637844 GGTAGGTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 22 0.58
46 16 0.42
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (45 bp):
AAACATGATCAAGATCTGGATATGCTCTATATTCAACTGTAACAA
Found at i:27642517 original size:21 final size:21
Alignment explanation
Indices: 27642493--27642534 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27642483 TTTGGAAACT
27642493 AATTTTATTAAAGAAATTATA
1 AATTTTATTAAAGAAATTATA
* * *
27642514 AATTTTTTTTAATAAATTATA
1 AATTTTATTAAAGAAATTATA
27642535 TTATTAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTTTATTAAAGAAATTATA
Found at i:27647352 original size:20 final size:20
Alignment explanation
Indices: 27647327--27647364 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27647317 GAATAGGGGC
27647327 ACATGCCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
27647347 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTGGCCTG
27647365 CCCGTGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.32, G:0.34, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:27655917 original size:392 final size:390
Alignment explanation
Indices: 27655193--27655980 Score: 1470
Period size: 392 Copynumber: 2.0 Consensus size: 390
27655183 TTCATTCATT
*
27655193 TCATTACCTCTTAAGGATTATACACTACATTTACATTCAAAATATAAAACATTTACAAGTGACAA
1 TCATTACCTCTTAAGGATTATACACCACATTTACATTCAAAATATAAAACATTTACAAGTGACAA
27655258 ACACTAAACCTAGTACATGCCACATTTCTAAAAGATAGATGCATCACCAAAATTGAGCTGAGGTC
66 ACACTAAACCTAGTACATGCCACATTTCTAAAAGATAGATGCATCACCAAAATTGAGCTGAGGTC
*
27655323 GGGATTGACTCGGATGCTTGACTGAACTTCAACTTTACCTAACCTGTGCACGGAAAACAACTGTA
131 GGGATTGACTCGGATGCTTGACTGAACTTCAACTTTACCTAACCTGCGCACGGAAAACAACTGTA
27655388 CACTGAGTATTGGAAATACTCAGTGGTATTATCATAATTCAAATTATAACAACAATAAAATATCA
196 CACTGAGTATTGGAAATACTCAGTGGTATTATCATAATTCAAATTATAACAACAATAAAATATCA
**
27655453 TAAACATACATGGATAATTAGCAAATCATACATACAAATCATATATATAAATTCATACCAAACTA
261 TAAACATACATAAATAATTAGCAAATCATACATACAAATCATATATATAAATTCATACCAAACTA
27655518 TCATATTTCCATTATATATCATTTCCAATGATAGATCCAATAAATCATCAATGAGATTTCAAATA
326 TCATATTTCCATTATAT-T-ATTTCCAATGATAGATCCAATAAATCATCAATGAGATTTCAAATA
27655583 AC
389 AC
* *
27655585 TCATTACCTCTTATGGATTATGCACCACATTTACATTCAAAATATAAAACATTTACAAGTGACAA
1 TCATTACCTCTTAAGGATTATACACCACATTTACATTCAAAATATAAAACATTTACAAGTGACAA
27655650 ACACTAAACCTAGTACATGCCACATTTCTAAAAGATAGATGCATCACCAAAATTGAGCTGAGGTC
66 ACACTAAACCTAGTACATGCCACATTTCTAAAAGATAGATGCATCACCAAAATTGAGCTGAGGTC
*
27655715 GGGATTGACTCGGATGCTTGACTGAACTTCAACTTTACCTAACCTGCGCACGGGAAACAA-TCGT
131 GGGATTGACTCGGATGCTTGACTGAACTTCAACTTTACCTAACCTGCGCACGGAAAACAACT-GT
*
27655779 ACGCTGAGTATTGGAAATACTCAGTGGTATTATCATAATTCAAATTATAACAACAATAAAATATC
195 ACACTGAGTATTGGAAATACTCAGTGGTATTATCATAATTCAAATTATAACAACAATAAAATATC
27655844 ATAAACATACATAAATAATTAGCAAATCATACATACAAATCATATATATAAATTCATACCAAACT
260 ATAAACATACATAAATAATTAGCAAATCATACATACAAATCATATATATAAATTCATACCAAACT
27655909 ATCATATTTCCATTATATTATTTCCAATGATAGATCCAATAAATCATCAATGAGATTTCAAATAA
325 ATCATATTTCCATTATATTATTTCCAATGATAGATCCAATAAATCATCAATGAGATTTCAAATAA
27655974 C
390 C
27655975 TCATTA
1 TCATTA
27655981 ACCTTTGATT
Statistics
Matches: 387, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
390 53 0.14
391 2 0.01
392 332 0.86
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (390 bp):
TCATTACCTCTTAAGGATTATACACCACATTTACATTCAAAATATAAAACATTTACAAGTGACAA
ACACTAAACCTAGTACATGCCACATTTCTAAAAGATAGATGCATCACCAAAATTGAGCTGAGGTC
GGGATTGACTCGGATGCTTGACTGAACTTCAACTTTACCTAACCTGCGCACGGAAAACAACTGTA
CACTGAGTATTGGAAATACTCAGTGGTATTATCATAATTCAAATTATAACAACAATAAAATATCA
TAAACATACATAAATAATTAGCAAATCATACATACAAATCATATATATAAATTCATACCAAACTA
TCATATTTCCATTATATTATTTCCAATGATAGATCCAATAAATCATCAATGAGATTTCAAATAAC
Found at i:27669282 original size:12 final size:12
Alignment explanation
Indices: 27669252--27669276 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27669242 AGAAAATGGC
27669252 TGATTTTTTCCT
1 TGATTTTTTCCT
27669264 TGATTTTTTCCT
1 TGATTTTTTCCT
27669276 T
1 T
