Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
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: 8461613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 85630 characters in sequence are not A, C, G, or T
File 11 of 18
Found at i:5223739 original size:26 final size:25
Alignment explanation
Indices: 5223709--5223764 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
5223699 AGAAATTTCA
*
5223709 AAATTAACTATTGTTAAATTATTTT
1 AAATTAACTATTGTTAAATCATTTT
*
5223734 AGAATTAACTATTGTTACATCATTTT
1 A-AATTAACTATTGTTAAATCATTTT
5223760 AAATT
1 AAATT
5223765 GAATGTCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (25 bp):
AAATTAACTATTGTTAAATCATTTT
Found at i:5224958 original size:30 final size:30
Alignment explanation
Indices: 5224894--5224987 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
5224884 AAAAAAAAAA
* ** * *
5224894 AGCACCAG-CCAATGCTCCTTAGGGAGGAG
1 AGCACCAGATCAATGCTCCCAAAGGAGGGG
* *
5224923 AGCACCA-ATCAATGCTCTTCAAAGGAGTGG
1 AGCACCAGATCAATGCTC-CCAAAGGAGGGG
* *
5224953 AGCACCAGATCGATGCTCCCAAGGGAGGGG
1 AGCACCAGATCAATGCTCCCAAAGGAGGGG
5224983 AGCAC
1 AGCAC
5224988 TAGGTGCTCC
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
29 15 0.29
30 27 0.53
31 9 0.18
ACGTcount: A:0.30, C:0.27, G:0.30, T:0.14
Consensus pattern (30 bp):
AGCACCAGATCAATGCTCCCAAAGGAGGGG
Found at i:5227487 original size:44 final size:44
Alignment explanation
Indices: 5227419--5227506 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
5227409 AATCATAATA
5227419 CAATCATGGGAAGTGGAAACCTTCTCAATCCACA-TCACAACAC
1 CAATCATGGGAAGTGGAAACCTTCTCAATCCACATTCACAACAC
*
5227462 CAATCATGGGAATGTGGAGACCTTCTCAATCCACATTCACAACAC
1 CAATCATGGGAA-GTGGAAACCTTCTCAATCCACATTCACAACAC
5227507 TTATATGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 12 0.29
44 21 0.50
45 9 0.21
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (44 bp):
CAATCATGGGAAGTGGAAACCTTCTCAATCCACATTCACAACAC
Found at i:5234312 original size:21 final size:21
Alignment explanation
Indices: 5234288--5234329 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5234278 CATTATGATA
5234288 ACAATCATAGGACATATGACC
1 ACAATCATAGGACATATGACC
5234309 ACAATCATAGGACATATGACC
1 ACAATCATAGGACATATGACC
5234330 TTTTTGACCA
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:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (21 bp):
ACAATCATAGGACATATGACC
Found at i:5235407 original size:18 final size:19
Alignment explanation
Indices: 5235379--5235414 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5235369 GCTTGTTTAT
*
5235379 AATATTGGTAAAGTTATCA
1 AATATTGGTAAAGATATCA
5235398 AATA-TGGTAAAGATATC
1 AATATTGGTAAAGATATC
5235415 TTCACCCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (19 bp):
AATATTGGTAAAGATATCA
Found at i:5254084 original size:25 final size:25
Alignment explanation
Indices: 5254047--5254162 Score: 106
Period size: 25 Copynumber: 4.6 Consensus size: 25
5254037 AAAAATCTAA
* * *
5254047 TATCTGTAGGGCATTGCATGATTGT
1 TATCTATATGGCATTGCATGACTGT
* *
5254072 TATTTATATGGCAATGCATGACTGT
1 TATCTATATGGCATTGCATGACTGT
* * ** * * *
5254097 TATTTGTATGATAGTGCGTGATTGT
1 TATCTATATGGCATTGCATGACTGT
*
5254122 TATCTGTATGGCATTGCATGACTGT
1 TATCTATATGGCATTGCATGACTGT
*
5254147 TATCTATATGACATTG
1 TATCTATATGGCATTG
5254163 TGTGAGAGTA
Statistics
Matches: 72, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 72 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.42
Consensus pattern (25 bp):
TATCTATATGGCATTGCATGACTGT
Found at i:5254184 original size:50 final size:50
Alignment explanation
Indices: 5254078--5254187 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 50
5254068 TTGTTATTTA
* * * * ** *
5254078 TATGGCAATGCATGACTGTTATTTGTATGATAGTGCGTGATTGTTATCTG
1 TATGGCATTGCATGACTGTTATCTATATGACAGTGCGTGAGAGTAATCTG
* * *
5254128 TATGGCATTGCATGACTGTTATCTATATGACATTGTGTGAGAGTAATTTG
1 TATGGCATTGCATGACTGTTATCTATATGACAGTGCGTGAGAGTAATCTG
*
5254178 TCTGGCATTG
1 TATGGCATTG
5254188 TTGGACTGTC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.41
Consensus pattern (50 bp):
TATGGCATTGCATGACTGTTATCTATATGACAGTGCGTGAGAGTAATCTG
Found at i:5257718 original size:47 final size:47
Alignment explanation
Indices: 5257661--5257789 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
5257651 ACCTTAATAG
* * * * *
5257661 AAGTGTTACTAATTTAAGATGCTTCTAATGACTAGAACAT-GGGATTA
1 AAGTGCTACTAACTTAGGATGCTTCTAATGACTAGAACATAAGG-TCA
*
5257708 AAGTGCTACTAACTTAGGATGCTTCTAATGACCAGAACATAAGGTCA
1 AAGTGCTACTAACTTAGGATGCTTCTAATGACTAGAACATAAGGTCA
* *
5257755 AAGTGCTACAAACTTGGGATGCTTCTAATGACTAG
1 AAGTGCTACTAACTTAGGATGCTTCTAATGACTAG
5257790 TACTACTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 70 0.97
48 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (47 bp):
AAGTGCTACTAACTTAGGATGCTTCTAATGACTAGAACATAAGGTCA
Found at i:5258113 original size:84 final size:79
Alignment explanation
Indices: 5258001--5258231 Score: 259
Period size: 84 Copynumber: 2.9 Consensus size: 79
5257991 ATTGGTTGAC
* * *
5258001 AGGCATTGCATGACTTACACATTGCATGAATGGTTTGTAGTCATTGTGTGACTTCTTGATATAGT
1 AGGCATTGCATGACTTACGCATTGCATGAATGGTTTGTAGTCATTGTATGACTTCTTGATATAGC
*
5258066 ATTGCGTTACTAATTGAT
66 ATTGCG---CGAATT-AT
* * * ** *
5258084 ATGGCATTGCGTGACTTACGCATTACATGAATGGTTTGTAGTCATTGCATGACTAGTTGATATGG
1 A-GGCATTGCATGACTTACGCATTGCATGAATGGTTTGTAGTCATTGTATGACTTCTTGATATAG
*
5258149 CATTGCGCGACTTAT
65 CATTGCGCGAATTAT
* * * * *
5258164 A--CATTGCATGACTTACGCATTGCGTGAATGATTTGCAATCATTGTATGACTTCTTGATATGGC
1 AGGCATTGCATGACTTACGCATTGCATGAATGGTTTGTAGTCATTGTATGACTTCTTGATATAGC
5258227 ATTGC
66 ATTGC
5258232 ATGACTTACG
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
77 58 0.46
80 3 0.02
81 4 0.03
83 1 0.01
84 61 0.48
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.37
Consensus pattern (79 bp):
AGGCATTGCATGACTTACGCATTGCATGAATGGTTTGTAGTCATTGTATGACTTCTTGATATAGC
ATTGCGCGAATTAT
Found at i:5258221 original size:77 final size:77
Alignment explanation
Indices: 5258088--5258231 Score: 207
Period size: 77 Copynumber: 1.9 Consensus size: 77
5258078 ATTGATATGG
* * * * *
5258088 CATTGCGTGACTTACGCATTACATGAATGGTTTGTAGTCATTGCATGACTAGTTGATATGGCATT
1 CATTGCATGACTTACGCATTACATGAATGATTTGCAATCATTGCATGACTACTTGATATGGCATT
5258153 GCGCGACTTATA
66 GCGCGACTTATA
* * * *
5258165 CATTGCATGACTTACGCATTGCGTGAATGATTTGCAATCATTGTATGACTTCTTGATATGGCATT
1 CATTGCATGACTTACGCATTACATGAATGATTTGCAATCATTGCATGACTACTTGATATGGCATT
5258230 GC
66 GC
5258232 ATGACTTACG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
77 58 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (77 bp):
CATTGCATGACTTACGCATTACATGAATGATTTGCAATCATTGCATGACTACTTGATATGGCATT
GCGCGACTTATA
Found at i:5260412 original size:23 final size:23
Alignment explanation
Indices: 5260383--5260486 Score: 111
Period size: 23 Copynumber: 4.5 Consensus size: 23
5260373 ACTAGATATT
5260383 AGGCATTGCATGACTAGTTTTGA
1 AGGCATTGCATGACTAGTTTTGA
* *
5260406 AGGCATTGCGTG-CTTAGTTTTTA
1 AGGCATTGCATGAC-TAGTTTTGA
* * *
5260429 AGACATTGCATGACTATTTTTTA
1 AGGCATTGCATGACTAGTTTTGA
* *
5260452 AGGCATTGCATAACTGGTTTTGA
1 AGGCATTGCATGACTAGTTTTGA
* *
5260475 GGGCATTACATG
1 AGGCATTGCATG
5260487 CTTGGTTTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
22 1 0.02
23 64 0.97
24 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (23 bp):
AGGCATTGCATGACTAGTTTTGA
Found at i:5260495 original size:69 final size:69
Alignment explanation
Indices: 5260383--5260550 Score: 183
Period size: 69 Copynumber: 2.4 Consensus size: 69
5260373 ACTAGATATT
* * * * * * *
5260383 AGGCATTGCATGACTAGTTTTGAAGGCATTGCGTGCTTAGTTTTTAAGACATTGCATGACTATTT
1 AGGCATTGCATAACTAGTTTTGAAGGCATTACATGCTTAGTTTTTAACACATTACATAACTAGTT
5260448 TTTA
66 TTTA
* * * * *
5260452 AGGCATTGCATAACTGGTTTTGAGGGCATTACATGCTTGGTTTTTAACACATTACGTAACTGGTT
1 AGGCATTGCATAACTAGTTTTGAAGGCATTACATGCTTAGTTTTTAACACATTACATAACTAGTT
5260517 TTTA
66 TTTA
*** * *
5260521 AGGCATTATGTCACTAGTTTTGAAAGCATT
1 AGGCATTGCATAACTAGTTTTGAAGGCATT
5260551 GCATATCTAG
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
69 80 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (69 bp):
AGGCATTGCATAACTAGTTTTGAAGGCATTACATGCTTAGTTTTTAACACATTACATAACTAGTT
TTTA
Found at i:5260527 original size:23 final size:23
Alignment explanation
Indices: 5260422--5260528 Score: 90
Period size: 23 Copynumber: 4.7 Consensus size: 23
5260412 TGCGTGCTTA
* * * *
5260422 GTTTTTAAGACATTGCATGACTA
1 GTTTTTAAGGCATTACATAACTG
* *
5260445 TTTTTTAAGGCATTGCATAACTG
1 GTTTTTAAGGCATTACATAACTG
* * *
5260468 GTTTTGAGGGCATTACAT-GCTTG
1 GTTTTTAAGGCATTACATAAC-TG
** *
5260491 GTTTTTAACACATTACGTAACTG
1 GTTTTTAAGGCATTACATAACTG
5260514 GTTTTTAAGGCATTA
1 GTTTTTAAGGCATTA
5260529 TGTCACTAGT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
22 1 0.02
23 63 0.97
24 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (23 bp):
GTTTTTAAGGCATTACATAACTG
Found at i:5260540 original size:23 final size:23
Alignment explanation
Indices: 5260491--5260550 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
5260481 TACATGCTTG
*
5260491 GTTTTTAACA-CATTACGTAACTG
1 GTTTTTAA-AGCATTACGTAACTA
* * *
5260514 GTTTTTAAGGCATTATGTCACTA
1 GTTTTTAAAGCATTACGTAACTA
*
5260537 GTTTTGAAAGCATT
1 GTTTTTAAAGCATT
5260551 GCATATCTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (23 bp):
GTTTTTAAAGCATTACGTAACTA
Found at i:5268230 original size:32 final size:32
Alignment explanation
Indices: 5268184--5268253 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
5268174 TAGTCGACTA
*
5268184 AGAGACTACTGCCAGAAACTGGGTTCAGAGAT
1 AGAGACTACTGCCAGAAACTGGGTTCAGAGAC
*
5268216 AGAGCCTACTGCCAGAAACTGGGTTCAGAGAC
1 AGAGACTACTGCCAGAAACTGGGTTCAGAGAC
5268248 AGAGAC
1 AGAGAC
5268254 GACTTAGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (32 bp):
AGAGACTACTGCCAGAAACTGGGTTCAGAGAC
Found at i:5273977 original size:16 final size:16
Alignment explanation
Indices: 5273958--5273995 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
5273948 GTTGATTTCA
5273958 TGAACTATCTTGTGAG
1 TGAACTATCTTGTGAG
5273974 TGAACTATCTTGTGAG
1 TGAACTATCTTGTGAG
5273990 TGAACT
1 TGAACT
5273996 TTTCCCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (16 bp):
TGAACTATCTTGTGAG
Found at i:5288716 original size:19 final size:19
Alignment explanation
Indices: 5288678--5288718 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
5288668 AATTTTGAAA
** *
5288678 TAAAATAATATTTTATTAT
1 TAAAATAATATTAAAATAT
