Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 159 of 187
Found at i:48038694 original size:30 final size:31
Alignment explanation
Indices: 48038654--48038711 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
48038644 TTTTGTGAAA
* *
48038654 TAGGGACTAAATTGAATAAATGT-GAAACTT
1 TAGGGACTAAAGTGAAAAAATGTCGAAACTT
*
48038684 TAGGGGCTAAAGTGAAAAAATGTCGAAA
1 TAGGGACTAAAGTGAAAAAATGTCGAAA
48038712 TAGTTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (31 bp):
TAGGGACTAAAGTGAAAAAATGTCGAAACTT
Found at i:48040023 original size:69 final size:69
Alignment explanation
Indices: 48039939--48040163 Score: 270
Period size: 69 Copynumber: 3.3 Consensus size: 69
48039929 GTTTTGCATG
* *
48039939 TATTAATGCTGTCCAAATTGGTGCTTAAATGTTGTCCATTTTTGGTACAAATCTATGCTGTCCGA
1 TATTAATGCTGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTGGTAAAAATCTATGCTGTCCGA
48040004 ATGT
66 ATGT
* * * * * *
48040008 TCTTAATGCTATCCAAATTAGTGCTTAAATGTTGTCCATTTTTGGTAAAAATTTGTGTTGTCCGT
1 TATTAATGCTGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTGGTAAAAATCTATGCTGTCCGA
48040073 ATGT
66 ATGT
* * * * * * * * *
48040077 TAGTAATGTTGTCCGAATTAGTGCTTAAATGCTGTCCATTTTAGGTATAAGTCAATGCTGTCCAA
1 TATTAATGCTGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTGGTAAAAATCTATGCTGTCCGA
48040142 ATGT
66 ATGT
* * *
48040146 TTTTACTTCTGTCCAAAT
1 TATTAATGCTGTCCAAAT
48040164 ATTTGTGAAT
Statistics
Matches: 127, Mismatches: 29, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
69 127 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (69 bp):
TATTAATGCTGTCCAAATTAGTGCTTAAATGTTGTCCATTTTTGGTAAAAATCTATGCTGTCCGA
ATGT
Found at i:48041410 original size:17 final size:17
Alignment explanation
Indices: 48041388--48041421 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48041378 ATTAAAAGAG
*
48041388 TAAAACGATAGCTCTAT
1 TAAAACGACAGCTCTAT
48041405 TAAAACGACAGCTCTAT
1 TAAAACGACAGCTCTAT
48041422 CTCAAGCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (17 bp):
TAAAACGACAGCTCTAT
Found at i:48044359 original size:25 final size:26
Alignment explanation
Indices: 48044313--48044362 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
48044303 AGTTGTAGAG
48044313 AGAAAATTCTCTAAAGAGATTATTTC
1 AGAAAATTCTCTAAAGAGATTATTTC
* *
48044339 AGAAAATT-TCTAGAGATATTATTT
1 AGAAAATTCTCTAAAGAGATTATTT
48044363 TATTTACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTTC
Found at i:48052541 original size:44 final size:44
Alignment explanation
Indices: 48052487--48052570 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
48052477 TGTTGAATAA
* *
48052487 TTAATTAATTAAATTA-TATTTATTATAAATTAATTATACTAAAT
1 TTAACTAATTAAA-TAGTATGTATTATAAATTAATTATACTAAAT
* * *
48052531 TTAACTAATTACATAGTATGTATTATTAATTATTTATACT
1 TTAACTAATTAAATAGTATGTATTATAAATTAATTATACT
48052571 TGACCAATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (44 bp):
TTAACTAATTAAATAGTATGTATTATAAATTAATTATACTAAAT
Found at i:48052927 original size:26 final size:26
Alignment explanation
Indices: 48052898--48052950 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
48052888 ATTACAATAA
* *
48052898 AATTACAATTGATAAGCCAAACATGT
1 AATTACAATCGATAAGCCAAAAATGT
*
48052924 AATTGCAATCGATAAGCCAAAAATGT
1 AATTACAATCGATAAGCCAAAAATGT
48052950 A
1 A
48052951 TCAAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (26 bp):
AATTACAATCGATAAGCCAAAAATGT
Found at i:48053304 original size:23 final size:22
Alignment explanation
Indices: 48053256--48053304 Score: 89
Period size: 23 Copynumber: 2.2 Consensus size: 22
48053246 ATTTTTAAAT
48053256 TTTAAATTATTTAGTGATAATA
1 TTTAAATTATTTAGTGATAATA
48053278 TTTACAATTATTTAGTGATAATA
1 TTTA-AATTATTTAGTGATAATA
48053301 TTTA
1 TTTA
48053305 GGAAAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (22 bp):
TTTAAATTATTTAGTGATAATA
Found at i:48054230 original size:5 final size:5
Alignment explanation
Indices: 48054189--48054218 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
48054179 TTTTAATCTA
48054189 ATTTT ATTTT ATTTT ATTTT ATTTAT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTT-T ATTT
48054219 CCTTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:48055646 original size:19 final size:19
Alignment explanation
Indices: 48055609--48055648 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48055599 ATAGTAACAA
* **
48055609 TATAATAGTGAAATTATAG
1 TATAACAGTGAAAAAATAG
48055628 TATAACAGTGAAAAAATAG
1 TATAACAGTGAAAAAATAG
48055647 TA
1 TA
48055649 ACAAAACAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (19 bp):
TATAACAGTGAAAAAATAG
Found at i:48058792 original size:46 final size:45
Alignment explanation
Indices: 48058626--48058793 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 45
48058616 AAAGTAGTAT
* * *
48058626 TGGTCACCCATTAGGGTTGAACCTACACGAATTGAATAATAGTGC
1 TGGTCACCCATTAAGGTTGAACCTACACAAATTGGATAATAGTGC
* * *
48058671 ACGGTCACCCGTTAAGGTTGAACCTACA-AGAATTTGATAATAGTGCC
1 -TGGTCACCCATTAAGGTTGAACCTACACA-AATTGGATAATAGTG-C
* * * * *
48058718 TTGTCACCCATT-AGGTTTAAACATACACAAATCGGATAATTGTGTC
1 TGGTCACCCATTAAGG-TTGAACCTACACAAATTGGATAATAGTG-C
*
48058764 TGGTCACCGATTAAGGTTGAACCTACACAA
1 TGGTCACCCATTAAGGTTGAACCTACACAA
48058794 CACATAGCCT
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 3 0.03
46 90 0.92
47 5 0.05
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (45 bp):
TGGTCACCCATTAAGGTTGAACCTACACAAATTGGATAATAGTGC
Found at i:48069470 original size:25 final size:26
Alignment explanation
Indices: 48069413--48069470 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
48069403 ATTTTTCTCC
*
48069413 TAAA-TTTCAAGTTTATTTAATTATT
1 TAAATTTTCAAGTTTATTGAATTATT
*
48069438 TAACTTTTCAA-TTTATTGAATTA-T
1 TAAATTTTCAAGTTTATTGAATTATT
48069462 TAATATTTT
1 TAA-ATTTT
48069471 ATACGAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 4 0.14
25 18 0.64
26 6 0.21
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (26 bp):
TAAATTTTCAAGTTTATTGAATTATT
Found at i:48070374 original size:3 final size:3
Alignment explanation
Indices: 48070366--48070393 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48070356 GAGTATCCCA
48070366 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
48070394 TCCCATAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:48073507 original size:24 final size:24
Alignment explanation
Indices: 48073479--48073530 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48073469 TTAGTAAGTC
* *
48073479 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
48073503 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
48073527 AAAT
1 AAAT
48073531 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:48120545 original size:16 final size:15
Alignment explanation
Indices: 48120524--48120553 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48120514 GAATGGAGTA
48120524 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
48120540 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
48120554 TATAACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:48124191 original size:46 final size:48
Alignment explanation
Indices: 48124048--48124364 Score: 232
Period size: 46 Copynumber: 6.7 Consensus size: 48
48124038 TTACTTGTGT
* ** *
48124048 GCTAGTGTAAGA-CATGTTTGGGACATGTGTCGGCCAT--ATTATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCC-TCGA-GATGTAGA
* * * * * *
48124094 GCCAGTGTAAGACCGTGTCTGGTACATGGCATCGGCATTGAGACG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGA
48124142 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
**
48124188 GCTAGTGTAA-AGTATGTCTGGGACATGCATCGG-CTACGAGATGT-G-
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTAGA
* * *
48124233 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-AGA
* * * ** *
48124282 GCTAGTGTATGACCATATATGGGACATGACATCGGCCTCGATTTCG-ATA
1 GCTAGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGAGAT-GTAGA
*
48124331 G-TCAGTGTAAGACCATGTCTAGGACATTGCATCG
1 GCT-AGTGTAAGACCATGTCTGGGACA-TGCATCG
48124365 ACTTAATGGA
Statistics
Matches: 218, Mismatches: 32, Indels: 39
0.75 0.11 0.13
Matches are distributed among these distances:
44 7 0.03
45 18 0.08
46 77 0.35
47 25 0.11
48 25 0.11
49 31 0.14
50 34 0.16
51 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTAGA
Found at i:48124356 original size:49 final size:50
Alignment explanation
Indices: 48124051--48124405 Score: 165
Period size: 46 Copynumber: 7.5 Consensus size: 50
48124041 CTTGTGTGCT
* ** * * *
48124051 AGTGTAAGA-CATGTTTGGGACATG-TGTCGGC-CATAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCACAGATATGTGAGAGTC
* * * ** * *
48124097 AGTGTAAGACCGTGTCTGGTACATGGCATCGGCATTGAGA--CGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCACAGATATGTGAGAGTC
* *
48124144 TAGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CTCGAGATGT-A-AG-C
1 -AGTGTAAGACCATGTCTGGGACATGACATCGGCAC-AGATATGTGAGAGTC
** *
48124190 TAGTGTAA-AGTATGTCTGGGACATG-CATCGGCTAC-GAGATGT----GTC
1 -AGTGTAAGACCATGTCTGGGACATGACATCGGC-ACAGATATGTGAGAGTC
*
48124235 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCACAGATATGTGAGAGTC
* * * * *
48124284 TAGTGTATGACCATATATGGGACATGACATCGGC-CTCGAT-T-TCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGACATCGGCAC-AGATATGT-GAGAGTC
* **
48124334 AGTGTAAGACCATGTCTAGGACATTG-CATC-G-ACTTA-ATG-GATGAGTC
1 AGTGTAAGACCATGTCTGGGACA-TGACATCGGCACAGATATGTGA-GAGTC
* *
48124381 AGTGTAAGAGCATGTTTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
48124406 GCACCAACAT
Statistics
Matches: 246, Mismatches: 35, Indels: 56
0.73 0.10 0.17
Matches are distributed among these distances:
44 8 0.03
45 19 0.08
46 76 0.31
47 53 0.22
48 23 0.09
49 31 0.13
50 36 0.15
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGGCACAGATATGTGAGAGTC
Found at i:48124395 original size:146 final size:138
Alignment explanation
Indices: 48124096--48124408 Score: 335
Period size: 138 Copynumber: 2.2 Consensus size: 138
48124086 TTATGAGAGC
* * ** * *
48124096 CAGTGTAAGACCGTGTCTGGTACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGAGAGCTAGTGTAAGACATATAT
** * *
48124161 GGGACATGCATCGGCCTCGAGATGTAAGCTAGTGTAAAGTATGTCTGGGACATGCATCGGCTACG
66 GGGACATGCATCGGCCTCGAGATGTAAGCTAGTGTAAACCATGTCTAGGACATGCATCGACTACG
*
48124226 AGATGTGT
131 AGATGAGT
* * *
48124234 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGCTAGTGTATGACCATA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGA--CGAGAGCTAGTGTAAGA-CATA
**
48124299 TATGGGACATGACATCGGCCTCGATTTCG-ATAG-TCAGTGTAAGACCATGTCTAGGACATTGCA
63 TATGGGACATG-CATCGGCCTCGAGAT-GTA-AGCT-AGTGTAA-ACCATGTCTAGGACA-TGCA
*
48124362 TCGACTTAATG-GATGAGT
122 TCGAC-T-ACGAGATGAGT
* *
48124380 CAGTGTAAGAGCATGTTTGGGACATGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCA
48124409 CCAACATTAT
Statistics
Matches: 145, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
138 36 0.25
140 15 0.10
141 13 0.09
142 15 0.10
143 10 0.07
144 12 0.08
145 8 0.06
146 34 0.23
147 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (138 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGAGAGCTAGTGTAAGACATATAT
GGGACATGCATCGGCCTCGAGATGTAAGCTAGTGTAAACCATGTCTAGGACATGCATCGACTACG
AGATGAGT
Found at i:48126911 original size:22 final size:22
Alignment explanation
Indices: 48126869--48126912 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
48126859 AATTATTTAC
* *
48126869 GACTAAAGTATAGTGTTCATAT
1 GACTAAAGAATAGTGTGCATAT
48126891 GACTAAATGAATAGT-TGCATAT
1 GACTAAA-GAATAGTGTGCATAT
48126913 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (22 bp):
GACTAAAGAATAGTGTGCATAT
Found at i:48127215 original size:40 final size:40
Alignment explanation
Indices: 48127137--48127360 Score: 344
Period size: 40 Copynumber: 5.6 Consensus size: 40
48127127 CAAACCCAAG
* * *
48127137 TGCCTTCGGGATTTAG-CCGGATATAG-CAACTCGGACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAA
*
48127176 TGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
* *
48127216 AGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
*
48127256 TGCCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
* *
48127296 TGCCTTCAGGACTTAGCCCAGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
48127336 TGCCTTCGGGACTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
48127361 CATTCGAATA
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 151 0.90
41 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
Found at i:48135444 original size:40 final size:40
Alignment explanation
Indices: 48135366--48135549 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
48135356 CAAACCCAAG
* * *
48135366 TGCCTTCGGGATTTAG-CCGGATATAG-CAACTCGGACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAA
*
48135405 TGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
* *
48135445 AGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
*
48135485 TGCCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
48135525 TGCCTTCGGGACTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
48135550 CATTCGAATA
Statistics
Matches: 132, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.11
40 115 0.87
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
Found at i:48139881 original size:6 final size:6
Alignment explanation
Indices: 48139862--48139895 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
48139852 AATTGAAAAG
*
48139862 AAAATA AAAGTA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
48139896 GATAGGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:48141347 original size:28 final size:27
Alignment explanation
Indices: 48141304--48141356 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
48141294 TAAAACTAGT
*
48141304 ATATAGAAAATCCTAAAACAATATTCAA
1 ATATAGAAAATACTAAAACAA-ATTCAA
*
48141332 ATATAGAAAATACTAAAGCAAATTC
1 ATATAGAAAATACTAAAACAAATTC
48141357 CTAACTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.25
Consensus pattern (27 bp):
ATATAGAAAATACTAAAACAAATTCAA
Found at i:48142409 original size:37 final size:37
Alignment explanation
Indices: 48142359--48142431 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
48142349 AGTGAATGGT
48142359 CAGGGTGGTTTGAGGAGTTTATACTCCTCATTCCTGA
1 CAGGGTGGTTTGAGGAGTTTATACTCCTCATTCCTGA
*
48142396 CAGGGTGGTTTGAGGAGTTTATACTCCTCCTTCCTG
1 CAGGGTGGTTTGAGGAGTTTATACTCCTCATTCCTG
48142432 CTGTCAACCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.16, C:0.21, G:0.27, T:0.36
Consensus pattern (37 bp):
CAGGGTGGTTTGAGGAGTTTATACTCCTCATTCCTGA
Found at i:48150978 original size:38 final size:39
Alignment explanation
Indices: 48150935--48151017 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 39
48150925 CTCTTCATGC
48150935 ACTATAGAAAAATGATACATTTATAACATTAACAAACTT
1 ACTATAGAAAAATGATACATTTATAACATTAACAAACTT
48150974 -CTATAGAAAAATGATACATTTATAACATTAACAAACTT
1 ACTATAGAAAAATGATACATTTATAACATTAACAAACTT
48151012 ACTATA
1 ACTATA
48151018 TGACCGTACC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 38 0.88
39 5 0.12
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (39 bp):
ACTATAGAAAAATGATACATTTATAACATTAACAAACTT
Found at i:48151663 original size:41 final size:45
Alignment explanation
Indices: 48151605--48151713 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 45
48151595 ATTTTATCAC
* * *
48151605 ATATCAATGCCACTGTCCTAGACAGGGTCTTACATG-AATCA-A-
1 ATATCGATGCCAATGTCCTAGACAGGGTCTTACATGTAACCACAT
* *
48151647 ATA-CGATGCCAATGTCCTAAACATGGTCTTACATGTAACCACAT
1 ATATCGATGCCAATGTCCTAGACAGGGTCTTACATGTAACCACAT
* *
48151691 ATATCGATGTCAACGTCCTAGAC
1 ATATCGATGCCAATGTCCTAGAC
48151714 GTCGTCTTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 28 0.51
42 7 0.13
43 1 0.02
44 3 0.05
45 16 0.29
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCTAGACAGGGTCTTACATGTAACCACAT
Found at i:48152560 original size:14 final size:15
Alignment explanation
Indices: 48152523--48152567 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
48152513 AAGCTTCTAA
48152523 AGTGCTAAATACCCT
1 AGTGCTAAATACCCT
*
48152538 AGTGCTAAATTCCCT
1 AGTGCTAAATACCCT
48152553 AG-GCTAAATACCCT
1 AGTGCTAAATACCCT
48152567 A
1 A
48152568 AACCCTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (15 bp):
AGTGCTAAATACCCT
Found at i:48153926 original size:29 final size:29
Alignment explanation
Indices: 48153883--48153942 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
48153873 AAACACATAA
* * *
48153883 AGCTAGACTTGTAGGGTAAGACTACAGAC
1 AGCTAAACTTATAGGGAAAGACTACAGAC
48153912 AGCTAAACTTATAGGGAAAGACTACAGAC
1 AGCTAAACTTATAGGGAAAGACTACAGAC
48153941 AG
1 AG
48153943 AAAGAATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (29 bp):
AGCTAAACTTATAGGGAAAGACTACAGAC
Found at i:48155362 original size:15 final size:15
Alignment explanation
Indices: 48155342--48155372 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48155332 TTCACTATTA
*
48155342 TGTCTTTTATATTTT
1 TGTCTTTCATATTTT
48155357 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
48155372 T
1 T
48155373 CATTAATTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (15 bp):
TGTCTTTCATATTTT
Found at i:48157295 original size:44 final size:42
Alignment explanation
Indices: 48157158--48157317 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
48157148 AGCTCGTACA
* * * * * *
48157158 ATGCAAACGTCCTAGACGTGGTCTTACATGTAATTAAATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGAAATCAAATA-CG
* *
48157201 ATGCC-ACTGTCCCAAACAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGA-TGTGGTCTTACACGAAATCAAATACG
*
48157243 ATGCCAACGTCCTAGATGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGATGTGGTCTTACACG-AAATCA-AA-TACG
48157287 ATGCCAACGTCCCAGATGTGGTCTTACACGA
1 ATGCCAACGTCCCAGATGTGGTCTTACACGA
48157318 TAACACATAT
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 37 0.37
44 34 0.34
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGAAATCAAATACG
Found at i:48157312 original size:86 final size:85
Alignment explanation
Indices: 48157158--48157317 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
48157148 AGCTCGTACA
* *
48157158 ATGCAAACGTCCTAGACGTGGTCTTACATGTAATTAAATATCGATGCCACTGTCCCAAACAGGGT
1 ATGCAAACGTCCTAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGT
48157223 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * * * *
48157243 ATGCCAACGTCCTAGATGTGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGA-TG
1 ATGCAAACGTCCTAGACGTGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAAACAG
48157305 TGGTCTTACACGA
63 -GGTCTTACACGA
48157318 TAACACATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 29 0.45
86 31 0.48
87 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (85 bp):
ATGCAAACGTCCTAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGT
CTTACACGAAATCAAATACG
Found at i:48163631 original size:40 final size:40
Alignment explanation
Indices: 48163550--48163770 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
48163540 AAACCAAGTA
** * *
48163550 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
48163589 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
48163629 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACTATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
48163669 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
48163709 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
48163749 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
48163771 CAATCGAATA
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 26 0.15
40 142 0.85
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:48170524 original size:24 final size:24
Alignment explanation
Indices: 48170487--48170534 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
48170477 CACTTGAAAC
* *
48170487 AACCCTTCTTATTTACTCGGCATT
1 AACCCCTCTCATTTACTCGGCATT
48170511 AACCCCTCTCATTTACTCGGCATT
1 AACCCCTCTCATTTACTCGGCATT
48170535 CGCCTAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (24 bp):
AACCCCTCTCATTTACTCGGCATT
Found at i:48173375 original size:27 final size:27
Alignment explanation
Indices: 48173345--48173647 Score: 362
Period size: 27 Copynumber: 11.2 Consensus size: 27
48173335 TGATTTACAA
* *
48173345 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48173372 AATTACCGAAGTACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48173399 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48173426 AATTATTGAAATACCCCTATATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48173453 AATTACTAAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48173480 AATTA-TCGAAATATCCCTGTAAGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
48173507 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
48173534 AATTA-TCGAGATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
48173561 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
48173588 AATTACCGAAATA-CCCTCGTAGGGTAGG
1 AATTACTGAAATACCCCT-GTAGGGTA-G
**
48173616 AA-TACTGAAATACCCCTGTAGTATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
48173642 AATTAC
1 AATTAC
48173648 CGAGAAACCC
Statistics
Matches: 233, Mismatches: 35, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.03
27 217 0.93
28 8 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:48174110 original size:19 final size:19
Alignment explanation
Indices: 48174088--48174145 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
48174078 TTCTGATTTT
48174088 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
48174107 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
