Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 166 of 190
Found at i:26997025 original size:20 final size:19
Alignment explanation
Indices: 26997000--26997061 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
26996990 TTCGGTACAA
*
26997000 TTAAAATATTTTGAGAAATT
1 TTAAAATATTTT-AAAAATT
* *
26997020 TTAAAATATTTTTAACACTT
1 TTAAAATA-TTTTAAAAATT
26997040 TTAAAATATTTTAAAAAATT
1 TTAAAATATTTT-AAAAATT
26997060 TT
1 TT
26997062 CTTTTATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 27 0.77
21 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (19 bp):
TTAAAATATTTTAAAAATT
Found at i:26997030 original size:10 final size:10
Alignment explanation
Indices: 26997000--26997061 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
26996990 TTCGGTACAA
26997000 TTAAAATATT
1 TTAAAATATT
*
26997010 TTGAGAA-ATT
1 TT-AAAATATT
26997020 TTAAAATATTT
1 TTAAAATA-TT
* *
26997031 TTAACA-CTT
1 TTAAAATATT
26997040 TTAAAATATT
1 TTAAAATATT
*
26997050 TTAAAAAATT
1 TTAAAATATT
26997060 TT
1 TT
26997062 CTTTTATGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
9 10 0.24
10 21 0.51
11 10 0.24
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (10 bp):
TTAAAATATT
Found at i:27003993 original size:34 final size:35
Alignment explanation
Indices: 27003955--27004024 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
27003945 TAAATTATAC
27003955 AATATATTTAAAAAT-ATTA-AAATATTAATATAAA
1 AATATATTTAAAAATAATTATAAATATTAA-ATAAA
* *
27003989 AATATTTTTAATAATAATTATTAAATATTAAATAAA
1 AATATATTTAAAAATAATTA-TAAATATTAAATAAA
27004025 TAGGAAGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 13 0.42
35 4 0.13
36 5 0.16
37 9 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (35 bp):
AATATATTTAAAAATAATTATAAATATTAAATAAA
Found at i:27004199 original size:21 final size:21
Alignment explanation
Indices: 27004173--27004212 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27004163 CAAGTTTAGG
*
27004173 ACTAAAAAGATGGGCTAGCCA
1 ACTAAAAAGATGAGCTAGCCA
*
27004194 ACTAAAAATATGAGCTAGC
1 ACTAAAAAGATGAGCTAGC
27004213 GAGAGCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (21 bp):
ACTAAAAAGATGAGCTAGCCA
Found at i:27005969 original size:211 final size:211
Alignment explanation
Indices: 27005740--27006175 Score: 678
Period size: 211 Copynumber: 2.1 Consensus size: 211
27005730 AAAAGCTGAT
*
27005740 AGCAGTTCAGATTCTTCTTCTGATGATGATTCTGATGAGGATGATGTGAGTATTGAATTGAGGCT
1 AGCAGTTCAGATTCTTCTTCTGATGATGACTCTGATGAGGATGATGTGAGTATTGAATTGAGGCT
* * * *
27005805 AATGCTGGACAGAACACAATAATAACTATGCAAGCTAATAACTTGATCTTTGA-TGTTGAATTTT
66 AATGCTGGACAGAACACAATAATAACTATACAAACTAATAACTTAATCTTT-ATTGTTCAATTTT
* *
27005869 GATTTAGGAGCCTGCTGCAAAAATGAAAGTAGCAGCAGTGGTTAAAAGGGGCTCTGCACCTGTTC
130 GATATAGGAGCCTGCTGCAAAAATGAAAGTAGCAGCAGTGGTTAAAAAGGGCTCTGCACCTGTT-
27005934 A-GAAAGGAAAGTCCTCC
194 AGGAAAGGAAAGTCCTCC
*
27005951 AGCAGTTCAGATTCTTCTTCTGATGATGACTCTGATGAGGATGATGTTAGTATTGAATTGAGGCT
1 AGCAGTTCAGATTCTTCTTCTGATGATGACTCTGATGAGGATGATGTGAGTATTGAATTGAGGCT
* * * ** *
27006016 GATGCTGGACGGAACACAATAATTACTATACAAACTCTTGACTTAATCTTTATTGTTCAATTTTG
66 AATGCTGGACAGAACACAATAATAACTATACAAACTAATAACTTAATCTTTATTGTTCAATTTTG
* * *
27006081 ATATAGGAGCCTGCTGCAAAAATGAAGGTAGCAGCAGTGGTTAAAAATGTCTCTGCACCTGTTAG
131 ATATAGGAGCCTGCTGCAAAAATGAAAGTAGCAGCAGTGGTTAAAAAGGGCTCTGCACCTGTTAG
*
27006146 GAAAGGCAAGTCCTCC
196 GAAAGGAAAGTCCTCC
27006162 AGCAGTTCAGATTC
1 AGCAGTTCAGATTC
27006176 CTCAGATGAA
Statistics
Matches: 205, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
210 2 0.01
211 203 0.99
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (211 bp):
AGCAGTTCAGATTCTTCTTCTGATGATGACTCTGATGAGGATGATGTGAGTATTGAATTGAGGCT
AATGCTGGACAGAACACAATAATAACTATACAAACTAATAACTTAATCTTTATTGTTCAATTTTG
ATATAGGAGCCTGCTGCAAAAATGAAAGTAGCAGCAGTGGTTAAAAAGGGCTCTGCACCTGTTAG
GAAAGGAAAGTCCTCC
Found at i:27010334 original size:24 final size:23
Alignment explanation
Indices: 27010307--27010371 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
27010297 TGGTTCTGGC
27010307 AGTGGAAGAGGTGGTGGCA-GGAGT
1 AGTGGAAG-GGTGGTGG-ATGGAGT
27010331 AGTGGAAGGAGTGGTGGATGGAGT
1 AGTGGAAGG-GTGGTGGATGGAGT
*
27010355 GGTGGAAGGGATGGTGG
1 AGTGGAAGGG-TGGTGG
27010372 TGGCCGTGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 3 0.08
24 34 0.92
ACGTcount: A:0.23, C:0.02, G:0.57, T:0.18
Consensus pattern (23 bp):
AGTGGAAGGGTGGTGGATGGAGT
Found at i:27010371 original size:12 final size:12
Alignment explanation
Indices: 27010308--27010363 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
27010298 GGTTCTGGCA
27010308 GTGGAA-GAGGTG
1 GTGGAAGGA-GTG
* *
27010320 GTGGCAGGAGTA
1 GTGGAAGGAGTG
27010332 GTGGAAGGAGTG
1 GTGGAAGGAGTG
*
27010344 GTGGATGGAGTG
1 GTGGAAGGAGTG
27010356 GTGGAAGG
1 GTGGAAGG
27010364 GATGGTGGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
12 35 0.95
13 2 0.05
ACGTcount: A:0.23, C:0.02, G:0.57, T:0.18
Consensus pattern (12 bp):
GTGGAAGGAGTG
Found at i:27010382 original size:9 final size:9
Alignment explanation
Indices: 27010368--27010402 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
27010358 GGAAGGGATG
27010368 GTGGTGGCC
1 GTGGTGGCC
*
27010377 GTGGTGGTC
1 GTGGTGGCC
*
27010386 GTGGTGGTC
1 GTGGTGGCC
27010395 GTGGTGGC
1 GTGGTGGC
27010403 AGACATGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.00, C:0.14, G:0.57, T:0.29
Consensus pattern (9 bp):
GTGGTGGCC
Found at i:27015743 original size:1 final size:1
Alignment explanation
Indices: 27015704--27015728 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
27015694 TCCTTCTATC
27015704 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
27015729 CAGTTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:27018308 original size:29 final size:29
Alignment explanation
Indices: 27018245--27018302 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
27018235 ATCCATTAGA
27018245 GATTACATTCTGTTGTTGTTGGTGAATGT
1 GATTACATTCTGTTGTTGTTGGTGAATGT
*
27018274 GATTACATTCTTTTGTTGTTGGTGAATGT
1 GATTACATTCTGTTGTTGTTGGTGAATGT
27018303 ATTTACTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.07, G:0.26, T:0.50
Consensus pattern (29 bp):
GATTACATTCTGTTGTTGTTGGTGAATGT
Found at i:27024425 original size:23 final size:23
Alignment explanation
Indices: 27024394--27024439 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27024384 TAATCCTCAC
* *
27024394 ATGTTGCATCTTCAGGACCCAAA
1 ATGTAGCATCTTCAAGACCCAAA
*
27024417 ATGTAGCATGTTCAAGACCCAAA
1 ATGTAGCATCTTCAAGACCCAAA
27024440 TTAGAAAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (23 bp):
ATGTAGCATCTTCAAGACCCAAA
Found at i:27028211 original size:42 final size:44
Alignment explanation
Indices: 27028134--27028226 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 44
27028124 ATACATAAAT
* ** *
27028134 ATAATATTTTTATTAAGTTAATATTTTAAATTAAAA-T-ATTAA
1 ATAATAATTTTATTAAGTTAATATAATAAATTAAAATTAAATAA
27028176 ATAATAATTTTATTAA-TATAATA-AATAAATATAAAATTAAATAA
1 ATAATAATTTTATTAAGT-TAATATAATAAAT-TAAAATTAAATAA
27028220 ATAATAA
1 ATAATAA
27028227 ATACATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
41 6 0.14
42 25 0.58
43 1 0.02
44 11 0.26
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (44 bp):
ATAATAATTTTATTAAGTTAATATAATAAATTAAAATTAAATAA
Found at i:27030859 original size:29 final size:29
Alignment explanation
Indices: 27030802--27030861 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
27030792 AAACTATAAT
* * *
27030802 AAAATATTTAATATAATATTTGAACTTTA
1 AAAATATTTAATATAATACTTAAAATTTA
*
27030831 AAAATCTTTAATATAATACTTAAAATTTA
1 AAAATATTTAATATAATACTTAAAATTTA
27030860 AA
1 AA
27030862 TTTATTAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (29 bp):
AAAATATTTAATATAATACTTAAAATTTA
Found at i:27035003 original size:11 final size:11
Alignment explanation
Indices: 27034974--27035010 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
27034964 TTTTAAATTT
*
27034974 TATTACTTTTA
1 TATTATTTTTA
27034985 TA--ATTTTTA
1 TATTATTTTTA
27034994 TATTATTTTTA
1 TATTATTTTTA
27035005 TATTAT
1 TATTAT
27035011 GTCATCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:27035033 original size:18 final size:19
Alignment explanation
Indices: 27035000--27035038 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
27034990 TTTATATTAT
27035000 TTTTATATTATGTCATCATA
1 TTTTATATTATGTCAT-ATA
27035020 TTTTA-ATT-TGTCATATA
1 TTTTATATTATGTCATATA
27035037 TT
1 TT
27035039 ATAGGATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 3 0.16
20 5 0.26
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTATATTATGTCATATA
Found at i:27035097 original size:39 final size:39
Alignment explanation
Indices: 27035050--27035160 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
27035040 TAGGATGAAT
* * * *
27035050 ATTAATGAAGCGTCCATTTATTCAAAATCTGTAATATTA
1 ATTAATGAAGCATACATTTATCCAAAATCTATAATATTA
* **
27035089 ATTAATGAAGAATATTTTTATCCAAAATCTATAATATTA
1 ATTAATGAAGCATACATTTATCCAAAATCTATAATATTA
* *
27035128 ATTAATGAAGCCA-ATATTTATCCAAAATTTATA
1 ATTAATGAAG-CATACATTTATCCAAAATCTATA
27035161 TTTATACTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
39 60 0.98
40 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (39 bp):
ATTAATGAAGCATACATTTATCCAAAATCTATAATATTA
Found at i:27035352 original size:8 final size:9
Alignment explanation
Indices: 27035334--27035358 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27035324 AGCATTCTTA
27035334 TTTTAATTT
1 TTTTAATTT
27035343 TTTTAATTT
1 TTTTAATTT
27035352 TTTTAAT
1 TTTTAAT
27035359 AATCATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTAATTT
Found at i:27035770 original size:3 final size:3
Alignment explanation
Indices: 27035762--27035792 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27035752 AAAGTGAGGC
27035762 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27035793 AGAAGAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27038789 original size:16 final size:17
Alignment explanation
Indices: 27038757--27038789 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27038747 AAAAATAATA
