Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 274 of 318
Found at i:87828961 original size:27 final size:23
Alignment explanation
Indices: 87828894--87828961 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 23
87828884 TAACATTGTC
87828894 AATATTTTGAAAATATTTTAAATT
1 AATATTTTGAAAAT-TTTTAAATT
87828918 AATATGTTT-AAAA-TTTTAAATT
1 AATAT-TTTGAAAATTTTTAAATT
87828940 AAATTATTTTGAAGAATGTTTT
1 -AA-TATTTTGAA-AAT-TTTT
87828962 GTACATTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
22 9 0.24
23 5 0.14
24 14 0.38
25 5 0.14
27 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
AATATTTTGAAAATTTTTAAATT
Found at i:87834423 original size:20 final size:20
Alignment explanation
Indices: 87834400--87834440 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
87834390 AAAAGATTAA
87834400 AAGAAAAAGAAAAAAATGTG
1 AAGAAAAAGAAAAAAATGTG
* * *
87834420 AAGAAGAAGAGAAGAATGTG
1 AAGAAAAAGAAAAAAATGTG
87834440 A
1 A
87834441 TAAGAGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.27, T:0.10
Consensus pattern (20 bp):
AAGAAAAAGAAAAAAATGTG
Found at i:87837002 original size:16 final size:17
Alignment explanation
Indices: 87836978--87837010 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
87836968 AACGTGTTAT
*
87836978 AAAATAATTAAA-TAAA
1 AAAACAATTAAAGTAAA
87836994 AAAACAATTAAAGTAAA
1 AAAACAATTAAAGTAAA
87837011 TAGAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAACAATTAAAGTAAA
Found at i:87837473 original size:22 final size:23
Alignment explanation
Indices: 87837442--87837487 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
87837432 AAAATTATTT
87837442 TTTTTAAAATTTAACTAGAAAAA
1 TTTTTAAAATTTAACTAGAAAAA
*
87837465 TTTTT-AAATTTAACTAGGAAAA
1 TTTTTAAAATTTAACTAGAAAAA
87837487 T
1 T
87837488 ATAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (23 bp):
TTTTTAAAATTTAACTAGAAAAA
Found at i:87845898 original size:22 final size:22
Alignment explanation
Indices: 87845859--87845902 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
87845849 ACTTTTCCAT
87845859 GACATAAGGTCACACGCCCGTGTG
1 GACATAAGG-CACACG-CCGTGTG
87845883 GACATAAGG-ACACGCCGTGT
1 GACATAAGGCACACGCCGTGT
87845903 CCTCAGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
24 9 0.45
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (22 bp):
GACATAAGGCACACGCCGTGTG
Found at i:87848967 original size:11 final size:11
Alignment explanation
Indices: 87848892--87848968 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
87848882 ATTCCAAAAA
*
87848892 TAATATTATTT
1 TAATATTAATT
87848903 TAATATTTTAATAT
1 TAATA--TTAAT-T
87848917 TAA-ATGTAATT
1 TAATAT-TAATT
*
87848928 TAATATTTATCT
1 TAATATTAAT-T
*
87848940 TAATAGT-ATT
1 TAATATTAATT
87848950 T--TATTAATT
1 TAATATTAATT
87848959 TAATATTAAT
1 TAATATTAAT
87848969 GTGATTATCT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 22 0.42
12 13 0.25
13 5 0.09
14 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (11 bp):
TAATATTAATT
Found at i:87849249 original size:23 final size:25
Alignment explanation
Indices: 87849201--87849249 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
87849191 AGTTGTAGAG
87849201 AGAAAATTCTCTGAAGAGATAATTTT
1 AGAAAATTCTCT-AAGAGATAATTTT
*
87849227 AGAAAATT-TCT-AGAGATATTTTT
1 AGAAAATTCTCTAAGAGATAATTTT
87849250 CTAATTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
25 3 0.14
26 8 0.36
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (25 bp):
AGAAAATTCTCTAAGAGATAATTTT
Found at i:87851332 original size:15 final size:17
Alignment explanation
Indices: 87851307--87851338 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
87851297 TTAAGTGTTA
87851307 TTTCAATTTAA-TAAGT
1 TTTCAATTTAATTAAGT
87851323 TTTC-ATTTAATTAAGT
1 TTTCAATTTAATTAAGT
87851339 CATGCATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTCAATTTAATTAAGT
Found at i:87860256 original size:46 final size:46
Alignment explanation
Indices: 87859983--87860257 Score: 338
Period size: 46 Copynumber: 6.0 Consensus size: 46
87859973 TTCGACATGA
* * * * * *
87859983 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
** * ** *
87860029 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTATCAGGT
* * *
87860076 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
87860122 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
* *
87860168 TGCCATGGTATCTTTCAACGATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
87860214 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTTCTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
87860258 AGAGCACACT
Statistics
Matches: 204, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
45 3 0.01
46 156 0.76
47 45 0.22
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:87865838 original size:21 final size:20
Alignment explanation
Indices: 87865799--87865839 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
87865789 TTCCCAGGTG
87865799 GGTCCATTTTCTCTATTTTT
1 GGTCCATTTTCTCTATTTTT
* *
87865819 GGTCCGTTTCTCTCTCTTTTT
1 GGTCCATTT-TCTCTATTTTT
87865840 ACTCTCCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.05, C:0.24, G:0.12, T:0.59
Consensus pattern (20 bp):
GGTCCATTTTCTCTATTTTT
Found at i:87867752 original size:46 final size:45
Alignment explanation
Indices: 87867655--87867874 Score: 205
Period size: 46 Copynumber: 4.8 Consensus size: 45
87867645 ATCTGTGTAA
* * *
87867655 ATGCATGTCCCAAACATGTCTTACATTAGC--ACATCTCATA-GCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTTACATCT--TAGGCCG
* *
87867699 ATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTTGAGGTCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTT-AGGCCG
