Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 265 of 333
Found at i:87621143 original size:7 final size:7
Alignment explanation
Indices: 87621131--87621156 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87621121 AGAGCGAGCA
87621131 ATATGTG
1 ATATGTG
87621138 ATATGTG
1 ATATGTG
87621145 ATATGTG
1 ATATGTG
87621152 ATATG
1 ATATG
87621157 AGGTAGCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
ATATGTG
Found at i:87643293 original size:27 final size:27
Alignment explanation
Indices: 87643263--87643319 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
87643253 TAATTAATTT
87643263 ATTTAAGGAAAT-AATT-TTTAGTTGTTA
1 ATTTAAGGAAATAAATTATTTA-TT-TTA
87643290 ATTTAAGGAAATAAATTATTTATTTTA
1 ATTTAAGGAAATAAATTATTTATTTTA
87643317 ATT
1 ATT
87643320 GTTTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 18 0.64
28 6 0.21
29 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTAAGGAAATAAATTATTTATTTTA
Found at i:87649737 original size:16 final size:15
Alignment explanation
Indices: 87649718--87649760 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
87649708 ATATTTTAAT
*
87649718 GAAAAAATAAAATAC
1 GAAAAAATAAAACAC
87649733 GGAAAGAAATAAAACAC
1 -GAAA-AAATAAAACAC
87649750 GAAAATAATAA
1 GAAAA-AATAA
87649761 CTTTTTTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
17 10 0.42
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.12
Consensus pattern (15 bp):
GAAAAAATAAAACAC
Found at i:87649973 original size:25 final size:25
Alignment explanation
Indices: 87649945--87650025 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 25
87649935 GAAACATTAT
*
87649945 ATACTAAAATAATATAAAAAATAAA
1 ATACAAAAATAATATAAAAAATAAA
*
87649970 ATACGAAAATAGGATATTTTAAAAAATAAA
1 ATACAAAAATA--ATA---TAAAAAATAAA
* * *
87650000 ATCCAAAAATAAAATAAATAATAAA
1 ATACAAAAATAATATAAAAAATAAA
87650025 A
1 A
87650026 ATAAACGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
25 21 0.46
27 3 0.07
28 2 0.04
30 20 0.43
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (25 bp):
ATACAAAAATAATATAAAAAATAAA
Found at i:87650129 original size:156 final size:154
Alignment explanation
Indices: 87649793--87650657 Score: 1136
Period size: 154 Copynumber: 5.5 Consensus size: 154
87649783 GGCGGTTTTT
* * *
87649793 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTTTATTTTTAAAAAATAAAATACGAAAAT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA-TTTTAAAAAATAAAATCCAAAAAT
* * * *
87649857 AAAAATAAA-AA-AAGAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACAC
65 -AAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACAC
*
87649920 TAAAATAATACATTTGAAACATTATA
129 TAAAATAATACATTTGAAACATTATG
*
87649946 TACTAAAATAATATAAAAAATAAAATACGAAAATAGGATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
*
87650011 AAATAAATAATAAAAATAAACGGCCAAAACCAGAGTTTTTTACTAAATTAATATAATAAAAACAC
66 AAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATAT-A-AAAAACAC
87650076 TAAAATAATACATTTGAAACATTATG
129 TAAAATAATACATTTGAAACATTATG
* *
87650102 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCAAAATTA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
* *
87650167 AAAT--A-AA-AAAACT-AACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAATACTA
66 AAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
87650227 AAATAATACATTTGAAACATTATG
131 AAATAATACATTTGAAACATTATG
*
87650251 TACTAAAATAATATAAAATAATAAATTACGAAAATAGTATATTTT-AAAAATAAAATCCAAAAAT
1 TACTAAAATAATATAAAA-AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAAT
* * *
87650315 AAAATAAATAGTAAAAACAAACGCCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACT
65 AAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACT
*
87650380 AAAATAATACATTAGAAACATTATG
130 AAAATAATACATTTGAAACATTATG
*
87650405 TACTAAAATAATATAAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAAATAGTATAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT----A-A--A-A-
** * *
87650470 TTTAAAAAATAAAATTCGAAAATAAAATAAATAAATAAATAAAATGGCCAAAATTAGAGTTTTTT
56 --T---CCA-AAAA-T--AAAAT-AAAT-AAT-AA-AAAT-AAACGGCCAAAATCAGAGTTTTTT
*
87650535 ACTAAATTAATATAAAATAATACTAAAATAATACATTTGAAACATTATG
107 ACTAAATTAATATAAAA-AACACTAAAATAATACATTTGAAACATTATG
* * * *
87650584 TAATAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
87650649 AAATAAATA
66 AAATAAATA
87650658 CCAAAATATA
Statistics
Matches: 636, Mismatches: 39, Indels: 69
0.85 0.05 0.09
Matches are distributed among these distances:
149 74 0.12
150 25 0.04
151 36 0.06
152 14 0.02
153 44 0.07
154 170 0.27
155 11 0.02
156 99 0.16
158 1 0.00
159 5 0.01
160 6 0.01
162 2 0.00
163 5 0.01
166 1 0.00
167 1 0.00
169 1 0.00
170 5 0.01
171 2 0.00
173 6 0.01
174 5 0.01
175 2 0.00
176 2 0.00
177 3 0.00
178 74 0.12
179 42 0.07
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.28
Consensus pattern (154 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
AAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
AAATAATACATTTGAAACATTATG
Found at i:87650229 original size:305 final size:306
Alignment explanation
Indices: 87649793--87650657 Score: 1105
Period size: 305 Copynumber: 2.7 Consensus size: 306
87649783 GGCGGTTTTT
* * *
87649793 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTTTATTTTTAAAAAATAAAATACGAAAAT
1 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATA-TTTTAAAAAATAAAATACCAAAAT
*
87649857 AAAAATAAAAAAAGAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
65 AAAAAT-AAAAAAGAACAAACGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
87649922 AAATAATACATTTGAAACATTATATACTAAAATAATATAAAA-AATAAAATACGAAAATAGGATA
129 AAATAATACATTTGAAACATTATATACTAAAATAATATAAAATAATAAAATACGAAAATAGGATA
* *
87649986 TTTTAAAAAATAAAATCCAAAAATAAAATAAATAATAAAAATAAACGGCCAAAACCAGAGTTTTT
194 TTTT-AAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGCCCAAAACCAGAGTTTTT
*
87650051 TACTAAATTAATATAATAAAAACACTAAAATAATACATTTGAAACATTATG
258 TACTAAATTAATAT-A-AAAAACACTAAAATAATACATTAGAAACATTATG
*
87650102 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAAT-CCAAAATT
1 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATACCAAAATA
* * *
87650166 AAAAT-AAAAA-AACTAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAATACTAAA
66 AAAATAAAAAAGAACAAACGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAA
* * *
87650229 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAATAATAAATTACGAAAATAGTATATT
131 ATAATACATTTGAAACATTATATACTAAAATAATATAAAATAATAAAATACGAAAATAGGATATT
* *
87650294 TTAAAAATAAAATCCAAAAATAAAATAAATAGTAAAAACAAACGCCCAAAATCAGAGTTTTTTAC
196 TTAAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGCCCAAAACCAGAGTTTTTTAC
87650359 TAAATTAATATAAAAAACACTAAAATAATACATTAGAAACATTATG
261 TAAATTAATATAAAAAACACTAAAATAATACATTAGAAACATTATG
87650405 TACTAAAATAATATAAAAAAATAAAATA-AGAAAATAGTATATTTTAAAAAATAAAAATAGTATA
1 TACTAAAATAATAT-AAAAAATAAAATACA-AAAATAGTATATTTTAAAAAAT----A-A--A-A
** * * * **
87650469 TTTTAAAAAATAAAATTCGAAAATAAAATAAATAAATAAATAAAATGGCCAAAATTAGAGTTTTT
56 ---T----ACCAAAA-T-----A-AAAATAAA-AAA-GAA-CAAACGGCCAAAACCAGAGTTTTT
* * *
87650534 TACTAAATTAATATAAAATAATACTAAAATAATACATTTGAAACATTATGTAATAAAATAATATA
104 TACTAAATTAATATAAAA-AACACTAAAATAATACATTTGAAACATTATATACTAAAATAATATA
* * * *
87650599 AAA-AATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATAAAATAAATA
168 AAATAATAAAATACGAAAATAGGATATTTT-AAAAATAAAATCCAAAAATAAAATAAATA
87650658 CCAAAATATA
Statistics
Matches: 494, Mismatches: 28, Indels: 44
0.87 0.05 0.08
Matches are distributed among these distances:
303 48 0.10
304 36 0.07
305 158 0.32
306 29 0.06
308 12 0.02
309 31 0.06
310 23 0.05
311 1 0.00
312 1 0.00
315 1 0.00
320 4 0.01
321 1 0.00
327 5 0.01
328 2 0.00
329 3 0.01
331 2 0.00
332 62 0.13
333 75 0.15
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.28
Consensus pattern (306 bp):
TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATACCAAAATA
AAAATAAAAAAGAACAAACGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAA
ATAATACATTTGAAACATTATATACTAAAATAATATAAAATAATAAAATACGAAAATAGGATATT
TTAAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGCCCAAAACCAGAGTTTTTTAC
TAAATTAATATAAAAAACACTAAAATAATACATTAGAAACATTATG
Found at i:87650476 original size:22 final size:23
Alignment explanation
Indices: 87650435--87650483 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
87650425 ATAAAATAAG
87650435 AAAATAGTATATTTTAAAAAATA
1 AAAATAGTATATTTTAAAAAATA
87650458 AAAATAGTATATTTTAAAAAATA
1 AAAATAGTATATTTTAAAAAATA
87650481 AAA
1 AAA
87650484 TTCGAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATAGTATATTTTAAAAAATA
Found at i:87650484 original size:22 final size:22
Alignment explanation
Indices: 87650426--87650484 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
87650416 TATAAAAAAA
*
87650426 TAAAATAAGAAAATAGTATATTT
1 TAAAA-AATAAAATAGTATATTT
87650449 TAAAAAATAAAAATAGTATATTT
1 TAAAAAAT-AAAATAGTATATTT
87650472 TAAAAAATAAAAT
1 TAAAAAATAAAAT
87650485 TCGAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 7 0.21
23 27 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
TAAAAAATAAAATAGTATATTT
Found at i:87650492 original size:30 final size:28
Alignment explanation
Indices: 87650420--87650493 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 28
87650410 AAATAATATA
87650420 AAAAAATAAAATAAGAAAATAGTATATTTT
1 AAAAAATAAAAT--GAAAATAGTATATTTT
87650450 AAAAAAT---A--AAAATAGTATATTTT
1 AAAAAATAAAATGAAAATAGTATATTTT
87650473 AAAAAATAAAATTCGAAAATA
1 AAAAAATAAAA-T-GAAAATA
87650494 AAATAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
23 22 0.59
26 1 0.03
27 1 0.03
30 13 0.35
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.28
Consensus pattern (28 bp):
AAAAAATAAAATGAAAATAGTATATTTT
Found at i:87650496 original size:178 final size:177
Alignment explanation
Indices: 87650281--87650638 Score: 576
Period size: 178 Copynumber: 2.0 Consensus size: 177
87650271 ATAAATTACG
*
87650281 AAAATAGTATATTTTAAAAATAAAATCCAAAAATAAAATAAAT-AGTAAAAACAAACGCCCAAAA
1 AAAATAGTATATTTTAAAAATAAAATCCAAAAATAAAATAAATAAATAAAAA-AAACGCCCAAAA
*
87650345 TCAGAGTTTTTTACTAAATTAATATAAAA-AACACTAAAATAATACATTAGAAACATTATGTACT
65 TCAGAGTTTTTTACTAAATTAATATAAAATAACACTAAAATAATACATTAGAAACATTATGTAAT
87650409 AAAATAATATAAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATA
130 AAAATAATAT-AAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATA
* * * * *
87650458 AAAATAGTATATTTTAAAAAATAAAATTCGAAAATAAAATAAATAAATAAATAAAATGGCCAAAA
1 AAAATAGTATATTTT-AAAAATAAAATCCAAAAATAAAATAAATAAATAAAAAAAACGCCCAAAA
* * *
87650523 TTAGAGTTTTTTACTAAATTAATATAAAATAATACTAAAATAATACATTTGAAACATTATGTAAT
65 TCAGAGTTTTTTACTAAATTAATATAAAATAACACTAAAATAATACATTAGAAACATTATGTAAT
*
87650588 AAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATA
130 AAAATAATATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATA
87650636 AAA
1 AAA
87650639 TTCGAAAATA
Statistics
Matches: 167, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
177 15 0.09
178 104 0.62
179 48 0.29
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (177 bp):
AAAATAGTATATTTTAAAAATAAAATCCAAAAATAAAATAAATAAATAAAAAAAACGCCCAAAAT
CAGAGTTTTTTACTAAATTAATATAAAATAACACTAAAATAATACATTAGAAACATTATGTAATA
AAATAATATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATA
Found at i:87650561 original size:11 final size:11
Alignment explanation
Indices: 87650534--87650568 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
87650524 TAGAGTTTTT
*
87650534 TACTAAATTAA
1 TACTAAAATAA
87650545 TA-TAAAATAA
1 TACTAAAATAA
87650555 TACTAAAATAA
1 TACTAAAATAA
87650566 TAC
1 TAC
87650569 ATTTGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (11 bp):
TACTAAAATAA
Found at i:87656895 original size:45 final size:45
Alignment explanation
Indices: 87656811--87656896 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
87656801 ACTTAAAACA
* *
87656811 TAACATTCACAATAAACACATAATTAATCTAAACACAAAACTTAC
1 TAACATTCACAATAAACACAAAATAAATCTAAACACAAAACTTAC
*
87656856 TAACATATCACAATAAACA-AAAATAAATTTTAAA-ACAAAAC
1 TAACAT-TCACAATAAACACAAAATAAA-TCTAAACACAAAAC
87656897 ATAAAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 19 0.53
46 17 0.47
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (45 bp):
TAACATTCACAATAAACACAAAATAAATCTAAACACAAAACTTAC
Found at i:87657022 original size:18 final size:19
Alignment explanation
Indices: 87656994--87657029 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
87656984 AAAATTACAT
87656994 TTTCTTTTCTTTCTTCTCC
1 TTTCTTTTCTTTCTTCTCC
87657013 TTTC-TTTCTTTCTTCTC
1 TTTCTTTTCTTTCTTCTC
87657030 TTCTATTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTCTTTCTTCTCC
Found at i:87660268 original size:87 final size:88
Alignment explanation
Indices: 87660112--87660281 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 88
87660102 ATTTAGTCCT
* * *
87660112 TATACATCAATTTGATTAAATTTAGTCTATGTAGTTTTCAATTTTTAAAATTTCAGTCCTCACCA
1 TATACATCAATTTGATCAAATTTAGTCTATGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
87660177 AATGGTAACTATTAAATTGTCTA
66 AATGGTAACTATTAAATTGTCTA
* ** *
87660200 TATACATCAATTTTATCAAATTTAGTC-ATGTAGTTTTCAAATTTTAAAATTTCAATCCTTGCCG
1 TATACATCAATTTGATCAAATTTAGTCTATGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
*
87660264 AATGGTAATTATTAAATT
66 AATGGTAACTATTAAATT
87660282 TATTAAGTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 49 0.66
88 25 0.34
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.44
Consensus pattern (88 bp):
TATACATCAATTTGATCAAATTTAGTCTATGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
AATGGTAACTATTAAATTGTCTA
Found at i:87660742 original size:16 final size:16
Alignment explanation
Indices: 87660705--87660740 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
87660695 TAGAGTGAAA
87660705 GAAAATTGAAAAGATG
1 GAAAATTGAAAAGATG
*
87660721 GAAAATTGAAATG-TG
1 GAAAATTGAAAAGATG
87660736 GAAAA
1 GAAAA
87660741 ATAAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (16 bp):
GAAAATTGAAAAGATG
Found at i:87663749 original size:21 final size:20
Alignment explanation
Indices: 87663687--87663751 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
87663677 ACATGGGCTA
**
87663687 TTCACACGGGCGTGTGCCCC
1 TTCACACGGGCGTGTGGGCC
* * *
87663707 CTCTACACGGGTGTATGGGGCC
1 TTC-ACACGGGCGTGT-GGGCC
87663729 TTCACACGGGCGTGTGTGGCC
1 TTCACACGGGCGTGTG-GGCC
87663750 TT
1 TT
87663752 TATATGGGCA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
20 3 0.09
21 26 0.76
22 5 0.15
ACGTcount: A:0.11, C:0.31, G:0.34, T:0.25
Consensus pattern (20 bp):
TTCACACGGGCGTGTGGGCC
Found at i:87672673 original size:15 final size:15
Alignment explanation
Indices: 87672634--87672666 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
87672624 TAAGATATAA
87672634 TTACATCATAATTTT
1 TTACATCATAATTTT
87672649 TTACATCATAATTTT
1 TTACATCATAATTTT
87672664 TTA
1 TTA
87672667 TGTCATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (15 bp):
TTACATCATAATTTT
Found at i:87673849 original size:78 final size:78
Alignment explanation
Indices: 87673767--87673915 Score: 217
Period size: 78 Copynumber: 1.9 Consensus size: 78
87673757 TACCAGATTG
* * * * *
87673767 TGTGCTAGGCCGTGCCAAACTTGTAGGGTATACTAACTTATGCCACATAGCCAAGTCACACGCCC
1 TGTGCTAGGCCATGCCAAACCTATAGGGTATACTAACTTATGCCACACAGCCAAGTCACACGCCA
87673832 GTGTGCCAGACCT
66 GTGTGCCAGACCT
* * * *
87673845 TGTGCTAGGTCATGCCAAACCTATAGGGTATACTGACTTATGCTACACGGCCAAGTCACACGCCA
1 TGTGCTAGGCCATGCCAAACCTATAGGGTATACTAACTTATGCCACACAGCCAAGTCACACGCCA
87673910 GTGTGC
66 GTGTGC
87673916 TGGGCCATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (78 bp):
TGTGCTAGGCCATGCCAAACCTATAGGGTATACTAACTTATGCCACACAGCCAAGTCACACGCCA
GTGTGCCAGACCT
Found at i:87681811 original size:18 final size:19
Alignment explanation
Indices: 87681780--87681815 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
87681770 TTATAAACTT
*
87681780 TTTTTTGAAGTTTTTAATA
1 TTTTTTGAAATTTTTAATA
87681799 TTTTTT-AAATTTTTAAT
1 TTTTTTGAAATTTTTAAT
87681816 TGTTATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTTGAAATTTTTAATA
Found at i:87688366 original size:46 final size:45
Alignment explanation
Indices: 87688313--87688487 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
87688303 TATTTGGGCA
87688313 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
87688359 TCCGAACTCGTTGAG-TGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
87688405 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
87688451 CCCGAGCTCATTGAGTTGAGTCCGAGTTTACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87688488 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 14 0.13
46 70 0.67
47 13 0.12
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:87688437 original size:92 final size:93
Alignment explanation
Indices: 87688309--87688478 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
87688299 AGGATATTTG
* * * *
87688309 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
87688374 -TGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
87688401 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
87688466 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
87688479 TACTTATGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 59 0.83
93 12 0.17
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:87688968 original size:20 final size:20
Alignment explanation
Indices: 87688919--87688970 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
87688909 TCTTGGCATA
87688919 ATGGCTTGTATATTTTGAGT
1 ATGGCTTGTATATTTTGAGT
*
87688939 ATGACTTGTATATTTTGAGT
1 ATGGCTTGTATATTTTGAGT
*
87688959 ATGGCATGTATA
1 ATGGCTTGTATA
87688971 GCATTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGGCTTGTATATTTTGAGT
Found at i:87693352 original size:46 final size:45
Alignment explanation
Indices: 87693299--87693474 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
87693289 TATTTGGACA
87693299 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
87693345 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
87693392 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
87693438 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87693475 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:87693456 original size:93 final size:93
Alignment explanation
Indices: 87693297--87693465 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
87693287 GATATTTGGA
* * *
87693297 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGTT
87693362 GAGTCCGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* *
87693390 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGTT
87693455 GAGTCCGAGTT
66 GAGTCCGAGTT
87693466 TACTTATGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:87694802 original size:14 final size:14
Alignment explanation
Indices: 87694783--87694809 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
87694773 TACAGGATTC
87694783 GTATAATTCTTATT
1 GTATAATTCTTATT
87694797 GTATAATTCTTAT
1 GTATAATTCTTAT
87694810 ATATATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (14 bp):
GTATAATTCTTATT
Found at i:87696232 original size:37 final size:39
Alignment explanation
Indices: 87696172--87696339 Score: 179
Period size: 37 Copynumber: 4.3 Consensus size: 39
87696162 ACGTATGATC
*
87696172 ACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCC-A
1 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGA
*
87696208 AC-TATCACTTTGTTTCTTGATCAGATAAGTGTAGCC--
1 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGA
*
87696244 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTA
1 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----CGA
*
87696288 TCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGA
1 --ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGA
87696329 AGC-TATCACTT
1 A-CTTATCACTT
87696340 ATCACTTTTC
Statistics
Matches: 114, Mismatches: 5, Indels: 23
0.80 0.04 0.16
Matches are distributed among these distances:
35 6 0.05
36 8 0.07
37 52 0.46
39 9 0.08
40 1 0.01
41 2 0.02
42 1 0.01
46 35 0.31
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (39 bp):
ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGA
Found at i:87696310 original size:46 final size:46
Alignment explanation
Indices: 87696243--87696511 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
87696233 TAAGTGTAGC
* **
87696243 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
87696289 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
87696335 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
87696387 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
87696433 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
87696485 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
87696512 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:87696362 original size:52 final size:52
Alignment explanation
Indices: 87696286--87696505 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
87696276 TAGCTAAAGC
* *
87696286 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
87696339 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
87696391 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
87696437 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
87696489 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
87696506 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:87696408 original size:98 final size:98
Alignment explanation
Indices: 87696243--87696511 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
87696233 TAAGTGTAGC
* * *
87696243 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
87696308 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
87696342 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
87696407 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
87696440 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
87696505 GATCAGA
66 GATCAGA
87696512 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:87699324 original size:22 final size:21
Alignment explanation
Indices: 87699282--87699324 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
87699272 AGAGAAATTA
*
87699282 TTATTTAATTAAAATTTTATT
1 TTATTTAATTAAAATTCTATT
* *
87699303 TTATTTTATTATAAGTTCTATT
1 TTATTTAATTA-AAATTCTATT
87699325 AATATTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTAATTAAAATTCTATT
Found at i:87699860 original size:7 final size:7
Alignment explanation
Indices: 87699847--87699880 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
87699837 TAAAATTACA
87699847 ACATTCT
1 ACATTCT
*
87699854 ACGTTCT
1 ACATTCT
87699861 ACATTCT
1 ACATTCT
*
87699868 ACATTTT
1 ACATTCT
87699875 ACATTC
1 ACATTC
87699881 ATATATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
ACATTCT
Found at i:87701343 original size:20 final size:19
Alignment explanation
Indices: 87701281--87701351 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
87701271 TAAGATATAA
87701281 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTA-AAATT
*
87701301 ATTTTGAA-ATTTAAAATTT
1 ATTTTGAATTTTTAAAA-TT
87701320 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
87701340 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
87701352 TTTTGTAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 17 0.38
20 17 0.38
21 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:87701353 original size:21 final size:21
Alignment explanation
Indices: 87701300--87701352 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
87701290 TTTTTATAAA
*
87701300 TATTTTGAA-ATTT-AAAATT
1 TATTTTGAATTTTTGAAAATT
87701319 TATTTTGAATTTTTGAAAA-T
1 TATTTTGAATTTTTGAAAATT
*
87701339 TATTTTGATTTTTT
1 TATTTTGAATTTTT
87701353 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (21 bp):
TATTTTGAATTTTTGAAAATT
Found at i:87709772 original size:27 final size:27
Alignment explanation
Indices: 87709734--87709791 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
87709724 CTCTAAAAGC
87709734 CTTTCCAAGTTTTGGTTACATCCAAGT
1 CTTTCCAAGTTTTGGTTACATCCAAGT
* *
87709761 CTTTCCAAGTTTTTGTTACATTCAAGT
1 CTTTCCAAGTTTTGGTTACATCCAAGT
87709788 CTTT
1 CTTT
87709792 TCATACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (27 bp):
CTTTCCAAGTTTTGGTTACATCCAAGT
Found at i:87710457 original size:16 final size:17
Alignment explanation
Indices: 87710425--87710457 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87710415 AACTAACAGT
87710425 TATAAAATTTATATTTA
1 TATAAAATTTATATTTA
87710442 TATAAAATTT-TATTTA
1 TATAAAATTTATATTTA
87710458 AATTATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATAAAATTTATATTTA
Found at i:87714205 original size:42 final size:42
Alignment explanation
Indices: 87714114--87714206 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
87714104 GATATGGCTT
* * *
87714114 TGGCATCGATAAGTGATTTCGTATAAGACCATGTTTTGGACA
1 TGGCATCGATAAGAGATCTCGTATAAGACCATGTTTGGGACA
** * * *
87714156 TCACATCGATATGAGGTCTCGTATAAGACCATGTTTGGGGCA
1 TGGCATCGATAAGAGATCTCGTATAAGACCATGTTTGGGACA
87714198 TGGCATCGA
1 TGGCATCGA
87714207 CAGTGATTCG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TGGCATCGATAAGAGATCTCGTATAAGACCATGTTTGGGACA
Found at i:87721963 original size:90 final size:90
Alignment explanation
