Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
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: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 16
Found at i:3284709 original size:20 final size:20
Alignment explanation
Indices: 3284684--3284742 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
3284674 TTCATACATG
3284684 TATTTGCATTTACATTTGCA
1 TATTTGCATTTACATTTGCA
** *
3284704 TATTTGTGTTTTCATTTTGCA
1 TATTTGCATTTACA-TTTGCA
* * *
3284725 TTTTTGCTTTTATATTTG
1 TATTTGCATTTACATTTG
3284743 TCGTCATATT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.61
Consensus pattern (20 bp):
TATTTGCATTTACATTTGCA
Found at i:3287309 original size:7 final size:7
Alignment explanation
Indices: 3287299--3287359 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
3287289 TGAAAAATGA
3287299 AAAAGAG
1 AAAAGAG
3287306 AAAA-A-
1 AAAAGAG
3287311 AAAA-A-
1 AAAAGAG
3287316 AAAA-A-
1 AAAAGAG
3287321 AAAAGA-
1 AAAAGAG
3287327 AGAAAGAG
1 A-AAAGAG
3287335 AAAAGAG
1 AAAAGAG
3287342 AAAAGAG
1 AAAAGAG
3287349 AAAAGAG
1 AAAAGAG
3287356 AAAA
1 AAAA
3287360 CAATTTTTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
5 14 0.27
6 3 0.06
7 33 0.65
8 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:3287309 original size:14 final size:14
Alignment explanation
Indices: 3287290--3287359 Score: 70
Period size: 14 Copynumber: 4.8 Consensus size: 14
3287280 AAAACAAAAT
3287290 GAAAAATGAAAAAGA
1 GAAAAA-GAAAAAGA
* *
3287305 GAAAAAAAAAAAAA
1 GAAAAAGAAAAAGA
*
3287319 AAAAAAGAAGAAAGA
1 GAAAAAGAA-AAAGA
3287334 G-AAAAGAGAAAAGA
1 GAAAAAGA-AAAAGA
3287348 GAAAAGAGAAAA
1 GAAAA-AGAAAA
3287360 CAATTTTTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 25 0.56
15 17 0.38
16 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (14 bp):
GAAAAAGAAAAAGA
Found at i:3287339 original size:36 final size:35
Alignment explanation
Indices: 3287274--3287345 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
3287264 CATTCATCAG
* * *
3287274 AAAATAAAAACAAAATGAAAAATGAAAAAGAGAAA
1 AAAAAAAAAAAAAAAAGAAAAATGAAAAAGAGAAA
3287309 AAAAAAAAAAAAAAAAGAAGAAA-GAGAAAAGAGAAA
1 AAAAAAAAAAAAAAAAGAA-AAATGA-AAAAGAGAAA
3287345 A
1 A
3287346 GAGAAAAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 18 0.56
36 14 0.44
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (35 bp):
AAAAAAAAAAAAAAAAGAAAAATGAAAAAGAGAAA
Found at i:3287345 original size:29 final size:28
Alignment explanation
Indices: 3287272--3287338 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 28
3287262 CTCATTCATC
*
3287272 AGAAAATAAAAACAAAATGAAAAATGAAAAAG
1 AGAAAA-AAAAA-AAAA--AAAAAAGAAAAAG
3287304 AGAAAAAAAAAAAAAAAAAAAGAAGAAAG
1 AGAAAAAAAAAAAAAAAAAAAGAA-AAAG
3287333 AGAAAA
1 AGAAAA
3287339 GAGAAAAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 8 0.24
29 10 0.30
30 4 0.12
31 5 0.15
32 6 0.18
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.04
Consensus pattern (28 bp):
AGAAAAAAAAAAAAAAAAAAAGAAAAAG
Found at i:3289933 original size:79 final size:75
Alignment explanation
Indices: 3289777--3289949 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 75
3289767 ATAAGAAATG
* *
3289777 AATGTTGGGGCATGCTTAAAACCCATTTCAATTAGAATCAAGAATGTTGATGCATTTTGAACGTT
1 AATGTTGGGGCATGCTAAAAACCCATTTCAATTAGAATCAAGAATGTTGATGCATTTTGAACGTC
*
3289842 TCTATCAACA
66 TATATCAACA
* *
3289852 AATGTTGGGGCGTGCTAAAAACCCATTTCAATTAGAAATCATCAGGAATGTTGATGTATTTTGAA
1 AATGTTGGGGCATGCTAAAAACCCATTTCAATTAG-AATCA--A-GAATGTTGATGCATTTTGAA
* *
3289917 CGTCTATATTAGCA
62 CGTCTATATCAACA
* * *
3289931 AATATTGAGACATGCTAAA
1 AATGTTGGGGCATGCTAAA
3289950 GGTCTATATC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
75 33 0.40
76 5 0.06
78 1 0.01
79 44 0.53
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (75 bp):
AATGTTGGGGCATGCTAAAAACCCATTTCAATTAGAATCAAGAATGTTGATGCATTTTGAACGTC
TATATCAACA
Found at i:3290902 original size:54 final size:54
Alignment explanation
Indices: 3290830--3290981 Score: 207
Period size: 54 Copynumber: 2.8 Consensus size: 54
3290820 ATCTGGGCAT
* *
3290830 AAACCACAAGAAAAGATGAATGTGTTATCACATGTTTTACGAACATCTGTG-TAG
1 AAACCACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAACATCTG-GATAG
* * * *
3290884 AAACCACAGGAAAGGATGAATGTATTGTCAAATGTTTTACGAACCTCTGGATAG
1 AAACCACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGATAG
* * *
3290938 AAACCACATGAGACGATGAATGTGTTGTCAAATGTTTTACGAAC
1 AAACCACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
3290982 TAGTTATTCT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 86 0.99
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (54 bp):
AAACCACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGATAG
Found at i:3291376 original size:22 final size:22
Alignment explanation
Indices: 3291348--3291448 Score: 148
Period size: 22 Copynumber: 4.6 Consensus size: 22
3291338 ACATCTACAT
3291348 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
3291370 TCTTCAAAGATGATAGATTTTC
1 TCTTCAAAGATGATAGATTCTC
* *
3291392 TCTTCAAAAATGATAGATTTTC
1 TCTTCAAAGATGATAGATTCTC
* *
3291414 TCTTCGAATATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
3291436 TTTTCAAAGATGA
1 TCTTCAAAGATGA
3291449 AAGCTTTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:3292230 original size:74 final size:74
Alignment explanation
Indices: 3292109--3292277 Score: 284
Period size: 74 Copynumber: 2.3 Consensus size: 74
3292099 CCCAACTCCA
* * * *
3292109 TAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATATTTAAAGCCTCTG
1 TAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTCAAAGCCTCTG
3292174 GGTCATCTG
66 GGTCATCTG
* *
3292183 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTCAAAGCCTTTG
1 TAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTCAAAGCCTCTG
3292248 GGTCATCTG
66 GGTCATCTG
3292257 TAAGACCTACAGTGCAAGATG
1 TAAGACCTACAGTGCAAGATG
3292278 ATAAGACCTC
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 89 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (74 bp):
TAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTCAAAGCCTCTG
GGTCATCTG
Found at i:3292387 original size:116 final size:116
Alignment explanation
Indices: 3292183--3292443 Score: 425
Period size: 116 Copynumber: 2.3 Consensus size: 116
3292173 GGGTCATCTG
* *
3292183 TAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTCAAAGCCTTTG
1 TAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTCAAAGCCTCTG
* *
3292248 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGTCCATCCA
66 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGAACTCAGGGCCATCCA
* * *
3292299 TAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTATATTCAAAGCCTCTG
1 TAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTCAAAGCCTCTG
* *
3292364 GGTCATCTGTAAGACCTACAGTGCAATATGATAATAACTCAGGGCCATCCA
66 GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGAACTCAGGGCCATCCA
*
3292415 TAAGACCTACAGTGCAGGATGTTTT-AAAA
1 TAAGACCTACAGTGCAAGATGTTTTCAAAA
3292444 TGAGATTTTA
Statistics
Matches: 134, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
115 4 0.03
116 130 0.97
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (116 bp):
TAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGGGAACTTTTTGATATTCAAAGCCTCTG
GGTCATCTGTAAGACCTACAGTGCAAGATGATAAGAACTCAGGGCCATCCA
Found at i:3292696 original size:3 final size:3
Alignment explanation
Indices: 3292688--3292770 Score: 141
Period size: 3 Copynumber: 28.0 Consensus size: 3
3292678 CACTAATTTT
**
3292688 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA AAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3292736 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3292771 AAATAATTAC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3293907 original size:45 final size:45
Alignment explanation
Indices: 3293811--3293910 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
3293801 TTACATTGCA
* * * * * **
3293811 ATTTTATTTTATTTATATATATATATTTAATTTAGTAATTTTATT
1 ATTTTATTTTAGTCATATAAATATATTTAATTAAATAATAATATT
3293856 ATTTTATTTTAGTCATATAAATATATTTAATTAAATAATAATATT
1 ATTTTATTTTAGTCATATAAATATATTTAATTAAATAATAATATT
3293901 -TATTTATTTT
1 AT-TTTATTTT
3293911 TAAATATTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (45 bp):
ATTTTATTTTAGTCATATAAATATATTTAATTAAATAATAATATT
Found at i:3294054 original size:20 final size:20
Alignment explanation
Indices: 3294011--3294062 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
3294001 AAATATATAG
*
3294011 TTATTTTAGTTTTATTCAAA
1 TTATTTTATTTTTATTCAAA
* **
3294031 TTATTTTATTTTTCTTCATT
1 TTATTTTATTTTTATTCAAA
3294051 TTATATTTATTT
1 TTAT-TTTATTT
3294063 AAGTTTAGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTTTATTTTTATTCAAA
Found at i:3294157 original size:35 final size:36
Alignment explanation
Indices: 3294109--3294176 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 36
3294099 ATGAAAGATT
*
3294109 AATAAGTATTATTTAATTAATTTCAAAAATTAATTA
1 AATAAGTAATATTTAATTAATTTCAAAAATTAATTA
* * * *
3294145 AATAA-TAATATTTATTTATTTTTAAATATTAA
1 AATAAGTAATATTTAATTAATTTCAAAAATTAA
3294177 GAAAGGGCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 22 0.81
36 5 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (36 bp):
AATAAGTAATATTTAATTAATTTCAAAAATTAATTA
Found at i:3298110 original size:20 final size:20
Alignment explanation
Indices: 3298085--3298124 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3298075 TGTCTCTTCG
3298085 TGGAAGAATGTGCTTAGATT
1 TGGAAGAATGTGCTTAGATT
3298105 TGGAAGAATGTGCTTAGATT
1 TGGAAGAATGTGCTTAGATT
3298125 GGAGTTGGAA
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:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (20 bp):
TGGAAGAATGTGCTTAGATT
Found at i:3306819 original size:10 final size:10
Alignment explanation
Indices: 3306804--3306828 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3306794 AATATAAAAA
3306804 ATATTGTATG
1 ATATTGTATG
3306814 ATATTGTATG
1 ATATTGTATG
3306824 ATATT
1 ATATT
3306829 ACTAGAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (10 bp):
ATATTGTATG
Found at i:3307314 original size:14 final size:14
Alignment explanation
Indices: 3307297--3307325 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3307287 TTGAACGAAT
3307297 ATAAATGAATATAA
1 ATAAATGAATATAA
3307311 ATAAATGAATATAA
1 ATAAATGAATATAA
3307325 A
1 A
3307326 CTAACAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
