Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 193 of 295
Found at i:61556779 original size:20 final size:19
Alignment explanation
Indices: 61556721--61556773 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
61556711 GAATCTATTG
* * *
61556721 TCTTTTTGTTTGAATCGAT
1 TCTTTTTTTTTAAATCAAT
*
61556740 TC-ATTTTTTTAAATCAAT
1 TCTTTTTTTTTAAATCAAT
61556758 TCTTTTTTATTTAAAT
1 TCTTTTTT-TTTAAAT
61556774 TGATTCAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 14 0.52
19 6 0.22
20 7 0.26
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.60
Consensus pattern (19 bp):
TCTTTTTTTTTAAATCAAT
Found at i:61560924 original size:49 final size:49
Alignment explanation
Indices: 61560856--61560983 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
61560846 ATCTAAGTTG
*
61560856 ATGCCATGTCCTAGACAGGTCTTACACTAACTTTCATATATCGAG-GCCA
1 ATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCG-GTGCCA
* * ** * * *
61560905 ATGCCATGTCCCAGGCAGGTCTTACACTGGCTCTCATCTATCGGTGTCG
1 ATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCGGTGCCA
61560954 ATGCCATGTCCTAGACAGGTCTTACACTAA
1 ATGCCATGTCCTAGACAGGTCTTACACTAA
61560984 TACATGTCAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCTAGACAGGTCTTACACTAACTCTCATATATCGGTGCCA
Found at i:61561032 original size:93 final size:94
Alignment explanation
Indices: 61560810--61561072 Score: 279
Period size: 93 Copynumber: 2.8 Consensus size: 94
61560800 CGATGCCGAT
* * *
61560810 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-TATC-TAAGTTGATGCCATGTCCTAGACA
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATTATCGT--GTCGATGCCATGTCCTAGACA
* * *
61560873 GGTCTTACACTAACTTTCATATATCGAGGCCAAT
63 GGTCTTACACTAA--TTCACATATCGAAGCCAAC
*
61560907 GCCATGTCCCAGGCAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCTAGACAG
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-TATC-GTGTCGATGCCATGTCCTAGACAG
* *
61560972 GTCTTACACTAA-T-ACATGTC-AAGCCGAC
64 GTCTTACACTAATTCACATATCGAAGCCAAC
* * * * *
61561000 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATAAT-GTGGCTAATG-CATGTCCTAGACATG
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTATCGTGTC-GATGCCATGTCCTAGACAGG
61561063 TCTTACACTA
65 TCTTACACTA
61561073 GCACACATAT
Statistics
Matches: 146, Mismatches: 15, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
90 28 0.19
91 3 0.02
92 2 0.01
93 38 0.26
94 5 0.03
95 1 0.01
96 19 0.13
97 12 0.08
98 37 0.25
100 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (94 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTATCGTGTCGATGCCATGTCCTAGACAGGT
CTTACACTAATTCACATATCGAAGCCAAC
Found at i:61561761 original size:20 final size:21
Alignment explanation
Indices: 61561736--61561775 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
61561726 ACAATTTTAA
*
61561736 TTATTTCACACA-TTTACAAC
1 TTATTTCACAAACTTTACAAC
*
61561756 TTATTTTACAAACTTTACAA
1 TTATTTCACAAACTTTACAA
61561776 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATTTCACAAACTTTACAAC
Found at i:61564624 original size:38 final size:38
Alignment explanation
Indices: 61564568--61564642 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
61564558 GATGTGTATT
* * *
61564568 CGGGTTAAATCCCGCAGGCTTCGTGCTGGCATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGCATTATATC
*
61564606 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGCATTATAT
61564643 TCAGGCCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGCATTATATC
Found at i:61564699 original size:43 final size:43
Alignment explanation
Indices: 61564619--61564807 Score: 265
Period size: 43 Copynumber: 4.4 Consensus size: 43
61564609 GATAAATCCC
* * * *
61564619 GCAGGCCTAGTGCTGGT-AT-TATATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
61564660 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCATTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
61564703 GCAGGCTTAGTGCTGGTGATGTGTATTCGAGCCTTCGTGCCTG
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
61564746 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
61564789 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
61564808 AATGATATGT
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 113 0.87
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:61578603 original size:53 final size:53
Alignment explanation
Indices: 61578537--61578644 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
61578527 ACATTGCCCA
*
61578537 CTGACCGATCTCGCACACATATTGCTCGATTAAAGAATTCGCACACACAGTGC
1 CTGACCGATCTCGCACACATAGTGCTCGATTAAAGAATTCGCACACACAGTGC
* *
61578590 CTGACCTATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCACACACAGTGC
1 CTGACCGATCTCGCACACATAGTGCTCGATTAAAGAATTCGCACACACAGTGC
61578643 CT
1 CT
61578645 CAATTCATTC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (53 bp):
CTGACCGATCTCGCACACATAGTGCTCGATTAAAGAATTCGCACACACAGTGC
Found at i:61578633 original size:28 final size:27
Alignment explanation
Indices: 61578547--61578642 Score: 81
Period size: 28 Copynumber: 3.6 Consensus size: 27
61578537 CTGACCGATC
* *
61578547 TCGCACACATATTGCTCGATTAAAGAAT
1 TCGCACACACAGTGCTCG-TTAAAGAAT
* ***
61578575 TCGCACACACAGTGC-C--TGACCTAT
1 TCGCACACACAGTGCTCGTTAAAGAAT
*
61578599 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACACAGTGCTC-GTTAAAGAAT
61578628 TCGCACACACAGTGC
1 TCGCACACACAGTGC
61578643 CTCAATTCAT
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
24 4 0.08
25 14 0.27
26 1 0.02
27 1 0.02
28 27 0.53
29 4 0.08
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (27 bp):
TCGCACACACAGTGCTCGTTAAAGAAT
Found at i:61578657 original size:53 final size:53
Alignment explanation
Indices: 61578544--61578667 Score: 178
Period size: 53 Copynumber: 2.3 Consensus size: 53
61578534 CCACTGACCG
* * *
61578544 ATCTCGCACACATATTGCTCGATTAAAGAATTCGCACACACAGTGCCTGACCT
1 ATCTCGCACACATAGTGCTCGATTAAAGAATTCGCACACACAGTGCCTCAACT
* *
61578597 ATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCACACACAGTGCCTCAATT
1 ATCTCGCACACATAGTGCTCGATTAAAGAATTCGCACACACAGTGCCTCAACT
*
61578650 CAT-TCGCACCCATAGTGC
1 -ATCTCGCACACATAGTGC
61578668 CTATATTCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 62 0.97
54 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (53 bp):
ATCTCGCACACATAGTGCTCGATTAAAGAATTCGCACACACAGTGCCTCAACT
Found at i:61578666 original size:25 final size:25
Alignment explanation
Indices: 61578626--61578680 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
61578616 CGGTTAAAGA
61578626 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
* *
61578651 ATTCGCACCCATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
61578676 ATTCG
1 ATTCG
61578681 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:61578860 original size:43 final size:43
Alignment explanation
Indices: 61578811--61578941 Score: 181
Period size: 43 Copynumber: 3.0 Consensus size: 43
61578801 CACCGGTATT
* *
61578811 AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* * *
61578854 AAGCCTGCTAGGAACGAAGGCCCGAATACACATCACCAGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* ** *
61578897 AAGCCTGCTAGGCATGAAGGCATGATTACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
61578940 AA
1 AA
61578942 TGCCCTTCAG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.35, C:0.31, G:0.22, T:0.11
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
Found at i:61578995 original size:40 final size:40
Alignment explanation
Indices: 61578930--61579050 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
61578920 GATTACACAT
* * * * *
61578930 CACCGGCACGAATGCCCTTCAGGACTTAGCCCATATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
*
61578970 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
*
61579010 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
61579050 C
1 C
61579051 TCTCAATTCT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
Found at i:61585254 original size:10 final size:10
Alignment explanation
Indices: 61585239--61585297 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
61585229 TATAATGAGT
61585239 ATATCATAGC
1 ATATCATAGC
*
61585249 ATATCATGTGC
1 ATATCAT-AGC
* *
61585260 ATATCGTAAC
1 ATATCATAGC
*
61585270 ATATCATAAC
1 ATATCATAGC
*
61585280 ATATCATGTGC
1 ATATCAT-AGC
61585291 ATATCAT
1 ATATCAT
61585298 GTCCTATCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
10 24 0.60
11 16 0.40
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (10 bp):
ATATCATAGC
Found at i:61585305 original size:10 final size:11
Alignment explanation
Indices: 61585247--61585309 Score: 53
Period size: 10 Copynumber: 6.0 Consensus size: 11
61585237 GTATATCATA
61585247 GCATATCATGT
1 GCATATCATGT
61585258 GCATATC--GT
1 GCATATCATGT
* *
61585267 AACATATCAT-A
1 -GCATATCATGT
*
61585278 ACATATCATGT
1 GCATATCATGT
61585289 GCATATCATGT
1 GCATATCATGT
*
61585300 -CCTATCATGT
1 GCATATCATGT
61585310 ATATCAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
9 2 0.05
10 24 0.56
11 17 0.40
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (11 bp):
GCATATCATGT
Found at i:61585307 original size:31 final size:31
Alignment explanation
Indices: 61585239--61585297 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
61585229 TATAATGAGT
* *
61585239 ATATCATAGCATATCATGTGCATATCGTAAC
1 ATATCATAACATATCATGTGCATATCATAAC
61585270 ATATCATAACATATCATGTGCATATCAT
1 ATATCATAACATATCATGTGCATATCAT
61585298 GTCCTATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (31 bp):
ATATCATAACATATCATGTGCATATCATAAC
