Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 88 of 290
Found at i:26824263 original size:18 final size:18
Alignment explanation
Indices: 26824229--26824277 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
26824219 GGGTATGCAC
26824229 AATTCGGTTAAAACCGAAAA
1 AATTCGGTT--AACCGAAAA
***
26824249 AATTCGGTTAACCGACCC
1 AATTCGGTTAACCGAAAA
26824267 AATTCGGTTAA
1 AATTCGGTTAA
26824278 TTGGTTGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
20 9 0.35
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (18 bp):
AATTCGGTTAACCGAAAA
Found at i:26824683 original size:9 final size:9
Alignment explanation
Indices: 26824671--26824713 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
26824661 TTCAAATCTC
26824671 TCAAAACCT
1 TCAAAACCT
26824680 TCAAAACCT
1 TCAAAACCT
*
26824689 TCAAAATCT
1 TCAAAACCT
*
26824698 CCCAAAACCT
1 -TCAAAACCT
26824708 TCAAAA
1 TCAAAA
26824714 GTATCATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (9 bp):
TCAAAACCT
Found at i:26828711 original size:17 final size:17
Alignment explanation
Indices: 26828691--26828751 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
26828681 ATTTCAAGAC
26828691 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * **
26828708 TTATTTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
26828727 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
26828745 TTATGTA
1 TTATGTA
26828752 GTAATTCAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 15 0.45
18 5 0.15
19 5 0.15
20 8 0.24
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:26828727 original size:37 final size:37
Alignment explanation
Indices: 26828681--26828791 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
26828671 TTATGTGTTA
* *
26828681 ATTTCAAGACTTATGTAATGTTTTTAATTATTTAGTG
1 ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTG
*
26828718 ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTA
1 ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTG
* *
26828755 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTG
26828792 TAGTGATTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (37 bp):
ATTTAAAGACTTATGTAATGTTTTTAATTATGTAGTG
Found at i:26828785 original size:17 final size:17
Alignment explanation
Indices: 26828691--26828788 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
26828681 ATTTCAAGAC
*
26828691 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
* * **
26828708 TTATTTAGTGATTTAAAGA
1 TTATGTAAT-ATTTTTA-A
*
26828727 CTTATGTAATGTTTTTAA
1 -TTATGTAATATTTTTAA
* ***
26828745 TTATGTAGTAATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
26828764 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
26828782 TTATGTA
1 TTATGTA
26828789 GTGTAGTGAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 10 0.18
20 15 0.27
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:26828854 original size:9 final size:9
Alignment explanation
Indices: 26828801--26828885 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
26828791 GTAGTGATTC
*
26828801 AATTCGGTC
1 AATTCGGTT
*
26828810 AATTCGGTC
1 AATTCGGTT
*
26828819 AATTCGGTC
1 AATTCGGTT
26828828 AATTCGGTT
1 AATTCGGTT
26828837 AATTCGGTT
1 AATTCGGTT
26828846 AATTCGGTT
1 AATTCGGTT
* *
26828855 AATCCGGGT
1 AATTCGGTT
* *
26828864 AATCCGGGT
1 AATTCGGTT
*
26828873 AATCCGGTT
1 AATTCGGTT
26828882 AATT
1 AATT
26828886 TTTAACCAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 71 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (9 bp):
AATTCGGTT
Found at i:26831068 original size:37 final size:37
Alignment explanation
Indices: 26831007--26831085 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
26830997 TTATTACGAA
* * *
26831007 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
26831044 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
26831081 GTCTT
1 GTCTT
26831086 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:26831429 original size:51 final size:47
Alignment explanation
Indices: 26831204--26831690 Score: 724
Period size: 47 Copynumber: 10.1 Consensus size: 47
26831194 CCCTTCGGGA
* * * * * *
26831204 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26831251 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26831298 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26831345 C-TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26831391 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26831442 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
26831491 CTTATCACATATATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26831542 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26831593 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
26831640 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
26831687 CTTA
1 CTTA
26831691 CTATCATTTC
Statistics
Matches: 414, Mismatches: 19, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
46 45 0.11
47 178 0.43
49 48 0.12
51 143 0.35
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:26837275 original size:17 final size:18
Alignment explanation
Indices: 26837253--26837286 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26837243 TTGATTTAGG
26837253 TGTT-AAATTTTAAAAAC
1 TGTTAAAATTTTAAAAAC
26837270 TGTTAAAATTTTAAAAA
1 TGTTAAAATTTTAAAAA
26837287 TATATTCGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (18 bp):
TGTTAAAATTTTAAAAAC
Found at i:26839158 original size:2 final size:2
Alignment explanation
Indices: 26839153--26839178 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26839143 CAACAGGTTA
26839153 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
26839179 TTTCCCCAAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:26841045 original size:3 final size:3
Alignment explanation
Indices: 26841037--26841081 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
26841027 GAGCTTATGC
26841037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26841082 GTGATAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26843244 original size:16 final size:16
Alignment explanation
Indices: 26843199--26843248 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
26843189 CCATTTTGAT
* *
26843199 TTATTAATTTACTATA
1 TTATTAAATTAATATA
* *
26843215 -T-TTAAGTTATTATA
1 TTATTAAATTAATATA
26843229 TTATTAAATTAATATA
1 TTATTAAATTAATATA
26843245 TTAT
1 TTAT
26843249 ATCACTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.39
15 2 0.07
16 15 0.54
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (16 bp):
TTATTAAATTAATATA
Found at i:26843329 original size:23 final size:24
Alignment explanation
Indices: 26843282--26843329 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
26843272 ATTAAATTTA
* *
26843282 AATTTTGTATATTTGAATAATTATT
1 AATTTTGTATATAT-AATAACTATT
26843307 AATTTTGTATATAT-ATAACTATT
1 AATTTTGTATATATAATAACTATT
26843330 GTATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
AATTTTGTATATATAATAACTATT
Found at i:26843870 original size:22 final size:22
Alignment explanation
Indices: 26843804--26843871 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
26843794 ATGAATTTAA
*
26843804 ATTATAAAATTATTTGAT--AT
1 ATTATTAAATTATTTGATAAAT
* *
26843824 ATTACTTAAAATTAATT-ACAGAAT
1 ATTA-TT-AAATTATTTGATA-AAT
26843848 ATTATTAAATTATTTGATAAAT
1 ATTATTAAATTATTTGATAAAT
26843870 AT
1 AT
26843872 AAACTATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
20 4 0.11
21 2 0.05
22 21 0.57
23 4 0.11
24 6 0.16
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTATTAAATTATTTGATAAAT
Found at i:26850801 original size:15 final size:15
Alignment explanation
Indices: 26850781--26850812 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26850771 TACGAATAAA
26850781 AAAATTATTTATATT
1 AAAATTATTTATATT
*
26850796 AAAATTATTTATTTT
1 AAAATTATTTATATT
26850811 AA
1 AA
26850813 TCTTTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAATTATTTATATT
Found at i:26851411 original size:16 final size:16
Alignment explanation
Indices: 26851390--26851421 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26851380 CAATGTAACT
26851390 ATAAACTGACGTGGCA
1 ATAAACTGACGTGGCA
26851406 ATAAACTGACGTGGCA
1 ATAAACTGACGTGGCA
26851422 CTTTAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (16 bp):
ATAAACTGACGTGGCA
Found at i:26856692 original size:13 final size:13
Alignment explanation
Indices: 26856670--26856703 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
26856660 ATCAAATTTT
26856670 AAAA-AATTCTTA
1 AAAATAATTCTTA
26856682 AAAATAATTCTTA
1 AAAATAATTCTTA
*
26856695 AAAGTAATT
1 AAAATAATT
26856704 TTTACAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAATAATTCTTA
Found at i:26860334 original size:31 final size:29
Alignment explanation
Indices: 26860286--26860343 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
26860276 TAAAATAAAA
* *
26860286 AAATAATAATAAATATCTTATTATAATATT
1 AAATAATAACAAATATCTAATTA-AATATT
*
26860316 AAATAAATAACAATTATCTAATTAAATA
1 AAAT-AATAACAAATATCTAATTAAATA
26860344 ACTATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
AAATAATAACAAATATCTAATTAAATATT
Found at i:26865800 original size:184 final size:180
Alignment explanation
Indices: 26865444--26865908 Score: 815
Period size: 180 Copynumber: 2.5 Consensus size: 180
26865434 TCATCTGACA
* *
26865444 TTGTATAACTAAAAACAACAATTTTGTATTGAATTATATCATGTTCGGGATTCAAATGCCTTTCT
1 TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGT-T-ATGTTCGGGATTCAAATGCCTTTCT
26865509 TCTTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCTAGTGGAAA
64 TCTTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCTAGTGGAAA
26865574 AGTAGAGAGCCGTGACATCTAAAAATTAGTGGTGTCCCCCCCCCCCCAATATGATG
129 AGTAGAGAGCCGTGACATCTAAAAATTAGTGGTGT----CCCCCCCCAATATGATG
26865630 TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