5288697 TAAAATAATATTAAAATAT
1 TAAAATAATATTAAAATAT
5288716 TAA
1 TAA
5288719 TATTTTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATAATATTAAAATAT
Found at i:5289858 original size:4 final size:4
Alignment explanation
Indices: 5289843--5289917 Score: 50
Period size: 4 Copynumber: 19.5 Consensus size: 4
5289833 GAAAGGAGAG
* * * ***
5289843 GAAA GGAA GAAA GAAA GGGAA GAGA GAAA GAAA GGGG GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
5289892 G-AA G-AA G-AA GAAA -AAA GAAG GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
5289918 TCGGTTTGGT
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
3 12 0.22
4 39 0.72
5 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:5289872 original size:17 final size:16
Alignment explanation
Indices: 5289849--5289892 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
5289839 AGAGGAAAGG
5289849 AAGAAAGAAAGGGAAGA
1 AAGAAAGAAAGGG-AGA
* *
5289866 GAGAAAGAAAGGGGGA
1 AAGAAAGAAAGGGAGA
5289882 AAGAAAGAAAG
1 AAGAAAGAAAG
5289893 AAGAAGAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAGGGAGA
Found at i:5289886 original size:33 final size:32
Alignment explanation
Indices: 5289845--5289917 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 32
5289835 AAGGAGAGGA
*
5289845 AAGG-AAGAAAGAAAG-GGAAGAGAGAAAGAAAG
1 AAGGAAAGAAAGAAAGAAGAAGA-AGAAA-AAAG
**
5289877 GGGGAAAGAAAGAAAGAAGAAGAAGAAAAAAG
1 AAGGAAAGAAAGAAAGAAGAAGAAGAAAAAAG
5289909 AAGGAAAGA
1 AAGGAAAGA
5289918 TCGGTTTGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 13 0.38
33 16 0.47
34 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (32 bp):
AAGGAAAGAAAGAAAGAAGAAGAAGAAAAAAG
Found at i:5290227 original size:22 final size:22
Alignment explanation
Indices: 5290182--5290227 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
5290172 TCGTGGCAGC
5290182 AATGGTGACTATGAATGTGAGGA
1 AATGGTGACTAT-AATGTGAGGA
*
5290205 AATGGTGAACTAT-ATGTGTGGA
1 AATGGTG-ACTATAATGTGAGGA
5290227 A
1 A
5290228 CTCAAGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.35, C:0.04, G:0.33, T:0.28
Consensus pattern (22 bp):
AATGGTGACTATAATGTGAGGA
Found at i:5299715 original size:2 final size:2
Alignment explanation
Indices: 5299710--5299734 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5299700 GTTTTTTTAA
5299710 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5299735 ATTAGATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5301898 original size:33 final size:33
Alignment explanation
Indices: 5301836--5301902 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
5301826 TAAGGTAAAG
**
5301836 ACATTGGTTATGCCATGGTTTAAGAAATCAATT
1 ACATTGGTTATGCCATGGACTAAGAAATCAATT
* * *
5301869 ACATTGGTTATGCCGTTGACTAAGGAATCAATT
1 ACATTGGTTATGCCATGGACTAAGAAATCAATT
5301902 A
1 A
5301903 GTCAATGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (33 bp):
ACATTGGTTATGCCATGGACTAAGAAATCAATT
Found at i:5307678 original size:8 final size:8
Alignment explanation
Indices: 5307665--5307690 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5307655 TGAACTAATT
5307665 TTAATTTA
1 TTAATTTA
5307673 TTAATTTA
1 TTAATTTA
5307681 TTAATTTA
1 TTAATTTA
5307689 TT
1 TT
5307691 GTTCATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTAATTTA
Found at i:5307851 original size:236 final size:233
Alignment explanation
Indices: 5307440--5308041 Score: 650
Period size: 236 Copynumber: 2.6 Consensus size: 233
5307430 TTTATGAACT
* * *
5307440 TTAATTTATTAATATAATTTTCATTAATAACATACAT-AAAATTGATTTT-AA-TTATTTTAATT
1 TTAATTTATTAAT-TTATTTTCATTAATAATATACATAAAAATTGATTTTAAATTTATTTTAATC
* ** * * * * *
5307502 GGATATTTAGTAGATAATATTTAAAATATTTGTGTATGAGTTTAGGTAACAATTGAAAAATTTAA
65 GGGTATTTAACAAATAATA-TTAAAATATTTATGTATGAGTTCAAGTAACAATTAAAAAATTTAA
* * ** * * *
5307567 TCAAGCATTTATAGGACATTAATGTCATGCGTACTAAAATTTATTAATTGTTCTAATTATGATAT
129 TCAAGTATTTATAAGACATTAACATAACGCGTACTAAAATTCATTAATTGTTCTAATTATGATAT
* * * * * * *
5307632 TAAATTTTAATTTATGCTTTTTATGAACTAATTTTAATTTA
194 TAAACTTTAATCTAT-ATTTTTAGGAACAAACTCTAATTTA
* * *
5307673 TTAATTTATTAATTTATTGTTCATTAATAATATACCTAAAAATTAATTTTAAATTTATTCTAATC
1 TTAATTTATTAATTTATT-TTCATTAATAATATACATAAAAATTGATTTTAAATTTATTTTAATC
* * *
5307738 GGGTATTTAACAAATAATATTGAACATATTCATATATGAGTTCAAGTAACAATTAAAAAATTTAA
65 GGGTATTTAACAAATAATATT-AAAATATTTATGTATGAGTTCAAGTAACAATTAAAAAATTTAA
* * * * * *
5307803 TCATGTATTTATAAGAGATTAACATAACGCTTACTTAAATTCATTAATTGTTCTAATTGTGATTT
129 TCAAGTATTTATAAGACATTAACATAACGCGTACTAAAATTCATTAATTGTTCTAATTATGATAT
* *
5307868 TAAACTTTGATCTATATTTTTAGGAACAAACTCTACTTTA
194 TAAACTTTAATCTATATTTTTAGGAACAAACTCTAATTTA
* *
5307908 TTAA--T-TTAA--T-TTTT-ATTAATAATATACATAAAGATTGATTTTAAATTTATTTTAATCA
1 TTAATTTATTAATTTATTTTCATTAATAATATACATAAAAATTGATTTTAAATTTATTTTAATCG
* * * * *
5307966 AGAATTTAACAAATAGTATCTAAAATATTTAGGTATAAGTTCAAGTAAC-ATTAAAAAATTTAAT
66 GGTATTTAACAAATAATAT-TAAAATATTTATGTATGAGTTCAAGTAACAATTAAAAAATTTAAT
*
5308030 CAAATATTTATA
130 CAAGTATTTATA
5308042 GGATTCAAAT
Statistics
Matches: 309, Mismatches: 54, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
226 25 0.08
227 78 0.25
228 3 0.01
229 2 0.01
230 1 0.00
232 8 0.03
233 30 0.10
234 11 0.04
235 27 0.09
236 124 0.40
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (233 bp):
TTAATTTATTAATTTATTTTCATTAATAATATACATAAAAATTGATTTTAAATTTATTTTAATCG
GGTATTTAACAAATAATATTAAAATATTTATGTATGAGTTCAAGTAACAATTAAAAAATTTAATC
AAGTATTTATAAGACATTAACATAACGCGTACTAAAATTCATTAATTGTTCTAATTATGATATTA
AACTTTAATCTATATTTTTAGGAACAAACTCTAATTTA
Found at i:5308389 original size:14 final size:13
Alignment explanation
Indices: 5308362--5308411 Score: 75
Period size: 13 Copynumber: 3.8 Consensus size: 13
5308352 TAAAAATAAA
*
5308362 TTTTTTT-ATATT
1 TTTTTTTAAAATT
5308374 TTTTTTTAAAATT
1 TTTTTTTAAAATT
5308387 TTTTTTTAAAATTT
1 TTTTTTTAAAA-TT
5308401 TTTTTTTAAAA
1 TTTTTTTAAAA
5308412 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 7 0.20
13 15 0.43
14 13 0.37
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTTAAAATT
Found at i:5315775 original size:6 final size:6
Alignment explanation
Indices: 5315764--5315804 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
5315754 AGGATCATCA
*
5315764 CTTTCT CTTTCT -TTTCA CTTTCT CTTTCT -TTTCT CTTTCT C
1 CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT C
5315805 AACAACTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 9 0.29
6 22 0.71
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (6 bp):
CTTTCT
Found at i:5315783 original size:17 final size:17
Alignment explanation
Indices: 5315761--5315804 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
5315751 TGGAGGATCA
5315761 TCACTTTCTCTTTCTTT
1 TCACTTTCTCTTTCTTT
5315778 TCACTTTCTCTTTCTTT
1 TCACTTTCTCTTTCTTT
*
5315795 TCTCTTTCTC
1 TCACTTTCTC
5315805 AACAACTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.64
Consensus pattern (17 bp):
TCACTTTCTCTTTCTTT
Found at i:5340977 original size:171 final size:170
Alignment explanation
Indices: 5340687--5341476 Score: 868
Period size: 171 Copynumber: 4.6 Consensus size: 170
5340677 AAACATGCTG
* * * *
5340687 TAAATGGTTTTAAAACCCCATAATTGACTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAATAG
1 TAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTTTT-ATTTTTGGTTAAAACAG
* * * * * * *
5340752 ATTATAGTTAAATATCTACCTCGAGAAATGTGAAGAAAAAGCCATTCGTTGGCAAGAAAAGCCCA
65 ATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAGACATTCATTGGCAAGAAAAGCCCA
* * * **
5340817 TGTATAGTCACCCATGCCTTCGAAAGCCTTATGACTCTTTT
130 TTTATAGTCACCCATGCCTTCGAAAACCTTATTACTCGCTT
* * * *
5340858 TCAATGGTTTTATAATCTCATAATTGACTTTCAGTTGAATTTTTTTGTATTTTTGGCTAAAGCAG
1 TAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTTT-TATTTTTGGTTAAAACAG
* * * *
5340923 ATTATAATTGAATGTCTACCTTGAGACACGTTAAGAAAAAGCCATTCATTGGCAAGAAAAAGCTC
65 ATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAGACATTCATTGGCAAG-AAAAGCCC
*** * *
5340988 ATTTATAGTCATTAAAGCCTTCGAAAGCCTTATTACTCGCTT
129 ATTTATAGTCACCCATGCCTTCGAAAACCTTATTACTCGCTT
* * * * *
5341030 TAAATTGTTTTATAATCACATAGTTGATTTTAAGTTGAATTTTTTTTCTATTTTTTGTTAAAACA
1 TAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAA-TTTTTTT-TATTTTTGGTTAAAACA
* * * * * *
5341095 GATTATAATTGAATGTCTACC-TCAGGAAATGTGAAGAAAAAGATATTCATTCGCAAGAAATGTC
64 GATTATAATTGAATGTCTACCTTGA-GAAACGTGAAGAAAAAGACATTCATTGGCAAGAAAAGCC
* * *
5341159 CATTTATAGTCACCCATACATTCAAAAACCTTATTACTCGCTT
128 CATTTATAGTCACCCATGCCTTCGAAAACCTTATTACTCGCTT
* * **
5341202 TAAATGGTTTTATAAACTCATACTTGA-TTTGAAGTTGAATTTTTTTATATTTTTTATTAAAACA
1 TAAATGGTTTTATAATCTCATAATTGACTTT-AAGTTGAATTTTTTT-TATTTTTGGTTAAAACA
* * * * * * **
5341266 GATTATAATTGAATGTCTATCTTGGGAAACCTAAAGAAAAAGATATTCATTTTG-AAGAAAAGTG
64 GATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAGACATTCA-TTGGCAAGAAAAGCC
* * *
5341330 CATTTATACTTACCTATGCC-TCGAAAAACCTTATTACTCGCTT
128 CATTTATAGTCACCCATGCCTTCG-AAAACCTTATTACTCGCTT
* * * *
5341373 TAAATGGTTTTATAATGTCATAATTAACTTTAAGTTGAATTGTTTTTTCATTTTTGGTCAAAATA
1 TAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATT-TTTTTT-ATTTTTGGTTAAAACA
* *
5341438 GACTATAATTGAATGTCTACCTTGAGAAACATGAAGAAA
64 GATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAA
5341477 NNNNNNNNNN
Statistics
Matches: 521, Mismatches: 87, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
170 2 0.00
171 246 0.47
172 205 0.39
173 68 0.13
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (170 bp):
TAAATGGTTTTATAATCTCATAATTGACTTTAAGTTGAATTTTTTTTATTTTTGGTTAAAACAGA
TTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAGACATTCATTGGCAAGAAAAGCCCAT
TTATAGTCACCCATGCCTTCGAAAACCTTATTACTCGCTT
Found at i:5341421 original size:344 final size:343
Alignment explanation
Indices: 5340687--5341476 Score: 964
Period size: 344 Copynumber: 2.3 Consensus size: 343
5340677 AAACATGCTG
* * *
5340687 TAAATGGTTTTAAAACCCCATAATTGACTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAATAG
1 TAAATGGTTTTATAATCACATAATTGACTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAATAG
* * * * * *
5340752 ATTATAGTTAAATATCTACCTCGAGAAATGTGAAGAAAAAGCCATTCGTTGGCAAGAAAAGCCCA
66 ATTATAATTGAATGTCTACCTCGAGAAATGTGAAGAAAAAGACATTCATTCGCAAGAAAAGCCCA
* * * * ** * *
5340817 TGTATAGTCACCCATGCCTTCGAAAGCCTTATGACTCTTTTTCAATGGTTTTATAATCTCATAAT
131 TGTATAGTCACCCATACATTCAAAAACCTTATGACTCGCTTTAAATGGTTTTATAAACTCATAAT
* * * *
5340882 TGACTTTCAGTTGAATTTTTTTGTATTTTTGGCTAAAGCAGATTATAATTGAATGTCTACCTTGA