ATAAATGAATATAA
Found at i:3307893 original size:67 final size:67
Alignment explanation
Indices: 3307779--3307933 Score: 197
Period size: 67 Copynumber: 2.3 Consensus size: 67
3307769 TGTTTGACTT
* * * * * * *
3307779 GACTAGTTGTTTGTTAAACTCGTTAAAATTTTGTTCGACACATGCTCGTTAAGAAAATTTGTTGC
1 GACTAGTTGCTCGCTAAGCTCGCTAAAATTTTGTTCGACACATGCTCGTTAAGAAAAATTGTTAC
3307844 TC
66 TC
*
3307846 GACTCA-TTGCTCGCTAAGCTCGCTAAAATTTTGCTTC-ACTCATGCTCGTTAAGAAAAATTGTT
1 GACT-AGTTGCTCGCTAAGCTCGCTAAAATTTTG-TTCGACACATGCTCGTTAAGAAAAATTGTT
3307909 ACTC
64 ACTC
*
3307913 GACTAGTTGCTCGTTAAGCTC
1 GACTAGTTGCTCGCTAAGCTC
3307934 ATTGCTCGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
66 1 0.01
67 71 0.93
68 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (67 bp):
GACTAGTTGCTCGCTAAGCTCGCTAAAATTTTGTTCGACACATGCTCGTTAAGAAAAATTGTTAC
TC
Found at i:3311949 original size:14 final size:14
Alignment explanation
Indices: 3311930--3311960 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3311920 ATGTGACAAT
3311930 TAAAATATTTGGTA
1 TAAAATATTTGGTA
3311944 TAAAATATTTGGTA
1 TAAAATATTTGGTA
3311958 TAA
1 TAA
3311961 TTACACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TAAAATATTTGGTA
Found at i:3313020 original size:21 final size:21
Alignment explanation
Indices: 3312996--3313060 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 21
3312986 TTTCTCCTTT
3312996 ATGATTAGAGGGTTTTTTTTA
1 ATGATTAGAGGGTTTTTTTTA
3313017 ATGATTAGAGGGGTTTTTTTTAA
1 ATGATTAGA-GGGTTTTTTTT-A
* *
3313040 ATGATTAGAGGGATTCTTTTA
1 ATGATTAGAGGGTTTTTTTTA
3313061 CGTTTTAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.25
22 20 0.50
23 10 0.25
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.48
Consensus pattern (21 bp):
ATGATTAGAGGGTTTTTTTTA
Found at i:3313042 original size:23 final size:22
Alignment explanation
Indices: 3312996--3313051 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 22
3312986 TTTCTCCTTT
3312996 ATGATTAGA-GGGTTTTTTTTA
1 ATGATTAGAGGGGTTTTTTTTA
3313017 ATGATTAGAGGGGTTTTTTTTAA
1 ATGATTAGAGGGGTTTTTTTT-A
3313040 ATGATTAGAGGG
1 ATGATTAGAGGG
3313052 ATTCTTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 9 0.27
22 11 0.33
23 13 0.39
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.45
Consensus pattern (22 bp):
ATGATTAGAGGGGTTTTTTTTA
Found at i:3313059 original size:23 final size:21
Alignment explanation
Indices: 3312996--3313060 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 21
3312986 TTTCTCCTTT
*
3312996 ATGATTAGAGGGTTTTTTTTA
1 ATGATTAGAGGGTTTTTTTAA
3313017 ATGATTAGAGGGGTTTTTTTTAA
1 ATGATTAGA-GGG-TTTTTTTAA
*
3313040 ATGATTAGAGGGATTCTTTTA
1 ATGATTAGAGGG-TTTTTTTA
3313061 CGTTTTAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.23
22 13 0.33
23 17 0.44
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.48
Consensus pattern (21 bp):
ATGATTAGAGGGTTTTTTTAA
Found at i:3318923 original size:40 final size:40
Alignment explanation
Indices: 3318830--3318944 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
3318820 GGATCTGCTA
* * * *
3318830 CTAGGCCTGTTGGACTATTTGGGTCAAATCGGGTTCTGCG
1 CTAGGTCTGTTGGGCTGTTTGGGTCAAATCTGGTTCTGCG
*
3318870 CTAGGTCTGTTGGGCTGTTTGGGTCAAATCTGGTTCTGTG
1 CTAGGTCTGTTGGGCTGTTTGGGTCAAATCTGGTTCTGCG
* * * *
3318910 CTTGGTCTGTTGGGTTGTTTGGATCGAATCTGGTT
1 CTAGGTCTGTTGGGCTGTTTGGGTCAAATCTGGTT
3318945 GTAACATGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.11, C:0.16, G:0.34, T:0.39
Consensus pattern (40 bp):
CTAGGTCTGTTGGGCTGTTTGGGTCAAATCTGGTTCTGCG
Found at i:3319661 original size:3 final size:3
Alignment explanation
Indices: 3319648--3319700 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
3319638 ATTTTGTTAA
*
3319648 TAT TAAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3319694 TAT TAT T
1 TAT TAT T
3319701 TCTTTTACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3320592 original size:17 final size:18
Alignment explanation
Indices: 3320544--3320608 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
3320534 AAAAAGGCTG
*
3320544 AGGGAAAGGGTTTCAGCC
1 AGGGAAAGGGTTTTAGCC
3320562 AGGGAAAGGGTTTTAGCC
1 AGGGAAAGGGTTTTAGCC
*
3320580 AGGGAAA-GGTTTTAG-T
1 AGGGAAAGGGTTTTAGCC
*
3320596 TGGGAAAGGGTTT
1 AGGGAAAGGGTTT
3320609 CAGCTGAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.14
17 13 0.30
18 24 0.56
ACGTcount: A:0.28, C:0.08, G:0.40, T:0.25
Consensus pattern (18 bp):
AGGGAAAGGGTTTTAGCC
Found at i:3327220 original size:1 final size:1
Alignment explanation
Indices: 3327216--3327268 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
3327206 GAGAAAAAGG
* * * * * *
3327216 AAAAAAAGAAAAGAAAAAGAAAAAAGAAAAAAAAAAAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3327269 GAAAGAAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:3327220 original size:7 final size:7
Alignment explanation
Indices: 3327207--3327277 Score: 80
Period size: 7 Copynumber: 10.9 Consensus size: 7
3327197 ATAAAAAGAG
3327207 AGAAAAA
1 AGAAAAA
*
3327214 GGAAAAA
1 AGAAAAA
*
3327221 A-AGAAA
1 AGAAAAA
3327227 AG-AAAA
1 AGAAAAA
3327233 AGAAAAA
1 AGAAAAA
3327240 AG-AAAA
1 AGAAAAA
3327246 A-AAAAA
1 AGAAAAA
3327252 AGAAAAA
1 AGAAAAA
3327259 AGAAAAA
1 AGAAAAA
*
3327266 A-AAGAA
1 AGAAAAA
3327272 AGAAAA
1 AGAAAA
3327278 TAGATCAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 25 0.47
7 28 0.53
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:3327223 original size:19 final size:19
Alignment explanation
Indices: 3327207--3327277 Score: 78
Period size: 18 Copynumber: 3.8 Consensus size: 19
3327197 ATAAAAAGAG
3327207 AGAAAAAGGAAAAAAAGAAA
1 AGAAAAA-GAAAAAAAGAAA
3327227 AGAAAAAG-AAAAAAGAAA
1 AGAAAAAGAAAAAAAGAAA
*
3327245 A-AAAAAAAGAAAAAAG-AA
1 AGAAAAAGA-AAAAAAGAAA
3327263 A-AAAAAGAAAGAAAA
1 AGAAAAAGAAA-AAAA
3327278 TAGATCAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.15
18 24 0.52
19 8 0.17
20 7 0.15
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAAAAAAAGAAA
Found at i:3327233 original size:13 final size:13
Alignment explanation
Indices: 3327210--3327277 Score: 81
Period size: 13 Copynumber: 5.3 Consensus size: 13
3327200 AAAAGAGAGA
3327210 AAAAGGAAAAAAAG
1 AAAA-GAAAAAAAG
3327224 AAAAGAAAAAGAA-
1 AAAAGAAAAA-AAG
3327237 AAAAGAAAAAAA-
1 AAAAGAAAAAAAG
3327249 AAAAG-AAAAAAG
1 AAAAGAAAAAAAG
3327261 AAAA-AAAAGAAAG
1 AAAAGAAAA-AAAG
3327274 AAAA
1 AAAA
3327278 TAGATCAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.12
12 14 0.28
13 24 0.48
14 6 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:3327244 original size:26 final size:26
Alignment explanation
Indices: 3327207--3327266 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
3327197 ATAAAAAGAG
*
3327207 AGAAAAAGGAAAAAAAGAAAAG-AAAA
1 AGAAAAAAGAAAAAAA-AAAAGAAAAA
3327233 AGAAAAAAGAAAAAAAAAAAGAAAAA
1 AGAAAAAAGAAAAAAAAAAAGAAAAA
3327259 AGAAAAAA
1 AGAAAAAA
3327267 AAGAAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.16
26 27 0.84
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (26 bp):
AGAAAAAAGAAAAAAAAAAAGAAAAA
Found at i:3327260 original size:32 final size:30
Alignment explanation
Indices: 3327216--3327277 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 30
3327206 GAGAAAAAGG
3327216 AAAAAAAGAAAAGAAAAAGAAA-AAAGAAAA
1 AAAAAAAGAAAAGAAAAA-AAAGAAAGAAAA
3327246 AAAAAAAGAAAAAAGAAAAAAAAGAAAGAAAA
1 AAAAAAAG--AAAAGAAAAAAAAGAAAGAAAA
3327278 TAGATCAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 8 0.28
31 3 0.10
32 18 0.62
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (30 bp):
AAAAAAAGAAAAGAAAAAAAAGAAAGAAAA
Found at i:3329941 original size:259 final size:258
Alignment explanation
Indices: 3329267--3330222 Score: 1209
Period size: 258 Copynumber: 3.7 Consensus size: 258
3329257 GTTTTCATAA
* * *
3329267 AATTTGAAAAATGAGAAAGTGATTTTCAAAGTTTA-TCATTTAGTATTTTCAAAAAAATGAATTT
1 AATTTGAAAAATGAGAAAGTGATTTTCAAAG-TTACTCATTTAGTATTTT-TAGAAAATGAA-AT
* * * * *
3329331 TTTTGAAAAGTAAGAAAACGATTTCTAAAGTTCCTTACCTAGTAAAATATTTCCAAAATTTGTAA
63 TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAA
* * * *
3329396 GTCATAT-GGGCCATCAGTAATTCTTTTGAGCATGATGATTAAATCCTTTGGGTCATCTATCTAT
128 GTCAT-TCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTCAAT
* * * * * **
3329460 TTTTTGAGCAAGTTGATAAGTCCTTCGGGAAATCTATAAGACCTTCAGGCAAGATGCTTTC--AT
192 CTTTCGAGCAAGATGATAAGTCTTTC-GGACATCTATAAGACCTTTGGGCAAGATGCTTTCATAT
3329523 -AT
256 GAT
* * *
3329525 AATTTGAAAAATGATAAAGTGATTTTCAAAGTTTCTCATTTAG------TA-AAAATGGAATTTT
1 AATTTGAAAAATGAGAAAGTGATTTTCAAAGTTACTCATTTAGTATTTTTAGAAAATGAAATTTT
* * *
3329583 TTAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTA-CTAGTAAACTATTTCCAAAATTGGTAATTC
66 TGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTC
* * * * * * * *
3329647 CTTCGGGCCTTCAGTAAGTGTTTCAAGCTTGATGATTAAATCCTTCGGGTCATTTGTCAAACTTT
131 ATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTCAATCTTT
* * *
3329712 CGAGCAAGATAATAAGTCTTTCGAGACATCTATAAGACCTTTGGGAAAAATGCTTTCATATGAT
196 CGAGCAAGATGATAAGTCTTTCG-GACATCTATAAGACCTTTGGGCAAGATGCTTTCATATGAT
* * *
3329776 AATTTGAAAAATGAGAAGGCGATTTTCAAAGTAACTCATTTAGTATTTTTAGAAAATGAAATTTT
1 AATTTGAAAAATGAGAAAGTGATTTTCAAAGTTACTCATTTAGTATTTTTAGAAAATGAAATTTT
* *
3329841 TGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCTGGTAAACTATTTCCAAAATTGGTAAGTC
66 TGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTC
* * * *
3329906 CTTCGGACCATCAGTAAGTCTTTCGAGCATGATGATTAAATTCTTTGGGTCATCTGTCAGTCTTT
131 ATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTCAATCTTT
* * *
3329971 CGAGCAATATGATAAGTCTTTCGGGCATCTATAAGACATTTGGGCAAGATGCTTTCATATGAT
196 CGAGCAAGATGATAAGTCTTTCGGACATCTATAAGACCTTTGGGCAAGATGCTTTCATATGAT
* * * *
3330034 AATTTGAAAAATGAGAAGGTGATTTTCAAAGTTTCTCATTTAGTATTTCTAGAAAATGAAATTTA
1 AATTTGAAAAATGAGAAAGTGATTTTCAAAGTTACTCATTTAGTATTTTTAGAAAATGAAATTTT
* * *
3330099 TGAAAACTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGAAAGTT
66 TGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTC
* * * * ***
3330164 ATCCGGTCCATCAGTAAGTCTTTTGAGCATGATTATTAAATCCTTAAAGTCATCTGTCA
131 ATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTCA
3330223 GGCTCATTTG
Statistics
Matches: 603, Mismatches: 81, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
247 2 0.00
248 123 0.20
249 33 0.05
250 9 0.01
251 41 0.07
257 4 0.01
258 287 0.48
259 104 0.17
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (258 bp):