27038757 TTAAAATAATAAATTTT
1 TTAAAATAATAAATTTT
*
27038774 TTAAAA-AATTAATTTT
1 TTAAAATAATAAATTTT
27038790 CAAAATCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATAATAAATTTT
Found at i:27040110 original size:86 final size:83
Alignment explanation
Indices: 27039957--27040112 Score: 224
Period size: 83 Copynumber: 1.8 Consensus size: 83
27039947 GATTTTGCTT
* * * * *
27039957 CTCTTAATTTTCGACAGTTCCCCAAAGGACGAACTGTCGCCAAGTAGAACTGGTTGCAAGACGGC
1 CTCTTAATTTTCGACAATTCCCCAAAGGACCAAATGTCGCCAAGTAGAACTGGTCGCAAGACAGC
27040022 CATTTTATATTGGTATTC
66 CATTTTATATTGGTATTC
27040040 CTCTTAATTTTCGACAATTCCCCAAAGGACCAAATGAAGTCGCC-AGTTAGAACTGGTCGCAAGA
1 CTCTTAATTTTCGACAATTCCCCAAAGGACCAAAT---GTCGCCAAG-TAGAACTGGTCGCAAGA
27040104 CAGCCATTT
62 CAGCCATTT
27040113 GGATTAGCAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
83 32 0.50
85 2 0.03
86 30 0.47
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (83 bp):
CTCTTAATTTTCGACAATTCCCCAAAGGACCAAATGTCGCCAAGTAGAACTGGTCGCAAGACAGC
CATTTTATATTGGTATTC
Found at i:27041472 original size:11 final size:11
Alignment explanation
Indices: 27041456--27041482 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27041446 TTTTAAAAAT
27041456 TAATTTTCTAA
1 TAATTTTCTAA
27041467 TAATTTTCTAA
1 TAATTTTCTAA
27041478 TAATT
1 TAATT
27041483 AGTTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATTTTCTAA
Found at i:27042861 original size:62 final size:62
Alignment explanation
Indices: 27042794--27042935 Score: 221
Period size: 62 Copynumber: 2.3 Consensus size: 62
27042784 TTATCAAATA
* *
27042794 ATTATCTGATTAGATATTTTTCTTTGACGAAAAAAGGTATAAAATACCAAAATTTAAATATT
1 ATTATCTGATTAGATATTTTCCTTTGACGAAAAAAGATATAAAATACCAAAATTTAAATATT
* * * * *
27042856 ATTATCTAATTAGATATTTTCCTTTGGCGGATAAATATATAAAATACCAAAATTTAAATATT
1 ATTATCTGATTAGATATTTTCCTTTGACGAAAAAAGATATAAAATACCAAAATTTAAATATT
27042918 ATTATCTGATTAGATATT
1 ATTATCTGATTAGATATT
27042936 ATCTATAGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 72 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (62 bp):
ATTATCTGATTAGATATTTTCCTTTGACGAAAAAAGATATAAAATACCAAAATTTAAATATT
Found at i:27042963 original size:62 final size:60
Alignment explanation
Indices: 27042831--27042948 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 60
27042821 CGAAAAAAGG
* * *
27042831 TATAAAATACCAAAATTTAAATATTATTATCTAATTAGATATTTTCCTTTGGCGGATAAATA
1 TATAAAATACCAAAATTTAAATATTATTATCTAATTAGATATTATCCTAT-G-AGATAAATA
*
27042893 TATAAAATACCAAAATTTAAATATTATTATCTGATTAGATATTAT-CTAT-AGATAAA
1 TATAAAATACCAAAATTTAAATATTATTATCTAATTAGATATTATCCTATGAGATAAA
27042949 ATTGTTATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
58 6 0.12
61 3 0.06
62 43 0.83
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (60 bp):
TATAAAATACCAAAATTTAAATATTATTATCTAATTAGATATTATCCTATGAGATAAATA
Found at i:27047752 original size:21 final size:21
Alignment explanation
Indices: 27047662--27047753 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
27047652 TTGATTGAAT
*
27047662 TAATTTTGGTAACCCTTAATA
1 TAATTTTGGTAACCTTTAATA
* * *
27047683 CACTTTTGGTAACCTTTGATA
1 TAATTTTGGTAACCTTTAATA
* * *
27047704 AAATTATGGTAA-CTTTTATA
1 TAATTTTGGTAACCTTTAATA
*
27047724 TAATTTTTGGCAACCTTTAATA
1 TAA-TTTTGGTAACCTTTAATA
27047746 TAATTTTG
1 TAATTTTG
27047754 ATTTCGATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
20 9 0.16
21 38 0.67
22 10 0.18
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (21 bp):
TAATTTTGGTAACCTTTAATA
Found at i:27053913 original size:17 final size:16
Alignment explanation
Indices: 27053887--27053932 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
27053877 GAAAGTTATG
*
27053887 TAATTCTATAATTAAA
1 TAATTTTATAATTAAA
27053903 TTAATTTTATAATTAAA
1 -TAATTTTATAATTAAA
*
27053920 TCATTTTA-AATTA
1 TAATTTTATAATTA
27053933 TTGTGAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 5 0.19
16 7 0.26
17 15 0.56
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTATAATTAAA
Found at i:27054319 original size:15 final size:16
Alignment explanation
Indices: 27054299--27054331 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27054289 CTAGAATTAA
27054299 AATAAT-TATAAAATT
1 AATAATATATAAAATT
27054314 AATAATATATAAAATT
1 AATAATATATAAAATT
27054330 AA
1 AA
27054332 CAAAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATATATAAAATT
Found at i:27058856 original size:62 final size:62
Alignment explanation
Indices: 27058742--27058898 Score: 167
Period size: 62 Copynumber: 2.5 Consensus size: 62
27058732 TAATCCACGA
* * ** *
27058742 ATTATTGAAGATA-TTTTTGCCTAAAAATGCCTTCAATAATCTTATCTAAAAAATT-ATAGGTG
1 ATTATTGAAGATATTTTTTGTC-AAAAATACCTTCAATAATCCCATCTAAAAAATTGAAAGG-G
*
27058804 ATTATTGAAGGTATTTTTTGTCAAAAATACCTTCAATAATCCCAT-TATAAAAATTGAAAGGG
1 ATTATTGAAGATATTTTTTGTCAAAAATACCTTCAATAATCCCATCTA-AAAAATTGAAAGGG
* ** * *
27058866 ATTATTTAAGCCATTTTTTGTCATAAACACCTT
1 ATTATTGAAGATATTTTTTGTCAAAAATACCTT
27058899 AACTAACCCT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
61 2 0.02
62 68 0.84
63 11 0.14
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (62 bp):
ATTATTGAAGATATTTTTTGTCAAAAATACCTTCAATAATCCCATCTAAAAAATTGAAAGGG
Found at i:27059189 original size:126 final size:125
Alignment explanation
Indices: 27058826--27059219 Score: 384
Period size: 125 Copynumber: 3.1 Consensus size: 125
27058816 ATTTTTTGTC
* * * **
27058826 AAAAATACCTTCAATAATCCCATTATAAAAATTGAAA-GGGATTATTTAAGCCATTTTTTGTCAT
1 AAAAATACCTTCAATAATCTCATCATAAAAATT-AAAGGGGATTATTCAAGGTATTTTTTGTCAT
* * * * * * **
27058890 AAACACCTTAACTAA-CCCTTTTCGATTTTTTTTAAGGGATTATGTAAGGTGTTATTTGGCT
65 AAACGCCTTGACTAATCCC-ATTCAATTTTTTTTAAAGGATTATGCAAGGCATTATTTGGCT
* * * * * ** * *
27058951 AAAAATGCATTTAATAATCTCATCATAAAAGTTAACGGCAATTATTCAATGTGTTTTTTGTCATA
1 AAAAATACCTTCAATAATCTCATCATAAAAATTAAAGGGGATTATTCAAGGTATTTTTTGTCATA
* * *
27059016 AATGCCTTGACTAATCCCATTCAATTTTTTTTAAAGGATAATGCAAGGCATT-TTCTGGTT
66 AACGCCTTGACTAATCCCATTCAATTTTTTTTAAAGGATTATGCAAGGCATTATT-TGGCT
* * * *
27059076 AAAAACACCTTCAATAATCTTATCATAAAAATTAAAAGGGGATTATTCAAGGTATTTTTAGCCAT
1 AAAAATACCTTCAATAATCTCATCATAAAAATT-AAAGGGGATTATTCAAGGTATTTTTTGTCAT
* * * **
27059141 AAACGCCTTGACTAATCCCATTCAATTTTTTCTAAAGAATTATACAAGGTGTT-TTTCGG-T
65 AAACGCCTTGACTAATCCCATTCAATTTTTTTTAAAGGATTATGCAAGGCATTATTT-GGCT
*
27059201 AAAAAATGCCTTCAATAAT
1 -AAAAATACCTTCAATAAT
27059220 AAAAAAAAGA
Statistics
Matches: 216, Mismatches: 47, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
124 4 0.02
125 119 0.55
126 93 0.43
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (125 bp):
AAAAATACCTTCAATAATCTCATCATAAAAATTAAAGGGGATTATTCAAGGTATTTTTTGTCATA
AACGCCTTGACTAATCCCATTCAATTTTTTTTAAAGGATTATGCAAGGCATTATTTGGCT
Found at i:27061215 original size:21 final size:21
Alignment explanation
Indices: 27061189--27061240 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
27061179 GTTACGAGTT
27061189 ATTGCTGTTGATCATTCAAG-C
1 ATTGCTGTTGATCA-TCAAGTC
* *
27061210 ATTGCTCTTGGTCATCAAGTC
1 ATTGCTGTTGATCATCAAGTC
*
27061231 TTTGCTGTTG
1 ATTGCTGTTG
27061241 TTGCTCAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (21 bp):
ATTGCTGTTGATCATCAAGTC
Found at i:27063129 original size:8 final size:7
Alignment explanation
Indices: 27063108--27063140 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
27063098 TGGTTTTGTT
27063108 AATAAAA
1 AATAAAA
27063115 AATAAAA
1 AATAAAA
27063122 AATAAAA
1 AATAAAA
27063129 AATGAAAA
1 AAT-AAAA
27063137 AATA
1 AATA
27063141 GGTGTTGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:27064103 original size:17 final size:15
Alignment explanation
Indices: 27064073--27064115 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
27064063 ATATATTTTC
27064073 AATAAAAAATATAAA
1 AATAAAAAATATAAA
*
27064088 AATATAAAAATAATAAT
1 AATA-AAAAAT-ATAAA
27064105 AATAAATAAAT
1 AATAAA-AAAT
27064116 CTTTTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 8 0.33
17 12 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAAAAATATAAA
Found at i:27067669 original size:18 final size:19
Alignment explanation
Indices: 27067654--27067696 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
27067644 GATAAAAAGT
27067654 GAAAAAAAG-AAGAAAAAA
1 GAAAAAAAGCAAGAAAAAA
*
27067672 GAATAAAAGCAAGAAAAAA
1 GAAAAAAAGCAAGAAAAAA
27067691 GAAAAA
1 GAAAAA
27067697 TGAATGCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (19 bp):
GAAAAAAAGCAAGAAAAAA
Found at i:27068046 original size:9 final size:8
Alignment explanation
Indices: 27068031--27068073 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
27068021 ACTGATGGAT
27068031 GAAAAAAA
1 GAAAAAAA
27068039 GAAAAAAA
1 GAAAAAAA
27068047 G--AAAAA
1 GAAAAAAA
*
27068053 GAAAAAAG
1 GAAAAAAA
27068061 GAAAAAAA
1 GAAAAAAA
27068069 TGAAA
1 -GAAA
27068074 TGAAAAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.20
8 20 0.67
9 4 0.13
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
GAAAAAAA
Found at i:27068053 original size:14 final size:14
Alignment explanation
Indices: 27068034--27068066 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
27068024 GATGGATGAA
27068034 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
*
27068048 AAAAAGAAAAAAGG
1 AAAAAGAAAAAAAG
27068062 AAAAA
1 AAAAA
27068067 AATGAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:27068059 original size:22 final size:22
Alignment explanation
Indices: 27068031--27068099 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
27068021 ACTGATGGAT
27068031 GAAAAAAAGAAAAAAAGAAAAA
1 GAAAAAAAGAAAAAAAGAAAAA
* *
27068053 GAAAAAAGGAAAAAAATG-AAAT
1 GAAAAAAAGAAAAAAA-GAAAAA
*
27068075 GAAAAAATGAAAAAAA-ATAAAA
1 GAAAAAAAGAAAAAAAGA-AAAA
27068097 GAA
1 GAA
27068100 TGGGAAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 39 0.98
23 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (22 bp):
GAAAAAAAGAAAAAAAGAAAAA
Found at i:27068082 original size:8 final size:8
Alignment explanation
Indices: 27068029--27068089 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 8
27068019 TCACTGATGG
27068029 ATGAAAAA
1 ATGAAAAA
*
27068037 AAGAAAAA
