Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 273 of 318
Found at i:87420444 original size:3 final size:3
Alignment explanation
Indices: 87420438--87420464 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
87420428 TCATTATTAA
87420438 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
87420465 TGAGGCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:87421773 original size:14 final size:15
Alignment explanation
Indices: 87421745--87421773 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87421735 TACATATTAA
87421745 TAAAATTTATTAAAT
1 TAAAATTTATTAAAT
87421760 TAAAATTT-TTAAAT
1 TAAAATTTATTAAAT
87421774 ATACTAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTTATTAAAT
Found at i:87425698 original size:328 final size:325
Alignment explanation
Indices: 87425050--87425705 Score: 800
Period size: 327 Copynumber: 2.0 Consensus size: 325
87425040 TGGAGGAACA
* * * *
87425050 TCCTATAGCTGACATCTCGAGTTCATCGACTGGCGATGAAACCATGAAAGAAAGCATAGAGGAAA
1 TCCTATAGCTGACATCTCGAGCTCATCGACTAGCGATGAAACCATGAAAGAAAGCAAAAAGGAAA
* * * *
87425115 ATGAAAGCATCCCATTGAAGTTAACAGAAAATGTCAGCTAATACAAATGAAAATTGAGCCCAAAA
66 ATCAAAGCACCCCATTGAAGGTAACAGAAAAGGTCAGCTAATACAAATGAAAATTGAGCCCAAAA
* * * * *
87425180 ATTTGTTAATTTTTTTTTTACCATTGTTAGTTGCTAACTTAAACATTCAATGATTTACAGGCAAG
131 A-TTGTT-AGTTCTTTTTGACCATTGTTAGCTGCTAACTTAAACATCCAATGATTTACAGGCAAG
* *
87425245 CCCTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAGAACCTTAGTAGAAGGAAGTA
194 CCCTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAGAAAGTA
* *
87425310 TTGATACTGCTGACCGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAGGAA
259 TCGATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAGGAA
87425375 GC
324 GC
* * * ** *
87425377 TCCTATATCTGACATCTCGAGCTCAAT-GATTAGTGATGAAACTTTGAAGGAAAGCAAAAAGGAA
1 TCCTATAGCTGACATCTCGAGCTC-ATCGACTAGCGATGAAACCATGAAAGAAAGCAAAAAGGAA
* * * *
87425441 GATCAAAGCACCCCATTGAAGGTAACAGAAAAGGTCAGCTAATATAAATGAAAGTTGATTTGGGT
65 AATCAAAGCACCCCATTGAAGGTAACAGAAAAGGTCAGCTAATACAAATGAAA----A-TTGAGC
** **
87425506 CCAAAAA-TG-T-GTTCTTTTTGACCATTGTTAGCTGCTAACTTGCACATCCAATCTTTTTACAG
125 CCAAAAATTGTTAGTTCTTTTTGACCATTGTTAGCTGCTAACTTAAACATCCAAT-GATTTACAG
* ** * * *
87425568 GCAAGCTCTTCATCT-GAGCTTGAGGACTCAAACAAGGATGCTGAAGAGAAAACCTTAGTAGAAG
189 GCAAGCCCTTCAT-TAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAG
* * ***
87425632 AAAGTATCGATGCTGCTGACAGGGAATCTGCACCGGCTGCAGTGGAACCAGAAGAGACAAAGCTA
253 AAAGTATCGATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTA
*
87425697 AAGGCAGC
318 AAGGAAGC
87425705 T
1 T
87425706 GAAGCAGATG
Statistics
Matches: 278, Mismatches: 43, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
327 133 0.48
328 129 0.46
329 2 0.01
330 2 0.01
331 1 0.00
332 11 0.04
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (325 bp):
TCCTATAGCTGACATCTCGAGCTCATCGACTAGCGATGAAACCATGAAAGAAAGCAAAAAGGAAA
ATCAAAGCACCCCATTGAAGGTAACAGAAAAGGTCAGCTAATACAAATGAAAATTGAGCCCAAAA
ATTGTTAGTTCTTTTTGACCATTGTTAGCTGCTAACTTAAACATCCAATGATTTACAGGCAAGCC
CTTCATTAGAAATTGAAGACTCAAAAAAGGATACTGAAGAGAAAACCTTAGTAGAAGAAAGTATC
GATACTGCTGACAGGGAATCAGCACCGGCTGCAGCAAAACCAGAAGAGACAAAGCTAAAGGAAGC
Found at i:87433853 original size:14 final size:14
Alignment explanation
Indices: 87433834--87433866 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
87433824 TACCGAATCG
87433834 GGCCAGTTCTTGCA
1 GGCCAGTTCTTGCA
*
87433848 GGCCAGTTCTTGCG
1 GGCCAGTTCTTGCA
87433862 GGCCA
1 GGCCA
87433867 AATGATCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.30, G:0.33, T:0.24
Consensus pattern (14 bp):
GGCCAGTTCTTGCA
Found at i:87442435 original size:25 final size:25
Alignment explanation
Indices: 87442401--87442449 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
87442391 ACAACACTTT
87442401 GCCATTCTAGGAGTATTTAGGATGC
1 GCCATTCTAGGAGTATTTAGGATGC
87442426 GCCATTCTAGGAGTATTTAGGATG
1 GCCATTCTAGGAGTATTTAGGATG
87442450 TAGGTTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (25 bp):
GCCATTCTAGGAGTATTTAGGATGC
Found at i:87448251 original size:29 final size:28
Alignment explanation
Indices: 87448171--87448251 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 28
87448161 ACAATTTAAC
* *
87448171 CTAAATTTTAAAATATGAAAAAGTAAAAGTA
1 CTAAA-TTTCAAATAT--AAAAGTAAAAATA
* *
87448202 CTAAATTCCTAAAAATAAAAGTAAAAATA
1 CTAAATTTC-AAATATAAAAGTAAAAATA
87448231 CTAAATTTCAAATATATAAAG
1 CTAAATTTCAAATATA-AAAG
87448252 AGTTTAAGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.14
29 24 0.57
30 2 0.05
31 10 0.24
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.28
Consensus pattern (28 bp):
CTAAATTTCAAATATAAAAGTAAAAATA
Found at i:87448767 original size:25 final size:25
Alignment explanation
Indices: 87448721--87448769 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
87448711 TATGGGATCG
*
87448721 CATGATGTGGGTTCGTACCACCATT
1 CATGATGTGGGTTCGCACCACCATT
* *
87448746 CATGATGTGGGTTTGCATCACCAT
1 CATGATGTGGGTTCGCACCACCAT
87448770 GTAGATGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (25 bp):
CATGATGTGGGTTCGCACCACCATT
Found at i:87474580 original size:38 final size:38
Alignment explanation
Indices: 87474536--87474609 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
87474526 ACTGATTTCG
87474536 AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAACC
1 AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAACC
87474574 AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAA
1 AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAA
87474610 GCAGTTACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.19
Consensus pattern (38 bp):
AAAAGACCACTCAGAAGTTTACTTAGTAACACCAAACC
Found at i:87477872 original size:30 final size:30
Alignment explanation
Indices: 87477836--87477895 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
87477826 TTTGTAATAC
87477836 CATAGAACAACCACCCCATACGGAGTTCAT
1 CATAGAACAACCACCCCATACGGAGTTCAT
87477866 CATAGAACAACCACCCCATACGGAGTTCAT
1 CATAGAACAACCACCCCATACGGAGTTCAT
87477896 TTTTGTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.17
Consensus pattern (30 bp):
CATAGAACAACCACCCCATACGGAGTTCAT
Found at i:87478901 original size:80 final size:80
Alignment explanation
Indices: 87478698--87478921 Score: 278
Period size: 79 Copynumber: 2.8 Consensus size: 80
87478688 TCGAATGATG
* * * * *
87478698 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
87478760 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* * *
87478777 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
87478840 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* *
87478856 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
87478921 G
66 G
87478922 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 66 0.53
80 54 0.44
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:87478928 original size:40 final size:40
Alignment explanation
Indices: 87478698--87478921 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
87478688 TCGAATGATG
* * * *
87478698 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
87478737 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
87478777 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
87478816 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
87478856 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
87478897 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87478922 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 43 0.26
40 111 0.68
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87485480 original size:56 final size:56
Alignment explanation
Indices: 87485394--87485513 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
87485384 ACAAGGGATG
*
87485394 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
*
87485450 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
*
87485506 TTGGGCAA
1 ATGGGCAA
87485514 TAAACTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATATTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:87486777 original size:79 final size:81
Alignment explanation
Indices: 87486641--87486825 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
87486631 TCGAATGATG
*
87486641 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
87486705 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
87486720 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
87486782 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
87486800 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87486826 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:87486839 original size:40 final size:40
Alignment explanation
Indices: 87486642--87486825 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
87486632 CGAATGATGT
* * * *
87486642 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
87486682 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
87486722 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
87486760 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
87486801 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
87486826 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:87486847 original size:79 final size:79