AATTTGAAAAATGAGAAAGTGATTTTCAAAGTTACTCATTTAGTATTTTTAGAAAATGAAATTTT
TGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTC
ATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTCAATCTTT
CGAGCAAGATGATAAGTCTTTCGGACATCTATAAGACCTTTGGGCAAGATGCTTTCATATGAT
Found at i:3330370 original size:3 final size:3
Alignment explanation
Indices: 3330357--3330391 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
3330347 ATTTTGTTAA
3330357 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3330392 TCTTTTACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3343299 original size:70 final size:71
Alignment explanation
Indices: 3343167--3343299 Score: 191
Period size: 70 Copynumber: 1.9 Consensus size: 71
3343157 TCATTCCTCC
* *
3343167 CATTATTTCATTACATTCTTTACATCATATTCTTTATATATTCTTTATTATTTAAATCTCCAAAT
1 CATTATTTCATTACATTCTTTACATCATATTCTTTATATATTCTTTATTATTCAAATATCCAAAT
3343232 TCTTCA
66 TCTTCA
* *
3343238 CATT-TTTCATTGCATTCTTTACATCATATTCTTT-TTTATTCTTTACTT-TTCAATATATCCAA
1 CATTATTTCATTACATTCTTTACATCATATTCTTTATATATTCTTTA-TTATTCAA-ATATCCAA
3343300 GTCAAAATTC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
69 14 0.25
70 38 0.68
71 4 0.07
ACGTcount: A:0.27, C:0.19, G:0.01, T:0.53
Consensus pattern (71 bp):
CATTATTTCATTACATTCTTTACATCATATTCTTTATATATTCTTTATTATTCAAATATCCAAAT
TCTTCA
Found at i:3347214 original size:5 final size:5
Alignment explanation
Indices: 3347204--3347259 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
3347194 CCTGAGAAGA
*
3347204 AAAAG AAAAG AAAAACG AAAA- AGAA- AAAAG AAAAG AAAAG AAAAAG
1 AAAAG AAAAG -AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG
*
3347250 AAAAT AAAAG
1 AAAAG AAAAG
3347260 GAAGGGTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
4 6 0.14
5 23 0.53
6 13 0.30
7 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:3347225 original size:7 final size:6
Alignment explanation
Indices: 3347200--3347253 Score: 69
Period size: 6 Copynumber: 9.2 Consensus size: 6
3347190 TACACCTGAG
3347200 AAGAAA AAG-AA AAGAAA AACGAAA AAGAAA AA-AGAA AAG-AA AAGAAA
1 AAGAAA AAGAAA AAGAAA AA-GAAA AAGAAA AAGA-AA AAGAAA AAGAAA
3347247 AAGAAA A
1 AAGAAA A
3347254 TAAAAGGAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
5 11 0.26
6 26 0.60
7 6 0.14
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:3368595 original size:23 final size:23
Alignment explanation
Indices: 3368566--3368693 Score: 79
Period size: 23 Copynumber: 5.5 Consensus size: 23
3368556 TAGTATTTTT
3368566 TATATATTATATATATATATATA
1 TATATATTATATATATATATATA
* *
3368589 TATATATTATACATATTATTTTATA
1 TATATATTATATATA-TA-TATATA
* *
3368614 TATAGTATT-TATAT-TTTAGTATG
1 TATA-TATTATATATATATA-TATA
* *
3368637 TATATATGTGTGTATA-ATAT-TA
1 TATATAT-TATATATATATATATA
* *
3368659 GTATAT-GTATATA-ATATTTATA
1 -TATATATTATATATATATATATA
3368681 TTATATATTATAT
1 -TATATATTATAT
3368694 TTAAAAAAGA
Statistics
Matches: 79, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
20 1 0.01
21 7 0.09
22 12 0.15
23 34 0.43
24 8 0.10
25 13 0.16
26 4 0.05
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (23 bp):
TATATATTATATATATATATATA
Found at i:3368640 original size:27 final size:27
Alignment explanation
Indices: 3368581--3368682 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 27
3368571 ATTATATATA
* *
3368581 TATATATATATA-TATTATACATATTA-
1 TATATATATATAGTATT-TATATTTTAG
*
3368607 T-TTTATATATAGTATTTATATTTTAG
1 TATATATATATAGTATTTATATTTTAG
* * * *
3368633 TATGTATATAT-GTGTGTATAATATTAG
1 TATATATATATAGTATTTAT-ATTTTAG
* *
3368660 TATATGTATATAATATTTATATT
1 TATATATATATAGTATTTATATT
3368683 ATATATTATA
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
25 16 0.28
26 12 0.21
27 25 0.43
28 5 0.09
ACGTcount: A:0.37, C:0.01, G:0.08, T:0.54
Consensus pattern (27 bp):
TATATATATATAGTATTTATATTTTAG
Found at i:3368706 original size:23 final size:22
Alignment explanation
Indices: 3368680--3368754 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 22
3368670 TAATATTTAT
3368680 ATTATATATTATATTTAAAAAA
1 ATTATATATTATATTTAAAAAA
3368702 GATTATATACATTAT-TTTAAAAAA
1 -ATTATAT--ATTATATTTAAAAAA
*
3368726 A-TATAGTA-TATATTTTAAAATAT
1 ATTATA-TATTATA-TTTAAAA-AA
3368749 ATTATA
1 ATTATA
3368755 ATATATGTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
20 3 0.07
21 1 0.02
22 11 0.25
23 11 0.25
24 13 0.30
25 5 0.11
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (22 bp):
ATTATATATTATATTTAAAAAA
Found at i:3368710 original size:2 final size:2
Alignment explanation
Indices: 3368566--3368693 Score: 69
Period size: 2 Copynumber: 67.5 Consensus size: 2
3368556 TAGTATTTTT
*
3368566 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA T- TA TA CA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
3368605 TA T- TT TA TA TA TA GTA TT TA TA T- TT TA GTA TG TA TA TA TG TG
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
3368647 TG TA TA -A TA T- TA GTA TA TG TA TA TA -A TA TT TA TA T- TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3368686 TA T- TA TA T
1 TA TA TA TA T
3368694 TTAAAAAAGA
Statistics
Matches: 99, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
1 10 0.10
2 83 0.84
3 6 0.06
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (2 bp):
TA
Found at i:3368735 original size:25 final size:26
Alignment explanation
Indices: 3368677--3368735 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
3368667 ATATAATATT
*
3368677 TATATTATATATTATATTTAAAAAAGA
1 TATA-TATACATTATATTTAAAAAAGA
3368704 T-TATATACATTAT-TTTAAAAAA-A
1 TATATATACATTATATTTAAAAAAGA
3368727 TATAGTATA
1 TATA-TATA
3368736 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 11 0.38
25 13 0.45
26 2 0.07
27 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (26 bp):
TATATATACATTATATTTAAAAAAGA
Found at i:3368758 original size:22 final size:24
Alignment explanation
Indices: 3368682--3368760 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 24
3368672 ATATTTATAT
* *
3368682 TATATATTATATTTAAAAAAGATTA
1 TATATATTAT-TTTAAAATATATTA
* *
3368707 TATACATTATTTTAAAA-A-AATA
1 TATATATTATTTTAAAATATATTA
3368729 TAGTATA-TATTTTAAAATATATTA
1 TA-TATATTATTTTAAAATATATTA
3368753 TAATATAT
1 T-ATATAT
3368761 GTTTTGGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
22 15 0.33
23 5 0.11
24 15 0.33
25 10 0.22
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.46
Consensus pattern (24 bp):
TATATATTATTTTAAAATATATTA
Found at i:3368792 original size:2 final size:2
Alignment explanation
Indices: 3368787--3368833 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
3368777 TAGGCATTCC
*
3368787 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA -A TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3368827 TA TA TA T
1 TA TA TA T
3368834 TTATTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3371662 original size:2 final size:2
Alignment explanation
Indices: 3371655--3371757 Score: 80
Period size: 2 Copynumber: 54.5 Consensus size: 2
3371645 AGTATTTTAT
* *
3371655 TA TA TA TA TA TA T- TT TT TA -A TA TA T- TA GTA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
3371694 TA TA TA CA CTA T- TA TA -A TA TA TA -A TA T- TA TA T- TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3371732 TA TA TA TA TA GTA TA TT TA TA TA TA T
1 TA TA TA TA TA -TA TA TA TA TA TA TA T
3371758 TTTTGAAAAC
Statistics
Matches: 84, Mismatches: 5, Indels: 24
0.74 0.04 0.21
Matches are distributed among these distances:
1 9 0.11
2 70 0.83
3 5 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3371668 original size:28 final size:28
Alignment explanation
Indices: 3371636--3371755 Score: 75
Period size: 28 Copynumber: 4.1 Consensus size: 28
3371626 ATTATTTCAA
* * *
3371636 ATATTTAATAGTATTTTATTATATATAT
1 ATATTTAATAATATATTAGTATATATAT
**
3371664 ATATTTTTTAATATATTAGTATATATAT
1 ATATTTAATAATATATTAGTATATATAT
* * *
3371692 AATATATACACTATTATAATA-TATA-ATAT
1 -ATATTTA-A-TAATATATTAGTATATATAT
*
3371721 -TATATTATATATATATATATAGTATATTTAT
1 ATAT-TTA-ATA-ATATAT-TAGTATATATAT
3371752 ATAT
1 ATAT
3371756 ATTTTTGAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
27 5 0.07
28 30 0.44
29 11 0.16
30 8 0.12
31 11 0.16
32 3 0.04
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.53
Consensus pattern (28 bp):
ATATTTAATAATATATTAGTATATATAT
Found at i:3371672 original size:20 final size:22
Alignment explanation
Indices: 3371649--3371689 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
3371639 TTTAATAGTA
*
3371649 TTTTATTATA-TA-TATATATT
1 TTTTAATATATTAGTATATATT
3371669 TTTTAATATATTAGTATATAT
1 TTTTAATATATTAGTATATAT
3371690 ATAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTAATATATTAGTATATATT
Found at i:3371675 original size:31 final size:33
Alignment explanation
Indices: 3371639--3371699 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
3371629 ATTTCAAATA
*
3371639 TTTAATAGTATT-TTAT-TATAT-ATATATATTT
1 TTTAATA-TATTAGTATATATATAATATATATTT
3371670 TTTAATATATTAGTATATATATAATATATA
1 TTTAATATATTAGTATATATATAATATATA
3371700 CACTATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 10 0.38
32 5 0.19
33 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (33 bp):
TTTAATATATTAGTATATATATAATATATATTT
Found at i:3371707 original size:51 final size:49
Alignment explanation
Indices: 3371652--3371747 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 49
3371642 AATAGTATTT
* *
3371652 TATTAT-ATATATATATTTTTTAATATATTAGTATATATATAATATATACAC
1 TATTATAATATATA-ATATTATAATATA-TA-TATATATATAATATATACAC
* *
3371703 TATTATAATATATAATATTATATTATATATATATATATAGTATAT
1 TATTATAATATATAATATTATAATATATATATATATATAATATAT
3371748 TTATATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 15 0.38
50 2 0.05
51 16 0.40
52 7 0.17
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (49 bp):
TATTATAATATATAATATTATAATATATATATATATATAATATATACAC
Found at i:3371709 original size:17 final size:15
Alignment explanation
Indices: 3371652--3371747 Score: 68
Period size: 17 Copynumber: 5.9 Consensus size: 15
3371642 AATAGTATTT
3371652 TATTAT-ATATATATA
1 TATTATAATATATA-A
* *
3371667 TTTTTTAATATATTAGTA
1 TATTATAATATA-TA--A
3371685 TATATATAATATATACA
1 TAT-TATAATATATA-A
3371702 CTATTATAATATATAA
1 -TATTATAATATATAA
*
3371718 TATTATATTATATATA
1 TATTATAATATATA-A
*
3371734 TATATATAGTATAT
1 TAT-TATAATATAT
3371748 TTATATATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
