Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 122 of 259
Found at i:39477353 original size:46 final size:47
Alignment explanation
Indices: 39477204--39477377 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 47
39477194 TCACTTGTGT
* * * *
39477204 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-ATATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACAT-A
* * * *
39477250 GAGCCAATGTAAGACCATGTTTGGGACATGGCATCAACATCGAGACA-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGACATA
* * *
39477298 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGACCTCGAGACATA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACATA
39477345 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
39477378 GCACGGTTAT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 57 0.53
47 28 0.26
48 19 0.18
49 1 0.01
50 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGACATA
Found at i:39496879 original size:27 final size:27
Alignment explanation
Indices: 39496848--39496951 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
39496838 CTGTCTTGGC
*
39496848 GGACTACCCCGTGTTTACTGTCTCGAT
1 GGACTACCCCGTGTTTACTGTCTCAAT
* * *
39496875 AGACTACCTCGTG-TTAGCTATCTCAAT
1 GGACTACCCCGTGTTTA-CTGTCTCAAT
* * *
39496902 GGACTACCTCATGTTTACTGTC-CTAGT
1 GGACTACCCCGTGTTTACTGTCTC-AAT
*
39496929 GGACTACCCCGTGTTTATTGTCT
1 GGACTACCCCGTGTTTACTGTCT
39496952 TAACAGACTT
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
26 4 0.06
27 55 0.89
28 3 0.05
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (27 bp):
GGACTACCCCGTGTTTACTGTCTCAAT
Found at i:39503345 original size:13 final size:13
Alignment explanation
Indices: 39503327--39503352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39503317 CGTGTTTCCA
39503327 AAAACCATTTGTT
1 AAAACCATTTGTT
39503340 AAAACCATTTGTT
1 AAAACCATTTGTT
39503353 TGCTTAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:39505273 original size:22 final size:22
Alignment explanation
Indices: 39505248--39505293 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
39505238 GAGCAATTGT
* *
39505248 GAGAATTGGAGGAAGCCACCAC
1 GAGAATGGGAGGAAGCCAACAC
39505270 GAGAATGGGAGGAAGCCAACAC
1 GAGAATGGGAGGAAGCCAACAC
39505292 GA
1 GA
39505294 TCAGTCTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.35, T:0.07
Consensus pattern (22 bp):
GAGAATGGGAGGAAGCCAACAC
Found at i:39506845 original size:136 final size:136
Alignment explanation
Indices: 39506673--39506957 Score: 473
Period size: 136 Copynumber: 2.1 Consensus size: 136
39506663 TATTGGGCCT
** * **
39506673 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAG-CCATTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCATTTCAGA-TACAATAAACCGGAACTT
*
39506737 AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAAATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
39506802 CATATGC
130 CATATGC
* *
39506809 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATACAATAAACCGGAACTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCATTTCAGATACAATAAACCGGAACTTA
*
39506874 GCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAAATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAAC
39506939 ATATGC
131 ATATGC
39506945 AAGCCCATTTGGG
1 AAGCCCATTTGGG
39506958 GAGACTACTC
Statistics
Matches: 139, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
136 130 0.94
137 9 0.06
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCATTTCAGATACAATAAACCGGAACTTA
GCCCCTTATTCAAATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:39508772 original size:26 final size:26
Alignment explanation
Indices: 39508742--39508823 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
39508732 TGAAATGCCC
39508742 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
39508768 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
39508794 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
39508820 ATCA
1 ATCA
39508824 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:39514686 original size:3 final size:3
Alignment explanation
Indices: 39514678--39514750 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
39514668 AAATAGATAT
* * *
39514678 TTA TTA TTA TAA TTA TTAA TTA TTA TTG TT- TATA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* *
39514724 TTA TAA TTA TTA TAA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
39514751 GGAATAAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
2 3 0.05
3 50 0.88
4 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:39514694 original size:9 final size:9
Alignment explanation
Indices: 39514680--39514750 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
39514670 ATAGATATTT
39514680 ATTATTATA
1 ATTATTATA
39514689 ATTA-T-TA
1 ATTATTATA
39514696 ATTATTAT-
1 ATTATTATA
39514704 -TGT-TTAT-
1 AT-TATTATA
39514711 ATTATTATA
1 ATTATTATA
39514720 ATTATTATA
1 ATTATTATA
39514729 ATTATTATA
1 ATTATTATA
39514738 ATTATTAT-
1 ATTATTATA
39514746 ATTAT
1 ATTAT
39514751 GGAATAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
7 12 0.21
8 13 0.23
9 31 0.55
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (9 bp):
ATTATTATA
Found at i:39514732 original size:18 final size:17
Alignment explanation
Indices: 39514675--39514750 Score: 99
Period size: 18 Copynumber: 4.6 Consensus size: 17
39514665 ATTAAATAGA
39514675 TATT-TATTATTATAAT
1 TATTATATTATTATAAT
39514691 TATTA-ATTATTAT--T
1 TATTATATTATTATAAT
39514705 GT-TTATATTATTATAAT
1 -TATTATATTATTATAAT
39514722 TATTATAATTATTATAAT
1 TATTAT-ATTATTATAAT
39514740 TATTATATTAT
1 TATTATATTAT
39514751 GGAATAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.08
15 9 0.17
16 13 0.25
17 10 0.19
18 17 0.32
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (17 bp):
TATTATATTATTATAAT
Found at i:39515508 original size:17 final size:18
Alignment explanation
Indices: 39515475--39515509 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
39515465 AAGTAGAAAT
*
39515475 GAAAAGTGAATTGAGTTA
1 GAAAAGTGAAATGAGTTA
39515493 GAAAAGT-AAATGAGTTA
1 GAAAAGTGAAATGAGTTA
39515510 ATTAGGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
GAAAAGTGAAATGAGTTA
Found at i:39516016 original size:21 final size:22
Alignment explanation
Indices: 39515990--39516053 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
39515980 AGCTTCGTCA
39515990 TCAGGCACTATATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
* **
39516012 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTCGTAT
* * *
39516032 TCAGACATTTTATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
39516054 ACTGCTTATG
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (22 bp):
TCAGGCACTATATGTGTCGTAT
Found at i:39517716 original size:21 final size:21
Alignment explanation
Indices: 39517691--39517743 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
39517681 AGCGATGGCT
*
39517691 GTGAGATTAGTTACTGTAGCG
1 GTGAGATTAGATACTGTAGCG
*
39517712 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCG
39517733 GTGAGATTAGA
1 GTGAGATTAGA
39517744 AACAATGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.08, G:0.36, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCG
Found at i:39521288 original size:22 final size:23
Alignment explanation
Indices: 39521219--39521435 Score: 66
Period size: 22 Copynumber: 9.4 Consensus size: 23
39521209 AATATATATG
*
39521219 GTGAT-AAGGCCGAATGGCCAAT
1 GTGATGAATGCCGAATGGCCAAT
* * * *
39521241 GTGATGAATG-TGAACATTG-TATT
1 GTGATGAATGCCG-A-ATGGCCAAT
39521264 GTGAT-AATGCCGAATGGCCAAT
1 GTGATGAATGCCGAATGGCCAAT
* * *
39521286 GTGATGAATG-TGAACATGTG-TATGT
1 GTGATGAATGCCG-A-ATG-GCCA-AT
*
39521311 GTGAT-AAGGCCGAATGGCCAAT
1 GTGATGAATGCCGAATGGCCAAT
* *
39521333 GTGATGAATG-TGAAATGTG--TAT
1 GTGATGAATGCCG-AATG-GCCAAT
*
39521355 GTG-TGATAAGCCCGAATGGCCAAT
1 GTGATGA-ATG-CCGAATGGCCAAT
* *
39521379 GTGATGAATG-TGAACAT-GCATATAT
1 GTGATGAATGCCG-A-ATGGC-CA-AT
* *
39521404 GAGAT-AAGGCCGAATGGCCAAT
1 GTGATGAATGCCGAATGGCCAAT
39521426 GTGATGAATG
1 GTGATGAATG
39521436 TGAAAGTGTA
Statistics
Matches: 136, Mismatches: 31, Indels: 55
0.61 0.14 0.25
Matches are distributed among these distances:
21 6 0.04
22 42 0.31
23 41 0.30
24 29 0.21
25 18 0.13
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (23 bp):
GTGATGAATGCCGAATGGCCAAT
Found at i:39521310 original size:23 final size:23
Alignment explanation
Indices: 39521239--39521311 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
39521229 CGAATGGCCA
39521239 ATGTGATGAATGTGAACAT-TGT
1 ATGTGATGAATGTGAACATGTGT
* *
39521261 ATTGTGAT-AATGCCG-A-ATG-GCCA
1 A-TGTGATGAATG-TGAACATGTG--T
39521284 ATGTGATGAATGTGAACATGTGT
1 ATGTGATGAATGTGAACATGTGT
39521307 ATGTG
1 ATGTG
39521312 TGATAAGGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 17
0.64 0.07 0.29
Matches are distributed among these distances:
21 3 0.08
22 13 0.34
23 18 0.47
24 3 0.08
25 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.29, T:0.33
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGTGT
Found at i:39521410 original size:93 final size:91
Alignment explanation
Indices: 39521212--39521484 Score: 404
Period size: 93 Copynumber: 2.9 Consensus size: 91
39521202 ATAATGAAAT
39521212 ATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT-TGTATTGTGATAATGCCG
1 ATATAT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-ATGTGTATTGTGATAA-GCCG
*
39521276 AATGGCCAATGTGATGAATGTGAACATGT
63 AATGGCCAATGTGATGAATGTGAACATGC
* *
39521305 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTGTATGTGTGATAAGCCCGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTGTAT-TGTGATAAG-CCGA
39521370 ATGGCCAATGTGATGAATGTGAACATGC
64 ATGGCCAATGTGATGAATGTGAACATGC
* * *
39521398 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA-TGTGTAT-TGTGATAA-GCCG
*
39521463 AATGGCCAATGTGATGGATGTG