Indices: 87721869--87722038 Score: 216
Period size: 90 Copynumber: 1.9 Consensus size: 90
87721859 ATATGGCTTT
* * *
87721869 GGCACCGA-TAAATGATTTCGTATAAGACCATGTTTGGGACATGAAATCGATATGAAGTCCCATA
1 GGCACCGATTAAA-GACTTCGTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCACA
87721933 TAAGACCATGTCTGGGGCATGGCGTC
65 TAAGACCATGTCTGGGGCATGGCGTC
* ** * * * * **
87721959 GGCACTGATTCGAGACTTCGTATAAGACTATATTTGGGATATGGAATCGATGTGTGGTCCCACAT
1 GGCACCGATTAAAGACTTCGTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCACAT
87722024 AAGACCATGTCTGGG
66 AAGACCATGTCTGGG
87722039 ACATAGCTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 65 0.97
91 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (90 bp):
GGCACCGATTAAAGACTTCGTATAAGACCATATTTGGGACATGAAATCGATATGAAGTCCCACAT
AAGACCATGTCTGGGGCATGGCGTC
Found at i:87722495 original size:9 final size:9
Alignment explanation
Indices: 87722481--87722548 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
87722471 ATAAGTATAA
*
87722481 AATTAATCG
1 AATTAACCG
* *
87722490 AATTAATCA
1 AATTAACCG
87722499 AATTAACCG
1 AATTAACCG
87722508 AATT-ACTCG
1 AATTAAC-CG
* *
87722517 AATTACCCA
1 AATTAACCG
87722526 AATTAACCG
1 AATTAACCG
87722535 AATTAACCG
1 AATTAACCG
87722544 AATTA
1 AATTA
87722549 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 2 0.04
9 47 0.94
10 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:87722511 original size:27 final size:27
Alignment explanation
Indices: 87722481--87722548 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
87722471 ATAAGTATAA
*
87722481 AATTAATCGAATTAATCAAATTAACCG
1 AATTAATCGAATTAACCAAATTAACCG
* *
87722508 AATTACTCGAATTACCCAAATTAACCG
1 AATTAATCGAATTAACCAAATTAACCG
*
87722535 AATTAACCGAATTA
1 AATTAATCGAATTA
87722549 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTAATCGAATTAACCAAATTAACCG
Found at i:87725493 original size:51 final size:48
Alignment explanation
Indices: 87725373--87725666 Score: 302
Period size: 51 Copynumber: 5.9 Consensus size: 48
87725363 GCTGAAGCTA
* * *
87725373 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAG
* *
87725422 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG
* * * * **
87725470 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTATTACACTTACGACCAACAG
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAG
* * *
87725522 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CA-CAG
** * *
87725572 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG
* *
87725620 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
87725667 TCAGAATAGA
Statistics
Matches: 201, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
47 2 0.01
48 6 0.03
49 72 0.36
50 40 0.20
51 77 0.38
52 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG
Found at i:87725501 original size:100 final size:99
Alignment explanation
Indices: 87725376--87725666 Score: 350
Period size: 100 Copynumber: 2.9 Consensus size: 99
87725366 GAAGCTATCT
*
87725376 GGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
* ***
87725441 TGCACTTAGTACTACACATGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACATGTGACCACA-CCATCG
* * * *
87725476 GGTACGCATAGTAGCCTGCACTTAGTATTACACTTACGACCAACAGTCTGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
* * *
87725541 TGCACTTAGTACTACACACGTGACCTCACCATCT
66 TGCACTTAGTACTACACATGTGACCACACCATCG
** * * * * * * *
87725575 AATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCATAGTA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCTGGTACACGTAGTA
87725639 GCCTGCACTTAGTACTACACATGTGACC
63 GCCTGCACTTAGTACTACACATGTGACC
87725667 TCAGAATAGA
Statistics
Matches: 162, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
98 4 0.02
99 34 0.21
100 85 0.52
101 39 0.24
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACATGTGACCACACCATCG
Found at i:87725643 original size:150 final size:149
Alignment explanation
Indices: 87725373--87725658 Score: 457
Period size: 150 Copynumber: 1.9 Consensus size: 149
87725363 GCTGAAGCTA
* * * **
87725373 TCTGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACGTAGTA
87725438 GCCTGCACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTA
66 GCCTGCACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTA
*
87725503 TTACACTTACGACCAACAG
131 CTACACTTACGACCAACAG
* * * *
87725522 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACGTAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAGTCTAATACACGTAG
87725586 TAGCCTGCACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAG
64 TAGCCTGCACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAG
87725651 TACTACAC
129 TACTACAC
87725659 ATGTGACCTC
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
149 36 0.29
150 85 0.68
151 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (149 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACGTAGTA
GCCTGCACTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTA
CTACACTTACGACCAACAG
Found at i:87728126 original size:6 final size:6
Alignment explanation
Indices: 87728099--87728144 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
87728089 CGTGCGTTCG
87728099 TTCTTCT TTGCTTT TCTCTTT TTCTTT TT-TTT TTC-TT TTCTTT TTC
1 TTCTT-T TT-CTTT T-TCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTC
87728145 ATTTGCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 10 0.29
6 12 0.34
7 9 0.26
8 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:87728133 original size:11 final size:11
Alignment explanation
Indices: 87728115--87728180 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
87728105 TTTGCTTTTC
87728115 TCTTTTTCTTT
1 TCTTTTTCTTT
*
87728126 TTTTTTTCTTT
1 TCTTTTTCTTT
87728137 TCTTTTTCATTT
1 TCTTTTTC-TTT
* * *
87728149 GCATGTTCTCTT
1 TCTTTTTCT-TT
87728161 TC--TTTCTTT
1 TCTTTTTCTTT
87728170 TCTTTTGTCTT
1 TCTTTT-TCTT
87728181 ATTATACTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 20 0.47
12 15 0.35
ACGTcount: A:0.03, C:0.18, G:0.05, T:0.74
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:87728135 original size:17 final size:16
Alignment explanation
Indices: 87728110--87728143 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
87728100 TCTTCTTTGC
87728110 TTTTCTCTTTTTCTTTT
1 TTTTCTC-TTTTCTTTT
*
87728127 TTTTTTCTTTTCTTTT
1 TTTTCTCTTTTCTTTT
87728143 T
1 T
87728144 CATTTGCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTCTCTTTTCTTTT
Found at i:87729041 original size:28 final size:27
Alignment explanation
Indices: 87728977--87729041 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
87728967 AAAATATAGG
87728977 AAATTATTTTATATTAAACAATAATTAA
1 AAATTA-TTTATATTAAACAATAATTAA
*
87729005 AATAATATTTATATTAAA-AATAATATAA
1 AA-ATTATTTATATTAAACAATAAT-TAA
87729033 TAAATTATT
1 -AAATTATT
87729042 AAAAAAGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 6 0.19
28 21 0.66
29 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
AAATTATTTATATTAAACAATAATTAA
Found at i:87729046 original size:23 final size:26
Alignment explanation
Indices: 87728988--87729047 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
87728978 AATTATTTTA
*
87728988 TATTAAACAATAATTAAAATAATATT
1 TATTAAAAAATAATTAAAATAATATT
* *
87729014 TATATTAAAAATAA-TATAATAA-A-T
1 TAT-TAAAAAATAATTAAAATAATATT
87729038 TATTAAAAAA
1 TATTAAAAAA
87729048 GTGAAAGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 6 0.21
24 4 0.14
25 1 0.03
26 10 0.34
27 8 0.28
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
TATTAAAAAATAATTAAAATAATATT
Found at i:87735264 original size:29 final size:28
Alignment explanation
Indices: 87735204--87735292 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
87735194 ACATACCTGT
* *
87735204 ATATGGCCCATTAAGCCCAATCATATTC
1 ATATGGCCCATTAGGCCCAATCACATTC
*
87735232 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCC-AATCACATTC
* * *
87735261 ATATGGCCCGTTAGACCCAGTCACATTC
1 ATATGGCCCATTAGGCCCAATCACATTC
87735289 ATAT
1 ATAT
87735293 TCATGCTCAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
28 29 0.55
29 24 0.45
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:87735552 original size:24 final size:24
Alignment explanation
Indices: 87735503--87735553 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
87735493 GTAGCCAAAC
* * *
87735503 TTTCGACTTTTTGGTATTTCGACT
1 TTTCGACTTTTCGGCATCTCGACT
*
87735527 TTTCGACTTTTCGGCATCTCGGCT
1 TTTCGACTTTTCGGCATCTCGACT
87735551 TTT
1 TTT
87735554 GCCGGTACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.22, G:0.18, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCGGCATCTCGACT
Found at i:87737003 original size:18 final size:19
Alignment explanation
Indices: 87736977--87737017 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
87736967 GGCCTCTCGG
87736977 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
87736995 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
87737014 CGGT
1 CGGT
87737018 CCATGATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:87738863 original size:28 final size:29
Alignment explanation
Indices: 87738831--87738892 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
87738821 TACCTGTATC
*
87738831 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
87738859 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
87738888 TGGCC
1 TGGCC
87738893 AGTTGGACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:87738903 original size:29 final size:28
Alignment explanation
Indices: 87738831--87738916 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
87738821 TACCTGTATC
* *
87738831 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
87738859 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
87738888 TGG-CCAGTT-GGACCCAGTCACATTCATA
1 TGGCCCA-TTAGG-CCCAATCACATTCATA
87738916 T
1 T
87738917 TCATGCTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 31 0.62
29 19 0.38
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:87745247 original size:50 final size:50
Alignment explanation
Indices: 87745185--87745285 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
87745175 TCAAAACATA
*
87745185 CCTTAATAAAGATATATGCTAGTCGAAACCTAAAACACCAAAAATAGCTT
1 CCTTAATAAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
* *
87745235 CCTTAATCAAGATATATGCTAGCCGAACCCTAAAACACCAAAAATAGCTT
1 CCTTAATAAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
87745285 C
1 C
87745286 TTTTTCTTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.23
Consensus pattern (50 bp):
CCTTAATAAAGATATATGCTAGCCGAAACCTAAAACACCAAAAATAGCTT
Found at i:87755816 original size:25 final size:24
Alignment explanation
Indices: 87755782--87755953 Score: 88
Period size: 25 Copynumber: 7.8 Consensus size: 24
87755772 TTATTATTTC
* **
87755782 TATTATTATTATTATTCCTCTTTAT
1 TATTATTATTATTATT-ATCGATAT
87755807 TATTATTATTATCTATTATCGATAT
1 TATTATTATTAT-TATTATCGATAT
*
87755832 TATTATTACTATTATTA-C--TA-
1 TATTATTATTATTATTATCGATAT
* * *
87755852 T-TT-TT-TTATTTTTATTGCTAT
1 TATTATTATTATTATTATCGATAT
* * *
87755873 TAATATTAGTATTATTATC-ATTT
1 TATTATTATTATTATTATCGATAT
* *
87755896 TATT-TCATTATCATTATC-AT-T
1 TATTATTATTATTATTATCGATAT
*
87755917 T-TTATAATTATTATTA-C--TAT
1 TATTATTATTATTATTATCGATAT
*
87755937 TATT-TTACTATTATTAT
1 TATTATTATTATTATTAT
87755954 TTAACATACT
Statistics
Matches: 114, Mismatches: 21, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
17 7 0.06
18 2 0.02
19 3 0.03
20 18 0.16
21 17 0.15
22 14 0.12
23 8 0.07
24 13 0.11
25 28 0.25
26 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (24 bp):
TATTATTATTATTATTATCGATAT
Found at i:87755946 original size:11 final size:12
Alignment explanation
Indices: 87755766--87756014 Score: 107
Period size: 12 Copynumber: 21.2 Consensus size: 12
87755756 TAATTGATTG
*
87755766 TTATTATTATTA
1 TTATTATTACTA
*
87755778 TT-TCTATTATTA
1 TTAT-TATTACTA
* *
87755790 TTATTATTCCTCT
1 TTATTATTACT-A
*
87755803 TTATTATTATTA
1 TTATTATTACTA
*
87755815 TTATCTATTATCGA
1 TTAT-TATTA-CTA
*
87755829 -TATTATTATTA
1 TTATTATTACTA
*
87755840 CTATTATTACTA
1 TTATTATTACTA
87755852 TT-TT-TT--TA
1 TTATTATTACTA
* *
87755860 TTTTTATTGCTA
1 TTATTATTACTA
* *
87755872 TTAATATTAGTA
1 TTATTATTACTA
87755884 TTATTA-T-C-A
1 TTATTATTACTA
*
87755893 TT-TTATTTC-A
1 TTATTATTACTA
*
87755903 TTATCATTA-TCA
1 TTATTATTACT-A
*
87755915 TTTTTA-TA--A
1 TTATTATTACTA
87755924 TTATTATTACTA
1 TTATTATTACTA
87755936 TTATT-TTACTA
1 TTATTATTACTA
87755947 TTATTATTTAACATA
1 TTATTA-TT-AC-TA
* *
87755962 CTATTATTACCA
1 TTATTATTACTA
* * *
87755974 TTTTTGTTATTA
1 TTATTATTACTA
*
87755986 TTATTACTACTA
1 TTATTATTACTA
87755998 TTGTATTATTACTA
1 -T-TATTATTACTA