15 17 0.25
16 10 0.15
17 23 0.34
18 9 0.13
19 8 0.12
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTATAATATATAA
Found at i:3371752 original size:15 final size:14
Alignment explanation
Indices: 3371654--3371757 Score: 73
Period size: 15 Copynumber: 7.7 Consensus size: 14
3371644 TAGTATTTTA
3371654 TTATATATATATAT
1 TTATATATATATAT
*
3371668 TT-TTTA-ATATA-
1 TTATATATATATAT
3371679 TTAGTATATATATA-
1 TTA-TATATATATAT
*
3371693 --ATATATACACTA-
1 TTATATATATA-TAT
3371705 TTATA-ATATATAAT
1 TTATATATATAT-AT
3371719 ATTATAT-TATATAT
1 -TTATATATATATAT
*
3371733 ATATATATAGTATAT
1 TTATATATA-TATAT
3371748 TTATATATAT
1 TTATATATAT
3371758 TTTTGAAAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 24
0.71 0.06 0.24
Matches are distributed among these distances:
11 9 0.12
12 9 0.12
13 16 0.22
14 15 0.21
15 23 0.32
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
TTATATATATATAT
Found at i:3371752 original size:17 final size:16
Alignment explanation
Indices: 3371654--3371759 Score: 63
Period size: 17 Copynumber: 6.1 Consensus size: 16
3371644 TAGTATTTTA
3371654 TTATATATATATAT-T
1 TTATATATATATATAT
*
3371669 TTTTA-ATATATTAGTAT
1 TTATATATATA-TA-TAT
* *
3371686 ATATATAATATATACACT
1 TTATAT-ATATATATA-T
3371704 ATTATAATATATAATATTAT
1 -TTAT-ATATAT-ATA-TAT
3371724 ATTATATATATATATAT
1 -TTATATATATATATAT
* *
3371741 AGTATATTTATATATAT
1 -TTATATATATATATAT
3371758 TT
1 TT
3371760 TTGAAAACAC
Statistics
Matches: 72, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
14 5 0.07
15 6 0.08
16 2 0.03
17 23 0.32
18 6 0.08
19 18 0.25
20 11 0.15
21 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
TTATATATATATATAT
Found at i:3371779 original size:38 final size:36
Alignment explanation
Indices: 3371731--3371821 Score: 91
Period size: 38 Copynumber: 2.5 Consensus size: 36
3371721 TATATTATAT
*
3371731 ATATATATATAGTATATTTATA-TATATTTTTGAAAAC
1 ATATA-ATATAGTATATTTATAGAATATTTTT-AAAAC
*
3371768 ACGTATAATATA-TATTATATATAGAATATTTTTAAAAC
1 A--TATAATATAGTA-TATTTATAGAATATTTTTAAAAC
3371806 ATAT--TATAGTATATTT
1 ATATAATATAGTATATTT
3371822 TTTGTAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
34 8 0.17
35 2 0.04
36 3 0.07
37 3 0.07
38 18 0.39
39 12 0.26
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (36 bp):
ATATAATATAGTATATTTATAGAATATTTTTAAAAC
Found at i:3371922 original size:2 final size:2
Alignment explanation
Indices: 3371915--3371978 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
3371905 CCTGATTAAA
3371915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3371957 AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
3371979 GTAATTTTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3375254 original size:14 final size:15
Alignment explanation
Indices: 3375098--3375260 Score: 220
Period size: 15 Copynumber: 10.5 Consensus size: 15
3375088 TAATAAGGTT
3375098 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
3375113 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
3375128 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
3375143 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
3375158 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
3375173 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
3375188 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
3375203 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
3375222 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
3375240 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
3375254 ATTTATT
1 ATTTATT
3375261 AGTATGAATT
Statistics
Matches: 135, Mismatches: 6, Indels: 15
0.87 0.04 0.10
Matches are distributed among these distances:
14 12 0.09
15 102 0.76
16 4 0.03
17 2 0.01
18 1 0.01
19 1 0.01
20 2 0.01
21 4 0.03
22 7 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:3375279 original size:32 final size:31
Alignment explanation
Indices: 3375240--3375391 Score: 151
Period size: 32 Copynumber: 5.4 Consensus size: 31
3375230 TTTTAAAATA
3375240 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTG
3375272 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
3375294 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
3375326 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
3375348 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
3375380 ATTTATTTTAAA
1 ATTTATTTTAAA
3375392 ATATGGATTG
Statistics
Matches: 100, Mismatches: 0, Indels: 40
0.71 0.00 0.29
Matches are distributed among these distances:
22 27 0.27
23 5 0.05
24 4 0.04
26 6 0.06
27 4 0.04
28 6 0.06
30 4 0.04
31 4 0.04
32 40 0.40
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (31 bp):
ATTTATTTTAAATAATTTATTAGTATGATTG
Found at i:3375294 original size:69 final size:67
Alignment explanation
Indices: 3375158--3375315 Score: 230
Period size: 69 Copynumber: 2.3 Consensus size: 67
3375148 TTATAAAATA
3375158 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAATTTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAATTTATTATAAAATATGGAT
3375223 TG
66 TG
* * * * *
3375225 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT--T-TAAAATAATTTATTATAAAATATG
3375289 GATTG
63 GATTG
3375294 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
3375316 GTATGGATTG
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
66 13 0.16
67 22 0.27
68 13 0.16
69 34 0.41
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAATTTATTATAAAATATGGAT
TG
Found at i:3375306 original size:54 final size:54
Alignment explanation
Indices: 3375240--3375408 Score: 329
Period size: 54 Copynumber: 3.1 Consensus size: 54
3375230 TTTTAAAATA
*
3375240 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
3375294 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
3375348 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
3375402 ATTTATT
1 ATTTATT
3375409 ATTGTAGTTG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:3375342 original size:22 final size:22
Alignment explanation
Indices: 3375317--3375359 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3375307 AATTTATTAG
3375317 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3375339 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3375360 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3375439 original size:80 final size:80
Alignment explanation
Indices: 3375339--3375488 Score: 273
Period size: 80 Copynumber: 1.9 Consensus size: 80
3375329 TATTTTAAAA
3375339 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
3375404 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* **
3375419 TATGGATTGATTTATTTTAAATAATTTTTTTTTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
3375484 TTATT
66 TTATT
3375489 TTAAATAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.55
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:3375468 original size:18 final size:19
Alignment explanation
Indices: 3375263--3375491 Score: 84
Period size: 22 Copynumber: 12.0 Consensus size: 19
3375253 AATTTATTAG
*
3375263 TATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTT---A
3375285 TATGGATTGATTTATTTTA
1 TATGGATTGATTTATTTTA
*
3375304 -A---A-TAATTTA--TTA
1 TATGGATTGATTTATTTTA
3375316 GTATGGATTGATTTATTTTAAAA
1 -TATGGATTGATTTATTTT---A
3375339 TATGGATTGATTTATTTTA
1 TATGGATTGATTTATTTTA
*
3375358 -A---A-TAATTTA--TTA
1 TATGGATTGATTTATTTTA
3375370 GTATGGATTGATTTATTTTAAAA
1 -TATGGATTGATTTATTTT---A
3375393 TATGGATTGATTTATTATTGTA
1 TATGGATTGATTTA-T-TT-TA
3375415 GTTGTATGGATTGATTTATTTTA
1 ----TATGGATTGATTTATTTTA
* *
3375438 -A---A-TAATTT-TTTTT
1 TATGGATTGATTTATTTTA
3375451 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTT---A
3375473 TATGGATTGATTTATTTTA
1 TATGGATTGATTTATTTTA
3375492 AATAATTTAT
Statistics
Matches: 160, Mismatches: 9, Indels: 79
0.65 0.04 0.32
Matches are distributed among these distances:
12 6 0.04
13 4 0.03
14 20 0.12
15 3 0.02
17 3 0.02
18 20 0.12
19 7 0.04
20 4 0.03
22 68 0.43
23 5 0.03
24 4 0.03
25 2 0.01
26 14 0.09
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.54
Consensus pattern (19 bp):
TATGGATTGATTTATTTTA
Found at i:3375476 original size:22 final size:22
Alignment explanation
Indices: 3375451--3375493 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3375441 AATTTTTTTT
3375451 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3375473 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3375494 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3378386 original size:31 final size:31
Alignment explanation
Indices: 3378351--3378427 Score: 113
Period size: 30 Copynumber: 2.5 Consensus size: 31
3378341 TTCAACGTTC
* *
3378351 AAGTGACTAAAACTTAATAAAACGATAACGT
1 AAGTGACTAAAACTTAATAAAACAATAACGA
3378382 AAGTGACT-AAACTTAATAAAACAATAACGA
1 AAGTGACTAAAACTTAATAAAACAATAACGA
3378412 AAGTGA-TCAAAACTTA
1 AAGTGACT-AAAACTTA
3378428 TGTTCTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 1 0.02
30 26 0.62
31 15 0.36
ACGTcount: A:0.53, C:0.13, G:0.12, T:0.22
Consensus pattern (31 bp):
AAGTGACTAAAACTTAATAAAACAATAACGA
Found at i:3380109 original size:51 final size:51
Alignment explanation
Indices: 3380049--3380146 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
3380039 ATATTCTGCA
*
3380049 ATTAGTTATCACATGAAAAATAAAGCACATATACATAATCTTAATAATTAG
1 ATTAGTTATCACATGAAAAATAAAGCACATAAACATAATCTTAATAATTAG
* *
3380100 ATTAGTTATCACATGAAAAATATAGCACATAAACATAATCTTTATAA
1 ATTAGTTATCACATGAAAAATAAAGCACATAAACATAATCTTAATAA
3380147 GAAGAATAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (51 bp):
ATTAGTTATCACATGAAAAATAAAGCACATAAACATAATCTTAATAATTAG
Found at i:3386829 original size:4 final size:4
Alignment explanation
Indices: 3386820--3386857 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
3386810 AATACTATAC
*
3386820 TTTA TTTA TTTA TTTA TTTA TGTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
3386858 TCATTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:3386864 original size:24 final size:23
Alignment explanation
Indices: 3386815--3386884 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 23
3386805 TCTTTAATAC
3386815 TATACTTTATTTATTTATTTATTTA
1 TATA-TTTATTTATTT-TTTATTTA
*
3386840 TGTATTTATTTATTATTTTCATTATA
1 TATATTTATTTATT-TTTT-ATT-TA
* *
3386866 TATATATATATTCTTTTTT
1 TATATTTAT-TTATTTTTT
3386885 GTCTCTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 13 0.35
25 7 0.19
26 13 0.35
27 4 0.11