Alignment explanation
Indices: 87486694--87486858 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
87486684 GGACTAAGAT
* **
87486694 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
87486759 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
87486773 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
87486836 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
87486852 CCGAAGG
1 CCGAAGG
87486859 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:87494718 original size:16 final size:15
Alignment explanation
Indices: 87494682--87494723 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
87494672 GGGTGAGGGG
87494682 TGTTACATCT-AACCA
1 TGTTA-ATCTAAACCA
*
87494697 TTTTAATCTAAATCCA
1 TGTTAATCTAAA-CCA
87494713 TGTTAATCTAA
1 TGTTAATCTAA
87494724 CATGCAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 6 0.26
16 13 0.57
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (15 bp):
TGTTAATCTAAACCA
Found at i:87495236 original size:12 final size:12
Alignment explanation
Indices: 87495219--87495244 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87495209 AAAATAGGGC
87495219 TTTAGTGGCGTT
1 TTTAGTGGCGTT
87495231 TTTAGTGGCGTT
1 TTTAGTGGCGTT
87495243 TT
1 TT
87495245 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.31, T:0.54
Consensus pattern (12 bp):
TTTAGTGGCGTT
Found at i:87495456 original size:43 final size:41
Alignment explanation
Indices: 87495307--87495478 Score: 213
Period size: 41 Copynumber: 4.2 Consensus size: 41
87495297 CAAAAAAGCA
* * * * *
87495307 GCTAAAAA-CTGAGCAATAGCAGCGTTTTTTGTTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCG-CTTTTGGTAAAACGCC
* *
87495348 GCTAAAAA-TAGAGCATTAGCGGCGCTTTTGGTAAGACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
*
87495388 GCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
*
87495429 GCTAAAAAAACCAGAGCAGTAGCGGCGCTTTTGGTAAAACGCC
1 GCT--AAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
*
87495472 ACTAAAA
1 GCTAAAA
87495479 GTTTTGTAAC
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 20 0.17
41 57 0.50
43 38 0.33
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (41 bp):
GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
Found at i:87495921 original size:24 final size:24
Alignment explanation
Indices: 87495894--87495942 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
87495884 CGTATATTTG
87495894 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
87495918 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
87495942 T
1 T
87495943 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:87496548 original size:18 final size:19
Alignment explanation
Indices: 87496525--87496563 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87496515 AGGTCTTTTT
87496525 TATTTTT-TATCAAAACAA
1 TATTTTTATATCAAAACAA
* *
87496543 TATTTTTATATGAAAATAA
1 TATTTTTATATCAAAACAA
87496562 TA
1 TA
87496564 AATATGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTTTTATATCAAAACAA
Found at i:87501259 original size:14 final size:14
Alignment explanation
Indices: 87501240--87501270 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
87501230 TAATTTGATG
*
87501240 TTTGGATGTTCCAT
1 TTTGGATGTACCAT
87501254 TTTGGATGTACCAT
1 TTTGGATGTACCAT
87501268 TTT
1 TTT
87501271 TGTTCATCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.52
Consensus pattern (14 bp):
TTTGGATGTACCAT
Found at i:87502543 original size:43 final size:43
Alignment explanation
Indices: 87502490--87502581 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
87502480 TTTCATGACT
* *
87502490 TTTAGCGGCGTTT-TTGAGAAAAGCGCCACTAAAGGTCGTGATC
1 TTTAGTGGCGTTTGTAG-GAAAAGCGCCACTAAAGGTCGTGATC
* *
87502533 TTTAGTGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTTGATC
1 TTTAGTGGCGTTTGTAGGAAAAGCGCCACTAAAGGTCGTGATC
87502576 TTTAGT
1 TTTAGT
87502582 TGATCTTTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 42 0.95
44 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTAGGAAAAGCGCCACTAAAGGTCGTGATC
Found at i:87502630 original size:53 final size:54
Alignment explanation
Indices: 87502528--87502633 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 54
87502518 CTAAAGGTCG
* *
87502528 TGATCTTTAGTGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTTGATCTTTAGT
1 TGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGT
* *
87502582 TGATCTTTAGCGGCGTTTGT-GGGAAAGCGCTGCTAAAGGTCATGATCTTTAG
1 TGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGATCTTTAG
87502634 CGGCTTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 29 0.60
54 19 0.40
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (54 bp):
TGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGT
Found at i:87503171 original size:29 final size:29
Alignment explanation
Indices: 87503130--87503191 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
87503120 AACGAACCAA
87503130 AGGT-ATACCCTGTAGGTTGTCTGGGTGG
1 AGGTAATACCCTGTAGGTTGTCTGGGTGG
87503158 AGGTAATACCCTGTAGGTTGTCTGGGTGG
1 AGGTAATACCCTGTAGGTTGTCTGGGTGG
87503187 AGGTA
1 AGGTA
87503192 GAGATATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.18, C:0.13, G:0.39, T:0.31
Consensus pattern (29 bp):
AGGTAATACCCTGTAGGTTGTCTGGGTGG
Found at i:87504172 original size:26 final size:26
Alignment explanation
Indices: 87504142--87504204 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
87504132 TTTTATCCTA
87504142 GTAAAATTTTGACAATTGTACCCTTG
1 GTAAAATTTTGACAATTGTACCCTTG
* *
87504168 GTAAAATTTTGACACTTTTACCCTTG
1 GTAAAATTTTGACAATTGTACCCTTG
87504194 GTAAAATTTTG
1 GTAAAATTTTG
87504205 GTGATTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (26 bp):
GTAAAATTTTGACAATTGTACCCTTG
Found at i:87504212 original size:26 final size:26
Alignment explanation
Indices: 87504142--87504228 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
87504132 TTTTATCCTA
*
87504142 GTAAAATTTT-GACAATTGTACCCTTG
1 GTAAAATTTTGGA-AATTTTACCCTTG
*
87504168 GTAAAATTTT-GACACTTTTACCCTTG
1 GTAAAATTTTGGA-AATTTTACCCTTG
** * **
87504194 GTAAAATTTTGGTGATTTTATCCTCA
1 GTAAAATTTTGGAAATTTTACCCTTG
87504220 GTAAAATTT
1 GTAAAATTT
87504229 CTAGAAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 51 0.98
27 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (26 bp):
GTAAAATTTTGGAAATTTTACCCTTG
Found at i:87504433 original size:42 final size:42
Alignment explanation
Indices: 87504385--87504518 Score: 150
Period size: 38 Copynumber: 3.2 Consensus size: 42
87504375 TCCATTTCAT
87504385 TTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGA
1 TTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGA
** * * * * *
87504427 TTTCATTTCTCCATTTCGGAGAAAACAATAATCATTTTC--AT--
1 TTTCA-TT-TCCATTTTTG-GAAACCTACATTCATTTCCAAATGA
87504468 TTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGA
1 TTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGA
87504510 TTTCATTTC
1 TTTCATTTC
87504519 TCCATTTCGG
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
38 14 0.20
39 8 0.11
40 4 0.06
41 5 0.07
42 14 0.20
43 4 0.06
44 8 0.11
45 14 0.20
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (42 bp):
TTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGA
Found at i:87504473 original size:83 final size:83
Alignment explanation
Indices: 87504379--87504545 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
87504369 TAAGTTTCCA
87504379 TTTCATTTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGATTTCATTTCTCCATTTC
1 TTTCATTTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGATTTCATTTCTCCATTTC
87504444 GGAGAAAACAATAATCAT
66 GGAGAAAACAATAATCAT
87504462 TTTCATTTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGATTTCATTTCTCCATTTC
1 TTTCATTTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGATTTCATTTCTCCATTTC
87504527 GGAGAAAACAATAATCAT
66 GGAGAAAACAATAATCAT
87504545 T
1 T
87504546 CCTAAATGTT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (83 bp):
TTTCATTTTCATTTCCATTTTTGGAAACCTACATTCATTTCCAAATGATTTCATTTCTCCATTTC
GGAGAAAACAATAATCAT
Found at i:87506115 original size:21 final size:21
Alignment explanation
Indices: 87506091--87506132 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
87506081 AAGAGATAGT
87506091 GTTGAAATACATTTCTACATG
1 GTTGAAATACATTTCTACATG
87506112 GTTGAAATACATTTCTACATG
1 GTTGAAATACATTTCTACATG
87506133 TTAAAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
GTTGAAATACATTTCTACATG
Found at i:87513275 original size:26 final size:26
Alignment explanation
Indices: 87513246--87513353 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87513236 TGGTACAAAT
87513246 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87513272 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87513298 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87513324 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87513350 TGAT
1 TGAT
87513354 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87519888 original size:49 final size:49
Alignment explanation
Indices: 87519816--87520003 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