* * * * *
87867745 ATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCT-TAGGCCG
* ** *
87867791 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATATGGTCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTTA-GGCCG
*
87867839 ATGCATGTCCCAGACATGTCTTACACTGGCTCACAT
1 ATGCATGTCCCAGACATGTCTTACACTGGCTTACAT
87867875 AACAGCAATG
Statistics
Matches: 146, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 29 0.20
45 1 0.01
46 65 0.45
47 31 0.21
48 20 0.14
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTTAGGCCG
Found at i:87867846 original size:94 final size:91
Alignment explanation
Indices: 87867599--87867865 Score: 315
Period size: 94 Copynumber: 2.9 Consensus size: 91
87867589 ACATATATCG
* * * * * * **
87867599 ATGCCAATGCCATATCCCAGATATGGTCTTACACTGGCTCTCACACATCTGTGTAAATGCATGTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATA-ATATG-GTCGATGCATGTC
* *
87867664 CCAAACATGTCTTACATTAGCACATCTC
64 CCAGACATGTCTTACACTAGCACATCTC
* * **
87867692 ATAGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATCTTGA-GGTCGATGCATGTC
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAAT-ATGGTCGATGCATGTC
*
87867754 CCAGACATGTCTTACACTAGCACTCGTCTC
64 CCAGACATGTCTTACACTAGCA--CATCTC
87867784 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATATGGTCGATGCATGTCC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATATGGTCGATGCATGTCC
87867849 CAGACATGTCTTACACT
65 CAGACATGTCTTACACT
87867866 GGCTCACATA
Statistics
Matches: 147, Mismatches: 19, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
90 31 0.21
91 2 0.01
92 28 0.19
93 29 0.20
94 57 0.39
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (91 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATATGGTCGATGCATGTCCC
AGACATGTCTTACACTAGCACATCTC
Found at i:87867876 original size:46 final size:46
Alignment explanation
Indices: 87867613--87867876 Score: 191
Period size: 46 Copynumber: 5.7 Consensus size: 46
87867603 CAATGCCATA
* * * * **
87867613 TCCCAGATATGGTCTTACACTGGCTCTCACACATCTGTGTAAATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCACATA-ATATG-GTCGATGCATG
* * * * * *
87867662 TCCCAAACATGTCTTACATTAG--CACAT-CTCATAGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTCACATAAT-ATGGTCGATGCATG
* * **
87867706 TCCCAAACATGTCTTACACTGGCTTACATCTTGA-GGTCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTCACATAAT-ATGGTCGATGCATG
* * * *
87867752 TCCCAGACATGTCTTACACTAGCACTCGTC-TCA-AT-GCCGATGCCATG
1 TCCCAGACATGTCTTACACT-G-GCTC-ACATAATATGGTCGATG-CATG
**
87867799 TCCCAGACATGGTCTTACACTGGCTTTCATAATATGGTCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCACATAATATGGTCGATGCATG
87867846 TCCCAGACATGTCTTACACTGGCTCACATAA
1 TCCCAGACATGTCTTACACTGGCTCACATAA
87867877 CAGCAATGTC
Statistics
Matches: 171, Mismatches: 31, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
44 29 0.17
45 3 0.02
46 66 0.39
47 34 0.20
48 30 0.18
49 9 0.05
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTCACATAATATGGTCGATGCATG
Found at i:87869709 original size:12 final size:12
Alignment explanation
Indices: 87869679--87869709 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
87869669 TATTTTGAAC
*
87869679 AAAAAACTTCAA
1 AAAAAATTTCAA
87869691 AAAAAATTTCAA
1 AAAAAATTTCAA
87869703 AAAAAAT
1 AAAAAAT
87869710 CCATATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAAATTTCAA
Found at i:87871462 original size:21 final size:21
Alignment explanation
Indices: 87871438--87871489 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
87871428 CTTATTAGCC
*
87871438 TTAAATCAT-CCTTAAGACACA
1 TTAAATCATGCATTAAGACA-A
87871459 TTAAA-CATGCATTAAGACAA
1 TTAAATCATGCATTAAGACAA
*
87871479 TTTAATCATGC
1 TTAAATCATGC
87871490 TAATAAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (21 bp):
TTAAATCATGCATTAAGACAA
Found at i:87873450 original size:14 final size:14
Alignment explanation
Indices: 87873431--87873458 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
87873421 TTTTTCTCTT
87873431 TGGAAGGAAATAGA
1 TGGAAGGAAATAGA
87873445 TGGAAGGAAATAGA
1 TGGAAGGAAATAGA
87873459 AACAAAATAG
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:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (14 bp):
TGGAAGGAAATAGA
Found at i:87878155 original size:27 final size:27
Alignment explanation
Indices: 87878125--87878302 Score: 164
Period size: 27 Copynumber: 6.6 Consensus size: 27
87878115 ATATTGAGCC
* *
87878125 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
87878152 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
87878179 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
87878207 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
87878234 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
87878261 CGCACACTTAGTGCAACA-AAGTCGAA-T
1 CGCACACTTAGTGCTACATAA-TC-AACT
87878288 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87878303 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:87878264 original size:82 final size:81
Alignment explanation
Indices: 87878146--87878301 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
87878136 TGCTATATAA
* * * *
87878146 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTC-GAATCGCA
87878211 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
87878228 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACAAAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCA
87878292 CACTTAGTGC
65 CACTTAGTGC
87878302 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACAAAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87880714 original size:43 final size:43