63 AATGGCCAATGTGATGAATGTG
39521485 GAAGTGTATA
Statistics
Matches: 165, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
91 2 0.01
92 42 0.25
93 83 0.50
94 37 0.22
95 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (91 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTGTATTGTGATAAGCCGAAT
GGCCAATGTGATGAATGTGAACATGC
Found at i:39521469 original size:140 final size:138
Alignment explanation
Indices: 39521206--39521511 Score: 422
Period size: 140 Copynumber: 2.2 Consensus size: 138
39521196 CATGTGATAA
* * * *
39521206 TGAAATATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATTGTATTGTGATA
1 TGAAATGTGTATGTGTGATAAGCCCGAATGGCCAATGTGATGAATGTGAACATTGTATTGAGATA
* * * *
39521270 ATGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGT
66 AGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGACAAGGCCGAATGGCCAATGT
39521335 GATGAATG
131 GATGAATG
39521343 TGAAATGTGTATGTGTGATAAGCCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATATGAG
1 TGAAATGTGTATGTGTGATAAGCCCGAATGGCCAATGTGATGAATGTGAACATTG--TAT-TGAG
39521407 ATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGACAAGGCCGAATGGCCA
63 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATATATGTGACAAGGCCGAATGGCCA
*
39521471 ATGTGATGGATG
127 ATGTGATGAATG
* *
39521483 TGGAA-GTGTATAAATGTGATAAGTCCCGA
1 TGAAATGTGTAT--GTGTGATAAG-CCCGA
39521512 GGGGCAATTG
Statistics
Matches: 150, Mismatches: 11, Indels: 11
0.87 0.06 0.06
Matches are distributed among these distances:
137 13 0.09
138 37 0.25
139 10 0.07
140 76 0.51
141 9 0.06
142 5 0.03
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (138 bp):
TGAAATGTGTATGTGTGATAAGCCCGAATGGCCAATGTGATGAATGTGAACATTGTATTGAGATA
AGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGACAAGGCCGAATGGCCAATGT
GATGAATG
Found at i:39521490 original size:47 final size:47
Alignment explanation
Indices: 39521211--39521505 Score: 411
Period size: 47 Copynumber: 6.3 Consensus size: 47
39521201 GATAATGAAA
39521211 TATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT-
1 TATATAT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
39521258 TGTAT-TGTGATAATGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
39521304 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-ATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
39521350 TGTATGTGTGATAAGCCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
39521397 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* * *
39521444 TATATATGTGACAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
39521491 TATAAATGTGATAAG
1 TATATATGTGATAAG
39521506 TCCCGAGGGG
Statistics
Matches: 227, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
45 38 0.17
46 52 0.23
47 134 0.59
48 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:39524112 original size:40 final size:40
Alignment explanation
Indices: 39524053--39524292 Score: 331
Period size: 40 Copynumber: 6.0 Consensus size: 40
39524043 AGGTCTCGAC
39524053 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
39524092 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
39524132 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
39524172 GATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * ** *
39524212 GATATATCCGTGCTAA-CCCCGAAGAGCATTTGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * *
39524251 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
39524291 GA
1 GA
39524293 CATGTATTCG
Statistics
Matches: 176, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
39 35 0.20
40 141 0.80
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:39527580 original size:47 final size:47
Alignment explanation
Indices: 39527523--39527826 Score: 425
Period size: 47 Copynumber: 6.4 Consensus size: 47
39527513 ATTGATGTAC
* * *
39527523 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
39527570 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
39527619 ACA-TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
39527666 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
39527713 ACA-TGCATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
39527760 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
39527807 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
39527827 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 194 0.82
49 41 0.17
50 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:39530155 original size:14 final size:15
Alignment explanation
Indices: 39530125--39530158 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
39530115 TAGTCTAAAC
39530125 TTATACTTATATATA
1 TTATACTTATATATA
*
39530140 TTATAGTTAT-TATA
1 TTATACTTATATATA
39530154 TTATA
1 TTATA
39530159 AATATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (15 bp):
TTATACTTATATATA
Found at i:39530233 original size:25 final size:24
Alignment explanation
Indices: 39530178--39530234 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
39530168 TCTTTTACAC
*
39530178 ATTTGATA-TTTTATATACCAATAT
1 ATTTTATATTTTTATATA-CAATAT
39530202 ATTTTATATTTTTATATA-AATATT
1 ATTTTATATTTTTATATACAATA-T
39530226 ATTCTTATA
1 ATT-TTATA
39530235 AATATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.14
24 11 0.38
25 14 0.48
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTATATTTTTATATACAATAT
Found at i:39530248 original size:15 final size:15
Alignment explanation
Indices: 39530206--39530248 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
39530196 CAATATATTT
39530206 TATATTTTTATATAAA
1 TATATTTTT-TATAAA
*
39530222 TAT-TATTCTTATAAA
1 TATAT-TTTTTATAAA
39530237 TATATTTTTTAT
1 TATATTTTTTAT
39530249 TATATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTTTTTATAAA
Found at i:39535842 original size:24 final size:24
Alignment explanation
Indices: 39535806--39535879 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
39535796 GGGTCAACAT
* *
39535806 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCAGATTTGAA
* *
39535830 TGGCACTATGTGTGCAAAATTGAA
1 TGGCACTATGTGTGCAGATTTGAA
*
39535854 TGGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCAGATTTGAA
39535878 TG
1 TG
39535880 TCAATACATG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCAGATTTGAA
Found at i:39549203 original size:40 final size:40
Alignment explanation
Indices: 39549166--39549349 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
39549156 GCTACTCGTT
* *
39549166 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
39549206 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTATAGTAACTCGCA
* *
39549246 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * * *
39549285 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
39549326 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
39549350 ACATCATTCG
Statistics
Matches: 119, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 73 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:39549310 original size:79 final size:81
Alignment explanation
Indices: 39549168--39549350 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
39549158 TACTCGTTCA
* * *
39549168 AATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAA
* *
39549232 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
39549248 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGA
* *
39549310 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
39549327 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39549351 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAA
TATAGTAACTTAGCAC
Found at i:39554033 original size:43 final size:42
Alignment explanation
Indices: 39553867--39554034 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 42
39553857 ATATAGCTCG
* * * * *
39553867 TACAATGCCATATCCCAGATATGGTCTTACATGTTATCA-CA
1 TACAATGCCATGTCCCAGACATGGTCTTACACGTAATCATAA
* * * * * *
39553908 TATCGATGCCACTGTCCTAGACAGGGTCTTACACGAAATCGGTTA
1 TA-CAATGCCA-TGTCCCAGACATGGTCTTACACGTAATC-ATAA
* * * * *
39553953 -ACGATGCTAATGTTCTAGACATGGTCTTACACATAATCATAA
1 TACAATGC-CATGTCCCAGACATGGTCTTACACGTAATCATAA
*
39553995 TACAATGCCGATGTCCCAGACATGGTCTTACATGTAATCA
1 TACAATGCC-ATGTCCCAGACATGGTCTTACACGTAATCA
39554035 CATCTCGATA
Statistics
Matches: 97, Mismatches: 23, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 83 0.86
44 2 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
TACAATGCCATGTCCCAGACATGGTCTTACACGTAATCATAA
Found at i:39564632 original size:20 final size:21
Alignment explanation
Indices: 39564607--39564646 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39564597 TGGTCTCTAA
*
39564607 GCCCATTG-GGCCCAATTTTG
1 GCCCATCGAGGCCCAATTTTG
*
39564627 GCCCATCGAGGCCCTATTTT
1 GCCCATCGAGGCCCAATTTT
39564647 TCTGAAGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.30
Consensus pattern (21 bp):
GCCCATCGAGGCCCAATTTTG
Found at i:39568880 original size:25 final size:25
Alignment explanation
Indices: 39568846--39568903 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
39568836 TCGTGTACAT
*
39568846 GTATGCTCATACGAGTTATGAATTG
1 GTATGCTCATACGAGTTATGAATTA
*
39568871 GTATGCTCATATGAGTTATGAATTA
1 GTATGCTCATACGAGTTATGAATTA
39568896 GTATGCTC
1 GTATGCTC
39568904 TCATAAGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (25 bp):
GTATGCTCATACGAGTTATGAATTA
Found at i:39568929 original size:50 final size:49
Alignment explanation
Indices: 39568870--39568987 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 49
39568860 GTTATGAATT
* * * **
39568870 GGTATGCTCATATGAGTTATGAATTAGTATGCTCTCATAAGCTGTAAATC
1 GGTAAGCTCATATGAGTTA-GAATCAGTAAGCTCTCATAAGCTACAAATC
* * *
39568920 GGTAAGCTCATATGAGCTGAGAATCGGTAAGCTCTCATGAGCTACAAATC
1 GGTAAGCTCATATGAG-TTAGAATCAGTAAGCTCTCATAAGCTACAAATC
* *
39568970 GGTAAGCTTATACGAGTT
1 GGTAAGCTCATATGAGTT