87519806 TGAGGTCACG
*
87519816 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
87519865 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
87519916 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
87519965 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
87520004 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 76 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:87519984 original size:100 final size:101
Alignment explanation
Indices: 87519802--87519998 Score: 351
Period size: 100 Copynumber: 2.0 Consensus size: 101
87519792 CAAATGAACT
* *
87519802 ACTGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 ACTGTGA-GTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATG
87519867 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAA
65 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAA
*
87519904 ACTGTGA-TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTATTGGTCGCATGT
1 ACTGTGAGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGT
87519968 GTAGTACTAAGTGCAGGCTACTATGCGTACC
66 GTAGTACTAAGTGCAGGCTACTATGCGTACC
87519999 AGATAGCTTC
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
100 85 0.92
102 7 0.08
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (101 bp):
ACTGTGAGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGGTCGCATGT
GTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAA
Found at i:87522892 original size:25 final size:25
Alignment explanation
Indices: 87522821--87522892 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 25
87522811 TATGGCTCTT
* * **
87522821 ATGAGCTTCCCGTTATATA-CCCGG
1 ATGAGCTTCCTGTTATATAGCTCAC
* * *
87522845 ATAAGCTT-CTCGTTACATTGCTCAC
1 ATGAGCTTCCT-GTTATATAGCTCAC
87522870 ATGAGCTTCCTGTTATATAGCTC
1 ATGAGCTTCCTGTTATATAGCTC
87522893 GAGAGAGGAC
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
23 1 0.03
24 13 0.37
25 19 0.54
26 2 0.06
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATATAGCTCAC
Found at i:87525575 original size:54 final size:54
Alignment explanation
Indices: 87525493--87525636 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
87525483 TAGAGGAAGC
*
87525493 GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
87525547 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
87525601 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
87525637 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:87525647 original size:27 final size:27
Alignment explanation
Indices: 87525500--87525654 Score: 185
Period size: 27 Copynumber: 5.7 Consensus size: 27
87525490 AGCGTCCTGA
*
87525500 TGGCTATGCCACAATTATCTG-ATCTGG
1 TGGCTCTGCCACAA-TATCTGTATCTGG
*
87525527 TGGCTCTGCCACATATATCTGT-CCTGG
1 TGGCTCTGCCACA-ATATCTGTATCTGG
*
87525554 TGGCTATGCCACAATTATCTG-ATCTGG
1 TGGCTCTGCCACAA-TATCTGTATCTGG
87525581 TGGCTCTGCCACATATATCTGT-TCTGG
1 TGGCTCTGCCACA-ATATCTGTATCTGG
87525608 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTCTGCCACAATATCTGTATCTGG
* *
87525635 TGACT-TCGTCACAATATCTG
1 TGGCTCT-GCCACAATATCTG
87525655 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
TGGCTCTGCCACAATATCTGTATCTGG
Found at i:87525648 original size:81 final size:80
Alignment explanation
Indices: 87525500--87525654 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 80
87525490 AGCGTCCTGA
*
87525500 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTATGCCA
1 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCCA
87525565 CAATTATCTGATCTGG
66 CAA-TATCTGATCTGG
* * *
87525581 TGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-TCG
1 TGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTAT-G
*
87525643 TCACAATATCTG
63 CCACAATATCTG
87525655 GCAGCCTCGC
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 17 0.26
81 49 0.74
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTATGCCA
CAATATCTGATCTGG
Found at i:87531117 original size:37 final size:37
Alignment explanation
Indices: 87531067--87531140 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
87531057 GATCGATGTC
*
87531067 GTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGATTT
1 GTTGTGATTAGCC--ATGAGATGTGGCTTATAATGATTT
87531104 GTTGT-ATGTAGCCATGAGATGTGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATGTGGCTTATAATGATTT
87531141 TGGCTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 4 0.12
37 26 0.79
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATGTGGCTTATAATGATTT
Found at i:87539246 original size:35 final size:35
Alignment explanation
Indices: 87539180--87539247 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
87539170 ATATCTATAA
* * *
87539180 CTGTATCTGTATCTAAAATGCGCTCAAGCCCGATT
1 CTGTATCTGTAACTAAAATGAGCCCAAGCCCGATT
* * *
87539215 CTGTATCTGTAACTGATATGAGCCCATGCCCGA
1 CTGTATCTGTAACTAAAATGAGCCCAAGCCCGA
87539248 ATGTGAATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (35 bp):
CTGTATCTGTAACTAAAATGAGCCCAAGCCCGATT
Found at i:87540744 original size:42 final size:42
Alignment explanation
Indices: 87540680--87540760 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
87540670 AATAGAGTAT
*
87540680 AAGGGAATCGATCGATTATTAGTTCGTGGCATCGTCTTTGAA
1 AAGGGAATCGATCGATTATTAGTGCGTGGCATCGTCTTTGAA
*
87540722 AAGGGAATCGATCGATTGTTAGTGCGTGGCATCGTCTTT
1 AAGGGAATCGATCGATTATTAGTGCGTGGCATCGTCTTT
87540761 CAAGTTTGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (42 bp):
AAGGGAATCGATCGATTATTAGTGCGTGGCATCGTCTTTGAA
Found at i:87564518 original size:55 final size:55
Alignment explanation
Indices: 87564458--87564574 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
87564448 AACAGGTTCA
* * *
87564458 ACCACGGGTGTTCCACACGGGCGTGTCACACGCCCGTATTGTTTTGGCAGGCTCG
1 ACCACGGGTCTTCCACACGGGCATGTCACACGCCCGTATTGTTTTGGCAAGCTCG
* ** * *
87564513 CCCACGATTCTTCCACACGGGCATGTCGCACGCCCGTGTTGTTTTGGCAAGCTCG
1 ACCACGGGTCTTCCACACGGGCATGTCACACGCCCGTATTGTTTTGGCAAGCTCG
87564568 ACCACGG
1 ACCACGG
87564575 TCATATCGCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.23
Consensus pattern (55 bp):
ACCACGGGTCTTCCACACGGGCATGTCACACGCCCGTATTGTTTTGGCAAGCTCG
Found at i:87569786 original size:14 final size:14
Alignment explanation
Indices: 87569767--87569794 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
87569757 AAACAATACC
87569767 CGCCTAAAACCTTA
1 CGCCTAAAACCTTA
87569781 CGCCTAAAACCTTA
1 CGCCTAAAACCTTA
87569795 TTTTGATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.21
Consensus pattern (14 bp):
CGCCTAAAACCTTA
Found at i:87574678 original size:20 final size:20
Alignment explanation
Indices: 87574631--87574678 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
87574621 GTATTAAGAG
87574631 AAATAAATAAAACAAAAACCA
1 AAATAAATAAAACAAAAA-CA
*
87574652 AAA-AAATAAAATAAAATA-A
1 AAATAAATAAAACAAAA-ACA
87574671 AAATAAAT
1 AAATAAAT
87574679 GGACTCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 16 0.67
21 4 0.17
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (20 bp):
AAATAAATAAAACAAAAACA
Found at i:87583010 original size:21 final size:21
Alignment explanation
Indices: 87582986--87583047 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
87582976 GGCATGTCCC
*
87582986 TTAGCCACACGATTGTGTGC-T
1 TTAGCCACACGATCGTGT-CTT
** *
87583007 TTAGTTACACGAACGTGTCTT
1 TTAGCCACACGATCGTGTCTT
87583028 TTAGCCACACGATCGTGTCT
1 TTAGCCACACGATCGTGTCT
87583048 CCTCTGCTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (21 bp):
TTAGCCACACGATCGTGTCTT
Found at i:87583145 original size:21 final size:21
Alignment explanation
Indices: 87583121--87583162 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87583111 CAGTCGTGTA
*
87583121 TCTCAATCACAAAGGCATGTG
1 TCTCAACCACAAAGGCATGTG
* *
87583142 TCTCAACCACACAGTCATGTG
1 TCTCAACCACAAAGGCATGTG
87583163 CTTCAGTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
TCTCAACCACAAAGGCATGTG
Found at i:87586086 original size:52 final size:52
Alignment explanation
Indices: 87586005--87586110 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
87585995 AAACTAAAGG
*
87586005 GTATACTAGCTTGGGTCACATGGCTAACCACACGCCCGTATGTCCAGCCCGT
1 GTATACTAGCTTGGGTCACATGGCCAACCACACGCCCGTATGTCCAGCCCGT
*
87586057 GTATACTAGCTTGGGTCACATGGCCAACCACACGCCCGTGTGTCCAGCCCGT
1 GTATACTAGCTTGGGTCACATGGCCAACCACACGCCCGTATGTCCAGCCCGT
87586109 GT
1 GT
87586111 GCCCTACGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (52 bp):
GTATACTAGCTTGGGTCACATGGCCAACCACACGCCCGTATGTCCAGCCCGT
Found at i:87592743 original size:42 final size:42
Alignment explanation
Indices: 87592633--87592794 Score: 175
Period size: 43 Copynumber: 3.8 Consensus size: 42
87592623 TTCAGATATA
* *
87592633 TGATTTCGTGTAAGACCACGTCTGGGA-AGTTGGCACCG-ATT
1 TGATTTCGTGTAAGACCATGTCTGGGACA-TTGGCATCGTATT
* *
87592674 TGAGATTTATGTGTAAAACCATGTCTGGGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
87592719 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC-GTATT
* * *
87592762 TGATTACATGTAAGACCATGTCTGGGACGTTGG
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGG
87592795 TATTGTACGA
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 42 0.42
44 26 0.26
45 5 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:87593545 original size:23 final size:22