Found at i:61587572 original size:27 final size:27
Alignment explanation
Indices: 61587530--61587583 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
61587520 AACATCCATG
*
61587530 GAAGAGTTCTTGGGTTCGGCACACTAT
1 GAAGAGTTCTTAGGTTCGGCACACTAT
*
61587557 GAAGGGTTCTTAGGTTCGGCACACTAT
1 GAAGAGTTCTTAGGTTCGGCACACTAT
61587584 TAGCTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (27 bp):
GAAGAGTTCTTAGGTTCGGCACACTAT
Found at i:61589581 original size:47 final size:47
Alignment explanation
Indices: 61589518--61589953 Score: 710
Period size: 47 Copynumber: 9.3 Consensus size: 47
61589508 CCCTTCGGGA
* *
61589518 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
61589565 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61589612 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61589659 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61589706 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
61589753 CTTATCACATATATACACTTTCAAATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61589800 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61589847 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
61589894 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
61589941 CTTATCACATATA
1 CTTATCACATATA
61589954 CATATCTTGT
Statistics
Matches: 357, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 357 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:61592230 original size:46 final size:46
Alignment explanation
Indices: 61592163--61592335 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
61592153 TAACCCGCCC
*
61592163 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCT
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCT
*
61592209 ATAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATTC-CTAGTTACAT
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGC-A--T-C-T
* * * * *
61592257 CTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCC
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCT
*
61592302 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 ATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
61592336 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 4 0.04
46 59 0.55
47 28 0.26
48 4 0.04
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCT
Found at i:61592280 original size:93 final size:93
Alignment explanation
Indices: 61592168--61592337 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
61592158 CGCCCATAAG
* * *
61592168 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61592233 ACGAGTTCGGATTCCTAGTTACATCTCA
66 ACGAGTTCGGATTCCTAGTTACATCTCA
*
61592261 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61592326 ACGAGTTCGGAT
66 ACGAGTTCGGAT
61592338 GCTCAACCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATTCCTAGTTACATCTCA
Found at i:61605441 original size:27 final size:27
Alignment explanation
Indices: 61605421--61605507 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
61605411 GGGTGTCTCG
* *
61605421 GTAATTCTACCCTAAAGGGGTATTTCA
1 GTAATTCTACCTTACAGGGGTATTTCA
61605448 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCTTACAGGGGTATTTCA
*
61605475 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCTTACAGGGGTATTTCA
61605502 GTAATT
1 GTAATT
61605508 TTACAAATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCTTACAGGGGTATTTCA
Found at i:61605533 original size:54 final size:53
Alignment explanation
Indices: 61605418--61605534 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 53
61605408 CGAGGGTGTC
*
61605418 TCGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACATTA-AGGGGTATT
* * * * *
61605472 TCAGTAATTCTACCTTACAGGGGTATTTCGGTAATTTTACAAATT-AGGGGTATT
1 TCGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTAC--ATTAAGGGGTATT
*
61605526 TTGGTAATT
1 TCGGTAATT
61605535 TTATAAACCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 51 0.96
56 2 0.04
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (53 bp):
TCGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACATTAAGGGGTATT
Found at i:61605583 original size:27 final size:26
Alignment explanation
Indices: 61605492--61605586 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 26
61605482 TACCTTACAG
* * *
61605492 GGGTATTTCGGTAATTTTACAAAT-TA
1 GGGTATTTTGGTAATTTT-CTAATCCA
* *
61605518 GGGGTATTTTGGTAATTTTATAAACCA
1 -GGGTATTTTGGTAATTTTCTAATCCA
*
61605545 --GTATTTTGGTAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTT-CTAATCCA
61605570 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
61605587 GGTAAACTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
24 16 0.29
25 5 0.09
26 2 0.04
27 33 0.59
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.45
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCTAATCCA
Found at i:61606508 original size:23 final size:23
Alignment explanation
Indices: 61606482--61606557 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
61606472 CAGCTCATTG
61606482 GAGCTTACCATTTCAACTCG-TA
1 GAGCTTACCATTTCAACTCGATA
*
61606504 TGAGCTTA-C-TGTTCAGCTCGATA
1 -GAGCTTACCAT-TTCAACTCGATA
**
61606527 GAGCTTACCATTTCAACTTAATA
1 GAGCTTACCATTTCAACTCGATA
61606550 GAGCTTAC
1 GAGCTTAC
61606558 TATTCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.02
22 16 0.36
23 27 0.60
24 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (23 bp):
GAGCTTACCATTTCAACTCGATA
Found at i:61606523 original size:22 final size:23
Alignment explanation
Indices: 61606457--61606534 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 23
61606447 GTGTTACATA
*
61606457 AGAGCTTACTGTTTTCAGCTCAT-T
1 AGAGCTTACTG--TTCAGCTCGTAT
* *
61606481 GGAGCTTACCAT-TTCAACTCGTAT
1 AGAGCTTA-C-TGTTCAGCTCGTAT
61606505 -GAGCTTACTGTTCAGCTCG-AT
1 AGAGCTTACTGTTCAGCTCGTAT
61606526 AGAGCTTAC
1 AGAGCTTAC
61606535 CATTTCAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
21 3 0.07
22 17 0.38
23 15 0.33
24 8 0.18
25 1 0.02
26 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTGTTCAGCTCGTAT
Found at i:61606554 original size:45 final size:45
Alignment explanation
Indices: 61606457--61606563 Score: 130
Period size: 45 Copynumber: 2.3 Consensus size: 45
61606447 GTGTTACATA
*
61606457 AGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCATTTCAACTCGTAT
1 AGAGCTTACTG--TTCAGCTCATTAGAGCTTACCATTTCAACTC-TAT
61606505 -GAGCTTACTGTTCAGCTCGA-TAGAGCTTACCATTTCAACT-TAAT
1 AGAGCTTACTGTTCAGCTC-ATTAGAGCTTACCATTTCAACTCT-AT
*
61606549 AGAGCTTACTATTCA
1 AGAGCTTACTGTTCA
61606564 TTAGCTCAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
43 1 0.02
44 2 0.04
45 40 0.74
46 1 0.02
47 10 0.19
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (45 bp):
AGAGCTTACTGTTCAGCTCATTAGAGCTTACCATTTCAACTCTAT
Found at i:61606822 original size:20 final size:19
Alignment explanation
Indices: 61606732--61606823 Score: 69
Period size: 20 Copynumber: 4.7 Consensus size: 19
61606722 AGATATGGGT
* *
61606732 TTATATGGATGAATTACTG
1 TTATATGAATGAACTACTG
* * *
61606751 TTGATACGATTGAAATACTG
1 TT-ATATGAATGAACTACTG
*
61606771 TTATTACT-AATGAACTACTA
1 TTA-TA-TGAATGAACTACTG
* *
61606791 TTATAGGGATGAACTACTGG
1 TTATATGAATGAACTACT-G
61606811 TTATATGAATGAA
1 TTATATGAATGAA
61606824 TTACAGTTTA
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
19 15 0.27
20 40 0.73
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (19 bp):
TTATATGAATGAACTACTG
Found at i:61609320 original size:6 final size:6
Alignment explanation
Indices: 61609311--61609371 Score: 52
Period size: 6 Copynumber: 9.3 Consensus size: 6
61609301 AAAAGCGTAT
*
61609311 GAAAAA GAAAAA GAAATA GAAAAA GAAAAAAA GAATGAAA GAAAACA -AAAAGA
1 GAAAAA GAAAAA GAAAAA GAAAAA G--AAAAA GAA--AAA GAAAA-A GAAAA-A
61609364 GAAAAA GA
1 GAAAAA GA
61609372 GTGAGAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
6 29 0.63
7 5 0.11
8 12 0.26
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:61609370 original size:19 final size:18
Alignment explanation
Indices: 61609311--61609371 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
61609301 AAAAGCGTAT
* *
61609311 GAAAAAGAAAAAGAAATA
1 GAAAAAGAAAAAAAAAGA
61609329 GAAAAAG--AAAAAAAGA
1 GAAAAAGAAAAAAAAAGA
*
61609345 -ATGAAAGAAAACAAAAAGA
1 GA-AAAAGAAAA-AAAAAGA
61609364 GAAAAAGA
1 GAAAAAGA
61609372 GTGAGAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.03
16 11 0.32
18 9 0.26
19 12 0.35
20 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (18 bp):
GAAAAAGAAAAAAAAAGA
Found at i:61609409 original size:27 final size:27
Alignment explanation
Indices: 61609311--61609392 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
61609301 AAAAGCGTAT
*
61609311 GAAAAAGAA--AAAGAAATAGAAAAAGA
1 GAAAAAGAATGAAAGAAA-ACAAAAAGA
*
61609337 AAAAAAGAATGAAAGAAAACAAAAAGA
1 GAAAAAGAATGAAAGAAAACAAAAAGA
* * *
61609364 GAAAAAGAGTGAGAGAAAACAAAATGA
1 GAAAAAGAATGAAAGAAAACAAAAAGA
61609391 GA
1 GA
61609393 TTAAGATTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.17
27 33 0.69
28 7 0.15
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (27 bp):
GAAAAAGAATGAAAGAAAACAAAAAGA
Found at i:61615571 original size:23 final size:23
Alignment explanation
Indices: 61615536--61615579 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
61615526 AAAAAATAAT
*
61615536 AAAAATAATAAAAG-AAGGAACG
1 AAAAATAAGAAAAGAAAGGAACG
61615558 AAAAATAAAGAAAAGAAAGGAA
1 AAAAAT-AAGAAAAGAAAGGAA
61615580 ATATCTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 7 0.37
24 6 0.32
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (23 bp):