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (23 bp):
TATATTTATTTATTTTTTATTTA
Found at i:3386922 original size:28 final size:29
Alignment explanation
Indices: 3386807--3386924 Score: 84
Period size: 28 Copynumber: 4.1 Consensus size: 29
3386797 TTTTATTTTC
3386807 TTTA-ATACTATACTTTA-TTTATTT-ATTT
1 TTTATATA-TATA-TTTATTTTATTTCATTT
* * * *
3386835 ATTTATGTATTTATTTATTAT-TTTCATTA
1 -TTTATATATATATTTATTTTATTTCATTT
* * * *
3386864 TATATATATATATTCTTTTTTGTCTCTATTT
1 TTTATATATATATT-TATTTTATTTC-ATTT
3386895 TTTAT-TATATATTTATTTTATTTCATTT
1 TTTATATATATATTTATTTTATTTCATTT
3386923 TT
1 TT
3386925 ATTATTTTCC
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
28 24 0.35
29 24 0.35
30 13 0.19
31 7 0.10
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTATATATATATTTATTTTATTTCATTT
Found at i:3386951 original size:22 final size:22
Alignment explanation
Indices: 3386921--3386974 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3386911 TTTATTTCAT
*
3386921 TTTTATTATTTTCCCTTATT-A
1 TTTTATTATTTTCCCTCATTAA
*
3386942 TTATTATTATTTTTCCTCATTAA
1 TT-TTATTATTTTCCCTCATTAA
3386965 TTTTATTATT
1 TTTTATTATT
3386975 ATTATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 24 0.83
23 3 0.10
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATTATTTTCCCTCATTAA
Found at i:3386970 original size:25 final size:23
Alignment explanation
Indices: 3386923--3386977 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
3386913 TATTTCATTT
3386923 TTATTA-TTTTCCCTTATTATTA
1 TTATTATTTTTCCCTTATTATTA
3386945 TTATTATTTTTCCTCATTAATT-TTA
1 TTATTATTTTTCC-C-TT-ATTATTA
3386970 TTATTATT
1 TTATTATT
3386978 ATTATTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.21
23 6 0.21
24 1 0.03
25 13 0.45
26 3 0.10
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTATTTTTCCCTTATTATTA
Found at i:3387190 original size:2 final size:2
Alignment explanation
Indices: 3387183--3387215 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3387173 AACACTACAT
3387183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3387216 CTTTTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3387349 original size:17 final size:17
Alignment explanation
Indices: 3387308--3387352 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3387298 TGTTGTTTTG
3387308 TTTTATTTTATTTAGTT
1 TTTTATTTTATTTAGTT
*** *
3387325 TACCATTTTATTTATTT
1 TTTTATTTTATTTAGTT
3387342 TTTTATTTTAT
1 TTTTATTTTAT
3387353 CATTTTTCCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTATTTTATTTAGTT
Found at i:3387351 original size:25 final size:26
Alignment explanation
Indices: 3387309--3387358 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
3387299 GTTGTTTTGT
3387309 TTTATTTTATTTAGTTTACCATTTTA
1 TTTATTTTATTTAGTTTACCATTTTA
* *
3387335 TTTATTTT-TTTATTTTATCATTTT
1 TTTATTTTATTTAGTTTACCATTTT
3387359 TCCTTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTATTTTATTTAGTTTACCATTTTA
Found at i:3396046 original size:21 final size:21
Alignment explanation
Indices: 3396022--3396067 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
3396012 AGAATCTAAC
*
3396022 AAAGCTCTTCCAGAGATTAAG
1 AAAGCTCTTCCAGAAATTAAG
3396043 AAAGCTCTTCCAGAAATTAAG
1 AAAGCTCTTCCAGAAATTAAG
3396064 AAAG
1 AAAG
3396068 TTCCAGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (21 bp):
AAAGCTCTTCCAGAAATTAAG
Found at i:3396073 original size:18 final size:19
Alignment explanation
Indices: 3396028--3396073 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
3396018 TAACAAAGCT
*
3396028 CTTCCAGAGATTAAGAAAG
1 CTTCCAGAAATTAAGAAAG
3396047 CTCTTCCAGAAATTAAGAAAG
1 --CTTCCAGAAATTAAGAAAG
3396068 -TTCCAG
1 CTTCCAG
3396074 TTGAGGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
21 18 0.75
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (19 bp):
CTTCCAGAAATTAAGAAAG
Found at i:3398694 original size:10 final size:10
Alignment explanation
Indices: 3398679--3398710 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
3398669 GCCCTAAATT
3398679 GAAAAAAAAA
1 GAAAAAAAAA
3398689 GAAAAAAAAAA
1 G-AAAAAAAAA
3398700 GAAAAAAAAA
1 GAAAAAAAAA
3398710 G
1 G
3398711 GTGAGTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:3398696 original size:11 final size:11
Alignment explanation
Indices: 3398680--3398709 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
3398670 CCCTAAATTG
3398680 AAAAAAAAAGA
1 AAAAAAAAAGA
3398691 AAAAAAAAAGA
1 AAAAAAAAAGA
3398702 AAAAAAAA
1 AAAAAAAA
3398710 GGTGAGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:3401443 original size:3 final size:3
Alignment explanation
Indices: 3401437--3401485 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
3401427 CTCTGTTTTT
*
3401437 TTA TTA TTA -TA TATA TATA TATA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA T-TA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
3401484 TT
1 TT
3401486 GTTTTTTCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 29 0.69
4 11 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:3401513 original size:21 final size:21
Alignment explanation
Indices: 3401481--3401529 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
3401471 ATTATTACTA
3401481 TTATTGTTTTTTCTCATTT-TT
1 TTATT-TTTTTTCTCATTTGTT
*
3401502 TTCATTTTTTTTTTCATTTGTT
1 TT-ATTTTTTTTCTCATTTGTT
3401524 TTATTT
1 TTATTT
3401530 AGTTCTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (21 bp):
TTATTTTTTTTCTCATTTGTT
Found at i:3401552 original size:20 final size:18
Alignment explanation
Indices: 3401518--3401565 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
3401508 TTTTTTTTCA
3401518 TTTGTTTTATTTAGTTCT
1 TTTGTTTTATTTAGTTCT
3401536 TTTGTTTTAGCTTTAGTT-T
1 TTTGTTTTA--TTTAGTTCT
3401555 TTAT-TTTTATT
1 TT-TGTTTTATT
3401566 ATCATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.07
18 9 0.33
19 8 0.30
20 8 0.30
ACGTcount: A:0.12, C:0.04, G:0.10, T:0.73
Consensus pattern (18 bp):
TTTGTTTTATTTAGTTCT
Found at i:3401891 original size:17 final size:17
Alignment explanation
Indices: 3401866--3401903 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3401856 TTTGTTTTAT
*
3401866 TTTTGTTTATTTTACCA
1 TTTTATTTATTTTACCA
*
3401883 TTTTATTTATTTTATCA
1 TTTTATTTATTTTACCA
3401900 TTTT
1 TTTT
3401904 CCTTTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTATTTATTTTACCA
Found at i:3402602 original size:22 final size:22
Alignment explanation
Indices: 3402558--3402602 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3402548 AACTAAAATT
* *
3402558 AATTTGACCTAAACTCGAACTG
1 AATTTGACCCAAACCCGAACTG
* *
3402580 AATTTGACCCAGACCCGACCTG
1 AATTTGACCCAAACCCGAACTG
3402602 A
1 A
3402603 TACGAGTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (22 bp):
AATTTGACCCAAACCCGAACTG
Found at i:3416587 original size:21 final size:19
Alignment explanation
Indices: 3416554--3416594 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
3416544 TGCATCAAGG
3416554 TCTTTGTTGAAGCCATGAAA
1 TCTTTGTTGAAGCCAT-AAA
*
3416574 TCTTTTTTCGAAGCCATAAA
1 TCTTTGTT-GAAGCCATAAA
3416594 T
1 T
3416595 TCCTGCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (19 bp):
TCTTTGTTGAAGCCATAAA
Found at i:3424748 original size:15 final size:15
Alignment explanation
Indices: 3424725--3424776 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3424715 AATTCAAAAA
3424725 AAGTATATAAACTAT
1 AAGTATATAAACTAT
*
3424740 AAGTTTATAAACTAT
1 AAGTATATAAACTAT
*
3424755 AA--ACTATATA-TAT
1 AAGTA-TATAAACTAT
3424768 AAGTATATA
1 AAGTATATA
3424777 TGTATATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.16
14 9 0.29
15 17 0.55
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (15 bp):
AAGTATATAAACTAT
Found at i:3446115 original size:39 final size:39
Alignment explanation
Indices: 3446043--3446119 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
3446033 TACAACTTGG
* * * * *
3446043 AATGTTGGGACATTTTGAAGGCTTATATTAGCAAGAAAT
1 AATGTTGGGACATTTTGAACGATCAAATCAGCAAGAAAT
*
3446082 AATGTTGGGGCATTTTGAACGATCAAATCAGCAAGAAA
1 AATGTTGGGACATTTTGAACGATCAAATCAGCAAGAAA
3446120 CAATTTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (39 bp):
AATGTTGGGACATTTTGAACGATCAAATCAGCAAGAAAT
Found at i:3447953 original size:41 final size:42
Alignment explanation
Indices: 3447854--3447954 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
3447844 CCCAAATTTG
* * *
3447854 TAAATCCTTTGGGTCATCTGTCAGTCATTCGAGCATGATGTT
1 TAAATCCTTTGGGCCATCTGTCAGTCATTCGAGCAAGATGTA
* * *
3447896 TAAATCCTTTGGGCCATCTGTTAGTCTTTTGAGCAAGATG-A
1 TAAATCCTTTGGGCCATCTGTCAGTCATTCGAGCAAGATGTA
* *
3447937 TAAGTCCTTAGGGCCATC
1 TAAATCCTTTGGGCCATC
3447955 CGTAAGACCT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (42 bp):
TAAATCCTTTGGGCCATCTGTCAGTCATTCGAGCAAGATGTA
Found at i:3448005 original size:259 final size:259
Alignment explanation
Indices: 3447477--3448486 Score: 1299
Period size: 259 Copynumber: 3.9 Consensus size: 259
3447467 ACCACTAAGT
* * * * *
3447477 TGAAAATGAGAAAACAATTTCCAAAGTTTCTTATTTAATTTTTCTGAAAATGAAATTGTTGAAAA
1 TGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAA-TGTTCAGAAAATGAAATTCTTGAAAA
** ** * *
3447542 GTAAGAAAGATATTTTAAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAATCCTTCGG
65 GTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTTGG
*
3447607 GTCATCTGTCAGTCTTTCGA-CAATGATGCTTAAATCCTTAGGGCCATCTGTCAGTCTTTCGAGC
130 GTCATCTGTCAGTCTTTCGAGC-ATGATGCTTAAATCCTTAGGGCCATATGTCAGTCTTTCGAGC
* * * * * ** *
3447671 -TGAATGTTGAGTTCTTTGGGCCATCCATAATACCTTCAGGCAGGATGTTTACACATGATTTTCA
194 AAG-ATGTTAAGTCCTTAGGGCCATCCATAAGACCTTTGGGTAGGATGTTTACACATGATTTTCA
*
3447735 CA
258 TA
* ** * * * *
3447737 TGCAAATGAGAAAGTGATTACCGAAGTTTCTCATTTAATGTCCAGAAAATAAAATTCTTGAAAAG
1 TGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAATGTTCAGAAAATGAAATTCTTGAAAAG
* *
3447802 TAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCCAAATTTGTAAATCCTTTGGG
66 TAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTTGGG
* * * * * *
3447867 TCATCTGTCAGTCATTCGAGCATGATGTTTAAATCCTTTGGGCCATCTGTTAGTCTTTTGAGCAA
131 TCATCTGTCAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATATGTCAGTCTTTCGAGCAA
* * *
3447932 GATGATAAGTCCTTAGGGCCATCCGTAAGACCTTTGGGTGGGATGTTTACACATGATTTTCATA
196 GATGTTAAGTCCTTAGGGCCATCCATAAGACCTTTGGGTAGGATGTTTACACATGATTTTCATA
* ** * *
3447996 TGAAAATGAGGAAGCAATTTTTAAATTTTCTCATTTAATGTTCAGAAAACGAAATTCTTGAAAAG
1 TGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAATGTTCAGAAAATGAAATTCTTGAAAAG