196 TGACTTTAAGTTGAATTTTTTTATATTTTTGACTAAAACAGATTATAATTGAATGTCTACCTTGA
* * * * * *
5340947 GACACGTTAAGAAAAAGCCATTCATTGGCAAGAAAAAGCTCATTTATAGTCATTAAAGCCTTCGA
261 GAAACCTAAAGAAAAAGACATTCATTGGCAAGAAAAAGCTCATTTATACTCACTAAAGCCTTCGA
*
5341012 AAGCCTTATTACTCGCTT
326 AAACCTTATTACTCGCTT
* * * * *
5341030 TAAATTGTTTTATAATCACATAGTTGATTTTAAGTTGAATTTTTTTTCTATTTTTTGTTAAAACA
1 TAAATGGTTTTATAATCACATAATTGACTTTAAGTTGAATTTTTTTTC-ATTTTTGGTTAAAATA
* * *
5341095 GATTATAATTGAATGTCTACCTC-AGGAAATGTGAAGAAAAAGATATTCATTCGCAAGAAATGTC
65 GATTATAATTGAATGTCTACCTCGA-GAAATGTGAAGAAAAAGACATTCATTCGCAAGAAAAGCC
* *
5341159 CATTTATAGTCACCCATACATTCAAAAACCTTATTACTCGCTTTAAATGGTTTTATAAACTCATA
129 CATGTATAGTCACCCATACATTCAAAAACCTTATGACTCGCTTTAAATGGTTTTATAAACTCATA
* * * *
5341224 CTTGA-TTTGAAGTTGAATTTTTTTATATTTTTTATTAAAACAGATTATAATTGAATGTCTATCT
194 ATTGACTTT-AAGTTGAATTTTTTTATATTTTTGACTAAAACAGATTATAATTGAATGTCTACCT
* * * * *
5341288 TGGGAAACCTAAAGAAAAAGATATTCATTTTG-AAG-AAAAG-TGCATTTATACTTACCT-ATGC
258 TGAGAAACCTAAAGAAAAAGACATTCA-TTGGCAAGAAAAAGCT-CATTTATACTCA-CTAAAGC
5341349 C-TCGAAAAACCTTATTACTCGCTT
320 CTTCG-AAAACCTTATTACTCGCTT
** * *
5341373 TAAATGGTTTTATAATGTCATAATTAACTTTAAGTTGAATTGTTTTTTCATTTTTGGTCAAAATA
1 TAAATGGTTTTATAATCACATAATTGACTTTAAGTTGAATT-TTTTTTCATTTTTGGTTAAAATA
* * **
5341438 GACTATAATTGAATGTCTACCTTGAGAAACATGAAGAAA
65 GATTATAATTGAATGTCTACCTCGAGAAATGTGAAGAAA
5341477 NNNNNNNNNN
Statistics
Matches: 378, Mismatches: 60, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
342 4 0.01
343 164 0.43
344 207 0.55
345 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (343 bp):
TAAATGGTTTTATAATCACATAATTGACTTTAAGTTGAATTTTTTTTCATTTTTGGTTAAAATAG
ATTATAATTGAATGTCTACCTCGAGAAATGTGAAGAAAAAGACATTCATTCGCAAGAAAAGCCCA
TGTATAGTCACCCATACATTCAAAAACCTTATGACTCGCTTTAAATGGTTTTATAAACTCATAAT
TGACTTTAAGTTGAATTTTTTTATATTTTTGACTAAAACAGATTATAATTGAATGTCTACCTTGA
GAAACCTAAAGAAAAAGACATTCATTGGCAAGAAAAAGCTCATTTATACTCACTAAAGCCTTCGA
AAACCTTATTACTCGCTT
Found at i:5342203 original size:340 final size:340
Alignment explanation
Indices: 5341577--5342213 Score: 829
Period size: 340 Copynumber: 1.9 Consensus size: 340
5341567 NNNNNNNNNN
*
5341577 TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATGTCATAATTCACTTTAAGTTGATCTTT
1 TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATGTCATAATTCACTTTAAGTTAATCTTT
* * * *** **
5341642 TTTCATTTTTGGTTAAAACATATTATAATTAATGTCTACATCAAGAAGTGTGAAGAAAAAATTAT
66 TTTCATTTTTGGTCAAAACAGACTATAATTAATGTCTACATCAAGAAACATGAAGAAAAAACCAT
** * * * * *
5341707 TCGTTGGCAAGAGAAGTCCATTTATAGTCACCCATACCTTCGAAAGCTTTATTACTAGCTTTAAA
131 TCACTAGCAAGAAAAGCCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTAGCTTTAAA
* * *
5341772 TGGTTTGATAATCTCAAAATTGATTTGAAATAGATTTTTTTTATATTTTTTATTAAAACAGATTA
196 TGGTTTCATAATCTCAAAATTGATTTGAAATAGAATTTTTTTATATTTTTGATTAAAACAGATTA
5341837 TCATTGAATATCTACCTCAGGAAACATGAAGAAAAAGATATTCATTTTTCAGAAAAGTCAATTGG
261 TCATTGAATATCTACCTCAGGAAACATGAAGAAAAAGATATTCATTTTTCAGAAAAGTCAATTGG
5341902 TACTCACATTTGCCT
326 TACTCACATTTGCCT
* *
5341917 TCAAAAGCCTTATTATTCGCTTTAAATGAG-TTTATAATGTCAT-ATT-ACCTTTAAGTTAATTT
1 TCAAAAGCCTTATTACTCGCTTTAAATG-GTTTTATAATGTCATAATTCA-CTTTAAGTTAA-TC
* * ** *
5341979 TTTTTTCA-TTTTGGTCAAAATAGACTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAAG
63 TTTTTTCATTTTTGGTCAAAACAGACTATAATT-AATGTCTACATCAAGAAACATGAAGAAAAAA
**
5342043 CCATTCACTAGCAAGAAAAGCCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTCTCTT
127 CCATTCACTAGCAAGAAAAGCCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTAGCTT
* * * * * * *
5342108 TGAATGGTTTCATAATCTCATAATTGACTTT-AAGTTGAATTTTTTTGTGTTTTTGGTTAAAACA
192 TAAATGGTTTCATAATCTCAAAATTGA-TTTGAAATAGAATTTTTTTATATTTTTGATTAAAACA
* *
5342172 GATTAT-AGTTGAATGTCTACCTC-GAGAAACATTAAGAAAAAG
256 GATTATCA-TTGAATATCTACCTCAG-GAAACATGAAGAAAAAG
5342214 TCGTTCATTG
Statistics
Matches: 253, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
338 1 0.00
339 35 0.14
340 213 0.84
341 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (340 bp):
TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATGTCATAATTCACTTTAAGTTAATCTTT
TTTCATTTTTGGTCAAAACAGACTATAATTAATGTCTACATCAAGAAACATGAAGAAAAAACCAT
TCACTAGCAAGAAAAGCCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTAGCTTTAAA
TGGTTTCATAATCTCAAAATTGATTTGAAATAGAATTTTTTTATATTTTTGATTAAAACAGATTA
TCATTGAATATCTACCTCAGGAAACATGAAGAAAAAGATATTCATTTTTCAGAAAAGTCAATTGG
TACTCACATTTGCCT
Found at i:5342282 original size:340 final size:338
Alignment explanation
Indices: 5341577--5342384 Score: 823
Period size: 340 Copynumber: 2.4 Consensus size: 338
5341567 NNNNNNNNNN
* *
5341577 TCAAAAGCCTTATTACTCGCTTTAAATG-GTTTTATAATGTCATAATT-CACTTTAAGTTGATCT
1 TCAAAAACCTTATTACTCGCTTTAAATGAG-TTTATAATGTCAT-ATTAC-CTTTAAGTTAATCT
* * * * *** ***
5341640 TTTTTCATTTTTGGTTAAAACATATTATAATTAATGTCTACATCAAGAAGTGTGAAGAAAAAATT
63 TTTTTCATTTTTGGTTAAAATAGATTATAATTAATGTCTACCTCGAGAAACATGAAGAAAAAGCC
** * * * * *
5341705 ATTCGTTGGCAAGAGAAGTCCATTTATAGTCACCCATACCTTCGAAAGCTTTATTACTAGCTTTA
128 ATTCACTAGCAAGAAAAGCCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTAGCTTTA
* * *
5341770 AATGGTTTGATAATCTCAAAATTGATTTGAAATAGATTTTTTTTATATTTTTTATTAAAACAGAT
193 AATGGTTTCATAATCTCAAAATTGATTTGAAATAGAATTTTTTTATATTTTTGATTAAAACAGAT
** *
5341835 TATCATTGAATATCTACCTCAGGAAACATGAAGAAAAAGATATTCATTTTTCAGAAAAGTCAATT
258 TATCATTGAATATCTACCTCAGGAAACATGAAGAAAAAGATATTCATTGGTCAGAAAAGCCAATT
** *
5341900 GGTACTCACATTTGCCT
323 GAAACTCACA-TAGCCT
* * *
5341917 TCAAAAGCCTTATTATTCGCTTTAAATGAGTTTATAATGTCATATTACCTTTAAGTTAATTTTTT
1 TCAAAAACCTTATTACTCGCTTTAAATGAGTTTATAATGTCATATTACCTTTAAGTTAA-TCTTT
* * *
5341982 TTTCA-TTTTGGTCAAAATAGACTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAAGCCA
65 TTTCATTTTTGGTTAAAATAGATTATAATT-AATGTCTACCTCGAGAAACATGAAGAAAAAGCCA
** *
5342046 TTCACTAGCAAGAAAAGCCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTCTCTTTGA
129 TTCACTAGCAAGAAAAGCCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTAGCTTTAA
* * * * * *
5342111 ATGGTTTCATAATCTCATAATTGACTTT-AAGTTGAATTTTTTTGTGTTTTTGGTTAAAACAGAT
194 ATGGTTTCATAATCTCAAAATTGA-TTTGAAATAGAATTTTTTTATATTTTTGATTAAAACAGAT
* * *
5342175 TAT-AGTTGAATGTCTACCTC-GAGAAACATTAAGAAAAAG-TCGTTCATTGGT-AGGAAAAGCC
258 TATCA-TTGAATATCTACCTCAG-GAAACATGAAGAAAAAGAT-ATTCATTGGTCA-GAAAAGCC
* * *
5342236 TATTTAAAGTCATCCA-AG-CT
319 AATTGAAACTCA--CATAGCCT
* * * *
5342256 TGCAAAAACTTTATTACCCACTTTAAATGGAG-TTATAATCTCATAGTTGA--TTTGAAGTTGAA
1 T-CAAAAACCTTATTACTCGCTTTAAAT-GAGTTTATAATGTCATA-TT-ACCTTT-AAGTT-AA
* ** * *
5342318 TCTTTTTACATTTTTAATTAAAATAGATTATAATTAAATGTCGACCTCGAGAAACAAGAAGAAAA
60 TCTTTTTTCATTTTTGGTTAAAATAGATTATAATT-AATGTCTACCTCGAGAAACATGAAGAAAA
5342383 AG
124 AG
5342385 ATATTCATTG
Statistics
Matches: 387, Mismatches: 63, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
339 40 0.10
340 272 0.70
341 22 0.06
342 53 0.14
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (338 bp):
TCAAAAACCTTATTACTCGCTTTAAATGAGTTTATAATGTCATATTACCTTTAAGTTAATCTTTT
TTCATTTTTGGTTAAAATAGATTATAATTAATGTCTACCTCGAGAAACATGAAGAAAAAGCCATT
CACTAGCAAGAAAAGCCCATTTATAGTCACCCATACCTTCAAAAGCCTTATTACTAGCTTTAAAT
GGTTTCATAATCTCAAAATTGATTTGAAATAGAATTTTTTTATATTTTTGATTAAAACAGATTAT
CATTGAATATCTACCTCAGGAAACATGAAGAAAAAGATATTCATTGGTCAGAAAAGCCAATTGAA
ACTCACATAGCCT
Found at i:5342451 original size:171 final size:168
Alignment explanation
Indices: 5341577--5342452 Score: 708
Period size: 171 Copynumber: 5.1 Consensus size: 168
5341567 NNNNNNNNNN
* * *
5341577 TCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATGTCATAATTCACTTTAAGTTG-ATCTT
1 TCAAAAGCCTTATTACTCACTTTAAATGG-TTTATAATCTCATAATTGACTTTAAGTTGAAT-TT
* * * ***
5341641 TTTT-CATTTTTGGTTAAAACATATTATAATT-AATGTCTACATCAAGAAGTGTGAAGAAAAA-A
64 TTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCGAGAAACATGAAGAAAAAGA
* * * *
5341703 TTATTCGTTGGCAAGAGAAGTCCATTTATAGTCACCCATA-CCT
129 -TATTCATTGGTAA-AAAAG-CCATTTATAATCACCCA-AGCCT
* * * * * *
5341746 TCGAAAGCTTTATTACT-AGCTTTAAATGGTTTGATAATCTCAAAATTGA-TTTGAAATAGATTT
1 TCAAAAGCCTTATTACTCA-CTTTAAATGGTTT-ATAATCTCATAATTGACTTT-AAGTTGAATT
* ** * *
5341809 TTTTTATATTTTTTATTAAAACAGATTATCATTGAATATCTACCTC-AGGAAACATGAAGAAAAA
63 TTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCGA-GAAACATGAAGAAAAA
** * * ** * ****
5341873 GATATTCATTTTTCAGAAAAGTCAATTGGTACTCACATTTGCCT
127 GATATTCATTGGT-AAAAAAG-CCATTTATAATCACCCAAGCCT
* * *
5341917 TCAAAAGCCTTATTATTCGCTTTAAATGAGTTTATAATGTCAT-ATT-ACCTTTAAGTT-AATTT
1 TCAAAAGCCTTATTACTCACTTTAAATG-GTTTATAATCTCATAATTGA-CTTTAAGTTGAA-TT
* * * * *
5341979 TTTTTTCA-TTTTGGTCAAAATAGACTATAATTGAATGTCTACCTTGAGAAACATGAAGAAAAAG
63 TTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCGAGAAACATGAAGAAAAAG
** * * * *
5342043 CCATTCACTAGCAAGAAAAGCCCATTTATAGTCACCCATA-CCT
128 ATATTCATTGGTAA-AAAAG-CCATTTATAATCACCCA-AGCCT
* *
5342086 TCAAAAGCCTTATTACTCTCTTTGAATGGTTTCATAATCTCATAATTGACTTTAAGTTGAATTTT
1 TCAAAAGCCTTATTACTCACTTTAAATGGTTT-ATAATCTCATAATTGACTTTAAGTTGAATTTT
*** * *
5342151 TTTGTGTTTTTGGTTAAAACAGATTATAGTTGAATGTCTACCTCGAGAAACATTAAGAAAAAG-T
65 TTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCGAGAAACATGAAGAAAAAGAT
* * *
5342215 CGTTCATTGGTAGGAAAAGCCTATTTA-AAGTCATCCAAG-CT
130 -ATTCATTGGTA-AAAAAGCC-ATTTATAA-TCACCCAAGCCT
* * * * * *
5342256 TGCAAAAACTTTATTACCCACTTTAAATGGAGTTATAATCTCATAGTTGA-TTTGAAGTTGAATC
1 T-CAAAAGCCTTATTACTCACTTTAAATGG-TTTATAATCTCATAATTGACTTT-AAGTTGAATT
** * * * *
5342320 TTTTTACATTTTTAATTAAAATAGATTATAATTAAATGTCGACCTCGAGAAACAAGAAGAAAAAG
63 TTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCGAGAAACATGAAGAAAAAG
* *
5342385 ATATTCATTGGTAAACAAAGTTCATTTATAATCACCTAAGCCT
128 ATATTCATTGGTAAA-AAAG-CCATTTATAATCACCCAAGCCT
5342428 TCAAAAG-CTGTATTACTCACTTTAA
1 TCAAAAGCCT-TATTACTCACTTTAA
5342453 CAGCATGTTT
Statistics
Matches: 554, Mismatches: 116, Indels: 72
0.75 0.16 0.10
Matches are distributed among these distances:
168 11 0.02
169 154 0.28
170 70 0.13
171 304 0.55
172 15 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (168 bp):
TCAAAAGCCTTATTACTCACTTTAAATGGTTTATAATCTCATAATTGACTTTAAGTTGAATTTTT
TTACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCGAGAAACATGAAGAAAAAGATA
TTCATTGGTAAAAAAGCCATTTATAATCACCCAAGCCT
Found at i:5347002 original size:16 final size:16
Alignment explanation
Indices: 5346981--5347011 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5346971 AAGTAATAAC
5346981 TATTTTATTCTATTCA
1 TATTTTATTCTATTCA
5346997 TATTTTATTCTATTC