AAAAATAAGAAAAGAAAGGAACG
Found at i:61615778 original size:38 final size:38
Alignment explanation
Indices: 61615736--61615811 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
61615726 TTTCGAAACC
61615736 CCATTTTCAAAATTCGAGTTCGTAAATGTTAACTATTT
1 CCATTTTCAAAATTCGAGTTCGTAAATGTTAACTATTT
* *
61615774 CCATTTTCAATATTTGAGTTCGTAAATGTTAACTATTT
1 CCATTTTCAAAATTCGAGTTCGTAAATGTTAACTATTT
61615812 AATATTTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (38 bp):
CCATTTTCAAAATTCGAGTTCGTAAATGTTAACTATTT
Found at i:61617726 original size:37 final size:37
Alignment explanation
Indices: 61617685--61617797 Score: 121
Period size: 35 Copynumber: 3.2 Consensus size: 37
61617675 TGGTATGTGT
61617685 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
* ** * *
61617722 TATTGG-TTG-AATGTTTGATGGTG--TGAT-TTA-TCA
1 TATTGGAATGTCGTGATTGA-GGTGCCT-ATGTTAGGCA
61617755 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
61617792 TATTGG
1 TATTGG
61617798 TTGAATGTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
33 8 0.14
34 10 0.17
35 16 0.28
36 10 0.17
37 14 0.24
ACGTcount: A:0.21, C:0.08, G:0.31, T:0.40
Consensus pattern (37 bp):
TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCA
Found at i:61617798 original size:70 final size:70
Alignment explanation
Indices: 61617685--61617826 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
61617675 TGGTATGTGT
61617685 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
61617750 TATCA
66 TATCA
*
61617755 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATTGTGTGATT
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
61617820 TATCA
66 TATCA
61617825 TA
1 TA
61617827 CTTCGAATAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.42
Consensus pattern (70 bp):
TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
TATCA
Found at i:61626559 original size:27 final size:27
Alignment explanation
Indices: 61626528--61626726 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
61626518 TACTGAAATG
*
61626528 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
61626555 TCCTCTATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
61626582 CCGTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
61626609 CCATTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
61626636 CCCTTGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
61626663 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
61626690 CCCTC-ATTTTACAAAATTATCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
61626717 CCCTCGATTT
1 CCCTCGATTT
61626727 TGAAATTACT
Statistics
Matches: 148, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:61626798 original size:54 final size:54
Alignment explanation
Indices: 61626729--61626907 Score: 157
Period size: 54 Copynumber: 3.3 Consensus size: 54
61626719 CTCGATTTTG
* *
61626729 AAATTACTAAAATACCCCTA-TAGGATAGAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGTTTGTA
* ** * * *
61626783 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTG
1 AAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
* * ** * * * **
61626837 AAATTACTGAAATA-CCCTCAATTTGTAAAATTATCAAAATACCCCTAATTTACA
1 AAATTACTAAAATACCCCT-AGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
61626891 AAATTA-TAGAAATACCC
1 AAATTACTA-AAATACCC
61626908 TTGACTTTCT
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
53 5 0.05
54 92 0.91
55 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
Found at i:61626897 original size:27 final size:27
Alignment explanation
Indices: 61626729--61626883 Score: 170
Period size: 27 Copynumber: 5.7 Consensus size: 27
61626719 CTCGATTTTG
* **
61626729 AAATTACTAAAATACCCCTA-TAGGATA
1 AAATTACCAAAATACCCCTAGTTTG-TA
*
61626756 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
61626783 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
61626810 AAATTACCGAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
** *
61626837 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
*
61626864 AAATTATCAAAATACCCCTA
1 AAATTACCAAAATACCCCTA
61626884 ATTTACAAAA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.03
27 99 0.92
28 6 0.06
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:61626908 original size:54 final size:56
Alignment explanation
Indices: 61626757--61626990 Score: 180
Period size: 54 Copynumber: 4.3 Consensus size: 56
61626747 TATAGGATAG
* *
61626757 AATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCTAATTTGTAA
* * * *
61626811 AATTACCGAAATACCACTGGTTTGTGAAATTACT-GAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCTAATTTGTAA
* * ** * *
61626865 AATTATCAAAATACCCCTAATTTACAAAATTA-TAGAAATACCCT-TGACTTTCTAAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCT-AATTTGT-AA
* ** * * ** *
61626921 AATTA-TAGAAATACCATTGGTTTATAAAATTACT-GAAATACCCT-TGGTTTGTAG
1 AATTACCA-AAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCTAATTTGTAA
* *
61626975 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
61626991 TTGTAGGATG
Statistics
Matches: 141, Mismatches: 30, Indels: 18
0.75 0.16 0.10
Matches are distributed among these distances:
53 1 0.01
54 90 0.64
55 12 0.09
56 37 0.26
57 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (56 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCTAATTTGTAA
Found at i:61626958 original size:27 final size:27
Alignment explanation
Indices: 61626765--61626973 Score: 147
Period size: 27 Copynumber: 7.7 Consensus size: 27
61626755 AGAATTACCA
* * **
61626765 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACTG
* * *
61626792 AAATACCCCTAGTTTGTAAAATTACCG
1 AAATACCCTTGGTTTGTAAAATTACTG
*
61626819 AAATACCAC-TGGTTTGTGAAATTACTG
1 AAATACC-CTTGGTTTGTAAAATTACTG
*** *
61626846 AAATACCCTCAATTTGTAAAATTA-TCA
1 AAATACCCTTGGTTTGTAAAATTACT-G
* ** **
61626873 AAATACCCCTAATTTACAAAATTA-TAG
1 AAATACCCTTGGTTTGTAAAATTACT-G
* *
61626900 AAATACCCTTGACTTTCTAAAAATTA-TAG
1 AAATACCCTTG-GTTTGT-AAAATTACT-G
* *
61626929 AAATACCATTGGTTTATAAAATTACTG
1 AAATACCCTTGGTTTGTAAAATTACTG
61626956 AAATACCCTTGGTTTGTA
1 AAATACCCTTGGTTTGTA
61626974 GATTTACCAA
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
26 2 0.01
27 120 0.79
28 9 0.06
29 20 0.13
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGGTTTGTAAAATTACTG
Found at i:61627066 original size:27 final size:27
Alignment explanation
Indices: 61626987--61627088 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
61626977 TTACCAAAAC
* * * **
61626987 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCCTGTAGGGTAAAATGACTGTAAT
* * *
61627014 ACCCCTAATA-GGTAAAAAGACCGTAA-
1 ACCCCT-GTAGGGTAAAATGACTGTAAT
*
61627040 AGCCCCTGTAGGGTAAAGTGACTGTAAT
1 A-CCCCTGTAGGGTAAAATGACTGTAAT
* *
61627068 ACCCTTGTATGGTAAAATGAC
1 ACCCCTGTAGGGTAAAATGAC
61627089 GAATATGCCC
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
26 3 0.05
27 50 0.89
28 3 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACTGTAAT
Found at i:61627931 original size:25 final size:24
Alignment explanation
Indices: 61627898--61627967 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
61627888 AGGAAGTGCT
61627898 AAAAGGGCTCTGCCCCAGTTCACCA
1 AAAAGGGCT-TGCCCCAGTTCACCA
* *
61627923 AAAAGGGCTTCGCCCCAGTTTATCA
1 AAAAGGGCTT-GCCCCAGTTCACCA
*
61627948 GAAAGGGCTTTGCCCCAGTT
1 AAAAGGGC-TTGCCCCAGTT
61627968 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 37 0.93
26 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (24 bp):
AAAAGGGCTTGCCCCAGTTCACCA
Found at i:61628162 original size:42 final size:42
Alignment explanation
Indices: 61628115--61628248 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
61628105 TAGTCTCCCC
61628115 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
61628157 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* * *
61628199 AAATGGACTTGCATACATCCATTGATATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
61628241 AAATGGGC
1 AAATGGGC
61628249 CTAAGGGCCA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:61628307 original size:31 final size:31
Alignment explanation
Indices: 61628272--61628355 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
61628262 CGTTTACAGT
61628272 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
61628303 AAAGGCTTCGGCCCAGTGGTATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
61628334 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
61628356 TCAAGACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:61631421 original size:15 final size:16
Alignment explanation
Indices: 61631383--61631423 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
61631373 TGATTTTTGG
61631383 ATTAAA-TTGAATAGA
1 ATTAAATTTGAATAGA
61631398 ATTAAATTTGAAT-GA
1 ATTAAATTTGAATAGA
*
61631413 GTTAAATTTGA
1 ATTAAATTTGA
61631424 TTATATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
ATTAAATTTGAATAGA
Found at i:61639617 original size:22 final size:19
Alignment explanation
Indices: 61639592--61639633 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
61639582 TGATAATAAC
61639592 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
61639614 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
61639633 T
1 T
61639634 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:61639624 original size:16 final size:15
Alignment explanation
Indices: 61639592--61639630 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
61639582 TGATAATAAC
61639592 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