1 TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
26865695 TTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTTCTAGTGGAAAA
66 TTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTG-TTTTTTTCTAGTGGAAAA
*
26865760 GTAGAGAGCCGTGACATCTAAAAATTAGTGGTGT-CCCCCCCAGTATGATG
130 GTAGAGAGCCGTGACATCTAAAAATTAGTGGTGTCCCCCCCCAATATGATG
* *
26865810 TTGCATAACTAAAAGCAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
1 TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
26865875 TTTGAATATGTATCAGAATTTGTCATTTCGTTCT
66 TTTGAATATGTATCAGAATTTGTCATTTCGTTCT
26865909 CTGCTCCTCG
Statistics
Matches: 273, Mismatches: 5, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
180 112 0.41
184 73 0.27
185 53 0.19
186 35 0.13
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (180 bp):
TTGTATAACTAAAAACAACAATTTTGTGTTGAATTGTTATGTTCGGGATTCAAATGCCTTTCTTC
TTTGAATATGTATCAGAATTTGTCATTTCGTTCTAATAGTCTTCTGTTTTTTTCTAGTGGAAAAG
TAGAGAGCCGTGACATCTAAAAATTAGTGGTGTCCCCCCCCAATATGATG
Found at i:26872427 original size:44 final size:44
Alignment explanation
Indices: 26872377--26872599 Score: 229
Period size: 44 Copynumber: 5.0 Consensus size: 44
26872367 TTTTTTTTCC
* *
26872377 TTCTAATTTAGATCTAAGGATTCAAATAGGTTGGAATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
* * * *
26872421 TTCTAATTTA-ATTTTAGGATTCAAAAAAGATAGAATTTTATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAG-A----ATTTTATTT
* *
26872469 TTCTAATTTAGATCTTAGGATTTAGATAGGTTAGAATTTTAATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTT-ATTT
* * * *
26872514 TT-TCATTTAGAACTTAGGATTCAATTAGGTTA-AAATTTA-TT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
** *
26872555 TTCTAATTTAGATCTTAACATTCAAATAGGCTAGAATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
26872599 T
1 T
26872600 ATTTTAATAA
Statistics
Matches: 144, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
41 4 0.03
42 25 0.17
43 28 0.19
44 44 0.31
45 6 0.04
48 20 0.14
49 17 0.12
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.48
Consensus pattern (44 bp):
TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
Found at i:26872489 original size:92 final size:85
Alignment explanation
Indices: 26872377--26872599 Score: 232
Period size: 92 Copynumber: 2.5 Consensus size: 85
26872367 TTTTTTTTCC
* * **
26872377 TTCTAATTTAGATCTAAGGATTCAAATAGGTTGGAATTTTATTTTTCTAATTTA-ATTTTAGGAT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTTT-TAATTTAGAACTTAGGAT
26872441 TCAAAAAAGATAGAATTTTATTTTATTT
65 TCAAAAAAGATA-AA----A-TTTA-TT
* * *
26872469 TTCTAATTTAGATCTTAGGATTTAGATAGGTTAGAATTTTAATTTTTTCATTTAGAACTTAGGAT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTT-ATTTTTTAATTTAGAACTTAGGAT
** * *
26872534 TCAATTAGGTTAAAATTTATT
65 TCAAAAAAGATAAAATTTATT
** *
26872555 TTCTAATTTAGATCTTAACATTCAAATAGGCTAGAATTTTATTTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTT
26872600 ATTTTAATAA
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
85 5 0.04
86 37 0.33
87 4 0.04
88 1 0.01
92 44 0.39
93 22 0.19
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.48
Consensus pattern (85 bp):
TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTTTTAATTTAGAACTTAGGATT
CAAAAAAGATAAAATTTATT
Found at i:26883080 original size:18 final size:19
Alignment explanation
Indices: 26883042--26883080 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
26883032 TGGTTCAAGC
*
26883042 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
26883061 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
26883079 TT
1 TT
26883081 CATAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:26883313 original size:23 final size:22
Alignment explanation
Indices: 26883254--26883320 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
26883244 ACTTAATCAG
26883254 TATACGACACATAAGTGCCTGA
1 TATACGACACATAAGTGCCTGA
*
26883276 -A-ACGACACACGAAGTGCCTGA
1 TATACGACACA-TAAGTGCCTGA
*
26883297 TATATGACACATAAAGTGCCTGA
1 TATACGACACAT-AAGTGCCTGA
26883320 T
1 T
26883321 TGGCAAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.21
21 11 0.29
22 1 0.03
23 18 0.47
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (22 bp):
TATACGACACATAAGTGCCTGA
Found at i:26885061 original size:25 final size:25
Alignment explanation
Indices: 26885013--26885062 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
26885003 TTTAGTTTGA
**
26885013 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
26885038 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
26885063 TAAATTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:26888720 original size:40 final size:40
Alignment explanation
Indices: 26888625--26888731 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 40
26888615 CAATATCAAA
*
26888625 CACACTAAGTGCCTTAAATAGCCGAAGCTATCTCAATCTTG
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAATC-TG
* *
26888666 CACACTAAGTGCCATATATAGCCGAAGCTATCTTGAATC-G
1 CACACTAAGTGCCATAAATAGCCGAAGCTATC-TCAATCTG
*
26888706 CACACTAAGTGCCATACATAGCCGAA
1 CACACTAAGTGCCATAAATAGCCGAA
26888732 TTGTTGTCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 26 0.43
41 30 0.49
42 5 0.08
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAATCTG
Found at i:26893186 original size:40 final size:40
Alignment explanation
Indices: 26893081--26893406 Score: 466
Period size: 40 Copynumber: 8.2 Consensus size: 40
26893071 GGATTGATAA
* *
26893081 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
26893121 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
26893160 CCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
26893200 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
26893240 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
26893279 CCGGGCTAAGTCCCGAAGGCATGTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
26893319 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
26893359 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
26893399 CC-GGCTAA
1 CCGGGCTAA
26893407 ACTCCGAAGG
Statistics
Matches: 260, Mismatches: 20, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
39 78 0.30
40 182 0.70
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:26893254 original size:79 final size:80
Alignment explanation
Indices: 26893081--26893406 Score: 466
Period size: 79 Copynumber: 4.1 Consensus size: 80
26893071 GGATTGATAA
* * *
26893081 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
26893144 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
*
26893160 CCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
26893225 TGCTAGTGACTA-ATT
66 TGCGAGTTACTATA-T
* * *
26893240 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
26893304 TGCGAGTTACTATAA
66 TGCGAGTTACTATAT
*
26893319 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
26893384 AGCTAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
26893399 CC-GGCTAA
1 CCGGGCTAA
26893407 ACTCCGAAGG
Statistics
Matches: 221, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
79 123 0.56
80 98 0.44
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:26893288 original size:119 final size:119
Alignment explanation
Indices: 26893077--26893406 Score: 531
Period size: 119 Copynumber: 2.8 Consensus size: 119
26893067 ATTCGGATTG
26893077 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
*
26893142 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGACATGTGTGCGAGTTACT
26893196 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* *
26893261 TTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGTGTGCGAGTTACT
66 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGACATGTGTGCGAGTTACT
* * * *
26893315 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
* *
26893379 ATTTGAGCTAG-TAGCTATATCC-GGCTAA
64 ATTTGTGCGAGTTA-CTATATCCGGGCTAA
26893407 ACTCCGAAGG
Statistics
Matches: 198, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
118 2 0.01
119 171 0.86
120 25 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGACATGTGTGCGAGTTACT
Found at i:26896224 original size:291 final size:291
Alignment explanation
Indices: 26895678--26896255 Score: 870
Period size: 291 Copynumber: 2.0 Consensus size: 291
26895668 AAGTCTAATT
* * * * * *
26895678 GAGGAGATAATTTTTCTTGAGTATCGAAGCGGATGACTCCCAGAAGATAGACATAGATATGGCTG
1 GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATATGACTG
* * * *
26895743 ACTTGACCGATAGTACATCGAACAAGACCCAAGTAGAATATATCCTGAATGTGCTTATGGATTTA
66 ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
* * *
26895808 TTTACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGATGAATTATGAATGTGT
131 TTCACTTGCGACGTTCATAGTGTGACACACTTCAATCCTGAGTAAATGATGAACTATGAATGTGT
* * * * *
26895873 GACTCGTATACTTTGATATAAGTAAAAGCTTGAGTTTAAATAAATATAGAACTAAAAGTTGGTGC
196 GACTCATATACTTTGATACAAGTAAAAGCATGAGTTCAAATAAATATAGAACCAAAAGTTGGTGC
*
26895938 GTTGGGTATACGACTTCTGCAATATGTGACA
261 GTCGGGTATACGACTTCTGCAATATGTGACA
* * *
26895969 GAGGAAATGATTTGTCTTGAGTATCAAAGTGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
1 GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATATGACTG
* *
26896034 ACTTGACTGGCAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
66 ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
* * *
26896099 TTCACTTGTGACGTTCATAGTGTGACACACTTCAATCCTGAGTAAATGATGGACTATGTATGTGT
131 TTCACTTGCGACGTTCATAGTGTGACACACTTCAATCCTGAGTAAATGATGAACTATGAATGTGT
* *
26896164 GACTCATATACTTTGATACAAGTAAAAGCATGAGTTCAAATAGATA-AGGAACCGAAAGTTGGTG
196 GACTCATATACTTTGATACAAGTAAAAGCATGAGTTCAAATAAATATA-GAACCAAAAGTTGGTG
*
26896228 CGTCGGGTATACGACTTCTGTAATATGT
260 CGTCGGGTATACGACTTCTGCAATATGT
26896256 AGCATCATTC
Statistics
Matches: 256, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
290 1 0.00
291 255 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (291 bp):
GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATATGACTG
ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
TTCACTTGCGACGTTCATAGTGTGACACACTTCAATCCTGAGTAAATGATGAACTATGAATGTGT
GACTCATATACTTTGATACAAGTAAAAGCATGAGTTCAAATAAATATAGAACCAAAAGTTGGTGC
GTCGGGTATACGACTTCTGCAATATGTGACA
Found at i:26900738 original size:28 final size:28
Alignment explanation
Indices: 26900706--26900762 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
26900696 ATCCTTTCCC
*
26900706 TACAAGTCTAACTTTATGTGTTTTCACT
1 TACAAGTCTAACTTTATGTATTTTCACT
26900734 TACAAGTCTAACTTTATGTATTTTCACT
1 TACAAGTCTAACTTTATGTATTTTCACT
26900762 T
1 T
26900763 TCCCTTTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (28 bp):
TACAAGTCTAACTTTATGTATTTTCACT
Found at i:26903713 original size:26 final size:25
Alignment explanation
Indices: 26903684--26903745 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
26903674 TATGCCCAAC
*
26903684 AAAATTTTGATAATTTTACCCCTGTT
1 AAAATTTTGATAATTTTACCCC-GAT
* * *
26903710 AAAATTTTTGATGATTTTGCCTCGAT
1 AAAA-TTTTGATAATTTTACCCCGAT
26903736 AAAATTTTGA
1 AAAATTTTGA
26903746 GAAAATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 6 0.19
26 10 0.32
27 15 0.48
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (25 bp):
AAAATTTTGATAATTTTACCCCGAT
Found at i:26903926 original size:18 final size:18
Alignment explanation
Indices: 26903890--26903926 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26903880 TGCAAATGAA
* *
26903890 TCATTTCCATTTTCTTTT
1 TCATTTCCATTTCCATTT
26903908 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
26903926 T
1 T
26903927 TGGAAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:26915304 original size:20 final size:19
Alignment explanation
Indices: 26915277--26915371 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
26915267 CATTAAATTA
26915277 AATTTAATATTAAGATAAT
1 AATTTAATATTAAGATAAT
26915296 AACTTTAATATTAA-ATTAAT
1 AA-TTTAATATTAAGA-TAAT
** *
26915316 AAAATACTATTAAGATAAT
1 AATTTAATATTAAGATAAT
* *
26915335 -ATTAAATA-TAATATAAT
1 AATTTAATATTAAGATAAT
* *
26915352 -ATTAAACTATTAAAATAAT
1 AATTTAA-TATTAAGATAAT
26915371 A
1 A
26915372 TTATTTTTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
17 14 0.23
18 6 0.10
19 23 0.38
20 18 0.30
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
AATTTAATATTAAGATAAT
Found at i:26915314 original size:11 final size:11
Alignment explanation
Indices: 26915300--26915374 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
26915290 GATAATAACT
26915300 TTAATATTAAA
1 TTAATATTAAA
26915311 TTAATA--AAA
1 TTAATATTAAA
*
26915320 -TACTATTAAGA
1 TTAATATTAA-A
26915331 -TAATATTAAA
1 TTAATATTAAA
26915341 TATAATA-TAATA
1 T-TAATATTAA-A
26915353 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
26915366 ATAATATTA
1 TTAATATTA
26915375 TTTTTTGAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 24 0.46
12 11 0.21
13 4 0.08
14 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:26915366 original size:47 final size:50
Alignment explanation
Indices: 26915281--26915374 Score: 131
Period size: 47 Copynumber: 1.9 Consensus size: 50
26915271 AAATTAAATT
* * *
26915281 TAATATTAAGATAATAACTTTAATATTAAATTAATAAAATACTATTAAGA
1 TAATATTAAGATAATAACTATAATATTAAACTAATAAAATAATATTAAGA
*
26915331 TAATATTAA-AT-ATAA-TATAATATTAAACTATTAAAATAATATTA
1 TAATATTAAGATAATAACTATAATATTAAACTAATAAAATAATATTA
26915375 TTTTTTGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 25 0.62
48 4 0.10
49 2 0.05
50 9 0.22
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (50 bp):
TAATATTAAGATAATAACTATAATATTAAACTAATAAAATAATATTAAGA
Found at i:26934009 original size:14 final size:14
Alignment explanation
Indices: 26933969--26934010 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
26933959 ATAAATATTG
*
26933969 CTTTTA-TTATTTT
1 CTTTTATTTTTTTT
*
26933982 CTTTTGTTTATTTTT
1 CTTTTATTT-TTTTT
26933997 CTTTTATTTTTTTT
1 CTTTTATTTTTTTT
26934011 AGCATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.21
14 7 0.29
15 12 0.50
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (14 bp):
CTTTTATTTTTTTT
Found at i:26935156 original size:58 final size:58
Alignment explanation
Indices: 26935089--26935208 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
26935079 AGCATCAGAC
26935089 TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
1 TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
26935147 TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
1 TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
26935205 TTAG
1 TTAG
26935209 GGAAATTTGC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.52
Consensus pattern (58 bp):
TTAGATTTCACTTTTCCCTTATCTTATTTTATGTTTCAATTGAATGTTTAAAATATGA
Found at i:26950237 original size:17 final size:18
Alignment explanation
Indices: 26950215--26950248 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
26950205 AGTTGAATTG
26950215 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
26950232 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
26950249 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:26951000 original size:10 final size:10
Alignment explanation
Indices: 26950973--26951020 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
26950963 TTAAAATTTA
26950973 AAAGATAAAT
1 AAAGATAAAT
*
26950983 -ACGAATAAAT
1 AAAG-ATAAAT
*
26950993 AAAGATAATT
1 AAAGATAAAT
26951003 AAAGATAAAT
1 AAAGATAAAT
26951013 AAAGATAA
1 AAAGATAA
26951021 GTGAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 28 0.88
11 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:26951030 original size:20 final size:19
Alignment explanation
Indices: 26950986--26951032 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
26950976 GATAAATACG
*
26950986 AATAAATAAAGATAATTAA
1 AATAAATAAAGATAATGAA
26951005 AGATAAATAAAGATAAGTGAA
1 A-ATAAATAAAGATAA-TGAA
26951026 AATAAAT
1 AATAAAT
26951033 CCTAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.80
21 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (19 bp):
AATAAATAAAGATAATGAA
Found at i:26951674 original size:8 final size:9
Alignment explanation
Indices: 26951651--26951678 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
26951641 TATTAATATG
26951651 TCTTTTTTC
1 TCTTTTTTC
26951660 TCTTTTTTC
1 TCTTTTTTC
26951669 TCTTTTTTC
1 TCTTTTTTC
26951678 T
1 T
26951679 AATTTTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:26951890 original size:96 final size:98
Alignment explanation
Indices: 26951711--26951899 Score: 301
Period size: 96 Copynumber: 1.9 Consensus size: 98
26951701 ATTTAATTTA
* * * **
26951711 AATTATTTATTTTTACTTAAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCA
1 AATTATTTATTTTTACTTAAGAACATATCGAACATTTTGACACGAAGAGAGATGACAGCCAAGCA
*
26951776 CCTCACCCCGGTTACTCAGCCTAACATACTCCT
66 CCTCACCCCGGTTACTCAGCCCAACATACTCCT
26951809 AATT-TTTATTTTT-CTTAAGAACATATCGAACATTTTGACACGAAGAGAGATGACAGCCAAGCA
1 AATTATTTATTTTTACTTAAGAACATATCGAACATTTTGACACGAAGAGAGATGACAGCCAAGCA
*
26951872 CCTCACCCTGGTTACTCAGCCCAACATA
66 CCTCACCCCGGTTACTCAGCCCAACATA
26951900 TTCTTAAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 71 0.85
97 9 0.11
98 4 0.05
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (98 bp):
AATTATTTATTTTTACTTAAGAACATATCGAACATTTTGACACGAAGAGAGATGACAGCCAAGCA
CCTCACCCCGGTTACTCAGCCCAACATACTCCT
Found at i:26952986 original size:25 final size:24
Alignment explanation
Indices: 26952954--26953042 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 24
26952944 TTTAATATCC
*
26952954 AAATAAAGTAATAAATAATAAAATA
1 AAATAAAATAATAAATAA-AAAATA
*
26952979 AAATAAAGTAATAAATAAAAAA-A
1 AAATAAAATAATAAATAAAAAATA
26953002 ACAA-AAAATAATAAATAAATAAATAA
1 A-AATAAAATAATAAATAAA-AAAT-A
26953028 AAATAAAATAA-AAAT
1 AAATAAAATAATAAAT
26953043 TGGGTTGCCT
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
23 16 0.28
24 9 0.16
25 24 0.41
26 9 0.16
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.20
Consensus pattern (24 bp):
AAATAAAATAATAAATAAAAAATA
Found at i:26952997 original size:4 final size:4
Alignment explanation
Indices: 26952954--26953028 Score: 52
Period size: 4 Copynumber: 18.8 Consensus size: 4
26952944 TTTAATATCC
26952954 AAAT AAAGT -AAT AAAT -AAT AAAAT AAAAT AAAGT -AAT AAAT AAA-
1 AAAT AAA-T AAAT AAAT AAAT -AAAT -AAAT AAA-T AAAT AAAT AAAT
* *
26952998 AAAA ACAAA AAAT -AAT AAAT AAAT AAAT AAA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAA
26953029 AATAAAATAA
Statistics
Matches: 61, Mismatches: 1, Indels: 18
0.76 0.01 0.22
Matches are distributed among these distances:
3 11 0.18
4 36 0.59
5 14 0.23
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:26956757 original size:10 final size:10
Alignment explanation
Indices: 26956738--26956787 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
26956728 TCAAATTTTA
26956738 AAAGATAAAT
1 AAAGATAAAT
26956748 ACAA-ATAAAT
1 A-AAGATAAAT
26956758 AAAGATAAAT
1 AAAGATAAAT
26956768 AAAGATAAAT
1 AAAGATAAAT
26956778 GAAA-ATAAAT
1 -AAAGATAAAT
26956788 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:26963006 original size:48 final size:48
Alignment explanation
Indices: 26962935--26963106 Score: 238
Period size: 48 Copynumber: 3.6 Consensus size: 48
26962925 GTAAGATGCT
*
26962935 GATGCCATG-TCCTAAACATGGTCTTACACTAGCTCTCGTAACAAAGCC
1 GATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATAACAAAGCC
* * *** *
26962983 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCC
* * *
26963031 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCC
26963079 GATGCCATGTTCCAAACATGGTCTTACA
1 GATGCCATGTTCCAAACATGGTCTTACA
26963107 TTGGCTCACA
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
48 103 0.97
49 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCC
Found at i:26963060 original size:96 final size:96