48174119 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
48174138 TGATTCTG
1 TGATTCTG
48174146 ATTTTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:48174115 original size:6 final size:6
Alignment explanation
Indices: 48174077--48174227 Score: 87
Period size: 6 Copynumber: 24.3 Consensus size: 6
48174067 TTGCATTCAC
* * *
48174077 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
48174127 -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCCG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
48174177 ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTA ATTCTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
48174226 AT
1 AT
48174228 AATGTTTCTT
Statistics
Matches: 110, Mismatches: 20, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
5 8 0.07
6 81 0.74
7 17 0.15
8 4 0.04
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:48174123 original size:31 final size:31
Alignment explanation
Indices: 48174077--48174218 Score: 212
Period size: 31 Copynumber: 4.5 Consensus size: 31
48174067 TTGCATTCAC
48174077 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
48174109 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
48174140 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
48174171 ATTCCGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
48174202 ATTCTAATTCTGATTCT
1 ATTCTGATTTTGATTCT
48174219 AGTTCTGATA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 96 0.93
32 7 0.07
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:48177033 original size:80 final size:80
Alignment explanation
Indices: 48176928--48177113 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
48176918 AGTAACTCAT
* * *
48176928 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
48176991 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
48177007 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
48177072 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
48177088 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
48177114 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:48177073 original size:40 final size:40
Alignment explanation
Indices: 48176930--48177113 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
48176920 TAACTCATAC
* *
48176930 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
48176970 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
48177010 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
48177050 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
48177091 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48177114 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:48180064 original size:47 final size:47
Alignment explanation
Indices: 48179850--48180208 Score: 227
Period size: 47 Copynumber: 7.6 Consensus size: 47
48179840 GTTTCAATGC
* *
48179850 CATGTCCCAGACATGGTCTTACACTGGCTATCTTCATAGAGGCGGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * * * *
48179898 CCATGTCCCAGACATGGTTTTACACTAGC--TCTT-ATATGTACATGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCTTCAT-CG---AGGCCGATG
* * * * *
48179948 CATGTCCCAAACATGTCTTACACTAGC-A-CTACCCTC-A-CCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCT-TCATCGAGGCCGATG
*
48179992 CATGTCCCAAACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * ** * * *
48180039 CATGTCCCAGACATGTTTTATACTGGCGCTCATC-TCTATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
* * * * *
48180085 CCATGTCCCAAACATGGTCTTACACTGGCTAT-TATAAT-GTGGCTGATA
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCT-TCATCGAGGCCGATG
* ** * * **
48180133 CATGTCCCAGACATGTCTTACACTAGCCCTCGTC-TCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
*
48180179 CCATGTCCCAAACATGGTCTTACACTGGCT
1 -CATGTCCCAGACAT-GTCTTACACTGGCT
48180209 CTCACATAAC
Statistics
Matches: 240, Mismatches: 51, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
44 31 0.13
45 6 0.03
46 33 0.14
47 78 0.32
48 44 0.18
49 40 0.17
50 8 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG
Found at i:48180137 original size:94 final size:93
Alignment explanation
Indices: 48179894--48180208 Score: 345
Period size: 94 Copynumber: 3.4 Consensus size: 93
48179884 CATAGAGGCG
* * * * * *
48179894 GATGCCATGTCCCAGACATGGTTTTACACTAGCTCTTATATGTACATGCTGATGCATGTCCCAAA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTATTATATGT---GGCTGATGCATGTCCCAGA
* *
48179959 CATGTCTTACACTAGCACT-A-CCCTCA-CCC
63 CATGTCTTACACTAGCACTCATCTCT-ATACC
* *
48179988 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTATCT-TCATCGAGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTAT-TAT-AT-GTGGCTGATGCATGTCCCAGA
* * * * *
48180050 CATGTTTTATACTGGCGCTCATCTCTATGCC
63 CATGTCTTACACTAGCACTCATCTCTATACC
*
48180081 GATGCCATGTCCCAAACATGGTCTTACACTGGCTATTATAATGTGGCTGATACATGTCCCAGACA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTATTAT-ATGTGGCTGATGCATGTCCCAGACA
* * *
48180146 TGTCTTACACTAGCCCTCGTCTCAATACC
65 TGTCTTACACTAGCACTCATCTCTATACC
48180175 GATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCT
48180209 CTCACATAAC
Statistics
Matches: 187, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
91 31 0.17
92 16 0.09
93 25 0.13
94 96 0.51
95 19 0.10
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (93 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTATTATATGTGGCTGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCATCTCTATACC
Found at i:48180137 original size:141 final size:140
Alignment explanation
Indices: 48179850--48180204 Score: 362
Period size: 141 Copynumber: 2.5 Consensus size: 140
48179840 GTTTCAATGC
*
48179850 CATGTCCCAGACATGGTCTTACACTGGCTATCTTCATAGAGGCGGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCTTCATAGAGGCCGATGCCATGTCCCAGACATGG
* * * *
48179915 TTTTACACTAGCTCTTATATGTACATGCTGATGCATGTCCCAAACATGTCTTACACTAGCACTAC
65 TTTTACACTAGCGCTCATATCTA-ATGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTAC
** *
48179980 CCTCACCCGATG
129 AATCACCCGATA
* *
48179992 CATGTCCCAAACATGTCTTACACTGGCTATCTTCATCGAGGCCGATG-CATGTCCCAGACAT-GT
1 CATGTCCCAGACATGTCTTACACTGGCTATCTTCATAGAGGCCGATGCCATGTCCCAGACATGGT
* * * * *
48180055 TTTATACTGGCGCTCATCTCT-ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATTA
66 TTTACACTAGCGCTCATATCTAATGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC-ACTA
* *** *
48180119 TAATGTGGCTGATA
128 CAAT-CACCCGATA
* ** * *
48180133 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCA-ATA--CCGATGCCATGTCCCAAACATG
1 CATGTCCCAGACATGTCTTACACTGGCTATC-T-TCATAGAGGCCGATGCCATGTCCCAGACATG
*
48180195 GTCTTACACT
64 GTTTTACACT
48180205 GGCTCTCACA
Statistics
Matches: 176, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
137 8 0.05
138 14 0.08
139 29 0.16
140 24 0.14
141 75 0.43
142 23 0.13
143 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTTCATAGAGGCCGATGCCATGTCCCAGACATGGT
TTTACACTAGCGCTCATATCTAATGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTACAA
TCACCCGATA
Found at i:48209766 original size:21 final size:23
Alignment explanation
Indices: 48209741--48209791 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
48209731 CAGAGGTACT
48209741 CGTGGAAG-GG-GT-ACAAGAGGC
1 CGTGGAAGAGGCGTGAC-AGAGGC
48209762 CGTGGAAGAGGCCGTGACAGAGGC
1 CGTGGAAGAGG-CGTGACAGAGGC
48209786 CGTGGA
1 CGTGGA
48209792 GGTGCTCGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.31
22 2 0.08
24 14 0.54
25 2 0.08
ACGTcount: A:0.25, C:0.18, G:0.47, T:0.10
Consensus pattern (23 bp):
CGTGGAAGAGGCGTGACAGAGGC
Found at i:48209772 original size:12 final size:12
Alignment explanation
Indices: 48209755--48209791 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
48209745 GAAGGGGTAC
48209755 AAGAGGCCGTGG
1 AAGAGGCCGTGG
48209767 AAGAGGCCGT-G
1 AAGAGGCCGTGG
48209778 ACAGAGGCCGTGG
1 A-AGAGGCCGTGG
48209791 A
1 A
48209792 GGTGCTCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.27, C:0.19, G:0.46, T:0.08
Consensus pattern (12 bp):
AAGAGGCCGTGG
Found at i:48213449 original size:27 final size:26
Alignment explanation
Indices: 48213419--48213481 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
48213409 TTTACAAAAC
48213419 TACCCCTAAGTATG-AAAATTACCATTA
1 TACCCCT-AG-ATGCAAAATTACCATTA
*
48213446 TACCCCCTAGGTGCAAAATTACCATTA
1 TA-CCCCTAGATGCAAAATTACCATTA
*
48213473 TACCTCTAG
1 TACCCCTAG
48213482 GGTTAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 8 0.25
27 19 0.59
28 5 0.16
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.29
Consensus pattern (26 bp):
TACCCCTAGATGCAAAATTACCATTA
Found at i:48213684 original size:26 final size:26
Alignment explanation
Indices: 48213588--48213695 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 26
48213578 GGAAGCGTTT
*
48213588 TGGTGGCTATGCCACAAATATCTATTTC
1 TGGTGGCTCTGCCAC-AATATCT-TTTC
* *
48213616 TGGTGGCTATGCCACAAATATCTGTTC
1 TGGTGGCTCTGCCAC-AATATCTTTTC
48213643 TGGTGGCTCTGCCACAATATCTTTATC
1 TGGTGGCTCTGCCACAATATCTTT-TC
* *
48213670 TGGTGACTCTG-CACAATATCTGTTC
1 TGGTGGCTCTGCCACAATATCTTTTC
48213695 T
1 T
48213696 AGCAGCCATG
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
25 3 0.04
26 19 0.26
27 29 0.39
28 23 0.31
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACAATATCTTTTC
Found at i:48222476 original size:34 final size:34
Alignment explanation
Indices: 48222438--48222502 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
48222428 TTCACTCAGA
48222438 TAAAATCATCATTCATACTTGCATACAAACTGTC
1 TAAAATCATCATTCATACTTGCATACAAACTGTC
48222472 TAAAATCATCATTCATACTTGCATACAAACT
1 TAAAATCATCATTCATACTTGCATACAAACT
48222503 ATCTCATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (34 bp):
TAAAATCATCATTCATACTTGCATACAAACTGTC
Found at i:48232944 original size:34 final size:34
Alignment explanation
Indices: 48232901--48232970 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
48232891 AATTTTCAAA
*
48232901 AGAATGACCTTCCCCATGATACACACAGGAAACT
1 AGAATGACCTTCCCCACGATACACACAGGAAACT
48232935 AGAATGACCTTCCCCACGATACACACAGGAAACT
1 AGAATGACCTTCCCCACGATACACACAGGAAACT
48232969 AG
1 AG
48232971 TTCAAACGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.30, G:0.16, T:0.16
Consensus pattern (34 bp):
AGAATGACCTTCCCCACGATACACACAGGAAACT
Found at i:48238314 original size:16 final size:16
Alignment explanation
Indices: 48238283--48238332 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
48238273 TTAATTAATT
*
48238283 TTTTAAAATTTAAAAA
1 TTTTAAAAATTAAAAA
48238299 TTTTAAAAATTCAAAAA
1 TTTTAAAAATT-AAAAA
**
48238316 AATTAAAACATTAAAAA
1 TTTTAAAA-ATTAAAAA
48238333 ATATAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.34
17 16 0.55
18 3 0.10
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTTAAAAATTAAAAA
Found at i:48238341 original size:18 final size:17