1 TATTTTATTCTATTC
5347012 TCACATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTATTCTATTCA
Found at i:5350918 original size:15 final size:15
Alignment explanation
Indices: 5350867--5350957 Score: 55
Period size: 15 Copynumber: 5.9 Consensus size: 15
5350857 GGCAGAGCGG
5350867 CTGAGAGAAAGAGGGA
1 CTGAGAGAAAGA-GGA
** * *
5350883 -AAAGAGACAGAGCGG
1 CTGAGAGAAAGAG-GA
5350898 CTGAGAGAAAGAGGA
1 CTGAGAGAAAGAGGA
*
5350913 CTGAGAGAAATACGGA
1 CTGAGAGAAAGA-GGA
5350929 --GAGGAGGAAA-AGCGA
1 CTGA-GA-GAAAGAG-GA
5350944 CTGAGAGAAAGAGG
1 CTGAGAGAAAGAGG
5350958 GAAAAGAAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
14 4 0.07
15 31 0.54
16 20 0.35
17 2 0.04
ACGTcount: A:0.45, C:0.09, G:0.41, T:0.05
Consensus pattern (15 bp):
CTGAGAGAAAGAGGA
Found at i:5350920 original size:31 final size:31
Alignment explanation
Indices: 5350852--5350911 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
5350842 GAATAATGGG
*
5350852 AAAGAGGCAGAGCGGCTGAGAGAAAGAGGGA
1 AAAGAGACAGAGCGGCTGAGAGAAAGAGGGA
5350883 AAAGAGACAGAGCGGCTGAGAGAAAGAGG
1 AAAGAGACAGAGCGGCTGAGAGAAAGAGG
5350912 ACTGAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.10, G:0.43, T:0.03
Consensus pattern (31 bp):
AAAGAGACAGAGCGGCTGAGAGAAAGAGGGA
Found at i:5353787 original size:46 final size:46
Alignment explanation
Indices: 5353734--5353831 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 46
5353724 AAAAGAATAA
* * *
5353734 GACATTCTAATGAACTAGATTTTGATTATGATGATGATCTTAATGT
1 GACATTCTAATGAACTAGATTTTGACTATGATGAGGATCCTAATGT
* *
5353780 GACATTCTAGTGAACTATATTTTGACTATGATGAGGATCCTAATGT
1 GACATTCTAATGAACTAGATTTTGACTATGATGAGGATCCTAATGT
5353826 GACATT
1 GACATT
5353832 GTGAAACCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (46 bp):
GACATTCTAATGAACTAGATTTTGACTATGATGAGGATCCTAATGT
Found at i:5356998 original size:18 final size:18
Alignment explanation
Indices: 5356963--5357012 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
5356953 AAGAAAGGGG
*
5356963 TTTT-GTTTTCTAGA-AA
1 TTTTCGTTTTTTAGATAA
*
5356979 TTTTCTTTTTTTAGATAA
1 TTTTCGTTTTTTAGATAA
*
5356997 TTTTGGTTTTTTAGAT
1 TTTTCGTTTTTTAGAT
5357013 TTAGGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 4 0.14
17 8 0.29
18 16 0.57
ACGTcount: A:0.20, C:0.04, G:0.12, T:0.64
Consensus pattern (18 bp):
TTTTCGTTTTTTAGATAA
Found at i:5358920 original size:2 final size:2
Alignment explanation
Indices: 5358913--5358939 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5358903 TCTAGCTTAG
5358913 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
5358940 TACATCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5362594 original size:2 final size:2
Alignment explanation
Indices: 5362587--5362615 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5362577 GCATTCTTTG
5362587 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5362616 AACTTGGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5366736 original size:2 final size:2
Alignment explanation
Indices: 5366729--5366774 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
5366719 TTCCCCAGAT
* * *
5366729 TC TC TC TC TT TC TC TC TG TC TC TC CC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5366771 TC TC
1 TC TC
5366775 ACTCACTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:5368679 original size:594 final size:596
Alignment explanation
Indices: 5367548--5368743 Score: 1810
Period size: 594 Copynumber: 2.0 Consensus size: 596
5367538 TTACAATTAC
* *
5367548 ACAATATAGTCATTGATGATTATGGAGTTCTTTTGGTGTAGAACAGTGTTGCTGCTTTAGGCTTG
1 ACAATATAGGCATTGATGATTATGGAGTTCTTTTGATGTAGAACAGTGTTGCTGCTTTAGGCTTG
* * *
5367613 TAAGAATTGTAATCTTACTGAGAGTTGTGTTGTCCTCGACTTTATAGGTGACTTCATTAATCTTC
66 TAAGAATTGTAATCTTACTGAAAGTTGTGTAGTCCTCGACTTTATAGGTGACTTCATCAATCTTC
* *
5367678 TTTTAAGTTATTATAGGAGTACATGGTAAATTATTTGTACCTAAATTCAACAGTTACCATATCGG
131 TTTTAAGGTATTATAGGAGTACATGGTAAATTATTTGTACCTAAATTCAACAGTTACCATATCGA
* ** * * *
5367743 AGGACTAGACATATCTGTTTATAGGTAGCCTTTCTTAACTACTCATTTTGTCGGTGCCTACACAT
196 AGGACAAGACATATCTGCGTATAGATAGCCTTTCATAACTACGCATTTTGTCGGTGCCTACACAT
5367808 TTTGGGAGTCCTTCAAAAGACAAGTACATTAGAGACAAGTCATTCTTGTCATTATTGATGTCACT
261 TTTGGGAGTCCTTCAAAAGACAAGTACATTAGAGACAAGTCATTCTTGTCATTATTGATGTCACT
* *
5367873 TCTTTTTCCTTTGTCTAGCACCTGGACTGTTAAACTTTATAGAGGTTTAAGTGTGAACTTTGAGC
326 TCTTTTTCCTTTGTCTAGCACCTGGACCGTCAAACTTTATAGAGGTTTAAGTGTGAACTTTGAGC
* * *
5367938 TGGAGGAGATTGTGATAATCAGACTCTTAGGATGTTTTCTAAATGTCCATTAATGGCTTAGAAAC
391 TGGAGGAGATTGTAATAACCAGACTCTTAGGATGTTCTCTAAATGTCCATTAATGGCTTAGAAAC
5368003 AATTAAGAAGTCCAGATTAATTCAGGCTGAGAATGTGAGAACTGTGTGCCAAATTTAATTGCTTA
456 AATTAAGAAGTCCAGATTAATTCAGGCTGAGAATGTGAGAACTGTGTGCCAAATTTAATTGCTTA
** * * ** * *
5368068 TTTCTATAGTACCAAAAATTTGTATACCGCTAAGTGTTGTTATTATTGAATCTCTAGATATTATT
521 TTGATATAGTACCAAAAATATGTACACCGCTAAGTGTCATTACTATTGAATCTCTAGAGATTATT
* *
5368133 GTCACTATTTT
586 GTCAATATTTA
** *
5368144 ACAATATAGGCATTGATGATTATGTTGTTCTTTTGATGTATAGA-AGTGTTGCTGCTTTAGGCTT
1 ACAATATAGGCATTGATGATTATGGAGTTCTTTTGATGTAGA-ACAGTGTTGCTGCTTTAGGCTT
* *
5368208 GTAAGAGTTGTAATCTTACTGAAAGTTGTGTAGTCCTTGACTTTATAGGTGACTTCA-CAATCTT
65 GTAAGAATTGTAATCTTACTGAAAGTTGTGTAGTCCTCGACTTTATAGGTGACTTCATCAATCTT
* *
5368272 CTTTTAAGGTATTATAGGAGTACATGGTAAATTATTTGTACCTTAATTGAACAGTTACCATATCG
130 CTTTTAAGGTATTATAGGAGTACATGGTAAATTATTTGTACCTAAATTCAACAGTTACCATATCG
* * * * *
5368337 AAGGACAAGACATATCTGCGTATAGATAGCTTTTCATAACTTCGCATTTTGTTGGTGCTTGCACA
195 AAGGACAAGACATATCTGCGTATAGATAGCCTTTCATAACTACGCATTTTGTCGGTGCCTACACA
* * *
5368402 TTTTGGGAGTCCTTTAAAATACAATTACATTAGAGACAAGTCATTCTTGTCATTATTGATGTCAC
260 TTTTGGGAGTCCTTCAAAAGACAAGTACATTAGAGACAAGTCATTCTTGTCATTATTGATGTCAC
* * *
5368467 TTCTTTTTCC-TTGTTTA-CTACCTGGACCGTCAAACTTTGTTGAGGTTTAAAG-GTGAACTTTG
325 TTCTTTTTCCTTTGTCTAGC-ACCTGGACCGTCAAACTTTATAGAGGTTT-AAGTGTGAACTTTG
* * *
5368529 AGCTGGAGGAGATTGTAATAACCGGATTCTTAGGATGTTCTCTAAATGTCCATTAATGTCTTAGA
388 AGCTGGAGGAGATTGTAATAACCAGACTCTTAGGATGTTCTCTAAATGTCCATTAATGGCTTAGA
* * *
5368594 AACAATTAAGTAGTCCAGATTAATTCAGGTTG-GAACTGTGAGAACTTTGTGCCAAATTTAATTG
453 AACAATTAAGAAGTCCAGATTAATTCAGGCTGAGAA-TGTGAGAACTGTGTGCCAAATTTAATTG
* * * *
5368658 CTTATTGATATAGTGCCAAAAATATGTACGCTGCTAAGTGTCATTACTATTGAATCTCTAGGGAT
517 CTTATTGATATAGTACCAAAAATATGTACACCGCTAAGTGTCATTACTATTGAATCTCTAGAGAT
5368723 TATTGTCAATATTTA
582 TATTGTCAATATTTA
5368738 ACAATA
1 ACAATA
5368744 ATTGCAGTTA
Statistics
Matches: 540, Mismatches: 56, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
593 4 0.01
594 229 0.42
595 196 0.36
596 110 0.20
597 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (596 bp):
ACAATATAGGCATTGATGATTATGGAGTTCTTTTGATGTAGAACAGTGTTGCTGCTTTAGGCTTG
TAAGAATTGTAATCTTACTGAAAGTTGTGTAGTCCTCGACTTTATAGGTGACTTCATCAATCTTC
TTTTAAGGTATTATAGGAGTACATGGTAAATTATTTGTACCTAAATTCAACAGTTACCATATCGA
AGGACAAGACATATCTGCGTATAGATAGCCTTTCATAACTACGCATTTTGTCGGTGCCTACACAT
TTTGGGAGTCCTTCAAAAGACAAGTACATTAGAGACAAGTCATTCTTGTCATTATTGATGTCACT
TCTTTTTCCTTTGTCTAGCACCTGGACCGTCAAACTTTATAGAGGTTTAAGTGTGAACTTTGAGC
TGGAGGAGATTGTAATAACCAGACTCTTAGGATGTTCTCTAAATGTCCATTAATGGCTTAGAAAC
AATTAAGAAGTCCAGATTAATTCAGGCTGAGAATGTGAGAACTGTGTGCCAAATTTAATTGCTTA
TTGATATAGTACCAAAAATATGTACACCGCTAAGTGTCATTACTATTGAATCTCTAGAGATTATT
GTCAATATTTA
Found at i:5372120 original size:3 final size:3
Alignment explanation
Indices: 5372112--5372156 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
5372102 CAATAACATC
5372112 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5372157 TAAAATGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5379260 original size:76 final size:76
Alignment explanation
Indices: 5379131--5379350 Score: 239
Period size: 76 Copynumber: 2.9 Consensus size: 76
5379121 ACCACACACT
* * * *
5379131 CCAATTGTTAGATGTCGATGACATCTTATGGTGACACGCTAAATAGTAGTAGTATTGTGGGGTGA
1 CCAATTGTTAGATATCGATGACATCTTATGGTGACATGCTAAATGGTAGTAGTATTATGGGGTGA
**
5379196 -A-ACGTCGCCC
66 CACACCACG-CC
* * * *
5379206 CCTAATTGTTAGATTTTGATGACATTTTATGGTGACATGCTAAATGGTTA-TAGTATTATGGTGT
1 CC-AATTGTTAGATATCGATGACATCTTATGGTGACATGCTAAATGG-TAGTAGTATTATGGGGT
5379270 GACACACCACGCC
64 GACACACCACGCC
* * * * ** *
5379283 CCAATTGTTAGATATCAAAGACATCTTATGGTGACATGCTGAATGGCAACAATATTATGGGGTGA
1 CCAATTGTTAGATATCGATGACATCTTATGGTGACATGCTAAATGGTAGTAGTATTATGGGGTGA
5379348 CAC
66 CAC
5379351 GCTAAGTGGT
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
75 3 0.02
76 107 0.88
77 7 0.06
78 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (76 bp):
CCAATTGTTAGATATCGATGACATCTTATGGTGACATGCTAAATGGTAGTAGTATTATGGGGTGA
CACACCACGCC
Found at i:5383638 original size:31 final size:31
Alignment explanation
Indices: 5383603--5383708 Score: 140
Period size: 31 Copynumber: 3.4 Consensus size: 31
5383593 AGAAATAAAT
*
5383603 AAATGTTGTTACACGTTATGCATACCAAGTA
1 AAATGTTGTTACACGTTATGCATACCAAGTC
* * *
5383634 AAATGTTGTTGCATGTTATGCATACTAAGTC
1 AAATGTTGTTACACGTTATGCATACCAAGTC
* **
5383665 AAATGTTGTTACACATTAACCATACCAAGTC
1 AAATGTTGTTACACGTTATGCATACCAAGTC
*
5383696 AAATGTTGCTACA
1 AAATGTTGTTACA
5383709 TGCCAAGGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (31 bp):
AAATGTTGTTACACGTTATGCATACCAAGTC
Found at i:5383875 original size:87 final size:87
Alignment explanation
Indices: 5383724--5383892 Score: 241
Period size: 87 Copynumber: 1.9 Consensus size: 87
5383714 AGGTTGAGCC
*
5383724 ATGTCATGACATACCAACCATACCGTGTCTTGACATGCCAATCACTATAATTACTATCTCGTTAC
1 ATGTCATGACATACCAACCATACCGTGTCTTGACATGCCAATCACTATAATTACTAACTCGTTAC
*
5383789 ACGAATTGTCCTAAAATTCCCA
66 ACAAATTGTCCTAAAATTCCCA
* * * * *
5383811 ATGTGATGACATGCCAACCATGCCGTGT-TGTGACATGCCAATCATTATAATTACTAACTTGTTA
1 ATGTCATGACATACCAACCATACCGTGTCT-TGACATGCCAATCACTATAATTACTAACTCGTTA
* *
5383875 CATAAATTGTCTTAAAAT
65 CACAAATTGTCCTAAAAT
5383893 ATCCAAAATG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 1 0.01
87 71 0.99
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (87 bp):
ATGTCATGACATACCAACCATACCGTGTCTTGACATGCCAATCACTATAATTACTAACTCGTTAC
ACAAATTGTCCTAAAATTCCCA
Found at i:5383908 original size:87 final size:87
Alignment explanation
Indices: 5383724--5383911 Score: 238
Period size: 87 Copynumber: 2.2 Consensus size: 87
5383714 AGGTTGAGCC
* * *
5383724 ATGTCATGACATACCAACCATACCGTGTCTTGACATGCCAATCACTATAATTACTATCTCGTTAC
1 ATGTGATGACATGCCAACCATACCGTGTCTTGACATGCCAATCACTATAATTACTAACTCGTTAC
* *
5383789 ACGAATTGTCCTAAAATTCCCA
66 ACAAATTGTCCTAAAATTCCAA
* * *