Alignment explanation
Indices: 26962935--26963117 Score: 321
Period size: 96 Copynumber: 1.9 Consensus size: 96
26962925 GTAAGATGCT
* *
26962935 GATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCGTAACAAAGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCCGATGCCATGTTCCAAAC
26963000 ATGGTCTTACACTGGCTCACATATTGAGGCC
66 ATGGTCTTACACTGGCTCACATATTGAGGCC
* *
26963031 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCCGATGCCATGTTCCAAAC
*
26963096 ATGGTCTTACATTGGCTCACAT
66 ATGGTCTTACACTGGCTCACAT
26963118 GTACCCTAAC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATATTGAGGCC
Found at i:26967220 original size:24 final size:24
Alignment explanation
Indices: 26967193--26967244 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
26967183 TTTTATATAA
26967193 TTAATTTAATATGGATTAATATTT
1 TTAATTTAATATGGATTAATATTT
26967217 TTAATTTAATATGGATTAATATTT
1 TTAATTTAATATGGATTAATATTT
26967241 TTAA
1 TTAA
26967245 CATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (24 bp):
TTAATTTAATATGGATTAATATTT
Found at i:26967472 original size:27 final size:27
Alignment explanation
Indices: 26967429--26967482 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
26967419 TAAATATTTG
* *
26967429 CAAACTTGAGAGTTTTTAATTTCACAA
1 CAAACTTGAAAGCTTTTAATTTCACAA
* *
26967456 CAAACTTGAAAGCTTTTATTTTTACAA
1 CAAACTTGAAAGCTTTTAATTTCACAA
26967483 AATTTAAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (27 bp):
CAAACTTGAAAGCTTTTAATTTCACAA
Found at i:26974841 original size:47 final size:46
Alignment explanation
Indices: 26974684--26974997 Score: 259
Period size: 47 Copynumber: 6.7 Consensus size: 46
26974674 GATATATTGT
*
26974684 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTC-ATATACGCGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTCTAT-TA--TG-GC
* * * *
26974734 TGATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCTTA--GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATC-TCTATTATGGC
* *
26974778 CGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTATTAAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ATCTCTATTATGGC
* * *
26974825 TGATGCATGTCTCAGACATGTCTTACACTGGCA-CTC-ATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATCTCTAT-TATG-GC
* * ** *
26974871 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-ATAGCATGGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCTCTATTATGGC
* * *
26974919 TGATGCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGTGGC
1 CGATGCATGTCCCAGACAT-GTCTTACACTGGCATCTC-TATTATGGC
*
26974966 CGAAGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
26974998 GCACAAATCA
Statistics
Matches: 217, Mismatches: 31, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
44 33 0.15
45 13 0.06
46 21 0.10
47 93 0.43
48 30 0.14
49 20 0.09
50 7 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCATCTCTATTATGGC
Found at i:26974926 original size:94 final size:95
Alignment explanation
Indices: 26974684--26974997 Score: 367
Period size: 94 Copynumber: 3.3 Consensus size: 95
26974674 GATATATTGT
* *
26974684 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGT-GCTGATGCATGTCCCA
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC-TATA-GCATGGCTGATGCATGTCCCA
* *
26974748 GACATGTCTTACACTAGCA--CAACTCT-TAGC
63 GACATGTCTTACACTGGCACTCATCTCTGTAGC
* * ** * *
26974778 CGATGCATGTCCCAGACA-CGTCTTACACTGGCTATCTCTATTAAGGCTGATGCATGTCTCAGAC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGAC
26974842 ATGTCTTACACTGGCACTCATCTCTGT-GC
66 ATGTCTTACACTGGCACTCATCTCTGTAGC
* *
26974871 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-ATAGCATGGATGATGCATGTCCCAGA
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGA
* ** *
26974935 CATGGTCTTACACTGGCTCTCAT-AATGTGGC
65 CAT-GTCTTACACTGGCACTCATCTCTGTAGC
*
26974966 CGAAGCATGTCCCAGACAT-GTCTTACACTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGC
26974998 GCACAAATCA
Statistics
Matches: 189, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
91 36 0.19
92 16 0.08
93 38 0.20
94 59 0.31
95 40 0.21
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (95 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGAC
ATGTCTTACACTGGCACTCATCTCTGTAGC
Found at i:26974984 original size:141 final size:138
Alignment explanation
Indices: 26974690--26974997 Score: 363
Period size: 141 Copynumber: 2.2 Consensus size: 138
26974680 TTGTCGATGC
* *
26974690 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATATACGCGTGCCGATGCATGTCCCAGACATGT
* * * *
26974755 CTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTATT
65 CTTACACTAGCACAACGCATAGACGATGCATGTCCCAGACACGTCTTACACTGGC-ATCTCTAAT
* *
26974820 AAGGCTGATG
129 AAGGCCGAAG
* * *
26974830 CATGTCTCAGACATGTCTTACACTGGCACTCATCT-C-TGTGCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATATACGCGTGCCGATG-CATGTCCCAGACAT-G
* * *
26974893 TCTTACACTAGCTATCATA-GCATGGATGATGCATGTCCCAGACATGGTCTTACACTGGC-TCTC
64 TCTTACACTAGC-A-CA-ACGCATAGACGATGCATGTCCCAGACA-CGTCTTACACTGGCATCTC
**
26974956 ATAATGTGGCCGAAG
125 -TAATAAGGCCGAAG
26974971 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
26974998 GCACAAATCA
Statistics
Matches: 144, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
137 8 0.06
138 15 0.10
139 32 0.22
140 18 0.12
141 57 0.40
142 14 0.10
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (138 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATATACGCGTGCCGATGCATGTCCCAGACATGTC
TTACACTAGCACAACGCATAGACGATGCATGTCCCAGACACGTCTTACACTGGCATCTCTAATAA
GGCCGAAG
Found at i:26980153 original size:9 final size:9
Alignment explanation
Indices: 26980141--26980187 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
26980131 AAAAATATGG
*
26980141 AAAAGTGTA
1 AAAAGTATA
*
26980150 AAAATTATA
1 AAAAGTATA
26980159 AAAAGTATA
1 AAAAGTATA
26980168 AAAA-TATA
1 AAAAGTATA
*
26980176 TAAAAGTTTA
1 -AAAAGTATA
26980186 AA
1 AA
26980188 TTCTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 4 0.12
9 25 0.78
10 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (9 bp):
AAAAGTATA
Found at i:26980153 original size:18 final size:17
Alignment explanation
Indices: 26980130--26980187 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
26980120 TATTAAAAAT
* *
26980130 TAAAAATATGGAAAAGTG
1 TAAAAATAT-AAAAAGTA
26980148 TAAAAATTATAAAAAGTA
1 TAAAAA-TATAAAAAGTA
*
26980166 TAAAAATATATAAAAGTT
1 TAAAAATATA-AAAAGTA
26980184 TAAA
1 TAAA
26980188 TTCTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.11
18 28 0.80
19 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (17 bp):
TAAAAATATAAAAAGTA
Found at i:26980162 original size:10 final size:9
Alignment explanation
Indices: 26980069--26980180 Score: 54
Period size: 9 Copynumber: 12.4 Consensus size: 9
26980059 AAAAGGTTAA
26980069 AAAAATTAT
1 AAAAATTAT
*
26980078 -AGAATTGAT
1 AAAAATT-AT
*
26980087 AGAAAATCAT
1 A-AAAATTAT
*
26980097 AAAAATTAC
1 AAAAATTAT
*
26980106 AAATA-TAT
1 AAAAATTAT
* *
26980114 ATAATTTATT
1 AAAAATTA-T
26980124 AAAAA-T-T
1 AAAAATTAT
26980131 AAAAA-TAT
1 AAAAATTAT
* * *
26980139 GGAAAAGTGT
1 -AAAAATTAT
26980149 AAAAATTAT
1 AAAAATTAT
*
26980158 AAAAAGTAT
1 AAAAATTAT
26980167 AAAAATATAT
1 AAAAAT-TAT
26980177 AAAA
1 AAAA
26980181 GTTTAAATTC
Statistics
Matches: 75, Mismatches: 19, Indels: 17
0.68 0.17 0.15
Matches are distributed among these distances:
7 7 0.09
8 10 0.13
9 38 0.51
10 16 0.21
11 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:26980834 original size:19 final size:18
Alignment explanation
Indices: 26980810--26980861 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
26980800 CATCTACAGT
26980810 AAAAAAAATTGAAAACTG
1 AAAAAAAATTGAAAACTG
*
26980828 AAAAAAAAAGTTG-AATCTG
1 -AAAAAAAA-TTGAAAACTG
26980847 AAAAAAAATTGAAAA
1 AAAAAAAATTGAAAA
26980862 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 3 0.10
18 10 0.34
19 13 0.45
20 3 0.10
ACGTcount: A:0.67, C:0.04, G:0.12, T:0.17
Consensus pattern (18 bp):
AAAAAAAATTGAAAACTG
Found at i:26984186 original size:63 final size:63
Alignment explanation
Indices: 26984087--26984242 Score: 294
Period size: 63 Copynumber: 2.5 Consensus size: 63
26984077 AATTGAGCTT
*
26984087 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCTAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
26984150 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
*
26984213 ATGTTGTAATGTATTTAATTTATATTAAAA
1 ATGTTGTAATGTATTTAATTTATATAAAAA
26984243 GACTAAATTT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 91 1.00
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (63 bp):
ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
Found at i:26984826 original size:72 final size:72
Alignment explanation
Indices: 26984740--26984879 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 72
26984730 ATCCGCCCCC
* * *
26984740 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCTAAATGATAATAAGTATCAGCTGAATGTG
1 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
26984805 AATGCGA
66 AATGCGA
** * * * **
26984812 TGACGAGCCCGAGAAATTTTCATTGCTCTGTAAATCCGGATGATAAGAAGTATCAGCCGAATGTG
1 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
26984877 AAT
66 AAT
26984880 ATGATCGCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (72 bp):
TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
AATGCGA
Found at i:26987235 original size:25 final size:25
Alignment explanation
Indices: 26987189--26987239 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
26987179 TTTTTAAAAT
* *
26987189 ATACTATTTTCATATTTTATTTTTA
1 ATACTATTTTCATATATAATTTTTA
26987214 ATACTATTTT-AGTATATAATTTTTA
1 ATACTATTTTCA-TATATAATTTTTA
26987239 A
1 A
26987240 AATGTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (25 bp):
ATACTATTTTCATATATAATTTTTA
Found at i:26987243 original size:152 final size:152