Alignment explanation
Indices: 48238303--48238347 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
48238293 TAAAAATTTT
*
48238303 AAAAATTCAAAAAAATTA
1 AAAAATT-AAAAAAATAA
*
48238321 AAACATTAAAAAATATAA
1 AAAAATTAAAAAA-ATAA
48238339 AAAAATTAA
1 AAAAATTAA
48238348 TATTGTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATTAAAAAAATAA
Found at i:48239388 original size:16 final size:17
Alignment explanation
Indices: 48239355--48239388 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48239345 GTAATTAATA
*
48239355 AAATATTGTAAAATTAT
1 AAATATTGTAAAACTAT
48239372 AAATATT-TAAAACTAT
1 AAATATTGTAAAACTAT
48239388 A
1 A
48239389 CAAATCTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATATTGTAAAACTAT
Found at i:48246948 original size:17 final size:16
Alignment explanation
Indices: 48246909--48246948 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
48246899 AACATAGTCC
48246909 AATATATATATAAAGA
1 AATATATATATAAAGA
*
48246925 AATTATATATATACAGA
1 AA-TATATATATAAAGA
48246942 ACATATA
1 A-ATATA
48246949 ACGGAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.86
18 1 0.05
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
AATATATATATAAAGA
Found at i:48251843 original size:27 final size:27
Alignment explanation
Indices: 48251803--48251913 Score: 104
Period size: 27 Copynumber: 4.1 Consensus size: 27
48251793 AGGAAGCGTC
*
48251803 CTGGTGGCTATGCCACAGT-TATCTGAT
1 CTGGTGGCTCTGCCACA-TATATCTGAT
* *
48251830 GTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
48251857 CTGGTGGCTCTGCCATGAT-TATCT-ATT
1 CTGGTGGCTCTGCCA-CATATATCTGA-T
* * *
48251884 CTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
48251910 CTGG
1 CTGG
48251914 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
26 13 0.19
27 55 0.79
28 2 0.03
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:48256653 original size:28 final size:28
Alignment explanation
Indices: 48256617--48256674 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
48256607 ACCTGGGCTT
* *
48256617 AAACGAGAAGTAACGAAGTTTGTAGGGA
1 AAACAAGAAGTAACGAAGTTTGTAAGGA
48256645 AAACAAGAAGTAACGAAGTTTGTAAGGA
1 AAACAAGAAGTAACGAAGTTTGTAAGGA
48256673 AA
1 AA
48256675 TGTCTGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.48, C:0.07, G:0.28, T:0.17
Consensus pattern (28 bp):
AAACAAGAAGTAACGAAGTTTGTAAGGA
Found at i:48260566 original size:42 final size:41
Alignment explanation
Indices: 48260461--48260605 Score: 143
Period size: 41 Copynumber: 3.5 Consensus size: 41
48260451 TCCGACTCTT
* * * ** *
48260461 AGCACCGGCTCAAAAGCCCTTCGAGACCAAGCTTAGATTA-G
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAG-TCCGGTTATG
* *
48260502 A-CTACTGGCTCGAAGGCCCTTCGAAACTAAGTCCGGTTATG
1 AGC-ACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATG
* *
48260543 A-CACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATT
1 AGCACTGGCTC--AAAAGCCCTTCGAAACTAAGTCCGGTTATG
48260585 AGCACTGGCTCAAAAGCCCTT
1 AGCACTGGCTCAAAAGCCCTT
48260606 TGAGACCAAG
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
40 14 0.16
41 37 0.43
42 27 0.31
43 9 0.10
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATG
Found at i:48263341 original size:27 final size:26
Alignment explanation
Indices: 48263261--48263345 Score: 107
Period size: 27 Copynumber: 3.2 Consensus size: 26
48263251 AGGAAGCGTC
* *
48263261 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
48263288 CTAGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
48263315 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
48263342 CTGG
1 CTGG
48263346 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.04
27 46 0.92
28 2 0.04
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:48264364 original size:14 final size:15
Alignment explanation
Indices: 48264347--48264375 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48264337 TCACGAAAAT
48264347 TTCACACAT-ATAAA
1 TTCACACATAATAAA
48264361 TTCACACATAATAAA
1 TTCACACATAATAAA
48264376 CACAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48271907 original size:14 final size:15
Alignment explanation
Indices: 48271890--48271918 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48271880 TCACGAAAAT
48271890 TTCACACAT-ATAAA
1 TTCACACATAATAAA
48271904 TTCACACATAATAAA
1 TTCACACATAATAAA
48271919 CACAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48274778 original size:47 final size:46
Alignment explanation
Indices: 48274676--48274927 Score: 196
Period size: 47 Copynumber: 5.4 Consensus size: 46
48274666 ACGCCAATCC
* ** * *
48274676 AAGACATGTCTGGGACATGCTTCGGCCACA-TTATGAGAGCCAGAGT
1 AAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGTGCCAGTGT
* *
48274722 AAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCTAGAGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGTGCCAGTGT
*
48274770 AAGACATGTTTGGGACATGCATCGGCCTCGACAGAGAT-A-T-CCAGTGT
1 AAGACATGTCTGGGACATGCATCGG---C-ACAGAGATGAGTGCCAGTGT
* * * *
48274817 AAGACGTGTCTGGGACACGCATCGGCTA-AGAG-T-TGTG-TAGTGT
1 AAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGTGCCAGTGT
* * * *
48274860 AAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGTGCCAGTGT
*
48274908 AAGACCATGTCTCGGACATG
1 AAGA-CATGTCTGGGACATG
48274928 GCTAAGCCCA
Statistics
Matches: 167, Mismatches: 23, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.01
43 33 0.20
44 2 0.01
45 2 0.01
46 12 0.07
47 60 0.36
48 32 0.19
49 16 0.10
50 8 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCACAGAGATGAGTGCCAGTGT
Found at i:48274938 original size:23 final size:23
Alignment explanation
Indices: 48274907--48274952 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
48274897 AGAGCCAGTG
48274907 TAAGACCATGTCTCGGACATGGC
1 TAAGACCATGTCTCGGACATGGC
*
48274930 TAAGCCCATGTCTCGGACATGGC
1 TAAGACCATGTCTCGGACATGGC
48274953 ATCGGCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (23 bp):
TAAGACCATGTCTCGGACATGGC
Found at i:48292099 original size:39 final size:39
Alignment explanation
Indices: 48292045--48292870 Score: 1584
Period size: 39 Copynumber: 21.2 Consensus size: 39
48292035 ATTTGATGTG
48292045 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
48292084 TATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAATTA
48292123 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292162 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292201 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292240 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292279 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292318 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292357 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292396 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292435 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292474 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292513 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292552 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292591 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292630 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292669 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292708 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292747 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
48292786 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
48292825 TATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAATTA
48292864 TATCCGG
1 TATCCGG
48292871 GCCAAAGTCC
Statistics
Matches: 778, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
38 2 0.00
39 775 1.00
40 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:48292884 original size:39 final size:39
Alignment explanation
Indices: 48292841--48292935 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
48292831 GACTTAGGGT
48292841 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTC
**
48292880 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTC
*
48292919 CCGCAGGCTTTGTGCTG
1 CCGCAGGCTTCGTGCTG
48292936 ATAATATAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTC
Found at i:48307056 original size:40 final size:40
Alignment explanation
Indices: 48307011--48307202 Score: 206
Period size: 40 Copynumber: 4.8 Consensus size: 40
48307001 TATAACCACA
** *
48307011 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * * *
48307051 CGCACAAATGCCTTTGGATCTTAGTCTGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
48307091 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
*
48307131 CA-CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 -AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
48307171 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
48307203 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:48307131 original size:80 final size:80
Alignment explanation
Indices: 48306983--48307203 Score: 293
Period size: 80 Copynumber: 2.8 Consensus size: 80
48306973 ACCCAAGTTT
* * * * *
48306983 CTTCGGAAT-TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAG
1 CTTCGG-ATCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAG
* *
48307046 TAACTCGCACAAATGC
65 CAACTCACACAAATGC
* * * * *
48307062 CTTTGGATCTTAGTCTGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
48307127 AACTCACACAAATGC
66 AACTCACACAAATGC
* *
48307142 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48307204 CATTCAAATG
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
78 2 0.02
79 9 0.07
80 111 0.91
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
AACTCACACAAATGC
Found at i:48311382 original size:26 final size:26
Alignment explanation
Indices: 48311346--48311407 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
48311336 GGGTGTTACA
*
48311346 AAAATTTTGACAATTTTACCCTTAAT
1 AAAATTTTGACAATTTTACCCTCAAT
* *
48311372 AAAATTTTGACGATTTTACCCTCAGT
1 AAAATTTTGACAATTTTACCCTCAAT
*
48311398 AAGATTTTGA
1 AAAATTTTGA
48311408 GAAAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (26 bp):
AAAATTTTGACAATTTTACCCTCAAT
Found at i:48311549 original size:6 final size:6
Alignment explanation
Indices: 48311535--48311573 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
48311525 GGATTGCAAG
* *
48311535 TTTCGA TTTCCA TTTCCA TTTCCA TTTCCA TTTCTA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
48311574 TTTGAAACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:48315578 original size:34 final size:34
Alignment explanation
Indices: 48315535--48315600 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
48315525 AGTGTTTTGT
* * *
48315535 AAATAATGAGTTATTTTATGGCTGAATGTTGTGC
1 AAATAATGAGCTATTTTACGACTGAATGTTGTGC
* *
48315569 AAATGATGAGCTCTTTTACGACTGAATGTTGT