87756012 TTA
1 TTA
87756015 GTATATTTTC
Statistics
Matches: 178, Mismatches: 35, Indels: 48
0.68 0.13 0.18
Matches are distributed among these distances:
8 7 0.04
9 12 0.07
10 10 0.06
11 22 0.12
12 81 0.46
13 24 0.13
14 15 0.08
15 7 0.04
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:87755953 original size:14 final size:15
Alignment explanation
Indices: 87755931--87755969 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
87755921 TAATTATTAT
*
87755931 TACTATTATTTTAC-
1 TACTATTATTTAACA
*
87755945 TATTATTATTTAACA
1 TACTATTATTTAACA
87755960 TACTATTATT
1 TACTATTATT
87755970 ACCATTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (15 bp):
TACTATTATTTAACA
Found at i:87755970 original size:3 final size:3
Alignment explanation
Indices: 87755766--87755954 Score: 122
Period size: 3 Copynumber: 63.7 Consensus size: 3
87755756 TAATTGATTG
*
87755766 TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TTCC TCT- TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA
* * * *
87755812 TTA TTA TCTA TTA TCGA -TA TTA TTA TTA CTA TTA TTA CTA TT- TTT
1 TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
87755857 TTA TTT TTA TTG CTA TTA ATA TTA GTA TTA TTA TCA TT- TTA TT- TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
87755903 TTA TCA TTA TCA TTT TTA TAA TTA TTA TTA CTA TTA TT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87755950 TTA TT
1 TTA TT
87755955 TAACATACTA
Statistics
Matches: 140, Mismatches: 34, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
2 10 0.07
3 123 0.88
4 6 0.04
5 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:87756001 original size:21 final size:20
Alignment explanation
Indices: 87755963--87756008 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
87755953 TTTAACATAC
* *
87755963 TATTATTACCATTTTTGTTAT
1 TATTATTACCACTATTG-TAT
*
87755984 TATTATTACTACTATTGTAT
1 TATTATTACCACTATTGTAT
87756004 TATTA
1 TATTA
87756009 CTATTAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (20 bp):
TATTATTACCACTATTGTAT
Found at i:87756010 original size:14 final size:15
Alignment explanation
Indices: 87755981--87756018 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
87755971 CCATTTTTGT
*
87755981 TATTATTATTACTAC
1 TATTAGTATTACTAC
*
87755996 TATT-GTATTATTAC
1 TATTAGTATTACTAC
87756010 TATTAGTAT
1 TATTAGTAT
87756019 ATTTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (15 bp):
TATTAGTATTACTAC
Found at i:87767084 original size:44 final size:45
Alignment explanation
Indices: 87767000--87767927 Score: 225
Period size: 41 Copynumber: 20.7 Consensus size: 45
87766990 CTATAAATCA
* * * **
87767000 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TCA-
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGAT-AG
* * * *
87767044 CTAGTCTTATCTCCTTGAAGTTGTAGTAGAGTAGACTGAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * *
87767089 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATGAATAAA
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTG-A---A-G-AT-AG
* ** * * * * *
87767141 CAGATCTTATCTATCTGAAGCTGCAGCAGAGTAGA-T---CATAG
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * ** *
87767182 CGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * *
87767226 -AAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * *
87767270 CTAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAAT
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAG--AT--AG
* ** *
87767319 CACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCAA-A-A-
1 CA-A-ATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * ** *
87767362 CAAACCTTATCTCCCTGAAGTTGCAATGGAACAGGTTGAAGTTA-
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * *
87767406 -AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * * *
87767450 CGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAAT
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAG--AT--AG
* * ** *
87767499 CACAGATCTTATCTCTCTGAAG-TGCAGTACTGCAGA-TTAA-A-A-
1 CA-A-ATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * * *
87767541 CAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGA-TCAA-A-A-
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * *
87767582 CAAACCTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * * * *
87767627 CGAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAAT
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAG--AT--AG
* * ** *
87767676 CACAGATCTTATCTCTCTGAAGTTGCAGTACTGCAGA-TTAA-A-A-
1 CA-A-ATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * * *
87767719 CAGATCTTATCTCTCTGAAGTTGCAATGGAGTAGA-TCAA-A-A-
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * *
87767760 CAAACCTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAG
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* * * * * * *
87767805 CAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAAT
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAG--AT--AG
* * * *
87767854 CACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TTAA-A-A-
1 CA-A-ATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
* *
87767897 CAGATCTTATCTCTCTGAAGTTGTAGTAGAG
1 CAAATCTTATCTCCCTGAAGTTGTAGTAGAG
87767928 TAGATCAAAA
Statistics
Matches: 666, Mismatches: 165, Indels: 109
0.71 0.18 0.12
Matches are distributed among these distances:
40 17 0.03
41 181 0.27
42 15 0.02
43 77 0.12
44 39 0.06
45 164 0.25
46 2 0.00
47 11 0.02
49 13 0.02
50 24 0.04
51 97 0.15
52 26 0.04
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAG
Found at i:87767383 original size:41 final size:41
Alignment explanation
Indices: 87767324--87767973 Score: 372
Period size: 41 Copynumber: 14.8 Consensus size: 41
87767314 TAAATCACAG
* *
87767324 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAAAACAA
* * * * * * ***
87767365 ACCTTATCTCCCTGAAGTTGCAATGGAACAGGTTGAAGTTAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCA-GATCAAAACAA
* *
87767407 AGTCTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGA
1 A-TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGA-TCAA-A-A-CAA
* * *
87767453 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-T----C-A-AAA-CA-A
*** * *
87767503 GATCTTATCTCTCTGAAG-TGCAGTACTGCAGATTAAAACAG
1 -ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAAAACAA
* *
87767544 ATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAAAACAA
* * * * *
87767585 ACCTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGCGA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TCAA-A-A-CAA
* *
87767630 ATCTTAT-TTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACA
1 ATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGA-T----C-A-AAA-CA-A
*** * *
87767680 GATCTTATCTCTCTGAAGTTGCAGTACTGCAGATTAAAACAG
1 -ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAAAACAA
* *
87767722 ATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCAAAACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAAAACAA
* * * *
87767763 ACCTTATCTCACTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TCAA-A-A-CAA
* *
87767808 ATCTTAT-TTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACA
1 ATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGA-T----C-A-AAA-CA-A
* * * *
87767858 GATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAACAG
1 -ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAAAACAA
* * *
87767900 ATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCAAAACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAAAACAA
* * *
87767941 ACCTTATCTCACTAAAGTTGCAGTGGAGCAGAT
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
87767974 TAAAGCAACA
Statistics
Matches: 462, Mismatches: 102, Indels: 90
0.71 0.16 0.14
Matches are distributed among these distances:
40 17 0.04
41 191 0.41
42 17 0.04
43 36 0.08
44 11 0.02
45 87 0.19
46 3 0.01
49 8 0.02
50 21 0.05
51 67 0.15
52 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (41 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATCAAAACAA
Found at i:87767797 original size:178 final size:178
Alignment explanation
Indices: 87767061--87767978 Score: 1257
Period size: 178 Copynumber: 5.1 Consensus size: 178
87767051 TATCTCCTTG
* * * * *
87767061 AAGTTGTAGTAGAGTAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATT
1 AAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
* * * * * * * * * *
87767126 GAAGCTATGAATAAACAGATCTTATCTATCTGAAGCTGCAGCAGAGTAGATCATAGC-GAACCTT
66 GAAGCTATAAAT-CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACAG-ATCTT
* * * * * *** * *
87767190 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCCTA
129 ATCTCTCTGAAGTTGCAATGGAGTA-GATCAAAACAAA-CCTTATCTCACTA
* * *
87767242 AAGTTGCAGTGGAACAGACTAAAGATAGCTAATCTTATTTCCCTGAAGTTGCAGTAGAACAGATT
1 AAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
* * * *
87767307 GAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCAAAACAAACCTTAT
66 GAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACAGATCTTAT
* ** * * *** * *
87767372 CTCCCTGAAGTTGCAATGGAACAGGTTGAAGTTAAAGTCTTATCTC-CTTG
131 CTCTCTGAAGTTGCAATGGAGTA-GATCAAAACAAA-CCTTATCTCAC-TA
*
87767422 AAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
1 AAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
**
87767487 GAAGCTATAAATCACAGATCTTATCTCTCTGAAG-TGCAGTACTGCAGATTAAAACAGATCTTAT
66 GAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACAGATCTTAT
87767551 CTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAACCTTATCTCACTA
131 CTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAACCTTATCTCACTA
* *
87767599 AAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATT
1 AAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
**
87767664 GAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTACTGCAGATTAAAACAGATCTTAT
66 GAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACAGATCTTAT
87767729 CTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAACCTTATCTCACTA
131 CTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAACCTTATCTCACTA
*
87767777 AAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATT
1 AAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
*
87767842 GAAGCTATAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAACAGATCTTAT
66 GAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACAGATCTTAT
* * *
87767907 CTCTCTGAAGTTGTAGTAGAGTAGATCAAAACAAACCTTATCTCACTA
131 CTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAACCTTATCTCACTA
*
87767955 AAGTTGCAGTGGAGCAGATTAAAG
1 AAGTTGCAGTGGAGCAGACTAAAG
87767979 CAACAAGATG
Statistics
Matches: 684, Mismatches: 49, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
177 107 0.16
178 280 0.41
179 45 0.07
180 184 0.27
181 68 0.10
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (178 bp):
AAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
GAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACAGATCTTAT
CTCTCTGAAGTTGCAATGGAGTAGATCAAAACAAACCTTATCTCACTA
Found at i:87769420 original size:25 final size:23
Alignment explanation
Indices: 87769328--87769416 Score: 63
Period size: 25 Copynumber: 3.6 Consensus size: 23
87769318 AAATTAATTG
* *
87769328 ATTATTATTATTTTTATTACTACT
1 ATTATTA-TGTTTTTATTATTACT
*
87769352 ATTATTAT-TCCTCTTTATTATTATT
1 ATTATTATGT--T-TTTATTATTACT
* *
87769377 ATCTATTATCGATATTATTATTACT
1 AT-TATTAT-GTTTTTATTATTACT
87769402 ATTATTACTGTTTTT
1 ATTATTA-TGTTTTT
87769417 TATTTTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 17 0.33
25 25 0.49
26 7 0.14
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTATTATGTTTTTATTATTACT
Found at i:87769505 original size:11 final size:12
Alignment explanation
Indices: 87769328--87769572 Score: 93
Period size: 12 Copynumber: 20.3 Consensus size: 12
87769318 AAATTAATTG
*
87769328 ATTATTATTATT
1 ATTATTATTACT
* *
87769340 TTTATTACTACT
1 ATTATTATTACT
*
87769352 ATTATTATTCCT
1 ATTATTATTACT
* *
87769364 CTTTATTATTATT
1 -ATTATTATTACT
*
87769377 ATCTATTATCGA-T
1 AT-TATTAT-TACT
87769390 ATTATTATTACT
1 ATTATTATTACT
**
87769402 ATTATTACTGTTTTTT
1 ATTATTA----TTACT
* *
87769418 ATTTTTATTGCT
1 ATTATTATTACT
* *
87769430 ATTAATATTAGT
1 ATTATTATTACT
87769442 ATTATTA-T-C-
1 ATTATTATTACT
*
87769451 ATT-TTATTTC-
1 ATTATTATTACT
*
87769461 ATTATCATTA-T
1 ATTATTATTACT
87769472 CATT-TT-TGTA--
1 -ATTATTAT-TACT
87769482 ATTATTATTACT
1 ATTATTATTACT
87769494 ATTATT-TTACT
1 ATTATTATTACT
87769505 ATTATTATTTAACAT
1 ATTATTA-TT-AC-T
* *
87769520 ACTATTATTACC
1 ATTATTATTACT
* *
87769532 ATT-TTGTTATT
1 ATTATTATTACT
*
87769543 ATTATTACTACT
1 ATTATTATTACT