5383811 ATGTGATGACATGCCAACCATGCCGTGT-TGTGACATGCCAATCATTATAATTACTAACTTGTTA
1 ATGTGATGACATGCCAACCATACCGTGTCT-TGACATGCCAATCACTATAATTACTAACTCGTTA
* *
5383875 CATAAATTGTCTTAAAATATCCAAA
65 CACAAATTGTCCTAAAAT-TCC-AA
5383900 ATG-G-TGACATGC
1 ATGTGATGACATGC
5383912 TAAAAACCCC
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
86 1 0.01
87 79 0.90
88 4 0.05
89 4 0.05
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (87 bp):
ATGTGATGACATGCCAACCATACCGTGTCTTGACATGCCAATCACTATAATTACTAACTCGTTAC
ACAAATTGTCCTAAAATTCCAA
Found at i:5384499 original size:25 final size:23
Alignment explanation
Indices: 5384471--5384579 Score: 85
Period size: 23 Copynumber: 4.7 Consensus size: 23
5384461 CATATTCAAG
* *
5384471 CCATGACGTGTCGCATATATGCTCA
1 CCATGACGTGTCACAGAT-T-CTCA
*
5384496 CCATGCCGTGTCACAGATTCTCA
1 CCATGACGTGTCACAGATTCTCA
*** *
5384519 CCATGTTATGTCACAAATTAC-CA
1 CCATGACGTGTCACAGATT-CTCA
* * *
5384542 CCATGTCGTGTCACACATTCCCA
1 CCATGACGTGTCACAGATTCTCA
*
5384565 CCATGACATGTCACA
1 CCATGACGTGTCACA
5384580 AACTCTAAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
22 1 0.01
23 52 0.74
24 2 0.03
25 15 0.21
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (23 bp):
CCATGACGTGTCACAGATTCTCA
Found at i:5384522 original size:23 final size:23
Alignment explanation
Indices: 5384492--5384581 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
5384482 CGCATATATG
* * *
5384492 CTCACCATGCCGTGTCACAGATT
1 CTCACCATGTCATGTCACAAATT
*
5384515 CTCACCATGTTATGTCACAAATT
1 CTCACCATGTCATGTCACAAATT
* *
5384538 AC-CACCATGTCGTGTCACACATT
1 -CTCACCATGTCATGTCACAAATT
* *
5384561 CCCACCATGACATGTCACAAA
1 CTCACCATGTCATGTCACAAA
5384582 CTCTAAACCC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
22 1 0.02
23 53 0.96
24 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (23 bp):
CTCACCATGTCATGTCACAAATT
Found at i:5384552 original size:46 final size:46
Alignment explanation
Indices: 5384494--5384581 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
5384484 CATATATGCT
* * **
5384494 CACCATGCCGTGTCACAGATTCTCACCATGTTATGTCACAAATTAC
1 CACCATGCCGTGTCACACATTCCCACCATGACATGTCACAAATTAC
*
5384540 CACCATGTCGTGTCACACATTCCCACCATGACATGTCACAAA
1 CACCATGCCGTGTCACACATTCCCACCATGACATGTCACAAA
5384582 CTCTAAACCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (46 bp):
CACCATGCCGTGTCACACATTCCCACCATGACATGTCACAAATTAC
Found at i:5384635 original size:23 final size:23
Alignment explanation
Indices: 5384609--5384664 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
5384599 TCACAATCGG
* *
5384609 TCACATATTCTCACCGTGCCGTC
1 TCACACATTCTCACCGTACCGTC
* *
5384632 TCACACATTCTCACCTTACCGTG
1 TCACACATTCTCACCGTACCGTC
*
5384655 TCACAGATTC
1 TCACACATTC
5384665 CCTCCATGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.38, G:0.11, T:0.30
Consensus pattern (23 bp):
TCACACATTCTCACCGTACCGTC
Found at i:5384757 original size:101 final size:103
Alignment explanation
Indices: 5384500--5384760 Score: 262
Period size: 103 Copynumber: 2.6 Consensus size: 103
5384490 TGCTCACCAT
* * * *
5384500 GCCGTGTCACAGATTCTCACCATGTTATGTCACAAATTAC-CACCAT-GTCGTGTCACACATTCC
1 GCCGTGTCACATATTCTCACCATGCTGTCTCACAAATT-CTCACCATAGT-GTGTCACACATTCC
* * *
5384563 CACCATGACATGTCACAAACTCTAAACCCTATTGTGTCACA
64 CACCATGACATGTCACAAAC-CTAAACCCTACTATATCACA
** * * * * ** * *
5384604 ATCG-GTCACATATTCTCACCGTGCCGTCTCACACATTCTCACCTTACCGTGTCACAGATTCCCT
1 GCCGTGTCACATATTCTCACCATGCTGTCTCACAAATTCTCACCATAGTGTGTCACACATTCCCA
* *
5384668 CCATGACATGTCACAAA-C-AAACCCTGCTATATCATA
66 CCATGACATGTCACAAACCTAAACCCTACTATATCACA
* * *
5384704 GCCGTGTCACATATGCTCACTATGCTGTCTCACATATTCTCACCATAGTGTGTCACA
1 GCCGTGTCACATATTCTCACCATGCTGTCTCACAAATTCTCACCATAGTGTGTCACA
5384761 TATTAACACC
Statistics
Matches: 125, Mismatches: 29, Indels: 9
0.77 0.18 0.06
Matches are distributed among these distances:
100 15 0.12
101 45 0.36
102 1 0.01
103 62 0.50
104 2 0.02
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.28
Consensus pattern (103 bp):
GCCGTGTCACATATTCTCACCATGCTGTCTCACAAATTCTCACCATAGTGTGTCACACATTCCCA
CCATGACATGTCACAAACCTAAACCCTACTATATCACA
Found at i:5384764 original size:23 final size:22
Alignment explanation
Indices: 5384707--5384782 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
5384697 TATCATAGCC
* *
5384707 GTGTCACATATGCTCACTATGCT
1 GTGTCACATATTCTCACCATG-T
*
5384730 GTCTCACATATTCTCACCATAGT
1 GTGTCACATATTCTCACCAT-GT
**
5384753 GTGTCACATATTAACACCATGGT
1 GTGTCACATATTCTCACCAT-GT
5384776 GTGTCAC
1 GTGTCAC
5384783 GTTCTCATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 44 0.98
24 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (22 bp):
GTGTCACATATTCTCACCATGT
Found at i:5384913 original size:23 final size:23
Alignment explanation
Indices: 5384879--5384948 Score: 122
Period size: 23 Copynumber: 3.0 Consensus size: 23
5384869 GTTACATCCA
* *
5384879 TGTCACATATTCTCACCATGACG
1 TGTCACACATTCCCACCATGACG
5384902 TGTCACACATTCCCACCATGACG
1 TGTCACACATTCCCACCATGACG
5384925 TGTCACACATTCCCACCATGACG
1 TGTCACACATTCCCACCATGACG
5384948 T
1 T
5384949 TTCATAAACT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.26
Consensus pattern (23 bp):
TGTCACACATTCCCACCATGACG
Found at i:5386740 original size:2 final size:2
Alignment explanation
Indices: 5386729--5386772 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
5386719 GTCCCCTTTG
* *
5386729 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5386770 AT A
1 AT A
5386773 CAACAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5389208 original size:16 final size:17
Alignment explanation
Indices: 5389171--5389208 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
5389161 ACCATCTAAT
5389171 AAAAATGATAAAAGGAA
1 AAAAATGATAAAAGGAA
* *
5389188 TAAAAT-ATAAAAGTAA
1 AAAAATGATAAAAGGAA
5389204 AAAAA
1 AAAAA
5389209 GAACTTATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (17 bp):
AAAAATGATAAAAGGAA
Found at i:5410766 original size:16 final size:16
Alignment explanation
Indices: 5410732--5410794 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 16
5410722 TATTAATTTT
5410732 TATTA-TATTTTATGT-
1 TATTATTATTTTAT-TA
5410747 TATTATTATTTTATTA
1 TATTATTATTTTATTA
* *
5410763 TATTATAATTATTTTTA
1 TATTATTATT-TTATTA
5410780 TAATTATTTATTTTA
1 T-ATTA-TTATTTTA
5410795 AATTAAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.15
16 17 0.44
17 6 0.15
18 6 0.15
19 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTATTATTTTATTA
Found at i:5411454 original size:51 final size:51
Alignment explanation
Indices: 5411384--5411490 Score: 151
Period size: 51 Copynumber: 2.1 Consensus size: 51
5411374 ACTTCACTTA
* * * **
5411384 ATCTTTGCTTCAAGGGTCTTCACGACTTAATTTTGATCATGAACACTTAAT
1 ATCTTCGCTTCAAGAGTCTTCACGACTTAATCTTGATCACAAACACTTAAT
* *
5411435 ATCTTCGCTTCAAGAGTCTTCACGGCTTAATCTTGATCACAAACACTTGAT
1 ATCTTCGCTTCAAGAGTCTTCACGACTTAATCTTGATCACAAACACTTAAT
5411486 ATCTT
1 ATCTT
5411491 GATCACGAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.37
Consensus pattern (51 bp):
ATCTTCGCTTCAAGAGTCTTCACGACTTAATCTTGATCACAAACACTTAAT
Found at i:5411519 original size:22 final size:22
Alignment explanation
Indices: 5411464--5411522 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
5411454 TCACGGCTTA
*
5411464 ATCTTGATCACAAACACTTGAT
1 ATCTTGATCACGAACACTTGAT
5411486 ATCTTGATCACGAACACTTGAT
1 ATCTTGATCACGAACACTTGAT
*
5411508 ATCTGGATCACGAAC
1 ATCTTGATCACGAAC
5411523 TTCATTGTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
ATCTTGATCACGAACACTTGAT
Found at i:5411591 original size:18 final size:18
Alignment explanation
Indices: 5411568--5411615 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
5411558 GCTCTTCTTG
*
5411568 ATCTTTGAAATG-CTCTCA
1 ATCTTTG-AATGCCTCCCA
5411586 ATCTTTGAATGCCTCCCA
1 ATCTTTGAATGCCTCCCA
*
5411604 ATCTTCGAATGC
1 ATCTTTGAATGC
5411616 TTTCGAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (18 bp):
ATCTTTGAATGCCTCCCA
Found at i:5412030 original size:79 final size:80
Alignment explanation
Indices: 5411890--5412092 Score: 277
Period size: 79 Copynumber: 2.5 Consensus size: 80
5411880 AATATGATTA
** ** * *
5411890 TTAGAGATAAATTAAACAACCAATAATTAAATTTTGATTGGTCAAAAATATGAATATTATCT-TC
1 TTAGAGATAAATTGGATGACCAATAACT-AATTTTGATTGGTCAAAAATATAAATATTATCTCT-
5411954 AAATTA-TTTAAATTTAT
64 AAATTACTTT-AATTTAT
5411971 TTAGAGATAAATTGGATGACCAATAACTAATTTTGATTGGTC-AAAATATAAATATTATCTCTAA
1 TTAGAGATAAATTGGATGACCAATAACTAATTTTGATTGGTCAAAAATATAAATATTATCTCTAA
*
5412035 ATTACTTTGATTTAT
66 ATTACTTTAATTTAT
*
5412050 TTAGAGATAAATTGGATGACCAAAAACTAATTTTTGATTGGTC
1 TTAGAGATAAATTGGATGACCAATAACTAA-TTTTGATTGGTC
5412093 CAATTTAAAT
Statistics
Matches: 111, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
79 58 0.52
80 30 0.27
81 23 0.21
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (80 bp):
TTAGAGATAAATTGGATGACCAATAACTAATTTTGATTGGTCAAAAATATAAATATTATCTCTAA
ATTACTTTAATTTAT
Found at i:5412482 original size:33 final size:32
Alignment explanation
Indices: 5412423--5412548 Score: 126
Period size: 33 Copynumber: 4.1 Consensus size: 32
5412413 GAAGATGTAT
*
5412423 CAATAAAA-C-TA-CTTG-AAGAAGCATATTG
1 CAATAAAACCATATCTTGAAAGAAGTATATTG
*
5412451 CAATAAAACCATAATCTTGAAAGAAATATATTG
1 CAATAAAACCAT-ATCTTGAAAGAAGTATATTG
5412484 CAATAAAA-C-TAT-TT-AAAGAAGTATATTG
1 CAATAAAACCATATCTTGAAAGAAGTATATTG
* *
5412512 CAATAAAACTATGA-CTTTGTAAGAAGTATATTG
1 CAATAAAACCAT-ATC-TTGAAAGAAGTATATTG
5412545 CAAT
1 CAAT
5412549 TGGTATTGCA
Statistics
Matches: 82, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
28 29 0.35
29 3 0.04
30 4 0.05
31 3 0.04
32 7 0.09
33 36 0.44
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (32 bp):
CAATAAAACCATATCTTGAAAGAAGTATATTG
Found at i:5412503 original size:61 final size:61
Alignment explanation
Indices: 5412423--5412548 Score: 173
Period size: 61 Copynumber: 2.1 Consensus size: 61
5412413 GAAGATGTAT
*
5412423 CAATAAAACTACTTGAAGAAGCATATTGCAATAAAACCATAA-TCTTGAAAGAAATATATTG
1 CAATAAAACTACTTAAAGAAGCATATTGCAATAAAACCATAACT-TTGAAAGAAATATATTG
* * * * * *
5412484 CAATAAAACTATTTAAAGAAGTATATTGCAATAAAACTATGACTTTGTAAGAAGTATATTG
1 CAATAAAACTACTTAAAGAAGCATATTGCAATAAAACCATAACTTTGAAAGAAATATATTG
5412545 CAAT
1 CAAT
5412549 TGGTATTGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 56 0.98
62 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (61 bp):
CAATAAAACTACTTAAAGAAGCATATTGCAATAAAACCATAACTTTGAAAGAAATATATTG
Found at i:5413106 original size:38 final size:38
Alignment explanation