Alignment explanation
Indices: 87593514--87593556 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
87593504 TTGTGAATCA
* *
87593514 TATGTTTTGGTATGACTTTGGCT
1 TATGATTTGGCATGA-TTTGGCT
87593537 TATGATTTGGCATGATTTGG
1 TATGATTTGGCATGATTTGG
87593557 TATGGATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.16, C:0.07, G:0.28, T:0.49
Consensus pattern (22 bp):
TATGATTTGGCATGATTTGGCT
Found at i:87617856 original size:15 final size:14
Alignment explanation
Indices: 87617836--87617883 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
87617826 GCCAAAGAGT
87617836 GAAGGAGAATAAAGA
1 GAAGGAGAAT-AAGA
87617851 GAAGGAGAATAAGA
1 GAAGGAGAATAAGA
87617865 GAA-GA-AA-AA-A
1 GAAGGAGAATAAGA
87617875 GAAGGAGAA
1 GAAGGAGAA
87617884 GGAGAGGGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 4 0.13
11 4 0.13
12 4 0.13
13 2 0.06
14 7 0.23
15 10 0.32
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.04
Consensus pattern (14 bp):
GAAGGAGAATAAGA
Found at i:87617889 original size:24 final size:26
Alignment explanation
Indices: 87617841--87617889 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
87617831 AGAGTGAAGG
*
87617841 AGAATAAAGAGAAGGAGAATAAGAGA
1 AGAATAAAGAGAAGGAGAAGAAGAGA
*
87617867 AGAA-AAA-AGAAGGAGAAGGAGAG
1 AGAATAAAGAGAAGGAGAAGAAGAG
87617890 GGCGAGAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 3 0.14
26 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (26 bp):
AGAATAAAGAGAAGGAGAAGAAGAGA
Found at i:87618371 original size:49 final size:51
Alignment explanation
Indices: 87618265--87618374 Score: 124
Period size: 49 Copynumber: 2.2 Consensus size: 51
87618255 AAAGAATGTT
** * *
87618265 TTATTTTTTTATGTAATTTATTTGTTATGTGTGTTTTAGGTTGATTAGATA
1 TTATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGATTAGATA
87618316 -TA-TTTTTTATGTAATTTATTTGGCATGT-TATTTT-GATT-ATTTTA-ATA
1 TTATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGA--TTAGATA
87618363 TTATTTTTTTAT
1 TTATTTTTTTAT
87618375 ATTTTATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
46 1 0.02
47 6 0.12
48 10 0.20
49 32 0.63
50 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.13, T:0.64
Consensus pattern (51 bp):
TTATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGATTAGATA
Found at i:87621647 original size:12 final size:12
Alignment explanation
Indices: 87621630--87621654 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87621620 TTTTAAAATT
87621630 ATGAATAATATA
1 ATGAATAATATA
87621642 ATGAATAATATA
1 ATGAATAATATA
87621654 A
1 A
87621655 AACATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:87621728 original size:14 final size:13
Alignment explanation
Indices: 87621637--87621760 Score: 71
Period size: 14 Copynumber: 9.2 Consensus size: 13
87621627 ATTATGAATA
87621637 ATATAATGAATAAT
1 ATATAAT-AATAAT
87621651 ATA-AA-ACATAAAT
1 ATATAATA-AT-AAT
*
87621664 AATATAACAGATAAT
1 -ATATAATA-ATAAT
*
87621679 ATACTATATACATAAC
1 ATA-TA-ATA-ATAAT
*
87621695 ATATAATAAAAAT
1 ATATAATAATAAT
87621708 A-ATAATAAGTAAT
1 ATATAATAA-TAAT
87621721 ATATAATAA-AA-
1 ATATAATAATAAT
**
87621732 ATATAATAAATGTT
1 ATATAAT-AATAAT
87621746 ATATAATAA-AAT
1 ATATAATAATAAT
87621758 ATA
1 ATA
87621761 ATATAAATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
11 8 0.09
12 17 0.20
13 15 0.17
14 26 0.30
15 9 0.10
16 12 0.14
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:87621774 original size:25 final size:26
Alignment explanation
Indices: 87621690--87621775 Score: 106
Period size: 25 Copynumber: 3.4 Consensus size: 26
87621680 TACTATATAC
*
87621690 ATAACATATAATAAAAATAATAATAA
1 ATAATATATAATAAAAATAATAATAA
*
87621716 GTAATATATAATAAAAAT-ATAATAA
1 ATAATATATAATAAAAATAATAATAA
**
87621741 ATGTTATATAATAAAATATAAT-ATAA
1 ATAATATATAATAAAA-ATAATAATAA
87621767 AT-ATATATA
1 ATAATATATA
87621776 GGAAAATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
25 26 0.50
26 24 0.46
27 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (26 bp):
ATAATATATAATAAAAATAATAATAA
Found at i:87621830 original size:26 final size:24
Alignment explanation
Indices: 87621801--87621865 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
87621791 ATAAATAAAA
87621801 TTTTTATATAAATATATAAATAGT
1 TTTTTATATAAATATATAAATAGT
* **
87621825 ACTTTTA-ATAATAATATATGTATAGT
1 -TTTTTATAT-A-AATATATAAATAGT
87621851 TTTTTATAATAAATA
1 TTTTTAT-ATAAATA
87621866 AATTATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 2 0.06
25 15 0.47
26 13 0.41
27 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (24 bp):
TTTTTATATAAATATATAAATAGT
Found at i:87621872 original size:24 final size:26
Alignment explanation
Indices: 87621800--87621874 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
87621790 GATAAATAAA
*
87621800 ATTTTTAT-ATAAATATATAAATAGT
1 ATTTTTATAATAAATATATATATAGT
* *
87621825 ACTTTTAATAAT-AATATATGTATAGT
1 A-TTTTTATAATAAATATATATATAGT
*
87621851 -TTTTTATAATAAATAAATTATATA
1 ATTTTTATAATAAATATA-TATATA
87621875 TATAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
24 9 0.22
25 6 0.15
26 23 0.57
27 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (26 bp):
ATTTTTATAATAAATATATATATAGT
Found at i:87623420 original size:44 final size:42
Alignment explanation
Indices: 87623370--87623451 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
87623360 CCTGTTGATA
87623370 TCTTCGATCTGCTCTCCGTTG-AATACAGAGACGCCAAATCTGTT
1 TCTTCGATCTGCTCT-C--TGAAATACAGAGACGCCAAATCTGTT
* * *
87623414 TCTTCGATTTGTTCTCTGAAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCTGAAATACAGAGACGCCAAATC
87623452 ATCTTAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.06
42 18 0.53
43 1 0.03
44 13 0.38
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (42 bp):
TCTTCGATCTGCTCTCTGAAATACAGAGACGCCAAATCTGTT
Found at i:87623928 original size:205 final size:205
Alignment explanation
Indices: 87623415--87624202 Score: 1364
Period size: 205 Copynumber: 3.8 Consensus size: 205
87623405 AAATCTGTTT
*
87623415 CTTCGATTTGTTCTCTGA-AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
87623479 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
87623544 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCCCTCCGTTGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGCATCTGCTCTCCGTCGAA-ATG
* *
87623609 GAGACGCCAAA
195 GAGATGCCAGA
* * * * *
87623620 CTTCGATTTGTTCTTTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTTATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
*
87623685 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
87623750 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGCATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGCATCTGCTCTCCGTCGAAATGG
87623815 AGATGCCAGA
196 AGATGCCAGA
87623825 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
*
87623890 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
87623955 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATATGCTCTCCGTCAAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGCATCTGCTCTCCGTCGAAATGG
87624020 AGATGCCAGA
196 AGATGCCAGA
* *
87624030 CTTCGATTTGTTCTCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCAGCATAAAC-C
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
*
87624094 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGTCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
87624159 GGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATGC
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGC
87624203 TGCGGCCTAT
Statistics
Matches: 557, Mismatches: 25, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
204 105 0.19
205 287 0.52
206 165 0.30
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGCATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:87629214 original size:14 final size:14
Alignment explanation
Indices: 87629195--87629223 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
87629185 TGGCAATGCC
87629195 CCTTTCCCCATCAT
1 CCTTTCCCCATCAT
87629209 CCTTTCCCCATCAT
1 CCTTTCCCCATCAT
87629223 C
1 C
87629224 ATTTACAGGG
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:0.14, C:0.52, G:0.00, T:0.34
Consensus pattern (14 bp):
CCTTTCCCCATCAT
Found at i:87648084 original size:39 final size:40
Alignment explanation
Indices: 87647969--87648136 Score: 213
Period size: 39 Copynumber: 4.3 Consensus size: 40
87647959 GCTACTCGTT
*
87647969 CAAATGCCTTCGGGACATAGCCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
87648008 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
87648048 CAAATGCCTTCAGGAC-TAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
87648087 CAAATGCCTTC-GG-C-TTAGCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
87648124 CAAATGCCTTCGG
1 CAAATGCCTTCGG
87648137 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
37 31 0.26
38 3 0.03
39 53 0.45
40 28 0.24
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:87648122 original size:37 final size:39
Alignment explanation
Indices: 87647946--87648182 Score: 209
Period size: 39 Copynumber: 6.1 Consensus size: 39
87647936 CCTTCGGAAT
* ** *
87647946 TTAACCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGAC
1 TTAACCGGATTTAG-TAACTCGCACAAATGCCTTCAGGAC
* * * *
87647985 ATAGCCCG-TTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAACCGGATT-TAGTAACTCGCACAAATGCCTTCAGGAC
87648024 TTAACTCGGATTTAGTAACTCGCACAAATGCCTTCAGGAC
1 TTAAC-CGGATTTAGTAACTCGCACAAATGCCTTCAGGAC
87648064 -TAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GG-C
1 TTAA-CCGGATTTAGTAACTCGCACAAATGCCTTCAGGAC
* * *
87648101 TTAGCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATC
1 TTAACCGGATTTAGTAACTCGCACAAATGCCTTCAGGA-C
* * * * * *
87648140 TTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGAC
1 TTA-ACCGGATTTAGTAAC-TCGCACAAATGCCTTCAGGAC
87648180 TTA
1 TTA
87648183 GCCCAGACAT
Statistics
Matches: 167, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
37 31 0.19
38 6 0.04
39 68 0.41
40 49 0.29
41 13 0.08
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (39 bp):
TTAACCGGATTTAGTAACTCGCACAAATGCCTTCAGGAC
Found at i:87659226 original size:49 final size:49
Alignment explanation
Indices: 87659169--87659266 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
87659159 CTTATTAACT
87659169 CATTCTTAATTTTGACTACATTATTAATCATTCAGCCTTTGAACCCTTC
1 CATTCTTAATTTTGACTACATTATTAATCATTCAGCCTTTGAACCCTTC
*
87659218 CATTCTTAATTTTGACTACATTATTAATCATTCAGCCTTTTAACCCTTC
1 CATTCTTAATTTTGACTACATTATTAATCATTCAGCCTTTGAACCCTTC
87659267 TCTCACACTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (49 bp):
CATTCTTAATTTTGACTACATTATTAATCATTCAGCCTTTGAACCCTTC
Found at i:87659314 original size:25 final size:25
Alignment explanation
Indices: 87659286--87659345 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
87659276 TATGAACTTA
87659286 ATCAATATAAATCTTGTGA-ATTTTC
1 ATCAATATAAATCTTGT-ATATTTTC
* * *
87659311 ATCAGTTTTAATCTTGTATATTTTC
1 ATCAATATAAATCTTGTATATTTTC
87659336 ATC-ATATAAA
1 ATCAATATAAA
87659346 ACTGTACTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (25 bp):
ATCAATATAAATCTTGTATATTTTC
Found at i:87666713 original size:46 final size:46
Alignment explanation
Indices: 87666646--87666737 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
87666636 CAGCTCTTCT
87666646 GAAAGAGAAAACCAAACTAGCTCCATATATTGTTCGTATCAAAGAC
1 GAAAGAGAAAACCAAACTAGCTCCATATATTGTTCGTATCAAAGAC
*
87666692 GAAAGAGAAAACCAAACTAGCTTCATATATTGTTCGTATCAAAGAC
1 GAAAGAGAAAACCAAACTAGCTCCATATATTGTTCGTATCAAAGAC
87666738 TTTTAGCCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.23
Consensus pattern (46 bp):
GAAAGAGAAAACCAAACTAGCTCCATATATTGTTCGTATCAAAGAC
Found at i:87669901 original size:4 final size:4
Alignment explanation
Indices: 87669892--87669922 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
87669882 TATTTTTATT
*
87669892 TTTA TTTA TTTA TTTA TTTA TTTA CTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
87669923 TAAATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:87672299 original size:25 final size:25
Alignment explanation
Indices: 87672271--87672319 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
87672261 AAAAATGAAA
*
87672271 AAAAAATGCTACCGAAAAGCATACG
1 AAAAAACGCTACCGAAAAGCATACG
* *
87672296 AAAAAACGCTATCGAAGAGCATAC
1 AAAAAACGCTACCGAAAAGCATAC
87672320 TCATTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.20, G:0.16, T:0.12
Consensus pattern (25 bp):
AAAAAACGCTACCGAAAAGCATACG
Found at i:87677629 original size:19 final size:20
Alignment explanation
Indices: 87677596--87677635 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
87677586 AGTTCATACT
87677596 AATTTTTAAATTTTTATAAA
1 AATTTTTAAATTTTTATAAA
*
87677616 AATTTTTATATTTTT-TAAA
1 AATTTTTAAATTTTTATAAA
87677635 A
1 A
87677636 TTTAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTTTAAATTTTTATAAA
Found at i:87682570 original size:55 final size:54
Alignment explanation
Indices: 87682500--87682603 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 54
87682490 CAATTTTGGT
* *
87682500 AAAACGCCGCTAAAAACTAGAGCATTAGCAGCGCTTTTGGTAAAACACCGTTAC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGATAAAACACCGTTAC
*
87682554 AAAAGCGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGATAAAACACC
1 AAAA-CGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGATAAAACACC
87682604 ACTAAAAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 4 0.09
55 42 0.91
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (54 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCAGCGCTTTTGATAAAACACCGTTAC
Found at i:87683248 original size:24 final size:24
Alignment explanation
Indices: 87683221--87683269 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
87683211 CGTATATTTG
*
87683221 TTAAAAGTTTATATAAAACTTAAT
1 TTAAAAGTTTATATAAAAATTAAT
87683245 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
87683269 T
1 T
87683270 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:87684490 original size:26 final size:24
Alignment explanation
Indices: 87684445--87684492 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
87684435 GTATTATTTT
*
87684445 TATTTGTTTTTATGTTTTTAAATA
1 TATTTGTTTTTATATTTTTAAATA
87684469 TATTTGATTTATTATATTTTTAAA
1 TATTTG-TTT-TTATATTTTTAAA
87684493 ATTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTGTTTTTATATTTTTAAATA
Found at i:87689689 original size:19 final size:19
Alignment explanation
Indices: 87689667--87689707 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
87689657 TTTATTAATA
87689667 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
87689685 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
87689704 TTTT
1 TTTT
87689708 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:87689925 original size:26 final size:23
Alignment explanation
Indices: 87689889--87689937 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 23
87689879 TTAATAGAAA
87689889 ATTTTTATATTTATATCATGGACATT
1 ATTTTTATATTT-T-TCAT-GACATT
87689915 ATTTTTATATTTTTCATGACATT
1 ATTTTTATATTTTTCATGACATT
87689938 TATAACATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 4 0.17
25 1 0.04
26 12 0.52
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (23 bp):
ATTTTTATATTTTTCATGACATT
Found at i:87689966 original size:28 final size:28
Alignment explanation
Indices: 87689917--87689975 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
87689907 TGGACATTAT
87689917 TTTTATATTTTTCATGACATTTATAACA
1 TTTTATATTTTTCATGACATTTATAACA
** *
87689945 TTTTATAATTTTTTTTGA-ATTTATGACA
1 TTTTAT-ATTTTTCATGACATTTATAACA
87689973 TTT
1 TTT
87689976 AGCGGCGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTATATTTTTCATGACATTTATAACA
Found at i:87690030 original size:43 final size:48
Alignment explanation
Indices: 87689967--87690076 Score: 122
Period size: 48 Copynumber: 2.4 Consensus size: 48
87689957 TTTTGAATTT
* * *
87689967 ATGACATTTAGCGGCGTTTGTGAG-AAA-AG-CG-TCACT-AAAAGCC
1 ATGACCTTTAGCGGCATTTGTGAGTAAAGAGCCGCTAACTAAAAAGCC
* * *
87690010 ATGACCTTTAGCGGCATTTGTGGGTAAAGCGCCGCTAATTAAAAAGCC
1 ATGACCTTTAGCGGCATTTGTGAGTAAAGAGCCGCTAACTAAAAAGCC
*
87690058 ATGACCTTTAGCGACATTT
1 ATGACCTTTAGCGGCATTT
87690077 TTTAAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
43 21 0.38
44 3 0.05
45 1 0.02
46 2 0.04
47 3 0.05
48 25 0.45
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (48 bp):
ATGACCTTTAGCGGCATTTGTGAGTAAAGAGCCGCTAACTAAAAAGCC
Found at i:87693141 original size:27 final size:27
Alignment explanation
Indices: 87693087--87693146 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
87693077 TATTAATAAG
*
87693087 TATTTTAAATTTAAAATTTATTTAAAA
1 TATTTTAAATTTAAAATATATTTAAAA
*
87693114 T-TTTTAAATATTAAGATATATATT-AAA
1 TATTTTAAAT-TTAAAATATAT-TTAAAA
87693141 TATTTT
1 TATTTT
87693147 TTAAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 8 0.29
27 14 0.50
28 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TATTTTAAATTTAAAATATATTTAAAA
Found at i:87696857 original size:33 final size:35
Alignment explanation
Indices: 87696812--87696884 Score: 105
Period size: 33 Copynumber: 2.1 Consensus size: 35
87696802 ACAATAAAAT
* *
87696812 ATTTATTTTATTTAT-TTGTGTTTTTTAATA-AAC
1 ATTTATTATATTTATGTAGTGTTTTTTAATATAAC
87696845 ATTTATTATATTTATGGTAGTGTTTTTTAATATAAC
1 ATTTATTATATTTAT-GTAGTGTTTTTTAATATAAC
87696881 ATTT
1 ATTT
87696885 TTAATGTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 14 0.40
35 14 0.40
36 7 0.20
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.60
Consensus pattern (35 bp):
ATTTATTATATTTATGTAGTGTTTTTTAATATAAC
Found at i:87706671 original size:196 final size:196
Alignment explanation
Indices: 87706337--87706718 Score: 710
Period size: 196 Copynumber: 1.9 Consensus size: 196
87706327 CATCCTTACC
87706337 GATAATGCATCATAAATCGAGCTCATTTCCAATGAGTTTTGCATACATACCTGTACCACTTCATA
1 GATAATGCATCATAAATCGAGCTCATTTCCAATGAGTTTTGCATACATACCTGTACCACTTCATA
*
87706402 ACGTAATCATAGCCTTTCACATCATTAACATAATCTTTAAATTACCCGTTGAACCACTTGGAATG
66 ACGTAATCATAGCCTTTCACATCATTAACATAACCTTTAAATTACCCGTTGAACCACTTGGAATG
* * *
87706467 CTAAAGGATACCCGGGAAATCTTGTACACATAGTATGATGCCAATGCCATTTCCCAGAGTACACA
131 CTAAAGGATACCCGAGAAATCTTGTACACATAGTAAGATGCCAATGCCATATCCCAGAGTACACA
87706532 T
196 T
*
87706533 GATAATGCATCATAAATCGAGCTCATTTCCAATGAGTTTTGCGTACATACCTGTACCACTTCATA