1 ATGAAAAA
*
27068045 AAG-AAAA
1 ATGAAAAA
27068052 A-GAAAAA
1 ATGAAAAA
*
27068059 AGGAAAAAA
1 ATG-AAAAA
27068068 ATG---AA
1 ATGAAAAA
27068073 ATGAAAAA
1 ATGAAAAA
27068081 ATGAAAAA
1 ATGAAAAA
27068089 A
1 A
27068090 AATAAAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
5 5 0.11
6 1 0.02
7 10 0.22
8 22 0.49
9 7 0.16
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.07
Consensus pattern (8 bp):
ATGAAAAA
Found at i:27069293 original size:25 final size:24
Alignment explanation
Indices: 27069256--27069616 Score: 199
Period size: 25 Copynumber: 15.5 Consensus size: 24
27069246 ATTATGAATC
27069256 CTTAAATGAGAATCTTTAAAAAATT
1 CTTAAATGAGAATCTTT-AAAAATT
* * *
27069281 CTCAAATGAGAATCTTT---GAGT
1 CTTAAATGAGAATCTTTAAAAATT
* * *
27069302 CTTAAATGAAAATCATTAAGAAATC
1 CTTAAATGAGAATCTTTAA-AAATT
* *
27069327 CTTAAATGAGAATCTTT--GAGTT
1 CTTAAATGAGAATCTTTAAAAATT
* *
27069349 CTTAAATGAAAATCTTTAAGAAATC
1 CTTAAATGAGAATCTTTAA-AAATT
* * * * *
27069374 CTCAAGTAAGAATCTTT--GAGTT
1 CTTAAATGAGAATCTTTAAAAATT
27069396 CTTAAATGAGAATCTTTAAAGAATT
1 CTTAAATGAGAATCTTTAAA-AATT
* *
27069421 -TTCAAATGAGAATCTTT--GAGTT
1 CTT-AAATGAGAATCTTTAAAAATT
*
27069443 CTTAAAT-AGAAT-TTCTAATAAATC
1 CTTAAATGAGAATCTT-TAA-AAATT
* *
27069467 CTCAGATGAGAATCTTT--AAA-T
1 CTTAAATGAGAATCTTTAAAAATT
**
27069488 CTTAAATGAGAATCTTTAAGAAAAC
1 CTTAAATGAGAATCTTTAA-AAATT
* * *
27069513 CTCAAATGAGAATCTGT--AAGTT
1 CTTAAATGAGAATCTTTAAAAATT
27069535 -TTAAATGAGAATCTTTAAGAAA-T
1 CTTAAATGAGAATCTTTAA-AAATT
* *
27069558 CTTCAAATGAGAATCTTT---GAGT
1 CTT-AAATGAGAATCTTTAAAAATT
*
27069580 CTTAAATAAGAATCTTTAAGAAATT
1 CTTAAATGAGAATCTTTAA-AAATT
* *
27069605 TTTAAATAAGAA
1 CTTAAATGAGAA
27069617 ATCCTCATAT
Statistics
Matches: 250, Mismatches: 54, Indels: 64
0.68 0.15 0.17
Matches are distributed among these distances:
20 2 0.01
21 65 0.26
22 50 0.20
23 3 0.01
24 16 0.06
25 112 0.45
26 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (24 bp):
CTTAAATGAGAATCTTTAAAAATT
Found at i:27069368 original size:47 final size:47
Alignment explanation
Indices: 27069256--27069749 Score: 466
Period size: 46 Copynumber: 10.4 Consensus size: 47
27069246 ATTATGAATC
* *
27069256 CTTAAATGAGAATCTTTAAAAAATTCTCAAATGAGAATCTTTGAG-T
1 CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTT
* * *
27069302 CTTAAATGAAAATCATTAAGAAATCCTTAAATGAGAATCTTTGAGTT
1 CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTT
* * *
27069349 CTTAAATGAAAATCTTTAAGAAATCCTCAAGTAAGAATCTTTGAGTT
1 CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTT
**
27069396 CTTAAATGAGAATCTTTAA-AGAATTTTCAAATGAGAATCTTTGAGTT
1 CTTAAATGAGAATCTTTAAGA-AATCCTCAAATGAGAATCTTTGAGTT
* * **
27069443 CTTAAAT-AGAAT-TTCTAATAAATCCTCAGATGAGAATCTTT-AAAT
1 CTTAAATGAGAATCTT-TAAGAAATCCTCAAATGAGAATCTTTGAGTT
* * *
27069488 CTTAAATGAGAATCTTTAAGAAAACCTCAAATGAGAATCTGTAAGTT
1 CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTT
*
27069535 -TTAAATGAGAATCTTTAAGAAATCTTCAAATGAGAATCTTTGAG-T
1 CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTT
* ** * *
27069580 CTTAAATAAGAATCTTTAAGAAATTTTTAAATAAGAAATCCTCATATGAGAATCTTTGAGT
1 CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAG-AAT-CT--T-TGAG------T---T
* * * * * *
27069641 CTTAAATAAGAATATTTAAGAAATTCTCAAATGAAAATTTTTAAG-T
1 CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTT
* * ** *
27069687 CTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATAATTAAGTT
1 CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTT
*
27069734 -TCAAATGAGAATCTTT
1 CTTAAATGAGAATCTTT
27069750 GAGTATTTAA
Statistics
Matches: 375, Mismatches: 49, Indels: 48
0.79 0.10 0.10
Matches are distributed among these distances:
45 12 0.03
46 217 0.58
47 100 0.27
48 2 0.01
50 1 0.00
51 4 0.01
56 3 0.01
57 1 0.00
59 1 0.00
60 3 0.01
61 31 0.08
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (47 bp):
CTTAAATGAGAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTT
Found at i:27069629 original size:61 final size:61
Alignment explanation
Indices: 27069550--27069665 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 61
27069540 TGAGAATCTT
* *
27069550 TAAGAAATCTTCAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGAAATTTTTAAA
1 TAAGAAATCCTCAAATGAGAATCTTTGAGTCTTAAATAAGAATATTTAAGAAATTTTTAAA
*
27069611 TAAGAAATCCTCATATGAGAATCTTTGAGTCTTAAATAAGAATATTTAAGAAATT
1 TAAGAAATCCTCAAATGAGAATCTTTGAGTCTTAAATAAGAATATTTAAGAAATT
27069666 CTCAAATGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (61 bp):
TAAGAAATCCTCAAATGAGAATCTTTGAGTCTTAAATAAGAATATTTAAGAAATTTTTAAA
Found at i:27069646 original size:107 final size:107
Alignment explanation
Indices: 27069504--27069710 Score: 290
Period size: 107 Copynumber: 1.9 Consensus size: 107
27069494 TGAGAATCTT
* * *
27069504 TAAGAAAACCTCAAATGAGAATCTGTAAGTTTTAAATGAGAATCTTTAAGAAA-TCTTCAAATGA
1 TAAGAAAACCTCAAATGAGAATCTGTAAGTCTTAAATAAGAATATTTAAGAAATTC-TCAAATGA
* * *
27069568 GAATCTTTGAGTCTTAAATAAGAATCTTTAAGAAATTTTTAAA
65 AAATCTTTAAGTCTTAAATAAGAATCTTTAAAAAATTTTTAAA
* * * *
27069611 TAAGAAATCCTCATATGAGAATCTTTGAGTCTTAAATAAGAATATTTAAGAAATTCTCAAATGAA
1 TAAGAAAACCTCAAATGAGAATCTGTAAGTCTTAAATAAGAATATTTAAGAAATTCTCAAATGAA
* *
27069676 AATTTTTAAGTCTTAAATGAGAATCTTTAAAAAAT
66 AATCTTTAAGTCTTAAATAAGAATCTTTAAAAAAT
27069711 CTTCAAATGA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 85 0.98
108 2 0.02
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (107 bp):
TAAGAAAACCTCAAATGAGAATCTGTAAGTCTTAAATAAGAATATTTAAGAAATTCTCAAATGAA
AATCTTTAAGTCTTAAATAAGAATCTTTAAAAAATTTTTAAA
Found at i:27069736 original size:21 final size:21
Alignment explanation
Indices: 27069625--27069789 Score: 93
Period size: 21 Copynumber: 7.4 Consensus size: 21
27069615 AAATCCTCAT
* *
27069625 ATGAGAATCTTTGAGTCTT-AA
1 ATGAGAATATTTAAGT-TTCAA
*
27069646 ATAAGAATATTTAAGAAATTCTCAA
1 ATGAGAATATTTAAG---TT-TCAA
* *
27069671 ATGAAAATTTTTAAGTCTT-AA
1 ATGAGAATATTTAAGT-TTCAA
* *
27069692 ATGAGAATCTTTAAAAAATCTTCAA
1 ATGAGAATATTT---AAGT-TTCAA
*
27069717 ATGAGAATAATTAAGTTTCAA
1 ATGAGAATATTTAAGTTTCAA
* * *
27069738 ATGAGAATCTTTGAGTATTTAA
1 ATGAGAATATTTAAGT-TTCAA
27069760 ATGAGAA-ATTTTAAGGTTTCAA
1 ATGAGAATA-TTTAA-GTTTCAA
27069782 ATGAGAAT
1 ATGAGAAT
27069790 CTTTGATATG
Statistics
Matches: 111, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
21 42 0.38
22 31 0.28
23 4 0.04
24 8 0.07
25 26 0.23
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (21 bp):
ATGAGAATATTTAAGTTTCAA
Found at i:27069745 original size:153 final size:153
Alignment explanation
Indices: 27069462--27069749 Score: 416
Period size: 153 Copynumber: 1.9 Consensus size: 153
27069452 AATTTCTAAT
* * *
27069462 AAATCCTCAGATGAGAATCTTTAAATCTTAAATGAGAATCTTTAAGAAAACCTCAAATGAGAATC
1 AAATCCTCAGATGAGAATCTTTAAATCTTAAATAAGAATATTTAAGAAAACCTCAAATGAAAATC
* * ** *
27069527 TGTAAGTTTTAAATGAGAATCTTTAAGAAATCTTCAAATGAGAATCTTTGAGTCTTAAATAAGAA
66 TGTAAGTCTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATAATTAAGTCTTAAATAAGAA
27069592 TCTTTAAGAAATTTTTAAATAAG
131 TCTTTAAGAAATTTTTAAATAAG
* * * ** *
27069615 AAATCCTCATATGAGAATCTTTGAGTCTTAAATAAGAATATTTAAGAAATTCTCAAATGAAAATT
1 AAATCCTCAGATGAGAATCTTTAAATCTTAAATAAGAATATTTAAGAAAACCTCAAATGAAAATC
* *
27069680 TTTAAGTCTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATAATTAAGT-TTCAAATGAGA
66 TGTAAGTCTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATAATTAAGTCTT-AAATAAGA
27069744 ATCTTT
130 ATCTTT
27069750 GAGTATTTAA
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
152 2 0.02
153 116 0.98
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (153 bp):
AAATCCTCAGATGAGAATCTTTAAATCTTAAATAAGAATATTTAAGAAAACCTCAAATGAAAATC
TGTAAGTCTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATAATTAAGTCTTAAATAAGAA
TCTTTAAGAAATTTTTAAATAAG
Found at i:27070081 original size:20 final size:20
Alignment explanation
Indices: 27070048--27070086 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27070038 GAGATTTATT
*
27070048 GAATGTGAACCTTTGAACTC
1 GAATGAGAACCTTTGAACTC
*
27070068 GAATGAGAAGCTTTGAACT
1 GAATGAGAACCTTTGAACT
27070087 TTTGGATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (20 bp):
GAATGAGAACCTTTGAACTC
Found at i:27070098 original size:42 final size:42
Alignment explanation
Indices: 27070050--27070144 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
27070040 GATTTATTGA
** * *
27070050 ATGTGAACCTT-TGAACTCGAATGAGAAGCTTTGAACTTTTGG
1 ATGTGAACCTTCAAAACTCGAATGAGAAGCTTT-AAATGTTGG
* * *
27070092 ATGTGAATCTTCAAAATTCGAATGAGAATCTTTAAATGTTGG
1 ATGTGAACCTTCAAAACTCGAATGAGAAGCTTTAAATGTTGG
27070134 ATGTGAACCTT
1 ATGTGAACCTT
27070145 GCAATTTGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 27 0.61
43 17 0.39
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
ATGTGAACCTTCAAAACTCGAATGAGAAGCTTTAAATGTTGG
Found at i:27070230 original size:16 final size:16
Alignment explanation
Indices: 27070206--27070243 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27070196 ATGCCAATCT
27070206 TGAAATCTTGCAAATA
1 TGAAATCTTGCAAATA
* *
27070222 TGAATTCTTGCATATA
1 TGAAATCTTGCAAATA
27070238 TGAAAT
1 TGAAAT
27070244 TTTGTGAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (16 bp):
TGAAATCTTGCAAATA
Found at i:27070546 original size:42 final size:42
Alignment explanation
Indices: 27070429--27070554 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 42
27070419 TGAGCCTTAT
* *
27070429 TTTATTTTTCAAAAGTTGTTGAGCCTCTGATTGTAG-GAGCCTT
1 TTTATTTTTTAAAAGTTGTTGAGCCTCTG-TT-TAGAGAGCCTC
* * * *
27070472 TTTATTTTTT-AAAGTTGTTAAGCTTTTATTTAGAAGAGCC-C
1 TTTATTTTTTAAAAGTTGTTGAGCCTCTGTTTAG-AGAGCCTC
*
27070513 TTTATTTTTTAAAAGTTGTTGTGCCTCTGTTTAGAGGAGCCT
1 TTTATTTTTTAAAAGTTGTTGAGCCTCTGTTTAGA-GAGCCT
27070555 TCCAGTGACT
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
40 3 0.04
41 13 0.19
42 42 0.63
43 9 0.13
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (42 bp):
TTTATTTTTTAAAAGTTGTTGAGCCTCTGTTTAGAGAGCCTC
Found at i:27072124 original size:281 final size:287
Alignment explanation
Indices: 27071740--27072830 Score: 770