Indices: 5413054--5413144 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
5413044 ATCTTGCCAC
* * *
5413054 GTTTCAATTGCCATGCTAAAACATACAAGTCGCCATTT
1 GTTTCAATTCCCATGCTAAAACATACAAGCCACCATTT
* * *
5413092 GTTTCAATTCCCATGCTAAAGCATGCAAGCCATCATTT
1 GTTTCAATTCCCATGCTAAAACATACAAGCCACCATTT
* *
5413130 GTTCCAATTTCCATG
1 GTTTCAATTCCCATG
5413145 ATAGGCCACC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (38 bp):
GTTTCAATTCCCATGCTAAAACATACAAGCCACCATTT
Found at i:5413394 original size:66 final size:66
Alignment explanation
Indices: 5413312--5413438 Score: 182
Period size: 66 Copynumber: 1.9 Consensus size: 66
5413302 ATAATAAGTG
* * * * *
5413312 ATTTGTTATTCTTGGAGGGTACTCTTTACAATAGCACTTATTGATCCTTGGGGGGTGCTCTACAC
1 ATTTATTATTCTTGGAGGGTACTCTTTAAAATAGCACGTATTGATCCTTGAGAGGTGCTCTACAC
5413377 A
66 A
* * *
5413378 ATTTATTATTCTTGGAGGTTGCTCTTTAAAATAGCACGTGTTGATCCTTGAGAGGTGCTCT
1 ATTTATTATTCTTGGAGGGTACTCTTTAAAATAGCACGTATTGATCCTTGAGAGGTGCTCT
5413439 TTATACTAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (66 bp):
ATTTATTATTCTTGGAGGGTACTCTTTAAAATAGCACGTATTGATCCTTGAGAGGTGCTCTACAC
A
Found at i:5413476 original size:40 final size:40
Alignment explanation
Indices: 5413421--5413606 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
5413411 GCACGTGTTG
*
5413421 ATCCTTGAGAGGTGCTCTTTATACTAGCACACAATTTATT
1 ATCCTTGAAAGGTGCTCTTTATACTAGCACACAATTTATT
*
5413461 ATCCTCGAAAGGTGCTCTTTATACTAGCACACAATTTATT
1 ATCCTTGAAAGGTGCTCTTTATACTAGCACACAATTTATT
* * * *
5413501 ATCCTCGAAAGATGCTCTTTATAATAG----C-ATTTGTT
1 ATCCTTGAAAGGTGCTCTTTATACTAGCACACAATTTATT
* *
5413536 GATCTTTGAGAA-GTGCTCTTTATACTAGCACATAATTTATT
1 -ATCCTTGA-AAGGTGCTCTTTATACTAGCACACAATTTATT
* * *
5413577 ATCCTTGGAGGGTGCTCTTTATAATAGCAC
1 ATCCTTGAAAGGTGCTCTTTATACTAGCAC
5413607 TTGTTGATCT
Statistics
Matches: 123, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
35 6 0.05
36 21 0.17
37 2 0.02
39 1 0.01
40 87 0.71
41 6 0.05
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (40 bp):
ATCCTTGAAAGGTGCTCTTTATACTAGCACACAATTTATT
Found at i:5413553 original size:76 final size:75
Alignment explanation
Indices: 5413472--5413649 Score: 248
Period size: 76 Copynumber: 2.4 Consensus size: 75
5413462 TCCTCGAAAG
*
5413472 GTGCTCTTTATACTAGCACACAATTTATTATCCTCGAAAGATGCTCTTTATAATAGCATTTGTTG
1 GTGCTCTTTATACTAGCACACAATTTATTATCCTCGAAAGATGCTCTTTATAATAGCACTTGTTG
5413537 ATCTTTGAGAA
66 ATCTTTG-GAA
* * * * *
5413548 GTGCTCTTTATACTAGCACATAATTTATTATCCTTGGAGGGTGCTCTTTATAATAGCACTTGTTG
1 GTGCTCTTTATACTAGCACACAATTTATTATCCTCGAAAGATGCTCTTTATAATAGCACTTGTTG
**
5413613 ATCTTTGGTG
66 ATCTTTGGAA
** *
5413623 GTAATCTTTATAATAGCACACAATTTA
1 GTGCTCTTTATACTAGCACACAATTTA
5413650 GAATCACCAT
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
75 24 0.27
76 66 0.73
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (75 bp):
GTGCTCTTTATACTAGCACACAATTTATTATCCTCGAAAGATGCTCTTTATAATAGCACTTGTTG
ATCTTTGGAA
Found at i:5413577 original size:116 final size:116
Alignment explanation
Indices: 5413373--5413606 Score: 333
Period size: 116 Copynumber: 2.0 Consensus size: 116
5413363 GGGGTGCTCT
* * * * * *
5413373 ACACAATTTATTATTCTTGGAGGTTGCTCTTTAAAATAGCACGTGTTGATCCTTGAGAGGTGCTC
1 ACACAATTTATTATCCTCGAAAGATGCTCTTTAAAATAGCACGTGTTGATCCTTGAGAAGTGCTC
*
5413438 TTTATACTAGCACACAATTTATTATCCTCGAAAGGTGCTCTTTATACTAGC
66 TTTATACTAGCACACAATTTATTATCCTCGAAAGGTGCTCTTTATAATAGC
* ** *
5413489 ACACAATTTATTATCCTCGAAAGATGCTCTTTATAATAGCATTTGTTGATCTTTGAGAAGTGCTC
1 ACACAATTTATTATCCTCGAAAGATGCTCTTTAAAATAGCACGTGTTGATCCTTGAGAAGTGCTC
* * * *
5413554 TTTATACTAGCACATAATTTATTATCCTTGGAGGGTGCTCTTTATAATAGC
66 TTTATACTAGCACACAATTTATTATCCTCGAAAGGTGCTCTTTATAATAGC
5413605 AC
1 AC
5413607 TTGTTGATCT
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
116 103 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (116 bp):
ACACAATTTATTATCCTCGAAAGATGCTCTTTAAAATAGCACGTGTTGATCCTTGAGAAGTGCTC
TTTATACTAGCACACAATTTATTATCCTCGAAAGGTGCTCTTTATAATAGC
Found at i:5417209 original size:64 final size:63
Alignment explanation
Indices: 5417104--5417227 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 63
5417094 AATATATATA
* * * *
5417104 TTTTTACCTTAATTTTTACCTAAGTAATCCTATTAAGGATTTTCAATTTAGCAAGCTTTTTCTT
1 TTTTTACCTTAACTTTTACCTAAGTAATCCTATTAAAGA-TTTCAACTTAGCAAGCCTTTTCTT
* * *
5417168 TTTTTGCCTTAACTTTTGCCTAAGTAGTCC-AGTTAAAGATTTCAACTTAGCAAGCCTTTT
1 TTTTTACCTTAACTTTTACCTAAGTAATCCTA-TTAAAGATTTCAACTTAGCAAGCCTTTT
5417228 GGGGAGGGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
63 20 0.38
64 32 0.62
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (63 bp):
TTTTTACCTTAACTTTTACCTAAGTAATCCTATTAAAGATTTCAACTTAGCAAGCCTTTTCTT
Found at i:5420232 original size:14 final size:15
Alignment explanation
Indices: 5420208--5420236 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5420198 AATAATAAAA
5420208 AATATTTTAATTAAT
1 AATATTTTAATTAAT
5420223 AATA-TTTAATTAAT
1 AATATTTTAATTAAT
5420237 TATTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATATTTTAATTAAT
Found at i:5429381 original size:68 final size:68
Alignment explanation
Indices: 5429306--5429478 Score: 231
Period size: 68 Copynumber: 2.5 Consensus size: 68
5429296 AATTAAGGAT
* * * * **
5429306 AATTTTGCTACCAGAATTGGATGGATAATTTTATCATCAAAATTTTGAAGTAGATAGATAATTTT
1 AATTTTGCCACAAGAAGTGGATGGATAATTTTACCATCAAAATTCAGAAGTAGATAGATAATTTT
*
5429371 GTC
66 GGC
*
5429374 AATTTTGCCACAAGAAGTGGATGGATAATTTTACCATCAAAATTCAGAAGTGGATAGATAATTTT
1 AATTTTGCCACAAGAAGTGGATGGATAATTTTACCATCAAAATTCAGAAGTAGATAGATAATTTT
5429439 GGC
66 GGC
* **
5429442 AATTTTACCATTAGAAGAT-GATGGATAATTTTACCAT
1 AATTTTGCCACAAGAAG-TGGATGGATAATTTTACCAT
5429479 TAGAAAGTGA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 92 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (68 bp):
AATTTTGCCACAAGAAGTGGATGGATAATTTTACCATCAAAATTCAGAAGTAGATAGATAATTTT
GGC
Found at i:5429473 original size:26 final size:27
Alignment explanation
Indices: 5429442--5429518 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 27
5429432 TAATTTTGGC
5429442 AATTTTACCATTAGAAGA-TGATGGAT
1 AATTTTACCATTAGAAGAGTGATGGAT
5429468 AATTTTACCATTAGAA-AGTGATGGAT
1 AATTTTACCATTAGAAGAGTGATGGAT
* *
5429494 AATTTTACCACTAGAAG-GTAATGGA
1 AATTTTACCATTAGAAGAGTGATGGA
5429519 CACTTTAACC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
25 1 0.02
26 46 0.98
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.32
Consensus pattern (27 bp):
AATTTTACCATTAGAAGAGTGATGGAT
Found at i:5432191 original size:17 final size:17
Alignment explanation
Indices: 5432143--5432192 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
5432133 TAAAAATAAC
*
5432143 ATATAATATTTTAATTCA
1 ATATAATAATTT-ATTCA
5432161 ATATAATTAA-TTATT-A
1 ATATAA-TAATTTATTCA
5432177 ATTATAATAATTTATT
1 A-TATAATAATTTATT
5432193 TGATTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.18
17 13 0.46
18 8 0.29
19 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATAATAATTTATTCA
Found at i:5432260 original size:12 final size:11
Alignment explanation
Indices: 5432241--5432265 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5432231 ACAAAAGAAT
5432241 AATTTTTTTAA
1 AATTTTTTTAA
5432252 AATTTTTTTAA
1 AATTTTTTTAA
5432263 AAT
1 AAT
5432266 AATTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTTTTTTAA
Found at i:5433164 original size:2 final size:2
Alignment explanation
Indices: 5433157--5433184 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5433147 CAATGATCTG
5433157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5433185 GAAAGGCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5446003 original size:14 final size:14
Alignment explanation
Indices: 5445984--5446010 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5445974 AGATTGACTC
5445984 ACCTAAATTAATTA
1 ACCTAAATTAATTA
5445998 ACCTAAATTAATT
1 ACCTAAATTAATT
5446011 TAAATAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (14 bp):
ACCTAAATTAATTA
Found at i:5455576 original size:18 final size:18
Alignment explanation
Indices: 5455555--5455624 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
5455545 AATACTAAGA
5455555 TTATTCTTGATGTTAAAG
1 TTATTCTTGATGTTAAAG
*** *
5455573 TTATTCCAAATGCTAAAG
1 TTATTCTTGATGTTAAAG
* *
5455591 TTGTTCCTT-ATGTT-GAG
1 TTATT-CTTGATGTTAAAG
5455608 CTTATTCTTGATGTTAA
1 -TTATTCTTGATGTTAA
5455625 TATTGGTCTC
Statistics
Matches: 37, Mismatches: 11, Indels: 7
0.67 0.20 0.13
Matches are distributed among these distances:
17 5 0.14
18 31 0.84
19 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (18 bp):
TTATTCTTGATGTTAAAG
Found at i:5459161 original size:21 final size:23
Alignment explanation
Indices: 5459131--5459176 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
5459121 TAAGACTAAA
*
5459131 GAAAATATCGAGTC-TC-AGTAT
1 GAAAAAATCGAGTCTTCAAGTAT
*
5459152 GAAAAAATCGATTCTTCAAGTAT
1 GAAAAAATCGAGTCTTCAAGTAT
5459175 GA
1 GA
5459177 TAACTTGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 2 0.10
23 7 0.33
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (23 bp):
GAAAAAATCGAGTCTTCAAGTAT
Found at i:5459343 original size:33 final size:32
Alignment explanation
Indices: 5459296--5459373 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
5459286 AAGAGCTAGG
* *
5459296 AAAGAGAAAGAAAACAACAAC-AAAAG-AGCAA
1 AAAGAAAAAAAAAACAA-AACAAAAAGAAGCAA
5459327 CAAGAGAAAAAAAAAACAAAACAAAAAGATAGCAA
1 -AA-AGAAAAAAAAAACAAAACAAAAAGA-AGCAA
5459362 AAAGAAAAAAAA
1 AAAGAAAAAAAA
5459374 GTTGAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 5 0.12
33 28 0.70
34 2 0.05
35 5 0.12
ACGTcount: A:0.76, C:0.10, G:0.13, T:0.01
Consensus pattern (32 bp):
AAAGAAAAAAAAAACAAAACAAAAAGAAGCAA
Found at i:5461009 original size:21 final size:21
Alignment explanation
Indices: 5460979--5461019 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5460969 AGATGACAGG
*
5460979 GCATGGGTGACTTG-TTGATAA
1 GCATGCGTGA-TTGATTGATAA
5461000 GCATGCGTGATTGATTGATA
1 GCATGCGTGATTGATTGATA
5461020 GGAATTGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.24, C:0.10, G:0.32, T:0.34
Consensus pattern (21 bp):
GCATGCGTGATTGATTGATAA
Found at i:5461637 original size:21 final size:21
Alignment explanation
Indices: 5461613--5461668 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
5461603 TATCACAAGA
*
5461613 CATGCATAACTGGTCAATAGG
1 CATGCATAACTAGTCAATAGG
*
5461634 CATGCATGACTAGTCAATAGG
1 CATGCATAACTAGTCAATAGG
*
5461655 CATGCATGACTAGT