1 AAATAATGAGCTATTTTACGACTGAATGTTGT
48315601 TGTATCATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (34 bp):
AAATAATGAGCTATTTTACGACTGAATGTTGTGC
Found at i:48322117 original size:161 final size:161
Alignment explanation
Indices: 48321852--48322174 Score: 637
Period size: 161 Copynumber: 2.0 Consensus size: 161
48321842 ATGAATGAGA
48321852 AAGATTTTAGCAGAATTAACACAATAAGAAACAATTTTAACATAAATAAGCTAGGACAATTACTT
1 AAGATTTTAGCAGAATTAACACAATAAGAAACAATTTTAACATAAATAAGCTAGGACAATTACTT
48321917 TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
66 TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
48321982 TCTTTCATGAGTTTGGAAACCACGTTAGGTC
131 TCTTTCATGAGTTTGGAAACCACGTTAGGTC
*
48322013 AAGATTTTAGCAGAATTAACACAATAAGCAACAATTTTAACATAAATAAGCTAGGACAATTACTT
1 AAGATTTTAGCAGAATTAACACAATAAGAAACAATTTTAACATAAATAAGCTAGGACAATTACTT
48322078 TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
66 TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
48322143 TCTTTCATGAGTTTGGAAACCACGTTAGGTC
131 TCTTTCATGAGTTTGGAAACCACGTTAGGTC
48322174 A
1 A
48322175 TTTCGGAATC
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (161 bp):
AAGATTTTAGCAGAATTAACACAATAAGAAACAATTTTAACATAAATAAGCTAGGACAATTACTT
TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
TCTTTCATGAGTTTGGAAACCACGTTAGGTC
Found at i:48325514 original size:29 final size:28
Alignment explanation
Indices: 48325478--48325555 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
48325468 TCATGAGATT
48325478 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
48325508 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
48325535 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
48325556 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:48325773 original size:174 final size:174
Alignment explanation
Indices: 48325508--48326009 Score: 977
Period size: 174 Copynumber: 2.9 Consensus size: 174
48325498 AAATTGTACA
*
48325508 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
48325573 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACTGAGTCGA
*
48325638 TTTTGGACAGCGGAAAAGATAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
48325682 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
48325747 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACTGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACTGAGTCGA
48325812 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
48325856 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
48325921 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACTGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACTGAGTCGA
48325986 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
48326010 ACCTTGAGTT
Statistics
Matches: 325, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 325 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACTGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:48326111 original size:88 final size:88
Alignment explanation
Indices: 48325962--48326133 Score: 317
Period size: 88 Copynumber: 2.0 Consensus size: 88
48325952 TATTTATATT
* *
48325962 AAGGGTGCGACTTTACTGAGTCGATTTTGGACAGCGGAAAAGGTAAGTACCTTGAGTTCATGGCT
1 AAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTACCTTGAGTTCATGGCT
48326027 AATAGGCGCTATGTTTATACATG
66 AATAGGCGCTATGTTTATACATG
*
48326050 AAGGGTGTGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTACCTTGAGTTCATGGCT
1 AAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTACCTTGAGTTCATGGCT
48326115 AATAGGCGCTATGTTTATA
66 AATAGGCGCTATGTTTATA
48326134 TTTGGAGTTG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (88 bp):
AAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTACCTTGAGTTCATGGCT
AATAGGCGCTATGTTTATACATG
Found at i:48344075 original size:17 final size:16
Alignment explanation
Indices: 48344052--48344086 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
48344042 AGAATAATGA
48344052 AATCAGCAGGAAAAAT
1 AATCAGCAGGAAAAAT
48344068 ANATCAGCAGGAAAAAT
1 A-ATCAGCAGGAAAAAT
48344085 AA
1 AA
48344087 ATTTATCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.57, C:0.11, G:0.17, T:0.11
Consensus pattern (16 bp):
AATCAGCAGGAAAAAT
Found at i:48353275 original size:37 final size:37
Alignment explanation
Indices: 48353193--48353313 Score: 156
Period size: 37 Copynumber: 3.3 Consensus size: 37
48353183 GTACATGGCT
*
48353193 ATGGCATAATCCAA-GGAGGTTCGCCAGA-TTGCCTAC
1 ATGGCATAAT-CAAGGGAGGTTCGCCAAACTTGCCTAC
* *
48353229 ATGGCATAATCAAGGGAGGTTCGCCAAACTTTCTTAC
1 ATGGCATAATCAAGGGAGGTTCGCCAAACTTGCCTAC
* * **
48353266 ATGGCATAATCAAGGAAGGTCCGTTAAACTTGCCTAC
1 ATGGCATAATCAAGGGAGGTTCGCCAAACTTGCCTAC
48353303 ATGGCATAATC
1 ATGGCATAATC
48353314 TAGGTCCGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
35 3 0.04
36 23 0.31
37 48 0.65
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (37 bp):
ATGGCATAATCAAGGGAGGTTCGCCAAACTTGCCTAC
Found at i:48355140 original size:43 final size:43
Alignment explanation
Indices: 48355058--48355143 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
48355048 GCAACTAGAG
*
48355058 AACTAATTAACTTCAACCATCTGAATGATTATCGATTTACTAT
1 AACTAATTAACTTCAACCATCTAAATGATTATCGATTTACTAT
* * * * *
48355101 AACTGATTAGCTTCGACCATCTAAATGATTGTCGGTTTACTAT
1 AACTAATTAACTTCAACCATCTAAATGATTATCGATTTACTAT
48355144 CAAAATTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (43 bp):
AACTAATTAACTTCAACCATCTAAATGATTATCGATTTACTAT
Found at i:48355561 original size:34 final size:34
Alignment explanation
Indices: 48355518--48355620 Score: 163
Period size: 34 Copynumber: 3.0 Consensus size: 34
48355508 TAAGTAGTTA
*
48355518 ATTAAGTAAAAAGGAATAAATCGTAAAATA-TGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAA-AGTGTG
*
48355552 ATTAAGTAAAAAGGACTCAATCGTAAAAAGTGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
*
48355586 ATTAAGTAAAAATGACTAAATCGTAAAAAGTGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
48355620 A
1 A
48355621 AAGTTGAGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
33 1 0.02
34 63 0.98
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.25
Consensus pattern (34 bp):
ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
Found at i:48355794 original size:32 final size:31
Alignment explanation
Indices: 48355731--48355799 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
48355721 TGGATAGGTT
*
48355731 TTAATGTAATTATGATAATTTTTAAAAGTTAA
1 TTAA-GTAATTATGATAATTGTTAAAAGTTAA
*
48355763 TTAAGTAATT-TGATAATTAAGTTAAATGTTAA
1 TTAAGTAATTATGATAATT--GTTAAAAGTTAA
48355795 TTAAG
1 TTAAG
48355800 AAAAAGATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 8 0.24
31 6 0.18
32 19 0.58
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (31 bp):
TTAAGTAATTATGATAATTGTTAAAAGTTAA
Found at i:48355795 original size:16 final size:16
Alignment explanation
Indices: 48355752--48355799 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
48355742 ATGATAATTT
*
48355752 TTAAAAGTTAATTAAG
1 TTAAATGTTAATTAAG
* *
48355768 -TAATTTGATAATTAAG
1 TTAA-ATGTTAATTAAG
48355784 TTAAATGTTAATTAAG
1 TTAAATGTTAATTAAG
48355800 AAAAAGATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
15 3 0.12
16 19 0.76
17 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
TTAAATGTTAATTAAG
Found at i:48356658 original size:39 final size:40
Alignment explanation
Indices: 48356595--48356702 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
48356585 GGTACCCCTA
* * * *
48356595 ATTGTACATACATGCCCCTGTTTGTACTTT-GCAACCCTG
1 ATTGCACATACGTGCCCCTATTTGTACTTTAGCAACCCAG
* * *
48356634 ATTGCACGTACGTGCCCCTATTTGTACTTTAGTACCCCAG
1 ATTGCACATACGTGCCCCTATTTGTACTTTAGCAACCCAG
* * *
48356674 ATTGCACATATGTACCCCTAATTGTACTT
1 ATTGCACATACGTGCCCCTATTTGTACTT
48356703 CGGTGCCCTG
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 26 0.46
40 31 0.54
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTATTTGTACTTTAGCAACCCAG
Found at i:48363724 original size:16 final size:16
Alignment explanation
Indices: 48363695--48363728 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48363685 AGTACTAATT
* *
48363695 TAGTTTATTGTTAAAC
1 TAGTTGATTATTAAAC
48363711 TAGTTGATTATTAAAC
1 TAGTTGATTATTAAAC
48363727 TA
1 TA
48363729 TGAGCCAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
TAGTTGATTATTAAAC
Found at i:48367556 original size:24 final size:22
Alignment explanation
Indices: 48367529--48367582 Score: 54
Period size: 24 Copynumber: 2.4 Consensus size: 22
48367519 TAAGGATGTT
48367529 TAAAAATAAAATTTAAGAACTAA
1 TAAAAATAAAATTTAA-AACTAA
* **
48367552 CTAAACATAATGTTTAAAACTAA
1 -TAAAAATAAAATTTAAAACTAA
*
48367575 TAATAATA
1 TAAAAATA
48367583 CATATGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 13 0.52
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (22 bp):
TAAAAATAAAATTTAAAACTAA
Found at i:48372413 original size:43 final size:43
Alignment explanation
Indices: 48372357--48372444 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
48372347 TACTTTATTG
48372357 ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
1 ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
48372400 ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
1 ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
48372443 AT
1 AT
48372445 GCATAAGAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (43 bp):
ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
Found at i:48374028 original size:3 final size:3
Alignment explanation
Indices: 48373978--48374010 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
48373968 TGTACTTTTA
*
48373978 TAT T-T TAT TAT CAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
48374011 TATGTTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:48374247 original size:3 final size:3
Alignment explanation
Indices: 48374241--48374289 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
48374231 TCATGATTTG
48374241 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48374289 A
1 A
48374290 CTGCAGTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:48374331 original size:31 final size:31
Alignment explanation
Indices: 48374296--48374358 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
48374286 ATTACTGCAG
*
48374296 TATTCCTTTTTTATTATATATTATTCTAATA
1 TATTCCTTATTTATTATATATTATTCTAATA
48374327 TATTCCTTATTTATTATATATTATTCTAATA
1 TATTCCTTATTTATTATATATTATTCTAATA
48374358 T
1 T
48374359 TCTACTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (31 bp):
TATTCCTTATTTATTATATATTATTCTAATA
Found at i:48374367 original size:31 final size:31
Alignment explanation
Indices: 48374241--48374367 Score: 101
Period size: 31 Copynumber: 4.3 Consensus size: 31
48374231 TCATGATTTG
* *
48374241 ATTA-TTA-TTATTAT-TATTATTATTAT-T