Alignment explanation
Indices: 87880653--87880741 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
87880643 AGAAAAAAAG
87880653 ATAGATACATCTCTACATGCCTTTATTTGGCAAATCAATTGAC
1 ATAGATACATCTCTACATGCCTTTATTTGGCAAATCAATTGAC
87880696 ATAGATACATCTCTACATGCCTTTATTTGGCAAATCAATTGAC
1 ATAGATACATCTCTACATGCCTTTATTTGGCAAATCAATTGAC
87880739 ATA
1 ATA
87880742 TATAACAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (43 bp):
ATAGATACATCTCTACATGCCTTTATTTGGCAAATCAATTGAC
Found at i:87906544 original size:25 final size:25
Alignment explanation
Indices: 87906462--87906571 Score: 101
Period size: 22 Copynumber: 4.6 Consensus size: 25
87906452 TTATTATGCA
*
87906462 CTAATGAA-CAGAGAGCACTAAAGTG
1 CTAAT-AATCAGAGAGCACTAACGTG
* *
87906487 CT-AT-A-CAGATAGCAC-AGATGTG
1 CTAATAATCAGAGAGCACTA-ACGTG
87906509 CTAAT--T-AGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACTAACGTG
*
87906531 CTAATAATCAGAGAGCACTTACGTG
1 CTAATAATCAGAGAGCACTAACGTG
*
87906556 CTAATAATTAGAGAGC
1 CTAATAATCAGAGAGC
87906572 GCGCTAAGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
21 1 0.01
22 33 0.46
23 3 0.04
24 3 0.04
25 32 0.44
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTAACGTG
Found at i:87907221 original size:18 final size:18
Alignment explanation
Indices: 87907188--87907222 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87907178 TCTAATACTC
*
87907188 TTTCTTTTTCTATCTTTA
1 TTTCTTTTACTATCTTTA
*
87907206 TTTCTTTTACTTTCTTT
1 TTTCTTTTACTATCTTT
87907223 TTATTTACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTCTTTTACTATCTTTA
Found at i:87933981 original size:25 final size:25
Alignment explanation
Indices: 87933966--87934030 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
87933956 AGCACTGACA
87933966 TGCTAATAATTAGAGAGCAATAACG
1 TGCTAATAATTAGAGAGCAATAACG
87933991 TGCTAATAATTAGAGAGCAATAACG
1 TGCTAATAATTAGAGAGCAATAACG
*
87934016 TGCTAATAATCAGAG
1 TGCTAATAATTAGAG
87934031 CGCGCGCTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (25 bp):
TGCTAATAATTAGAGAGCAATAACG
Found at i:87939559 original size:47 final size:49
Alignment explanation
Indices: 87939488--87939660 Score: 178
Period size: 49 Copynumber: 3.6 Consensus size: 49
87939478 AGGGTATAAT
*
87939488 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * *
87939535 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-AAATCGAA
* * * *
87939584 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCACATATCCG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-A-AT-CGAA
* *
87939634 GCCGATGCCATATCCTAGACAT-GTCTT
1 GCCGATGCCATGTCCCAGACATGGTCTT
87939661 GCATTGGCAC
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 3 0.03
47 35 0.33
48 4 0.04
49 41 0.39
50 20 0.19
51 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
Found at i:87939613 original size:49 final size:47
Alignment explanation
Indices: 87939488--87939616 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
87939478 AGGGTATAAT
* *
87939488 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAA
* *
87939535 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AA
* *
87939584 GCCGACGCCATGTCCCAAACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
87939617 AGCTCTCACA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 3 0.04
47 35 0.49
48 3 0.04
49 31 0.43
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAA
Found at i:87944047 original size:20 final size:20
Alignment explanation
Indices: 87944022--87944062 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
87944012 CAAGAATACT
87944022 TTATCACCAACCTAAAATTC
1 TTATCACCAACCTAAAATTC
87944042 TTATCACCAACCTAAAATTC
1 TTATCACCAACCTAAAATTC
87944062 T
1 T
87944063 ATCTCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (20 bp):
TTATCACCAACCTAAAATTC
Found at i:87950084 original size:46 final size:46
Alignment explanation
Indices: 87949911--87950084 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
87949901 GGTTGAGCAT
* * * *
87949911 CCGAGCTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGTGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGC
* * * * *
87949956 CCGAACTCGTTGAGTTGAGTCCGAGGTC-GTGA--AATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--ACGC
* * *
87950001 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACCTATGGATGCAAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGC
* *
87950049 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87950085 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
43 5 0.05
45 25 0.25
46 36 0.36
47 26 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGC
Found at i:87951827 original size:21 final size:20
Alignment explanation
Indices: 87951803--87951849 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
87951793 ATTTATTGTT
87951803 TTATTAATTTTTCTATAACAA
1 TTATTAATTTTT-TATAACAA
* * *
87951824 TTATCAATTTTTTATTATAA
1 TTATTAATTTTTTATAACAA
87951844 TTATTA
1 TTATTA
87951850 TTATGGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATTAATTTTTTATAACAA
Found at i:87951872 original size:24 final size:25
Alignment explanation
Indices: 87951831--87951877 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
87951821 CAATTATCAA
*
87951831 TTTTTTATTATAATTATTATTATGG
1 TTTTTTATTATAAATATTATTATGG
87951856 TTTTTTATT-TAAATATTATTAT
1 TTTTTTATTATAAATATTATTAT
87951878 TAATGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (25 bp):
TTTTTTATTATAAATATTATTATGG
Found at i:87952167 original size:3 final size:3
Alignment explanation
Indices: 87952153--87952217 Score: 59