Period size: 294 Copynumber: 3.8 Consensus size: 287
27071730 GAGATTATTG
* * * * *
27071740 AAGGCATTTTTGGC-AAAAAATGACTTTAATAATCTAGG-TATTATTCAAGGTA-TTTTTGGCTA
1 AAGGCATTTTTAGCAAAAAAACGTCTTCAATAATCTAGGAT-TTATTCAAGGTATTTTTTGTCTA
* * * * * *
27071802 GAAACACCTTCAATTACCCATTCAATATTTTTTTGGGGAATATTAAAGGTATTTTCTAGGCAAAA
65 GAAACGCCTTCAATAACCCATGCAATA-TTTTTTAGGGAATATTGAAGGCATTTTCTAGGCAAAA
* *** *
27071867 ACACATTCAATAATCTCATCATAAACGTCTGAAAAG-ATTATT-GAAGCCATTTTATCACAAAAA
129 ACACCTTCAATAATCTCATCATAAAAACCTGAAAAGAATTATTCAAAG-CATTTTATCACAAAAA
* * ** * * *
27071930 -GCTTTGAATGATCCAAAAAAAAATGAGATGGGATTATTAAAGGCATTTTT-TG-C-T-AGTGAT
193 TGCCTTAAATGATCCAAAAAAAAATGAGATGAAATTATTAAAGGCATTTTTAAGACATAAGTAAA
*
27071990 CCCCTCAAAAAAAATTGAATGGGATTATTA
258 CCCCTCAAAAAAAATTGAATGGGATTACTA
* * * * *
27072020 AGGGCATTTTTAGC-CAAAAACGTCTTCAATAAT-TCATGATTTATTCAAGGCATTTTTTATCTA
1 AAGGCATTTTTAGCAAAAAAACGTCTTCAATAATCT-AGGATTTATTCAAGGTATTTTTTGTCTA
* *
27072083 GAAACGCTTTCAATAACCCTATGCAATATTTTTTAGGGAATATTGAAGGCGTTTTCTAGGCAAAA
65 GAAACGCCTTCAATAACCC-ATGCAATATTTTTTAGGGAATATTGAAGGCATTTTCTAGGCAAAA
* ** * ** * *
27072148 ACACCTTTAATAATCTTGTTATAAAAACCTGAAGGGAATTATTCAAAGCGTTTTATCATAAAAAT
129 ACACCTTCAATAATCTCATCATAAAAACCTGAAAAGAATTATTCAAAGCATTTTATCACAAAAAT
* *
27072213 GCCTTAAATGATCCTAAAAAAAATGAGATGAAATTATTAAAGGTATTTTTGACAGAAAACACATT
194 GCCTTAAATGATCCAAAAAAAAATGAGATGAAATTATTAAAGGCATTTTT-A-AG-----ACA-T
*
27072278 AAGTAAACCCCTCAAAAAATATTGAATGGGATTACTA
251 AAGTAAACCCCTCAAAAAAAATTGAATGGGATTACTA
** *
27072315 AAGGTGTTTTTAGCAAAAAAATGTCTTCAATAATCTAGGATTTATTCAAGGTATTTTTTGTC-AG
1 AAGGCATTTTTAGCAAAAAAACGTCTTCAATAATCTAGGATTTATTCAAGGTATTTTTTGTCTAG
* * ** * * *
27072379 AAATGCCTTCAATAACCCCAAGCAAT-TTTTTTAAAGAATATTGAAGGCATTTTTTGGGTAAAAA
66 AAACGCCTTCAATAA-CCCATGCAATATTTTTTAGGGAATATTGAAGGCATTTTCTAGGCAAAAA
** ** * * *
27072443 TGCCTTCAATAATCTCATCATAAATGCCT-AAAGGGGAA-TATTCAAGGCATTTTATCATAAAAA
130 CACCTTCAATAATCTCATCATAAAAACCTGAAA--AGAATTATTCAAAGCATTTTATCACAAAAA
* * * ** *** ** **** ** * * ** *
27072506 TGTCTTCAATAATCTTATCCAATTTTTTTTGGGATCATTCAAGATATTTTTGACAGAAAACGCCT
193 TGCCTTAAATGATCCAAAAAAAAATGAGATGAAATTATTAAAGGCATTTTT-A-AG---A---CA
* * * *
27072571 TAAATAATCCCCTTC--AAAAAATTGGATGGGATTATTA
250 TAAGTAAACCCC-TCAAAAAAAATTGAATGGGATTACTA
** * * * * * *
27072608 AAGGTGTTTTTA--ATCAAAAACG-CATTCAATAATCCATGATTTATTCAAGGCATTTTTGGT-A
1 AAGGCATTTTTAGCA-AAAAAACGTC-TTCAATAATCTAGGATTTATTCAAGGTATTTTTTGTCT
* ** * * * *
27072669 AAAAATACTTTCAATAACTCCATTCAATATTTTTTTAAGGAATATTGAGGGCATTTTCT-GGCCA
64 AGAAACGCCTTCAATAAC-CCATGCAATA-TTTTTTAGGGAATATTGAAGGCATTTTCTAGG-CA
** * * * * *
27072733 AAAACACCTTCAATAATCTCATCATAAACGCCTGAAGAGGATTATTTAAAACGTTTTATCACAAA
126 AAAACACCTTCAATAATCTCATCATAAAAACCTGAAAAGAATTATTCAAAGCATTTTATCACAAA
* * *
27072798 AATGCCTTGAATGATCCCACAAAAAATGAGATG
191 AATGCCTTAAATGATCCAAAAAAAAATGAGATG
27072831 GGATTATTGC
Statistics
Matches: 639, Mismatches: 135, Indels: 60
0.77 0.16 0.07
Matches are distributed among these distances:
279 1 0.00
280 40 0.06
281 84 0.13
282 27 0.04
283 47 0.07
286 1 0.00
291 3 0.00
292 63 0.10
293 37 0.06
294 219 0.34
295 73 0.11
296 43 0.07
297 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (287 bp):
AAGGCATTTTTAGCAAAAAAACGTCTTCAATAATCTAGGATTTATTCAAGGTATTTTTTGTCTAG
AAACGCCTTCAATAACCCATGCAATATTTTTTAGGGAATATTGAAGGCATTTTCTAGGCAAAAAC
ACCTTCAATAATCTCATCATAAAAACCTGAAAAGAATTATTCAAAGCATTTTATCACAAAAATGC
CTTAAATGATCCAAAAAAAAATGAGATGAAATTATTAAAGGCATTTTTAAGACATAAGTAAACCC
CTCAAAAAAAATTGAATGGGATTACTA
Found at i:27072501 original size:294 final size:293
Alignment explanation
Indices: 27071990--27072830 Score: 895
Period size: 294 Copynumber: 2.9 Consensus size: 293
27071980 TGCTAGTGAT
* **
27071990 CCCCTCAAAAAAAATTGAATGGGATTATTAAGGGCATTTTTAGC-CAAAAACGTCTTCAATAAT-
1 CCCCTC-AAAAAAATTGAATGGGATTATTAAAGGTGTTTTTAGCACAAAAACGTCTTCAATAATC
* * *
27072053 TCATGATTTATTCAAGGCATTTTTTATCTAGAAACGCTTTCAATAACCCTATGCAATATTTTTTA
65 T-ATGATTTATTCAAGGCATTTTTTGTC-AGAAATGCTTTCAATAACCCCATGCAAT-TTTTTTA
* * * * ** * *
27072118 GGGAATATTGAAGGCGTTTTCTAGGCAAAAACACCTTTAATAATCTTGTTATAAAAACCTGAA-G
127 AGGAATATTGAAGGCATTTTCTGGGCAAAAACACCTTCAATAATCTCATCATAAAAGCCTGAAGG
27072182 GGAATTATTCAAAGCGTTTTATCATAAAAATGCCTTAAATGATCCTAAAAAAAATGAGATGAAAT
192 GGAA-TATTCAAAGCGTTTTATCATAAAAATGCCTTAAATGATCCTAAAAAAAATGAGATGAAAT
* * *
27072247 TATTAAAGGTATTTTTGACAGAAAACACATTAAGTAAA
256 CATTAAAGATATTTTTGACAGAAAACACATTAAATAAA
* * *
27072285 CCCCTCAAAAAATATTGAATGGGATTACTAAAGGTGTTTTTAGCAAAAAAATGTCTTCAATAATC
1 CCCCTCAAAAAA-ATTGAATGGGATTATTAAAGGTGTTTTTAGCACAAAAACGTCTTCAATAATC
* * * * *
27072350 TAGGATTTATTCAAGGTATTTTTTGTCAGAAATGCCTTCAATAACCCCAAGCAATTTTTTTAAAG
65 TATGATTTATTCAAGGCATTTTTTGTCAGAAATGCTTTCAATAACCCCATGCAATTTTTTTAAGG
* * ** * *
27072415 AATATTGAAGGCATTTTTTGGGTAAAAATGCCTTCAATAATCTCATCATAAATGCCTAAAGGGGA
130 AATATTGAAGGCATTTTCTGGGCAAAAACACCTTCAATAATCTCATCATAAAAGCCTGAAGGGGA
* * * * * * *** ** **** **
27072480 ATATTCAAGGCATTTTATCATAAAAATGTCTTCAATAATCTTATCCAATTTTTTTTGGGATCATT
195 ATATTCAAAGCGTTTTATCATAAAAATGCCTTAAATGATCCTAAAAAAAATGAGATGAAATCATT
* * * *
27072545 CAAGATATTTTTGACAGAAAACGCCTTAAATAAT
260 AAAGATATTTTTGACAGAAAACACATTAAATAAA
*
27072579 CCCCTTC-AAAAAATTGGATGGGATTATTAAAGGTGTTTTTA--ATCAAAAACG-CATTCAATAA
1 CCCC-TCAAAAAAATTGAATGGGATTATTAAAGGTGTTTTTAGCA-CAAAAACGTC-TTCAATAA
* * * * * * *
27072640 TCCATGATTTATTCAAGGCATTTTTGGTAAAAAATACTTTCAATAACTCCATTCAATATTTTTTT
63 TCTATGATTTATTCAAGGCATTTTTTGTCAGAAATGCTTTCAATAACCCCATGC-A-ATTTTTTT
* * *
27072705 AAGGAATATTGAGGGCATTTTCTGGCCAAAAACACCTTCAATAATCTCATCATAAACGCCTGAAG
126 AAGGAATATTGAAGGCATTTTCTGGGCAAAAACACCTTCAATAATCTCATCATAAAAGCCTGAAG
* * * * * * * *
27072770 AGGATTATTTAAAACGTTTTATCACAAAAATGCCTTGAATGATCCCACAAAAAATGAGATG
191 GGGAATATTCAAAGCGTTTTATCATAAAAATGCCTTAAATGATCCTAAAAAAAATGAGATG
27072831 GGATTATTGC
Statistics
Matches: 440, Mismatches: 97, Indels: 19
0.79 0.17 0.03
Matches are distributed among these distances:
291 2 0.00
292 57 0.13
293 28 0.06
294 248 0.56
295 64 0.15
296 40 0.09
297 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (293 bp):
CCCCTCAAAAAAATTGAATGGGATTATTAAAGGTGTTTTTAGCACAAAAACGTCTTCAATAATCT
ATGATTTATTCAAGGCATTTTTTGTCAGAAATGCTTTCAATAACCCCATGCAATTTTTTTAAGGA
ATATTGAAGGCATTTTCTGGGCAAAAACACCTTCAATAATCTCATCATAAAAGCCTGAAGGGGAA
TATTCAAAGCGTTTTATCATAAAAATGCCTTAAATGATCCTAAAAAAAATGAGATGAAATCATTA
AAGATATTTTTGACAGAAAACACATTAAATAAA
Found at i:27073091 original size:283 final size:279
Alignment explanation
Indices: 27072577--27073120 Score: 610
Period size: 283 Copynumber: 1.9 Consensus size: 279
27072567 GCCTTAAATA
* * * *
27072577 ATCCCCTTCAAAAAATTGGATGGGATTATTAAAGGTGTTTTTAATCAAAAACGCATTCAATAATC
1 ATCCCATTCAAAAAATTGAAGGGGATTATTAAAGGTGTTTTTAACCAAAAACGCATTCAATAATC
* * * * * *
27072642 CATGATTTATTCAAGGCATTTTTGGTAAAAAATACTTTCAATAACTCCATTCAATATTTTTTTAA
66 CAGGATTTATTCAAGGCATTTTTGGCAAAAAATACCTTCAATAACCCCATCCAATATTTTGTTAA
* ** **
27072707 GGAATATTGAGGGCATTTTCTGGCCAAAAACACCTTCAATAATCTCATCATAAACGCCTGAAGAG
131 GGAATATTCAAAGCATTTTCTAACCAAAAACACCTTCAATAATCTCATCATAAACGCCTGAAGA-
* * * *
27072772 GATTATTTAAAACGTTTTATCACAAAAATGCCTTGAATGATCCCACAAAAAAT-GAGATGGGATT
195 GATTACTTAAAACGTTTAATCACAAAAATACCTTGAATGATCCCA-AAAAAATGGA-AAGGGATT
27072836 ATTGCCAAAAGTGCCTCGAATT
258 ATTGCCAAAAGTGCCTCGAATT
* * *
27072858 ATCCCATTTAAAAAATTGAAGGGGATTATTAAAGGTGTTTTTTTACCAAAAACATC-TTCAATAA
1 ATCCCATTCAAAAAATTGAAGGGGATTATTAAAGGTG-TTTTTAACCAAAAAC-GCATTCAATAA
** * * * *
27072922 TTTAGGATTTATTCAAGGTATTTTTTGGCCAAAAATGCCTTCAGTAACCCCATCCAATATTTTGT
64 TCCAGGATTTATTCAAGGCA-TTTTTGGCAAAAAATACCTTCAATAACCCCATCCAATATTTTGT
* * * * * *
27072987 T-AGAGATTATTCAAAGTATTTTCTAACCAAAAATACCTTTAATAATCTCGTCATAAACTCCTTG
128 TAAG-GAATATTCAAAGCATTTTCTAACCAAAAACACCTTCAATAATCTCATCATAAACGCC-TG
* * * ** * *
27073051 AATA-ATCTCCTTCAAGTGTTTAATCACAAAAGTACCTTGAATGATCCCAAAATAATGGAAAGGG
191 AAGAGAT-TACTTAAAACGTTTAATCACAAAAATACCTTGAATGATCCCAAAAAAATGGAAAGGG
27073115 ATTATT
255 ATTATT
27073121 AAAGATGTTT
Statistics
Matches: 215, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
281 33 0.15
282 57 0.27
283 120 0.56
284 5 0.02
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (279 bp):
ATCCCATTCAAAAAATTGAAGGGGATTATTAAAGGTGTTTTTAACCAAAAACGCATTCAATAATC
CAGGATTTATTCAAGGCATTTTTGGCAAAAAATACCTTCAATAACCCCATCCAATATTTTGTTAA
GGAATATTCAAAGCATTTTCTAACCAAAAACACCTTCAATAATCTCATCATAAACGCCTGAAGAG
ATTACTTAAAACGTTTAATCACAAAAATACCTTGAATGATCCCAAAAAAATGGAAAGGGATTATT
GCCAAAAGTGCCTCGAATT
Found at i:27078135 original size:22 final size:23
Alignment explanation
Indices: 27078110--27078158 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
27078100 AATGAATAAA
27078110 AATGTAT-ATTTAATATATTATT
1 AATGTATAATTTAATATATTATT
*
27078132 AATGTATAAATTTTATATATTATT
1 AATGTAT-AATTTAATATATTATT
27078156 AAT
1 AAT
27078159 AAATCAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.29
24 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AATGTATAATTTAATATATTATT
Found at i:27078567 original size:2 final size:2
Alignment explanation
Indices: 27078560--27078584 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27078550 ACATACATAC
27078560 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27078585 AGCCTTGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27082230 original size:2 final size:2
Alignment explanation
Indices: 27082223--27082249 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27082213 TTGTACCCTC
27082223 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
27082250 ATGGTAGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27083576 original size:15 final size:15
Alignment explanation
Indices: 27083552--27083581 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27083542 TCTCTAAAAA
27083552 TAAATATATATAAAT
1 TAAATATATATAAAT
*
27083567 TAAATGTATATAAAT
1 TAAATATATATAAAT
27083582 ATTTAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
TAAATATATATAAAT
Found at i:27088398 original size:15 final size:14
Alignment explanation
Indices: 27088372--27088601 Score: 102
Period size: 15 Copynumber: 16.9 Consensus size: 14