39568988 GTGGTGTGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 1 0.02
50 53 0.95
51 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (49 bp):
GGTAAGCTCATATGAGTTAGAATCAGTAAGCTCTCATAAGCTACAAATC
Found at i:39568937 original size:25 final size:24
Alignment explanation
Indices: 39568900--39568977 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 24
39568890 GAATTAGTAT
*
39568900 GCTCTCATAAGCTGTAAATCGGTAA
1 GCTCTCATGAGCTG-AAATCGGTAA
39568925 GCTCAT-ATGAGCTGAGAATCGGTAA
1 GCTC-TCATGAGCTGA-AATCGGTAA
*
39568950 GCTCTCATGAGCTACAAATCGGTAA
1 GCTCTCATGAGCT-GAAATCGGTAA
39568975 GCT
1 GCT
39568978 TATACGAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.04
25 43 0.91
26 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
GCTCTCATGAGCTGAAATCGGTAA
Found at i:39577672 original size:50 final size:50
Alignment explanation
Indices: 39577578--39577688 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
39577568 GTACATGTAT
* * * * * * *
39577578 GCTCATACGAGCTATGAATTAGTATGCTCTCATGAACTATAAATCGGTAA
1 GCTCATACGAGATAAGAATCAGTAAGCTCTCACGAACTACAAATCAGTAA
* *
39577628 GCTCATACGAGATAAGAATCAGTAAGCTTTCACGAGCTACAAATCAGTAA
1 GCTCATACGAGATAAGAATCAGTAAGCTCTCACGAACTACAAATCAGTAA
*
39577678 GCTCAAACGAG
1 GCTCATACGAG
39577689 CTATGGTGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (50 bp):
GCTCATACGAGATAAGAATCAGTAAGCTCTCACGAACTACAAATCAGTAA
Found at i:39577687 original size:25 final size:24
Alignment explanation
Indices: 39577618--39577691 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
39577608 CATGAACTAT
* * *
39577618 AAATCGGTAAGCTCATACGAGATA
1 AAATCAGTAAGCTCAAACGAGCTA
***
39577642 AGAATCAGTAAGCTTTCACGAGCTA
1 A-AATCAGTAAGCTCAAACGAGCTA
39577667 CAAATCAGTAAGCTCAAACGAGCTA
1 -AAATCAGTAAGCTCAAACGAGCTA
39577692 TGGTGTGTCC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
AAATCAGTAAGCTCAAACGAGCTA
Found at i:39578091 original size:6 final size:6
Alignment explanation
Indices: 39578077--39578108 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
39578067 CTAAATTCCT
*
39578077 AAATTA AAATAA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AA
39578109 GAGGCCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AAATTA
Found at i:39585200 original size:29 final size:29
Alignment explanation
Indices: 39585159--39585241 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
39585149 TGGCCCATCT
*
39585159 CATTCATACGGCCCATTAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
39585188 CATTCATATGGCCCATTAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
* *
39585217 TATTCATATGGCCTATTAGGCCCAA
1 CATTCATATGGCCCATTAGGCCCAA
39585242 ATCATCTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAATTCA
Found at i:39585254 original size:29 final size:29
Alignment explanation
Indices: 39585161--39585254 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 29
39585151 GCCCATCTCA
*
39585161 TTCATACGGCCCATTAGGCCCAATTCA-C
1 TTCATATGGCCCATTAGGCCCAATTCATC
*
39585189 ATTCATATGGCCCATTAGGCCCAATTCATA
1 -TTCATATGGCCCATTAGGCCCAATTCATC
* *
39585219 TTCATATGGCCTATTAGGCCCAAATCATC
1 TTCATATGGCCCATTAGGCCCAATTCATC
*
39585248 TTTATAT
1 TTCATAT
39585255 TCATACTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (29 bp):
TTCATATGGCCCATTAGGCCCAATTCATC
Found at i:39585587 original size:24 final size:24
Alignment explanation
Indices: 39585557--39585604 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
39585547 GCAATTTCCT
*
39585557 TAGCCAAAACCTGCAATCGATATC
1 TAGCCAAAACCTACAATCGATATC
39585581 TAGCCAAAACCTACAATCGATATC
1 TAGCCAAAACCTACAATCGATATC
39585605 ACATAAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (24 bp):
TAGCCAAAACCTACAATCGATATC
Found at i:39589692 original size:29 final size:29
Alignment explanation
Indices: 39589643--39589712 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
39589633 TGGCCCATCT
39589643 CATTCATAT-GCCCATCAAGCCCAATTCA
1 CATTCATATGGCCCATCAAGCCCAATTCA
* *
39589671 TATTCATATGGCTCATCAAGCCCAATTCA
1 CATTCATATGGCCCATCAAGCCCAATTCA
39589700 CATTCATATGGCC
1 CATTCATATGGCC
39589713 TATTAGGCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 8 0.22
29 29 0.78
ACGTcount: A:0.30, C:0.31, G:0.10, T:0.29
Consensus pattern (29 bp):
CATTCATATGGCCCATCAAGCCCAATTCA
Found at i:39589722 original size:29 final size:29
Alignment explanation
Indices: 39589643--39589729 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
39589633 TGGCCCATCT
*
39589643 CATTCATAT-GCCCATCAAGCCCAATTCA
1 CATTCATATGGCCTATCAAGCCCAATTCA
*
39589671 TATTCATATGG-CTCATCAAGCCCAATTCA
1 CATTCATATGGCCT-ATCAAGCCCAATTCA
* * *
39589700 CATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCTATCAAGCCCAATTCA
39589729 C
1 C
39589730 CTTTATATTC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
28 9 0.18
29 39 0.78
30 2 0.04
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCTATCAAGCCCAATTCA
Found at i:39589839 original size:19 final size:18
Alignment explanation
Indices: 39589806--39589842 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
39589796 TGGGCCCAAC
39589806 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
39589824 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
39589843 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:39589851 original size:19 final size:19
Alignment explanation
Indices: 39589815--39589851 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39589805 CAGCCCATCA
*
39589815 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
39589834 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
39589852 TCAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:39589976 original size:24 final size:24
Alignment explanation
Indices: 39589955--39590000 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
39589945 TAACTTTCGT
**
39589955 CTTTTCGGTATTTCAGCTTTTCAG
1 CTTTTCGACATTTCAGCTTTTCAG
39589979 CTTTTCGACATTTCAGCTTTTC
1 CTTTTCGACATTTCAGCTTTTC
39590001 TCGATTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.24, G:0.13, T:0.50
Consensus pattern (24 bp):
CTTTTCGACATTTCAGCTTTTCAG
Found at i:39597568 original size:25 final size:26
Alignment explanation
Indices: 39597535--39597588 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
39597525 GAGTTTCGAA
* *
39597535 TTCTTTTTTCTCTTCTCC-TCTCTTC
1 TTCTATTTTATCTTCTCCTTCTCTTC
* *
39597560 TTCTATTTTATTTTCTCCTTCTTTTC
1 TTCTATTTTATCTTCTCCTTCTCTTC
39597586 TTC
1 TTC
39597589 CCTGGTCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (26 bp):
TTCTATTTTATCTTCTCCTTCTCTTC
Found at i:39600141 original size:16 final size:16
Alignment explanation
Indices: 39600116--39600146 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39600106 AAGTTCGAGA
39600116 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
39600132 TTTCGGGATTTTTGG
1 TTTCGAGATTTTTGG
39600147 AGTGTTACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.32, T:0.52
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:39604945 original size:48 final size:48
Alignment explanation
Indices: 39604885--39605115 Score: 224
Period size: 48 Copynumber: 4.9 Consensus size: 48
39604875 TAGGGTTATG
* * *
39604885 TGTGATCCCATGTAAGACCATGTTTGGGACATGGAATTGACATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATA
* * *
39604933 TGAT-ATCCCATGTAAGACCATGTTTTGGACATGGCATTGGCATCGATA
1 TG-TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATA
* * * * *
39604981 TGTCATTCCGTGTAAGACCATAG-CTGGG-C-T---ATCGACATCGAAA
1 TGTGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGACATCGATA
* * * *
39605024 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGTTT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATA
* * * *
39605072 TGTGATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATC
39605116 TTACTATGTG
Statistics
Matches: 150, Mismatches: 24, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 33 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 109 0.73
49 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATA
Found at i:39607510 original size:27 final size:27
Alignment explanation
Indices: 39607480--39607567 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
39607470 CAACTTGTAA
39607480 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCGATTTACAG
****
39607507 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
**** *
39607534 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTACAG
39607561 AATTACC
1 AATTACC
39607568 GTTTTACCCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:39607568 original size:27 final size:27
Alignment explanation
Indices: 39607497--39607690 Score: 246
Period size: 27 Copynumber: 7.2 Consensus size: 27
39607487 AAAGTACTCC
39607497 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
39607524 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
39607551 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
39607578 TGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
39607605 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
39607632 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
39607659 CGATTCATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
39607686 TGATT
1 CGATT
39607691 GTGAAATTAC
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:39607725 original size:27 final size:27
Alignment explanation
Indices: 39607695--39607889 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
39607685 TTGATTGTGA
*
39607695 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
39607722 AATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
39607749 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
39607776 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
39607803 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
39607830 AAATACCGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