Period size: 3 Copynumber: 23.0 Consensus size: 3
87952143 AAATAGATAT
* * *
87952153 TTA TTA TAA TTA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA -AA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
87952194 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
87952218 AAATAAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
2 8 0.16
3 41 0.82
4 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:87952302 original size:21 final size:21
Alignment explanation
Indices: 87952258--87952298 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
87952248 TGATTAATAG
*
87952258 TACATGTGTAATATATATAAA
1 TACATGTGTAATAAATATAAA
*
87952279 TACATTTGTAATAAA-ATAAA
1 TACATGTGTAATAAATATAAA
87952299 ATACTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
TACATGTGTAATAAATATAAA
Found at i:87953291 original size:70 final size:76
Alignment explanation
Indices: 87953204--87953379 Score: 179
Period size: 70 Copynumber: 2.4 Consensus size: 76
87953194 ATGTGAACAA
* * *
87953204 ATTGAAAATTAA-AAGTGATTTGAATT-AAGT-AATTAAATT-AT-G-AATTATGTGAATATTTG
1 ATTGAAAACTAATGAGTGATTTGAATTGAA-TAAATTAAATTAATAGAAAATATGTGAATATTTG
87953263 AAA-GTATATTG
65 AAATGTATATTG
* * *
87953274 ATTGGAAACTAA-GAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTAT
1 ATTGAAAACTAATGAGTGATTTGAATTGAAT-AAATTAAATT-AAT--AGAAAATATGTGAATAT
87953338 TTGAAATGTATATTG
62 TTGAAATGTATATTG
* *
87953353 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGAAAACTAATGAGTGATTTGAATT
87953380 TGATTGGAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
70 24 0.28
71 2 0.02
72 8 0.09
74 2 0.02
77 1 0.01
78 18 0.21
79 18 0.21
80 13 0.15
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.38
Consensus pattern (76 bp):
ATTGAAAACTAATGAGTGATTTGAATTGAATAAATTAAATTAATAGAAAATATGTGAATATTTGA
AATGTATATTG
Found at i:87953414 original size:86 final size:78
Alignment explanation
Indices: 87953249--87953399 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 78
87953239 AATTATGAAT
* *
87953249 TATGTGAATATTTGAAAGTATATTGATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAAT
1 TATGTGAATATTTGAAAGTATATTGATTGAAAACTAAGAGTGATTTGAATTGAATCAAAATGAAT
*
87953314 TGAATGAAGAAAA
66 TAAATGAAGAAAA
* * * * *
87953327 TATGTGAGTATTTGAAATGTATATTGATTGAAAAGTAATTAGTGATTTGAATTTGATTGGAAAAT
1 TATGTGAATATTTGAAA-GTATATTGATTGAAAACTAA-GAGTGATTTGAA-TTGAAT-CAAAAT
87953392 GAATTAAA
62 GAATTAAA
87953400 AATATGAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 16 0.26
79 18 0.30
80 11 0.18
81 5 0.08
82 11 0.18
ACGTcount: A:0.42, C:0.01, G:0.21, T:0.36
Consensus pattern (78 bp):
TATGTGAATATTTGAAAGTATATTGATTGAAAACTAAGAGTGATTTGAATTGAATCAAAATGAAT
TAAATGAAGAAAA
Found at i:87953608 original size:17 final size:17
Alignment explanation
Indices: 87953557--87953632 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 17
87953547 AGAAAGTGGA
87953557 AAAGTGAATTTGAATTG
1 AAAGTGAATTTGAATTG
87953574 -AA-TG-A---GAATTG
1 AAAGTGAATTTGAATTG
**
87953585 ATTGTGAATTTGAATTG
1 AAAGTGAATTTGAATTG
*
87953602 AAAGTGAAATTGACATTG
1 AAAGTGAATTTGA-ATTG
87953620 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
87953633 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
11 6 0.13
13 2 0.04
14 2 0.04
15 2 0.04
16 3 0.07
17 21 0.46
18 10 0.22
ACGTcount: A:0.41, C:0.01, G:0.24, T:0.34
Consensus pattern (17 bp):
AAAGTGAATTTGAATTG
Found at i:87953619 original size:18 final size:17
Alignment explanation
Indices: 87953588--87953626 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
87953578 AGAATTGATT
*
87953588 GTGAATTTGAATTGAAA
1 GTGAAATTGAATTGAAA
87953605 GTGAAATTGACATTGAAA
1 GTGAAATTGA-ATTGAAA
87953623 GTGA
1 GTGA
87953627 TTTGAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.31
Consensus pattern (17 bp):
GTGAAATTGAATTGAAA
Found at i:87953639 original size:18 final size:18
Alignment explanation
Indices: 87953588--87953639 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
87953578 AGAATTGATT
87953588 GTGAATTTG-AATTGAAA
1 GTGAATTTGAAATTGAAA
* *
87953605 GTGAAATTGACATTGAAA
1 GTGAATTTGAAATTGAAA
87953623 GTG-ATTTGAAATGTGAA
1 GTGAATTTGAAAT-TGAA
87953640 TTTGGAGACC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.33
Consensus pattern (18 bp):
GTGAATTTGAAATTGAAA
Found at i:87954629 original size:64 final size:64
Alignment explanation
Indices: 87954560--87954690 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
87954550 GATTTAATGT
*
87954560 GTATATATATTGTTTTTACCATAAGTATTTGAATTATAGTAATACTACCGGGTGTATACTTAGC
1 GTATATATATTGTTTTTACCATAAGTATTTGAATTATAGTAATACTACCGGGTGTATACTCAGC
87954624 GTATATATATTGTTTTTACCATAAGTATTTGAATTATAGTAATACTACCGGGTGTATACTCAGC
1 GTATATATATTGTTTTTACCATAAGTATTTGAATTATAGTAATACTACCGGGTGTATACTCAGC
87954688 GTA
1 GTA
87954691 CGGTTTGTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.41
Consensus pattern (64 bp):
GTATATATATTGTTTTTACCATAAGTATTTGAATTATAGTAATACTACCGGGTGTATACTCAGC
Found at i:87958700 original size:39 final size:39
Alignment explanation
Indices: 87958642--87958840 Score: 292
Period size: 39 Copynumber: 5.1 Consensus size: 39
87958632 ATTCAAGACA
* *
87958642 CTGGAAATGTATCCAGGCTAAAGTCCTGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
*
87958681 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGG-TTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTT-GTG
* *
87958720 CTGGAAATGTATCCGGGCTAAAGTCCCGCATGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
* *
87958759 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
* * *
87958798 TTGGAAATGTATCCGGGCTAAAGTTCCGCAGGTTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