1 ATTACTTATTTATTATATATTATTCTAATAT
* *
48374268 ATTA-TTA-TTATTAT-TATTATTACTGCA-GT
1 ATTACTTATTTATTATATATTATT-CT-AATAT
* *
48374297 ATTCCTTTTTTATTATATATTATTCTAATAT
1 ATTACTTATTTATTATATATTATTCTAATAT
*
48374328 ATTCCTTATTTATTATATATTATTCTAATAT
1 ATTACTTATTTATTATATATTATTCTAATAT
48374359 -TCTACTTAT
1 AT-TACTTAT
48374368 ATAGCCATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
27 21 0.25
28 1 0.01
29 5 0.06
30 4 0.05
31 46 0.55
32 7 0.08
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (31 bp):
ATTACTTATTTATTATATATTATTCTAATAT
Found at i:48376306 original size:41 final size:41
Alignment explanation
Indices: 48376247--48376329 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
48376237 AAAAAGTAGA
* **
48376247 TAGTAAATGTATCGCTTGGAAAAGCTTGCGGGATTTGATCT
1 TAGTAAATGTATCCCTTGGAAAAGCTTGCAAGATTTGATCT
48376288 TAGTAAATGTATCCCTTGGAAAAGCTTGCAAGATTTGATCT
1 TAGTAAATGTATCCCTTGGAAAAGCTTGCAAGATTTGATCT
48376329 T
1 T
48376330 GGCACATCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (41 bp):
TAGTAAATGTATCCCTTGGAAAAGCTTGCAAGATTTGATCT
Found at i:48387007 original size:53 final size:55
Alignment explanation
Indices: 48386938--48387144 Score: 186
Period size: 53 Copynumber: 3.8 Consensus size: 55
48386928 TTCCTTTTTA
* *
48386938 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * *
48386991 AACTCACCATTGCCATGTCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
** * * * * * * **
48387046 AGTTTATCAATGCCATGTCTTGACATGGTCTCACATGATTTCCTTGCCTTGT-AA
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * * * * *
48387100 AACTTACCAATGTCTTGCCTTGGCATGTTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
48387145 AAACCTTAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 46 0.38
54 34 0.28
55 40 0.33
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
Found at i:48387093 original size:55 final size:53
Alignment explanation
Indices: 48386950--48387144 Score: 174
Period size: 55 Copynumber: 3.6 Consensus size: 53
48386940 CTTACCATTT
* *
48386950 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
* * * ** * *
48387003 CCATGTCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATG
* * * * * *
48387058 CCATGTCTTGACATGGTCTCACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
* * * * * *
48387112 TCTTGCCTTGGCATGTTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
48387145 AAACCTTAAT
Statistics
Matches: 110, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 36 0.33
54 34 0.31
55 40 0.36
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:48390216 original size:44 final size:44
Alignment explanation
Indices: 48390168--48390800 Score: 442
Period size: 44 Copynumber: 13.9 Consensus size: 44
48390158 TCTTGAAGTC
* *
48390168 GAGCAGATTAAAGCTGTAAATCTTATCTCTCTGAAGTTGCAGTA
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* *
48390212 GAGCAGATTGAAGCTACAAATCTTATCT-TCCTGAAGTTGCAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCT-CTGAAGTTGCAGTG
* *
48390256 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
**
48390300 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTT-CAAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGC-AGTG
* * * * *
48390344 GAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTACAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
*
48390388 GAGCAGATTAAAGCTGTAAATTACAAATCTTACCT-TCCTGAAGTTGCAGTG
1 GAGCAGATTAAAGC--T--A-T--AAATCTTATCTCT-CTGAAGTTGCAGTG
* * *
48390439 GAGTAGATTGAAA--TGATAAGTCCTATAC-CTCTGAAGTTGCAGTAG
1 GAGCAGATT-AAAGCT-ATAAATCTTAT-CTCTCTGAAGTTGCAGT-G
* *
48390484 G-TCAGATTAAATCTACCATAGCAAGTCTTATCTC-CTTGAAGTTGCAGTG
1 GAGCAGATTAAAGCT---ATA--AA-TCTTATCTCTC-TGAAGTTGCAGTG
* * * *
48390533 GAATAGACTAAAGCTACAAGCTACAAATCTTATCTC-CTTGAAATTGCAGTG
1 G---AG-C-AGA-TTA-AAGCTATAAATCTTATCTCTC-TGAAGTTGCAGTG
* * * ** * * *
48390584 GAGTAGATTGAAGATACGAGTCTCATCTCCCTGAAGTTGCAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* * * * * * *
48390628 GAACAGATTGAAGTTATAATTCTTATCTCCCTGAAGTTGTAGTT
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* ** * * * *
48390672 GAGCGGATTGGAGCTACAAATTTTATCTCCCTGAAGTTGTAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* * *
48390716 GAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAGTG
1 GAGCAGATT-AAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* * * *
48390760 GAGCAGATTAAAACTACAAGTCTAATCTC-CTTGAAGTTGCA
1 GAGCAGATTAAAGCTATAAATCTTATCTCTC-TGAAGTTGCA
48390801 ATGGGTTAGA
Statistics
Matches: 478, Mismatches: 74, Indels: 74
0.76 0.12 0.12
Matches are distributed among these distances:
43 8 0.02
44 356 0.74
45 9 0.02
46 4 0.01
47 4 0.01
48 4 0.01
49 5 0.01
50 18 0.04
51 54 0.11
52 5 0.01
54 3 0.01
55 2 0.00
56 2 0.00
57 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
Found at i:48390260 original size:88 final size:88
Alignment explanation
Indices: 48390168--48390800 Score: 501
Period size: 88 Copynumber: 7.0 Consensus size: 88
48390158 TCTTGAAGTC
* * *
48390168 GAGCAGATTAAAGCTGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAAT
1 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
48390233 CTTATCTTCCTGAAGTTGCAGTG
66 CTTATCTTCCTGAAGTTGCAGTG
*
48390256 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAAT
1 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
48390321 CTTATC-TCTCTGAAGTT-CAAGTG
66 CTTATCTTC-CTGAAGTTGC-AGTG
* ** * *
48390344 GAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTGTAAAT
1 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-------
*
48390409 TACAAATCTTACCTTCCTGAAGTTGCAGTG
59 TACAAATCTTATCTTCCTGAAGTTGCAGTG
* * * * * *
48390439 GAGTAGATTGAAA--TGATAAGTCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATCTAC
1 GAGCAGATT-AAAGCTG-TAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGCTA-
48390500 CATAGCAAGTCTTATC-TCCTTGAAGTTGCAGTG
61 C--A--AA-TCTTATCTTCC-TGAAGTTGCAGTG
** * * * * * *
48390533 GAATAGACTAAAGCTACAAGCTACAAATCTTATCTCCTTGAAATTGCAGTGGAGTAGATTGAAGA
1 GAGCAGATTAAAGCT----G-T--AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * * *
48390598 TACGAGTCTCATCTCCCTGAAGTTGCAGTG
59 TACAAATCTTATCTTCCTGAAGTTGCAGTG
* * * * * * * * **
48390628 GAACAGATTGAAGTTATAATTCTTATCTCCCTGAAGTTGTAGTTGAGCGGATTGGAGCTACAAAT
1 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* * *
48390693 TTTATCTCCCTGAAGTTGTAGTG
66 CTTATCTTCCTGAAGTTGCAGTG
* ** ** * *
48390716 GAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAACTACAAG
1 GAGCAGATT-AAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
*
48390780 TCTAATC-TCCTTGAAGTTGCA
65 TCTTATCTTCC-TGAAGTTGCA
48390801 ATGGGTTAGA
Statistics
Matches: 434, Mismatches: 76, Indels: 70
0.75 0.13 0.12
Matches are distributed among these distances:
87 5 0.01
88 253 0.58
89 3 0.01
90 1 0.00
91 1 0.00
93 8 0.02
94 27 0.06
95 91 0.21
96 11 0.03
99 2 0.00
100 4 0.01
101 28 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (88 bp):
GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
CTTATCTTCCTGAAGTTGCAGTG
Found at i:48390304 original size:132 final size:134
Alignment explanation
Indices: 48390168--48390800 Score: 536
Period size: 132 Copynumber: 4.6 Consensus size: 134
48390158 TCTTGAAGTC
* *
48390168 GAGCAGATTAAAGCTGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAAT
1 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
48390233 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTG-T-AAATCTTATCTCCCTGAAGTTGC
66 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTTGC
48390296 AGTG
131 AGTG
48390300 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTT-CAAGTGGAGCAGATTGAAGCTACAAA
1 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGC-AGTGGAGCAGATTGAAGCTACAAA
* * * * *
48390364 TCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTGTAAATTACAAATCTTACCTTCCTGA
65 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTG---A-TA-AAATCTTATCTCCCTGA
48390429 AGTTGCAGTG
125 AGTTGCAGTG
* * * * *
48390439 GAGTAGATTGAAA--TG-ATAAGTCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATCTA
1 GAGCAGATT-AAAGCTGCA-AA-TCTTAT-CTCTCTGAAGTTGCAGT-GGAGCAGATTGAAGCTA
** * *
48390499 CCATAGCAAGTCTTATC-TCCTTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACAAATCT
61 -C--A--AA-TCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCT----GATA-AAATCT
* *
48390563 TATCTCCTTGAAATTGCAGTG
114 TATCTCCCTGAAGTTGCAGTG
* * * * * * * * * * * *
48390584 GAGTAGATTGAAGATACGAGTCTCATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAATT
1 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * * * ** * * *
48390649 CTTATCTCCCTGAAGTTGTAGTTGAGCGGATTGGAGCT-A-CAAATTTTATCTCCCTGAAGTTGT
66 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTTGC
48390712 AGTG
131 AGTG
* * * * * *
48390716 GAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAACTACAAG
1 GAGCAGATT-AAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
*
48390780 TCTAATC-TCCTTGAAGTTGCA
65 TCTTATCTTCC-TGAAGTTGCA
48390801 ATGGGTTAGA
Statistics
Matches: 400, Mismatches: 68, Indels: 66
0.75 0.13 0.12
Matches are distributed among these distances:
131 3 0.01
132 182 0.46
133 2 0.00
137 2 0.00
138 4 0.01
139 89 0.22
140 11 0.03
142 2 0.00
144 9 0.02
145 93 0.23
146 2 0.00
149 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (134 bp):
GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTTGC
AGTG
Found at i:48390531 original size:50 final size:49
Alignment explanation
Indices: 48390470--48390590 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 49
48390460 CCTATACCTC
* * * *
48390470 TGAAGTTGCAGTAGG-TCAGATTAAATCTACCA-TAGCAAGTCTTATCTCCT
1 TGAAGTTGCAGT-GGAT-AGACTAAAGCTACAACTA-CAAATCTTATCTCCT
48390520 TGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACAAATCTTATCTCCT
1 TGAAGTTGCAGTGG-ATAGACTAAAGCTACAA-CTACAAATCTTATCTCCT
*
48390571 TGAAATTGCAGTGGAGTAGA
1 TGAAGTTGCAGTGGA-TAGA
48390591 TTGAAGATAC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
49 2 0.03
50 25 0.41
51 32 0.52
52 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (49 bp):
TGAAGTTGCAGTGGATAGACTAAAGCTACAACTACAAATCTTATCTCCT
Found at i:48392641 original size:14 final size:14
Alignment explanation
Indices: 48392622--48392650 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48392612 GATGGCTTCC
48392622 ATGTTTCTTGTGGG
1 ATGTTTCTTGTGGG
48392636 ATGTTTCTTGTGGG
1 ATGTTTCTTGTGGG
48392650 A
1 A
48392651 CTAGTCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.34, T:0.48
Consensus pattern (14 bp):
ATGTTTCTTGTGGG
Found at i:48401447 original size:33 final size:33
Alignment explanation
Indices: 48401405--48401471 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
48401395 AATGTGGAAG
48401405 TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