39607857 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
39607884 AATTAC
1 AATTAC
39607890 CATTTTGCCC
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:39607763 original size:54 final size:54
Alignment explanation
Indices: 39607695--39607890 Score: 241
Period size: 54 Copynumber: 3.6 Consensus size: 54
39607685 TTGATTGTGA
* * *** *
39607695 AATTACTAAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
39607749 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
39607803 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAA
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
39607857 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
39607891 ATTTTGCCCC
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.99
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:39607797 original size:81 final size:81
Alignment explanation
Indices: 39607694--39607888 Score: 246
Period size: 81 Copynumber: 2.4 Consensus size: 81
39607684 CTTGATTGTG
* * * * *
39607694 AAATTACTAAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTAGAATTACTGAA
1 AAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAA
*
39607759 ATACCCTTATAGGATA
66 ATACCCCTATAGGATA
* * *
39607775 GAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAA
1 AAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAA
* *
39607840 ATACCCCTGTAGGGTA
66 ATACCCCTATAGGATA
* * * * *
39607856 AAATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AAATTACCAAAATACCCCTGTAGGGTAGAATTA
39607889 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAA
ATACCCCTATAGGATA
Found at i:39608132 original size:27 final size:26
Alignment explanation
Indices: 39608089--39608167 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 26
39608079 CGGAGGAAGC
*
39608089 GTTCTGGTGACTATGCCACAAATATCT
1 GTTCTGGTGACTCTGCCAC-AATATCT
*
39608116 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGACTCTGCCACAATATCT
* *
39608142 GTATTTGGTGACTCTGTCACAATATC
1 GT-TCTGGTGACTCTGCCACAATATC
39608168 CGTTGACCGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 9 0.20
27 37 0.80
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGACTCTGCCACAATATCT
Found at i:39608536 original size:27 final size:27
Alignment explanation
Indices: 39608482--39608555 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
39608472 TAGGTGGGTT
* * *
39608482 TGCCACATTATCTG-ATTCTAGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
39608509 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
* *
39608536 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
39608556 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:39608686 original size:6 final size:6
Alignment explanation
Indices: 39608677--39608853 Score: 170
Period size: 6 Copynumber: 29.2 Consensus size: 6
39608667 ATTCACATTA
*
39608677 TGATTC TGATTC T-ATTAC GTAATTC TGATTC TGATTC TGATTC T-ATTAC
1 TGATTC TGATTC TGATT-C -TGATTC TGATTC TGATTC TGATTC TGATT-C
* * *
39608726 TAATAC TGATTC TGATTC TGATTC TG-TTAC TGATTC TGATTC TG-TCACC
1 TGATTC TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC TGAT--TC
* *
39608775 TAATTC TGATTC TGATTC TGATTC TG-TTAC TAATAT- TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT-C TGAT-TC TGATTC TGATTC
39608823 TGATTC TG-TTAC TGATTC TGATTC TGATTC T
1 TGATTC TGATT-C TGATTC TGATTC TGATTC T
39608854 CATTTTGGTT
Statistics
Matches: 145, Mismatches: 10, Indels: 32
0.78 0.05 0.17
Matches are distributed among these distances:
5 14 0.10
6 115 0.79
7 11 0.08
8 5 0.03
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:39608807 original size:79 final size:79
Alignment explanation
Indices: 39608677--39608848 Score: 299
Period size: 79 Copynumber: 2.2 Consensus size: 79
39608667 ATTCACATTA
* * *
39608677 TGATTCTGATTCTATTACGTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTGAT
1 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTGAT
39608742 TCTGATTCTGTTAC
66 TCTGATTCTGTTAC
* *
39608756 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGAT
1 TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTGAT
39608821 TCTGATTCTGTTAC
66 TCTGATTCTGTTAC
39608835 TGATTCTGATTCTG
1 TGATTCTGATTCTG
39608849 ATTCTCATTT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 88 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (79 bp):
TGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTGAT
TCTGATTCTGTTAC
Found at i:39613302 original size:30 final size:30
Alignment explanation
Indices: 39613246--39613302 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
39613236 GTTTTGAAAA
* * *
39613246 TATTTACAAAATGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAATTTTTAT
39613276 TATTTACAAAAAGA-GCAACCATATTTT
1 TATTTACAAAAAGAGGCAACCA-ATTTT
39613303 AAAAATACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAATTTTTAT
Found at i:39616818 original size:42 final size:42
Alignment explanation
Indices: 39616730--39617026 Score: 303
Period size: 43 Copynumber: 7.0 Consensus size: 42
39616720 GGCGTTTTTT
* * * **
39616730 AAGACCAAGATCTTTAGCGGCGTTTTTTATAAAAGTGCCGCTA
1 AAGACCAGGACCTTTAGCGGCG-CTTTTATAAAAACGCCGCTA
* * *
39616773 AAGACCAAGACCTTTAGCGGCGCTCTTATAAAAACGCCGCCA
1 AAGACCAGGACCTTTAGCGGCGCTTTTATAAAAACGCCGCTA
* * *
39616815 AAGACCAGGACCTTTAGCAGCGCTTTTTTAAAAAAAGCCGCTA
1 AAGACCAGGACCTTTAGCGGCGCTTTTAT-AAAAACGCCGCTA
* *
39616858 GAA-ACCAGGACCTTTAGCGGCGCTTTTA-AAAAATGCCGCTG
1 -AAGACCAGGACCTTTAGCGGCGCTTTTATAAAAACGCCGCTA
* * * * *
39616899 TAGACCTGTACTTTTAGCGGCGCTTTTATAAAAACGCAGCTA
1 AAGACCAGGACCTTTAGCGGCGCTTTTATAAAAACGCCGCTA
*
39616941 AAGACC-GGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTA
1 AAGACCAGGACCTTTAGCGGCGCTTTTAT-AAAAACGCCGCTA
* * * * * *
39616983 TAGACCTGTACTTTTAGCGGTGCTTTTTTAAAAAACGCCGCTA
1 AAGACCAGGACCTTTAGCGGCGCTTTTAT-AAAAACGCCGCTA
39617026 A
1 A
39617027 TTTGCCCAGT
Statistics
Matches: 215, Mismatches: 33, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
40 1 0.00
41 52 0.24
42 72 0.33
43 88 0.41
44 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
AAGACCAGGACCTTTAGCGGCGCTTTTATAAAAACGCCGCTA
Found at i:39616922 original size:84 final size:84
Alignment explanation
Indices: 39616742--39617026 Score: 353
Period size: 84 Copynumber: 3.4 Consensus size: 84
39616732 GACCAAGATC
** * *
39616742 TTTAGCGGCG-TTTTTTATAAAAGTGCCGCTAAAGACCAAGACCTTTAGCGGCGCTCTTATAAAA
1 TTTAGCGGCGCTTTTTTA-AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTA-AAAA
* * * * *
39616806 ACGCCGCCAAAGACCAGGACC
64 ACGCCGCTATAGACCTGTACT
* *
39616827 TTTAGCAGCGCTTTTTTAAAAAAAGCCGCTAGAA-ACCAGGACCTTTAGCGGCGCTTTTAAAAAA
1 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTA-AAGACCAGGACCTTTAGCGGCGCTTTTAAAAAA
* *
39616891 TGCCGCTGTAGACCTGTACT
65 CGCCGCTATAGACCTGTACT
* *
39616911 TTTAGCGGCGCTTTTAT-AAAAACGCAGCTAAAGACC-GGACCTTTAGCGGCGCTTTTTTAAAAA
1 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC--TTTTAAAAA
39616974 ACGCCGCTATAGACCTGTACT
64 ACGCCGCTATAGACCTGTACT
*
39616995 TTTAGCGGTGCTTTTTTAAAAAACGCCGCTAA
1 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
39617027 TTTGCCCAGT
Statistics
Matches: 173, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
82 18 0.10
83 14 0.08
84 76 0.44
85 56 0.32
86 9 0.05
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (84 bp):
TTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAAAAAAC
GCCGCTATAGACCTGTACT
Found at i:39617354 original size:21 final size:21
Alignment explanation
Indices: 39617328--39617368 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
39617318 TGTTCTGGTC
*
39617328 CGCCTCCCTTGCTGCTGCCTT
1 CGCCTCCCTCGCTGCTGCCTT
39617349 CGCCTCCCTCGCTGCTGCCT
1 CGCCTCCCTCGCTGCTGCCT
39617369 CCGCTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.51, G:0.20, T:0.29
Consensus pattern (21 bp):
CGCCTCCCTCGCTGCTGCCTT
Found at i:39617959 original size:18 final size:18
Alignment explanation
Indices: 39617927--39617964 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
39617917 TACAATATAG
39617927 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
39617946 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
39617963 TA
1 TA
39617965 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:39626954 original size:7 final size:7
Alignment explanation
Indices: 39626942--39626972 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
39626932 AGACATTTAA
39626942 AAATATT
1 AAATATT
39626949 AAATATT
1 AAATATT
39626956 AAATATT
1 AAATATT
39626963 AAATATT
1 AAATATT
39626970 AAA
1 AAA
39626973 ATCAATTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:39628226 original size:23 final size:23
Alignment explanation
Indices: 39628199--39628245 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
39628189 CAGCAATTTG
39628199 GTATAACATTAACAGGAGAAATA
1 GTATAACATTAACAGGAGAAATA
*
39628222 GTATACCATTAACAGGAGAAATA
1 GTATAACATTAACAGGAGAAATA
39628245 G
1 G
39628246 GACCAAGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (23 bp):
GTATAACATTAACAGGAGAAATA
Found at i:39631223 original size:25 final size:25
Alignment explanation
Indices: 39631189--39631236 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
39631179 TAGCTAATAA
39631189 TTCAACAAATGCTAATTCCACATAG
1 TTCAACAAATGCTAATTCCACATAG
39631214 TTCAACAAATGCTAATTCCACAT
1 TTCAACAAATGCTAATTCCACAT
39631237 TCAAAATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (25 bp):
TTCAACAAATGCTAATTCCACATAG
Found at i:39631706 original size:41 final size:41
Alignment explanation
Indices: 39631649--39631828 Score: 281
Period size: 41 Copynumber: 4.4 Consensus size: 41
39631639 GTTCTATGAC
*
39631649 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGT
* *
39631690 TTTTAGCGGCGTTTTACCGAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGT
* *