87958837 CTGG
1 CTGG
87958841 TAATATAATT
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 3 0.02
39 139 0.97
40 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
Found at i:87966595 original size:25 final size:25
Alignment explanation
Indices: 87966543--87966611 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
87966533 CACTCTCTCA
*
87966543 AGCCATATAACAGGATGCTCATGTG
1 AGCCATATAACAGGAAGCTCATGTG
* *
87966568 AGCCATGTAACAGGAAGCTTAT-TCG
1 AGCCATATAACAGGAAGCTCATGT-G
*
87966593 AG-C-TATAACAGGAAACTCA
1 AGCCATATAACAGGAAGCTCA
87966612 AAAGAGTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 13 0.35
24 2 0.05
25 22 0.59
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATGTG
Found at i:87968254 original size:24 final size:26
Alignment explanation
Indices: 87968194--87968254 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 26
87968184 CATTTTGTTA
*
87968194 GCCTTTGTAG--TGTATTCTGATTTG
1 GCCTTTGTAGCATGTATTCTGATTGG
* *
87968218 GCCTTTATGGCATGT-TT-TGATTGG
1 GCCTTTGTAGCATGTATTCTGATTGG
87968242 GCCTTTGTAGCAT
1 GCCTTTGTAGCAT
87968255 TTTGTTAGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 25 0.83
25 2 0.07
26 3 0.10
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (26 bp):
GCCTTTGTAGCATGTATTCTGATTGG
Found at i:87981407 original size:19 final size:19
Alignment explanation
Indices: 87981380--87981438 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
87981370 TTTAATGAGC
87981380 TTCAATTAGCCTTCGGGCT
1 TTCAATTAGCCTTCGGGCT
*
87981399 TTCATTTAGCACTT-GTGTGC-
1 TTCAATTAGC-CTTCG-G-GCT
*
87981419 TTCAGTTAGCCTTCGGGCT
1 TTCAATTAGCCTTCGGGCT
87981438 T
1 T
87981439 CTGTTTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
18 2 0.06
19 15 0.45
20 14 0.42
21 2 0.06
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.41
Consensus pattern (19 bp):
TTCAATTAGCCTTCGGGCT
Found at i:87981517 original size:39 final size:39
Alignment explanation
Indices: 87981378--87981517 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
87981368 GCTTTAATGA
* *
87981378 GCTTCAATTAGCCTTCGGGCTTTCATTTAGCACTTGTGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
87981417 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAACACTTGTGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
87981456 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
87981495 GCTTCAACTAGACTTTGGGCTTC
1 GCTTCAATTAGCCTTCGGGCTTC
87981518 AGATCACGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:87988326 original size:21 final size:20
Alignment explanation
Indices: 87988301--87988404 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 20
87988291 TAGCCTTGGG
87988301 GCTTCCATTTAGCACTTGTGT
1 GCTTCCATTTAGCACTT-TGT
* * *
87988322 GCTT-CAGTTAGC-CTTCGA
1 GCTTCCATTTAGCACTTTGT
* *
87988340 GCTTCCGTTTAACACTTGTGT
1 GCTTCCATTTAGCACTT-TGT
* *
87988361 GCTT-CAGTTAGC-CTTTGG
1 GCTTCCATTTAGCACTTTGT
*
87988379 GCTTCCGTTTAGCACTTATGT
1 GCTTCCATTTAGCACTT-TGT
87988400 GCTTC
1 GCTTC
87988405 AGCTAGACTT
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
18 11 0.18
19 17 0.27
20 18 0.29
21 16 0.26
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (20 bp):
GCTTCCATTTAGCACTTTGT
Found at i:87988326 original size:39 final size:39
Alignment explanation
Indices: 87988283--87988422 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
87988273 GCTCTGATGA
* *
87988283 GCTTCAGTTAGCCTTGGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
87988322 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
87988361 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
87988400 GCTTCAGCTAGACTTCAGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
87988423 AGATCACGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:87990162 original size:37 final size:37
Alignment explanation
Indices: 87990112--87990190 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
87990102 TTATTACGAA
* ** *
87990112 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
87990149 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
87990186 GTCTT
1 GTCTT
87990191 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:87990835 original size:47 final size:47
Alignment explanation
Indices: 87990311--87990832 Score: 783
Period size: 47 Copynumber: 11.0 Consensus size: 47
87990301 CTTCGGGACT
* * * * * *
87990311 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * * *
87990358 TGTCACATATATATACACTTCCACATTCATCACATCGACCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
87990407 TATCACATATATACACTTTCACATTCATCACATCGGACATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
87990454 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
87990503 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
87990552 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
87990599 TATCACCTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
87990646 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
87990693 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
87990740 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
87990787 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
87990833 TTACTATCAT
Statistics
Matches: 444, Mismatches: 27, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
47 314 0.71
49 130 0.29
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:87994345 original size:40 final size:40
Alignment explanation
Indices: 87994275--87994589 Score: 515
Period size: 40 Copynumber: 7.9 Consensus size: 40
87994265 CGAATACACG
* * * * *
87994275 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