1 TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
48401438 TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
1 TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
48401471 T
1 T
48401472 ACTTCCAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.06, C:0.24, G:0.15, T:0.55
Consensus pattern (33 bp):
TGTGCTCTTGTTTCCTCCTTTTTTGACTTGTCA
Found at i:48408103 original size:103 final size:104
Alignment explanation
Indices: 48407859--48408124 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
48407849 GTTGTACATA
** *
48407859 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
48407924 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
48407963 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
48408027 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
48408066 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
48408125 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:48415593 original size:103 final size:104
Alignment explanation
Indices: 48415349--48415614 Score: 401
Period size: 103 Copynumber: 2.6 Consensus size: 104
48415339 GTTGTACATA
** *
48415349 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* ** *
48415414 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCAC
*
48415453 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
*
48415517 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCAT
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCAC
* * *
48415556 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
48415615 AATAACGGTT
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
103 81 0.55
104 66 0.45
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCAC
Found at i:48415604 original size:32 final size:27
Alignment explanation
Indices: 48415528--48415604 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 27
48415518 CTGAAATAAA
*
48415528 AAGGGGGTTGCTATGTGCTGATTCCCAT
1 AAGGGGG-TGCTAAGTGCTGATTCCCAT
*
48415556 AAGGGGTTGCTAAGTGCTGATTCCCCGATT
1 AAGGGGGTGCTAAGTGCTGATT-CCC-A-T
48415586 AAGTGGTGGTGCTAAGTGC
1 AAG-GG-GGTGCTAAGTGC
48415605 GAGATCCACC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 14 0.34
28 9 0.22
29 1 0.02
30 4 0.10
31 2 0.05
32 11 0.27
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (27 bp):
AAGGGGGTGCTAAGTGCTGATTCCCAT
Found at i:48430298 original size:46 final size:46
Alignment explanation
Indices: 48430231--48430323 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
48430221 CTCGGAGCTC
48430231 TCCCATGTATGCTCTTTCCATGAATAAGAAACTAATTAAATCTATT
1 TCCCATGTATGCTCTTTCCATGAATAAGAAACTAATTAAATCTATT
48430277 TCCCATGTATGCTCTTTCCATGAATAAGAAACTAATTAAATCTATT
1 TCCCATGTATGCTCTTTCCATGAATAAGAAACTAATTAAATCTATT
48430323 T
1 T
48430324 TGCCAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (46 bp):
TCCCATGTATGCTCTTTCCATGAATAAGAAACTAATTAAATCTATT
Found at i:48431250 original size:51 final size:50
Alignment explanation
Indices: 48431178--48431290 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 50
48431168 CCCTTTTAAA
* * ** *
48431178 ATTAAAAAAAATGGATGTTGGGACATTGATGGCCGACACCCTTATACTAG
1 ATTAAAAAAATTGGATGTTGGGACACTGATGGCCGACACCCCAATACCAG
* *
48431228 ATTAAAAAAATTAGGGTGTTGGGACACTGATGGCCGGCACCCCAATACCAG
1 ATTAAAAAAATT-GGATGTTGGGACACTGATGGCCGACACCCCAATACCAG
48431279 ATTTAAAAAAAT
1 A-TTAAAAAAAT
48431291 AATGTTGAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 11 0.20
51 33 0.61
52 10 0.19
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (50 bp):
ATTAAAAAAATTGGATGTTGGGACACTGATGGCCGACACCCCAATACCAG
Found at i:48436680 original size:13 final size:13
Alignment explanation
Indices: 48436664--48436693 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
48436654 ATTGTCATGT
48436664 AATTGTTTTTCTG
1 AATTGTTTTTCTG
48436677 AATTGTTTTTCTG
1 AATTGTTTTTCTG
48436690 AATT
1 AATT
48436694 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:48437662 original size:82 final size:80
Alignment explanation
Indices: 48437571--48437820 Score: 175
Period size: 82 Copynumber: 3.1 Consensus size: 80
48437561 CATATAAGAA
*
48437571 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATA-TTAATAATAATTATG
48437636 TTTAAATATGATTAAAT
64 TTTAAATATGATTAAAT
* * * * * * * * *
48437653 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A-TAACAATAA-TA-A
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTAATAATAATTATG
*
48437710 TTTACCAA-A--A-CAAAT
64 TTTA--AATATGATTAAAT
* *
48437725 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGGTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATAT-ATTAATAATAAT
*
48437789 TATGTTTAAATATGATTAAAA
60 TATGTTTAAATATGATTAAAT
48437810 TATTTATTATT
1 TATTTATTATT
48437821 GATAATAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.07
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 5 0.04
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (80 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTAATAATAATTATGTT
TAAATATGATTAAAT
Found at i:48437744 original size:157 final size:157
Alignment explanation
Indices: 48437574--48437883 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
48437564 ATAAGAATAT
* *
48437574 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATAGTTAATAATAATTATGTTT
* *
48437639 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
48437704 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
48437731 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGGTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATAGTTAATAATAATTATGTTT
* *
48437796 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
48437861 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
48437884 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATAGTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:48438034 original size:16 final size:16
Alignment explanation
Indices: 48438013--48438080 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
48438003 GATTTGCTAT
48438013 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48438029 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
48438045 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
48438061 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
48438077 TACA
1 TACA
48438081 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48440802 original size:19 final size:20
Alignment explanation
Indices: 48440761--48440802 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
48440751 ATTTCTATGC
* *
48440761 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
48440781 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
48440800 CAT
1 CAT
48440803 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:48444524 original size:24 final size:24
Alignment explanation
Indices: 48444497--48444542 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48444487 AGAACAGTCC
* *
48444497 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
48444521 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
48444543 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:48452505 original size:83 final size:83
Alignment explanation
Indices: 48452366--48452532 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
48452356 TGTCAGCATC
*
48452366 TGCCTTTAAGGTAGACTTTACCTATTTCATGGTTTCCATGATTCAACTAGCCCTTTTTGCATAAA
1 TGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCCTTTTTGCATAAA
48452431 TAGCACAATTTATGAAAG
66 TAGCACAATTTATGAAAG
48452449 TGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCCTTTTTGCATAAA
1 TGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCCTTTTTGCATAAA
48452514 TAGCACAATTTATGAAAG
66 TAGCACAATTTATGAAAG
48452532 T
1 T
48452533 TATTAACCAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (83 bp):
TGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCCTTTTTGCATAAA
TAGCACAATTTATGAAAG
Found at i:48453271 original size:79 final size:81
Alignment explanation
Indices: 48453169--48453352 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
48453159 GCTCCTCGTT
* *
48453169 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTA-ATTCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTATA-TCGCACAAATGCCTTC-GGATCTTAACC
*
48453231 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
48453249 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATATCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATATCGCACAAATGCCTTCGGATCTTAACCCGG
*
48453313 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
48453329 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48453353 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 12 0.13
79 57 0.62
80 23 0.25
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATATCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:48453287 original size:39 final size:40
Alignment explanation
Indices: 48453169--48453352 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
48453159 GCTCCTCGTT
* * *
48453169 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
48453209 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
48453249 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATA-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTA-ACTCGCA
* * *
48453288 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
48453329 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48453353 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
38 2 0.02
39 49 0.39
40 66 0.52
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:48455886 original size:44 final size:44
Alignment explanation
Indices: 48455838--48456342 Score: 128
Period size: 44 Copynumber: 11.2 Consensus size: 44
48455828 AAGATTGTAG
*
48455838 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* ** * **
48455882 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCAA
** * ** * ** * * * ** * *
48455926 GCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
*
48455970 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAGTCTTATCTTTG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACG----G-C--A-----A
*
48456026 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* * ** * **
48456070 ATCTTATCTTTCC-AAG-A-TAGGGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTA-GTGG-AGCAGATCAAAGACGGCAA
** * ** * ** * * * ** * *
48456114 GCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
*
48456158 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* * ** * **
48456202 ATCTTATCTTTCC-AAG-A-TAGGGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTA-GTGG-AGCAGATCAAAGACGGCAA
** * * * ** * * * ** * *
48456246 GCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
*
48456290 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
*