39631731 TTTTAGCGGCGTTTTATCGAAAGCGCTGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGT
*
39631772 TTTTAGCGACGTTTTACCCG-AAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTA-CCGAAAGCGCCGCTAATGATCTGGT
*
39631813 TTTTAGCGGCATTTTA
1 TTTTAGCGGCGTTTTA
39631829 AGAAAAACGC
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 128 0.98
42 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGT
Found at i:39631899 original size:12 final size:12
Alignment explanation
Indices: 39631882--39631906 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39631872 GTTTGTTGAT
39631882 AAAACGCCGCTA
1 AAAACGCCGCTA
39631894 AAAACGCCGCTA
1 AAAACGCCGCTA
39631906 A
1 A
39631907 CGCCCTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:39637014 original size:51 final size:49
Alignment explanation
Indices: 39636877--39637319 Score: 427
Period size: 51 Copynumber: 8.8 Consensus size: 49
39636867 ATAACCAAAG
* * *
39636877 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAAACGTGACCTAA
1 CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-TTAA
* * * * * *
39636927 CCATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACGTGATTGAA
1 CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATT-AA
* *
39636977 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 -CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGAT-TAA
* * * **
39637028 GTTATCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
1 -CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATTAA
* * * *
39637078 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-TTAA
* *** ***
39637128 CCATCTAATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCTAA
1 CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGAT-TAA
* * * *
39637178 GTTATCGGGTATGCATAGTAGCCTGCAGTTAGTACTACACACGTGACCTAA
1 -CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-TTAA
* * * * * * *
39637229 CCATCTGATACACATAGTATCCTGCACTTAGTACTATACACGTGATCGAA
1 CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGAT-TAA
* *
39637279 GTTATCGGGTACGCATAGTAGCCTGCACTTAATACTACACA
1 -CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
39637320 TGCGACCTCA
Statistics
Matches: 322, Mismatches: 62, Indels: 17
0.80 0.15 0.04
Matches are distributed among these distances:
49 40 0.12
50 127 0.39
51 155 0.48
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
CTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATTAA
Found at i:39637327 original size:101 final size:101
Alignment explanation
Indices: 39636878--39637319 Score: 609
Period size: 101 Copynumber: 4.4 Consensus size: 101
39636868 TAACCAAAGC
* * *
39636878 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCATCTGATACACGTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATA
* *
39636943 GTAGCTTGCACTTAGTACTACACACGTGATTGAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * ** * * **
39636979 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTATGCAT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACAT
* * *
39637044 AGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-C
65 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * * * **
39637079 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACATGTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATA
*
39637144 GTAGCCTGCACTTAGTACTACACACGTGATCTAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* *
39637180 TATCGGGTATGCATAGTAGCCTGCAGTTAGTACTACACACGTGACCTAACCATCTGATACACATA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATA
* *
39637245 GTATCCTGCACTTAGTACTATACACGTGATCGAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
*
39637281 TATCGGGTACGCATAGTAGCCTGCACTTAATACTACACA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
39637320 TGCGACCTCA
Statistics
Matches: 291, Mismatches: 47, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
99 35 0.12
100 47 0.16
101 173 0.59
102 36 0.12
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATA
GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:39641002 original size:28 final size:28
Alignment explanation
Indices: 39640970--39641034 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
39640960 ATTTACTAGA
* * *
39640970 ATACCCCTATGTATGCCAAATTACCAT-T
1 ATACCCCTATGTATACAAAATGACC-TCT
39640998 ATACCCCTATGTATACAAAATGACCTCT
1 ATACCCCTATGTATACAAAATGACCTCT
39641026 ATACCCCTA
1 ATACCCCTA
39641035 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATACAAAATGACCTCT
Found at i:39641198 original size:27 final size:28
Alignment explanation
Indices: 39641140--39641229 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
39641130 AGGAAGCGTC
*
39641140 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
39641168 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
39641195 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
39641224 CTGGTG
1 CTGGTG
39641230 ACTCTATCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:39641240 original size:29 final size:28
Alignment explanation
Indices: 39641152--39641240 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 28
39641142 GGTGGCTATG
* * * *
39641152 CCACAAATTATCTGTTCTGGTGGCCCTG
1 CCACAAAATATCTGTTCTGGTGACACTA
** * *
39641180 CCAC-GTATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGACACTA
*
39641207 CCACAAAATATCTGTATCTGGTGACTCTA
1 CCACAAAATATCTGT-TCTGGTGACACTA
*
39641236 TCACA
1 CCACA
39641241 TTTTTTGTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 23 0.47
28 12 0.24
29 14 0.29
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGACACTA
Found at i:39644366 original size:27 final size:28
Alignment explanation
Indices: 39644336--39644388 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
39644326 CCCATACTGA
*
39644336 TAAAATGACTGTTATACCC-CTATGAGG
1 TAAAATGACTGATATACCCTCTATGAGG
39644363 TAAAATGACTGATATACCCTCTATGA
1 TAAAATGACTGATATACCCTCTATGA
39644389 TATGTATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (28 bp):
TAAAATGACTGATATACCCTCTATGAGG
Found at i:39644955 original size:13 final size:13
Alignment explanation
Indices: 39644937--39644967 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
39644927 ATCTTTAAGC
39644937 TATTTAATTTGGG
1 TATTTAATTTGGG
39644950 TATTTAATTTGGG
1 TATTTAATTTGGG
39644963 TATTT
1 TATTT
39644968 TCTATGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (13 bp):
TATTTAATTTGGG
Found at i:39657309 original size:41 final size:40
Alignment explanation
Indices: 39657244--39657379 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
39657234 TATTATAATC
* *
39657244 TCGCACACTAAGTGCATGAC--ATAGCCAAAGCTATCTCAGAC
1 TCGCACACTAAGTGC-T-ACATATAGCCGAAGCTATCTC-GAA
* * *
39657285 TCACACACTAAGTGCTACATATAGCCGAAGCTACCCCGAA
1 TCGCACACTAAGTGCTACATATAGCCGAAGCTATCTCGAA
* *
39657325 TCGCACACTAAGTGCT-CTATATAGTCGAAGTTATCTCGAA
1 TCGCACACTAAGTGCTAC-ATATAGCCGAAGCTATCTCGAA
*
39657365 ACGCACACTAAGTGC
1 TCGCACACTAAGTGC
39657380 CAAACACAGT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.04
40 50 0.62
41 28 0.35
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (40 bp):
TCGCACACTAAGTGCTACATATAGCCGAAGCTATCTCGAA
Found at i:39670828 original size:79 final size:80
Alignment explanation
Indices: 39670672--39670896 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
39670662 TTGAATGATG
* * * * * *
39670672 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
39670735 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* * *
39670752 TTCGGACTAAGAT-CCGAAGGCATTTTTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
39670813 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
39670831 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
39670896 G
66 G
39670897 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
78 2 0.02
79 66 0.54
80 45 0.37
81 8 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:39670860 original size:40 final size:40
Alignment explanation
Indices: 39670672--39670896 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
39670662 TTGAATGATG
* * * *
39670672 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
39670712 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
39670752 TTCGGACTAAGAT-CCGAAGGCATTTTTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39670792 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39670831 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39670872 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39670897 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39670888 original size:119 final size:120
Alignment explanation
Indices: 39670672--39670895 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
39670662 TTGAATGATG
*
39670672 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
39670737 GTGCGAGATACTAAATTCGGACTAAGATCCGAAGGCATTTTTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTTTGCGAGATACTAAT
* * * **
39670792 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
39670854 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTT
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTT
39670896 GAACGAGGAG
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 3 0.03
119 67 0.74
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTTTGCGAGATACTAAT
Found at i:39670918 original size:79 final size:79
Alignment explanation
Indices: 39670725--39670929 Score: 188
Period size: 79 Copynumber: 2.6 Consensus size: 79
39670715 GGACTAAGAT
** * ** *
39670725 CCGAAGGCATTTGTGCGAGAT-ACTAAATTCGGACTAAGAT-CCGAAGGCATTTTTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATAC
*
39670788 TAATTCCGGGCTAAGC
64 TAATACCGGGCTAAGC
** * *
39670804 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
39670868 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* *
39670884 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