87994315 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
87994355 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
87994395 TCACTAGCACGAACGCTCTTC-GGACTTAGCCCGAATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
87994434 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
87994474 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
87994514 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
87994554 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
87994590 CATCATTCGA
Statistics
Matches: 255, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 35 0.14
40 220 0.86
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:87994572 original size:159 final size:161
Alignment explanation
Indices: 87994262--87994587 Score: 530
Period size: 159 Copynumber: 2.0 Consensus size: 161
87994252 AGGCACGAAG
* * *
87994262 GCCCGAATACACGTCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGA
1 GCCCGAATACAC-TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGA
*
87994327 ATGCTCTTCGGAACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
65 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
87994392 ATATCACTAGCACGAACGCTCTTC-GGACTTA
130 ACATCACTAGCACGAACGCTCTTCGGGACTTA
* * *
87994423 GCCCGAATACA-TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 GCCCGAATACACTCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAA
*
87994487 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
66 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* *
87994552 CATCACTAGCATGAATGCTCTTCGGGACTTA
131 CATCACTAGCACGAACGCTCTTCGGGACTTA
87994583 GCCCG
1 GCCCG
87994588 GACATCATTC
Statistics
Matches: 153, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
159 130 0.85
160 12 0.08
161 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (161 bp):
GCCCGAATACACTCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAA
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCACGAACGCTCTTCGGGACTTA
Found at i:87994945 original size:29 final size:29
Alignment explanation
Indices: 87994894--87994972 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
87994884 CTTAATAATC
* * *
87994894 AACCACGCACACTTAATGTCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
87994924 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
87994953 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
87994973 ATCTCACAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:87996917 original size:37 final size:37
Alignment explanation
Indices: 87996867--87996945 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
87996857 TTATTACGAA
* ** *
87996867 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
87996904 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
87996941 GTCTT
1 GTCTT
87996946 TAGAGCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:87997590 original size:47 final size:47
Alignment explanation
Indices: 87997066--87997587 Score: 801
Period size: 47 Copynumber: 11.0 Consensus size: 47
87997056 CTTCGGGACT
* * * * * *
87997066 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
87997113 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
87997162 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
87997209 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
87997258 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
87997307 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
87997354 TATCACCTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
87997401 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
87997448 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
87997495 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
87997542 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
87997588 TTACTATCAT
Statistics
Matches: 448, Mismatches: 23, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
47 316 0.71
49 132 0.29
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:88001228 original size:25 final size:25
Alignment explanation
Indices: 88001189--88001237 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
88001179 TACAGTCTAT
*
88001189 CTATAGTAGTCTCAGCATATACTAC
1 CTATAGCAGTCTCAGCATATACTAC
* *
88001214 CTATAGCAGTTTCAGGATATACTA
1 CTATAGCAGTCTCAGCATATACTA
88001238 TCAAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (25 bp):
CTATAGCAGTCTCAGCATATACTAC
Found at i:88002012 original size:20 final size:19
Alignment explanation
Indices: 88001984--88002023 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
88001974 AAAACAATCA
*
88001984 TTTATTAAAAATCATCTCAT
1 TTTACTAAAAATCAT-TCAT
*
88002004 TTTACTAAATATCATTCAT
1 TTTACTAAAAATCATTCAT
88002023 T
1 T
88002024 CACATTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTACTAAAAATCATTCAT
Found at i:88003390 original size:23 final size:23
Alignment explanation
Indices: 88003360--88003505 Score: 138
Period size: 23 Copynumber: 6.4 Consensus size: 23
88003350 AGCTGTGGAT
88003360 AGTAAGCTCTAATGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* *
88003383 GGTAAGCTC--ATCGAGCTGAATC
1 AGTAAGCTCTAAT-GAGCTGAAAC
*
88003405 AGTAAGCTCCAATGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
*
88003428 AGTAAGCTCT--TGCAAGCTGAATC
1 AGTAAGCTCTAATG--AGCTGAAAC
* * *
88003451 GGTAAGCTCCAATGAGCTGAAAA
1 AGTAAGCTCTAATGAGCTGAAAC
* * *
88003474 AGTAAGCTCTTACGAGCTGAATC
1 AGTAAGCTCTAATGAGCTGAAAC
*
88003497 GGTAAGCTC
1 AGTAAGCTC
88003506 ATACGAGTTG
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
21 4 0.04
22 17 0.17
23 74 0.75
24 2 0.02