Alignment explanation
Indices: 26986978--26987980 Score: 1437
Period size: 152 Copynumber: 6.6 Consensus size: 152
26986968 TTTTTTTATT
* * * *
26986978 CCGTGATTTTGGTCTTTTGTTTGTATTTTTAAAATTTTTGGATTTTTATTTTTTAAAATATACTG
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGA-TTTTATTTTTTAAAATATACTA
* *
26987043 TTTTCATATTTTATTTTTTATATTAATTTAGTAAATAATGTTTCAAATGTATTATTTTCGTGTTT
65 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTT
26987108 TTTTATATTAATTTAGTAAATAA
130 TTTTATATTAATTTAGTAAATAA
*
26987131 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* * * * *
26987196 TTTCATATTTTATTTTTAATACTATTTTAGTATATAATTTTTAAAATGTATTATTTTCGTG--TT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
26987259 TTTATATTAATTTAGTAAATAA
131 TTTATATTAATTTAGTAAATAA
* *
26987281 CCGTGATTTTAGCCCTTTGTTTGTATTTTTAAAA-TTTCTGGATTTTATTTATTTTTTAAAGTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTC-GGA---T-TTTATTTTTTAAAATAT
* *
26987345 ACTATTTTCATATTTTATTTTTTATACTATTTTTGTACATAATGTTTCAAATGTATTATTTTCGT
61 ACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGT
*
26987410 GTTTCTTTATATTAATTTAGTAAATAA
126 GTTTTTTTATATTAATTTAGTAAATAA
* * *
26987437 CCGTGATTTTAGCCCTTTGTTTGTATCTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* * *
26987502 TTTCGTATTTTATTTTTTATATTACTTTAGTACATAATGTTTCTAATGTATTATTTTCGTG-TTT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
26987566 TTTATATTAATTTAGTAAATAA
131 TTTATATTAATTTAGTAAATAA
* * * *
26987588 ACGTGATTTTGGCCATTTGGTTGTATTTTTAAAAATTTT-GGATTTTACTTTTTAAAATATACTA
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTT-AAAATTTTCGGATTTTATTTTTTAAAATATACTA
* *
26987652 TTTTCGTATTTTATTTTTTTATATTATTATAGTAC--AATGTTTCAAATGTATTATTTTCGTGGG
65 TTTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGT--G
* *
26987715 GTTTTATATATT--TTTAGTAAATAA
127 TTTTTTTATATTAATTTAGTAAATAA
*
26987739 CCGTGATTTTGGCCCTTTGTTTGTACTTTTAAAATTTTCGGATTTTA-TTTTTAAAATATACTA-
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* * *
26987802 TTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTGTTTTCGTATTTT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGT-GTTT
26987867 TTTTATATTAATTTAGTAAATAA
130 TTTTATATTAATTTAGTAAATAA
* * * *
26987890 ACAT-ATTTTGGGCCTTTGTTTGTATTTTTAAAATTTTCTGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
26987954 TTTC-----TTATTTTTTATATTATTTTAGTA
66 TTTCATATTTTATTTTTTATATTATTTTAGTA
26987981 AAAAAACTCG
Statistics
Matches: 776, Mismatches: 54, Indels: 46
0.89 0.06 0.05
Matches are distributed among these distances:
147 23 0.03
148 20 0.03
149 26 0.03
150 170 0.22
151 161 0.21
152 186 0.24
153 51 0.07
154 77 0.10
156 58 0.07
157 4 0.01
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (152 bp):
CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
TTTATATTAATTTAGTAAATAA
Found at i:26987955 original size:22 final size:23
Alignment explanation
Indices: 26987914--26987956 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
26987904 TTTGTTTGTA
* *
26987914 TTTTTAAAATTTTCTGATTTTAT
1 TTTTTAAAATATACTGATTTTAT
26987937 TTTTTAAAATATACT-ATTTT
1 TTTTTAAAATATACTGATTTT
26987957 CTTATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTAAAATATACTGATTTTAT
Found at i:26988516 original size:34 final size:34
Alignment explanation
Indices: 26988476--26988584 Score: 116
Period size: 34 Copynumber: 3.2 Consensus size: 34
26988466 CTTTTTCTTT
26988476 TTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTC
1 TTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTC
* ** * * *
26988510 TTTCTTTTCTTCTTC-CCA-CCTTCT-CTTTTTCTTT
1 TTTC-TTTC--CCTCACCAGCCGACTCCTTCTCCTTC
26988544 TTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTC
1 TTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTC
26988578 TTTCTTT
1 TTTCTTT
26988585 TCTTCTTCCC
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
31 3 0.05
32 3 0.05
33 8 0.14
34 29 0.51
35 8 0.14
36 3 0.05
37 3 0.05
ACGTcount: A:0.06, C:0.40, G:0.04, T:0.50
Consensus pattern (34 bp):
TTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTC
Found at i:26988540 original size:68 final size:68
Alignment explanation
Indices: 26988460--26988595 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
26988450 TTCTCCTTCT
26988460 CCTTCTCTTTTTCTTTTTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTCTTTCTTTTCTTCTTC
1 CCTTCTCTTTTTCTTTTTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTCTTTCTTTTCTTCTTC
26988525 CCA
66 CCA
26988528 CCTTCTCTTTTTCTTTTTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTCTTTCTTTTCTTCTTC
1 CCTTCTCTTTTTCTTTTTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTCTTTCTTTTCTTCTTC
26988593 CCA
66 CCA
26988596 AAATAAAGTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.06, C:0.40, G:0.03, T:0.51
Consensus pattern (68 bp):
CCTTCTCTTTTTCTTTTTTCTTTCCCTCACCAGCCGACTCCTTCTCCTTCTTTCTTTTCTTCTTC
CCA
Found at i:26990130 original size:19 final size:18
Alignment explanation
Indices: 26990107--26990154 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
26990097 AAAACTCTTT
26990107 AAAATTC-AAAATATAAAA
1 AAAATTCAAAAATAT-AAA
*
26990125 ATAAATTTTAAAAATATAAA
1 A-AAA-TTCAAAAATATAAA
26990145 AAAATTCAAA
1 AAAATTCAAA
26990155 TTTTAATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 6 0.24
19 6 0.24
20 6 0.24
21 7 0.28
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATTCAAAAATATAAA
Found at i:26991258 original size:24 final size:23
Alignment explanation
Indices: 26991207--26991258 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
26991197 AAAAATTAAA
26991207 ATATAAATAAAATTAAATAATAT
1 ATATAAATAAAATTAAATAATAT
*
26991230 -T-TAAAT-AATTTAATATAATTAT
1 ATATAAATAAAATTAA-ATAA-TAT
26991252 ATATAAA
1 ATATAAA
26991259 ATATGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 6 0.25
21 9 0.38
22 4 0.17
23 1 0.04
24 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAAATAAAATTAAATAATAT
Found at i:26994673 original size:9 final size:9
Alignment explanation
Indices: 26994661--26994686 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
26994651 TGAATGAGGT
26994661 GAAGATGAA
1 GAAGATGAA
26994670 GAAGATGAA
1 GAAGATGAA
26994679 GAAGATGA
1 GAAGATGA
26994687 TCTACAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.35, T:0.12
Consensus pattern (9 bp):
GAAGATGAA
Found at i:27007125 original size:18 final size:18
Alignment explanation
Indices: 27007098--27007132 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27007088 AGTTTTTTGA
*
27007098 TTTTTTGACTCTTTGGTC
1 TTTTTGGACTCTTTGGTC
*
27007116 TTTTTGGACTGTTTGGT
1 TTTTTGGACTCTTTGGT
27007133 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.11, G:0.23, T:0.60
Consensus pattern (18 bp):
TTTTTGGACTCTTTGGTC
Found at i:27009346 original size:3 final size:3
Alignment explanation
Indices: 27009338--27009379 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
27009328 CCTCTGAAAT
27009338 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TCTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TT
27009380 TTTTTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:27010799 original size:27 final size:28
Alignment explanation
Indices: 27010759--27010814 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
27010749 ACTTTTAGTG
* *
27010759 TCTAAATTATCCCTAGTAATTTTTTATA
1 TCTAAAATATCCCTAGTAATTTTTAATA
* *
27010787 TCTAAAATA-CCCTATTGATTTTTAATA
1 TCTAAAATATCCCTAGTAATTTTTAATA
27010814 T
1 T
27010815 TACCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (28 bp):
TCTAAAATATCCCTAGTAATTTTTAATA
Found at i:27010953 original size:38 final size:39
Alignment explanation
Indices: 27010887--27010968 Score: 121
Period size: 38 Copynumber: 2.1 Consensus size: 39
27010877 AAAAAGATGG
27010887 GGTAAATTAGGGAAAAAAAAGTAAAAAAAAATGGCAAAGTA
1 GGTAAATTAGGG--AAAAAAGTAAAAAAAAATGGCAAAGTA
**
27010928 GGTAAATTAGGG-AAAAAGTCGAAAAAAATGGCAAAGTA
1 GGTAAATTAGGGAAAAAAGTAAAAAAAAATGGCAAAGTA
27010966 GGT
1 GGT
27010969 CGCTTTTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
38 27 0.69
41 12 0.31
ACGTcount: A:0.55, C:0.04, G:0.26, T:0.16
Consensus pattern (39 bp):
GGTAAATTAGGGAAAAAAGTAAAAAAAAATGGCAAAGTA
Found at i:27015191 original size:8 final size:9
Alignment explanation
Indices: 27015127--27015191 Score: 53
Period size: 9 Copynumber: 7.0 Consensus size: 9
27015117 TTGTTACTAG
27015127 TTTTATTAT
1 TTTTATTAT
27015136 TTTTATT-T
1 TTTTATTAT
27015144 TTATTATTAT
1 TT-TTATTAT
* *
27015154 GTTTATTCT
1 TTTTATTAT
*
27015163 TGTTATGATAAT
1 T-TT-T-ATTAT
27015175 TTTTATTAT
1 TTTTATTAT
27015184 TTTT-TTAT
1 TTTTATTAT
27015192 CATTATTTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
8 7 0.16
9 26 0.58
10 5 0.11
11 3 0.07
12 4 0.09
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTATTAT
Found at i:27016686 original size:6 final size:6
Alignment explanation
Indices: 27016671--27016733 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
27016661 ATTTGTTTTA
* * * *
27016671 TTTA-T TTTCTT TTTCTT TTTATT TTTATC TTTATT TTTCTT TTTAGTTGT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA--T-T
27016721 TTTATT TTTATT T
1 TTTATT TTTATT T
27016734 CTTAGATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
5 3 0.06
6 38 0.79
7 1 0.02
8 1 0.02
9 5 0.10
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:27024381 original size:90 final size:90
Alignment explanation
Indices: 27024214--27024382 Score: 223
Period size: 90 Copynumber: 1.9 Consensus size: 90
27024204 TCTGCAAATC
* * *
27024214 TGGTGGTTCATCCACATATTATCTGGCAACTTTTATCTTCAAAAATGTTGTGTATTCACAACCAT
1 TGGTGGTTCACCCACATATTATCTAGCAACTTTTATCTGCAAAAATGTTGTGTATTCACAACCAT
*
27024279 CTGGCAGTGTATTAGTTTGCAACCT
66 CTGGCAGCGTATTAGTTTGCAACCT
* * ** *
27024304 TGGTGGTTCACCCATC-TGTTATCTAGCAGCTTTTATCTGCAATTATGTTGTGTATTCACAACCG