27088362 TTTACTTATA
*
27088372 AATAATATTATATT
1 AATAATAATATATT
*
27088386 AATGAATAATATAATA
1 AAT-AATAATAT-ATT
* *
27088402 AATAATAGTTTATAT
1 AATAATAATATAT-T
*
27088417 ATTAATAATAATATT
1 AATAATAAT-ATATT
27088432 -AT-A-AATA-ATT
1 AATAATAATATATT
*
27088442 ATATACTAATATATT
1 A-ATAATAATATATT
* *
27088457 AATATTAATA-AAT
1 AATAATAATATATT
27088470 AATATTATAATATATT
1 AATA--ATAATATATT
27088486 AAT-A-AATA-ATAT
1 AATAATAATATAT-T
*
27088498 AATAACAA-ATATT
1 AATAATAATATATT
*
27088511 AGTAATTTAAT-TATT
1 AATAA--TAATATATT
27088526 AAATAAT-ATACTATT
1 -AATAATAATA-TATT
27088541 AAT-ATAATATATT
1 AATAATAATATATT
*
27088554 -ATAATTAT-TATT
1 AATAATAATATATT
27088566 AAT-A-AATA-A-T
1 AATAATAATATATT
*
27088576 -ATTATAATATATT
1 AATAATAATATATT
27088589 AATGAATAATATA
1 AAT-AATAATATA
27088602 AAGAATAATA
Statistics
Matches: 164, Mismatches: 20, Indels: 63
0.66 0.08 0.26
Matches are distributed among these distances:
9 2 0.01
10 5 0.03
11 10 0.06
12 21 0.13
13 30 0.18
14 31 0.19
15 48 0.29
16 17 0.10
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (14 bp):
AATAATAATATATT
Found at i:27088406 original size:7 final size:8
Alignment explanation
Indices: 27088369--27088602 Score: 102
Period size: 8 Copynumber: 30.1 Consensus size: 8
27088359 AATTTTACTT
27088369 ATAA-ATA
1 ATAATATA
*
27088376 ATATTATA
1 ATAATATA
* *
27088384 TTAAT-GA
1 ATAATATA
27088391 ATAATATA
1 ATAATATA
27088399 ATAA-ATA
1 ATAATATA
* *
27088406 ATAGTTTA
1 ATAATATA
*
27088414 TATATTAATA
1 -ATAAT-ATA
*
27088424 ATAATATT
1 ATAATATA
27088432 ATAA-ATA
1 ATAATATA
*
27088439 ATTATATA
1 ATAATATA
*
27088447 CTAATATA
1 ATAATATA
*
27088455 TTAATAT-
1 ATAATATA
27088462 -TAATA-A
1 ATAATATA
*
27088468 ATAATATT
1 ATAATATA
27088476 ATAATATA
1 ATAATATA
*
27088484 TTAATA-A
1 ATAATATA
27088491 ATAATATA
1 ATAATATA
*
27088499 ATAACA-A
1 ATAATATA
*
27088506 ATATTAGTA
1 ATAATA-TA
27088515 ATTTAAT-TA
1 A--TAATATA
*
27088524 TTAA-ATA
1 ATAATATA
27088531 AT-ATACTA
1 ATAATA-TA
*
27088539 TTAATATA
1 ATAATATA
*
27088547 AT-ATATT
1 ATAATATA
27088554 ATAATTATTA
1 ATAA-TA-TA
*
27088564 TTAATA-A
1 ATAATATA
*
27088571 ATAATATT
1 ATAATATA
27088579 ATAATATA
1 ATAATATA
* *
27088587 TTAAT-GA
1 ATAATATA
27088594 ATAATATA
1 ATAATATA
27088602 A
1 A
27088603 AGAATAATAA
Statistics
Matches: 165, Mismatches: 39, Indels: 45
0.66 0.16 0.18
Matches are distributed among these distances:
6 6 0.04
7 59 0.36
8 72 0.44
9 19 0.12
10 6 0.04
11 3 0.02
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (8 bp):
ATAATATA
Found at i:27088453 original size:8 final size:7
Alignment explanation
Indices: 27088394--27088601 Score: 66
Period size: 7 Copynumber: 29.4 Consensus size: 7
27088384 TTAATGAATA
27088394 ATATAAT
1 ATATAAT
*
27088401 AAATAAT
1 ATATAAT
*
27088408 AGT-TTAT
1 A-TATAAT
27088415 ATATTAAT
1 ATA-TAAT
27088423 A-ATAAT
1 ATATAAT
27088429 ATTATAA-
1 A-TATAAT
*
27088436 ATAATTAT
1 AT-ATAAT
27088444 ATACTAAT
1 ATA-TAAT
27088452 ATATTAAT
1 ATA-TAAT
27088460 AT-TAAT
1 ATATAAT
*
27088466 AAATAAT
1 ATATAAT
27088473 ATTATAAT
1 A-TATAAT
27088481 ATATTAAT
1 ATA-TAAT
*
27088489 AAATAAT
1 ATATAAT
*
27088496 ATAATAAC
1 AT-ATAAT
*
27088504 AAAT-AT
1 ATATAAT
27088510 -TAGTAAT
1 ATA-TAAT
27088517 -T-TAAT
1 ATATAAT
27088522 -TAT--T
1 ATATAAT
*
27088526 AAATAAT
1 ATATAAT
*
27088533 ATACTATT
1 ATA-TAAT
27088541 AATATAAT
1 -ATATAAT
*
27088549 ATATTAT
1 ATATAAT
*
27088556 A-ATTAT
1 ATATAAT
27088562 -TATTAAT
1 ATA-TAAT
*
27088569 AAATAAT
1 ATATAAT
27088576 ATTATAAT
1 A-TATAAT
27088584 ATATTAAT
1 ATA-TAAT
27088592 GA-ATAAT
1 -ATATAAT
27088599 ATA
1 ATA
27088602 AAGAATAATA
Statistics
Matches: 151, Mismatches: 23, Indels: 54
0.66 0.10 0.24
Matches are distributed among these distances:
4 1 0.01
5 8 0.05
6 22 0.15
7 59 0.39
8 57 0.38
9 4 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (7 bp):
ATATAAT
Found at i:27088699 original size:17 final size:17
Alignment explanation
Indices: 27088650--27088728 Score: 65
Period size: 17 Copynumber: 4.6 Consensus size: 17
27088640 TAGTATAATA
27088650 TTTTAATATTAAATATT
1 TTTTAATATTAAATATT
*
27088667 ATTATTGAA-ATATAATTATT
1 -TT-TT-AATAT-TAAATATT
*
27088687 TTTTAATATT-AATA-A
1 TTTTAATATTAAATATT
* *
27088702 TTTTAATAATAAATCTT
1 TTTTAATATTAAATATT
27088719 TTTTAATATT
1 TTTTAATATT
27088729 TTAATAGTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
15 9 0.19
16 6 0.12
17 12 0.25
18 6 0.12
19 6 0.12
20 9 0.19
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTTAATATTAAATATT
Found at i:27088843 original size:30 final size:31
Alignment explanation
Indices: 27088783--27088844 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
27088773 CAGAAAATAA
27088783 CCAAACAACAAAAAATATTTTTCATTAATTCAT
1 CCAAACAACAAAAAATATTTTTC--TAATTCAT
*
27088816 CCAAACAACAAAAAATCTTTTTC-AATTCA
1 CCAAACAACAAAAAATATTTTTCTAATTCA
27088845 AAAAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 6 0.21
33 22 0.79
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (31 bp):
CCAAACAACAAAAAATATTTTTCTAATTCAT
Found at i:27090216 original size:22 final size:22
Alignment explanation
Indices: 27090185--27090227 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27090175 ATCTACCTTG
*
27090185 GTTTGAGTTTTTTGGTTTTTTA
1 GTTTGAGTTTTATGGTTTTTTA
* *
27090207 GTTTGGGTTTTATGTTTTTTT
1 GTTTGAGTTTTATGGTTTTTT
27090228 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.23, T:0.70
Consensus pattern (22 bp):
GTTTGAGTTTTATGGTTTTTTA
Found at i:27091601 original size:40 final size:40
Alignment explanation
Indices: 27091541--27091620 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
27091531 ATTAAAGACA
27091541 ACCAACCAACCTATGAAACTTGA-AGGAGAACAAAAACTAT
1 ACCAACCAACCTATGAAACTTGAGA-GAGAACAAAAACTAT
* *
27091581 ACCAACCAACCTATGGAACTTGGGAGAGAACAAAAACTAT
1 ACCAACCAACCTATGAAACTTGAGAGAGAACAAAAACTAT
27091621 CATCTTTCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (40 bp):
ACCAACCAACCTATGAAACTTGAGAGAGAACAAAAACTAT
Found at i:27097778 original size:127 final size:125
Alignment explanation
Indices: 27097613--27097863 Score: 457
Period size: 127 Copynumber: 2.0 Consensus size: 125
27097603 GCCATGGGGC
*
27097613 TGTTAAGCTGATTTGAACTTCCGATGGATTTTTCTTTTATCTTTAATTAGTTGTCCAATTCCAAG
1 TGTTAAGCTGATTTGAACTTCCGATGGAATTTTCTTTTATCTTTAATTAGTTGTCCAATTCCAAG
*
27097678 TAGGAGGGAGAAACAAAATCCAGTTGAGACTTGAGAGTGAGACTGTGCGTTATCGTTGGTTT
66 TAGGAGGGAGAAACAAAATCCAGGTGAGACTT--GAGTGAGACTGTGCGTTATCGTTGGTTT
*
27097740 TGTTAAGCTGATTTGAACTTCCTATGGAATTTTCTTTTATCTTTAATTAGTTGTCCAATTCCAAG
1 TGTTAAGCTGATTTGAACTTCCGATGGAATTTTCTTTTATCTTTAATTAGTTGTCCAATTCCAAG
27097805 TAGGAGGGAGAAACAAAATCCAGGTGAGACTTGAGTGAGACTGTGCGTTATCGTTGGTT
66 TAGGAGGGAGAAACAAAATCCAGGTGAGACTTGAGTGAGACTGTGCGTTATCGTTGGTT
27097864 ACTTGGTTTT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
125 27 0.22
127 94 0.78
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (125 bp):
TGTTAAGCTGATTTGAACTTCCGATGGAATTTTCTTTTATCTTTAATTAGTTGTCCAATTCCAAG
TAGGAGGGAGAAACAAAATCCAGGTGAGACTTGAGTGAGACTGTGCGTTATCGTTGGTTT
Found at i:27102518 original size:66 final size:66
Alignment explanation
Indices: 27102412--27102542 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
27102402 TGCCAGTCGT
*
27102412 GTTTCGTCATGATTTAATGAAGCTAGGTAAGTAGCCTATAAATTAGAACCAACCAAATCAAAGGA
1 GTTTCCTCATGATTTAATGAAGCTAGGTAAGTAGCCTATAAATTAGAACCAACCAAATCAAAGGA
27102477 C
66 C
* *
27102478 GTTTCCTCATGATTTAATGAAGCTAGGTAATTAGCTTATAAATTAGAACCAACCAAATCAAAGGA
1 GTTTCCTCATGATTTAATGAAGCTAGGTAAGTAGCCTATAAATTAGAACCAACCAAATCAAAGGA
27102543 TGAAGAATAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (66 bp):
GTTTCCTCATGATTTAATGAAGCTAGGTAAGTAGCCTATAAATTAGAACCAACCAAATCAAAGGA
C
Found at i:27105511 original size:2 final size:2
Alignment explanation
Indices: 27105500--27105536 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
27105490 CCCACTTTAT
27105500 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27105537 AATCGCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:27108485 original size:2 final size:2
Alignment explanation
Indices: 27108478--27108527 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
27108468 TCATATGCTA
27108478 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
27108520 TT CT CT CT
1 CT CT CT CT
27108528 ATAATTATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:27118836 original size:13 final size:14
Alignment explanation
Indices: 27118804--27118838 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
27118794 AAAAACCAAC
*
27118804 AAAAGAAAATTTTG
1 AAAAGAAAACTTTG
27118818 AAAAGAAAACTTT-
1 AAAAGAAAACTTTG
27118831 AAAAGAAA
1 AAAAGAAA
27118839 CAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (14 bp):
AAAAGAAAACTTTG
Found at i:27128693 original size:12 final size:12
Alignment explanation
Indices: 27128676--27128724 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
27128666 AGTCACCAGT
27128676 ATTAGAGGTTTC
1 ATTAGAGGTTTC
*
27128688 ATTAGAGGTTTT
1 ATTAGAGGTTTC
* *
27128700 ACTAGATGTTTC
1 ATTAGAGGTTTC
27128712 ACTTATGAGGTTT
1 A-TTA-GAGGTTT
27128725 GCTAGAGATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 21 0.72
13 2 0.07
14 6 0.21
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.45
Consensus pattern (12 bp):
ATTAGAGGTTTC
Found at i:27130649 original size:13 final size:12
Alignment explanation
Indices: 27130619--27130649 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
27130609 ATAACGTGAG
27130619 AGAAAAACCTAA
1 AGAAAAACCTAA
27130631 AGAAAAACCTAA
1 AGAAAAACCTAA
27130643 AGAAAAA
1 AGAAAAA
27130650 GAGGTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.13, G:0.10, T:0.06
Consensus pattern (12 bp):
AGAAAAACCTAA
Found at i:27136838 original size:20 final size:20
Alignment explanation
Indices: 27136800--27136838 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27136790 TACTATTTAA
** *
27136800 AAATGTTCAAATTTTTTTTG
1 AAATGTTCAAAAATATTTTG
27136820 AAATGTTCAAAAATATTTT
1 AAATGTTCAAAAATATTTT
27136839 TTTTCAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (20 bp):