61639608 TTATTATAATATATAT
1 TAATTATAAT-TATAT
61639624 TAATTAT
1 TAATTAT
61639631 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:61648066 original size:49 final size:47
Alignment explanation
Indices: 61647961--61648341 Score: 600
Period size: 47 Copynumber: 8.0 Consensus size: 47
61647951 TAGTAAGGTA
* *
61647961 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
61648008 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAG
* *
61648057 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
61648104 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAG
61648153 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAG
*
61648202 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
*
61648249 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
* * * * * *
61648296 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
61648342 AGTCCCGAAG
Statistics
Matches: 314, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 175 0.56
49 139 0.44
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
Found at i:61648125 original size:96 final size:96
Alignment explanation
Indices: 61647961--61648341 Score: 617
Period size: 96 Copynumber: 4.0 Consensus size: 96
61647951 TAGTAAGGTA
*
61647961 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
61648026 ATGAATGTGAAAGTGTATATATATGTGATAG
66 ATGAATGTGAAAGTGTATATATATGTGATAG
*
61648057 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
61648122 ATGAATGTGAAAGTGTATATATATGTGATAG
66 ATGAATGTGAAAGTGTATATATATGTGATAG
*
61648153 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
*
61648218 TGATGAATGTGAAAGTG--TATATATGTGATAA
64 TGATGAATGTGAAAGTGTATATATATGTGATAG
* * * * * *
61648249 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
61648314 ATGGATGTGAAAGTGTATA-A-ATGTGATA
66 ATGAATGTGAAAGTGTATATATATGTGATA
61648342 AGTCCCGAAG
Statistics
Matches: 270, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
94 49 0.18
95 1 0.00
96 175 0.65
98 45 0.17
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:61648518 original size:37 final size:37
Alignment explanation
Indices: 61648462--61648540 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61648452 CCGAGCTCTA
* * *
61648462 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
61648499 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
61648536 AAGAC
1 AAGAC
61648541 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:61651917 original size:47 final size:47
Alignment explanation
Indices: 61651863--61652405 Score: 933
Period size: 47 Copynumber: 11.5 Consensus size: 47
61651853 TATTTGAATA
*
61651863 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
61651910 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
61651959 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
61652006 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
61652053 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
61652100 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAGGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
61652147 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
61652194 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
61652241 AATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
61652288 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
61652335 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
61652382 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
61652406 GAGTCCCGAA
Statistics
Matches: 475, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 429 0.90
49 46 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:61652239 original size:22 final size:22
Alignment explanation
Indices: 61652211--61652288 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
61652201 AAGTGTATAT
61652211 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * **
61652233 ATGTGATGAATG--TGAAAGTGCAT
1 ATGTGAT-AAGGCCT-AATG-GCCG
61652256 ATATGTGATAAGGCCTAATGGCCG
1 A--TGTGATAAGGCCTAATGGCCG
61652280 ATGTGATAA
1 ATGTGATAA
61652289 ATGTGAAAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
21 1 0.02
22 18 0.44
23 6 0.15
24 6 0.15
25 9 0.22
26 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:61654520 original size:13 final size:13
Alignment explanation
Indices: 61654499--61654529 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61654489 ATAGTCAACG
*
61654499 CACCTGCTTCACA
1 CACCCGCTTCACA
61654512 CACCCGCTTCACA
1 CACCCGCTTCACA
61654525 CACCC
1 CACCC
61654530 CTGCCTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.55, G:0.06, T:0.16
Consensus pattern (13 bp):
CACCCGCTTCACA
Found at i:61657244 original size:39 final size:39
Alignment explanation
Indices: 61657200--61657279 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
61657190 CGAAGGTCCG
61657200 ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
1 ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
61657239 ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
1 ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
61657278 AT
1 AT
61657280 CTTTTACCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (39 bp):
ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
Found at i:61657850 original size:27 final size:27
Alignment explanation
Indices: 61657796--61657850 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
61657786 AATATAATGT
*
61657796 AATTATAAAATAATTAAATTGTACTTA
1 AATTATAAAATAATTAAATTGTAATTA
* *
61657823 AATTATTAAAAT-ATTGAATTTTAATTA
1 AATTA-TAAAATAATTAAATTGTAATTA
61657850 A
1 A
61657851 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
AATTATAAAATAATTAAATTGTAATTA
Found at i:61669063 original size:10 final size:11
Alignment explanation
Indices: 61669047--61669076 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
61669037 CTTTCAATCC
61669047 TTTTAATTTTA
1 TTTTAATTTTA
61669058 -TTTAATTTTA
1 TTTTAATTTTA
61669068 TTTTAATTT
1 TTTTAATTT
61669077 GGGCCCTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTAATTTTA
Found at i:61669326 original size:23 final size:24
Alignment explanation
Indices: 61669300--61669345 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
61669290 TATTTTCTTT
61669300 ATATAATCTAT-TTATTA-TAAAAA
1 ATATAAT-TATATTATTACTAAAAA
*
61669323 ATATACTTATATTATTACTAAAA
1 ATATAATTATATTATTACTAAAA
61669346 TACCATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATAATTATATTATTACTAAAAA
Found at i:61673613 original size:24 final size:24
Alignment explanation
Indices: 61673586--61673642 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
61673576 AAGGTTTGAG
61673586 CAGTTGCAAAAGGATATGCAAGAC
1 CAGTTGCAAAAGGATATGCAAGAC
*
61673610 CAGTTGAAAAAGGATATGCAAGAC
1 CAGTTGCAAAAGGATATGCAAGAC
61673634 CAGTTGCAA
1 CAGTTGCAA
61673643 GAGCAATTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.18
Consensus pattern (24 bp):
CAGTTGCAAAAGGATATGCAAGAC
Found at i:61681970 original size:21 final size:21
Alignment explanation
Indices: 61681944--61681986 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
61681934 TCTAGTGTGT
61681944 TTAAATAGGCTTTAGAATGCC
1 TTAAATAGGCTTTAGAATGCC
61681965 TTAAATAGGCTTTAGAATGCC
1 TTAAATAGGCTTTAGAATGCC
61681986 T
1 T
61681987 AAAAGCCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (21 bp):
TTAAATAGGCTTTAGAATGCC
Found at i:61708156 original size:22 final size:22
Alignment explanation
Indices: 61708128--61708172 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
61708118 CTCTAGTGTG
61708128 TTTAAATAGGCTTTAGAATGCC
1 TTTAAATAGGCTTTAGAATGCC
61708150 TTTAAATAGGCTTTAGAATGCC
1 TTTAAATAGGCTTTAGAATGCC
61708172 T
1 T
61708173 AAAAGCCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (22 bp):
TTTAAATAGGCTTTAGAATGCC
Found at i:61718135 original size:79 final size:80
Alignment explanation
Indices: 61718000--61718183 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 80
61717990 TTGAATGATG
* * * *
61718000 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAACCCGGACTAAGATCCGAAGGCAATT
61718064 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
61718078 TTCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAACCCGGACTAAGAT-CCGAAGGCAA
*
61718141 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
61718158 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61718184 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
78 9 0.10
79 65 0.74
80 14 0.16
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAACCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:61718197 original size:40 final size:40
Alignment explanation
Indices: 61718001--61718183 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
61717991 TGAATGATGT
* * * *
61718001 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
61718040 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
61718080 CCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
61718118 CCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61718159 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61718184 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 51 0.42
40 69 0.57
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61718205 original size:79 final size:78
Alignment explanation
Indices: 61718001--61718216 Score: 208
Period size: 79 Copynumber: 2.7 Consensus size: 78
61717991 TGAATGATGT
* * * *
61718001 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGT-GACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCAATT
*