1 TGGTGGTTCACCCA-CATATTATCTAGCAACTTTTATCTGCAAAAATGTTGTGTATTCACAACCA
* *
27024368 TCTTGTAGCGTATTA
65 TCTGGCAGCGTATTA
27024383 ACCTGCAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
90 66 0.99
91 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (90 bp):
TGGTGGTTCACCCACATATTATCTAGCAACTTTTATCTGCAAAAATGTTGTGTATTCACAACCAT
CTGGCAGCGTATTAGTTTGCAACCT
Found at i:27028360 original size:16 final size:16
Alignment explanation
Indices: 27028339--27028372 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
27028329 TTAGTGTAAG
27028339 AATTAAATATGGTAGA
1 AATTAAATATGGTAGA
27028355 AATTAAATATGGTAGA
1 AATTAAATATGGTAGA
27028371 AA
1 AA
27028373 AAGAATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (16 bp):
AATTAAATATGGTAGA
Found at i:27028379 original size:16 final size:16
Alignment explanation
Indices: 27028343--27028381 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27028333 TGTAAGAATT
*
27028343 AAATATGGTAGAAATT
1 AAATATGGTAGAAATA
27028359 AAATATGGTAGAAA-A
1 AAATATGGTAGAAATA
27028374 AGAATATG
1 A-AATATG
27028382 ATATGTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (16 bp):
AAATATGGTAGAAATA
Found at i:27029125 original size:29 final size:29
Alignment explanation
Indices: 27029017--27029127 Score: 136
Period size: 29 Copynumber: 3.9 Consensus size: 29
27029007 TGGGCCGTTG
*
27029017 GTTTTCCAGATTTTATAGTTTTGCCACT-
1 GTTTTCCAGATTTTACAGTTTTGCCACTA
* * *
27029045 GTTATTCCAGATTTT-TAGTTCTGTCACTA
1 GTT-TTCCAGATTTTACAGTTTTGCCACTA
* **
27029074 GTTTTCCAAATTTTACAAATTTGCCACTA
1 GTTTTCCAGATTTTACAGTTTTGCCACTA
27029103 GTTTTCCAGATTTTACAGTTTTGCC
1 GTTTTCCAGATTTTACAGTTTTGCC
27029128 GCTCTTCTTC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
28 24 0.35
29 45 0.65
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.47
Consensus pattern (29 bp):
GTTTTCCAGATTTTACAGTTTTGCCACTA
Found at i:27032176 original size:50 final size:50
Alignment explanation
Indices: 27032045--27032242 Score: 211
Period size: 50 Copynumber: 4.0 Consensus size: 50
27032035 TGATCTATTG
* * * * **
27032045 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA
1 TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA
* * * **
27032095 CTGTGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGA
1 -TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA
*
27032146 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTG-
1 TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGA
* * * * *
27032196 T-TGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGAT
1 TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
27032243 AGCTTCGGCT
Statistics
Matches: 125, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 39 0.31
50 44 0.35
51 41 0.33
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
TGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA
Found at i:27035577 original size:39 final size:39
Alignment explanation
Indices: 27035526--27035604 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
27035516 TATTATTAAG
*
27035526 TATAGTTATTATTTATTTTGATTTAAAATTCATTTTTAT
1 TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
*
27035565 TATAGTTGTTATTTATTTTGATTTAAAATTCATATTTAT
1 TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
27035604 T
1 T
27035605 TATTGGATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (39 bp):
TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
Found at i:27035638 original size:18 final size:19
Alignment explanation
Indices: 27035598--27035638 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
27035588 TAAAATTCAT
*
27035598 ATTTATTTATTGGATATAG
1 ATTTATGTATTGGATATAG
27035617 ATTTATGTA-TGGAGTATA-
1 ATTTATGTATTGGA-TATAG
27035635 ATTT
1 ATTT
27035639 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
ATTTATGTATTGGATATAG
Found at i:27035975 original size:21 final size:21
Alignment explanation
Indices: 27035951--27035991 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27035941 AATATTTAAA
* *
27035951 AATATTAAAAATATATATTAG
1 AATACTAAAAATAAATATTAG
*
27035972 AATACTAAAATTAAATATTA
1 AATACTAAAAATAAATATTA
27035992 TAATGTTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AATACTAAAAATAAATATTAG
Found at i:27036084 original size:14 final size:14
Alignment explanation
Indices: 27036046--27036074 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27036036 TAATAACATA
27036046 ATAAATTA-TTAAT
1 ATAAATTATTTAAT
27036059 ATAAATTATTTAAT
1 ATAAATTATTTAAT
27036073 AT
1 AT
27036075 TATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAATTATTTAAT
Found at i:27038836 original size:23 final size:23
Alignment explanation
Indices: 27038771--27038861 Score: 69
Period size: 23 Copynumber: 3.8 Consensus size: 23
27038761 AACAAGTACT
*
27038771 ATATATAAA-ATAAAAATTATATATA
1 ATATATAAATTTAAAAATTA-A-A-A
* * *
27038796 ATTATATGAAATTAAAAAATTCAAT
1 A-TATAT-AAATTTAAAAATTAAAA
*
27038821 ATATATAAATTTAAAAAATAAAA
1 ATATATAAATTTAAAAATTAAAA
*
27038844 ATATTTAAA-TTAAAAATT
1 ATATATAAATTTAAAAATT
27038862 GATCAGGGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
22 8 0.15
23 21 0.40
24 5 0.09
25 2 0.04
26 6 0.11
27 4 0.08
28 7 0.13
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (23 bp):
ATATATAAATTTAAAAATTAAAA
Found at i:27044473 original size:25 final size:26
Alignment explanation
Indices: 27044419--27044473 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
27044409 ATGATTTATA
**
27044419 ACATCAAACATTAAGTCATTTTGCAAG
1 ACATCAAACAAGAAGTCA-TTTGCAAG
27044446 ACATCAAACAAGAAGTCA-TTGCAAG
1 ACATCAAACAAGAAGTCATTTGCAAG
27044471 ACA
1 ACA
27044474 AAACTTCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 10 0.38
27 16 0.62
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (26 bp):
ACATCAAACAAGAAGTCATTTGCAAG
Found at i:27046724 original size:21 final size:21
Alignment explanation
Indices: 27046700--27046741 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27046690 CTACTTTGAA
27046700 ATATGATGCATTTGACTCTTG
1 ATATGATGCATTTGACTCTTG
27046721 ATATGATGCATTTGACTCTTG
1 ATATGATGCATTTGACTCTTG
27046742 CAGGTGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (21 bp):
ATATGATGCATTTGACTCTTG
Found at i:27050285 original size:22 final size:19
Alignment explanation
Indices: 27050257--27050296 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
27050247 AATAATATCA
27050257 TTGATATATATATATTTTTAAT
1 TTGATAT-T-TAT-TTTTTAAT
27050279 TTGATATTTATTTTTTAA
1 TTGATATTTATTTTTTAA
27050297 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 1 0.06
22 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTGATATTTATTTTTTAAT
Found at i:27050294 original size:20 final size:22
Alignment explanation
Indices: 27050257--27050300 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
27050247 AATAATATCA
*
27050257 TTGATATATATATATTTTTAAT
1 TTGATATATATATATTTTAAAT
*
27050279 TTGATAT-T-TATTTTTTAAAT
1 TTGATATATATATATTTTAAAT
27050299 TT
1 TT
27050301 TAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 1 0.05
22 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTGATATATATATATTTTAAAT
Found at i:27050553 original size:17 final size:17
Alignment explanation
Indices: 27050531--27050567 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27050521 AAGAACATTT
27050531 AAAATTAATATTAAA-TA
1 AAAATTAA-ATTAAACTA
27050548 AAAATTAAATTAAACTA
1 AAAATTAAATTAAACTA
27050565 AAA
1 AAA
27050568 TAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTAAATTAAACTA
Found at i:27050554 original size:11 final size:11
Alignment explanation
Indices: 27050540--27050579 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
27050530 TAAAATTAAT
27050540 ATTAAATAAAA
1 ATTAAATAAAA
*
27050551 ATTAAATTAAA
1 ATTAAATAAAA
* *
27050562 CTAAAATAAAA
1 ATTAAATAAAA
27050573 ATTAAAT
1 ATTAAAT
27050580 CTCTCCCTCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
ATTAAATAAAA
Found at i:27055011 original size:132 final size:132
Alignment explanation
Indices: 27054771--27055022 Score: 407
Period size: 132 Copynumber: 1.9 Consensus size: 132
27054761 TACAATGTAA
* * * *
27054771 TAAATTGAACTAAGTAGTATAAAATTAAAAATTTAAAATAATTTATTATCAAACTAAATTTATAA
1 TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
* *
27054836 TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATTACTTGTATTTCTGCAATTATTATCAA
66 TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATCACTTGTATCTCTGCAATTATTATCAA
27054901 AC
131 AC
* * *
27054903 TAAATTGAACTAAGTAGTCCAAAACTAGAAATTTAGAATAAATTATTATCAAACTAAAATTATAA
1 TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
27054968 TTTATTCACAAAATCCTATTAACATGCTCCTAA-CCAATCACTTGTATCTCTGCAA
66 TTTATTCACAAAATCCTATTAACATGCTCC-AACCCAATCACTTGTATCTCTGCAA
27055023 GCTCAAGCAA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
132 108 0.98
133 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.35
Consensus pattern (132 bp):
TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATCACTTGTATCTCTGCAATTATTATCAA
AC
Found at i:27082765 original size:23 final size:23
Alignment explanation
Indices: 27082728--27082785 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
27082718 GCAACACGAT
27082728 TTTCCCTTTCCCTTCCCCTTCCCC
1 TTTCCC-TTCCCTTCCCCTTCCCC
27082752 TTTCCCTTCCCTTCCCCTTCCCC
1 TTTCCCTTCCCTTCCCCTTCCCC
*
27082775 TTCCCCTTCCC
1 TTTCCCTTCCC
27082786 CCTCCCCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 27 0.82
24 6 0.18
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTCCCTTCCCTTCCCCTTCCCC
Found at i:27082793 original size:6 final size:6
Alignment explanation
Indices: 27082731--27082792 Score: 90
Period size: 6 Copynumber: 10.5 Consensus size: 6
27082721 ACACGATTTT
* *
27082731 CCCTTT CCCTTC CCCTTC CCCTTT CCCTT- CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
*
27082778 CCCTTC CCCCTC CCC