1 GATAATGCATCATAAATCGAGCTCATTTCCAATGAGTTTTGCATACATACCTGTACCACTTCATA
87706598 ACGTAATCATAGCCTTTCACATCATTAACATAACCTTTAAATTACCCGTTGAACCACTTGGAATG
66 ACGTAATCATAGCCTTTCACATCATTAACATAACCTTTAAATTACCCGTTGAACCACTTGGAATG
*
87706663 CTAAAGGATACCCGAGAATTCTTGTACACATAGTAAGATGCCAATGCCATATCCCA
131 CTAAAGGATACCCGAGAAATCTTGTACACATAGTAAGATGCCAATGCCATATCCCA
87706719 TATATGGTCT
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
196 180 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (196 bp):
GATAATGCATCATAAATCGAGCTCATTTCCAATGAGTTTTGCATACATACCTGTACCACTTCATA
ACGTAATCATAGCCTTTCACATCATTAACATAACCTTTAAATTACCCGTTGAACCACTTGGAATG
CTAAAGGATACCCGAGAAATCTTGTACACATAGTAAGATGCCAATGCCATATCCCAGAGTACACA
T
Found at i:87706750 original size:42 final size:42
Alignment explanation
Indices: 87706704--87706825 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
87706694 AGTAAGATGC
* ** *
87706704 CAATGCCATATCCCATATATGGTCTTACACGATGTCCCGTAT
1 CAATGCCATATCCCAAATATGGTCTTACACGAAATCACGTAT
* * *
87706746 CAATGCCATGTCCCAAACATGGTCTTACACGAAATCATGTAT
1 CAATGCCATATCCCAAATATGGTCTTACACGAAATCACGTAT
* *
87706788 CGATGCCATATCCCAGATATGGTCTTACACGAAATCAC
1 CAATGCCATATCCCAAATATGGTCTTACACGAAATCAC
87706826 ACATAACCTA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (42 bp):
CAATGCCATATCCCAAATATGGTCTTACACGAAATCACGTAT
Found at i:87714642 original size:46 final size:45
Alignment explanation
Indices: 87714496--87714710 Score: 191
Period size: 46 Copynumber: 4.6 Consensus size: 45
87714486 TTCGTGTGTG
* * * *
87714496 AGCTAGCGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GACGA
* * * * *
87714541 GAGCCAGTGTAAGACCATGTCTAGGAAATGGCACCGGCATTGAGACGA
1 -AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGA
87714589 AGGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTA
1 A-GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACG-A
* * * * *
87714636 AACTAGTGTAAGACATGTCTGGGACATGCATCGG-TTACGTGATGA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGACGA
* *
87714681 TAGTTAGTGTAAGACCATGTCTGGGACATG
1 -AGCTAGTGTAAGA-CATGTCTAGGACATG
87714711 GCATTGACTT
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 72 0.51
47 44 0.31
48 21 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGA
Found at i:87714749 original size:140 final size:140
Alignment explanation
Indices: 87714498--87714757 Score: 319
Period size: 140 Copynumber: 1.9 Consensus size: 140
87714488 CGTGTGTGAG
*
87714498 CTAGCGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 CTAGCGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCT
* *
87714563 AGGAAATGGCACCGGCATTGAGACGAAGGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTC
66 AGGAAATGGCACCGACATTGAGACGAAGACTAGTGTAAGACATGTCTAGGACATGCATCGGCCTC
87714628 GAGACGTAAA
131 GAGACGTAAA
* * ** * * **
87714638 CTAGTGTAAGACATGTCTGGGACATGCATCGGTTACGTGATGATAGTTAGTGTAAGACCATGTCT
1 CTAGCGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCT
* * ** * *
87714703 GGGACATGGCATTGAC-TTGAGA-TATGAGAC-AGTGTAAGACCGTGTCTAGGACATG
66 AGGAAATGGCACCGACATTGAGACGA--AGACTAGTGTAAGA-CATGTCTAGGACATG
87714758 GTACAGGCAC
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
138 1 0.01
139 15 0.15
140 84 0.84
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (140 bp):
CTAGCGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCT
AGGAAATGGCACCGACATTGAGACGAAGACTAGTGTAAGACATGTCTAGGACATGCATCGGCCTC
GAGACGTAAA
Found at i:87720855 original size:46 final size:48
Alignment explanation
Indices: 87720726--87720985 Score: 245
Period size: 47 Copynumber: 5.6 Consensus size: 48
87720716 TGAGCTAGCA
* * *
87720726 TAAGA-CATGTCTGGGACAT-GCATCGACCAC-ATTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCTCGA-GACGAGAGCCAGTG
* * * *
87720772 TAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCTCGAGACGAGAGCCAGTG
* *
87720820 TAAGA-CATGTCTAGGACAT-GCATCGACCTCGAGACGTA-AGCAAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCTCGAGACG-AGAGCCAGTG
* * * **
87720866 TAAGA-CATGTCTGGGACAT-GCATCG-GCTACGAGATGATAGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCT-CGAGACGAGAGCCAGTG
* * *
87720912 TAAGACCATGTCTGGGACATGGCATTGA-CTTGAGA-TATGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACCTCGAGACGA-GAGCCAGTG
*
87720959 TAAGACCATGTCTAGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
87720986 GCACCTTACC
Statistics
Matches: 179, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.02
46 68 0.38
47 77 0.43
48 30 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGACCTCGAGACGAGAGCCAGTG
Found at i:87720969 original size:140 final size:141
Alignment explanation
Indices: 87720726--87720985 Score: 375
Period size: 140 Copynumber: 1.9 Consensus size: 141
87720716 TGAGCTAGCA
*
87720726 TAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACA
1 TAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTGGGACA
* *
87720791 TGGCATCGACATTGAGACGAGGGCTAGTGTAAGACATGTCTAGGACAT-GCATCGACCTCGAGAC
66 TGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGACCTCGAGAC
87720855 GTAAGCAAGTG
131 GTAAGCAAGTG
* * * **
87720866 TAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTTAGTGTAAGACCATGTCTGGGAC
1 TAAGACATGTCTGGGACATGCATCGACCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* *
87720930 ATGGCATTGAC-TTGAGA-TATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
65 ATGGCATCGACATTGAGACGA-GAGCCAGTGTAAGA-CATGTCTAGGACATGGCATCG
87720986 GCACCTTACC
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 80 0.75
141 7 0.07
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
TAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTGGGACA
TGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGACCTCGAGAC
GTAAGCAAGTG
Found at i:87734447 original size:20 final size:20
Alignment explanation
Indices: 87734424--87734467 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
87734414 CCACACAGGT
*
87734424 GTGTCCTAAAGCACACGGGA
1 GTGTCCCAAAGCACACGGGA
*
87734444 GTGTCCCAAAGCACACGGGC
1 GTGTCCCAAAGCACACGGGA
87734464 GTGT
1 GTGT
87734468 GCATTGCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.27, G:0.32, T:0.16
Consensus pattern (20 bp):
GTGTCCCAAAGCACACGGGA
Found at i:87735558 original size:19 final size:19
Alignment explanation
Indices: 87735530--87735566 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
87735520 ACGCTTAATT
* *
87735530 TGGAATTCAATCAACCACA
1 TGGAAATCAACCAACCACA
87735549 TGGAAATCAACCAACCAC
1 TGGAAATCAACCAACCAC
87735567 TCTCTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.16
Consensus pattern (19 bp):
TGGAAATCAACCAACCACA
Found at i:87735995 original size:15 final size:13
Alignment explanation
Indices: 87735969--87735993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87735959 AATAGGCTAA
87735969 TTCTCTCATTTTC
1 TTCTCTCATTTTC
87735982 TTCTCTCATTTT
1 TTCTCTCATTTT
87735994 TTAGATTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (13 bp):
TTCTCTCATTTTC
Found at i:87744204 original size:49 final size:49
Alignment explanation
Indices: 87744148--87744334 Score: 214
Period size: 49 Copynumber: 3.8 Consensus size: 49
87744138 AGCCGAAGCG
*
87744148 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * * *
87744197 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ATA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * * * * *
87744245 GTTTCCGGGTACGCATAGTAGCTTGCATTTAGTACTACACATGCGACCAATT
1 --AT-CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * *
87744297 ATCCGGTACACGTAGTAGCCTACACTTAGTACTACACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
87744335 CGTGACCTCA
Statistics
Matches: 112, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.03
49 70 0.62
50 2 0.02
51 35 0.31
52 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
Found at i:87744266 original size:100 final size:100
Alignment explanation
Indices: 87744152--87744339 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
87744142 GAAGCGATCT
*
87744152 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
87744217 TGCACTTAGTACTACACACGTGATCATAGTTTCCG
66 TACACTTAGTACTACACACGTGATCATAGTTTCCG
* * *
87744252 GGTACGCATAGTAGCTTGCATTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
87744317 TACACTTAGTACTACACACGTGA
66 TACACTTAGTACTACACACGTGA
87744340 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TACACTTAGTACTACACACGTGATCATAGTTTCCG
Found at i:87744675 original size:14 final size:16
Alignment explanation
Indices: 87744643--87744681 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
87744633 ATTTACATAA
*
87744643 CATATATCACATATTT
1 CATATATCACATATGT
87744659 CATATATCAC-T-TGT
1 CATATATCACATATGT
87744673 CATATATCA
1 CATATATCA
87744682 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:87747281 original size:17 final size:17
Alignment explanation
Indices: 87747259--87747291 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
87747249 GTTAGTGCAC
87747259 ATTTTCATTGCATTTTT
1 ATTTTCATTGCATTTTT
87747276 ATTTTCATTGCATTTT
1 ATTTTCATTGCATTTT
87747292 AATGTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (17 bp):
ATTTTCATTGCATTTTT
Found at i:87752246 original size:265 final size:265