1 CATGCATAACTAGT
5461669 TGATAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (21 bp):
CATGCATAACTAGTCAATAGG
Found at i:5462983 original size:23 final size:23
Alignment explanation
Indices: 5462956--5463002 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5462946 ATTGCTTGCT
5462956 ACCTCATCCCAAAAACCTCTAAA
1 ACCTCATCCCAAAAACCTCTAAA
5462979 ACCTCATCCCAAAAACCTCTAAA
1 ACCTCATCCCAAAAACCTCTAAA
5463002 A
1 A
5463003 AAGGCCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (23 bp):
ACCTCATCCCAAAAACCTCTAAA
Found at i:5464331 original size:125 final size:124
Alignment explanation
Indices: 5464110--5464339 Score: 284
Period size: 125 Copynumber: 1.8 Consensus size: 124
5464100 ATATTGCATC
* * * * *
5464110 ATTAAAAACCTTAAGCTGAAAAAACCCAATATGACAAAATCGATCAGAAGGAAAAAAGAGTACGA
1 ATTAAAAACCTTAAGCAGAAAAAACCCAATAGGAAAAAACCGATCAGAAGGAAAAAAGAGTACAA
* * * * *
5464175 TGCATAGTTCATAATTGCTTTCCTTTAATTGAGCTATATTGCCATTTTTGGGGTATCTT
66 TGCATAATGCATAATTGCTTCCCTTCAATTGAGCCATATTGCCATTTTTGGGGTATCTT
* * * *
5464234 ATTAAAAATCTTAAGCCAG-AAAAACCCAATGGGAGAAAAACCGATTAGAAGGAAAAAAGAGTAT
1 ATTAAAAACCTTAAG-CAGAAAAAACCCAATAGGA-AAAAACCGATCAGAAGGAAAAAAGAGTAC
*
5464298 AATGTATAATGCATAATTGC-TCCCTCTCAATTGAGCCATATT
64 AATGCATAATGCATAATTGCTTCCCT-TCAATTGAGCCATATT
5464340 ACAACTTTTG
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
124 31 0.35
125 57 0.65
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (124 bp):
ATTAAAAACCTTAAGCAGAAAAAACCCAATAGGAAAAAACCGATCAGAAGGAAAAAAGAGTACAA
TGCATAATGCATAATTGCTTCCCTTCAATTGAGCCATATTGCCATTTTTGGGGTATCTT
Found at i:5469008 original size:15 final size:15
Alignment explanation
Indices: 5468984--5469048 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
5468974 ACCCAGTATA
* *
5468984 AAACCCACCACACCC
1 AAACCAACCAAACCC
5468999 AAACCAACCAAACCC
1 AAACCAACCAAACCC
5469014 AAACCAAACCCAAACCGC
1 AAACC-AA-CCAAACC-C
* *
5469032 AACACCCACCACACCC
1 AA-ACCAACCAAACCC
5469048 A
1 A
5469049 CGCTGTCCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 18 0.43
16 4 0.10
17 13 0.31
18 4 0.10
19 3 0.07
ACGTcount: A:0.46, C:0.52, G:0.02, T:0.00
Consensus pattern (15 bp):
AAACCAACCAAACCC
Found at i:5469018 original size:11 final size:11
Alignment explanation
Indices: 5469004--5469029 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5468994 CACCCAAACC
5469004 AACCAAACCCA
1 AACCAAACCCA
5469015 AACCAAACCCA
1 AACCAAACCCA
5469026 AACC
1 AACC
5469030 GCAACACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (11 bp):
AACCAAACCCA
Found at i:5483827 original size:4 final size:4
Alignment explanation
Indices: 5483785--5483810 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
5483775 TCCATCCCTC
5483785 TCTT TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TC
5483811 GTTTTCTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:5485711 original size:46 final size:46
Alignment explanation
Indices: 5485661--5485757 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
5485651 TTCTCCACCG
5485661 ATTAGAAG-AAATACTTGCTGCCAATTAATAATTAACTCCTTAATCA
1 ATTAGAAGTAAATAC-TGCTGCCAATTAATAATTAACTCCTTAATCA
* * * * * *
5485707 ATTAGGAGTAGATGCTGCTTCCAATTGATAATTCACTCCTTAATCA
1 ATTAGAAGTAAATACTGCTGCCAATTAATAATTAACTCCTTAATCA
*
5485753 CTTAG
1 ATTAG
5485758 TGGATCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 39 0.91
47 4 0.09
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (46 bp):
ATTAGAAGTAAATACTGCTGCCAATTAATAATTAACTCCTTAATCA
Found at i:5491722 original size:19 final size:20
Alignment explanation
Indices: 5491690--5491733 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
5491680 TGCAATAAGA
*
5491690 AAAAATAAAAATAAGAAAGG
1 AAAAATAAAAATAAAAAAGG
*
5491710 AAAAAT-AATATAAAAAAGG
1 AAAAATAAAAATAAAAAAGG
5491729 AAAAA
1 AAAAA
5491734 ATGAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAATAAAAATAAAAAAGG
Found at i:5491734 original size:20 final size:21
Alignment explanation
Indices: 5491688--5491762 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
5491678 TGTGCAATAA
*
5491688 GAAAAAATAAAAATAAGAAAG
1 GAAAAAATAAAAATAAAAAAG
*
5491709 G-AAAAAT-AATATAAAAAAG
1 GAAAAAATAAAAATAAAAAAG
* *
5491728 GAAAAAATGAGAAAAAAAGAAAAT
1 GAAAAAAT-A-AAAATAA-AAAAG
5491752 GAAAAAA-AAAA
1 GAAAAAATAAAA
5491763 GAAGAGAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
19 11 0.25
20 12 0.27
21 4 0.09
22 1 0.02
23 5 0.11
24 11 0.25
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.09
Consensus pattern (21 bp):
GAAAAAATAAAAATAAAAAAG
Found at i:5491750 original size:16 final size:15
Alignment explanation
Indices: 5491731--5491760 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
5491721 AAAAAAGGAA
5491731 AAAATGAGAAAAAAAG
1 AAAATGA-AAAAAAAG
5491747 AAAATGAAAAAAAA
1 AAAATGAAAAAAAA
5491761 AAGAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (15 bp):
AAAATGAAAAAAAAG
Found at i:5491761 original size:16 final size:16
Alignment explanation
Indices: 5491731--5491780 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
5491721 AAAAAAGGAA
*
5491731 AAAATGAGAAAAAAAG
1 AAAATGAAAAAAAAAG
5491747 AAAATGAAAAAAAAAAG
1 AAAATG-AAAAAAAAAG
*
5491764 AAGA-GAAAGAAAAAAG
1 AAAATGAAA-AAAAAAG
5491780 A
1 A
5491781 GATAAAGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 3 0.10
16 15 0.50
17 12 0.40
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (16 bp):
AAAATGAAAAAAAAAG
Found at i:5491767 original size:20 final size:19
Alignment explanation
Indices: 5491739--5491778 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
5491729 AAAAAATGAG
5491739 AAAAAAAGA-AAATGAAAAA
1 AAAAAAAGAGAAA-GAAAAA
5491758 AAAAAGAAGAGAAAGAAAAA
1 AAAAA-AAGAGAAAGAAAAA
5491778 A
1 A
5491779 GAGATAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 11 0.58
21 3 0.16
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAAAAAGAGAAAGAAAAA
Found at i:5497738 original size:14 final size:15
Alignment explanation
Indices: 5497719--5497763 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
5497709 TAATATTTGA
5497719 TGTTATTATT-ATTT
1 TGTTATTATTAATTT
*
5497733 TGTTATAATTAATTT
1 TGTTATTATTAATTT
* *
5497748 TATAATTATTAATTT
1 TGTTATTATTAATTT
5497763 T
1 T
5497764 AAATTTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (15 bp):
TGTTATTATTAATTT
Found at i:5520242 original size:196 final size:196
Alignment explanation
Indices: 5519908--5520280 Score: 640
Period size: 196 Copynumber: 1.9 Consensus size: 196
5519898 CTAATGATGA
* *
5519908 TAACCAATTATCTTGTTAATCTTTTGCTCATATTAAGCTTGAATATTGTTTGGGTATTATGTGAA
1 TAACCAATTATCTTGTTAATCTTTTGCTCATATTAAGCATGAATATTGTTTGAGTATTATGTGAA
5519973 TTCTTATGCTTAGTATCATGATAGGATGAGATTTCCAGACTTGAACACTATATCTCTTGCATTGA
66 TTCTTATGCTTAGTATCATGATAGGATGAGATTTCCAGACTTGAACACTATATCTCTTGCATTGA
*
5520038 AGTATTATGTACCTTT-AAAGAAAGCTCATGTAAATGTAAATTTTTTATTAGATATTATAGCTAA
131 AGTATTATGTA-CTTTCAAAGAAAGCTCAGGTAAATGTAAATTTTTTATTAGATATTATAGCTAA
5520102 AC
195 AC
*
5520104 TAACCAATTATCTTGTTAATCTTTTGCTCATATTAAGCATGAATATTGTTTGAGTGTTATGTGAA
1 TAACCAATTATCTTGTTAATCTTTTGCTCATATTAAGCATGAATATTGTTTGAGTATTATGTGAA
* * * * *
5520169 TTCTTATTCTTAGTATCATGATAGGATTAGATTTCCATACTTGAGCATTATATCTCTTGCATTGA
66 TTCTTATGCTTAGTATCATGATAGGATGAGATTTCCAGACTTGAACACTATATCTCTTGCATTGA
*
5520234 AGTATTATGTACTTTCAAAGAAAGCTTAGGTAAATGTAAATTTTTTA
131 AGTATTATGTACTTTCAAAGAAAGCTCAGGTAAATGTAAATTTTTTA
5520281 AATCATGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
195 4 0.02
196 162 0.98
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (196 bp):
TAACCAATTATCTTGTTAATCTTTTGCTCATATTAAGCATGAATATTGTTTGAGTATTATGTGAA
TTCTTATGCTTAGTATCATGATAGGATGAGATTTCCAGACTTGAACACTATATCTCTTGCATTGA
AGTATTATGTACTTTCAAAGAAAGCTCAGGTAAATGTAAATTTTTTATTAGATATTATAGCTAAA
C
Found at i:5527722 original size:34 final size:34
Alignment explanation
Indices: 5527657--5527727 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
5527647 ACTTTTTCTT
* * *
5527657 TTTTTAGAGTTTTTTTTCTTTTGTTGCTTATTTTC
1 TTTTTAGAGATTTTTTTCTCTTGTTGATTA-TTTC
5527692 TTTTTAGA-ATTTTTTTCGTCTT-TTGATTATTTC
1 TTTTTAGAGATTTTTTTC-TCTTGTTGATTATTTC
5527725 TTT
1 TTT
5527728 CCCTTGCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 7 0.22
34 14 0.44
35 11 0.34
ACGTcount: A:0.11, C:0.08, G:0.10, T:0.70
Consensus pattern (34 bp):
TTTTTAGAGATTTTTTTCTCTTGTTGATTATTTC
Found at i:5530723 original size:68 final size:68
Alignment explanation
Indices: 5530625--5530837 Score: 293
Period size: 68 Copynumber: 3.1 Consensus size: 68
5530615 ACATGTTTAC
* * *
5530625 TCATCTCATAT-GTTATATGAAATTTGCATCATATACATAATCTCATGGCATTCATCATGCTTTC
1 TCATCTCATGTAGTT-TATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCTTTC
5530689 TTAA
65 TTAA
* * *
5530693 TCATCTCATGTAGTTTATGGAATATACATCATATACATAATCTCATGGCATTCATCCTGTTTTCT
1 TCATCTCATGTAGTTTATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCTTTCT
*
5530758 CAA
66 TAA
** * * *
5530761 TCATCTCATGTAGCATATGAAATATACATCATATACATAATCTCATGGCATTTATCATGCATACT
1 TCATCTCATGTAGTTTATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCTTTCT
5530826 TAA
66 TAA
*
5530829 TCACCTCAT
1 TCATCTCAT
5530838 ATGGTATAGA
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
68 124 0.98
69 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (68 bp):
TCATCTCATGTAGTTTATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCTTTCT
TAA
Found at i:5532135 original size:16 final size:16
Alignment explanation
Indices: 5532111--5532141 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5532101 TAACAATATA
5532111 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
*
5532127 AAAAGAATCAAAATC
1 AAAAAAATCAAAATC
5532142 TAATTTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:5532697 original size:50 final size:50
Alignment explanation
Indices: 5532640--5532740 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
5532630 GGAGTAATAA
*
5532640 TACTTATTTATTCTCTTCAATCTCTTTCTTCATACTTATTTGTTTCATGT
1 TACTTATTTATTCTCTCCAATCTCTTTCTTCATACTTATTTGTTTCATGT
5532690 TACTTATTTATTCTCTCCAATCTCTTTCTTCATACTTATTTGTTTCATGT
1 TACTTATTTATTCTCTCCAATCTCTTTCTTCATACTTATTTGTTTCATGT
5532740 T
1 T
5532741 TTTGCTCCGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.18, C:0.21, G:0.04, T:0.57
Consensus pattern (50 bp):
TACTTATTTATTCTCTCCAATCTCTTTCTTCATACTTATTTGTTTCATGT
Found at i:5533827 original size:64 final size:64
Alignment explanation
Indices: 5533728--5533854 Score: 141
Period size: 64 Copynumber: 2.0 Consensus size: 64