1 CCCTTC CCCTTC CCC
27082793 CATCTTCTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
5 5 0.10
6 47 0.90
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CCCTTC
Found at i:27086109 original size:17 final size:18
Alignment explanation
Indices: 27086071--27086110 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
27086061 TAAAATTATT
*
27086071 TAAAATTAATATTAAATA
1 TAAAATTAATATTAAAAA
27086089 -AAAATTAA-ATTAAAAA
1 TAAAATTAATATTAAAAA
27086105 TAAAAT
1 TAAAAT
27086111 ATCATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATTAATATTAAAAA
Found at i:27088006 original size:17 final size:18
Alignment explanation
Indices: 27087973--27088007 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27087963 TAGAAATTAT
*
27087973 AATAATTACATATTTAAA
1 AATAATTACAAATTTAAA
27087991 AATAATTA-AAATTTAAA
1 AATAATTACAAATTTAAA
27088008 TTACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAATTACAAATTTAAA
Found at i:27090678 original size:17 final size:17
Alignment explanation
Indices: 27090656--27090694 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
27090646 ACTTTATTGT
27090656 ATTTATTAATT-AATATA
1 ATTTATT-ATTAAATATA
*
27090673 ATTTATTATTAAATTTA
1 ATTTATTATTAAATATA
27090690 ATTTA
1 ATTTA
27090695 ATAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATTATTAAATATA
Found at i:27092702 original size:13 final size:13
Alignment explanation
Indices: 27092684--27092710 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27092674 TTTAAAGTGC
27092684 TTAATTGCTATGA
1 TTAATTGCTATGA
27092697 TTAATTGCTATGA
1 TTAATTGCTATGA
27092710 T
1 T
27092711 ATTAGACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTAATTGCTATGA
Found at i:27098909 original size:34 final size:34
Alignment explanation
Indices: 27098866--27098969 Score: 174
Period size: 34 Copynumber: 3.1 Consensus size: 34
27098856 GCATTTCTGT
27098866 TACTGATACTGTAAAGGGCTATGGCCCACACTGA
1 TACTGATACTGTAAAGGGCTATGGCCCACACTGA
27098900 TACTGATACTGTAAAGGGCTATGGCCCACACTGA
1 TACTGATACTGTAAAGGGCTATGGCCCACACTGA
* *
27098934 TAATGATACTGTAATGGGCTATGGCCCTA-ACTGA
1 TACTGATACTGTAAAGGGCTATGGCCC-ACACTGA
27098968 TA
1 TA
27098970 TTGGACTGCC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
34 66 0.99
35 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (34 bp):
TACTGATACTGTAAAGGGCTATGGCCCACACTGA
Found at i:27110105 original size:40 final size:40
Alignment explanation
Indices: 27110045--27110315 Score: 371
Period size: 40 Copynumber: 6.8 Consensus size: 40
27110035 GAAATTTCCA
* **
27110045 TGAAAGCACATACGTGCCCCTGTTTGTACTTCAGTATGCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * *
27110085 TGAATGCACATACGTGCCCCTATTTATACTTCAGTGCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* *
27110125 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACGCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
** *
27110165 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTGCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
** * *
27110205 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTGCCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * *
27110245 TAAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
*
27110285 TGAATGCACATACGTGCCCCTATTTGTACTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTT
27110316 TGAAACCCCA
Statistics
Matches: 208, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
Found at i:27110141 original size:20 final size:20
Alignment explanation
Indices: 27110118--27110305 Score: 103
Period size: 20 Copynumber: 9.4 Consensus size: 20
27110108 TTATACTTCA
*
27110118 GTGCCCCTGAATGCACATAT
1 GTGCCCCTGAATGCACATAC
** * *
27110138 GTGCCCCTGTTTGTAC-TTC
1 GTGCCCCTGAATGCACATAC
* *
27110157 AGTACGCCTGAATGCACATAC
1 -GTGCCCCTGAATGCACATAC
** * * **
27110178 GTGCCCCTGTTTGTACTTTG
1 GTGCCCCTGAATGCACATAC
27110198 GTGCCCCTGAATGCACATAC
1 GTGCCCCTGAATGCACATAC
** * * **
27110218 GTGCCCCTGTTTGTACTTTG
1 GTGCCCCTGAATGCACATAC
* *
27110238 GTGCCCTTAAATGCACATAC
1 GTGCCCCTGAATGCACATAC
* * *
27110258 GTGCCCCT-ATTTGTAC-TTC
1 GTGCCCCTGA-ATGCACATAC
*
27110277 GGTACCCCTGAATGCACATAC
1 -GTGCCCCTGAATGCACATAC
27110298 GTGCCCCT
1 GTGCCCCT
27110306 ATTTGTACTT
Statistics
Matches: 114, Mismatches: 48, Indels: 12
0.66 0.28 0.07
Matches are distributed among these distances:
19 4 0.04
20 105 0.92
21 5 0.04
ACGTcount: A:0.18, C:0.31, G:0.20, T:0.31
Consensus pattern (20 bp):
GTGCCCCTGAATGCACATAC
Found at i:27110183 original size:80 final size:80
Alignment explanation
Indices: 27110045--27110315 Score: 409
Period size: 80 Copynumber: 3.4 Consensus size: 80
27110035 GAAATTTCCA
* *
27110045 TGAAAGCACATACGTGCCCCTGTTTGTACTTCAGTATGCCTGAATGCACATACGTGCCCCTATTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACGCCTGAATGCACATACGTGCCCCTATTT
* *
27110110 ATACTTCAGTGCCCC
66 GTACTTCGGTGCCCC
* *
27110125 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACGCCTGAATGCACATACGTGCCCCTGTTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACGCCTGAATGCACATACGTGCCCCTATTT
*
27110190 GTACTTTGGTGCCCC
66 GTACTTCGGTGCCCC
** * *
27110205 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTGC-CCTTAAATGCACATACGTGCCCCTATT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACGCC-TGAATGCACATACGTGCCCCTATT
*
27110269 TGTACTTCGGTACCCC
65 TGTACTTCGGTGCCCC
*
27110285 TGAATGCACATACGTGCCCCTATTTGTACTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTT
27110316 TGAAACCCCA
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 2 0.01
80 172 0.99
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACGCCTGAATGCACATACGTGCCCCTATTT
GTACTTCGGTGCCCC
Found at i:27119268 original size:27 final size:27
Alignment explanation
Indices: 27119238--27119383 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
27119228 CCTTAATTGA
27119238 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* **
27119265 TAAAATGACTGTTTTGCAGTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
27119292 TAAAATGACTGTTTTGCCTTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGG
*
27119319 TAAAATGACTATTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* **
27119346 TAAAATGATTATTTTTACCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
27119373 TAAAATGACTA
1 TAAAATGACTA
27119384 AAATGCCCCT
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:27129360 original size:50 final size:50
Alignment explanation
Indices: 27129280--27129518 Score: 286
Period size: 50 Copynumber: 4.8 Consensus size: 50
27129270 TGATGCTAGG
* *
27129280 GAGATATGAGAGCTAGTGTAAGACCGTGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* *
27129330 GAGATATGAGAGCTAGTGTAATACCATGTCTGGGACATGGCATTAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* *
27129380 AAGATATGGGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTC
* * * * **
27129430 GATAGATGAGAGCAAATGTAAGACCATGTCTGGGACATGGCATC-GAAT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
** * * * *
27129478 TTGATATGTGAGCCAGTGTAAGACCATGTTTAGGACATGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
27129519 GTCGGCACCT
Statistics
Matches: 162, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
48 32 0.20
49 1 0.01
50 128 0.79
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
Found at i:27138972 original size:21 final size:22
Alignment explanation
Indices: 27138936--27138979 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
27138926 TTTCTTCACA
*
27138936 ATCATAAGTCATACATCATCAT
1 ATCATAAGTCAAACATCATCAT
27138958 ATCAT-AGTCAAACATCATCAT
1 ATCATAAGTCAAACATCATCAT
27138979 A
1 A
27138980 AAGTCCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (22 bp):
ATCATAAGTCAAACATCATCAT
Found at i:27139551 original size:24 final size:24
Alignment explanation
Indices: 27139499--27139554 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
27139489 TAGCATGCGT
*
27139499 ATATATATCATCATCCCTTTGTAC
1 ATATCTATCATCATCCCTTTGTAC
27139523 ATATCTATCATCATCCCTTTGTAC
1 ATATCTATCATCATCCCTTTGTAC
27139547 ATATCTAT
1 ATATCTAT
27139555 TTCATAAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.43
Consensus pattern (24 bp):
ATATCTATCATCATCCCTTTGTAC
Found at i:27143244 original size:19 final size:18
Alignment explanation
Indices: 27143210--27143245 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27143200 TCGGTTTAAT
*
27143210 TAAACACAACGTTTTTCC
1 TAAACACAACGATTTTCC
27143228 TAAACACAAACGATTTTC
1 TAAACAC-AACGATTTTC
27143246 TTTAAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.31
Consensus pattern (18 bp):
TAAACACAACGATTTTCC
Found at i:27147077 original size:22 final size:22
Alignment explanation
Indices: 27147049--27147092 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27147039 AGTTTAATTT
27147049 AATTTGATAGTTAAATATTGAA
1 AATTTGATAGTTAAATATTGAA
27147071 AATTTGATAGTTAAATATTGAA
1 AATTTGATAGTTAAATATTGAA
27147093 CACATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (22 bp):
AATTTGATAGTTAAATATTGAA
Found at i:27151887 original size:26 final size:25
Alignment explanation
Indices: 27151822--27151887 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
27151812 ACAATTGAAC
* * *
27151822 GAAGAAAGAAGGAAAAGAATAAAAAG
1 GAAGAAA-AAGAAAAAGAAAAAAAAA
*
27151848 GAAG-AAACGAAAAAAGAAAAAACAAA
1 GAAGAAAAAG-AAAAAGAAAAAA-AAA
27151874 GAAGAAAAAGAAAA
1 GAAGAAAAAGAAAA
27151888 TGGAGATGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 2 0.06
25 12 0.38
26 14 0.44
27 4 0.12
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.02
Consensus pattern (25 bp):
GAAGAAAAAGAAAAAGAAAAAAAAA
Found at i:27154034 original size:31 final size:31
Alignment explanation
Indices: 27153981--27154045 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
27153971 TCGATTTAAA
* * *
27153981 TAATAAAAAATAATATTTTAAAATTTAATTT
1 TAATAAAAAATAATAATATAAAAATTAATTT
* * *