87769555 ATTGTATTATTACT
1 A-T-TATTATTACT
87769569 ATTA
1 ATTA
87769573 ATATATTTTC
Statistics
Matches: 172, Mismatches: 36, Indels: 50
0.67 0.14 0.19
Matches are distributed among these distances:
8 3 0.02
9 7 0.04
10 9 0.05
11 29 0.17
12 69 0.40
13 24 0.14
14 15 0.09
15 7 0.04
16 9 0.05
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:87769512 original size:14 final size:15
Alignment explanation
Indices: 87769490--87769528 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
87769480 TAATTATTAT
*
87769490 TACTATTATTTTAC-
1 TACTATTATTTAACA
*
87769504 TATTATTATTTAACA
1 TACTATTATTTAACA
87769519 TACTATTATT
1 TACTATTATT
87769529 ACCATTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (15 bp):
TACTATTATTTAACA
Found at i:87769529 original size:3 final size:3
Alignment explanation
Indices: 87769328--87769513 Score: 89
Period size: 3 Copynumber: 63.0 Consensus size: 3
87769318 AAATTAATTG
* * * *
87769328 ATT ATT ATT ATT TTT ATT ACT ACT ATT ATT ATT CCTCT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT ATT ATT
* * * *
87769374 ATT ATCT ATT ATCG A-T ATT ATT ATT ACT ATT ATT ACT GTT -TT -TT
1 ATT AT-T ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
87769418 ATT TTT ATT GCT ATT AAT ATT AGT ATT ATT ATC ATT -TT ATT -TC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
87769464 ATC ATT ATC ATT TTT GTA ATT ATT ATT ACT ATT ATT -TT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
87769511 ATT
1 ATT
87769514 TAACATACTA
Statistics
Matches: 134, Mismatches: 39, Indels: 20
0.69 0.20 0.10
Matches are distributed among these distances:
2 11 0.08
3 117 0.87
4 5 0.04
5 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:87771853 original size:123 final size:122
Alignment explanation
Indices: 87771726--87773226 Score: 1003
Period size: 123 Copynumber: 12.3 Consensus size: 122
87771716 GTTTGTAGGA
* * * * *
87771726 AGCTTTACTTCGTTTTGCTCAGTTTCCGCTATTGATATGCGGCCATTAGTGACCTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATT-GTGACTTCATTATAAGC
* * * * * *
87771791 TGTGTCATTGACAAGCTTTTCATTGTCATCATGCCCAATATTAAAGAATTCTAC-GGGG
65 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCT-CTGGGG
* * ** * * * * * * *
87771849 AGCTTTACTTCGTTATGCTCAGTTTCAACTATTAATATGTCGCCATTGATGACCTCATTGTAAGG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTG-TGACTTCATTATAAGC
* * ** * * *
87771914 TGTGTCAACGACAAGCTTTCTGTTACCATCATGCTCAATATTAAAGGATTCTCTGGGG
65 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
** * * ** *
87771972 AGCTTCACTTTGTTTTGCTCAGTTTCCGCTACTGATATGCCATCATTGATGACTTCATTACAAG-
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTG-TGACTTCATTATAAGC
* * * * * *
87772036 TCGTGTCAATGACGAAGTTCCCCTTATCATCATACCCAACATT-AAGAGATT-TACTGGCG
65 T-GTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAG-GATTCT-CTGGGG
* * * * * * * *
87772095 AGCTTTGCTTCTTTTTTCTCAATTTCCGCTACTGATAGGCTGCCATTGGTGACATCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATT-GTGACTTCATTATAAGC
* ** ** * * *
87772160 TGTGTCAAAGACAAGTTTTTGATTATCATCATGCCGAACATTAAGGGATTCTGTGGGG
65 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * * * * *
87772218 AGCTTTACTTCATTATGCTCAGCTTCAGTTACTAATACGTCGCCATTGATGA-TCTCATTGTAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTG-TGACT-TCATTATAAG
* *** *
87772282 -TCGTGTCAGTGACAAACTTTTTGTTATCGTCATGCCCAACATTAAAGGATTCTCTGGGG
64 CT-GTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * *
87772341 AGCTTCGCTACGTTTTGCTCCA-TTTCCACTATTGATACGCCGTCATTCATGACTTCATTATAAG
1 AGCTTTGCTTCGTTTTGCT-CAGTTTCCGCTACTGATACGCCGCCATT-GTGACTTCATTATAAG
* * * * * *
87772405 CTGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGG
64 CTGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * *
87772464 AGCTTCGCTACGTTTTGCTCCA-TTTCCACTATTGATACGCCGTCATTCATGACTTCATTATAAG
1 AGCTTTGCTTCGTTTTGCT-CAGTTTCCGCTACTGATACGCCGCCATT-GTGACTTCATTATAAG
* * * * * *
87772528 CTGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGG
64 CTGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * *
87772587 AGCTTTGCTTCATTTTGCTCAGTTTCCGCTACTGATATGCAGCCATTGACGACTTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTG-TGACTTCATTATAAGC
* * * * *
87772652 TATGTCAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGTATTCTCTGGAG
65 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * *
87772710 AGCTTTGCTTCGTTTTGCTTAGTTTCCACTACTGATACACCGTCATTAATGACTTCATTATAAG-
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATT-GTGACTTCATTATAAGC
* * *
87772774 TCGAGTAAATGACAAACTTTCC---ATCATCATGCCCAACATTAAAGGATTCTTTGGGG
65 T-GTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* * * * * * * * * * *
87772830 AGCTTTGCTTCGATATCCTCAGGTTCAGCTACTAATACGTCGCCATTGATGACCTCATTGTATGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTG-TGACTTCATTATAAGC
* * ** * * * * * * *
87772895 TGTGTCAACGACAAGCTTAT-TTTTATCGTAATGTCCAACATCAAGGGATTTTATGGAGG
65 TGTGTCAATGACAAACTT-TCCATTATCATCATGCCCAACATTAAAGGATTCTCTGG-GG
* ** * * * *
87772954 -GCTTTACTTCGTTCGGCTTAGTTTCCGCTATTGATACGCCGCCA-T-TGACCTT-GTTATAAAC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGTGA-CTTCATTATAAGC
* * * *** * * ** *
87773015 T-TTTCCGATGACAAGCTTTTTGTTATCATCGTGCCTAACATTAATCGATTCTGTGGAGG
65 TGTGT-CAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGG-GG
* * ** * ** * * * * * *
87773074 -GTTTTGCTTTGTTCCGGTCAG-TTCGCGCTACTGATACATCACC-GT-TGACCTGATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTC-CGCTACTGATACGCCGCCATTGTGACTTCATTATAAGC
* * *** * * ** ** *
87773135 TGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAATGTTAGGGGATTCTGTGGGG
65 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
* *
87773193 AGCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTG
87773227 GCACATTGCC
Statistics
Matches: 1103, Mismatches: 239, Indels: 75
0.78 0.17 0.05
Matches are distributed among these distances:
119 10 0.01
120 243 0.22
121 9 0.01
122 13 0.01
123 817 0.74
124 11 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (122 bp):
AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGTGACTTCATTATAAGCT
GTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCTGGGG
Found at i:87772279 original size:369 final size:364
Alignment explanation
Indices: 87771726--87772963 Score: 1204
Period size: 369 Copynumber: 3.4 Consensus size: 364
87771716 GTTTGTAGGA
* * * * *
87771726 AGCTTTACTTCGTTTTGCTCAGTTTCCGCTATTGATATGCGGCCATT-AGTGACCTCATTATAAG
1 AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCTGCCATTGA-TGACCTCATTATAAG
* * * * *
87771790 CTGTGTCATTGACAAGCTTTTCATTGTCATCATGCCCAATATTAAAGAATTCTACGGGGAGCTTT
65 CTGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATT-AAGGATTCTATGGGGAGCTTT
* * *
87771855 ACTTCGTTATGCTCAGTTTCAACTATTAATATGTCGCCATTGATGACCTCATTGTAAGGTGTGTC
129 ACTTCATTATGCTCAGTTTCAGCTACTAATATGTCGCCATTGATGA-CTCATTGTAAGGTGTGTC
* * * * * * *
87771920 AACGACAAGCTTTCTGTTACCATCATGCTCAATATTAAAGGATTCTCTGGGGAGCTTCACTTTGT
193 AATGACAAACTTTCTGTTATCATCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTTCGT
* * * * * *
87771985 TTTGCTCAGTTTCCGCTACTGATATGCCATCATTGATGACTTCATTACAAGTCGTGTCAATGACG
258 TTTGCTCAGTTTCCACTACTGATACGCCGTCATTAATGACTTCATTATAAGTCGTGT-AATGACA
* * *
87772050 AAGTTCCCCTTATCATCATACCCAACATTAAGAGATT-TACTGGCG
322 AACTT-CCC-TATCATCATGCCCAACATTAAGAGATTCT-CTGGGG
* * * * * * *
87772095 AGCTTTGCTTCTTTTTTCTCAATTTCCGCTACTGATAGGCTGCCATTGGTGACATCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
* * * * *
87772160 TGTGTCAAAGACAAGTTTTTGATTATCATCATGCCGAACATTAAGGGATTCTGTGGGGAGCTTTA
66 TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAA-GGATTCTATGGGGAGCTTTA
* * *
87772225 CTTCATTATGCTCAGCTTCAGTTACTAATACGTCGCCATTGATGATCTCATTGTAA-GTCGTGTC
130 CTTCATTATGCTCAGTTTCAGCTACTAATATGTCGCCATTGATGA-CTCATTGTAAGGT-GTGTC
* * * *
87772289 AGTGACAAACTTTTTGTTATCGTCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTACGT
193 AATGACAAACTTTCTGTTATCATCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTTCGT
* * *
87772354 TTTGCTCCA-TTTCCACTATTGATACGCCGTCATTCATGACTTCATTATAAGCTGCGT-TAATGT
258 TTTGCT-CAGTTTCCACTACTGATACGCCGTCATTAATGACTTCATTATAAG-T-CGTGTAATGA
* *
87772417 CAAACTTTCCATCATCATCCTGCCCAACATTGAAG-GATTCTCTGGGG
320 CAAAC-TTCCCT-ATCATCATGCCCAACATT-AAGAGATTCTCTGGGG
* * * * * * * * *
87772464 AGCTTCGCTACGTTTTGCTCCATTTCCACTATTGATACGCCGTCATTCATGACTTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
* * * * * * * * *
87772529 TGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGGAGCTTTG
66 TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATT-AAGGATTCTATGGGGAGCTTTA
* * * * * * *
87772594 CTTCATTTTGCTCAGTTTCCGCTACTGATATG-CAGCCATTGACGACTTCATTATAAGCTATGTC
130 CTTCATTATGCTCAGTTTCAGCTACTAATATGTC-GCCATTGATGAC-TCATTGTAAGGTGTGTC
* ** * * * *
87772658 AATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGTATTCTCTGGAGAGCTTTGCTTCGT
193 AATGACAAACTTTCTGTTATCATCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTTCGT
* * *
87772723 TTTGCTTAGTTTCCACTACTGATACACCGTCATTAATGACTTCATTATAAGTCGAGTAAATGACA
258 TTTGCTCAGTTTCCACTACTGATACGCCGTCATTAATGACTTCATTATAAGTCGTGT-AATGACA
* *
87772788 AACTTTCC-ATCATCATGCCCAACATTAA-AGGATTCTTTGGGG
322 AACTTCCCTATCATCATGCCCAACATTAAGA-GATTCTCTGGGG
* * * ** * * * *
87772830 AGCTTTGCTTCGATATCCTCAGGTTCAGCTACTAATACG-TCGCCATTGATGACCTCATTGTATG
1 AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCT-GCCATTGATGACCTCATTATAAG
* * * * * * * *
87772894 TTGTGTCAACGACAAGCTTATT-TTTATCGTAATGTCCAACATCAAGGGATTTTATGGAGG-GCT
65 CTGTGTCAATGACAAGCTT-TTCATTATCATCATGCCCAACATTAA-GGATTCTATGG-GGAGCT
87772957 TTACTTC
127 TTACTTC
87772964 GTTCGGCTTA
Statistics
Matches: 700, Mismatches: 146, Indels: 49
0.78 0.16 0.05
Matches are distributed among these distances:
365 4 0.01
366 118 0.17
367 5 0.01
368 13 0.02
369 544 0.78
370 13 0.02
371 3 0.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (364 bp):
AGCTTTGCTTCGTTTTGCTCAATTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAGGATTCTATGGGGAGCTTTAC
TTCATTATGCTCAGTTTCAGCTACTAATATGTCGCCATTGATGACTCATTGTAAGGTGTGTCAAT
GACAAACTTTCTGTTATCATCATGCCCAACATTAAAGGATTCTCTGGGGAGCTTCGCTTCGTTTT
GCTCAGTTTCCACTACTGATACGCCGTCATTAATGACTTCATTATAAGTCGTGTAATGACAAACT
TCCCTATCATCATGCCCAACATTAAGAGATTCTCTGGGG
Found at i:87773224 original size:120 final size:120
Alignment explanation
Indices: 87772800--87773226 Score: 330
Period size: 120 Copynumber: 3.5 Consensus size: 120
87772790 CTTTCCATCA
* * * * * * *
87772800 TCATGCCCAACATTAAAGGATTCTTTGG-GGAGCTTTGCTTCGATATCCTCAGGTTCAGCTACTA
1 TCATGCCTAACATTAAGGGATTCTGTGGAGG-GCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
* * *
87772864 ATACGTCGCCATTGATGACCTCATTGTATGTTGTGTCAACGACAAGCTTATTT-TTATCG
65 ATACGTCGCC---GTTGACCTGATTGTAAGTTGTGTCAACGACAAGCTT-TTTGTTATCG
* * * * * ** * * *
87772923 TAATGTCC-AACATCAAGGGATTTTATGGAGGGCTTTACTTCGTTCGGCTTAGTTTCCGCTATTG
1 TCATG-CCTAACATTAAGGGATTCTGTGGAGGGCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
* * * * * * *
87772987 ATACGCCGCCATTGACCTTG-TTATAAACTT-T-TCCGATGACAAGCTTTTTGTTATCA
65 ATACGTCGCCGTTGACC-TGATTGT-AAGTTGTGT-CAACGACAAGCTTTTTGTTATCG
* ** * * ** * *
87773043 TCGTGCCTAACATTAATCGATTCTGTGGAGGGTTTTGCTTTGTTCCGGTCAG-TTCGCGCTACTG
1 TCATGCCTAACATTAAGGGATTCTGTGGAGGGCTTTGCTTCGTTATGCTCAGTTTC-AGCTACTG
* *
87773107 ATACATCACCGTTGACCTGATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCG
65 ATACGTCGCCGTTGACCTGATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCG
** *
87773163 TCATGCCTAATGTTAGGGGATTCTGTGG-GGAGCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
1 TCATGCCTAACATTAAGGGATTCTGTGGAGG-GCTTTGCTTCGTTATGCTCAGTTTCAGCTACTG
87773227 GCACATTGCC
Statistics
Matches: 231, Mismatches: 60, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
119 17 0.07
120 150 0.65
121 8 0.03
123 52 0.23
124 4 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (120 bp):
TCATGCCTAACATTAAGGGATTCTGTGGAGGGCTTTGCTTCGTTATGCTCAGTTTCAGCTACTGA
TACGTCGCCGTTGACCTGATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCG
Found at i:87785727 original size:32 final size:32
Alignment explanation
Indices: 87785686--87785750 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
87785676 CAAGATGATG
*
87785686 AGATAGATGTAAAGGCTAAGGGAAAATATAAA
1 AGATAGATGTAAAGGCCAAGGGAAAATATAAA
*
87785718 AGATAGATGTAAAGGCCAAGGGCAAATATAAA
1 AGATAGATGTAAAGGCCAAGGGAAAATATAAA
87785750 A
1 A
87785751 TAAATTGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.06, G:0.25, T:0.17
Consensus pattern (32 bp):
AGATAGATGTAAAGGCCAAGGGAAAATATAAA
Found at i:87787091 original size:42 final size:42
Alignment explanation