27669277 TCTTTTCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (12 bp):
TGATTTTTTCCT
Found at i:27671585 original size:13 final size:13
Alignment explanation
Indices: 27671567--27671592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27671557 CCCTTCCACA
27671567 TTTGGGGCGGGCC
1 TTTGGGGCGGGCC
27671580 TTTGGGGCGGGCC
1 TTTGGGGCGGGCC
27671593 GGATAACCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.54, T:0.23
Consensus pattern (13 bp):
TTTGGGGCGGGCC
Found at i:27683234 original size:5 final size:5
Alignment explanation
Indices: 27683224--27683252 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
27683214 AATCTGTGTT
27683224 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
27683253 TTCACAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:27692053 original size:13 final size:13
Alignment explanation
Indices: 27692035--27692063 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27692025 CTTGTGAAAT
27692035 AATTTAAAATAAA
1 AATTTAAAATAAA
27692048 AATTTAAAATAAA
1 AATTTAAAATAAA
27692061 AAT
1 AAT
27692064 AAAATGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTTAAAATAAA
Found at i:27692632 original size:24 final size:26
Alignment explanation
Indices: 27692577--27692633 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
27692567 TATTTTAATA
27692577 TTTATTT-TTATGTTTTTAAATGTAT
1 TTTATTTATTATGTTTTTAAATGTAT
* * *
27692602 TTGATTTATTAT-TTTTTTAAT-TTT
1 TTTATTTATTATGTTTTTAAATGTAT
27692626 TTTATTTA
1 TTTATTTA
27692634 ATGAAATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.33
25 14 0.52
26 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (26 bp):
TTTATTTATTATGTTTTTAAATGTAT
Found at i:27695014 original size:24 final size:24
Alignment explanation
Indices: 27694983--27695048 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
27694973 GTAAGAAAGG
*
27694983 AGTG-GTAATTTTTGCATT-TTCTA
1 AGTGCGTAACTTTTGC-TTATTCTA
27695006 AGTGCGTAACTTTTGCTTATTCTA
1 AGTGCGTAACTTTTGCTTATTCTA
*
27695030 ACTGCGTAACTTTTGCTTA
1 AGTGCGTAACTTTTGCTTA
27695049 ATCCTAAGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
23 6 0.15
24 33 0.85
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (24 bp):
AGTGCGTAACTTTTGCTTATTCTA
Found at i:27698623 original size:43 final size:43
Alignment explanation
Indices: 27698562--27698647 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
27698552 GATGAGTTGG
27698562 GGTGTGTTTAATTTATTTTTTGTCTCACGCTATAATATTTAAT
1 GGTGTGTTTAATTTATTTTTTGTCTCACGCTATAATATTTAAT
*
27698605 GGTGTGTTTAATTTATTTTTTGTCTCACGCTATATTATTTAAT
1 GGTGTGTTTAATTTATTTTTTGTCTCACGCTATAATATTTAAT
27698648 CTCATCGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.22, C:0.09, G:0.14, T:0.55
Consensus pattern (43 bp):
GGTGTGTTTAATTTATTTTTTGTCTCACGCTATAATATTTAAT
Found at i:27701948 original size:14 final size:14
Alignment explanation
Indices: 27701931--27701962 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27701921 AATTTAAAGA
27701931 AAAATGAATATTGT
1 AAAATGAATATTGT
*
27701945 AAAATGAATGTTGT
1 AAAATGAATATTGT
27701959 AAAA
1 AAAA
27701963 ATCATGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (14 bp):
AAAATGAATATTGT
Found at i:27704486 original size:21 final size:21
Alignment explanation
Indices: 27704460--27704502 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27704450 AAAATTTTGT
** *
27704460 AAATTTTTTTATTTTTTATTA
1 AAATTTTTAAATTTTTAATTA
27704481 AAATTTTTAAATTTTTAATTA
1 AAATTTTTAAATTTTTAATTA
27704502 A
1 A
27704503 GTCCCCTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
AAATTTTTAAATTTTTAATTA
Found at i:27708086 original size:21 final size:21
Alignment explanation
Indices: 27708062--27708101 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27708052 CTATGTGGCT
*
27708062 AAGGGACACGACCGTGTGACC
1 AAGGGAAACGACCGTGTGACC
* *
27708083 AAGGTAAACGCCCGTGTGA
1 AAGGGAAACGACCGTGTGA
27708102 AAATAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.25, G:0.33, T:0.12
Consensus pattern (21 bp):
AAGGGAAACGACCGTGTGACC
Done.