5533718 ATTTTATTCT
* *
5533728 TGGATATTTTCATTACCAATCAAATAATCATTTCCTCTTTCAAGGTGGACT-AGAAAATTAACAA
1 TGGATATTTTCATTACCAATCAAATAATCAATTCCTCTTTCAAGGTGGA-TAAGAAAATCAACAA
* * * * * * *
5533792 TGGAT-TTTTCCATTTCTAATCATATGATCAATTCCTTTTTTAGGGTGGATAAGAAAATCAACA
1 TGGATATTTT-CATTACCAATCAAATAATCAATTCCTCTTTCAAGGTGGATAAGAAAATCAACA
5533855 TCTTGATATG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
63 5 0.10
64 47 0.90
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (64 bp):
TGGATATTTTCATTACCAATCAAATAATCAATTCCTCTTTCAAGGTGGATAAGAAAATCAACAA
Found at i:5534092 original size:28 final size:28
Alignment explanation
Indices: 5534044--5534103 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
5534034 ATCTTGATGG
* *
5534044 GTTAAAAGTATTTATCTACTTTTGGTGA
1 GTTAAAAGTATCTATCCACTTTTGGTGA
* *
5534072 GTTAAAAGTATACT-TCCACTTTTTGTGG
1 GTTAAAAGTAT-CTATCCACTTTTGGTGA
5534100 GTTA
1 GTTA
5534104 TCCACTTCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (28 bp):
GTTAAAAGTATCTATCCACTTTTGGTGA
Found at i:5534109 original size:18 final size:18
Alignment explanation
Indices: 5534086--5534120 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5534076 AAAGTATACT
* *
5534086 TCCACTTTTTGTGGGTTA
1 TCCACTTCTGGTGGGTTA
5534104 TCCACTTCTGGTGGGTT
1 TCCACTTCTGGTGGGTT
5534121 TGTGCGTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.20, G:0.26, T:0.46
Consensus pattern (18 bp):
TCCACTTCTGGTGGGTTA
Found at i:5535469 original size:62 final size:62
Alignment explanation
Indices: 5535403--5535521 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
5535393 TAATAAGCTC
*
5535403 TTATACTTTCATTTCATAT-AATCAAACCATTATACTTTTATTTTGAGTCAAATAAGCTTTAT
1 TTATACTTTCATTGCAT-TCAATCAAACCATTATACTTTTATTTTGAGTCAAATAAGCTTTAT
* * * *
5535465 TTATACTTTTATTGCATTCAATCAAATCTTTATATTTTTATTTTGAGTCAAATAAGC
1 TTATACTTTCATTGCATTCAATCAAACCATTATACTTTTATTTTGAGTCAAATAAGC
5535522 CCTTGTACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 1 0.02
62 50 0.98
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (62 bp):
TTATACTTTCATTGCATTCAATCAAACCATTATACTTTTATTTTGAGTCAAATAAGCTTTAT
Found at i:5538021 original size:17 final size:17
Alignment explanation
Indices: 5537952--5538021 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
5537942 ATGAGATAAA
5537952 AATAATAGTTTAAATT-T
1 AATAATA-TTTAAATTAT
* * *
5537969 AAAAATTAATTAAA-AAT
1 AATAA-TATTTAAATTAT
* * *
5537986 ATTAATATTTTAATCAT
1 AATAATATTTAAATTAT
5538003 AATAATATTTAAATTAT
1 AATAATATTTAAATTAT
5538020 AA
1 AA
5538022 ATAAAATATT
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
16 6 0.15
17 31 0.79
18 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
AATAATATTTAAATTAT
Found at i:5541673 original size:6 final size:6
Alignment explanation
Indices: 5541662--5541690 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5541652 ATCTCTCTAT
5541662 AGAAAA AGAAAA AGAAAA AG-AAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
5541691 GAACAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:5543729 original size:19 final size:19
Alignment explanation
Indices: 5543705--5543742 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5543695 TGAGTAAGCG
5543705 TGCCTTTCTTCTCCTTTCT
1 TGCCTTTCTTCTCCTTTCT
*
5543724 TGCCTTTGTTCTCCTTTCT
1 TGCCTTTCTTCTCCTTTCT
5543743 AAAACCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.34, G:0.08, T:0.58
Consensus pattern (19 bp):
TGCCTTTCTTCTCCTTTCT
Found at i:5545837 original size:12 final size:13
Alignment explanation
Indices: 5545806--5545840 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
5545796 GTAATGCTTC
5545806 ATCGATGGAATTT
1 ATCGATGGAATTT
5545819 ATCGATGGAA-TT
1 ATCGATGGAATTT
*
5545831 GTCGATGGAA
1 ATCGATGGAA
5545841 CATTTGGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (13 bp):
ATCGATGGAATTT
Found at i:5547000 original size:20 final size:20
Alignment explanation
Indices: 5546975--5547013 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5546965 AAATACATGT
5546975 AAATGTATCGATACATTCTC
1 AAATGTATCGATACATTCTC
* *
5546995 AAATGTATTGATTCATTCT
1 AAATGTATCGATACATTCT
5547014 TGAGTTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (20 bp):
AAATGTATCGATACATTCTC
Found at i:5549105 original size:20 final size:20
Alignment explanation
Indices: 5549082--5549120 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
5549072 AAATACCCAA
5549082 GGAATGTATCAATACATTTG
1 GGAATGTATCAATACATTTG
5549102 GGAATGTATCAATACATTT
1 GGAATGTATCAATACATTT
5549121 TCATGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (20 bp):
GGAATGTATCAATACATTTG
Found at i:5550993 original size:64 final size:64
Alignment explanation
Indices: 5550921--5551045 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
5550911 ATTTTTTAGC
* * *
5550921 CAAATCATCCCAAGTACTAATGGAACTAGCAAGAAGCAAATTTAACCTGCTTTTTGCTTTATCT
1 CAAATCATCCCAAGTACTAATGGAACTAACAAGAAGCAAATTTAACCAGCTCTTTGCTTTATCT
*
5550985 CAAATCATCCCAAGTACTAATGGAACTAATAAGAAGCAAATTTAACCAGCTCTTTGCTTTA
1 CAAATCATCCCAAGTACTAATGGAACTAACAAGAAGCAAATTTAACCAGCTCTTTGCTTTA
5551046 GATTTTAGCG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (64 bp):
CAAATCATCCCAAGTACTAATGGAACTAACAAGAAGCAAATTTAACCAGCTCTTTGCTTTATCT
Found at i:5551748 original size:6 final size:6
Alignment explanation
Indices: 5551737--5551767 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
5551727 TAAATCTAAC
5551737 AAACTA AAACTA AAACTA AAACTA AAACTA A
1 AAACTA AAACTA AAACTA AAACTA AAACTA A
5551768 TATAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AAACTA
Found at i:5557181 original size:13 final size:13
Alignment explanation
Indices: 5557165--5557203 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
5557155 ATTTTTAATG
5557165 TTATATTTTATTT
1 TTATATTTTATTT
*
5557178 TTATATTTTATTA
1 TTATATTTTATTT
* *
5557191 TAATTTTTTATTT
1 TTATATTTTATTT
5557204 ACATTTTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATATTTTATTT
Found at i:5557189 original size:18 final size:20
Alignment explanation
Indices: 5557154--5557204 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
5557144 CTCTTAAATA
5557154 TATTTTTA-ATGTTATATT-T
1 TATTTTTATAT-TTATATTAT
5557173 TATTTTTATATTT-TATTAT
1 TATTTTTATATTTATATTAT
*
5557192 AATTTTT-TATTTA
1 TATTTTTATATTTA
5557205 CATTTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 9 0.32
19 17 0.61
20 2 0.07
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TATTTTTATATTTATATTAT
Found at i:5557204 original size:24 final size:23
Alignment explanation
Indices: 5557165--5557210 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
5557155 ATTTTTAATG
*
5557165 TTATATTTTATTTTTATATTTTA
1 TTATATTTTATTTTTACATTTTA
5557188 TTATAATTTT-TTATTTACATTTT
1 TTAT-ATTTTATT-TTTACATTTT
5557211 TCAGTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATATTTTATTTTTACATTTTA
Found at i:5565288 original size:78 final size:78
Alignment explanation
Indices: 5565188--5565386 Score: 294
Period size: 78 Copynumber: 2.6 Consensus size: 78
5565178 TGTTTGTCGT
* *
5565188 TAAAATGGAGCTTGAATACAAGACATGTAGATATTAGGAATGTCAACAGGGTGGTTTGGGGCGGG
1 TAAAATGGAGCTTAAATACAAGACATGTAGATATTAGGGATGTCAACAGGGTGGTTTGGGGCGGG
5565253 GAGTCCATATTGA
66 GAGTCCATATTGA
* * * *
5565266 TAAAATGGAGCTTAAATGCAAGACCTGTAGATATTAGGGATGTCAACAGGGTGGTTTGGGGTGGT
1 TAAAATGGAGCTTAAATACAAGACATGTAGATATTAGGGATGTCAACAGGGTGGTTTGGGGCGGG
* *
5565331 GATTCCATGTTGA
66 GAGTCCATATTGA
*
5565344 TAAAATGGAGCTTAAATACAATG-CATAT-GATATTAGGGATGTC
1 TAAAATGGAGCTTAAATACAA-GACATGTAGATATTAGGGATGTC
5565387 CCGCTCTTGT
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
77 15 0.14
78 93 0.85
79 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (78 bp):
TAAAATGGAGCTTAAATACAAGACATGTAGATATTAGGGATGTCAACAGGGTGGTTTGGGGCGGG
GAGTCCATATTGA
Found at i:5568203 original size:2 final size:2
Alignment explanation
Indices: 5568196--5568222 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5568186 ACATACATAC
5568196 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5568223 GAACTATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5569303 original size:5 final size:5
Alignment explanation
Indices: 5569293--5569317 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5569283 GACAGACTTC
5569293 TGTCA TGTCA TGTCA TGTCA TGTCA
1 TGTCA TGTCA TGTCA TGTCA TGTCA
5569318 ACTCATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TGTCA
Found at i:5571490 original size:21 final size:21
Alignment explanation
Indices: 5571464--5571518 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
5571454 AAAACCAGAT
*
5571464 TCAAACAACTTCAAAAATCAT
1 TCAAACAACTTCAAAAATCAC
* * **
5571485 TTAAACAAGTTCAAGGATCAC
1 TCAAACAACTTCAAAAATCAC
5571506 TCAAACAACTTCA
1 TCAAACAACTTCA
5571519 TAGAATTGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (21 bp):
TCAAACAACTTCAAAAATCAC
Found at i:5574690 original size:58 final size:59
Alignment explanation
Indices: 5574612--5574732 Score: 183
Period size: 58 Copynumber: 2.1 Consensus size: 59
5574602 TATATTTATG
* *
5574612 TATGTATACATGTATCTCTAAATTCTATCTA-AGAGGAATTATGTTTGATATGTATGTGTA
1 TATGTATA-ATGTATCTCTAAATTATATCTAGA-AGGAATTATGTTTGATATGTATATGTA
*
5574672 TATGTAT-ATGTATCTCTAAATTATGTCTAGAAGGAATTATGTTTGATATGTATATGTA
1 TATGTATAATGTATCTCTAAATTATATCTAGAAGGAATTATGTTTGATATGTATATGTA
5574730 TAT
1 TAT
5574733 ACATATATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
58 49 0.86
59 1 0.02
60 7 0.12
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (59 bp):
TATGTATAATGTATCTCTAAATTATATCTAGAAGGAATTATGTTTGATATGTATATGTA
Found at i:5574773 original size:22 final size:22
Alignment explanation
Indices: 5574748--5574791 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5574738 TATATATATA
* *
5574748 TATATATCTGTGTGTGTGTGTG
1 TATACATCTATGTGTGTGTGTG
*
5574770 TATACATGTATGTGTGTGTGTG
1 TATACATCTATGTGTGTGTGTG
5574792 GGTGGGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.05, G:0.32, T:0.48
Consensus pattern (22 bp):
TATACATCTATGTGTGTGTGTG
Found at i:5574773 original size:24 final size:24
Alignment explanation
Indices: 5574746--5574791 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5574736 TATATATATA
* *
5574746 TATATATATCTGTGTGTGTGTGTG
1 TATACATATATGTGTGTGTGTGTG
*
5574770 TATACATGTATGTGTGTGTGTG
1 TATACATATATGTGTGTGTGTG
5574792 GGTGGGTTTT
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:0.17, C:0.04, G:0.30, T:0.48
Consensus pattern (24 bp):
TATACATATATGTGTGTGTGTGTG
Done.