48456334 GTCTTATCT
1 ATCTTATCT
48456343 TTCCAAGATA
Statistics
Matches: 312, Mismatches: 119, Indels: 60
0.64 0.24 0.12
Matches are distributed among these distances:
42 8 0.03
43 20 0.06
44 218 0.70
45 17 0.05
46 4 0.01
48 1 0.00
49 1 0.00
51 2 0.01
52 1 0.00
56 40 0.13
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
Found at i:48455999 original size:88 final size:88
Alignment explanation
Indices: 48455907--48456189 Score: 232
Period size: 88 Copynumber: 3.1 Consensus size: 88
48455897 GATAGTGGGA
48455907 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTGTAGAT
1 AGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTGTAGAT
48455972 CTTATCTCCCTAAGCAGTAGTGG
66 CTTATCTCCCTAAGCAGTAGTGG
** * ** * ** * * *
48455995 AGCAGATCAAAGACGA-CAAGTCTTATCTTTGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 AGCAGATTTAAG-CCACCAAG-C----C-TTG------TCTCCCGGAGCAGCAGCAGAGTAGGTT
* ** * * * *
48456059 GAAGACGGCAAATCTTATCTTTCC-AAG-A-TAGGGGG
53 AAAGATTGTAGATCTTATC-TCCCTAAGCAGTA-GTGG
48456094 AAGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTGTAGA
1 -AGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTGTAGA
48456159 TCTTATCTCCCTAAGCAGTAGTGG
65 TCTTATCTCCCTAAGCAGTAGTGG
48456183 AGCAGAT
1 AGCAGAT
48456190 CGAAGACGGC
Statistics
Matches: 139, Mismatches: 36, Indels: 40
0.65 0.17 0.19
Matches are distributed among these distances:
87 3 0.02
88 57 0.41
89 7 0.05
90 2 0.01
93 1 0.01
94 6 0.04
95 1 0.01
98 2 0.01
99 7 0.05
100 50 0.36
101 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (88 bp):
AGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTGTAGAT
CTTATCTCCCTAAGCAGTAGTGG
Found at i:48456031 original size:56 final size:56
Alignment explanation
Indices: 48455969--48456080 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
48455959 AAAGATTGTA
*
48455969 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAGTCTTATCTTT
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
* *
48456025 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTT
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
48456081 CCAAGATAGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (56 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
Found at i:48456154 original size:188 final size:188
Alignment explanation
Indices: 48455837--48456212 Score: 716
Period size: 188 Copynumber: 2.0 Consensus size: 188
48455827 GAAGATTGTA
48455837 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
*
48455902 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTG
66 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTG
*
48455967 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAGTCTTATCTTT
131 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
48456025 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
48456090 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTG
66 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTG
* *
48456155 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTT
131 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
48456213 CCAAGATAGG
Statistics
Matches: 184, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (188 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTG
TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTT
Found at i:48456263 original size:132 final size:132
Alignment explanation
Indices: 48456025--48456575 Score: 882
Period size: 132 Copynumber: 4.2 Consensus size: 132
48456015 TCTTATCTTT
*
48456025 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAG
*
48456090 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTG
66 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGATTG
48456155 TA
131 TA
*
48456157 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAG
48456222 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGATTG
66 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGATTG
48456287 TA
131 TA
* *
48456289 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAGTCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAG
* * * * * * *
48456354 TGGGAAGCAAATTTAAGCTACAAAGCCTTGTCTCCCTGAGCAACGGC-G-G-AGG----AGGTTG
66 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGATTG
48456412 TA
131 TA
* * *
48456414 GATCCTATCTCCCTAAGCAGTAGTGGATCAGATCAAAGACGGCAAATCTTATCTTTCCAAAATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAG
* * * *
48456479 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTG
66 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGATTG
48456544 TA
131 TA
48456546 GATCTTATCTCCCTAAGCAGTAGTGGAGCA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCA
48456576 TAGTCTTATC
Statistics
Matches: 388, Mismatches: 24, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
125 109 0.28
126 1 0.00
127 1 0.00
128 3 0.01
129 3 0.01
130 1 0.00
131 1 0.00
132 269 0.69
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAG
GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGATTG
TA
Found at i:48456506 original size:257 final size:261
Alignment explanation
Indices: 48456025--48456575 Score: 876
Period size: 257 Copynumber: 2.1 Consensus size: 261
48456015 TCTTATCTTT
* *
48456025 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAG
* * *
48456090 GGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCGGAGCAGCAGCAGAGTAGGTTAAAGATTG
66 GGGGAAGCAAATTTAAGCCACAAAGCCTTGTCTCCCGGAGCAACAGCAGAGTAGG---AAGATTG
* * *
48456155 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGAT
128 TAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAAAT
*
48456220 AGGGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGGTTAAAGAT
193 AGGGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGAT
48456285 TGTA
258 TGTA
*
48456289 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAGTCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAG
* * * * *
48456354 TGGGAAGCAAATTTAAGCTACAAAGCCTTGTCTCCCTGAGCAACGGC-G-G-AGG-AGGTTGTAG
66 GGGGAAGCAAATTTAAGCCACAAAGCCTTGTCTCCCGGAGCAACAGCAGAGTAGGAAGATTGTAG
* *
48456415 ATCCTATCTCCCTAAGCAGTAGTGGATCAGATCAAAGACGGCAAATCTTATCTTTCCAAAATAGT
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAAATAGG
* *
48456480 GGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGT
196 GGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGATTGT
48456545 A
261 A
48456546 GATCTTATCTCCCTAAGCAGTAGTGGAGCA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCA
48456576 TAGTCTTATC
Statistics
Matches: 268, Mismatches: 19, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
257 161 0.60
261 3 0.01
262 1 0.00
263 1 0.00
264 102 0.38
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (261 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAG
GGGGAAGCAAATTTAAGCCACAAAGCCTTGTCTCCCGGAGCAACAGCAGAGTAGGAAGATTGTAG
ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAAATAGG
GGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTAAAGATTGT
A
Found at i:48464281 original size:17 final size:19
Alignment explanation
Indices: 48464256--48464303 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 19
48464246 CAATTATTAA
*
48464256 ATTTTTTTATTT-GTT-TT
1 ATTTATTTATTTAGTTATT
48464273 ATTTATTTATTTAGTTAATT
1 ATTTATTTATTTAGTT-ATT
48464293 ATTTTATTTAT
1 A-TTTATTTAT
48464304 ACTCTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 11 0.42
18 3 0.12
20 3 0.12
21 9 0.35
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (19 bp):
ATTTATTTATTTAGTTATT
Found at i:48484726 original size:11 final size:12
Alignment explanation
Indices: 48484699--48484727 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48484689 ACAATAAGAA
48484699 CATTCAAATATT
1 CATTCAAATATT
48484711 CATTCAAATA-T
1 CATTCAAATATT
48484722 CATTCA
1 CATTCA
48484728 CCGTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (12 bp):
CATTCAAATATT
Found at i:48488729 original size:14 final size:13
Alignment explanation
Indices: 48488694--48488727 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
48488684 AGAAAATAGT
48488694 TTAAGTTTGAAAAC
1 TTAA-TTTGAAAAC
48488708 TTAATTTGAAAAC
1 TTAATTTGAAAAC
48488721 TTAATTT
1 TTAATTT
48488728 TGTAAATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTAATTTGAAAAC
Found at i:48489065 original size:35 final size:33
Alignment explanation
Indices: 48489022--48489195 Score: 217
Period size: 32 Copynumber: 5.2 Consensus size: 33
48489012 TCACTTGTCT
* *
48489022 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* * *
48489056 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCAGCATTA
48489089 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
48489123 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
48489156 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
48489190 TTTCTT
1 TTTCTT
48489196 TTTGGACCTG
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
32 49 0.40
33 10 0.08
34 15 0.12
35 49 0.40
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
Found at i:48489130 original size:67 final size:67
Alignment explanation
Indices: 48489022--48489192 Score: 288
Period size: 67 Copynumber: 2.6 Consensus size: 67
48489012 TCACTTGTCT
* * * *
48489022 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
48489087 CA
66 CA
48489089 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
48489154 CA
66 CA
* *
48489156 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
48489193 CTTTTTGGAC
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 98 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:48496667 original size:21 final size:22
Alignment explanation
Indices: 48496643--48496687 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
48496633 AGAAAAAGAG
48496643 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
48496664 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
48496686 AA
1 AA
48496688 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:48500250 original size:34 final size:34
Alignment explanation
Indices: 48500201--48500380 Score: 225
Period size: 34 Copynumber: 5.3 Consensus size: 34
48500191 TTACCGTATT
* ***
48500201 ATTTGGTGTGATGGATGGATTTTTTCATACGAGC
1 ATTTGGTGTGCTGGATGGATTGGCTCATACGAGC
*
48500235 ATCTGGTGTGCTGGATGGATTGGCTCATACGAGC
1 ATTTGGTGTGCTGGATGGATTGGCTCATACGAGC
* *
48500269 ATTTAGTGTGCTAGATGGATTGGCTCATACGAGC
1 ATTTGGTGTGCTGGATGGATTGGCTCATACGAGC
* * *
48500303 ATTTGGTGTGCTGGATGGACTAGCTCAGACGAGC
1 ATTTGGTGTGCTGGATGGATTGGCTCATACGAGC
* * * *
48500337 ATTTGGTGTGTTGGATGGACTAGCTCATATGAGC
1 ATTTGGTGTGCTGGATGGATTGGCTCATACGAGC
*
48500371 ATTTAGTGTG
1 ATTTGGTGTG
48500381 TTGGCTGGTT
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 129 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGATTGGCTCATACGAGC
Done.