61718064 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
* * *
61718080 CCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTA-CTAAACCCGGGTTAAGTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCAATT
*
61718143 GTGCGAGTTACT-ATAA
63 GTGCGAGATACTAAT-A
* ** *
61718159 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
61718217 TACGTGATTT
Statistics
Matches: 112, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
78 11 0.10
79 72 0.64
80 29 0.26
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCAATTGTG
CGAGATACTAATA
Found at i:61740141 original size:79 final size:81
Alignment explanation
Indices: 61740005--61740189 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
61739995 TTGAATGATG
* *
61740005 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
61740069 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61740084 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61740146 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
61740164 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61740190 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:61740203 original size:40 final size:40
Alignment explanation
Indices: 61740006--61740189 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
61739996 TGAATGATGT
* * * *
61740006 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61740046 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
61740086 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
61740124 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61740165 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61740190 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61740211 original size:79 final size:79
Alignment explanation
Indices: 61740058--61740222 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
61740048 GGACTAAGAT
* * **
61740058 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61740123 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61740137 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61740200 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61740216 CCGAAGG
1 CCGAAGG
61740223 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61748097 original size:79 final size:81
Alignment explanation
Indices: 61747961--61748145 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
61747951 TTGAATGATG
* *
61747961 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
61748025 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61748040 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61748102 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
61748120 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61748146 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:61748159 original size:40 final size:40
Alignment explanation
Indices: 61747962--61748145 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
61747952 TGAATGATGT
* * * *
61747962 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61748002 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
61748042 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
61748080 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61748121 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61748146 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61748167 original size:79 final size:79
Alignment explanation
Indices: 61748014--61748178 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
61748004 GGACTAAGAT
* * **
61748014 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61748079 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61748093 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61748156 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61748172 CCGAAGG
1 CCGAAGG
61748179 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61752664 original size:53 final size:53
Alignment explanation
Indices: 61752589--61752693 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
61752579 ATAAACTACG
* * * * * *
61752589 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGTAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCATACCAAGACATGGAAATGGTAAGTTC
* *
61752642 ATAAGGCAAGGATACCACGTAAGACCATATCAAGACATGGAAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCATACCAAGACATGGAAATGGTAAGTT
61752694 TACAAAGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCATACCAAGACATGGAAATGGTAAGTTC
Found at i:61755629 original size:99 final size:92
Alignment explanation
Indices: 61755424--61755645 Score: 248
Period size: 99 Copynumber: 2.3 Consensus size: 92
61755414 TTATTAGAGC
* **
61755424 CAGTGTAAGACCTTGTCTGGGACAT-GCATCGGCCTCGTAAGGTAAGCTAGTATAAGACATGTCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGTAAGCCAAGCTAGTATAAGACATGTCA
* ***
61755488 GGGACAGGCATCGGCTGTGAGATGTGT
66 GGGACAGGCATCGGCTGTGACAACAGT
* * * *
61755515 CAATGTAAGACCATGTCTGGGACATGGCATCGGCGTGGATAAGCCAGAGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-TAAGCCA-AGCTAGTATAAGA-CATG
* *
61755580 TCTGGGACATGGCGTCGGCCTCGATGACAACAGT
63 TCAGGGACA-GGCATCGG-CT-G-TGACAACAGT
*
61755614 CAGTGTAAGACCATGTCTCGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
61755646 ACTTGAGACA
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
91 23 0.21
92 10 0.09
93 5 0.05
94 12 0.11
95 12 0.11
96 7 0.06
97 2 0.02
98 1 0.01
99 36 0.33
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (92 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGTAAGCCAAGCTAGTATAAGACATGTCA
GGGACAGGCATCGGCTGTGACAACAGT
Found at i:61755684 original size:47 final size:49
Alignment explanation
Indices: 61755419--61755691 Score: 185
Period size: 47 Copynumber: 5.7 Consensus size: 49
61755409 CCACATTATT
* * *
61755419 AGAGCCAGTGTAAGACCTTGTCTGGGACAT-GCATCGGCCTCG-T-A-A
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGACTCGATGACA
* * * *
61755464 GGTAAGCTAGTATAAGA-CATGTC-AGGGACA-GGCATCGG-CT-G-TGAGA
1 AG--AGCCAGTGTAAGACCATGTCTA-GGACATGGCATCGGACTCGATGACA
* * * * * * * *
61755510 TGTGTCAATGTAAGACCATGTCTGGGACATGGCATCGG-CGTGGATAAGCC
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGAC-TCGATGA-CA
* * * *
61755560 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACA
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGACTCGATGACA
* * * *
61755609 ACAGTCAGTGTAAGACCATGTCTCGGACATGGCATC-GACTTGA-GACA
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGACTCGATGACA
* *
61755656 TGAGCCAGTGTAAGACGATGTCTAGGACATGGCATC
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
61755692 AGCATCATAG
Statistics
Matches: 178, Mismatches: 36, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
44 10 0.06
45 15 0.08
46 28 0.16
47 47 0.26
48 6 0.03
49 34 0.19
50 37 0.21
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (49 bp):
AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGACTCGATGACA
Found at i:61759895 original size:37 final size:37
Alignment explanation
Indices: 61759790--61759902 Score: 163
Period size: 37 Copynumber: 3.0 Consensus size: 37
61759780 GCTCAGACGA
* * ** * *
61759790 AATCTCCACACGAAGTTATCGGGTCTTACCCATACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGATAT
61759827 AATCTCCACACGTAGTCATCGGGTCTTACCCGGATAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGATAT
61759864 AATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGG-ATAT
61759902 A
1 A
61759903 TTTCCAAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
37 64 0.93
38 5 0.07
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGATAT
Found at i:61760111 original size:47 final size:47
Alignment explanation
Indices: 61760060--61760292 Score: 324
Period size: 47 Copynumber: 5.0 Consensus size: 47
61760050 TTTCACACTA
* * * *
61760060 GCCATTCGG-CTTTACCACATATATGTATGTTCATATTCATCACATTG
1 GCCATTCGGCCTTT-TCACACATATGCATGTTCACATTCATCACATTG
* *
61760107 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTTTCACACATATGCATGTTCACATTCATCACATTG
61760154 GCCATTCGGCCTTTTCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTTTCACACATATGCATGTTCACATTCATCACATTG
*
61760201 GCCATTCGGCCTTTTCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTTTCACACATATGCATGTTCACATTCATCACATTG
* * * * * **
61760248 GCCATTCGACCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTTTCACACATATGCATGTTCACATTCATCACAT
61760293 AAAATCCTAA
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 167 0.98
48 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCCTTTTCACACATATGCATGTTCACATTCATCACATTG
Found at i:61760293 original size:25 final size:25
Alignment explanation
Indices: 61760215--61760293 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
61760205 TTCGGCCTTT
**
61760215 TCACATATATGCATGTTCACATTCA
1 TCACATATATGCACATTCACATTCA
* *
61760240 TCACAT-T-GGC-CATTCGACCTT-A
1 TCACATATATGCACATTC-ACATTCA
* *
61760262 TCTCATATATACACATTCACATTCA
1 TCACATATATGCACATTCACATTCA
61760287 TCACATA
1 TCACATA
61760294 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 6 0.15
25 18 0.45
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
TCACATATATGCACATTCACATTCA
Found at i:61764670 original size:40 final size:40
Alignment explanation
Indices: 61764626--61764937 Score: 498
Period size: 40 Copynumber: 7.8 Consensus size: 40
61764616 CCAGCATGAT
* * * *
61764626 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
61764666 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
61764706 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