39670930 TACGTGATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
78 5 0.05
79 77 0.72
80 25 0.23
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:39675047 original size:20 final size:20
Alignment explanation
Indices: 39675018--39675060 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
39675008 GTCCCACATA
39675018 CCCGTATGGCTTGGGACACG
1 CCCGTATGGCTTGGGACACG
*
39675038 CCCGTGTGGCTTGGGACACG
1 CCCGTATGGCTTGGGACACG
39675058 CCC
1 CCC
39675061 ATGTAACTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.35, G:0.35, T:0.19
Consensus pattern (20 bp):
CCCGTATGGCTTGGGACACG
Found at i:39675367 original size:42 final size:42
Alignment explanation
Indices: 39675320--39675423 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
39675310 GAACCATACG
* * *
39675320 CCCATGGGGC-ACACCGTGTGTCACATATGGCCTTGACACACA
1 CCCATGGGGCTA-ACCATGTGTCACACATGGCCTAGACACACA
* *
39675362 CCCATGTGTCTAACCATGTGTCACACATGGCCTAGACACACA
1 CCCATGGGGCTAACCATGTGTCACACATGGCCTAGACACACA
* * *
39675404 CCCATGTGTCTAACCGTGTG
1 CCCATGGGGCTAACCATGTG
39675424 GACAACTTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (42 bp):
CCCATGGGGCTAACCATGTGTCACACATGGCCTAGACACACA
Found at i:39677009 original size:27 final size:27
Alignment explanation
Indices: 39676979--39677038 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
39676969 CAAATTTTAA
39676979 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTATAG
*** *
39677006 AATTACCATTTTGCCCTCGATTTATAG
1 AATTACCAAAGTACCCTCGATTTATAG
39677033 AATTAC
1 AATTAC
39677039 TGTTTTACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTATAG
Found at i:39677044 original size:27 final size:27
Alignment explanation
Indices: 39676990--39677094 Score: 138
Period size: 27 Copynumber: 3.9 Consensus size: 27
39676980 ATTACCAAAG
*
39676990 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACTATTT
* *
39677017 TGCCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTATTT
* * *
39677044 TACCCTTGATTCACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTATTT
* *
39677071 TACCCTCGATTTAAAAAATTACTA
1 TACCCTCGATTTATAGAATTACTA
39677095 AAATACCCTT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTATTT
Found at i:39677101 original size:27 final size:27
Alignment explanation
Indices: 39677071--39677177 Score: 78
Period size: 27 Copynumber: 4.0 Consensus size: 27
39677061 ATTACTATTT
*
39677071 TACCCTCGA-TTTAAAAAATTACTAAAA
1 TACCCT-GAGTTTAAAAAATTACCAAAA
* *
39677098 TACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTGAGTTTAAAAAATTACCAAAA
* ** * *
39677125 TACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTGAGTTTAAAAAATTACCAAAA
**
39677151 TACCCCTG-GTTTGTAAAATTA-CAAAA
1 TA-CCCTGAGTTTAAAAAATTACCAAAA
39677177 T
1 T
39677178 TACCAAAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 23 0.35
27 43 0.65
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
TACCCTGAGTTTAAAAAATTACCAAAA
Found at i:39677104 original size:54 final size:54
Alignment explanation
Indices: 39676977--39677121 Score: 139
Period size: 54 Copynumber: 2.7 Consensus size: 54
39676967 CACAAATTTT
* * * * * * *
39676977 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTGCCCTCGATTTAT
1 AAAATTACTAAAATACCCTTGATTCACAGAATTACCATTTTACCCTCGATTTAA
* **** *
39677031 AGAATTACTGTTTTACCCTTGATTCACAGAATTACTATTTTACCCTCGATTTAA
1 AAAATTACTAAAATACCCTTGATTCACAGAATTACCATTTTACCCTCGATTTAA
* *
39677085 AAAATTACTAAAATACCCTT-AGTTTACAAAATTACCA
1 AAAATTACTAAAATACCCTTGA-TTCACAGAATTACCA
39677122 AAATACCCTA
Statistics
Matches: 70, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
53 1 0.01
54 69 0.99
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTCACAGAATTACCATTTTACCCTCGATTTAA
Found at i:39677181 original size:27 final size:27
Alignment explanation
Indices: 39677085--39677177 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
39677075 CTCGATTTAA
* **
39677085 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACTAAAATACCCCTAGTTTGT
* *
39677112 AAAATTACCAAAATA-CCCTAGTCTGT
1 AAAATTACTAAAATACCCCTAGTTTGT
* *
39677138 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTAGTTTGT
39677165 AAAATTAC-AAAAT
1 AAAATTACTAAAAT
39677178 TACCAAAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 25 0.45
27 30 0.55
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTAGTTTGT
Found at i:39677734 original size:26 final size:26
Alignment explanation
Indices: 39677705--39677879 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
39677695 GAGGAAGTGC
* **
39677705 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
39677731 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
39677757 AAAAGGGTTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
39677783 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
39677809 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
39677835 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
39677860 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
39677880 ATTAAAGAGG
Statistics
Matches: 134, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 33 0.25
26 101 0.75
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:39677783 original size:52 final size:52
Alignment explanation
Indices: 39677705--39677879 Score: 309
Period size: 52 Copynumber: 3.4 Consensus size: 52
39677695 GAGGAAGTGC
* *
39677705 AAAAGGGCTTATGCCCTAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
39677757 AAAAGGGTTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
39677809 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
39677860 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
39677880 ATTAAAGAGG
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 10 0.08
51 25 0.21
52 84 0.71
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:39678083 original size:42 final size:42
Alignment explanation
Indices: 39678024--39678115 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
39678014 TAGTCTCCCC
* ** *
39678024 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
39678066 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
39678108 AAATGGGC
1 AAATGGGC
39678116 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:39679464 original size:48 final size:48
Alignment explanation
Indices: 39679357--39679488 Score: 167
Period size: 48 Copynumber: 2.8 Consensus size: 48
39679347 TGGTGAGGTA
* * * * * *
39679357 CCAATGCCATATCCCAGATATGATCTTACAT-GGACCACATATCAATG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACAATG
* *
39679404 CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCATATAACGATG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACAATG
* *
39679452 CCAAAGCCATGTCCCATACATGGTCTTACATGGGATC
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGATC
39679489 TCACATTGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 27 0.36
48 47 0.64
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (48 bp):
CCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACAATG
Found at i:39684995 original size:40 final size:40
Alignment explanation
Indices: 39684950--39685303 Score: 503
Period size: 40 Copynumber: 9.1 Consensus size: 40
39684940 CAAGCTCAAT
* * * * *
39684950 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39684990 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
39685030 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
39685070 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39685110 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
39685150 TGCCTTCGGGTCTTATCCCGG--ATAT--A-T-G---AAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39685181 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39685221 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39685261 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39685301 TGC
1 TGC
39685304 TCATGCACAC
Statistics
Matches: 283, Mismatches: 20, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
31 22 0.08
33 4 0.01
34 1 0.00
35 2 0.01
36 2 0.01
37 1 0.00
38 4 0.01
39 2 0.01
40 244 0.86
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:39685185 original size:31 final size:31
Alignment explanation
Indices: 39685150--39685212 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
39685140 TTCGCACAAA
* *
39685150 TGCCTTCGGGTCTTATCCCGGATATATGAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAAT
39685181 TGCCTTCGGGTCTTAGCCCGGATATATCAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAAT
39685212 T
1 T
39685213 CGCACAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (31 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAAT
Found at i:39685225 original size:111 final size:111
Alignment explanation
Indices: 39685075--39685292 Score: 400
Period size: 111 Copynumber: 2.0 Consensus size: 111
39685065 ACAAACGCCG
* * *
39685075 TCGGGTCTTAGCCCGGATATATCAGTTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAA
1 TCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAA
*
39685140 TTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATGAATTGCCT
66 TTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTGCCT
39685186 TCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAA
1 TCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAA
39685251 TTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATT
66 TTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATT
39685293 CGCACAAATG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 103 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (111 bp):
TCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAA
TTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTGCCT
Found at i:39685301 original size:151 final size:151
Alignment explanation
Indices: 39685027--39685303 Score: 518