Alignment explanation
Indices: 87751773--87752302 Score: 961
Period size: 265 Copynumber: 2.0 Consensus size: 265
87751763 ATGAGCTTCC
* *
87751773 CGCATAATGTTCTACTTAACATAAGAATTCTTCGAAACACATATTTTGTTCCGGAAATACAAACT
1 CGCATAATGTTCTACTTAACATAAGAATTCTTCGAAACACATATTTTATTCCGAAAATACAAACT
* *
87751838 ATCATCTGTACCAATGTGAAAATCTGAATCTAATGACTTTTCAATCTATTCTTGTTTAGCAATAA
66 ATCATCTGTACCAATGTGAAAATCTAAATCTAATGACTTTTCAATCTATCCTTGTTTAGCAATAA
87751903 ACTCGAGATCAGTTTTCTAAGCCTCACAGATTTGTTGTAGAAACATCGGTTTAGTTTTTAGTTCA
131 ACTCGAGATCAGTTTTCTAAGCCTCACAGATTTGTTGTAGAAACATCGGTTTAGTTTTTAGTTCA
* *
87751968 GCTAAAATATAACCGTCATCAACAAGCGTCAAACGAGTATTTAAAGCTCTTAAAACAAATAATGA
196 GCTAAAATATAACCATCATCAACAAGCATCAAACGAGTATTTAAAGCTCTTAAAACAAATAATGA
87752033 TTTCT
261 TTTCT
*
87752038 CGCATAATGTTCTACTTAACTTAAGAATTCTTCGAAACACATATTTTATTCCGAAAATACAAACT
1 CGCATAATGTTCTACTTAACATAAGAATTCTTCGAAACACATATTTTATTCCGAAAATACAAACT
*
87752103 ATCATCTGTACCAATGTGAAAATCTAAATCTGATGACTTTTCAATCTATCCTTGTTTAGCAATAA
66 ATCATCTGTACCAATGTGAAAATCTAAATCTAATGACTTTTCAATCTATCCTTGTTTAGCAATAA
* * *
87752168 ACTCGAGATTAGTTTTCTGAGCTTCACAGATTTGTTGTAGAAACATCGGTTTAGTTTTTAGTTCA
131 ACTCGAGATCAGTTTTCTAAGCCTCACAGATTTGTTGTAGAAACATCGGTTTAGTTTTTAGTTCA
87752233 GCTAAAATATAACCATCATCAACAAGCATCAAACGAGTATTTAAAGCTCTTAAAACAAATAATGA
196 GCTAAAATATAACCATCATCAACAAGCATCAAACGAGTATTTAAAGCTCTTAAAACAAATAATGA
87752298 TTTCT
261 TTTCT
87752303 GACTCAAAGC
Statistics
Matches: 254, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
265 254 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (265 bp):
CGCATAATGTTCTACTTAACATAAGAATTCTTCGAAACACATATTTTATTCCGAAAATACAAACT
ATCATCTGTACCAATGTGAAAATCTAAATCTAATGACTTTTCAATCTATCCTTGTTTAGCAATAA
ACTCGAGATCAGTTTTCTAAGCCTCACAGATTTGTTGTAGAAACATCGGTTTAGTTTTTAGTTCA
GCTAAAATATAACCATCATCAACAAGCATCAAACGAGTATTTAAAGCTCTTAAAACAAATAATGA
TTTCT
Found at i:87754406 original size:22 final size:21
Alignment explanation
Indices: 87754361--87754400 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
87754351 GATACCTGGT
87754361 AAAGGAATCGATACTTTTTGG
1 AAAGGAATCGATACTTTTTGG
*
87754382 AAAGGTATCGATACTTTTT
1 AAAGGAATCGATACTTTTT
87754401 TTGAAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (21 bp):
AAAGGAATCGATACTTTTTGG
Found at i:87767562 original size:63 final size:63
Alignment explanation
Indices: 87767457--87767582 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
87767447 TGGAGTTTGG
* *
87767457 TATTGAGCTAGTACCAGGAATGATGCCTATCTCTATCACTCCATACAGGATGGCTGTAATAAC
1 TATTAAGCTAGTACCAGGAACGATGCCTATCTCTATCACTCCATACAGGATGGCTGTAATAAC
* * **
87767520 TATTAAGCTAGTACCGGGAACGATGGCTATCTCTATTGCTCCATACAGGATGGCTGTAATAAC
1 TATTAAGCTAGTACCAGGAACGATGCCTATCTCTATCACTCCATACAGGATGGCTGTAATAAC
87767583 CCAAAATTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (63 bp):
TATTAAGCTAGTACCAGGAACGATGCCTATCTCTATCACTCCATACAGGATGGCTGTAATAAC
Found at i:87768418 original size:30 final size:30
Alignment explanation
Indices: 87768384--87768444 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
87768374 TTCACGAGCC
87768384 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
87768414 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
87768444 T
1 T
87768445 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:87781365 original size:25 final size:24
Alignment explanation
Indices: 87781321--87781389 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
87781311 TCTGAAAAAA
87781321 ATATAATA-AGAAAT-AAATAA-TT
1 ATATAATATA-AAATAAAATAATTT
87781343 ATATTAATATAAAATAAATATAATTT
1 ATA-TAATATAAAATAAA-ATAATTT
*
87781369 ATATAATATTAAATAAAATAA
1 ATATAATATAAAATAAAATAA
87781390 AAATCCCATC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
22 3 0.07
23 9 0.22
24 7 0.17
25 17 0.41
26 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (24 bp):
ATATAATATAAAATAAAATAATTT
Found at i:87781374 original size:20 final size:19
Alignment explanation
Indices: 87781335--87781374 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87781325 AATAAGAAAT
*
87781335 AAATAATTATATTAATATA
1 AAATAAATATATTAATATA
*
87781354 AAATAAATATAATTTATATA
1 AAATAAATAT-ATTAATATA
87781374 A
1 A
87781375 TATTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATAAATATATTAATATA
Found at i:87781957 original size:16 final size:16
Alignment explanation
Indices: 87781936--87781969 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
87781926 TTAATATAAA
87781936 TTTT-AAATTATTATAT
1 TTTTAAAATTATT-TAT
87781952 TTTTAAAATTATTTAT
1 TTTTAAAATTATTTAT
87781968 TT
1 TT
87781970 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAAATTATTTAT
Found at i:87781976 original size:10 final size:10
Alignment explanation
Indices: 87781947--87782100 Score: 56
Period size: 10 Copynumber: 15.9 Consensus size: 10
87781937 TTTAAATTAT
87781947 TATATTTTTA
1 TATATTTTTA
*
87781957 -AAATTATTTA
1 TATATT-TTTA
*
87781967 TTTATTTTTA
1 TATATTTTTA
87781977 TATA-TTTTA
1 TATATTTTTA
87781986 -A-ATTTTTA
1 TATATTTTTA
* *
87781994 TACATTATTA
1 TATATTTTTA
* * * *
87782004 TTTCTTGTAA
1 TATATTTTTA
87782014 TA-ATTTTT-
1 TATATTTTTA
* *
87782022 TTTATTTTGA
1 TATATTTTTA
87782032 TATATTTTTA
1 TATATTTTTA
87782042 -AT-TTTATTA
1 TATATTT-TTA
*
87782051 TTTTACTTTTTA
1 -TATA-TTTTTA
* * *
87782063 GAAATATTTA
1 TATATTTTTA
* *
87782073 TGTATTTTAA
1 TATATTTTTA
*
87782083 TATATTTTTT
1 TATATTTTTA
87782093 TA-ATTTTT
1 TATATTTTT
87782101 TAAAATTAGG
Statistics
Matches: 101, Mismatches: 31, Indels: 25
0.64 0.20 0.16
Matches are distributed among these distances:
7 1 0.01
8 10 0.10
9 29 0.29
10 50 0.50
11 5 0.05
12 3 0.03
13 3 0.03
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (10 bp):
TATATTTTTA
Found at i:87781983 original size:30 final size:29
Alignment explanation
Indices: 87781947--87782042 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
87781937 TTTAAATTAT
87781947 TATATTTTTAAAATTATTTATTTATTTTTA
1 TATATTTTTAAAATT-TTTATTTATTTTTA
** *
87781977 TATA-TTTT-AAATTTTTATACATTATTA
1 TATATTTTTAAAATTTTTATTTATTTTTA
* *
87782004 T-T-TCTTGTAATAATTTTT-TTTATTTTGA
1 TATAT-TTTTAA-AATTTTTATTTATTTTTA
87782032 TATATTTTTAA
1 TATATTTTTAA
87782043 TTTTATTATT
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
26 1 0.02
27 15 0.29
28 13 0.25
29 17 0.33
30 5 0.10
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (29 bp):
TATATTTTTAAAATTTTTATTTATTTTTA
Found at i:87781992 original size:17 final size:17
Alignment explanation
Indices: 87781916--87781995 Score: 64
Period size: 17 Copynumber: 5.0 Consensus size: 17
87781906 ATTTTTATTT
*
87781916 TATTTTAATATTAATATA
1 TATTTTAA-ATTATTATA
*
87781934 AATTTTAAATTATTATA
1 TATTTTAAATTATTATA
*
87781951 T-TTTTAAA--ATTATT
1 TATTTTAAATTATTATA
*
87781965 TA-TTT--ATTTTTATA
1 TATTTTAAATTATTATA
*
87781979 TATTTTAAATTTTTATA
1 TATTTTAAATTATTATA
87781996 CATTATTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
12 1 0.02
14 15 0.30
15 3 0.06
16 7 0.14
17 17 0.34
18 7 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTTAAATTATTATA
Found at i:87782004 original size:55 final size:52
Alignment explanation
Indices: 87781909--87782090 Score: 176
Period size: 55 Copynumber: 3.4 Consensus size: 52
87781899 TTCAGGGATT
* *
87781909 TTTATTTTATTTTAATATTAATATAAATTTTA-AATTATTATATTTTTAAAATTA
1 TTTA-TTTATTTTAATA-TATTTTAAATTTTATAATTATTAT-TTTTTAAAATTA
*
87781963 TTTATTTATTTTTATATATTTTAAATTTTTATACATTATTATTTCTTGTAATAATT-
1 TTTATTTATTTTAATATATTTTAAA-TTTTATA-ATTATTATTT-TT-TAA-AATTA
* * * *
87782019 TTT-TTTATTTTGATATATTTTTAATTTTATTATT-TTACTTTTTAGAAA-TA
1 TTTATTTATTTTAATATATTTTAAATTTTATAATTATTATTTTTTA-AAATTA
*
87782069 TTTATGTATTTTAATATATTTT
1 TTTATTTATTTTAATATATTTT
87782091 TTTAATTTTT
Statistics
Matches: 110, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
49 1 0.01
50 7 0.06
51 19 0.17
52 12 0.11
53 19 0.17
54 13 0.12
55 29 0.26
56 6 0.05
57 4 0.04
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (52 bp):
TTTATTTATTTTAATATATTTTAAATTTTATAATTATTATTTTTTAAAATTA
Found at i:87783214 original size:15 final size:15
Alignment explanation
Indices: 87783194--87783241 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
87783184 TCAAAGATGG
87783194 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
87783209 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
87783223 GTTTATGGATATAAA
1 GTTTATGGATATGAA
87783238 GTTT
1 GTTT
87783242 TTGTAGATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:87783228 original size:14 final size:14
Alignment explanation
Indices: 87783188--87783231 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
87783178 AAGGATTCAA
87783188 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
87783202 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
87783217 AGATGGGTTTATGG
1 AGATGGGTTTATGG
87783231 A
1 A
87783232 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:87783257 original size:29 final size:29
Alignment explanation
Indices: 87783188--87783249 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
87783178 AAGGATTCAA
*
87783188 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