27154012 TAATTAAAAATATTAATATAAAAATTATTTT
1 TAATAAAAAATAATAATATAAAAATTAATTT
27154043 TAA
1 TAA
27154046 ATATTTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
TAATAAAAAATAATAATATAAAAATTAATTT
Found at i:27155655 original size:23 final size:23
Alignment explanation
Indices: 27155625--27155839 Score: 104
Period size: 21 Copynumber: 9.6 Consensus size: 23
27155615 TTATATTATA
27155625 TATTATATATTATATAATTATTT
1 TATTATATATTATATAATTATTT
*
27155648 TATTATATA-TAT-TTA-TATTAT
1 TATTATATATTATATAATTATT-T
*
27155669 TATTATTTATTATAT-ATTATTTT
1 TATTATATATTATATAATTA-TTT
* *
27155692 CACAAATTAT-TATTATTTTACATTATTAT
1 ----TATTATATATTA-TATA-ATTATT-T
** *
27155721 ATATTAT-TATTATATTTTTACTTA
1 -TATTATATATTATATAATTA-TTT
27155745 TATTATATATT-TATTAATTA-TT
1 TATTATATATTATA-TAATTATTT
*
27155767 TA-TATATATTATAT-CTTA-TT
1 TATTATATATTATATAATTATTT
* * *
27155787 T-TT-TACA-TATATACTT-TTA
1 TATTATATATTATATAATTATTT
27155806 TATTATATA-T-TATAATTATTT
1 TATTATATATTATATAATTATTT
27155827 TATTATATATTAT
1 TATTATATATTAT
27155840 TATGTCATTT
Statistics
Matches: 149, Mismatches: 18, Indels: 50
0.69 0.08 0.23
Matches are distributed among these distances:
18 5 0.03
19 8 0.05
20 19 0.13
21 35 0.23
22 13 0.09
23 22 0.15
24 13 0.09
25 4 0.03
26 16 0.11
27 7 0.05
28 2 0.01
29 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATATATTATATAATTATTT
Found at i:27155687 original size:51 final size:53
Alignment explanation
Indices: 27155618--27155863 Score: 162
Period size: 57 Copynumber: 4.4 Consensus size: 53
27155608 CTTATTTTTA
*
27155618 TATTATATATTATATATTATATAATTATT-TTATTATATA-TATTTATATTAT
1 TATTATTTATTATATATTATATAATTATTATTATTATATATTATTTATATTAT
* * *
27155669 TATTATTTATTATATATTATTTTCACAAATTATTATTATTTTACATTATTATATATTAT
1 TATTATTTATTATATATTA---T-A-TAATTATTATTATTATATATTATT-TATATTAT
* * *
27155728 TATTATATTTTTACTTATATTATATATTTATTAATTATT-TATA-TATATTATA-TCT
1 TATTAT-TTATTA--TATATTATATAATTATT-ATTATTATATATTAT-TTATATTAT
* * * * *
27155783 TATTTTTTACATATATACTTTTAT-ATTATATATTATAATTATTTTATTATATATTAT
1 TATTATTTA-TTATATA-TTATATAATTAT-TATTATTA-TATATTATT-TATATTAT
*
27155840 TATGTCATTTGTTATATTATTATA
1 TAT-T-ATTTATTATA-TATTATA
27155864 CATTTTTATC
Statistics
Matches: 150, Mismatches: 21, Indels: 41
0.71 0.10 0.19
Matches are distributed among these distances:
51 18 0.12
53 13 0.09
54 9 0.06
55 14 0.09
56 21 0.14
57 23 0.15
58 20 0.13
59 20 0.13
60 5 0.03
62 7 0.05
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (53 bp):
TATTATTTATTATATATTATATAATTATTATTATTATATATTATTTATATTAT
Found at i:27155780 original size:26 final size:27
Alignment explanation
Indices: 27155621--27155688 Score: 52
Period size: 29 Copynumber: 2.4 Consensus size: 27
27155611 ATTTTTATAT
27155621 TATATATTATATATTA-TATAATTATTT-
1 TATATATTATAT-TTATTAT-ATTATTTA
27155648 TAT-TATATATATTTATATTATTATTATTTA
1 TATATAT-TATA-TT-TATTA-TATTATTTA
27155678 TTATATATTAT
1 -TATATATTAT
27155689 TTTCACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
26 3 0.09
27 8 0.24
28 3 0.09
29 9 0.27
30 1 0.03
31 6 0.18
32 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATATTATATTTATTATATTATTTA
Found at i:27155824 original size:97 final size:89
Alignment explanation
Indices: 27155613--27155862 Score: 240
Period size: 97 Copynumber: 2.7 Consensus size: 89
27155603 TTAACCTTAT
*
27155613 TTTTATATTATATATTATATATTA-TATAATTATTTTATTATATATATTTATATTATTATTATTT
1 TTTTATATTATATATTATATATTATTATTATTATTTTATTATATATATTTATATTATTATTATTT
27155677 ATTATATATTATTTTCACAAATTA
66 ATTATATATTATTTTCACAAATTA
* *
27155701 TTATTATTTTACATTATTATATATTATTATTA-TATTTTTACTTATATTATATATT-TATTAATT
1 TT-TTATATTATA-TATTATATATTATTATTATTA-TTTTA-TTATA-TATAT-TTATATT-ATT
* * *
27155764 ATTTATATATATTATATCTTATTTTTTACATATATA
59 A-TTAT-T-TATTATATATTA-TTTTCACAAAT-TA
* *
27155800 CTTTTATATTATATATTATA-ATTATT-TTATTATATATTATTATGTCATTTGTTATATTATTAT
1 -TTTTATATTATATATTATATATTATTATTATTAT-T-TTATTATAT-ATAT-TTATATTATTAT
27155863 ACATTTTTAT
Statistics
Matches: 132, Mismatches: 11, Indels: 30
0.76 0.06 0.17
Matches are distributed among these distances:
88 2 0.02
89 8 0.06
90 14 0.11
91 9 0.07
92 5 0.04
93 9 0.07
94 6 0.05
95 4 0.03
96 7 0.05
97 33 0.25
98 23 0.17
99 10 0.08
100 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (89 bp):
TTTTATATTATATATTATATATTATTATTATTATTTTATTATATATATTTATATTATTATTATTT
ATTATATATTATTTTCACAAATTA
Found at i:27155832 original size:14 final size:15
Alignment explanation
Indices: 27155618--27155884 Score: 118
Period size: 14 Copynumber: 17.9 Consensus size: 15
27155608 CTTATTTTTA
*
27155618 TATTATATATTA-TA
1 TATTATATATTATTT
27155632 TATTATATAATTATTT
1 TATTATAT-ATTATTT
27155648 TATTATATA-TATTT
1 TATTATATATTATTT
27155662 ATATTAT-TATTA-TT
1 -TATTATATATTATTT
27155676 TATTATATATTATTT
1 TATTATATATTATTT
27155691 TCACAAATTAT-TATTATTT
1 T-----ATTATATATTATTT
27155710 TACATTAT-TATATATTAT
1 T--ATTATATAT-TATT-T
* *
27155728 TATTATATTTTTACTTA
1 TATTATA-TATTA-TTT
*
27155745 TATTATATATT-TAT
1 TATTATATATTATTT
* *
27155759 TAAT-TAT-TTATATA
1 TATTATATATTAT-TT
*
27155773 TATTATATCTTATTT
1 TATTATATATTATTT
* **
27155788 T-TTACATA-TATAC
1 TATTATATATTATTT
*
27155801 T-TT-TATATTA-TA
1 TATTATATATTATTT
27155813 TATTATA-ATTATTT
1 TATTATATATTATTT
*
27155827 TATTATATATTATTA
1 TATTATATATTATTT
* * * * *
27155842 TGTCATTTGTTATAT
1 TATTATATATTATTT
*
27155857 TATTATACA-T-TTT
1 TATTATATATTATTT
27155870 TATCTATATATTATT
1 TAT-TATATATTATT
27155885 ATCATTAAAG
Statistics
Matches: 191, Mismatches: 34, Indels: 54
0.68 0.12 0.19
Matches are distributed among these distances:
12 6 0.03
13 29 0.15
14 50 0.26
15 41 0.21
16 32 0.17
17 13 0.07
18 6 0.03
19 9 0.05
20 5 0.03
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (15 bp):
TATTATATATTATTT
Found at i:27156170 original size:36 final size:35
Alignment explanation
Indices: 27156119--27156186 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
27156109 ATATTTTATA
* *
27156119 TATTATTTTTCTAAATCAATATATTTT-TTATATAAT
1 TATTATTCTTATAAAT--ATATATTTTATTATATAAT
*
27156155 TATTATTCTTATAAATATATTTTTTATTATAT
1 TATTATTCTTATAAATATATATTTTATTATAT
27156187 GTTATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 8 0.29
35 6 0.21
36 14 0.50
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (35 bp):
TATTATTCTTATAAATATATATTTTATTATATAAT
Found at i:27156172 original size:32 final size:32
Alignment explanation
Indices: 27156112--27156186 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
27156102 ATATTTGATA
* *
27156112 TTTTATATATTATTTTTCTAAATCAATATATT
1 TTTTATATATTATTATTCTAAATAAATATATT
*
27156144 TTTTATATAATTATTATTCT-TATAAATATATT
1 TTTTATAT-ATTATTATTCTAAATAAATATATT
27156176 TTTTATTATAT
1 TTTTA-TATAT
27156187 GTTATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 25 0.66
33 13 0.34
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (32 bp):
TTTTATATATTATTATTCTAAATAAATATATT
Found at i:27156181 original size:15 final size:16
Alignment explanation
Indices: 27156112--27156181 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 16
27156102 ATATTTGATA
27156112 TTTTATAT-AT-TATT
1 TTTTATATAATATATT
*
27156126 TTTCTAAATCAATATATT
1 TTT-TATAT-AATATATT
27156144 TTTTATATAAT-TATT
1 TTTTATATAATATATT
27156159 ATTCTTATA-AATATATT
1 -TT-TTATATAATATATT
27156176 TTTTAT
1 TTTTAT
27156182 TATATGTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.06
15 12 0.26
16 10 0.21
17 15 0.32
18 7 0.15
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATATAATATATT
Found at i:27160169 original size:11 final size:11
Alignment explanation
Indices: 27160153--27160195 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
27160143 GTTTTAATTA
27160153 AATAAAATATT
1 AATAAAATATT
*
27160164 AAT-AAATATCC
1 AATAAAATAT-T
27160175 AATTAAAATATT
1 AA-TAAAATATT
27160187 AATAAAATA
1 AATAAAATA
27160196 ATATTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.22
11 12 0.44
12 3 0.11
13 6 0.22
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:27167240 original size:17 final size:17
Alignment explanation
Indices: 27167218--27167251 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27167208 TTTACAAACT
*
27167218 TAAAAAATATATTAAAA
1 TAAAAAAAATATTAAAA
*
27167235 TAAAAAAAATTTTAAAA
1 TAAAAAAAATATTAAAA
27167252 AAAGGAAGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAAAATATTAAAA
Found at i:27171976 original size:27 final size:27
Alignment explanation
Indices: 27171938--27172019 Score: 137
Period size: 27 Copynumber: 3.0 Consensus size: 27
27171928 CAACTTGATA
*
27171938 TGGCCCTTCTTCTTGTAGTAGCCACAT
1 TGGCCCTTCTTCTTGCAGTAGCCACAT
*
27171965 TGGCCCTTCTTCTTGCAATAGCCACAT
1 TGGCCCTTCTTCTTGCAGTAGCCACAT
*
27171992 TGGCCCTTCTTTTTGCAGTAGCCACAT
1 TGGCCCTTCTTCTTGCAGTAGCCACAT
27172019 T
1 T
27172020 CTTTGCCTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.37
Consensus pattern (27 bp):
TGGCCCTTCTTCTTGCAGTAGCCACAT
Found at i:27172399 original size:31 final size:31
Alignment explanation
Indices: 27172364--27172427 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
27172354 TAGACTCACC
27172364 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
1 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
*
27172395 TTCGGTTATTTTAAACGTGTAGAGATGTTGT
1 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
27172426 TT
1 TT
27172428 TAACACTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.45
Consensus pattern (31 bp):
TTCGGTTATTCTAAACGTGTAGAGATGTTGT
Found at i:27175878 original size:7 final size:7
Alignment explanation
Indices: 27175866--27175893 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
27175856 TCATAAGTCA
27175866 ATTTGAT
1 ATTTGAT
27175873 ATTTGAT
1 ATTTGAT
27175880 ATTTGAT
1 ATTTGAT
27175887 ATTTGAT
1 ATTTGAT
27175894 GCACACAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
ATTTGAT
Done.