Period size: 151 Copynumber: 1.8 Consensus size: 151
39685017 CAACTTGCAC
*
39685027 AATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCGGGTCTTAGCCCGGA
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCAGGTCTTAGCCCGGA
*
39685092 TATATCAGTTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTC
66 TATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTC
39685157 GGGTCTTATCCCGGATATATG
131 GGGTCTTATCCCGGATATATG
* *
39685178 AATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCAGGTCTTAGCCCGGA
1 AATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCAGGTCTTAGCCCGGA
39685243 TATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAATGC
66 TATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAATGC
39685304 TCATGCACAC
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 122 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (151 bp):
AATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCAGGTCTTAGCCCGGA
TATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTC
GGGTCTTATCCCGGATATATG
Found at i:39691179 original size:48 final size:48
Alignment explanation
Indices: 39691106--39691352 Score: 176
Period size: 48 Copynumber: 5.2 Consensus size: 48
39691096 CATAGTAAGG
** * * *
39691106 TGCCAATGCCATAACCCAGATATGGTCTTACATGGGACCACATATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
39691154 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAT--A
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
* * * *
39691200 CTG--AA-GCCGATAG--CCTAGCTATGGTCTTACA--CGATGCATCATACCGA
1 -TGCCAATGCC-AT-GTCCCAAAC-ATGGTCTTACATGGGAT-CA-CATATCGA
* * *
39691247 TACCAATACCATGTCCCAGACATGGT-TT-CATGGGATCACATAAT-GA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACAT-ATCGA
* ** ** *
39691293 TGCCAAAGCTGTGTCCCAAACATGGTCTTACATGGGATCTTACATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
*
39691341 TGCCGATGCCAT
1 TGCCAATGCCAT
39691353 ATTCCAGGTA
Statistics
Matches: 151, Mismatches: 29, Indels: 38
0.69 0.13 0.17
Matches are distributed among these distances:
43 3 0.02
44 9 0.06
45 19 0.13
46 30 0.20
47 13 0.09
48 72 0.48
49 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
Found at i:39698216 original size:42 final size:41
Alignment explanation
Indices: 39698163--39698244 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 41
39698153 GCATTTTTAA
39698163 AAAATTCCAAAAAAATATTTTACATT-TTTGTTTCTAATTTTTG
1 AAAATTCC--AAAAATATTTTAC-TTCTTTGTTTCTAATTTTTG
* *
39698206 AAAA-TCCAAAAATATTTTTCTTCTTTGTTTTTAATTTTT
1 AAAATTCCAAAAATATTTTACTTCTTTGTTTCTAATTTTT
39698245 TTTATCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
39 2 0.06
40 27 0.75
42 3 0.08
43 4 0.11
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (41 bp):
AAAATTCCAAAAATATTTTACTTCTTTGTTTCTAATTTTTG
Found at i:39703142 original size:10 final size:10
Alignment explanation
Indices: 39703127--39703162 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
39703117 GTTTTAGGTC
39703127 TAGTTTTCTT
1 TAGTTTTCTT
*
39703137 TAGTTTT-TC
1 TAGTTTTCTT
39703146 TAGTTTTCTT
1 TAGTTTTCTT
39703156 TAGTTTT
1 TAGTTTT
39703163 TCTCTGCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.69
Consensus pattern (10 bp):
TAGTTTTCTT
Found at i:39703146 original size:11 final size:11
Alignment explanation
Indices: 39703130--39703165 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
39703120 TTAGGTCTAG
39703130 TTTTCTTTAGT
1 TTTTCTTTAGT
39703141 TTTTC--TAG-
1 TTTTCTTTAGT
39703149 TTTTCTTTAGT
1 TTTTCTTTAGT
39703160 TTTTCT
1 TTTTCT
39703166 CTGCACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 5 0.23
9 3 0.14
10 3 0.14
11 11 0.50
ACGTcount: A:0.08, C:0.11, G:0.08, T:0.72
Consensus pattern (11 bp):
TTTTCTTTAGT
Found at i:39703149 original size:19 final size:19
Alignment explanation
Indices: 39703125--39703165 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
39703115 TAGTTTTAGG
39703125 TCTAGTTTTCTTTAGTTTT
1 TCTAGTTTTCTTTAGTTTT
39703144 TCTAGTTTTCTTTAGTTTT
1 TCTAGTTTTCTTTAGTTTT
39703163 TCT
1 TCT
39703166 CTGCACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.12, G:0.10, T:0.68
Consensus pattern (19 bp):
TCTAGTTTTCTTTAGTTTT
Found at i:39705740 original size:29 final size:30
Alignment explanation
Indices: 39705684--39705742 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
39705674 ATGCAATTGT
* *
39705684 GATGTGTTGGTGGTTGTGTGTACGTGATGA
1 GATGTGTTGGTGGTTATGTATACGTGATGA
* *
39705714 GATGTGTT-GTGGTTATGTATGCTTGATGA
1 GATGTGTTGGTGGTTATGTATACGTGATGA
39705743 TTTAATTGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.15, C:0.03, G:0.39, T:0.42
Consensus pattern (30 bp):
GATGTGTTGGTGGTTATGTATACGTGATGA
Found at i:39709427 original size:28 final size:28
Alignment explanation
Indices: 39709396--39709455 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
39709386 AATTTTTTAT
*
39709396 AAAAATGTCAATT-AGGGATTAAATTGAG
1 AAAAATGTAAATTAAGGG-TTAAATTGAG
* *
39709424 AAAAGTGTAAATTGAAGGGTTAAATTGTG
1 AAAAATGTAAATT-AAGGGTTAAATTGAG
39709453 AAA
1 AAA
39709456 TAAATGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.41
29 12 0.44
30 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.23, T:0.28
Consensus pattern (28 bp):
AAAAATGTAAATTAAGGGTTAAATTGAG
Found at i:39727470 original size:40 final size:40
Alignment explanation
Indices: 39727414--39727590 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
39727404 CGGATGATAA
* * *
39727414 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
* * * * *
39727454 CCGGGCTATGTCCCGAAGGCATTTATTCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAT
*
39727494 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
* *
39727534 CCGGGCTAAGACCAGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
39727574 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
39727591 ATACTTGGGT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 99 0.85
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAT
Found at i:39727858 original size:22 final size:22
Alignment explanation
Indices: 39727818--39727859 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39727808 GAATGTGCAT
*
39727818 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
39727840 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
39727860 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:39733025 original size:23 final size:23
Alignment explanation
Indices: 39732997--39733047 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
39732987 GTTACGTGAA
*
39732997 ATCAGTTTTCTGGGTCATGTTGT
1 ATCAGTTTTCTGGGCCATGTTGT
39733020 ATCAGTTTTCTGGGCCATGTTGT
1 ATCAGTTTTCTGGGCCATGTTGT
39733043 ATCAG
1 ATCAG
39733048 CATCGACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (23 bp):
ATCAGTTTTCTGGGCCATGTTGT
Found at i:39735309 original size:11 final size:10
Alignment explanation
Indices: 39735281--39735314 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
39735271 AGCCTGTAAG
39735281 TATTCTGAAT
1 TATTCTGAAT
*
39735291 TTTTCTGAAT
1 TATTCTGAAT
39735301 ATATTCTGAAT
1 -TATTCTGAAT
39735312 TAT
1 TAT
39735315 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:39740737 original size:27 final size:26
Alignment explanation
Indices: 39740691--39740799 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 26
39740681 AAGCGTCCTA
* *
39740691 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGTCAC-ATTATCTGATCTG
* *
39740718 GTGGCTCTGTCATATATATCTGTTCTG
1 GTGGCTCTGTCACAT-TATCTGATCTG
* *
39740745 GTGGTTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGTCAC-ATTATCTG-ATCTG
* *
39740773 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGTCACATTATCTGATCTG
39740799 G
1 G
39740800 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 7 0.10
27 44 0.66
28 16 0.24
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGTCACATTATCTGATCTG
Found at i:39743077 original size:27 final size:27
Alignment explanation
Indices: 39743047--39743223 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
39743037 ATATTGAGTC
* *
39743047 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39743074 CGCACACTT-GTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39743100 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
39743128 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
39743155 CGCACACTTAGTGC-ATCGTATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
39743182 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
39743209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39743224 GTACAATTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.18
27 78 0.62
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39743204 original size:82 final size:80
Alignment explanation
Indices: 39743068--39743222 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 80
39743058 TGCTATATAA
*
39743068 TCAACTCGCACACTTGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCAC
1 TCAACTCGCACACTTGTGCTACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCAC
39743133 ACTTAGTGCCGCATGG
65 ACTTAGTGCCGCATGG
* * **
39743149 TCAATTCGCACACTTAGTGC-ATCGTATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTT-GTGCTA-CGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39743213 CACTTAGTGC
64 CACTTAGTGC
39743223 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 30 0.45
82 37 0.55
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTGTGCTACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACA
CTTAGTGCCGCATGG
Found at i:39751293 original size:27 final size:27
Alignment explanation
Indices: 39751263--39751440 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
39751253 ATATTGAGTC
* *
39751263 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39751290 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39751317 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