* * * *
3448061 TAAGAAAGTGATTTCCAAAGTTTCTTACCCGGTAAACTATTTCCTAAATTTGTAAAACCTTTTGG
66 TAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTTGGG
* * * * *
3448126 TAATTTGTCAGTCTTTTGAGCATGATGTTTAAATCCTTAGGGTCATATGTCAGTCTTTCGAGCAA
131 TCATCTGTCAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATATGTCAGTCTTTCGAGCAA
* * *
3448191 GATGTTAAGTCCTTAGGGCCATCTATGAGACCTTTGGGTAGGATATTTACACATGATTTTC-TCA
196 GATGTTAAGTCCTTAGGGCCATCCATAAGACCTTTGGGTAGGATGTTTACACATGATTTTCAT-A
* * *
3448255 TGAAAATGAGGAAGCAATTTTCAATGTTTCTCATTTAATGTTCAGAAAATGAAATTCTTGAAAAG
1 TGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAATGTTCAGAAAATGAAATTCTTGAAAAG
* * *
3448320 TAAGAAAGCGATTTCCAAAGTTTTTTA-CTAGTAAATTATTTCCCAAATTTGTAAAACCTTTGGG
66 TAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTTGGG
* * * * * * *
3448384 TCATCTGTCAGCCTTTTGAGCATGATGCTTAGATCCTTATGGTCATATGTCAGTCTATCAAGCAA
131 TCATCTGTCAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATATGTCAGTCTTTCGAGCAA
* * * *
3448449 GATGTTAAGTCCTTTGGGCTATCCGTAAGACCATTGGG
196 GATGTTAAGTCCTTAGGGCCATCCATAAGACCTTTGGG
3448487 AATTACTCTT
Statistics
Matches: 654, Mismatches: 93, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
258 122 0.19
259 499 0.76
260 33 0.05
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (259 bp):
TGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAATGTTCAGAAAATGAAATTCTTGAAAAG
TAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTTGGG
TCATCTGTCAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATATGTCAGTCTTTCGAGCAA
GATGTTAAGTCCTTAGGGCCATCCATAAGACCTTTGGGTAGGATGTTTACACATGATTTTCATA
Found at i:3457271 original size:41 final size:42
Alignment explanation
Indices: 3457198--3457281 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 42
3457188 TCGGGACATA
*
3457198 TGTCAGTTTTTTGAGCATGATGTTTAAATTCTTAGGGTCATC
1 TGTCAGTTTTTTGAGCATGATGTTTAAATTCTTAGGGCCATC
* *
3457240 TGTCAGTCTTTTT-AGCCA-GAT-TTTAAGTTCTTTGGGCCATC
1 TGTCAGT-TTTTTGAG-CATGATGTTTAAATTCTTAGGGCCATC
3457281 T
1 T
3457282 ATAAGACCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 18 0.49
42 12 0.32
43 7 0.19
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.45
Consensus pattern (42 bp):
TGTCAGTTTTTTGAGCATGATGTTTAAATTCTTAGGGCCATC
Found at i:3457753 original size:42 final size:41
Alignment explanation
Indices: 3457684--3457779 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
3457674 CCCAAATTTA
* * * * *
3457684 TAAAACCTTCGGGTCATCTGTCAGTCTTT-TGAGCATGATTT
1 TAAATCCTTAGGGTCATATGTCAGTCTTTCT-AGCAAGATGT
3457725 TCAAATCCTTAGGGTCATATGTCAGTCTTTCTAGCAAGATGT
1 T-AAATCCTTAGGGTCATATGTCAGTCTTTCTAGCAAGATGT
*
3457767 TAAGTCCTTAGGG
1 TAAATCCTTAGGG
3457780 CCAACTGTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 12 0.26
42 34 0.72
43 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (41 bp):
TAAATCCTTAGGGTCATATGTCAGTCTTTCTAGCAAGATGT
Found at i:3457939 original size:259 final size:258
Alignment explanation
Indices: 3457063--3458068 Score: 1128
Period size: 259 Copynumber: 3.9 Consensus size: 258
3457053 AGTTGTTTTG
* * * * * * *
3457063 AAAATGAGAAAACGATTTCCAAAGTTCCTAATTTAATCTTTTATGAAAATGAAATTGTTGAAAAG
1 AAAATGA-AAAGCGATTACCAAAGTTTCTCATTTAA--TGTTAAGAAAATGAAATTCTTGAAAAG
* * * * *
3457128 TAAGAAGGAGATTTTCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAATCATTCGGG
63 TAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTCGGG
* * * * * * *
3457193 ACATATGTCAGTTTTTTGAGCATGATGTTTAAATTCTTAGGGTCATCTGTCAGTCTTTTTAGCCA
128 TCATCTGTCAGTCTTTTGAGCATGATATTTAAATCCTTAGGGTCATCTGTCAGTCTTTCTAGCAA
* * * * * **
3457258 GATTTTAAGTTCTTTGGGCCATCTATAAGACCTTCAGGAAGGATGTTTACACATGA-----AAA-
193 GATGTTAAGTCCTTAGGGCCAACTGTAAGACCTTTGGGAAGGATGTTTACACATGATTTTCAAAT
3457317 T
258 T
* * * * *
3457318 -GAA--AAAA-TGATTACGAAAGTTTCTCATTTAATGTTTAGAATATGAAATTCTTGAAAAGTAA
1 AAAATGAAAAGCGATTACCAAAGTTTCTCATTTAATGTTAAGAAAATGAAATTCTTGAAAAGTAA
* * **
3457379 GAAAGCGATTTCCAAAGTTTCTTA-CCAGTAAATTATTTCCCAAATTTGTAAATCCTTCATGTCA
66 GAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTCGGGTCA
* ** * * * * *
3457443 TCTGTCATTCTTTCAAGCATGATATTTAAATCCTTCGGGTAATCTGTCAGTCTTTCGAGTAATAT
131 TCTGTCAGTCTTTTGAGCATGATATTTAAATCCTTAGGGTCATCTGTCAGTCTTTCTAGCAAGAT
* * * * * * * *
3457508 GATAAATCCTTAGGGCCATCGGTAAGACCTTTGGGTAGGATGTTT--ACATTATTTTCACATG
196 GTTAAGTCCTTAGGGCCAACTGTAAGACCTTTGGGAAGGATGTTTACACATGATTTTCAAATT
* ** * * * *
3457569 AAAATGAAGAAGCGGTTTTCAAAGTTTCTCGTTTAATGTTGAGAAAATAAAATTCTTGAAAAGAA
1 AAAATGAA-AAGCGATTACCAAAGTTTCTCATTTAATGTTAAGAAAATGAAATTCTTGAAAAGTA
* * *
3457634 AGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCCAAATTTATAAAACCTTCGGGTC
65 AGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTCGGGTC
*
3457699 ATCTGTCAGTCTTTTGAGCATGAT-TTTCAAATCCTTAGGGTCATATGTCAGTCTTTCTAGCAAG
130 ATCTGTCAGTCTTTTGAGCATGATATTT-AAATCCTTAGGGTCATCTGTCAGTCTTTCTAGCAAG
* *
3457763 ATGTTAAGTCCTTAGGGCCAACTGTGAGACCTTTGGGTAGGATGTTTACACATGATTTTCAAATT
194 ATGTTAAGTCCTTAGGGCCAACTGTAAGACCTTTGGGAAGGATGTTTACACATGATTTTCAAATT
**
3457828 AAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTCCGAAAATGAAATTCTTGAAAAGTA
1 AAAATGA-AAAGCGATTACCAAAGTTTCTCATTTAATGTTAAGAAAATGAAATTCTTGAAAAGTA
* * * *
3457893 ATAAAGCGATTTCCAAAGTTTCTTACCCAATAAATTATTTCCCAAATTTGTAAAACCTTCGAGTC
65 AGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTCGGGTC
* * *
3457958 ATCTGTCAGTCTTTTCAGCATGA-AGCTTAAATCCTTAGGGTCATCTGTCAATCTTT-TGAGCAA
130 ATCTGTCAGTCTTTTGAGCATGATA-TTTAAATCCTTAGGGTCATCTGTCAGTCTTTCT-AGCAA
* * *
3458021 GATGTTAAGTCCTTTGGG-CAATCCGTAAGACCATTGGGAAGGATGTTT
193 GATGTTAAGTCCTTAGGGCCAA-CTGTAAGACCTTTGGGAAGGATGTTT
3458069 TTACTCTTTA
Statistics
Matches: 626, Mismatches: 105, Indels: 36
0.82 0.14 0.05
Matches are distributed among these distances:
245 5 0.01
247 121 0.19
248 46 0.07
250 21 0.03
251 3 0.00
252 3 0.00
254 4 0.01
255 2 0.00
256 70 0.11
257 126 0.20
258 4 0.01
259 218 0.35
260 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (258 bp):
AAAATGAAAAGCGATTACCAAAGTTTCTCATTTAATGTTAAGAAAATGAAATTCTTGAAAAGTAA
GAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTTGTAAAACCTTCGGGTCA
TCTGTCAGTCTTTTGAGCATGATATTTAAATCCTTAGGGTCATCTGTCAGTCTTTCTAGCAAGAT
GTTAAGTCCTTAGGGCCAACTGTAAGACCTTTGGGAAGGATGTTTACACATGATTTTCAAATT
Found at i:3458224 original size:3 final size:3
Alignment explanation
Indices: 3458205--3458246 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
3458195 ATCCCGTTCC
* *
3458205 TAT TAAT TAT AAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3458247 AATAATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:3461473 original size:16 final size:14
Alignment explanation
Indices: 3461454--3461488 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
3461444 TTTTCAGATT
3461454 TTTTTCTTTTCTCTTC
1 TTTTTC-TTTCT-TTC
3461470 TTTTTCTTTCTTTC
1 TTTTTCTTTCTTTC
3461484 TTTTT
1 TTTTT
3461489 TTAACACTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 5 0.26
16 6 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTCTTTC
Found at i:3461489 original size:16 final size:15
Alignment explanation
Indices: 3461452--3461490 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3461442 TATTTTCAGA
3461452 TTTTTTTCTTTTCTC
1 TTTTTTTCTTTTCTC
*
3461467 TTCTTTTTCTTTCTTTC
1 TT-TTTTTCTTT-TCTC
3461484 TTTTTTT
1 TTTTTTT
3461491 AACACTGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.67
17 5 0.24
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTCTTTTCTC
Found at i:3470097 original size:20 final size:20
Alignment explanation
Indices: 3470074--3470114 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3470064 TTTATACTGA
*
3470074 AGGACTGGTCTCCATACTAG
1 AGGACTGATCTCCATACTAG
* *
3470094 AGGACTTATCTCTATACTAG
1 AGGACTGATCTCCATACTAG
3470114 A
1 A
3470115 TAAACTAGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
AGGACTGATCTCCATACTAG
Found at i:3472978 original size:31 final size:31
Alignment explanation
Indices: 3472937--3472997 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
3472927 AGACCAGATA
*
3472937 ATAGTCAGGTTTGTATTCAGATAATGCACAT
1 ATAGTCAGGTTTGCATTCAGATAATGCACAT
* *
3472968 ATAGTTAGGTTTGCATTCAGTTAATGCACA
1 ATAGTCAGGTTTGCATTCAGATAATGCACA
3472998 ACAGTATCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (31 bp):
ATAGTCAGGTTTGCATTCAGATAATGCACAT
Found at i:3474381 original size:34 final size:34
Alignment explanation
Indices: 3474310--3474388 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
3474300 TTGGGTATTT
* * * *
3474310 ACTCTAGTGTTTTGCATTATGTGTATTTTCTAGAC
1 ACTCTAGTG-TCTGCACTATGTATATTTGCTAGAC
* *
3474345 ACTCTAGTGTCTGCACTATGTATCTTTGCTATAC
1 ACTCTAGTGTCTGCACTATGTATATTTGCTAGAC
3474379 ACTCTAGTGT
1 ACTCTAGTGT
3474389 TAGCAATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
34 29 0.76
35 9 0.24
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.44
Consensus pattern (34 bp):
ACTCTAGTGTCTGCACTATGTATATTTGCTAGAC
Found at i:3481548 original size:15 final size:14
Alignment explanation
Indices: 3481530--3481589 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
3481520 ATCTAATTTT
*
3481530 AAAAAATTAAAATA
1 AAAAAAATAAAATA
*
3481544 AAAAAAGTAAAA-A
1 AAAAAAATAAAATA
3481557 AAAACAACATAAAATA
1 AAAA-AA-ATAAAATA
**
3481573 AATTAAATAAATATA
1 AAAAAAATAAA-ATA
3481588 AA
1 AA
3481590 TATGAGAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.13
14 18 0.47
15 12 0.32
16 3 0.08
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:3483208 original size:59 final size:59
Alignment explanation
Indices: 3483128--3483377 Score: 320
Period size: 59 Copynumber: 4.2 Consensus size: 59
3483118 ATATTGGTCA
* * * *
3483128 CTCATGTGAGGCATTGCTGATTCGAAGTGTTGTGAATCAAGCAGAGAAAATGTTGATCC
1 CTCAAGTGAGGCGTTGCTGATTCGAAGTATTGTGAATCAAGCAAAGAAAATGTTGATCC
* * * * *
3483187 CTCAAGTGAGACGTTGCTGATTTGAAGTATTATGAATCAACCAAAGGAAATGTTGATCC
1 CTCAAGTGAGGCGTTGCTGATTCGAAGTATTGTGAATCAAGCAAAGAAAATGTTGATCC
* * * *
3483246 ATCAAGTGAGGCGTTGTTGATTCGAAGTATTGTGAATCGAGTAAAGAAAATGTTGATCC
1 CTCAAGTGAGGCGTTGCTGATTCGAAGTATTGTGAATCAAGCAAAGAAAATGTTGATCC
* * * * * * *
3483305 CTCAAGTGAGGCGTTGCTGATTCAAAGTGTTGTCAATCGAGCAAAGGAAATGTTAATCA
1 CTCAAGTGAGGCGTTGCTGATTCGAAGTATTGTGAATCAAGCAAAGAAAATGTTGATCC
3483364 CTCAAGTGAGGCGT
1 CTCAAGTGAGGCGT
3483378 AGTTTGTTTT
Statistics
Matches: 164, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 164 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (59 bp):