Indices: 87786976--87787097 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
87786966 TACCATACCA
* *
87786976 ATGCCATATCTCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCTCAGATATGGTCTTACACGAAG-TCTCATATCG
* * *
87787018 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCTCAGATATGGTCTTACACGAAGTCTCATATCG
*
87787061 ATGCCATATCTCAGATATGGTCTTACACGAAATCTCA
1 ATGCCATATCTCAGATATGGTCTTACACGAAGTCTCA
87787098 AATAACCCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 33 0.48
43 35 0.51
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCTCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:87789064 original size:22 final size:23
Alignment explanation
Indices: 87789023--87789081 Score: 93
Period size: 22 Copynumber: 2.5 Consensus size: 23
87789013 TGGAGTTTGT
87789023 AATCAACATTTTATTTTCTAAAAC
1 AATCAACA-TTTATTTTCTAAAAC
87789047 AATCAACATTT-TTTTCTAAAAC
1 AATCAACATTTATTTTCTAAAAC
87789069 AATCAACTATTTA
1 AATCAAC-ATTTA
87789082 ATTACAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 18 0.55
23 7 0.21
24 8 0.24
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.41
Consensus pattern (23 bp):
AATCAACATTTATTTTCTAAAAC
Found at i:87797148 original size:28 final size:28
Alignment explanation
Indices: 87797111--87797172 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
87797101 GACGATATGC
* *
87797111 ATGTTTATGTATGGATTATGT-TATATTT
1 ATGTTAATGTATGGA-AATGTATATATTT
* *
87797139 ATGTTAATGTTTGGAAATGTATATGTTT
1 ATGTTAATGTATGGAAATGTATATATTT
87797167 ATGTTA
1 ATGTTA
87797173 CGTTTTTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.53
Consensus pattern (28 bp):
ATGTTAATGTATGGAAATGTATATATTT
Found at i:87804600 original size:39 final size:40
Alignment explanation
Indices: 87804532--87804610 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
87804522 GAGATGTTTA
* *
87804532 AAAACATTTATTTATTATTTTATGTTTTTA-ATTTTTATT
1 AAAACATTTATTTATTATTTTATGATTTTAGAATTTTATT
*
87804571 AAAACTATTT-TTTATTTTTATTA-GATTTTAGAATTTTATT
1 AAAAC-ATTTATTTATTATT-TTATGATTTTAGAATTTTATT
87804611 TTTAATTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
39 19 0.56
40 15 0.44
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (40 bp):
AAAACATTTATTTATTATTTTATGATTTTAGAATTTTATT
Found at i:87808938 original size:43 final size:42
Alignment explanation
Indices: 87808773--87808941 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 42
87808763 ATATCATACA
* ** * * *
87808773 ATGCCAACGTCCCAGACATGGTCTTACATGCTATCACATATTG
1 ATGCCAATGTCCCAGATGTGGTCTTACACG-AATCACATATCG
* * *
87808816 ATGCCACTATCCCAGATAG-GGTCTTACACGAATCAAATA-CG
1 ATGCCAATGTCCCAGAT-GTGGTCTTACACGAATCACATATCG
*
87808857 ATGCCGATGTCCCAGACT-TGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGA-TGTGGTCTTACACG-AATCACATATCG
* *
87808900 GTGCCAATGTCCCAGATGTGGTCTTACACGAGAACACATATC
1 ATGCCAATGTCCCAGATGTGGTCTTACACGA-ATCACATATC
87808942 AGAAATCTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 25 0.24
42 18 0.17
43 60 0.58
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGATGTGGTCTTACACGAATCACATATCG
Found at i:87812859 original size:43 final size:43
Alignment explanation
Indices: 87812712--87812868 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
87812702 TGTGTTATCG
* * *
87812712 TGTAAGACCGCGTCTGAGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * ***
87812756 TATAAGACCATGCCTAGGACGTTGGCATCG-TATTTGATTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
*
87812798 TGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
87812841 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
87812869 TGTATGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 26 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:87818749 original size:35 final size:35
Alignment explanation
Indices: 87818690--87818847 Score: 165
Period size: 35 Copynumber: 4.5 Consensus size: 35
87818680 CAAAGTATGG
* * * *
87818690 TACCTACATTTCATAGCTCAGTATGGACAATACCA
1 TACCTACGTGTCATAACTCGGTATGGACAATACCA
* * *
87818725 TAACTACGTTTCACAACTCGGTATGGGA-AATACCA
1 TACCTACGTGTCATAACTCGGTAT-GGACAATACCA
* * * * *
87818760 TACCTACGTATTATAGCTCGATATGGATAATACCA
1 TACCTACGTGTCATAACTCGGTATGGACAATACCA
* * *
87818795 TACCTACGTGTCATAGCTCAGTATAGACAATACCA
1 TACCTACGTGTCATAACTCGGTATGGACAATACCA
87818830 TACCTACGTGTCATAACT
1 TACCTACGTGTCATAACT
87818848 TTGCCATGGA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
34 3 0.03
35 97 0.94
36 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (35 bp):
TACCTACGTGTCATAACTCGGTATGGACAATACCA
Found at i:87824638 original size:27 final size:27
Alignment explanation
Indices: 87824608--87824785 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
87824598 ATATTGAGCC
* *
87824608 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
87824635 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
87824662 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
87824690 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
87824717 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
87824744 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
87824771 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87824786 GAACAATTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.80
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:87824747 original size:82 final size:81
Alignment explanation
Indices: 87824629--87824784 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
87824619 TGCTATATAA
* * * *
87824629 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAG-TAGAATCGCA
87824694 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
87824711 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCA
87824775 CACTTAGTGC
65 CACTTAGTGC
87824785 TGAACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 20 0.31
82 44 0.69
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87832680 original size:27 final size:27
Alignment explanation
Indices: 87832650--87832827 Score: 155
Period size: 27 Copynumber: 6.6 Consensus size: 27
87832640 ATATTGAGCC
* *
87832650 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
87832677 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
87832704 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
87832732 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
87832759 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
87832786 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
87832813 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87832828 GAACAATTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.80
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:87832789 original size:82 final size:81
Alignment explanation
Indices: 87832671--87832826 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
87832661 TGCTATATAA
* * * *
87832671 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAG-TAGAATCGCA
87832736 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
87832753 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCA
87832817 CACTTAGTGC
65 CACTTAGTGC
87832827 TGAACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 20 0.31
82 44 0.69
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87840701 original size:27 final size:27
Alignment explanation
Indices: 87840583--87840757 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 27
87840573 ATATTGAGCC
* * * *
87840583 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCAACATAGTCAACT
* * * *
87840610 CGCACA-TTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCAACATAGTCAACT
*
87840636 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCAACATAGTCA-ACT
** * *
87840664 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAACT
* * **
87840691 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAACT
87840718 CGCACACTTAGTGCAACA-AGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AACT
87840744 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87840758 TGTACAATTT
Statistics
Matches: 124, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
26 39 0.31
27 62 0.50
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAACT
Found at i:87848744 original size:56 final size:56
Alignment explanation
Indices: 87848680--87848900 Score: 316
Period size: 56 Copynumber: 3.9 Consensus size: 56
87848670 CATGGCATCG
* * * *
87848680 ATATATGTGTGCGAGTAAGACCACATTTAATATGTTGGCATCGATATGTGATTTCG
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCA
*
87848736 ATATATGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTTCA
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCA
* * * * *
87848792 ATATATTTGTGCAAGTAAGGCCATGTTTAATACGTTGGCATCAATATGTGATTCCA
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCA
** * *
87848848 ATATATGTGTGTGAGTAAGACCACGTTTAGTACATTGGCATCGATATGTGATT
1 ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
87848901 ACATGTAAGA
Statistics
Matches: 148, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 148 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (56 bp):
ATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCA
Found at i:87860642 original size:43 final size:43
Alignment explanation
Indices: 87860557--87860774 Score: 343
Period size: 43 Copynumber: 5.1 Consensus size: 43
87860547 GATAAATCCC
* * * *
87860557 GCAGGCCTAGTGCTGGT-AT-TATATTCGGG-CTTCGTGCTTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
87860597 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
87860640 GCAGGCTTAGTGCCGGTGATGTGTATTCTGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
87860683 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
87860726 GCAGGCTTCGTGCCGGTTATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
87860769 GTAGGC
1 GCAGGC
87860775 GTAATGCCAG
Statistics
Matches: 166, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 15 0.09
41 2 0.01
42 9 0.05
43 140 0.84
ACGTcount: A:0.12, C:0.23, G:0.33, T:0.32
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:87877003 original size:34 final size:34
Alignment explanation
Indices: 87876951--87877027 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
87876941 TGAACAGTCT
*
87876951 GGCTAAGCCC-ATATCAGTAGCAATATCAGTGTG
1 GGCTTAGCCCAATATCAGTAGCAATATCAGTGTG
* * *
87876984 GGCCTTAGCCCAATA-CAGTAGTAGTATTAGTGTG
1 GG-CTTAGCCCAATATCAGTAGCAATATCAGTGTG
87877018 GGCTT-GCCCA
1 GGCTTAGCCCA
87877028 TTTCAGTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 5 0.13
33 5 0.13
34 25 0.66
35 3 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (34 bp):
GGCTTAGCCCAATATCAGTAGCAATATCAGTGTG
Found at i:87883788 original size:54 final size:52
Alignment explanation
Indices: 87883730--87883836 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 52
87883720 CCTGTCAATC
*
87883730 TAACAGGTTCGA-CCACGGGTGC-TAGACACGGGCGTGTCACACCCCGTGCTGTTT
1 TAACAGGTTC-ACCCA-GGGTGCTTACACAC-GGCGTGTC-CACCCCGTGCTGTTT
* * *
87883784 TAACAGGTTCACCCATGGTTCTTCCACACGGCGTGTCCACCCCGTGCTGTTT
1 TAACAGGTTCACCCAGGGTGCTTACACACGGCGTGTCCACCCCGTGCTGTTT
87883836 T
1 T
87883837 GGAGGCTGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
52 16 0.34
53 13 0.28
54 18 0.38
ACGTcount: A:0.17, C:0.32, G:0.25, T:0.26
Consensus pattern (52 bp):
TAACAGGTTCACCCAGGGTGCTTACACACGGCGTGTCCACCCCGTGCTGTTT
Found at i:87888833 original size:27 final size:26
Alignment explanation
Indices: 87888781--87888839 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
87888771 TGTAAAAACG
*
87888781 TAACATAACATATACATTCCAAACAT
1 TAACATAACATATACAATCCAAACAT
*
87888807 TAACATAA-ATATAACTAATCCATACAT
1 TAACATAACATAT-AC-AATCCAAACAT
*
87888834 AAACAT
1 TAACAT
87888840 GCATATCGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 10 0.36
27 14 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (26 bp):
TAACATAACATATACAATCCAAACAT
Found at i:87893189 original size:28 final size:30
Alignment explanation
Indices: 87893132--87893199 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
87893122 GTTGGATGAG
**
87893132 TAAATTGA-AAAAAAATATTGTTAAGTGAT
1 TAAATTGATAAAAAAATAAAGTTAAGTGAT
*
87893161 TAATTTGATAAAAAAATAAAG-TAAG-GAT
1 TAAATTGATAAAAAAATAAAGTTAAGTGAT
87893189 TAAATTG-TAAA
1 TAAATTGATAAA
87893200 TTTGGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.12
28 9 0.26
29 11 0.32
30 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.32
Consensus pattern (30 bp):
TAAATTGATAAAAAAATAAAGTTAAGTGAT
Found at i:87896830 original size:22 final size:24
Alignment explanation
Indices: 87896800--87896857 Score: 93
Period size: 22 Copynumber: 2.5 Consensus size: 24
87896790 AGTTGTAATT