61764746 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
61764786 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
61764826 TGCTCTTCGGGACTTAGCCCGGATATATCACTGGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
61764866 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
61764906 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
61764938 CTCAATTCTC
Statistics
Matches: 254, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:61770059 original size:50 final size:50
Alignment explanation
Indices: 61769998--61770101 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
61769988 TCCCTAGAGC
61769998 ATTCAGCCTTTGCAAACAGAATTAGTGCAAACCAGCCCCTAAATTTGGGT
1 ATTCAGCCTTTGCAAACAGAATTAGTGCAAACCAGCCCCTAAATTTGGGT
61770048 ATTCAGCCTTTGCAAACAGAATTAGTGCAAACCAGCCCCTAAATTTGGGT
1 ATTCAGCCTTTGCAAACAGAATTAGTGCAAACCAGCCCCTAAATTTGGGT
61770098 ATTC
1 ATTC
61770102 GAATACTTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (50 bp):
ATTCAGCCTTTGCAAACAGAATTAGTGCAAACCAGCCCCTAAATTTGGGT
Found at i:61774911 original size:40 final size:40
Alignment explanation
Indices: 61774874--61775059 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
61774864 GCTACTCGTT
* *
61774874 CAAATGCCTTCGGGA-TATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACT-TAACCCGGATT-TAGTAACTCGCA
*
61774914 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
61774954 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
61774994 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61775035 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61775060 CATCATTCAA
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.02
40 113 0.87
41 14 0.11
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61774986 original size:80 final size:82
Alignment explanation
Indices: 61774874--61775059 Score: 240
Period size: 80 Copynumber: 2.3 Consensus size: 82
61774864 GCTACTCGTT
*
61774874 CAAATGCCTTCGGGA-TATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACT-TAGCCCGGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACC
* *
61774936 CGGATTTAGT-AATTCGCA
64 CGGATATAGTCAATTAGCA
* **
61774954 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
61775018 GATATGGTCACTTAGCA
66 GATATAGTCAATTAGCA
61775035 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61775060 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
79 3 0.03
80 77 0.83
81 13 0.14
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTCAATTAGCA
Found at i:61778044 original size:67 final size:64
Alignment explanation
Indices: 61777909--61778089 Score: 188
Period size: 67 Copynumber: 2.8 Consensus size: 64
61777899 TAGTTCGGCG
* * * * * * *
61777909 CTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCTATGTGACCTAGCCA-ATTTATCTCGTAGC
1 CTCTTGT-CTACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACATATATCCCGTAGC
61777971 T
64 T
* * *
61777972 CTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCGTAG
1 CTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTAG
61778037 CT
63 CT
* *
61778039 CTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 CTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
61778090 CATAATGTCT
Statistics
Matches: 98, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 15 0.15
64 29 0.30
66 22 0.22
67 31 0.32
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (64 bp):
CTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTAGCT
Found at i:61778858 original size:30 final size:30
Alignment explanation
Indices: 61778824--61778884 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
61778814 TCCTTAACTC
61778824 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
61778854 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
61778884 A
1 A
61778885 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:61786496 original size:27 final size:27
Alignment explanation
Indices: 61786441--61786501 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
61786431 ACGGAATAGA
* *
61786441 GTAAGTCCGCCAGGATAATAAACATGG
1 GTAAGTCCGCCAGGACAATAAACACGG
* * *
61786468 GTTAGTCCGCCAGGACAGTATACACGG
1 GTAAGTCCGCCAGGACAATAAACACGG
61786495 GTAAGTC
1 GTAAGTC
61786502 TGAAGGGATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (27 bp):
GTAAGTCCGCCAGGACAATAAACACGG
Found at i:61788202 original size:20 final size:20
Alignment explanation
Indices: 61788177--61788218 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
61788167 GTCGTTCTAA
61788177 GCACCAGCAGCTCCTTTATT
1 GCACCAGCAGCTCCTTTATT
61788197 GCACCAGCAGCTCCTTTATT
1 GCACCAGCAGCTCCTTTATT
61788217 GC
1 GC
61788219 TGCTCTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.29
Consensus pattern (20 bp):
GCACCAGCAGCTCCTTTATT
Found at i:61799576 original size:16 final size:17
Alignment explanation
Indices: 61799550--61799585 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
61799540 AAGTAGTCAA
61799550 TTGTGGTATGATAAATG
1 TTGTGGTATGATAAATG
*
61799567 TTGT-GTATGATAGATG
1 TTGTGGTATGATAAATG
61799583 TTG
1 TTG
61799586 ATATTGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TTGTGGTATGATAAATG
Found at i:61802446 original size:45 final size:44
Alignment explanation
Indices: 61802360--61802523 Score: 199
Period size: 45 Copynumber: 3.7 Consensus size: 44
61802350 CCAGCATATT
* * *
61802360 GCCTGCTAGGCTCAAAGCCTG-ATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAGGCCCGAATAGT-ATCTCACCGGCATTATA
61802403 GCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTC-AAGGCCCGAATAGTATCTCACCGGCATTATA
* *
61802448 GCCTGCTAAGCTCAAGGGCCC-AATTAGTATCTCATCGGCATTATA
1 GCCTGCTAGGCTCAA-GGCCCGAA-TAGTATCTCACCGGCATTATA
* *
61802493 GCCTGCTAGCCTCAAAGGCCCGATTAGTATC
1 GCCTGCTAGGCTC-AAGGCCCGAATAGTATC
61802524 GTACGATATT
Statistics
Matches: 106, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
43 13 0.12
44 10 0.09
45 79 0.75
46 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAGGCCCGAATAGTATCTCACCGGCATTATA
Found at i:61806856 original size:50 final size:48
Alignment explanation
Indices: 61806729--61806862 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 48
61806719 TAGGGTATAA
* **
61806729 TGCCGATTCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGTTAAG
1 TGCCGATTCCATGT-CCAAACATGGTCTTACACTAACTCTCACGTTAAG
**
61806778 T--CGATTCCATGTCCTAAACATGGTCTTACACTAACTCTCACGTATCTG
1 TGCCGATTCCATGTCC-AAACATGGTCTTACACTAACTCTCACGT-TAAG
* *
61806826 TGCCGATGCCATATCTCAAACATGGTCTTACACTAAC
1 TGCCGATTCCATGTC-CAAACATGGTCTTACACTAAC
61806863 ACATCATATA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
46 2 0.03
47 36 0.49
48 3 0.04
49 1 0.01
50 30 0.41
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (48 bp):
TGCCGATTCCATGTCCAAACATGGTCTTACACTAACTCTCACGTTAAG
Found at i:61806913 original size:46 final size:46
Alignment explanation
Indices: 61806738--61807046 Score: 168
Period size: 46 Copynumber: 6.6 Consensus size: 46
61806728 ATGCCGATTC
* * * * *
61806738 CATGTCCCAGACATGGTCTTACACTGGCTCTCA-CGT-TAAGTCGATTC
1 CATGTCCCAAACAT-GTCTTACACTAGCTCTCATC-TATAGGCCGA-TG
* * *
61806785 CATGTCCTAAACATGGTCTTACACTAACTCTCA-CGTATCTGTGCCGATG
1 CATGTCCCAAACAT-GTCTTACACTAGCTCTCATC-TAT-AG-GCCGATG
* * * *
61806834 CCATATCTCAAACATGGTCTTACACTA--ACACATCATATA-GCCGATG
1 -CATGTCCCAAACAT-GTCTTACACTAGCTCTCATC-TATAGGCCGATG
* **
61806880 CATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT-CATCTATAGGCCGATG
* * * * *
61806926 CATGTCCCAAAAATGTCTTACACTAGCTCTCGTCTCA-ATGTCAATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATCT-ATAGGCCGATG
* * * * * *
61806972 CCATGTCCCAGATATGGTCTTATACTGGATCTCATAATATA-GCCGATG
1 -CATGTCCCAAACAT-GTCTTACACTAGCTCTCAT-CTATAGGCCGATG
* *
61807020 CATGTCCCAGACATGCCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
61807047 ACACAATTAT
Statistics
Matches: 204, Mismatches: 43, Indels: 31
0.73 0.15 0.11
Matches are distributed among these distances:
44 10 0.05
45 14 0.07
46 63 0.31
47 58 0.28
48 25 0.12
49 7 0.03
50 27 0.13
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCATCTATAGGCCGATG
Found at i:61813933 original size:83 final size:83
Alignment explanation
Indices: 61813816--61813978 Score: 308
Period size: 83 Copynumber: 2.0 Consensus size: 83
61813806 AAATAGATAG
*
61813816 TTAAGCTATTCTGATCTTAAAAATATAAAAATTACTAAAAACGAGGCAAGATTACTTACCCAATT
1 TTAAGCTATTCTGATCTCAAAAATATAAAAATTACTAAAAACGAGGCAAGATTACTTACCCAATT
61813881 AAGCTTGTTTGATTTAGA
66 AAGCTTGTTTGATTTAGA
*
61813899 TTAAGCTATTCTGATCTCGAAAATATAAAAATTACTAAAAACGAGGCAAGATTACTTACCCAATT
1 TTAAGCTATTCTGATCTCAAAAATATAAAAATTACTAAAAACGAGGCAAGATTACTTACCCAATT
61813964 AAGCTTGTTTGATTT
66 AAGCTTGTTTGATTT
61813979 CATTTTTCTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (83 bp):
TTAAGCTATTCTGATCTCAAAAATATAAAAATTACTAAAAACGAGGCAAGATTACTTACCCAATT
AAGCTTGTTTGATTTAGA
Found at i:61816548 original size:23 final size:23
Alignment explanation
Indices: 61816504--61816548 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
61816494 TTATATTAAA
**
61816504 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
61816527 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
61816549 TTAGTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:61820010 original size:27 final size:27
Alignment explanation
Indices: 61819980--61820157 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
61819970 ATATTGAGCC
* *
61819980 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61820007 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61820034 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