CTCAAGTGAGGCGTTGCTGATTCGAAGTATTGTGAATCAAGCAAAGAAAATGTTGATCC
Found at i:3483581 original size:77 final size:76
Alignment explanation
Indices: 3483393--3483759 Score: 422
Period size: 77 Copynumber: 4.8 Consensus size: 76
3483383 GTTTTAAGAA
* * *
3483393 AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTAAAGCAAGATAAATC-T-
1 AAACTATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTC
** **
3483456 TGTTTTAAGAA
66 TGTTTCGAGTG
* *
3483467 AAACAATCTCAAGTGAGATAAATCTTCTGTTTTGAGTGAAACTATCTCAAGCGAGATAAAATCTT
1 AAACTATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGAT-AAATCTT
3483532 CTGTTTCGAGTG
65 CTGTTTCGAGTG
* * * * *
3483544 AAACTATCTCAAGCGAGATGAATCTTCTATTTCGAGTGAAACTATCACAAGCGAGATAAAATATT
1 AAACTATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGAT-AAATCTT
3483609 CTGTTTCGAGTG
65 CTGTTTCGAGTG
* * * * *
3483621 AAACTATCTCAAGCGAGATGAATC-T-TGTTT-TA-TGAAACACAATCTCAAGTGAGATAAATCT
1 AAACTATCTCAAGTGAGATAAATCTTCTGTTTCGAGTG-AA-ACTATCTCAAGCGAGATAAATCT
*
3483682 TCTATTTCGAGTG
64 TCTGTTTCGAGTG
* * * * *
3483695 AAATTATCTTAAGTGAGATAAAATCTTATGTTTCGAGTTAAACTATCTCAAGCGAGATGAATCTT
1 AAACTATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTT
3483760 GTTTTAAGAA
Statistics
Matches: 253, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
73 2 0.01
74 90 0.36
75 27 0.11
76 3 0.01
77 127 0.50
78 3 0.01
79 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (76 bp):
AAACTATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTC
TGTTTCGAGTG
Found at i:3483650 original size:113 final size:115
Alignment explanation
Indices: 3483393--3483759 Score: 451
Period size: 113 Copynumber: 3.2 Consensus size: 115
3483383 GTTTTAAGAA
* * * * *
3483393 AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTAAAGCAAGATAAATCTTG
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTC
* ** * *
3483458 T-TTT-AAGAAAAACAATCTCAAGTGAGAT-AAATCTTCTGTTTTGAGTG
66 TATTTCGAGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTG
*
3483505 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTT
1 AAACTATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTT
* * *
3483570 CTATTTCGAGTGAAACTATCACAAGCGAGATAAAATATTCTGTTTCGAGTG
65 CTATTTCGAGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTG
* * * *
3483621 AAACTATCTCAAGCGAGATGAATC-T-TGTTT-TA-TGAAACACAATCTCAAGTGAGATAAATCT
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTG-AA-ACTATCTCAAGCGAGATAAATCT
* * * *
3483682 TCTATTTCGAGTGAAATTATCTTAAGTGAGATAAAATCTTATGTTTCGAGTT
64 TCTATTTCGAGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTG
*
3483734 AAACTATCTCAAGCGAGATGAATCTT
1 AAACTATCTCAAGCGAGATAAATCTT
3483760 GTTTTAAGAA
Statistics
Matches: 222, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
111 2 0.01
112 20 0.09
113 137 0.62
114 5 0.02
115 22 0.10
116 36 0.16
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (115 bp):
AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTC
TATTTCGAGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTG
Found at i:3483740 original size:190 final size:189
Alignment explanation
Indices: 3483393--3483759 Score: 581
Period size: 190 Copynumber: 1.9 Consensus size: 189
3483383 GTTTTAAGAA
* * *
3483393 AAACAATCTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTAAAGCAAGATAAATCTTG
1 AAACAATCACAAGCGAGATAAATATTCTGTTTCGAGTGAAACTATCTAAAGCAAGATAAATCTTG
* *
3483458 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTGTTTTGAGTGAAACTATCTCAAGCGAGA
66 TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGA
*
3483523 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTCTATTTCGAGTG
131 TAAAATCTTATGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTCTATTTCGAGTG
* * * *
3483582 AAACTATCACAAGCGAGATAAAATATTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTT
1 AAACAATCACAAGCGAGAT-AAATATTCTGTTTCGAGTGAAACTATCTAAAGCAAGATAAATCTT
* * * * *
3483647 GTTTTATGAAACACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAATTATCTTAAGTGAG
65 GTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAG
*
3483712 ATAAAATCTTATGTTTCGAGTTAAACTATCTCAAGCGAGATGAATCTT
130 ATAAAATCTTATGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTT
3483760 GTTTTAAGAA
Statistics
Matches: 161, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
189 16 0.10
190 145 0.90
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (189 bp):
AAACAATCACAAGCGAGATAAATATTCTGTTTCGAGTGAAACTATCTAAAGCAAGATAAATCTTG
TTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGA
TAAAATCTTATGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTCTATTTCGAGTG
Found at i:3483760 original size:113 final size:112
Alignment explanation
Indices: 3483467--3483795 Score: 428
Period size: 113 Copynumber: 2.9 Consensus size: 112
3483457 GTTTTAAGAA
* * *
3483467 AAACAATCTCAAGTGAGAT-AAATCTTCTGTTTTGAGTGAAACTATCTCAAGCGAGATAAAATCT
1 AAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGAT-GAATC-
* * * *
3483531 TCTGTTTCGAGTG-AAACTATCTCAAGCGAGATGAATCTTCTATTTCGAGTG
64 T-TGTTT-TA-TGAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTG
* * *
3483582 AAACTATCACAAGCGAGATAAAATATTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTT
1 AAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTT
3483647 GTTTTATGAAACACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTG
66 GTTTTATGAAA-ACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTG
* * * *
3483695 AAATTATCTTAAGTGAGATAAAATCTTATGTTTCGAGTTAAACTATCTCAAGCGAGATGAATCTT
1 AAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTT
* * *
3483760 GTTTTAAGAAAATCAATCTCAAATGAGCTAAATCTT
66 GTTTTATGAAAA-CAATCTCAAGTGAGATAAATCTT
3483796 TTCTATTAAA
Statistics
Matches: 190, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
111 2 0.01
112 4 0.02
113 127 0.67
114 1 0.01
115 20 0.11
116 36 0.19
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (112 bp):
AAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTT
GTTTTATGAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTG
Found at i:3497542 original size:9 final size:9
Alignment explanation
Indices: 3497530--3497580 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
3497520 CATAAATAAA
3497530 AATAATACT
1 AATAATACT
3497539 AATAATACT
1 AATAATACT
* *
3497548 ACTACTACT
1 AATAATACT
3497557 AATAATTA-T
1 AATAA-TACT
* *
3497566 AATTATAAT
1 AATAATACT
3497575 AATAAT
1 AATAAT
3497581 GATAGCGGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (9 bp):
AATAATACT
Found at i:3504467 original size:31 final size:31
Alignment explanation
Indices: 3504429--3504497 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
3504419 ATCAATTAAA
*
3504429 TTAATTATTATT-T-TTAATAAATAATAATAAT
1 TTAATTATAATTCTATTAA-AAATAATAA-AAT
* *
3504460 TTAATTATAATTCTATTAAAAATATTAAATT
1 TTAATTATAATTCTATTAAAAATAATAAAAT
3504491 TTAATTA
1 TTAATTA
3504498 ATGATTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 20 0.61
32 9 0.27
33 4 0.12
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
TTAATTATAATTCTATTAAAAATAATAAAAT
Found at i:3509094 original size:32 final size:31
Alignment explanation
Indices: 3509057--3509157 Score: 105
Period size: 32 Copynumber: 3.2 Consensus size: 31
3509047 GCAATGCATT
3509057 GGGCCTTGAGAGCCTATCCAA-GGAATACCTTG
1 GGGCC-TGAGAGCCTA-CCAAGGGAATACCTTG
* * * *
3509089 GGGCCTCAGAGCCTACCCAATGGAGTACCATG
1 GGGCCTGAGAGCCTA-CCAAGGGAATACCTTG
* *
3509121 GGGCCTGAGAGCCTACCTAAGGGAATATCTCG
1 GGGCCTGAGAGCCTACC-AAGGGAATACCTTG
3509153 GGGCC
1 GGGCC
3509158 AAAAGCCTCC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 15 0.26
32 42 0.74
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.18
Consensus pattern (31 bp):
GGGCCTGAGAGCCTACCAAGGGAATACCTTG
Found at i:3514481 original size:18 final size:18
Alignment explanation
Indices: 3514426--3514482 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
3514416 CTTGCGTATC
* *
3514426 AAAATTAATATTAAATAA
1 AAAATAAATATTAAATTA
* * *
3514444 AAAACAAATATAAAAATA
1 AAAATAAATATTAAATTA
*
3514462 AAAATAAATATTAAGTTA
1 AAAATAAATATTAAATTA
3514480 AAA
1 AAA
3514483 TTAAGCATCA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAATAAATATTAAATTA
Found at i:3514537 original size:20 final size:19
Alignment explanation
Indices: 3514477--3514543 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
3514467 AAATATTAAG
3514477 TTAAAATTAA-GCATCAAAA
1 TTAAAATTAACG-ATCAAAA
* * *
3514496 TTAAAGTTAATGATCAATA
1 TTAAAATTAACGATCAAAA
*
3514515 TTAAAATTTACGTATCAAAA
1 TTAAAATTAACG-ATCAAAA
*
3514535 TTAATATTA
1 TTAAAATTA
3514544 TCATGATGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 24 0.63
20 14 0.37
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (19 bp):
TTAAAATTAACGATCAAAA
Found at i:3515407 original size:44 final size:44
Alignment explanation
Indices: 3515358--3515448 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
3515348 GATGAATGAA
*
3515358 TTATTATTATAACATATAGTT-ACATCTTTATAATATGCACATCC
1 TTATTATTATAAC-TATAGTTCAAATCTTTATAATATGCACATCC
3515402 TTATTATTATAACTATAGTTCAAATCTTTATAATATGCACATCC
1 TTATTATTATAACTATAGTTCAAATCTTTATAATATGCACATCC
3515446 TTA
1 TTA
3515449 AGGGCGCCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 7 0.16
44 38 0.84
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.44
Consensus pattern (44 bp):
TTATTATTATAACTATAGTTCAAATCTTTATAATATGCACATCC
Found at i:3520092 original size:22 final size:21
Alignment explanation
Indices: 3520055--3520096 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
3520045 CCATCTCCAT
3520055 TTCATCATCAACACCATCAAC
1 TTCATCATCAACACCATCAAC
*
3520076 TTCATCCATCAAGACCATCAA
1 TTCAT-CATCAACACCATCAA
3520097 TTCTGCATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (21 bp):
TTCATCATCAACACCATCAAC
Found at i:3520109 original size:24 final size:22
Alignment explanation
Indices: 3520060--3520109 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
3520050 TCCATTTCAT
*
3520060 CATCAACACCATCAACTTCATC
1 CATCAACACCATCAACTGCATC
*
3520082 CATCAAGACCATCAATTCTGCATC
1 CATCAACACCATCAA--CTGCATC
3520106 CATC
1 CATC
3520110 TATATCCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.58
24 10 0.42
ACGTcount: A:0.34, C:0.38, G:0.04, T:0.24
Consensus pattern (22 bp):
CATCAACACCATCAACTGCATC
Found at i:3525208 original size:47 final size:48
Alignment explanation
Indices: 3525139--3525523 Score: 548