25 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:88003463 original size:46 final size:45
Alignment explanation
Indices: 88003361--88003505 Score: 218
Period size: 46 Copynumber: 3.2 Consensus size: 45
88003351 GCTGTGGATA
* * * *
88003361 GTAAGCTCTAATGAGCTGAAACGGTAAGCTCATCGAGCTGAATCA
1 GTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTCGAGCTGAATCG
*
88003406 GTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTGCAAGCTGAATCG
1 GTAAGCTCCAATGAGCTGAAACAGTAAGCTCTT-CGAGCTGAATCG
*
88003452 GTAAGCTCCAATGAGCTGAAAAAGTAAGCTCTTACGAGCTGAATCG
1 GTAAGCTCCAATGAGCTGAAACAGTAAGCTCTT-CGAGCTGAATCG
88003498 GTAAGCTC
1 GTAAGCTC
88003506 ATACGAGTTG
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 30 0.33
46 61 0.67
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (45 bp):
GTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTCGAGCTGAATCG
Found at i:88003482 original size:69 final size:68
Alignment explanation
Indices: 88003374--88003505 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 68
88003364 AGCTCTAATG
** *
88003374 AGCTGAAACGGTAAGCTCATCGAGCTGAATCAGTAAGCTCCAATGAGCTGAAACAGTAAGCTCTT
1 AGCTGAAACGGTAAGCTCATCGAGCTGAAAAAGTAAGCTCCAACGAGCTGAAACAGTAAGCTCTT
88003439 GCA
66 GCA
* ** * *
88003442 AGCTGAATCGGTAAGCTCCAAT-GAGCTGAAAAAGTAAGCTCTTACGAGCTGAATCGGTAAGCTC
1 AGCTGAAACGGTAAGCT-C-ATCGAGCTGAAAAAGTAAGCTCCAACGAGCTGAAACAGTAAGCTC
88003506 ATACGAGTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
68 16 0.30
69 36 0.67
70 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (68 bp):
AGCTGAAACGGTAAGCTCATCGAGCTGAAAAAGTAAGCTCCAACGAGCTGAAACAGTAAGCTCTT
GCA
Found at i:88005707 original size:18 final size:18
Alignment explanation
Indices: 88005684--88005722 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88005674 ATGTGGCTTA
88005684 CCCGTGTAAGCCCACAC-G
1 CCCGTGT-AGCCCACACTG
*
88005702 CCCGTGTGGCCCACACTG
1 CCCGTGTAGCCCACACTG
88005720 CCC
1 CCC
88005723 AAATCGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.15, C:0.49, G:0.23, T:0.13
Consensus pattern (18 bp):
CCCGTGTAGCCCACACTG
Found at i:88018835 original size:25 final size:24
Alignment explanation
Indices: 88018798--88018846 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
88018788 TGTTTTAAAC
**
88018798 TGAAACTGTTATAGATAGTATAGTT
1 TGAAACTACTATAGATAGTA-AGTT
*
88018823 TGAAACTACTATAGGTAGTAAGTT
1 TGAAACTACTATAGATAGTAAGTT
88018847 GTACTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (24 bp):
TGAAACTACTATAGATAGTAAGTT
Found at i:88023801 original size:34 final size:34
Alignment explanation
Indices: 88023758--88023825 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
88023748 GCATTTTTGA
* *
88023758 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
88023791 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
88023826 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:88025581 original size:13 final size:13
Alignment explanation
Indices: 88025565--88025604 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
88025555 TTTAAACCAA
88025565 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
88025578 ACTTTTCCACATC
1 ACTTTTCAAAAGC
88025591 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
88025604 A
1 A
88025605 TTGCCAAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:88028330 original size:17 final size:18
Alignment explanation
Indices: 88028300--88028341 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
88028290 AGTTAATCTA
*
88028300 TCAAATTAACTAAT-TTTC
1 TCAAA-TAAATAATCTTTC
88028318 TCAAATAAATAATCTTTC
1 TCAAATAAATAATCTTTC
88028336 -CAAATA
1 TCAAATA
88028342 TTCTAGGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATCTTTC
Found at i:88031532 original size:3 final size:3
Alignment explanation
Indices: 88031526--88031568 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
88031516 CTTCCTTCTA
*
88031526 TTC TTC TCTG TTC TTC TTC TTC TTC TTC -TC TTTC TTC TTC TTC
1 TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC
88031569 AACTTGCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.83
4 4 0.11
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:88032404 original size:14 final size:16
Alignment explanation
Indices: 88032374--88032403 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88032364 TTTTCATTTT
88032374 TATATATTTTTAAAAA
1 TATATATTTTTAAAAA
88032390 TATA-ATTTTTAAAA
1 TATATATTTTTAAAA
88032404 TTTTATGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATATTTTTAAAAA
Found at i:88032440 original size:32 final size:33
Alignment explanation
Indices: 88032363--88032440 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 33
88032353 ACCATTTTTA
* *
88032363 TTTTTCATTTTTATATATTTTTAAAAATATAAT
1 TTTTTAATTTTTATATATGTTTAAAAATATAAT
* * *
88032396 TTTTAAAATTTTATGT-TGTTT-AAAATATGAAT
1 TTTTTAATTTTTATATATGTTTAAAAATAT-AAT
*
88032428 TTTTTTATTTTTA
1 TTTTTAATTTTTA
88032441 AAAAAATACT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
31 7 0.19
32 17 0.47
33 12 0.33
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (33 bp):
TTTTTAATTTTTATATATGTTTAAAAATATAAT
Found at i:88033121 original size:18 final size:18
Alignment explanation
Indices: 88033081--88033124 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
88033071 AGTAGTGCTT
**
88033081 AAAAAAACACTTCTAGCT
1 AAAAAAACACTTCTAGAA
* *
88033099 CAAAAAACACTTTTAGAA
1 AAAAAAACACTTCTAGAA
88033117 AAAAAAAC
1 AAAAAAAC
88033125 TGTACTAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.18, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAAAAACACTTCTAGAA
Found at i:88033703 original size:26 final size:29