61820062 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
61820089 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
61820116 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
61820143 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
61820158 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61820119 original size:82 final size:81
Alignment explanation
Indices: 61820001--61820156 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
61819991 TGCTATATAA
* *
61820001 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61820066 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
61820083 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
61820147 CCCTTAGTGC
65 CACTTAGTGC
61820157 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61833688 original size:14 final size:14
Alignment explanation
Indices: 61833669--61833699 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61833659 TGCTACCATT
61833669 TTACTATTATGTTG
1 TTACTATTATGTTG
*
61833683 TTACTATTTTGTTG
1 TTACTATTATGTTG
61833697 TTA
1 TTA
61833700 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:61833764 original size:30 final size:30
Alignment explanation
Indices: 61833730--61833791 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
61833720 ACTTATTTTA
61833730 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
61833760 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
61833790 TT
1 TT
61833792 TCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.13, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:61833896 original size:18 final size:18
Alignment explanation
Indices: 61833875--61833919 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
61833865 GAAATATTTA
61833875 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTTTAGTAT
61833893 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTTTAGTAT
61833911 TTTTGATGT
1 TTTTGATGT
61833920 ATTATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTTTAGTAT
Found at i:61834353 original size:8 final size:8
Alignment explanation
Indices: 61834340--61834366 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
61834330 AATGTTTTTA
61834340 TATGATTT
1 TATGATTT
61834348 TATGATTT
1 TATGATTT
61834356 TATGATTT
1 TATGATTT
61834364 TAT
1 TAT
61834367 TTACAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (8 bp):
TATGATTT
Found at i:61836318 original size:52 final size:52
Alignment explanation
Indices: 61836240--61836344 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
61836230 GAAAAGGAAA
* *
61836240 GGGCGCCCAGCTGGACGTGCTTTCCCTCAACATTCAAATGACTGTTGGCCAT
1 GGGCGCCAAGCTGGACGTGCTTTCCCTCAACATTCAAATGACCGTTGGCCAT
*
61836292 GGGCGCCAAGCTGGACGTGCTTTCCCTCAACGTTCAAATGACCGTTGGCCAT
1 GGGCGCCAAGCTGGACGTGCTTTCCCTCAACATTCAAATGACCGTTGGCCAT
61836344 G
1 G
61836345 CAACGATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (52 bp):
GGGCGCCAAGCTGGACGTGCTTTCCCTCAACATTCAAATGACCGTTGGCCAT
Found at i:61845449 original size:16 final size:15
Alignment explanation
Indices: 61845423--61845461 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
61845413 CCAAATTCGA
*
61845423 TATTTTT-ATATTATT
1 TATTTTTAATA-TAAT
61845438 TATTTTTAATATAAT
1 TATTTTTAATATAAT
61845453 TATTTTTAA
1 TATTTTTAA
61845462 ATTTGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTAATATAAT
Found at i:61853868 original size:29 final size:28
Alignment explanation
Indices: 61853797--61853870 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 28
61853787 TAAAAAGTTT
*
61853797 TGGGGAGTAAAAGTTTGAGGTAAAGTAAA
1 TGGGGAGT-AAATTTTGAGGTAAAGTAAA
61853826 TAGATGGGAG--AATTTTGAGGTAAAGTAAA
1 T-G--GGGAGTAAATTTTGAGGTAAAGTAAA
61853855 TGGGAGAGTAAATTTT
1 TGGG-GAGTAAATTTT
61853871 TGGTGGGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
26 2 0.05
27 3 0.08
28 1 0.03
29 26 0.68
30 1 0.03
32 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.28
Consensus pattern (28 bp):
TGGGGAGTAAATTTTGAGGTAAAGTAAA
Found at i:61853976 original size:29 final size:30
Alignment explanation
Indices: 61853917--61853976 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 30
61853907 GATAGGAGGG
* * * **
61853917 GAGTAAAAGTTTTGGGGGGAAAGTGGGAAA
1 GAGTAAAAGTTTTGAGGGAAAAATGAAAAA
61853947 GAGTAAAAGTTTTGAGGGAAAAAT-AAAAA
1 GAGTAAAAGTTTTGAGGGAAAAATGAAAAA
61853976 G
1 G
61853977 GTTTGAGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (30 bp):
GAGTAAAAGTTTTGAGGGAAAAATGAAAAA
Found at i:61858334 original size:86 final size:86
Alignment explanation
Indices: 61858189--61858354 Score: 262
Period size: 86 Copynumber: 1.9 Consensus size: 86
61858179 ACAAAAAACG
*
61858189 TAAGGTTGTATATGGTATGTTACATTACTTTGATTGGCTCATTTGATTGGAATGTATTATCCAAC
1 TAAGGTTGTAGATGGTATGTTACATTACTTTGATTGGCTCATTTGATTGGAATGTATTATCCAAC
61858254 ACTACGTTTGGTTCGCTGACA
66 ACTACGTTTGGTTCGCTGACA
* * * * *
61858275 TAAGGTTGTCGATGGTATGTTACATTA-TCTTGTTTGGTTCATTTGGTTGGAATGTATTATCCAG
1 TAAGGTTGTAGATGGTATGTTACATTACT-TTGATTGGCTCATTTGATTGGAATGTATTATCCAA
61858339 CACTACGTTTGGTTCG
65 CACTACGTTTGGTTCG
61858355 TTGTAATAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
85 1 0.01
86 72 0.99
ACGTcount: A:0.22, C:0.13, G:0.23, T:0.42
Consensus pattern (86 bp):
TAAGGTTGTAGATGGTATGTTACATTACTTTGATTGGCTCATTTGATTGGAATGTATTATCCAAC
ACTACGTTTGGTTCGCTGACA
Found at i:61858375 original size:16 final size:16
Alignment explanation
Indices: 61858354--61858398 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
61858344 CGTTTGGTTC
* *
61858354 GTTGTAATAGAATTGA
1 GTTGTAATACAATAGA
61858370 GTTGTAATACAATAGA
1 GTTGTAATACAATAGA
*
61858386 GCTGTAAT-CAATA
1 GTTGTAATACAATA
61858399 ATTCAATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (16 bp):
GTTGTAATACAATAGA
Found at i:61858601 original size:37 final size:37
Alignment explanation
Indices: 61858559--61858629 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
61858549 TTGTTATTAA
*
61858559 ATTTTAATAGGATTATTATTAAAAATAATTTAATCAT
1 ATTTTAATAGAATTATTATTAAAAATAATTTAATCAT
* *
61858596 ATTTTAATATAATTATTATTAAATATAATTTAAT
1 ATTTTAATAGAATTATTATTAAAAATAATTTAAT
61858630 AAAAATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (37 bp):
ATTTTAATAGAATTATTATTAAAAATAATTTAATCAT
Found at i:61858617 original size:26 final size:25
Alignment explanation
Indices: 61858588--61858659 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 25
61858578 TAAAAATAAT
61858588 TTAATCATATTTTAATATAATTATTA
1 TTAAT-ATATTTTAATATAATTATTA
* *
61858614 TTAAATATAATTTAATA-AA--AATA
1 TT-AATATATTTTAATATAATTATTA
*
61858637 ATAATAT-TTTTAATATAATTATT
1 TTAATATATTTTAATATAATTATT
61858660 TTTATATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
21 7 0.19
22 7 0.19
23 4 0.11
24 2 0.05
25 2 0.05
26 12 0.32
27 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAATATATTTTAATATAATTATTA
Found at i:61858654 original size:17 final size:17
Alignment explanation
Indices: 61858634--61858679 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
61858624 TTTAATAAAA
61858634 ATAATAATATTTTTAAT
1 ATAATAATATTTTTAAT
61858651 ATAAT--TATTTTT-AT
1 ATAATAATATTTTTAAT
61858665 ATTAA-AATATTTTTA
1 A-TAATAATATTTTTA
61858680 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.12
15 10 0.40
16 7 0.28
17 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATAATAATATTTTTAAT
Found at i:61858675 original size:16 final size:16
Alignment explanation
Indices: 61858639--61858718 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 16
61858629 TAAAAATAAT
61858639 AATATTTTTA-A-TATA
1 AATATTTTTATATTA-A
*
61858654 ATTATTTTTATATTAA
1 AATATTTTTATATTAA
*
61858670 AATATTTTTATTTTAA
1 AATATTTTTATATTAA
* *
61858686 ATTATATTTTGACATT-A
1 A--ATATTTTTATATTAA
61858703 AATA-TTTTATATTAA
1 AATATTTTTATATTAA
61858718 A
1 A
61858719 TTATATTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
14 7 0.13
15 14 0.27
16 17 0.33
17 4 0.08
18 10 0.19
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (16 bp):
AATATTTTTATATTAA
Found at i:61858711 original size:32 final size:33
Alignment explanation
Indices: 61858639--61858725 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 33
61858629 TAAAAATAAT
*
61858639 AATATTTTTA-A-TATAATTAT-TTTTATATTAA
1 AATATTTTTATATTA-AATTATATTTTACATTAA
*
61858670 AATATTTTTATTTTAAATTATATTTTGACATT-A
1 AATATTTTTATATTAAATTATATTTT-ACATTAA
61858703 AATA-TTTTATATTAAATTATATT
1 AATATTTTTATATTAAATTATATT
61858726 AAATTATTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
31 10 0.20
32 24 0.49
33 11 0.22
34 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (33 bp):
AATATTTTTATATTAAATTATATTTTACATTAA
Found at i:61861195 original size:15 final size:15
Alignment explanation
Indices: 61861175--61861207 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
61861165 AAGTAAAGTG
61861175 ATTTTGGATATACGA
1 ATTTTGGATATACGA
*
61861190 ATTTTGGATATATGA
1 ATTTTGGATATACGA
61861205 ATT
1 ATT
61861208 AATGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (15 bp):
ATTTTGGATATACGA
Found at i:61861279 original size:26 final size:26
Alignment explanation
Indices: 61861250--61861299 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
61861240 GAAAGGACCA
61861250 AATCACAAATTTCGAGAAGTTTAACT
1 AATCACAAATTTCGAGAAGTTTAACT
* *
61861276 AATCCCAAATTTTGAGAAGTTTAA
1 AATCACAAATTTCGAGAAGTTTAA
61861300 GGACTAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (26 bp):
AATCACAAATTTCGAGAAGTTTAACT