AAATGTTCAAAAATATTTTG
Found at i:27136838 original size:22 final size:20
Alignment explanation
Indices: 27136800--27136840 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
27136790 TACTATTTAA
*
27136800 AAATGTTCAAATTTTTTTTG
1 AAATGTTCAAATATTTTTTG
27136820 AAATGTTCAAAAATATTTTTT
1 AAATGTTC--AAATATTTTTT
27136841 TTCAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (20 bp):
AAATGTTCAAATATTTTTTG
Found at i:27136966 original size:26 final size:27
Alignment explanation
Indices: 27136926--27136977 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
27136916 TGAAATATTT
*
27136926 ATATCTAAATTTATTT-AATATTTATA
1 ATATCTAAATCTATTTAAATATTTATA
*
27136952 ATATTTAAATCTATTTAAATATTTAT
1 ATATCTAAATCTATTTAAATATTTAT
27136978 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
ATATCTAAATCTATTTAAATATTTATA
Found at i:27136985 original size:18 final size:18
Alignment explanation
Indices: 27136934--27136987 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
27136924 TTATATCTAA
27136934 ATTTATTTAATATTTATAAT
1 ATTTATTTAA-ATTTA-AAT
** **
27136954 ATTTAAATCTATTTAAAT
1 ATTTATTTAAATTTAAAT
27136972 ATTTATTTAAATTTAA
1 ATTTATTTAAATTTAA
27136988 CATTACAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
18 15 0.58
19 5 0.19
20 6 0.23
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTATTTAAATTTAAAT
Found at i:27138077 original size:13 final size:14
Alignment explanation
Indices: 27138059--27138088 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
27138049 ATTTTTTAAA
27138059 TAATTATTT-AATT
1 TAATTATTTAAATT
27138072 TAATTATTTAAATT
1 TAATTATTTAAATT
27138086 TAA
1 TAA
27138089 ATAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATTTAAATT
Found at i:27138328 original size:14 final size:14
Alignment explanation
Indices: 27138311--27138353 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
27138301 AAATATTTAT
27138311 TTAAATTTAAATAA
1 TTAAATTTAAATAA
* *
27138325 TTAAATTAAAAAAA
1 TTAAATTTAAATAA
*
27138339 TTAATAATTAAATAA
1 TTAA-ATTTAAATAA
27138354 ATCATTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAATTTAAATAA
Found at i:27140640 original size:37 final size:37
Alignment explanation
Indices: 27140591--27140669 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
27140581 CTTTTCTCTC
27140591 TGTTTGTTTTCATCTTAATCATAAGTGAATACATTAT
1 TGTTTGTTTTCATCTTAATCATAAGTGAATACATTAT
**
27140628 TGTTTGTTTTCATCTTAATCATAAGTGAATATGTTAT
1 TGTTTGTTTTCATCTTAATCATAAGTGAATACATTAT
27140665 TGTTT
1 TGTTT
27140670 CCCTTTTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.52
Consensus pattern (37 bp):
TGTTTGTTTTCATCTTAATCATAAGTGAATACATTAT
Found at i:27143559 original size:24 final size:26
Alignment explanation
Indices: 27143513--27143561 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
27143503 TTAATGCTAG
27143513 TAAATAGATTATTTATTCAGTTGGAA
1 TAAATAGATTATTTATTCAGTTGGAA
27143539 TAAATA-ATT-TTTATT-AGGTTGGA
1 TAAATAGATTATTTATTCA-GTTGGA
27143562 TTATTGGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 1 0.05
24 12 0.55
25 3 0.14
26 6 0.27
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (26 bp):
TAAATAGATTATTTATTCAGTTGGAA
Found at i:27144038 original size:32 final size:32
Alignment explanation
Indices: 27143993--27144068 Score: 134
Period size: 32 Copynumber: 2.3 Consensus size: 32
27143983 TATTCTTTTA
*
27143993 GTTCTATGGTTGGATTAGATCTTGTCTTTACTT
1 GTTC-ATGTTTGGATTAGATCTTGTCTTTACTT
27144026 GTTCATGTTTGGATTAGATCTTGTCTTTACTT
1 GTTCATGTTTGGATTAGATCTTGTCTTTACTT
27144058 GTTCATGTTTG
1 GTTCATGTTTG
27144069 ATGCTTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 38 0.90
33 4 0.10
ACGTcount: A:0.14, C:0.12, G:0.21, T:0.53
Consensus pattern (32 bp):
GTTCATGTTTGGATTAGATCTTGTCTTTACTT
Found at i:27146237 original size:2 final size:2
Alignment explanation
Indices: 27146230--27146255 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27146220 ACATACATTC
27146230 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
27146256 TTTAAATGTG
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):
AT
Found at i:27156819 original size:51 final size:52
Alignment explanation
Indices: 27156715--27156836 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 52
27156705 TTTGAGTTTA
* * * * *
27156715 TAGAAACGT-AGCTTTTGATTAAAAAAATTTACAAAGATTACGTTTTTAAAAG
1 TAGAAACGTAATCTTTT-ATTAAAAAAATATACAAAGACTACATTTCTAAAAG
* **
27156767 TAGAAACGTAATCTTTTATTAAAAAAA-ATACAAATACTACATTTCTGTAAG
1 TAGAAACGTAATCTTTTATTAAAAAAATATACAAAGACTACATTTCTAAAAG
*
27156818 TAAAAACGTAAT-TTTTATT
1 TAGAAACGTAATCTTTTATT
27156837 TGAAACAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
50 7 0.12
51 28 0.47
52 19 0.32
53 6 0.10
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (52 bp):
TAGAAACGTAATCTTTTATTAAAAAAATATACAAAGACTACATTTCTAAAAG
Found at i:27159007 original size:3 final size:3
Alignment explanation
Indices: 27158999--27159024 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27158989 AGACAAACAC
27158999 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
27159025 CAACAACACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27165182 original size:2 final size:2
Alignment explanation
Indices: 27165175--27165204 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27165165 AGCACAGCTT
27165175 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27165205 AATCTTGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27167117 original size:64 final size:63
Alignment explanation
Indices: 27167029--27167156 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 63
27167019 AAAAGATGTC
*
27167029 TTTAACAAAGGGTAAAAAGATTTTAAACTTTGTTCAGTATTTTTTTTATTAATTTAAATAAATT
1 TTTAACAAAGGATAAAAAGATTTTAAACTTTGTTCAGTA-TTTTTTTATTAATTTAAATAAATT
* *
27167093 TTTATCAAAGGATATAAAGATTTTAAACTTTGTTCAGTATTTTTTTATTAATTTAAATAAATT
1 TTTAACAAAGGATAAAAAGATTTTAAACTTTGTTCAGTATTTTTTTATTAATTTAAATAAATT
27167156 T
1 T
27167157 ATTTATGTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 25 0.41
64 36 0.59
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (63 bp):
TTTAACAAAGGATAAAAAGATTTTAAACTTTGTTCAGTATTTTTTTATTAATTTAAATAAATT
Found at i:27172261 original size:43 final size:43
Alignment explanation
Indices: 27172179--27172262 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
27172169 GGACGATTGT
* **
27172179 TTCCATGAATAAACAAATTCTCTTTTGGCTTAAAATGCAATGC
1 TTCCATGAATAAACAAACTCTCTTTTAACTTAAAATGCAATGC
* *
27172222 TTCCATGAATAAACAAACTCTCTTTTAACTTTAACTGCAAT
1 TTCCATGAATAAACAAACTCTCTTTTAACTTAAAATGCAAT
27172263 CTAACCTGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (43 bp):
TTCCATGAATAAACAAACTCTCTTTTAACTTAAAATGCAATGC
Found at i:27177084 original size:2 final size:2
Alignment explanation
Indices: 27177079--27177115 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
27177069 TATATATATA
27177079 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
27177116 ATGACGTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:27178792 original size:16 final size:16
Alignment explanation
Indices: 27178767--27178808 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
27178757 ATTTATTGAA
27178767 TTTATGAATAT-TATAG
1 TTTATGAATATCTA-AG
*
27178783 TTTATTAATATCTAAG
1 TTTATGAATATCTAAG
27178799 TTTATGAATA
1 TTTATGAATA
27178809 GTTAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (16 bp):
TTTATGAATATCTAAG
Found at i:27178818 original size:16 final size:15
Alignment explanation
Indices: 27178760--27178819 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 15
27178750 ATTCACAATT
*
27178760 TATTGAATTTATGAA
1 TATTAAATTTATGAA
* *
27178775 TATTATAGTTTATTAA
1 TATTA-AATTTATGAA
*
27178791 TATCTAAGTTTATGAA
1 TAT-TAAATTTATGAA
27178807 TAGTTAAATTTAT
1 TA-TTAAATTTAT
27178820 ATAACTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.11
16 30 0.81
17 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (15 bp):
TATTAAATTTATGAA
Found at i:27183877 original size:2 final size:2
Alignment explanation
Indices: 27183870--27183896 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27183860 TAAGTAGAGA
27183870 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27183897 GAATAATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27191916 original size:11 final size:12
Alignment explanation
Indices: 27191896--27191929 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
27191886 AGAGAAGAAC
*
27191896 AAGAAGAAAAAG
1 AAGAAAAAAAAG
27191908 AA-AAAAAAAAG
1 AAGAAAAAAAAG
27191919 AAGAAAAAAAA
1 AAGAAAAAAAA
27191930 AGAGAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAG
Found at i:27191924 original size:14 final size:15
Alignment explanation
Indices: 27191905--27191935 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
27191895 CAAGAAGAAA
27191905 AAGAAAAAAAAA-AG
1 AAGAAAAAAAAAGAG
27191919 AAGAAAAAAAAAGAG
1 AAGAAAAAAAAAGAG
27191934 AA
1 AA
27191936 AGTTTTGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAGAG
Found at i:27191935 original size:12 final size:12
Alignment explanation
Indices: 27191902--27191936 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
27191892 GAACAAGAAG
27191902 AAAAAGA-AAAA
1 AAAAAGAGAAAA
27191913 AAAAAGAAGAAAA
1 AAAAAG-AGAAAA
27191926 AAAAAGAGAAA
1 AAAAAGAGAAA
27191937 GTTTTGACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.27
12 6 0.27
13 10 0.45
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:27191996 original size:23 final size:23
Alignment explanation
Indices: 27191967--27192030 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
27191957 AAGGGAGGAA
27191967 AAGAAGAGAAAAAGAAGA-AGAAG
1 AAGAAGAGAAAAAGAAGATA-AAG
27191990 AAGAAGAAGCAAAGAA-AGAGATAAAG
1 AAGAAG-AG-AAA-AAGA-AGATAAAG
27192016 AAGAA-AGAAAAAGAA
1 AAGAAGAGAAAAAGAA
27192031 AAAAAGTGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
22 3 0.09
23 10 0.29
24 4 0.11
25 4 0.11
26 13 0.37
27 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (23 bp):
AAGAAGAGAAAAAGAAGATAAAG
Found at i:27192004 original size:20 final size:17
Alignment explanation