87896800 AAATAGTTGATTGTTTTAG-AAA-A
1 AAAT-GTTGATTGTTTTAGAAAATA
87896823 AAATGTTGATTGTTTTAGAAAATA
1 AAATGTTGATTGTTTTAGAAAATA
87896847 AAATGTTGATT
1 AAATGTTGATT
87896858 ACAAACTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.42
23 7 0.21
24 12 0.36
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (24 bp):
AAATGTTGATTGTTTTAGAAAATA
Found at i:87898843 original size:42 final size:41
Alignment explanation
Indices: 87898784--87898905 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 41
87898774 TAGGGTTATT
87898784 TGAGATTTCGTGTAAGACCATATCTGAGATATGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGAGATATGGCATCGATA
* * *
87898826 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGAGATA-TGGCATCGATA
* *
87898869 TGAGATCCCATGTAAGACCATATCTGAGATATGGCAT
1 TGAGAT-TCGTGTAAGACCATATCTGAGATATGGCAT
87898906 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGAGATATGGCATCGATA
Found at i:87900173 original size:32 final size:32
Alignment explanation
Indices: 87900132--87900196 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
87900122 TTGCAATTTA
*
87900132 TTTTATATTTGCCCTTGGCCTTTACATCTATC
1 TTTTATATTTGCCCTTAGCCTTTACATCTATC
*
87900164 TTTTATATTTTCCCTTAGCCTTTACATCTATC
1 TTTTATATTTGCCCTTAGCCTTTACATCTATC
87900196 T
1 T
87900197 CATCATCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.06, T:0.52
Consensus pattern (32 bp):
TTTTATATTTGCCCTTAGCCTTTACATCTATC
Found at i:87904315 original size:31 final size:30
Alignment explanation
Indices: 87904252--87904342 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 30
87904242 ATTTATTTAA
** *
87904252 ATGTATACAATTGAATTAAACTTAAA-TGTTC
1 ATGTATACAATTGAACCAAA-TCAAAGT-TTC
*
87904283 ATGTATACATTTGAACCATAATCAAAGTTTC
1 ATGTATACAATTGAACCA-AATCAAAGTTTC
* * *
87904314 ATGTGTATAATTGCACCAAATCAAAGTTT
1 ATGTATACAATTGAACCAAATCAAAGTTT
87904343 AAGTATCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
30 11 0.22
31 36 0.72
32 3 0.06
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (30 bp):
ATGTATACAATTGAACCAAATCAAAGTTTC
Found at i:87923476 original size:49 final size:49
Alignment explanation
Indices: 87923413--87923571 Score: 172
Period size: 49 Copynumber: 3.4 Consensus size: 49
87923403 CATCAAAGTC
*
87923413 GATGCCATGTCCCAGACAGGGCTTACACTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * *
87923462 GATGCCATGTCCCAGACAGGTCTTACACTGAC--ACACA-A-C-AAGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
* * * *
87923506 GATGCTATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTTGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCT
87923555 GATG-CATGTCCCAGACA
1 GATGCCATGTCCCAGACA
87923572 TTTCCTACAC
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 33 0.36
45 1 0.01
46 3 0.03
47 3 0.03
48 12 0.13
49 38 0.42
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
Found at i:87923522 original size:44 final size:46
Alignment explanation
Indices: 87923368--87923534 Score: 187
Period size: 49 Copynumber: 3.6 Consensus size: 46
87923358 AGATGCCGAC
* *
87923368 GCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAG-TCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTA-CACAACAAAGCT-GAT
* * * * *
87923416 GCCATGTCCCAGACAGGGCTTACACTGACTTTCATATATCGAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGAC-TACACA-A-CAAAGCTGAT
87923465 GCCATGTCCCAGACAGGTCTTACACTGAC-ACACAAC-AAGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTACACAACAAAGCTGAT
*
87923509 GCTATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
87923535 AGCTTGTATA
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
44 32 0.31
45 1 0.01
46 1 0.01
47 18 0.17
48 16 0.16
49 34 0.33
50 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTACACAACAAAGCTGAT
Found at i:87923531 original size:93 final size:97
Alignment explanation
Indices: 87923362--87923572 Score: 267
Period size: 93 Copynumber: 2.2 Consensus size: 97
87923352 GGTATAAGAT
* * *
87923362 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTCGATGCCATGTCCCA
87923427 GACAGGGCTTACACT-GACTT-TCATATATCGAG
66 GACAGGGCTTACACTAG-CTTGT-ATATATCGAG
* *
87923459 GCTGATGCCATGTCCCAGACA-GGTCTTACACTGAC-A-CACAAC-AAG-CTGATGCTATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTC-GATGCCATGTCCC
* * *
87923519 AGACAGGTCTTACACTAGCTTGTATATCTTGAG
65 AGACAGGGCTTACACTAGCTTGTATATATCGAG
87923552 GCCGATG-CATGTCCCAGACAT
1 GCCGATGCCATGTCCCAGACAT
87923573 TTCCTACACT
Statistics
Matches: 101, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
92 14 0.14
93 47 0.47
94 7 0.07
95 1 0.01
96 13 0.13
97 19 0.19
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTCGATGCCATGTCCCA
GACAGGGCTTACACTAGCTTGTATATATCGAG
Found at i:87930997 original size:6 final size:6
Alignment explanation
Indices: 87930986--87931064 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
87930976 AATCCTCCTA
* * *
87930986 TTTTAT TTTTA- -TTTAT TCTTGT TTTTA- TTTTAT TTTATTT ATTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT
* * * *
87931033 TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
87931065 CAATTTTCTT
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
4 4 0.07
5 5 0.09
6 39 0.71
7 4 0.07
8 3 0.05
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:87931028 original size:4 final size:5
Alignment explanation
Indices: 87930984--87931064 Score: 58
Period size: 5 Copynumber: 15.0 Consensus size: 5
87930974 TGAATCCTCC
*
87930984 TATTT TATTT T-TATT TATTCT TGTTTT TATTT TATTT TA-TT TATTT
1 TATTT TATTT TAT-TT TATT-T T-ATTT TATTT TATTT TATTT TATTT
*
87931030 TATTCT TATTTT TCTTT TGATTTT TATTT TCATTT
1 TATT-T TA-TTT TATTT T-A-TTT TATTT T-ATTT
87931065 CAATTTTCTT
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
4 5 0.08
5 34 0.55
6 15 0.24
7 8 0.13
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:87939223 original size:15 final size:14
Alignment explanation
Indices: 87939205--87939238 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
87939195 CTTGGGTTTC
87939205 TTTATCCTGGATCTT
1 TTTATCCTGGAT-TT
*
87939220 TTTATTCTGGATTT
1 TTTATCCTGGATTT
87939234 TTTAT
1 TTTAT
87939239 TTTGGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.62
Consensus pattern (14 bp):
TTTATCCTGGATTT
Found at i:87939237 original size:14 final size:14
Alignment explanation
Indices: 87939205--87939249 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
87939195 CTTGGGTTTC
*
87939205 TTTATCCTGGATCTT
1 TTTATTCTGGAT-TT
87939220 TTTATTCTGGATTT
1 TTTATTCTGGATTT
* *
87939234 TTTATTTTGGGTTT
1 TTTATTCTGGATTT
87939248 TT
1 TT
87939250 CTATCTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.11, C:0.09, G:0.16, T:0.64
Consensus pattern (14 bp):
TTTATTCTGGATTT
Found at i:87941915 original size:27 final size:27
Alignment explanation
Indices: 87941891--87942168 Score: 272
Period size: 27 Copynumber: 10.3 Consensus size: 27
87941881 TTAGTTTACC
* **
87941891 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
87941918 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** *
87941945 AAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
87941972 AAATTACCAAAATACACTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
87941999 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
87942026 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
87942053 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
87942080 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
87942107 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * *
87942134 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
87942161 GAATTACC
1 AAATTACC
87942169 GTTTACCCTC
Statistics
Matches: 214, Mismatches: 35, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 4 0.02
27 206 0.96
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:87942208 original size:27 final size:27
Alignment explanation
Indices: 87942149--87942445 Score: 366
Period size: 27 Copynumber: 11.1 Consensus size: 27
87942139 ACCAAAGTAC
* *
87942149 CCCT-GATTTATAGAATTACCG-TTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
*
87942174 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * ***
87942201 CCCTCGATTTATAGAATTATTATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* ** *
87942228 CCTTATATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
*
87942255 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
*
87942282 CCCTTGATTTAC-AAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* * *
87942308 CCCTCGATTGACAGAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
*
87942335 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
*
87942362 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* *
87942389 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
* *
87942416 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTA
87942443 CCC
1 CCC
87942446 CTAGGGTGTT
Statistics
Matches: 237, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
25 4 0.02
26 37 0.16
27 196 0.83
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCGTTTTA
Found at i:87942246 original size:107 final size:108
Alignment explanation
Indices: 87942149--87942445 Score: 411
Period size: 107 Copynumber: 2.8 Consensus size: 108
87942139 ACCAAAGTAC
* * * *
87942149 CCCT-GATTTATAGAATTACCG-TTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTA
1 CCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
* * * *
87942212 TAGAATTATTATTTTACCTTATATTTACAGAATTACCGTTTTA
66 TAGAATTACTATTTTACCCTAGATTTACAAAATTACCGTTTTA
* *
87942255 CCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTAC-AAATTACCGTTTTACCCTCGATTGA
1 CCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
* * * *
87942319 CAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTA
66 TAGAATTACTATTTTACCCTAGATTTACAAAATTACCGTTTTA
* *
87942362 CCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
* *
87942427 TAAAATTACCATTTTACCC
66 TAGAATTACTATTTTACCC
87942446 CTAGGGTGTT
Statistics
Matches: 166, Mismatches: 22, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
106 4 0.02
107 109 0.66
108 53 0.32
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (108 bp):
CCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
TAGAATTACTATTTTACCCTAGATTTACAAAATTACCGTTTTA
Found at i:87942284 original size:81 final size:80
Alignment explanation
Indices: 87942149--87942445 Score: 411
Period size: 81 Copynumber: 3.7 Consensus size: 80
87942139 ACCAAAGTAC
*
87942149 CCCT-GATTTATAGAATTACCG-TTTACCCTCGATTTACAAAATTA-TCGTTTTACCCTCGATTT
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTT
* * *
87942211 ATAGAATTATTATTTTA
65 ACA-AATTACTGTTTTA
* ** *
87942228 CCTTATATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTTGATTTA
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
*
87942293 CAAATTACCGTTTTA
66 CAAATTACTGTTTTA
* *
87942308 CCCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
87942373 CAAAATTACTGTTTTA
66 C-AAATTACTGTTTTA
* * **
87942389 CCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCC
87942446 CTAGGGTGTT
Statistics
Matches: 193, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
79 3 0.02
80 85 0.44
81 104 0.54
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (80 bp):
CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
CAAATTACTGTTTTA
Found at i:87942801 original size:26 final size:27
Alignment explanation
Indices: 87942772--87942831 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
87942762 CCACATATAT
*
87942772 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
87942798 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
87942825 ATATCTG
1 ATATCTG
87942832 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:87942980 original size:25 final size:25
Alignment explanation
Indices: 87942952--87943015 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
87942942 CATTCATATT
* *
87942952 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
* *
87942977 CTGATTCTGATTCTGTCACTTGATT
1 CTGATTCTGATTCTGTCACCTGATA
87943002 CTGATTCTGATTCT
1 CTGATTCTGATTCT
87943016 AGTTCTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:87942988 original size:6 final size:6
Alignment explanation
Indices: 87942949--87943024 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
87942939 TTGCATTCAT
* * *
87942949 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TC-TG
87942999 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
87943025 AGTGTTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
5 4 0.07
6 43 0.77
7 7 0.12
8 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:87944997 original size:27 final size:27