Period size: 47 Copynumber: 8.1 Consensus size: 48
3525129 TAAAATCTCC
* * *
3525139 TTTGAAAATATCCTGCACTGAAGGTCTTATGGATGACCCGAAGG-CTT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTT
* * *
3525186 TTTGAAAGCATCTTGCACTGAAGGTCTTATGGATGGCCCGAAGG-CTT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTT
* *
3525233 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACACGAAGG-CTT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTT
** *
3525280 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATAACCCAAAGG-CTT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTT
**
3525327 TTTGAAAACAT-CTATACTGTAGGTCTTATGGATGGCCCGAAGGACTT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTT
*
3525374 TTTGATAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTTT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGAC-TT
*
3525423 TTTAAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGAC-T
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTT
* * * *
3525470 TTTGAAACCATCTTGCATTGTAGGTCTTATGGATGGCCCGGAGGACTT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTT
3525518 TTTGAA
1 TTTGAA
3525524 GGTCTTATAG
Statistics
Matches: 307, Mismatches: 27, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
46 27 0.09
47 195 0.64
48 39 0.13
49 46 0.15
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (48 bp):
TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCGAAGGACTT
Found at i:3525537 original size:32 final size:32
Alignment explanation
Indices: 3525491--3525555 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
3525481 CTTGCATTGT
* * *
3525491 AGGTCTTATGGATGGCCCGGAGGACTTTTTGA
1 AGGTCTTATAGATGGCCCGAAGGAATTTTTGA
3525523 AGGTCTTATAGATGGCCCGAAGGAATTTTTGA
1 AGGTCTTATAGATGGCCCGAAGGAATTTTTGA
3525555 A
1 A
3525556 AACATCCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (32 bp):
AGGTCTTATAGATGGCCCGAAGGAATTTTTGA
Found at i:3525587 original size:80 final size:79
Alignment explanation
Indices: 3525444--3525600 Score: 224
Period size: 80 Copynumber: 2.0 Consensus size: 79
3525434 CCTGCACTGT
* * * * *
3525444 AGGTCTTATGGATGGCCCGAAGGACTTTTGAAACCATCTTGCATTGTAGGTCTTATGGATGGCCC
1 AGGTCTTATAGATGGCCCGAAGGACTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCC
*
3525509 GGAGGACTTTTTGA
66 GAAGGACTTTTTGA
* *
3525523 AGGTCTTATAGATGGCCCGAAGGAATTTTTGAAAACATCCTGCACTATATGTCTTATGGATGGCC
1 AGGTCTTATAGATGGCCCGAAGG-ACTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCC
*
3525588 CGAATGACTTTTT
65 CGAAGGACTTTTT
3525601 AAAAACATCT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 22 0.32
80 46 0.68
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (79 bp):
AGGTCTTATAGATGGCCCGAAGGACTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCC
GAAGGACTTTTTGA
Found at i:3525653 original size:47 final size:48
Alignment explanation
Indices: 3525523--3526163 Score: 858
Period size: 48 Copynumber: 13.6 Consensus size: 48
3525513 GACTTTTTGA
* * *
3525523 AGGTCTTATAGATGGCCCGAAGGAATTTTTGAAAACATCCTGCACTAT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
* * * *
3525571 ATGTCTTATGGATGGCCCGAATGACTTTTTAAAAACATCTTGCACTGT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
* *
3525619 AGGTCTTAT-GATGGCCCGAATGACTTTTTGAAAACATCTTGCACTGT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
*
3525666 AGGTCTTAT-GACTGGCCCGAAGG-TTTTTTGAAAACATCCTGCACTGT
1 AGGTCTTATGGA-TGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
* *
3525713 AGGTCTTATGGATGGCCCGAAGAACTTTTTGAAAACACCCTGCACTGT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
* * *
3525761 AGATCTTATGGATGACCCGAA-GACTTTTTGAAAACA-CTTTGCACTGT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATC-CTGCACTGT
* * *
3525808 AGGTTTTATGGATGGCCC-AAGGACTTTTTGAAAACATCCTGGACTAT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
*
3525855 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTAT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
* * * *
3525903 AGGTCTTATGGATGACCCAAAGGACTTTTTGAAAACATCATGTACTGT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
* * *
3525951 AGGTCTTATAGATGGCCCGAAGG-CTTTTTGAAAACATCCTACATTGT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
3525998 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
* * * *
3526046 AGGTCTAATGAATGGCCCGAAGGACTTTTTGAAAACATCCTACACTAT
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
* * * *
3526094 AAGTCTTATGGATGGTCCGAAGGAC--TTT---AACATCTTGCACTGA
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
*
3526137 AGGTCTTATGGATGACCCGAAGG-CTTT
1 AGGTCTTATGGATGGCCCGAAGGACTTT
3526164 AACATCTTGC
Statistics
Matches: 526, Mismatches: 57, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.00
43 31 0.06
44 1 0.00
46 6 0.01
47 206 0.39
48 281 0.53
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (48 bp):
AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGT
Found at i:3525727 original size:95 final size:95
Alignment explanation
Indices: 3525523--3526163 Score: 850
Period size: 95 Copynumber: 6.8 Consensus size: 95
3525513 GACTTTTTGA
* * * *
3525523 AGGTCTTATAGATGGCCCGAAGGAATTTTTGAAAACATCCTGCACTATATGTCTTATGGATGGCC
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCC
* * *
3525588 CGAATGACTTTTTAAAAACATCTTGCACTGT
66 CGAA-GGCTTTTTGAAAACATCCTGCACTGT
* *
3525619 AGGTCTTAT-GATGGCCCGAATGACTTTTTGAAAACATCTTGCACTGTAGGTCTTAT-GACTGGC
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGA-TGGC
*
3525682 CCGAAGGTTTTTTGAAAACATCCTGCACTGT
65 CCGAAGGCTTTTTGAAAACATCCTGCACTGT
* * * *
3525713 AGGTCTTATGGATGGCCCGAAGAACTTTTTGAAAACACCCTGCACTGTAGATCTTATGGATGACC
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCC
* *
3525778 CGAAGACTTTTTGAAAACA-CTTTGCACTGT
66 CGAAGGCTTTTTGAAAACATC-CTGCACTGT
* * *
3525808 AGGTTTTATGGATGGCCC-AAGGACTTTTTGAAAACATCCTGGACTATAGGTCTTATGGATGGCC
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCC
*
3525872 CGAAGGACTTTTTGAAAACATCCTGCACTAT
66 CGAAGG-CTTTTTGAAAACATCCTGCACTGT
* * * * *
3525903 AGGTCTTATGGATGACCCAAAGGACTTTTTGAAAACATCATGTACTGTAGGTCTTATAGATGGCC
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCC
* *
3525968 CGAAGGCTTTTTGAAAACATCCTACATTGT
66 CGAAGGCTTTTTGAAAACATCCTGCACTGT
* *
3525998 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTAATGAATGGCC
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCC
* *
3526063 CGAAGGACTTTTTGAAAACATCCTACACTAT
66 CGAAGG-CTTTTTGAAAACATCCTGCACTGT
* * * * *
3526094 AAGTCTTATGGATGGTCCGAAGGAC--TTT---AACATCTTGCACTGAAGGTCTTATGGATGACC
1 AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCC
3526154 CGAAGGCTTT
66 CGAAGGCTTT
3526164 AACATCTTGC
Statistics
Matches: 484, Mismatches: 53, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
90 4 0.01
91 33 0.07
94 82 0.17
95 260 0.54
96 105 0.22
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (95 bp):
AGGTCTTATGGATGGCCCGAAGGACTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCC
CGAAGGCTTTTTGAAAACATCCTGCACTGT
Found at i:3527701 original size:40 final size:39
Alignment explanation
Indices: 3527646--3527735 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 39
3527636 ATTGAAATGG
** * * **
3527646 GCTTTCAGCATGCCCCAGCATTTGCTTCTTGTTGATGTGA
1 GCTTTCAAAATGCCCCAACATTT-CTTCATACTGATGTGA
*
3527686 GCTTTCAAAATGCCCCAACATTTTTTCATACTGATGTGA
1 GCTTTCAAAATGCCCCAACATTTCTTCATACTGATGTGA
*
3527725 GCCTTCAAAAT
1 GCTTTCAAAAT
3527736 ACCCATATGG
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 22 0.52
40 20 0.48
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (39 bp):
GCTTTCAAAATGCCCCAACATTTCTTCATACTGATGTGA
Found at i:3532630 original size:21 final size:21
Alignment explanation
Indices: 3532606--3532645 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3532596 CAAAAATGTG
*
3532606 GATGTAAAATGAAAATGCAAA
1 GATGCAAAATGAAAATGCAAA
3532627 GATGCAAAATGAAAATGCA
1 GATGCAAAATGAAAATGCA
3532646 TGTATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.20, T:0.17
Consensus pattern (21 bp):
GATGCAAAATGAAAATGCAAA
Found at i:3532641 original size:27 final size:26
Alignment explanation
Indices: 3532567--3532643 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
3532557 AAATGTAACT
* *
3532567 ATGCAAAGATGCAAATGTAAATGCAA
1 ATGCAAAGATGCAAATGAAAATGAAA
* ***
3532593 ATGCAAAAATGTGGATGTAAAATGAAA
1 ATGCAAAGATGCAAATG-AAAATGAAA
3532620 ATGCAAAGATGCAAAATGAAAATG
1 ATGCAAAGATGC-AAATGAAAATG
3532644 CATGTATGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
26 13 0.33
27 23 0.59
28 3 0.08
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.19
Consensus pattern (26 bp):
ATGCAAAGATGCAAATGAAAATGAAA
Found at i:3532783 original size:42 final size:43
Alignment explanation
Indices: 3532724--3532804 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
3532714 TACATCAAAT
*
3532724 AAAACTTTACATATA-GGGATAGA-TTTCACTCCTAACTTTAAC
1 AAAACTTTACATATAGGGGATA-ACCTTCACTCCTAACTTTAAC
3532766 AAAACTTTACATATAGGGGATAACCTTCACTCCTAACTT
1 AAAACTTTACATATAGGGGATAACCTTCACTCCTAACTT
3532805 CTCTAAAGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
42 16 0.44
43 20 0.56
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (43 bp):
AAAACTTTACATATAGGGGATAACCTTCACTCCTAACTTTAAC
Found at i:3533324 original size:36 final size:36
Alignment explanation
Indices: 3533274--3533376 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
3533264 CCATAAAATG
* *
3533274 CTTTTGGTACCAATCTAACATGATCTTTGTGGAATA
1 CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
3533310 CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
1 CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
*
3533346 CTTTTGGTATCAATCTAACAGGATCATTGTG
1 CTTTTGGTATCAATCTAACAGGATCTTTGTG
3533377 TGCATAGCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (36 bp):
CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
Found at i:3534933 original size:2 final size:2
Alignment explanation
Indices: 3534926--3534956 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3534916 TTGAAACAAC
3534926 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3534957 TTATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3535087 original size:2 final size:2
Alignment explanation
Indices: 3535080--3535105 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3535070 ACAAATGAAG
3535080 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3535106 AGCATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.