Indices: 27191981--27192032 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 17
27191971 AGAGAAAAAG
27191981 AAGAAGAAGAAGAAGAAGCA
1 AAGAA-AAGAA-AAGAAG-A
27192001 AAGAAAGAGATAAAGAAGA
1 AAGAAA-AGA-AAAGAAGA
27192020 AAGAAAAAGAAAA
1 AAG-AAAAGAAAA
27192033 AAAGTGCCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 3 0.10
19 8 0.28
20 17 0.59
21 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.25, T:0.02
Consensus pattern (17 bp):
AAGAAAAGAAAAGAAGA
Found at i:27192030 original size:6 final size:6
Alignment explanation
Indices: 27191973--27192033 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
27191963 GGAAAAGAAG
* * * * * *
27191973 AGAAAA AGAAGA AGAAGA AGAAGA AG-CAA AGAAAG AGATAA AGAAGAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAA-AA
27192021 AGAAAA AGAAAA A
1 AGAAAA AGAAAA A
27192034 AAGTGCCACC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
5 3 0.07
6 36 0.80
7 6 0.13
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:27193280 original size:15 final size:15
Alignment explanation
Indices: 27193260--27193289 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27193250 CCCTAAATTT
27193260 TTAAAACCCAAAACC
1 TTAAAACCCAAAACC
27193275 TTAAAACCCAAAACC
1 TTAAAACCCAAAACC
27193290 ATTGACATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (15 bp):
TTAAAACCCAAAACC
Found at i:27194938 original size:13 final size:13
Alignment explanation
Indices: 27194918--27194969 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
27194908 ATAATATTTT
27194918 TATTAAATTAATA
1 TATTAAATTAATA
* *
27194931 TCTTAAATTAAAA
1 TATTAAATTAATA
27194944 TATTAAA-TAATA
1 TATTAAATTAATA
**
27194956 -ATTTTATTAATA
1 TATTAAATTAATA
27194968 TA
1 TA
27194970 ATATCATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 4 0.13
12 9 0.29
13 18 0.58
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTAAATTAATA
Found at i:27194940 original size:42 final size:40
Alignment explanation
Indices: 27194865--27194974 Score: 100
Period size: 42 Copynumber: 2.6 Consensus size: 40
27194855 ACATTTACAC
* * *
27194865 AATATTATTTTTAATATAAATT-ATATATTAATTATACATA-A
1 AATAATATTTTT-AT-TAAATTAATATCTTAATTA-AAATATA
27194906 ATATAATATTTTTATTAAATTAATATCTTAAATTAAAATATTA
1 A-ATAATATTTTTATTAAATTAATATCTT-AATTAAAATA-TA
*
27194949 AATAATAATTTTATT-AATATAATATC
1 AATAATATTTTTATTAAAT-TAATATC
27194975 ATATATAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
40 6 0.10
41 16 0.27
42 35 0.59
43 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (40 bp):
AATAATATTTTTATTAAATTAATATCTTAATTAAAATATA
Found at i:27203134 original size:14 final size:15
Alignment explanation
Indices: 27203115--27203144 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27203105 AATGGTAGAA
27203115 GATTCCC-TTAAATG
1 GATTCCCTTTAAATG
27203129 GATTCCCTTTAAATG
1 GATTCCCTTTAAATG
27203144 G
1 G
27203145 CAAATTAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (15 bp):
GATTCCCTTTAAATG
Found at i:27207785 original size:86 final size:83
Alignment explanation
Indices: 27207693--27207859 Score: 228
Period size: 86 Copynumber: 2.0 Consensus size: 83
27207683 TCTAACATTT
*
27207693 TCAAACTAAGCATCAAACAACCCAAAATAA-AAAATATAAATCAAACTCAAATATAATAGAAAAA
1 TCAAACTAAGCATCAAACAA-CCAAAA-AACAAAACATAAATCAAACTCAAATATAATA-AAAAA
* *
27207757 TAAACTAAAAATAAAAAAATTC
63 -AAACAAAAAAAAAAAAAATTC
* *
27207779 TCAAACTTAGCATCAAATAACCAAAAAACCAAAACATAAATCAAACTCAAATATAATAAAAAAAA
1 TCAAACTAAGCATCAAACAACCAAAAAA-CAAAACATAAATCAAACTCAAATATAATAAAAAAAA
*
27207844 GCAAAAAAAAAAAAAA
65 ACAAAAAAAAAAAAAA
27207860 AAGAACACAA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
84 17 0.23
85 11 0.15
86 45 0.62
ACGTcount: A:0.66, C:0.16, G:0.02, T:0.16
Consensus pattern (83 bp):
TCAAACTAAGCATCAAACAACCAAAAAACAAAACATAAATCAAACTCAAATATAATAAAAAAAAA
CAAAAAAAAAAAAAATTC
Found at i:27207875 original size:20 final size:19
Alignment explanation
Indices: 27207831--27207886 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
27207821 AAACTCAAAT
27207831 ATAATAAAAAAAAGCAAAAA
1 ATAA-AAAAAAAAGCAAAAA
27207851 A-AAAAAAAAAAG-AACACAA
1 ATAAAAAAAAAAGCAA-A-AA
* *
27207870 ATAAAACAAAAATCAAA
1 ATAAAAAAAAAAGCAAA
27207887 CCAATATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 2 0.07
18 10 0.33
19 5 0.17
20 11 0.37
21 2 0.07
ACGTcount: A:0.80, C:0.09, G:0.04, T:0.07
Consensus pattern (19 bp):
ATAAAAAAAAAAGCAAAAA
Found at i:27208144 original size:16 final size:16
Alignment explanation
Indices: 27208113--27208156 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
27208103 AAAGGCGGTG
27208113 AAAAGAAA-AAAGAAAA
1 AAAAGAAAGAAA-AAAA
*
27208129 AAAAGGAAGAAAAAAA
1 AAAAGAAAGAAAAAAA
*
27208145 CAAAGAAAGAAA
1 AAAAGAAAGAAA
27208157 GTAACAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAAAAA
Found at i:27210659 original size:2 final size:2
Alignment explanation
Indices: 27210652--27210676 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27210642 ACTGCCATGG
27210652 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27210677 AGACATGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27213709 original size:13 final size:13
Alignment explanation
Indices: 27213691--27213732 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
27213681 AAATTGAGAG
27213691 AAAAATAAAAAAA
1 AAAAATAAAAAAA
*
27213704 AAAAATAAAAATA
1 AAAAATAAAAAAA
*
27213717 AGAAATAAGAAAAA
1 AAAAATAA-AAAAA
27213731 AA
1 AA
27213733 TGAAAAAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.10
Consensus pattern (13 bp):
AAAAATAAAAAAA
Found at i:27214383 original size:16 final size:17
Alignment explanation
Indices: 27214349--27214387 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
27214339 TAAATTTTTT
*
27214349 AAAAAA-TAAAAAATGA
1 AAAAAAGTAAAAAATAA
27214365 AAAAAAGTAAAAAA-AA
1 AAAAAAGTAAAAAATAA
27214381 AAAAAAG
1 AAAAAAG
27214388 GCTACACATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAAAAGTAAAAAATAA
Found at i:27218772 original size:24 final size:21
Alignment explanation
Indices: 27218721--27218774 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 21
27218711 AATCGTACTC
27218721 AATATTATATTAAGTACACAT
1 AATATTATATTAAGTACACAT
*
27218742 AGTATATTCATATTAAGTATACCAAT
1 A--ATATT-ATATTAAGTACA-C-AT
27218768 AATATTA
1 AATATTA
27218775 AACCAATACC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
21 1 0.04
23 6 0.22
24 16 0.59
25 1 0.04
26 3 0.11
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (21 bp):
AATATTATATTAAGTACACAT
Found at i:27221824 original size:12 final size:12
Alignment explanation
Indices: 27221789--27221846 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
27221779 TACACCTTTT
27221789 AGCAAACCATTC
1 AGCAAACCATTC
**
27221801 AAAAACACCATTC
1 AGCAA-ACCATTC
*
27221814 AGCAAACCATTG
1 AGCAAACCATTC
* *
27221826 AGCATACAATTC
1 AGCAAACCATTC
*
27221838 AGCATACCA
1 AGCAAACCA
27221847 ATATCATACA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
12 26 0.72
13 10 0.28
ACGTcount: A:0.45, C:0.29, G:0.09, T:0.17
Consensus pattern (12 bp):
AGCAAACCATTC
Found at i:27221858 original size:23 final size:24
Alignment explanation
Indices: 27221810--27221858 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
27221800 CAAAAACACC
*
27221810 ATTCAGCAAACCATTGAGCATACA
1 ATTCAGCAAACCAATGAGCATACA
* *
27221834 ATTCAGCATACCAAT-ATCATACA
1 ATTCAGCAAACCAATGAGCATACA
27221857 AT
1 AT
27221859 ACCATTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (24 bp):
ATTCAGCAAACCAATGAGCATACA
Found at i:27222717 original size:124 final size:125
Alignment explanation
Indices: 27222575--27222804 Score: 329
Period size: 124 Copynumber: 1.8 Consensus size: 125
27222565 AATTATAATG
* * *
27222575 AATTAGTGAAAGTATTTTTCT-GAAATAAACGCATTCACTAATCGTCTTAAAATTTGAGTACTGA
1 AATTAGTGAAAGTATTTTTCTAG-AATAAACACATTCACTAACCATCTTAAAATTTGAGTACTGA
27222639 AATATTG-AAGACATTTTCATTAGAAGACACCTTTAATAATCCCAATTTTTAAAAAAAAAA
65 AATATTGAAAGACATTTTCATTAGAAGACACCTTTAATAATCCCAATTTTTAAAAAAAAAA
* * * * **
27222699 AATTATTGAAGGTATTTTTCTAGAATAAACACTTTCACTAACCATTTTAAAATTTGAGTACTGGT
1 AATTAGTGAAAGTATTTTTCTAGAATAAACACATTCACTAACCATCTTAAAATTTGAGTACTGAA
***
27222764 ATATTGAAAGTGTTTTTCATTAGAAGACACCTTTAATAATC
66 ATATTGAAAGACATTTTCATTAGAAGACACCTTTAATAATC
27222805 TCAAAAATTT
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
124 60 0.65
125 32 0.35
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.37
Consensus pattern (125 bp):
AATTAGTGAAAGTATTTTTCTAGAATAAACACATTCACTAACCATCTTAAAATTTGAGTACTGAA
ATATTGAAAGACATTTTCATTAGAAGACACCTTTAATAATCCCAATTTTTAAAAAAAAAA
Found at i:27222938 original size:187 final size:187
Alignment explanation
Indices: 27222693--27223363 Score: 873
Period size: 187 Copynumber: 3.6 Consensus size: 187
27222683 ATTTTTAAAA
* * * * * *
27222693 AAAAAAAATTATTGAAGGTATTTTTCTAGAATAAACACTTTCACTAACCATTTTAAAATTTGAGT
1 AAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGT
* * *
27222758 ACTGGTATATTGAAAGTGTTTTTCATTAGAAGACACCTTTAATAATCTCAAAAATTTTTAAAATA
66 ACTGGTATATTGAAGGTGTTTTTCACTAGAAGACACCTTTAATAATCTTAAAAATTTTTAAAATA
*
27222823 AAATTATTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATGTACATAAATT
131 AAATTATTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATATACATAAATT
** * * * *
27222880 AACTGGAA-TCGATGAAAGTATTTTTCTAGAATAAACGCCTTCACTAATCGTCTTAAAATTTGAG
1 AAAAGAAATTAG-TGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAG
* ** * * *
27222944 TAGTGAAATATTGAAGGTGTTTTTTACTAGAAGACGCATTTAATAATCTTAAAAATTTTTTAAAA
65 TACTGGTATATTGAAGGTGTTTTTCACTAGAAGACACCTTTAATAATCTTAAAAA-TTTTTAAAA
*
27223009 -AAAATTATTGAAA-GCGTTTGTTCTCAAAAAATATCTTCAATAATTATATACA-AAATTT
129 TAAAATTATT-AAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATATACATAAA-TT
* * * *
27223067 AAAAGAAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAGCGTCTTAAAATTTGAGT
1 AAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGT
** *
27223132 ACTGGTATATTGAAGGCATTTTTCACTAGAAGACACCTTTAATAATCTTAAAATTTTTTAAAATA
66 ACTGGTATATTGAAGGTGTTTTTCACTAGAAGACACCTTTAATAATCTTAAAAATTTTTAAAATA
* ** * * *