Alignment explanation
Indices: 87944972--87945250 Score: 245
Period size: 27 Copynumber: 10.3 Consensus size: 27
87944962 TTAATTTACC
* *
87944972 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
87944999 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
87945026 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
87945053 AAATTACCAAAATACCCATTGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
*
87945080 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
87945107 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
** * *
87945134 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTATA
** ***
87945161 AAATTACTGAAATA-CCCTCGACCTATA
1 AAATTACCAAAATACCCCT-GGTTTATA
*** * ** *
87945188 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
87945215 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
*
87945242 GAATTACCA
1 AAATTACCA
87945251 TTTTACCCTC
Statistics
Matches: 212, Mismatches: 38, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.02
27 205 0.97
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:87945107 original size:81 final size:80
Alignment explanation
Indices: 87944972--87945177 Score: 270
Period size: 81 Copynumber: 2.5 Consensus size: 80
87944962 TTAATTTACC
** *
87944972 AAATTACCAAAATACCCTTGGTTTACAAAATCACCAAAATACCCCTGGTTTGTAAAATTA-CTAA
1 AAATTACCAAAATACCCTT-GTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATC-AA
* *
87945036 AATACCCTTTGTTTATA
64 AATACCCCTAGTTTATA
87945053 AAATTACCAAAATACCCATTGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCC-TTGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
*
87945118 ATACCCCTAGTTTGTA
65 ATACCCCTAGTTTATA
** * **
87945134 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 AAATTACCAAAATA-CCCTTGTTTGTAAAATTACCAAAATACCC
87945178 TCGACCTATA
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
81 105 0.95
82 6 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCTTGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAA
TACCCCTAGTTTATA
Found at i:87945257 original size:27 final size:27
Alignment explanation
Indices: 87945230--87945474 Score: 303
Period size: 27 Copynumber: 9.1 Consensus size: 27
87945220 ACCAAAGTAC
* *
87945230 CCCT-GATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
87945256 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
87945283 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* **
87945310 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
87945337 CCCTTGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * *
87945364 CCCTCGATTGATAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * **
87945391 CCCTCGATTTACAAAAGTACTATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* **
87945418 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
87945445 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
87945472 CCC
1 CCC
87945475 ATAAAATTAC
Statistics
Matches: 192, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 4 0.02
27 188 0.98
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:87945258 original size:54 final size:52
Alignment explanation
Indices: 87945213--87945496 Score: 242
Period size: 54 Copynumber: 5.4 Consensus size: 52
87945203 CCTTGACTTG
*** *
87945213 TAAAATTACCAAAGTACCCCTGATTTATAGAATTACCATTTTACCCTCGATT
1 TAAAATTACCATTTTACCCCTGATTTATAGAATTACCGTTTTACCCTCGATT
*
87945265 TACAGAATTACCGTTTTA-CCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TA-A-AATTACCATTTTACCCCT-GATTTATAGAATTACCGTTTTACCCTCGATT
* * * *
87945319 TACAAAATTACTATTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
1 T--AAAATTACCATTTTACCCCTGATTTATAGAATTACCGTTTTACCCTCGATT
* ** * * * **
87945373 GATAGAATTACTGTTTTA-CCCTCGATTTACAAAAGTACTATTTTACCCTCGATT
1 --TAAAATTACCATTTTACCCCT-GATTTATAGAATTACCGTTTTACCCTCGATT
* *
87945427 TACAAAATTACTATTTTA-CCCTCAATTTATAGAATTACCGTTTTA-CC-C-A--
1 T--AAAATTACCATTTTACCCCT-GATTTATAGAATTACCGTTTTACCCTCGATT
87945476 TAAAATTACCATTTTACCCCT
1 TAAAATTACCATTTTACCCCT
87945497 AGGGTGTTAA
Statistics
Matches: 195, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
47 14 0.07
48 4 0.02
49 1 0.01
51 1 0.01
52 4 0.02
53 10 0.05
54 155 0.79
55 4 0.02
56 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.38
Consensus pattern (52 bp):
TAAAATTACCATTTTACCCCTGATTTATAGAATTACCGTTTTACCCTCGATT
Found at i:87945285 original size:81 final size:80
Alignment explanation
Indices: 87945230--87945474 Score: 348
Period size: 81 Copynumber: 3.0 Consensus size: 80
87945220 ACCAAAGTAC
* * * * *
87945230 CCCT-GATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGA-TTG
87945294 TAGAATTACCGTTTTA
65 TAGAATTACCGTTTTA
*
87945310 CCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTGA
1 CCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTG-
*
87945375 TAGAATTACTGTTTTA
65 TAGAATTACCGTTTTA
* ** * *
87945391 CCCTCGATTTACAAAAGTACTATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTA
1 CCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGA-TTG
87945456 TAGAATTACCGTTTTA
65 TAGAATTACCGTTTTA
87945472 CCC
1 CCC
87945475 ATAAAATTAC
Statistics
Matches: 148, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 6 0.04
81 140 0.95
82 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (80 bp):
CCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTGT
AGAATTACCGTTTTA
Found at i:87946028 original size:25 final size:25
Alignment explanation
Indices: 87946000--87946063 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
87945990 CATTCATATT
* *
87946000 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
* *
87946025 CTGATTCTGATTCTGTCACTTGATT
1 CTGATTCTGATTCTGTCACCTGATA
87946050 CTGATTCTGATTCT
1 CTGATTCTGATTCT
87946064 AGTTCTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:87946036 original size:6 final size:6
Alignment explanation
Indices: 87945997--87946072 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
87945987 TTGCATTCAT
* * *
87945997 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TC-TG
87946047 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
87946073 AGTGTTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
5 4 0.07
6 43 0.77
7 7 0.12
8 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:87947396 original size:46 final size:45
Alignment explanation
Indices: 87947336--87947511 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
87947326 TATTTGGGCA
87947336 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * * *
87947382 TCTGAACTCATTGAGTTGAGTCCAAGTT--CGTA-AGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
87947427 CCTCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
87947475 CCCGAGCTCGTTGAGTTGAGTCTGATTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87947512 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 1 0.01
46 59 0.56
47 24 0.23
48 1 0.01
49 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:87954327 original size:49 final size:49
Alignment explanation
Indices: 87954228--87954487 Score: 215
Period size: 49 Copynumber: 5.5 Consensus size: 49
87954218 AGATGCCGAC
* ** * * *
87954228 GCCATGTCCCAGACATGGTCTTACACTGGCTAGC--ACATCAAAGTTGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCAAGGCTGAT
*
87954276 GCCATGTCCCTGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
* *
87954325 GCCATGTCCCAGACAGGTCTTACACTGGCTCTT-ATCTATC--GGCGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCAAGGC-T-GAT
* * * *
87954374 GCCATG-CCCTAGACAGGTCTTACATTAAC--ACACA-A-CAA-GCTGAT
1 GCCATGTCCC-AGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
* * *
87954418 GCCATGTCCCAGACAGGTCTTACACT-ACTTGT-ATATCTCGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCAAGGCTGAT
*
87954466 G-CATGTCCCAGACATGTCTTAC
1 GCCATGTCCCAGACAGGTCTTAC
87954488 GCTAGCACAC
Statistics
Matches: 173, Mismatches: 23, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 24 0.14
45 7 0.04
46 3 0.02
47 41 0.24
48 24 0.14
49 70 0.40
50 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCTGAT
Found at i:87954498 original size:93 final size:93
Alignment explanation
Indices: 87954273--87954498 Score: 230
Period size: 93 Copynumber: 2.4 Consensus size: 93
87954263 CATCAAAGTT
* * *
87954273 GATGCCATGTCCCT-GACAGGTCTTACACTGACTTTCATATATCAAGGCTGATGCCATGTCCCAG
1 GATGCCATG-CCCTAGACAGGTCTTACACTAAC--ACACA-A-CAA-GCTGATGCCATGTCCCAG
* * *
87954337 ACAGGTCTTACACTGGCTCTTATCTATCGGCGTC
60 ACAGGTCTTACACTGACTCTTATATATCGGCGCC
*
87954371 GATGCCATGCCCTAGACAGGTCTTACATTAACACACAACAAGCTGATGCCATGTCCCAGACAGGT
1 GATGCCATGCCCTAGACAGGTCTTACACTAACACACAACAAGCTGATGCCATGTCCCAGACAGGT
*
87954436 CTTACACT-ACT-TGTATATCTCGAG-GCC
66 CTTACACTGACTCT-TATATATCG-GCGCC
* * *
87954463 GATG-CATGTCCC-AGACATGTCTTACGCTAGCACACA
1 GATGCCATG-CCCTAGACAGGTCTTACACTAACACACA
87954499 TATCATCCAA
Statistics
Matches: 112, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
91 25 0.22
92 18 0.16
93 33 0.29
94 3 0.03
95 1 0.01
96 3 0.03
97 4 0.04
98 25 0.22
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (93 bp):
GATGCCATGCCCTAGACAGGTCTTACACTAACACACAACAAGCTGATGCCATGTCCCAGACAGGT
CTTACACTGACTCTTATATATCGGCGCC
Found at i:87958526 original size:68 final size:68
Alignment explanation
Indices: 87958431--87958588 Score: 289
Period size: 68 Copynumber: 2.3 Consensus size: 68
87958421 TTCACTTGGA
* *
87958431 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
87958496 CGT
66 CGT
*
87958499 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTTTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
87958564 CGT
66 CGT
87958567 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
87958589 TATATAGTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:87959962 original size:35 final size:35
Alignment explanation
Indices: 87959923--87960189 Score: 290
Period size: 35 Copynumber: 7.6 Consensus size: 35
87959913 CAGTATGGTT
* **
87959923 AATACCATACCTTCGTTTCATAGCTCAATATGGAC
1 AATACCATACCTACGTTTCATAGCTCGGTATGGAC
* * *
87959958 AATACCATACCTACGTTTCACAACTTGGTATGGGA-
1 AATACCATACCTACGTTTCATAGCTCGGTAT-GGAC
* * *
87959993 AATACCATACCTACATATT-ATAGCTCGGTTTGGAT
1 AATACCATACCTACGT-TTCATAGCTCGGTATGGAC
* * *
87960028 AATACCATACCTACGTTTTAAAGCTCAGTATGGAC
1 AATACCATACCTACGTTTCATAGCTCGGTATGGAC
* * *
87960063 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCATAGCTCGGTAT-GGAC
*
87960098 AATACCATACCTACGTATT-ATAGCTCGGTATGGAT
1 AATACCATACCTACGT-TTCATAGCTCGGTATGGAC
* * *
87960133 AATACCATACCTATGTGTCATAGCTCAGTATGGAC
1 AATACCATACCTACGTTTCATAGCTCGGTATGGAC
*
87960168 AATACCATACCTACGTGTCATA
1 AATACCATACCTACGTTTCATA
87960190 ACTTTTCCAT
Statistics
Matches: 195, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
34 9 0.05
35 176 0.90
36 10 0.05
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTTTCATAGCTCGGTATGGAC
Found at i:87960104 original size:105 final size:105
Alignment explanation
Indices: 87959915--87960181 Score: 435
Period size: 105 Copynumber: 2.5 Consensus size: 105
87959905 TCACAACTCA
* * * *
87959915 GTATGGTTAATACCATACCTTCGTTTCATAGCTCAATATGGACAATACCATACCTACGTTTCACA
1 GTATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACATTTCACA
*
87959980 ACTTGGTATGGGAAATACCATACCTACATATTATAGCTCG
66 ACTCGGTATGGGAAATACCATACCTACATATTATAGCTCG
* * *
87960020 GTTTGGATAATACCATACCTACGTTTTAAAGCTCAGTATGGACAATACCATACCTACATTTCACA
1 GTATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACATTTCACA
*
87960085 ACTCGGTATGGGAAATACCATACCTACGTATTATAGCTCG
66 ACTCGGTATGGGAAATACCATACCTACATATTATAGCTCG
* *
87960125 GTATGGATAATACCATACCTATGTGTCATAGCTCAGTATGGACAATACCATACCTAC
1 GTATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTAC
87960182 GTGTCATAAC
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 148 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (105 bp):
GTATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACATTTCACA
ACTCGGTATGGGAAATACCATACCTACATATTATAGCTCG
Found at i:87964061 original size:42 final size:43
Alignment explanation
Indices: 87964005--87964115 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
87963995 GATTTACGTA
* * *
87964005 TAAGACCACATCTGGGACGTTGGCATCG-TATTTGATTTCGTG
1 TAAGACTACATCTGGGACGTTGGCATCGATATTTGATTACATG
* *
87964047 TAAGACT-CTGTCTGGGACAG-TGGCATTGATATTTGATTACATG
1 TAAGACTAC-ATCTGGGAC-GTTGGCATCGATATTTGATTACATG
*
87964090 TAAGACTACATCTGGGATGTTGGCAT
1 TAAGACTACATCTGGGACGTTGGCAT
87964116 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 22 0.39
43 33 0.58
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TAAGACTACATCTGGGACGTTGGCATCGATATTTGATTACATG
Done.