87783217 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
87783246 AGAT
1 AGAT
87783250 TTGGTTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:87784265 original size:14 final size:14
Alignment explanation
Indices: 87784223--87784267 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
87784213 TTAAAAAAGT
87784223 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
87784237 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
87784250 AACTCATTTAATTA
1 AACTCATTAAATTA
87784264 AACT
1 AACT
87784268 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:87787786 original size:15 final size:14
Alignment explanation
Indices: 87787759--87787801 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
87787749 TATGTTCAAA
87787759 TTTTCAGATTTTTT
1 TTTTCAGATTTTTT
*
87787773 TTTTCAGAATTTTT
1 TTTTCAGATTTTTT
* * *
87787787 GTTTGAAATTTTTT
1 TTTTCAGATTTTTT
87787801 T
1 T
87787802 CGTTTTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.19, C:0.05, G:0.09, T:0.67
Consensus pattern (14 bp):
TTTTCAGATTTTTT
Found at i:87787811 original size:11 final size:11
Alignment explanation
Indices: 87787795--87787821 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
87787785 TTGTTTGAAA
87787795 TTTTTTTCGTT
1 TTTTTTTCGTT
87787806 TTTTTTTCGTT
1 TTTTTTTCGTT
87787817 TTTTT
1 TTTTT
87787822 CTTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTTTTTCGTT
Found at i:87788087 original size:14 final size:14
Alignment explanation
Indices: 87788047--87788090 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
87788037 AAGGATTCAA
87788047 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
87788061 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
87788076 AGATGGGTTTATGG
1 AGATGGGTTTATGG
87788090 A
1 A
87788091 TATAAAATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:87788105 original size:29 final size:29
Alignment explanation
Indices: 87788047--87788106 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
87788037 AAGGATTCAA
* *
87788047 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAATTTATGT
*
87788076 AGATGGGTTTATGGATATAAAATTTTTGT
1 AGATGGGTTTATGGATATAAAATTTATGT
87788105 AG
1 AG
87788107 GTTTGGTTAT
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:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAATTTATGT
Found at i:87789124 original size:14 final size:14
Alignment explanation
Indices: 87789082--87789126 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
87789072 TTAAAGAAGC
87789082 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
87789096 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
87789109 AACTCATTTAATTA
1 AACTCATTAAATTA
87789123 AACT
1 AACT
87789127 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:87794650 original size:17 final size:17
Alignment explanation
Indices: 87794628--87794666 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
87794618 ATAATGGATG
*
87794628 GAAATGATAAAC-TTATA
1 GAAATGAGAAACATT-TA
87794645 GAAATGAGAAACATTTA
1 GAAATGAGAAACATTTA
87794662 GAAAT
1 GAAAT
87794667 AAATATGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (17 bp):
GAAATGAGAAACATTTA
Found at i:87803916 original size:6 final size:6
Alignment explanation
Indices: 87803905--87803940 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
87803895 TCACTGGCTG
*
87803905 TCTTTA TCTTTA TCTTTA TCTTTA TATTT- TCTTTA T
1 TCTTTA TCTTTA TCTTTA TCTTTA TCTTTA TCTTTA T
87803941 TTATGGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTTTA
Found at i:87806744 original size:11 final size:11
Alignment explanation
Indices: 87806730--87806776 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
87806720 GAATTGGATC
87806730 ACTTGTTTTAA
1 ACTTGTTTTAA
*
87806741 ACTTGTGTTAA
1 ACTTGTTTTAA
*
87806752 ATATGTGTTTTAA
1 A-CT-TGTTTTAA
87806765 ACTTGTTTTAA
1 ACTTGTTTTAA
87806776 A
1 A
87806777 TTACGCGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 20 0.67
12 2 0.07
13 8 0.27
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (11 bp):
ACTTGTTTTAA
Found at i:87815326 original size:21 final size:21
Alignment explanation
Indices: 87815300--87815355 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
87815290 AATAGCGGTG
*
87815300 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
87815321 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
87815342 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
87815356 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:87815519 original size:30 final size:30
Alignment explanation
Indices: 87815471--87815634 Score: 233
Period size: 30 Copynumber: 5.5 Consensus size: 30
87815461 AATTTATAAA
*
87815471 TTTATTTAATAAAATACACTACATATATTTT
1 TTTATTT-TTAAAATACACTACATATATTTT
* *
87815502 TTTATTTCTAGAATACACTACATATATTTT
1 TTTATTTTTAAAATACACTACATATATTTT
*
87815532 TTTATTTTGAAAATACACTACATATATTTT
1 TTTATTTTTAAAATACACTACATATATTTT
*
87815562 TTTATTTTTAAAATACACTTACATGTA-TTT
1 TTTATTTTTAAAATACAC-TACATATATTTT
* *
87815592 TTTATTTTTAAAATCCATTACATATA-TTT
1 TTTATTTTTAAAATACACTACATATATTTT
87815621 TTTATTTTTAAAAT
1 TTTATTTTTAAAAT
87815635 TTTAAATACA
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
29 24 0.20
30 84 0.69
31 14 0.11
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTATTTTTAAAATACACTACATATATTTT
Found at i:87815767 original size:28 final size:28
Alignment explanation
Indices: 87815727--87815829 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 28
87815717 CAATACCCAT
*
87815727 TCCCATTTCCCATTCCACCGTGCCCTCC
1 TCCCATTTCCCATTCCACCGTCCCCTCC
* *
87815755 TCCCATTTCCCATTCCCATC-TCCCCTCT
1 TCCCATTTCCCATT-CCACCGTCCCCTCC
* * *
87815783 TCCATCGATTCCCCTCTTCCACCGTTCCCTCC
1 TCC--C-ATTTCCC-ATTCCACCGTCCCCTCC
87815815 TCCCA-TTCCCATTCC
1 TCCCATTTCCCATTCC
87815830 CATTCCCATT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
27 4 0.07
28 27 0.46
29 5 0.08
30 2 0.03
31 10 0.17
32 11 0.19
ACGTcount: A:0.11, C:0.53, G:0.04, T:0.32
Consensus pattern (28 bp):
TCCCATTTCCCATTCCACCGTCCCCTCC
Found at i:87815823 original size:21 final size:21
Alignment explanation
Indices: 87815734--87815823 Score: 50
Period size: 21 Copynumber: 4.4 Consensus size: 21
87815724 CATTCCCATT
*
87815734 TCCCATTCCACCGTGCCCTCC
1 TCCCATTCCACCGTTCCCTCC
* *
87815755 TCCCATTTC-CCATTCCCAT-C
1 TCCCATTCCACCGTTCCC-TCC
* *
87815775 TCCCCTCTTCCATCGATT-CC-CC
1 T-CCC-ATTCCACCG-TTCCCTCC
87815797 T--C-TTCCACCGTTCCCTCC
1 TCCCATTCCACCGTTCCCTCC
87815815 TCCCATTCC
1 TCCCATTCC
87815824 CATTCCCATT
Statistics
Matches: 50, Mismatches: 8, Indels: 22
0.62 0.10 0.28
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 3 0.06
19 1 0.02
20 9 0.18
21 16 0.32
22 5 0.10
23 3 0.06
24 2 0.04
ACGTcount: A:0.10, C:0.54, G:0.04, T:0.31
Consensus pattern (21 bp):
TCCCATTCCACCGTTCCCTCC
Found at i:87815826 original size:6 final size:6
Alignment explanation
Indices: 87815815--87815852 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
87815805 CGTTCCCTCC
87815815 TCCCAT TCCCAT TCCCAT TCCCAT TCCCATT TCCCAT T
1 TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT T
87815853 ATCAACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCAT
Found at i:87818204 original size:23 final size:25
Alignment explanation
Indices: 87818159--87818209 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
87818149 TTTAAATGGT
*
87818159 ATTATTAAATTTAATTTAATTATGAA
1 ATTATTAAATTT-ATTTAATTATAAA
*
87818185 ATTATTAAATTT-TTT-TTTATAAA
1 ATTATTAAATTTATTTAATTATAAA
87818208 AT
1 AT
87818210 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 3 0.13
26 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
ATTATTAAATTTATTTAATTATAAA
Found at i:87821468 original size:16 final size:16
Alignment explanation
Indices: 87821447--87821501 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
87821437 GTTTGGTTCA
87821447 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
87821463 CTGTAATAGAATAGAG
1 CTGTAATGGAATAGAG
*
87821479 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
87821495 CTGTAAT
1 CTGTAAT
87821502 AAGTAATTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:87821573 original size:44 final size:46
Alignment explanation
Indices: 87821483--87821576 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 46
87821473 ATAGAGCTGT
*
87821483 AATGGAATAGAACTGTAATAAGTAATTCAATTGTCTGGTTGGATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAATTGTCTGGTTGAATGG
* *
87821529 AATGGAATAGAACTGTAAT-AG-AATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAAT-TGTCTGGTTGAATGG
87821573 AATG
1 AATG
87821577 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 2 0.05
46 19 0.43
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCAATTGTCTGGTTGAATGG
Found at i:87827407 original size:24 final size:25
Alignment explanation
Indices: 87827368--87827419 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
87827358 ATATTATTTT
87827368 AATAAATTATTAGGTTTTTAGTAAA
1 AATAAATTATTAGGTTTTTAGTAAA
*
87827393 AATAATTTATT-GGTTTTTAGTAAA
1 AATAAATTATTAGGTTTTTAGTAAA
87827417 AAT
1 AAT
87827420 TTTCTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (25 bp):
AATAAATTATTAGGTTTTTAGTAAA
Done.