27223197 AAATTACTAAAGATGTTTGTTCTCAAAAAATGCTTTCAATAATTATTTACATAAATT
131 AAATTATTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATATACATAAATT
*
27223254 AAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCATTAACCGTCTTAAAATTTGAGT
1 AAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGT
* ** ** * * *
27223319 AGTGAAATATTGAAGGCATTTTGCACTAGAAGACGCCTTCAATAA
66 ACTGGTATATTGAAGGTGTTTTTCACTAGAAGACACCTTTAATAA
27223364 ATTCCTTCAA
Statistics
Matches: 417, Mismatches: 59, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
186 16 0.04
187 385 0.92
188 16 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (187 bp):
AAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGT
ACTGGTATATTGAAGGTGTTTTTCACTAGAAGACACCTTTAATAATCTTAAAAATTTTTAAAATA
AAATTATTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATATACATAAATT
Found at i:27223425 original size:374 final size:371
Alignment explanation
Indices: 27222693--27223394 Score: 976
Period size: 374 Copynumber: 1.9 Consensus size: 371
27222683 ATTTTTAAAA
* * *
27222693 AAAAAAAATTATTGAAGGTATTTTTCTAGAATAAACACTTTCACTAACCATTTTAAAATTTGAGT
1 AAAAAAAATTATTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTTAAAATTTGAGT
** *
27222758 ACTGGTATATTGAAAGTGTTTTTCATTAGAAGACACCTTTAATAATCTCAAAAATTTTTAAAATA
66 ACTGGTATATTGAAAGCATTTTTCACTAGAAGACACCTTTAATAATCTCAAAAATTTTTAAAATA
* * ** *
27222823 AAATTATTAAAGGCGTTTGTTCTCAAAAAATACCTTCAATAATTATGTACATAAATTAACTGGAA
131 AAATTACTAAAGACGTTTGTTCTCAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGAAA
* *
27222888 TCGATGAAAGTATTTTTCTAGAATAAACGCCTTCACTAATCGTCTTAAAATTTGAGTAGTGAAAT
196 TAGATGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTAGTGAAAT
** ** * * *
27222953 ATTGAAGGTGTTTTTTACTAGAAGACGCATTTAATAATCTTAAAAATTTTTTAAAAAAAATTATT
261 ATTGAAGGCATTTTGCACTAGAAGACGCATTCAATAATCTTAAAAA---TATAAAAAAAATTAAT
*
27223018 GAAAGCGTTTGTTCTCAAAAAATATCTTCAATAATTATATACAAAATTT
323 CAAAGCGTTTGTTCTCAAAAAATATCTTCAATAATTATATACAAAATTT
* ** * *
27223067 AAAAGAAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAGCGTCTTAAAATTTGAGT
1 AAAAAAAATTATTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTTAAAATTTGAGT
* * *
27223132 ACTGGTATATTGAAGGCATTTTTCACTAGAAGACACCTTTAATAATCTTAAAATTTTTTAAAATA
66 ACTGGTATATTGAAAGCATTTTTCACTAGAAGACACCTTTAATAATCTCAAAAATTTTTAAAATA
* * * *
27223197 AAATTACTAAAGATGTTTGTTCTCAAAAAATGCTTTCAATAATTATTTACATAAATTAAAAGAAA
131 AAATTACTAAAGACGTTTGTTCTCAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGAAA
* *
27223262 TTAG-TGAAGGTATTTTTCTAGAATAAACGCCTTCATTAACCGTCTTAAAATTTGAGTAGTGAAA
196 -TAGATGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTAGTGAAA
* **
27223326 TATTGAAGGCATTTTGCACTAGAAGACGCCTTCAATAAATTCCTTCAAAAA-ATAAAATGAATTA
260 TATTGAAGGCATTTTGCACTAGAAGACGCATTCAAT-AA-T-CTT-AAAAATATAAAAAAAATTA
27223390 ATCAA
321 ATCAA
27223395 GGTGTTTTTT
Statistics
Matches: 285, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
374 272 0.95
375 4 0.01
376 1 0.00
377 3 0.01
378 5 0.02
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (371 bp):
AAAAAAAATTATTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCATCTTAAAATTTGAGT
ACTGGTATATTGAAAGCATTTTTCACTAGAAGACACCTTTAATAATCTCAAAAATTTTTAAAATA
AAATTACTAAAGACGTTTGTTCTCAAAAAATACCTTCAATAATTATGTACATAAATTAAAAGAAA
TAGATGAAAGTATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTAGTGAAAT
ATTGAAGGCATTTTGCACTAGAAGACGCATTCAATAATCTTAAAAATATAAAAAAAATTAATCAA
AGCGTTTGTTCTCAAAAAATATCTTCAATAATTATATACAAAATTT
Found at i:27229309 original size:21 final size:21
Alignment explanation
Indices: 27229261--27229316 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
27229251 AAGAGAACAG
27229261 GAGCATGCCAAAATTAAGAAA
1 GAGCATGCCAAAATTAAGAAA
* * *
27229282 AAACATGCCAAAATGT-AGCAA
1 GAGCATGCCAAAAT-TAAGAAA
27229303 GAGCATG-CAAAATT
1 GAGCATGCCAAAATT
27229317 TTAGCAGTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 6 0.21
21 21 0.72
22 1 0.03
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (21 bp):
GAGCATGCCAAAATTAAGAAA
Found at i:27230056 original size:34 final size:34
Alignment explanation
Indices: 27229960--27230081 Score: 97
Period size: 34 Copynumber: 3.6 Consensus size: 34
27229950 TATTTCAAAG
* * *
27229960 ATACAAATACTGCTAAAATAACGAAATTTTTCAT
1 ATACAAACACTGCTAATATAGCGAAATTTTTCAT
* *
27229994 ATA-AAA-A-TGCCACTATATAGCGATATTTTTCAT
1 ATACAAACACTGCTA--ATATAGCGAAATTTTTCAT
* * * *
27230027 ATACAAACACTGCTAATATAGTGACATTTTCCAA
1 ATACAAACACTGCTAATATAGCGAAATTTTTCAT
* **
27230061 ATACTAACACCACTAATATAG
1 ATACAAACACTGCTAATATAG
27230082 TGGCGTTTTC
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
31 4 0.06
32 1 0.01
33 22 0.31
34 39 0.55
35 1 0.01
36 4 0.06
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (34 bp):
ATACAAACACTGCTAATATAGCGAAATTTTTCAT
Found at i:27232047 original size:18 final size:18
Alignment explanation
Indices: 27232026--27232062 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
27232016 ATTAAGCTAG
27232026 AATATGGACATTTTGAGT
1 AATATGGACATTTTGAGT
27232044 AATATGGACATTTTGAGT
1 AATATGGACATTTTGAGT
27232062 A
1 A
27232063 GATGTAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (18 bp):
AATATGGACATTTTGAGT
Found at i:27244641 original size:53 final size:53
Alignment explanation
Indices: 27244583--27244685 Score: 206
Period size: 53 Copynumber: 1.9 Consensus size: 53
27244573 AAAAGTTAAC
27244583 CATGTCCTTGATTTCAAGGAATTAAAAATTTCATACTATGAAAATCAATCAAT
1 CATGTCCTTGATTTCAAGGAATTAAAAATTTCATACTATGAAAATCAATCAAT
27244636 CATGTCCTTGATTTCAAGGAATTAAAAATTTCATACTATGAAAATCAATC
1 CATGTCCTTGATTTCAAGGAATTAAAAATTTCATACTATGAAAATCAATC
27244686 TTCTATACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.34
Consensus pattern (53 bp):
CATGTCCTTGATTTCAAGGAATTAAAAATTTCATACTATGAAAATCAATCAAT
Found at i:27246458 original size:47 final size:47
Alignment explanation
Indices: 27246336--27246458 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 47
27246326 AAAACATTTT
* * * * * * *
27246336 GGTAGTGTTTGATATGAGACAATCATTGTTTGTAAATTAAATATTAA
1 GGTAGTATTTGGTATGAGACGATCATTATCTATAAACTAAATATTAA
* * *
27246383 GGTAGTTTTTGGTATGAGACGATTATTATCTATAAACTAAATATTTA
1 GGTAGTATTTGGTATGAGACGATCATTATCTATAAACTAAATATTAA
* * *
27246430 TGTAGTATTTGGTATGATATGATCATTAT
1 GGTAGTATTTGGTATGAGACGATCATTAT
27246459 AAAAATTATA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (47 bp):
GGTAGTATTTGGTATGAGACGATCATTATCTATAAACTAAATATTAA
Found at i:27247933 original size:9 final size:9
Alignment explanation
Indices: 27247917--27247962 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
27247907 AAAAAAAAGA
27247917 GAAA-AAAT
1 GAAACAAAT
27247925 GAAACAAAT
1 GAAACAAAT
*
27247934 GAACCAAAT
1 GAAACAAAT
* *
27247943 GAAATAAAA
1 GAAACAAAT
27247952 GAAACAAAT
1 GAAACAAAT
27247961 GA
1 GA
27247963 CTTGACACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
8 4 0.13
9 27 0.87
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (9 bp):
GAAACAAAT
Found at i:27248056 original size:1 final size:1
Alignment explanation
Indices: 27248052--27248077 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
27248042 ATAAAAATAG
27248052 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
27248078 CAAACAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27248261 original size:20 final size:20
Alignment explanation
Indices: 27248238--27248279 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
27248228 ATAGGGTTCC
27248238 ATTT-TTAAAAATTAAAAAAA
1 ATTTATTAAAAA-TAAAAAAA
*
27248258 ATTTATTAAATATAAAAAAA
1 ATTTATTAAAAATAAAAAAA
27248278 AT
1 AT
27248280 CTTGGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTTATTAAAAATAAAAAAA
Found at i:27248275 original size:21 final size:20
Alignment explanation
Indices: 27248238--27248278 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
27248228 ATAGGGTTCC
*
27248238 ATTTTTAAAAATTAAAAAAA
1 ATTTTTAAAAATAAAAAAAA
*
27248258 ATTTATTAAATATAAAAAAAA
1 ATTT-TTAAAAATAAAAAAAA
27248279 TCTTGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTTTTAAAAATAAAAAAAA
Found at i:27248481 original size:21 final size:22
Alignment explanation
Indices: 27248456--27248501 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
27248446 GTCCAACCTT
27248456 AAAATATTT-TAAATCTTTACA
1 AAAATATTTATAAATCTTTACA
* *
27248477 AAAATATTTATAAATTTTTAGA
1 AAAATATTTATAAATCTTTACA
27248499 AAA
1 AAA
27248502 TCTGTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATATTTATAAATCTTTACA
Found at i:27248660 original size:15 final size:15
Alignment explanation
Indices: 27248640--27248670 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27248630 TTCTAGATTG
*
27248640 AAAAAAAGTAAAAAA
1 AAAAAAAGCAAAAAA
27248655 AAAAAAAGCAAAAAA
1 AAAAAAAGCAAAAAA
27248670 A
1 A
27248671 TAAGTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.03, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAAAAAGCAAAAAA
Found at i:27248966 original size:132 final size:125
Alignment explanation
Indices: 27248830--27249082 Score: 316
Period size: 132 Copynumber: 2.0 Consensus size: 125
27248820 TAAAATTCTT
*
27248830 TATTAAATATTTTTT-AAAAAA-TTAAAAAGAGTAAAAATGAAAAAGCTAAAAAGATAGTTTAAT
1 TATTAAATATTTTTTAAAAAAAGTT-AAAAGAGTAAAAA-AAAAAAG-TAAAAAG-T-GTTTAAT
*
27248893 ATAAAT-GG-ATCCCATATATAAAAATTAAAATCTTTAAATATATATATCTTTTATAATTTTAAA
61 ATAAATAGGTATCCCACATA-AAAAA-TAAAAT-TTTAAATATATATA---TTTATAATTTTAAA
27248956 AAATAC
120 AAATAC
*
27248962 TATTAAATATTTTTTAAAAAAAAGTTAAAAGAGTAAAAAAAAAAAGTAAAAAGTGTTTAGTATAA
1 TATTAAATATTTTTT-AAAAAAAGTTAAAAGAGTAAAAAAAAAAAGTAAAAAGTGTTTAATATAA
* * *
27249027 GTAGGTTTCGCACATAAAAAATAAAATTTTAAATATATATATTTATAATTTTAAAA
65 ATAGGTATCCCACATAAAAAATAAAATTTTAAATATATATATTTATAATTTTAAAA
27249083 TATTTATTTA
Statistics
Matches: 110, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
126 15 0.14
129 14 0.13
130 17 0.15
131 8 0.07
132 29 0.26
133 6 0.05
134 19 0.17
135 2 0.02
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (125 bp):
TATTAAATATTTTTTAAAAAAAGTTAAAAGAGTAAAAAAAAAAAGTAAAAAGTGTTTAATATAAA
TAGGTATCCCACATAAAAAATAAAATTTTAAATATATATATTTATAATTTTAAAAAATAC
Done.