39751345 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
39751372 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
39751399 CACACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
39751426 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39751441 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39751405 original size:82 final size:81
Alignment explanation
Indices: 39751284--39751439 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
39751274 TGCTATATAA
* * *
39751284 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAA-TCGCA
39751349 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39751366 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCACACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCA
39751430 CACTTAGTGC
65 CACTTAGTGC
39751440 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39760478 original size:48 final size:48
Alignment explanation
Indices: 39760411--39760684 Score: 176
Period size: 48 Copynumber: 5.8 Consensus size: 48
39760401 CATAGTAAGG
* * *
39760411 TGCCAATGCCAT-AACCCAGATATGGTCTTACATGGGACCACATATCGA
1 TGCCAATGCCATGTA-CCAGACATGGTCTTACATGGGATCACATATCGA
39760459 TGCCAATGCCATGTACCAGACATGGTCTTACATGGGATCACATAT--A
1 TGCCAATGCCATGTACCAGACATGGTCTTACATGGGATCACATATCGA
* * * *
39760505 CTG--AA-GCCA-ATAGCCTAG-CTATGGTCTTACA--CGATGCCTCATACCGA
1 -TGCCAATGCCATGTA-CC-AGAC-ATGGTCTTACATGGGAT--CACATATCGA
* * * *
39760552 TACCAATACCATGTCCCAGACATGGT-TT-CATGGGATCACATAACGA
1 TGCCAATGCCATGTACCAGACATGGTCTTACATGGGATCACATATCGA
* ** * * * *
39760598 TGCCAAAGCTGTGTCCCAAACATGGTCTTACATGGGATCTCACATCGA
1 TGCCAATGCCATGTACCAGACATGGTCTTACATGGGATCACATATCGA
* * * ** * *
39760646 TGCCGATGCCATATTCCAGGTATGGTCTTATACGGGATC
1 TGCCAATGCCATGTACCAGACATGGTCTTACATGGGATC
39760685 TCATCAACCC
Statistics
Matches: 174, Mismatches: 34, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
43 5 0.03
44 7 0.04
45 20 0.11
46 32 0.18
47 7 0.04
48 95 0.55
49 7 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (48 bp):
TGCCAATGCCATGTACCAGACATGGTCTTACATGGGATCACATATCGA
Found at i:39765122 original size:27 final size:27
Alignment explanation
Indices: 39765092--39765269 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39765082 ATATTGAGTC
* * * *
39765092 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
39765119 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39765146 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
39765174 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
39765201 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
39765228 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
39765255 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39765270 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:39765231 original size:82 final size:81
Alignment explanation
Indices: 39765113--39765268 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39765103 TGCTATATAA
* *
39765113 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39765178 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39765195 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39765259 CACTTAGTGC
65 CACTTAGTGC
39765269 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39770873 original size:39 final size:43
Alignment explanation
Indices: 39770801--39770881 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 43
39770791 GCATTTTTAA
39770801 AAAATTCCAAAAAACTATTTTACATTTTTGTTTTTAATTTTTG
1 AAAATTCCAAAAAACTATTTTACATTTTTGTTTTTAATTTTTG
39770844 AAAA-TCC-AAAAA-TATTTT-C-TTCTTTGTTTTTAATTTTT
1 AAAATTCCAAAAAACTATTTTACATT-TTTGTTTTTAATTTTT
39770882 TTATCGCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
38 2 0.05
39 17 0.46
40 6 0.16
41 5 0.14
42 3 0.08
43 4 0.11
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (43 bp):
AAAATTCCAAAAAACTATTTTACATTTTTGTTTTTAATTTTTG
Found at i:39771765 original size:6 final size:7
Alignment explanation
Indices: 39771748--39771772 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
39771738 ATAGACCAGA
39771748 AAAAATT
1 AAAAATT
39771755 AAAAATT
1 AAAAATT
39771762 AAAAATT
1 AAAAATT
39771769 AAAA
1 AAAA
39771773 CCAATAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:39778229 original size:29 final size:30
Alignment explanation
Indices: 39778173--39778231 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
39778163 ATGCAATTGT
* *
39778173 GATGTGTTGGTGGTTGTGTGTACGTGATGA
1 GATGTGTTGGTGGTTATGTATACGTGATGA
* *
39778203 GATGTGTT-GTGGTTATGTATGCTTGATGA
1 GATGTGTTGGTGGTTATGTATACGTGATGA
39778232 TTTAATTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.15, C:0.03, G:0.39, T:0.42
Consensus pattern (30 bp):
GATGTGTTGGTGGTTATGTATACGTGATGA
Found at i:39780031 original size:43 final size:42
Alignment explanation
Indices: 39779965--39780122 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
39779955 AGCATATACA
* * *
39779965 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCAAGACGTGGTCTTACACGAAATCAAACA-CG
* *
39780008 ATGCCACTGTCCAAGACAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCAAGAC-GTGGTCTTACACGAAATCAAACACG
* * * * **
39780050 ATGCCAATGTCC-CGAACATGGTCTTACACGTAAAACAGGAGTCG
1 ATGCCAATGTCCAAG-ACGTGGTCTTACACG-AAATCA-AACACG
*
39780094 ATGCCAATGTCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCAAGACGTGGTCTTACAC
39780123 AATAACACAT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 38 0.40
44 29 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCAAGACGTGGTCTTACACGAAATCAAACACG
Found at i:39783923 original size:48 final size:48
Alignment explanation
Indices: 39783852--39783997 Score: 247
Period size: 48 Copynumber: 3.0 Consensus size: 48
39783842 CAAGATAAAT
* *
39783852 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
39783900 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
39783948 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
39783996 AT
1 AT
39783998 GTGTGTATAT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 93 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:39789433 original size:45 final size:45
Alignment explanation
Indices: 39789372--39789504 Score: 194
Period size: 45 Copynumber: 3.0 Consensus size: 45
39789362 CAATATCATT
* * *
39789372 TCACTGGCATTATAGCCTGCTTGGCTCGAAGGCCTGAATAGTATC
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
39789417 TCACCGGCATTTTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* **
39789462 TCACTGGCATCATAGCCTGCTAGGCTCAAAGGAACGAATAGTA
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
39789505 CCGTACGATA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (45 bp):
TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:39796395 original size:45 final size:45
Alignment explanation
Indices: 39796288--39796461 Score: 223
Period size: 45 Copynumber: 3.9 Consensus size: 45
39796278 AAAATTCATC
* * * *
39796288 CATCGGCATT-TCGCCTGCTAGGCTCGAA-GCTCG-ATA-TCATTT
1 CATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCT
* *
39796330 CA-CTGGCATTATAGCTTGCTAGGCTCGAAGGCCCGAATAGTATCT
1 CATC-GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
39796375 CATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
* *
39796420 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
39796462 CCGTACGGTA
Statistics
Matches: 118, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
41 1 0.01
42 8 0.07
43 16 0.14
44 4 0.03
45 87 0.74
46 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (45 bp):
CATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:39798103 original size:27 final size:27
Alignment explanation
Indices: 39798051--39798140 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
39798041 GTGACAGAGT
*
39798051 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* *
39798080 CATCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
* **
39798107 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
39798135 CACCAG
1 CACCAG
39798141 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
27 22 0.42
28 24 0.46
29 6 0.12
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:39798293 original size:28 final size:28
Alignment explanation
Indices: 39798249--39798310 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
39798239 TTAACCCTAA
*
39798249 GGGTATAAAGGTCATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
*
39798277 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
39798305 GGGTAT
1 GGGTAT
39798311 TCTAGTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTTGCATACATAG
Found at i:39800593 original size:46 final size:46
Alignment explanation
Indices: 39800520--39800695 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
39800510 TATTTGGGCA
* *
39800520 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
39800566 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
39800613 TCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
39800659 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39800696 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 27, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
46 67 0.67
47 33 0.33
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:39800675 original size:93 final size:93
Alignment explanation
Indices: 39800516--39800688 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
39800506 GGGATATTTG
* * * **
39800516 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAG
39800581 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
39800609 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
39800674 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
39800689 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Done.