Found at i:61868020 original size:22 final size:21
Alignment explanation
Indices: 61867995--61868035 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
61867985 TCCACAAGAA
61867995 TAATATAAAATCAAAGAAATAT
1 TAATATAAAAT-AAAGAAATAT
* *
61868017 TAATTTAAAATAAATAAAT
1 TAATATAAAATAAAGAAAT
61868036 TCAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
TAATATAAAATAAAGAAATAT
Found at i:61877286 original size:113 final size:113
Alignment explanation
Indices: 61877088--61877316 Score: 422
Period size: 113 Copynumber: 2.0 Consensus size: 113
61877078 AAGTGCAGGG
*
61877088 TTGGATGGGGTTATCGTGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
1 TTGGATGGGGTTATCATGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
*
61877153 TGGGCAAGGCCCAATATATCTCTACTTGTAATAGGGCAACGACCCAGA
66 TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCAACGACCCAGA
61877201 TTGGATGGGGTTATCATGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
1 TTGGATGGGGTTATCATGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
* *
61877266 TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGA
66 TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCAACGACCCAGA
61877314 TTG
1 TTG
61877317 ATATTGATAT
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (113 bp):
TTGGATGGGGTTATCATGCATTAATCATATGAGATTGTTTTGTTATGGGCCCAACTGTGTTAATA
TGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCAACGACCCAGA
Found at i:61877370 original size:60 final size:60
Alignment explanation
Indices: 61877263--61877401 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
61877253 AACTGTGTTA
* * * * * *
61877263 ATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTGATATTG
1 ATATGGGCTAGGCCCAGTATATCTCGAATTGTAATAGGGCAACGGCCCAGATTAATATGG
* * *
61877323 ATATGGGCTAGGCCCAGTATA-CTCCGATATTGTAA-GGGGCAATGGCCCATATTAATATGG
1 ATATGGGCTAGGCCCAGTATATCT-CGA-ATTGTAATAGGGCAACGGCCCAGATTAATATGG
61877383 ATATGGGCTAAGGCCCAGT
1 ATATGGGCT-AGGCCCAGT
61877402 TAACTCTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 2 0.03
60 50 0.75
61 15 0.22
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAGTATATCTCGAATTGTAATAGGGCAACGGCCCAGATTAATATGG
Found at i:61878541 original size:26 final size:28
Alignment explanation
Indices: 61878511--61878565 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
61878501 AAACTCTTCT
61878511 AAAAGAAAACTC-AAGAGAA-ATTATTA
1 AAAAGAAAACTCAAAGAGAATATTATTA
*
61878537 AAAAGAAAACTCAAAGAGAATTTTATTA
1 AAAAGAAAACTCAAAGAGAATATTATTA
61878565 A
1 A
61878566 CTCAAAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 12 0.46
27 7 0.27
28 7 0.27
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.22
Consensus pattern (28 bp):
AAAAGAAAACTCAAAGAGAATATTATTA
Found at i:61888611 original size:31 final size:30
Alignment explanation
Indices: 61888573--61888689 Score: 103
Period size: 31 Copynumber: 3.8 Consensus size: 30
61888563 TTAATCACAT
*
61888573 TAATATTAAATTAATAAAACATTATCTAAA
1 TAATATTAAATTAATAAAATATTATCTAAA
** * *
61888603 TAAGTATTAAATTAAATTTAATATCA-C-ATAT
1 TAA-TATTAAATT-AATAAAATATTATCTA-AA
* *
61888634 TAATATTAAATTAATAAAATACTATCTAGA
1 TAATATTAAATTAATAAAATATTATCTAAA
*
61888664 TAAATATTAAATTAAATTAAATATTA
1 T-AATATTAAATT-AATAAAATATTA
61888690 AATTTATTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
29 8 0.12
30 15 0.22
31 26 0.39
32 18 0.27
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (30 bp):
TAATATTAAATTAATAAAATATTATCTAAA
Found at i:61888660 original size:61 final size:61
Alignment explanation
Indices: 61888571--61888687 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
61888561 AATTAATCAC
* * *
61888571 ATTAATATTAAATTAATAAAACATTATCTAAATAAGTATTAAATTAAATTTAATATCACAT
1 ATTAATATTAAATTAATAAAACACTATCTAAATAAATATTAAATTAAATTAAATATCACAT
* *
61888632 ATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTAAATAT
1 ATTAATATTAAATTAATAAAACACTATCTAAATAAATATTAAATTAAATTAAATAT
61888688 TAAATTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAACACTATCTAAATAAATATTAAATTAAATTAAATATCACAT
Found at i:61891827 original size:17 final size:17
Alignment explanation
Indices: 61891781--61891827 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
61891771 TCGTTAAAGG
*
61891781 CCGATAAATGA-AATGC
1 CCGACAAATGATAATGC
*
61891797 CCGATC-AATTATAATGC
1 CCGA-CAAATGATAATGC
61891814 CCGACAAATGATAA
1 CCGACAAATGATAA
61891828 ATGATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (17 bp):
CCGACAAATGATAATGC
Found at i:61899144 original size:312 final size:312
Alignment explanation
Indices: 61898546--61899187 Score: 1070
Period size: 312 Copynumber: 2.1 Consensus size: 312
61898536 ATTTTAACTA
*
61898546 ATTAAATAAATCTCAAATGCACGATTTCAAAATATGAGTTTAATCAAGATGACATAATTGTGTTA
1 ATTAATTAAATCT--AATGCACGATTTCAAAATATGAGTTTAATCAAGATGACATAATTGTGTTA
*
61898611 GATCAATTACATTTCTTAACTTAGAATTATCAAACTCATGTTTATATTGTTACGAACAAATTTAC
64 GATCAATTACATTTCTTAACTTAGAATTATCAAACTCATGTTTATATTGTTACGAACAAATTCAC
* *
61898676 GGCAACTCGGTAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTCATCTCTTGACT
129 GACAACTCGGAAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTCATCTCTTGACT
*
61898741 AGATCCCTATGTCAATCCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGTACATAC
194 AGATCCCTATGTCAATCCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGCACATAC
* * *
61898806 AAATTTATTATATCGAAATGATCTCTTGTACATATCCCTATGTCAATTCAAACG
259 AAACTTATTAGATCGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACG
*
61898860 ATTAATTAAATCTAATGCATGATTTCAAAATATGA-TTTAAATCAAGATGACATAATTGTGTTAG
1 ATTAATTAAATCTAATGCACGATTTCAAAATATGAGTTT-AATCAAGATGACATAATTGTGTTAG
* * *
61898924 ATTAATTACATTTCTTAACTTAGAATTATTAAACTCATGTTTATATTGTTACGAATAAATTCACG
65 ATCAATTACATTTCTTAACTTAGAATTATCAAACTCATGTTTATATTGTTACGAACAAATTCACG
*
61898989 ACAACTCGGAAATTTGCTAACTTATGAACATACTTACCTACCAAAATCCATTCATCTCTTGACTA
130 ACAACTCGGAAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTCATCTCTTGACTA
* * *
61899054 TATCCCTATGTCAATTCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGCACATTCA
195 GATCCCTATGTCAATCCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGCACATACA
* * * *
61899119 TACTTATTAGATTGAAATAATCTCTTGTACATATCCCTATGTCAATTCCAATG
260 AACTTATTAGATCGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACG
61899172 ATTAATTAAATCTAAT
1 ATTAATTAAATCTAAT
61899188 AAGCACATAA
Statistics
Matches: 307, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
311 3 0.01
312 292 0.95
314 12 0.04
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (312 bp):
ATTAATTAAATCTAATGCACGATTTCAAAATATGAGTTTAATCAAGATGACATAATTGTGTTAGA
TCAATTACATTTCTTAACTTAGAATTATCAAACTCATGTTTATATTGTTACGAACAAATTCACGA
CAACTCGGAAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTCATCTCTTGACTAG
ATCCCTATGTCAATCCAACCGATTAAACAAATCTTTAATAGGAAAATATGTTATTGCACATACAA
ACTTATTAGATCGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACG
Found at i:61900420 original size:12 final size:12
Alignment explanation
Indices: 61900403--61900428 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61900393 AAAATTCATC
61900403 AAAATTAATTAA
1 AAAATTAATTAA
61900415 AAAATTAATTAA
1 AAAATTAATTAA
61900427 AA
1 AA
61900429 TTCAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAATTAA
Found at i:61912490 original size:21 final size:22
Alignment explanation
Indices: 61912466--61912506 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
61912456 AATCTGTAGA
61912466 ATGTGAAATGGAT-ATATATTT
1 ATGTGAAATGGATGATATATTT
**
61912487 ATGTGTGATGGATGATATAT
1 ATGTGAAATGGATGATATAT
61912507 AAAACCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (22 bp):
ATGTGAAATGGATGATATATTT
Found at i:61912624 original size:14 final size:14
Alignment explanation
Indices: 61912605--61912632 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61912595 AATGAAAGTA
61912605 CATAGTATATGATG
1 CATAGTATATGATG
61912619 CATAGTATATGATG
1 CATAGTATATGATG
61912633 AAAGTGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
CATAGTATATGATG
Found at i:61915150 original size:49 final size:49
Alignment explanation
Indices: 61915073--61915169 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
61915063 GTCAAAAGCT
* *
61915073 TTAGTTTCATGAGTAAATTACATTTAAATTGTGGTGTGATGTAATACCC
1 TTAGCTTCATGAGTAAATTACATTTAAATTGTGGCGTGATGTAATACCC
*
61915122 TTAGCTTCATGAGTGAATTACATTTAAATTGTGGCGTGATGTAATACC
1 TTAGCTTCATGAGTAAATTACATTTAAATTGTGGCGTGATGTAATACC
61915170 TGACAATCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (49 bp):
TTAGCTTCATGAGTAAATTACATTTAAATTGTGGCGTGATGTAATACCC
Found at i:61917430 original size:24 final size:24
Alignment explanation
Indices: 61917395--61917445 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
61917385 ATGAATCGGT
* *
61917395 AAAAGCCGAAATGCCGAAATGCCG
1 AAAAGCCAAAATGCCGAAAGGCCG
61917419 AAAAGCCAAAATGCCGAAAGGCCG
1 AAAAGCCAAAATGCCGAAAGGCCG
61917443 AAA
1 AAA
61917446 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.24, G:0.24, T:0.06
Consensus pattern (24 bp):
AAAAGCCAAAATGCCGAAAGGCCG
Found at i:61917446 original size:8 final size:8
Alignment explanation
Indices: 61917399--61917445 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
61917389 ATCGGTAAAA
61917399 GCCGAAAT
1 GCCGAAAT
61917407 GCCGAAAT
1 GCCGAAAT
*
61917415 GCCGAAAA
1 GCCGAAAT
*
61917423 GCCAAAAT
1 GCCGAAAT
*
61917431 GCCGAAAG
1 GCCGAAAT
61917439 GCCGAAA
1 GCCGAAA
61917446 GTTTGGCTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.43, C:0.26, G:0.26, T:0.06
Consensus pattern (8 bp):
GCCGAAAT
Done.