Alignment explanation
Indices: 88033641--88033704 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 29
88033631 GTTAAAATTT
88033641 TAAATTTTAAATTAAACTTTTCAAGAGTAC
1 TAAA-TTTAAATTAAACTTTTCAAGAGTAC
88033671 T--ATTTAAATT-AAC-TTTCAAG-GTA-
1 TAAATTTAAATTAAACTTTTCAAGAGTAC
88033694 TAAATATTAAA
1 TAAAT-TTAAA
88033705 ATATTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 9 0.29
26 8 0.26
27 8 0.26
28 1 0.03
30 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (29 bp):
TAAATTTAAATTAAACTTTTCAAGAGTAC
Found at i:88037603 original size:21 final size:21
Alignment explanation
Indices: 88037577--88037619 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
88037567 TTTTTGAGTA
88037577 AAAGGGACAAACTATAATCTG
1 AAAGGGACAAACTATAATCTG
88037598 AAAGGGACAAACTATAATCTG
1 AAAGGGACAAACTATAATCTG
88037619 A
1 A
88037620 CTCTTAATAC
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:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (21 bp):
AAAGGGACAAACTATAATCTG
Found at i:88040558 original size:21 final size:22
Alignment explanation
Indices: 88040517--88040559 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
88040507 TTCTTGAAAG
*
88040517 TGCCTATTGGGATCATGGACTT
1 TGCCTATTGGGATCATCGACTT
88040539 TGCC-ATTGGGATTC-TCGACTT
1 TGCCTATTGGGA-TCATCGACTT
88040560 CCTTGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
TGCCTATTGGGATCATCGACTT
Found at i:88042899 original size:42 final size:42
Alignment explanation
Indices: 88042841--88042947 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
88042831 AGTTATCATG
* * * * *
88042841 TAAGACCATATCTGGGATATGGCGTT-GATACGAGATTTCGTG
1 TAAGACCACATTTGGGATATGGC-TTCGAAACGAGAATTCGTA
* * * *
88042883 TAAGACTACGTTTGGGACATGGCTTCGAAATGAGAATTCGTA
1 TAAGACCACATTTGGGATATGGCTTCGAAACGAGAATTCGTA
*
88042925 TAAGACCATATTTGGGATATGGC
1 TAAGACCACATTTGGGATATGGC
88042948 ATATAAGTGA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
41 2 0.04
42 49 0.96
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (42 bp):
TAAGACCACATTTGGGATATGGCTTCGAAACGAGAATTCGTA
Found at i:88044787 original size:43 final size:43
Alignment explanation
Indices: 88044726--88044812 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
88044716 TTAATTGTTA
* * * *
88044726 AAAATTAAATGATTGTATGTAAATAGGAATCTTGAAAGTTGTG
1 AAAATTAAATAATTGTATGCAAATAGAAATCTTGAAAATTGTG
* *
88044769 AAAATTAAATAATTGTATGCAAATATAAATTTTGAAAATTGTG
1 AAAATTAAATAATTGTATGCAAATAGAAATCTTGAAAATTGTG
88044812 A
1 A
88044813 TCAAATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (43 bp):
AAAATTAAATAATTGTATGCAAATAGAAATCTTGAAAATTGTG
Found at i:88047516 original size:21 final size:21
Alignment explanation
Indices: 88047492--88047531 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88047482 TAGATTTTAA
* *
88047492 TTATAATATATATTTATTATT
1 TTATAAAAGATATTTATTATT
88047513 TTATAAAAGATATTTATTA
1 TTATAAAAGATATTTATTA
88047532 ATTAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTATAAAAGATATTTATTATT
Found at i:88049612 original size:46 final size:46
Alignment explanation
Indices: 88049307--88049604 Score: 418
Period size: 46 Copynumber: 6.5 Consensus size: 46
88049297 ATGAAATATG
* **
88049307 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* * * *
88049353 TAAGACCATGGTTGAAAGATCCCATGGCAACATGATATGAAAT-ATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGA-A
* **
88049399 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
*
88049445 TAAGACCATGGTTGAAAGATACTATGGCAACCTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* * **
88049491 TAAGACCAGGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAA
* *
88049538 TAAGGCCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
88049584 TAAGACCATGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
88049605 TTATGGCATC
Statistics
Matches: 228, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
46 187 0.82
47 41 0.18
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
Found at i:88060700 original size:10 final size:10
Alignment explanation
Indices: 88060682--88060749 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
88060672 TAATATAGGG
88060682 AATAATATAT
1 AATAATATAT
*
88060692 AATATTATAT
1 AATAATATAT
*
88060702 GATAAGTA-AT
1 AATAA-TATAT
88060712 AA-AATATAT
1 AATAATATAT
*
88060721 AAATAAAATAT
1 -AATAATATAT
88060732 AATGAA-ATAT
1 AAT-AATATAT
88060742 AAATAATA
1 -AATAATA
88060750 CAATAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
8 2 0.04
9 4 0.09
10 26 0.57
11 14 0.30
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (10 bp):
AATAATATAT
Found at i:88060951 original size:12 final size:13
Alignment explanation
Indices: 88060902--88060954 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 13
88060892 ATAATAACAT
88060902 ATAATATATAATA
1 ATAATATATAATA
*
88060915 A-AATTTATAAATA
1 ATAATATAT-AATA
*
88060928 A-AATGTATAATA
1 ATAATATATAATA
88060940 ATAATATA-AATA
1 ATAATATATAATA
88060952 ATA
1 ATA
88060955 TAATGGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 18 0.51
13 17 0.49
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
ATAATATATAATA
Found at i:88060977 original size:27 final size:27
Alignment explanation
Indices: 88060924--88060983 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
88060914 AAAATTTATA
* * *
88060924 AATAAAATGTATAATAATAATATAAAT
1 AATATAATGGATAATAATAATAAAAAT
88060951 AATATAATGGATAAT-ATAAATAAAAAT
1 AATATAATGGATAATAAT-AATAAAAAT
*
88060978 GATATA
1 AATATA
88060984 TACTATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.32
Consensus pattern (27 bp):
AATATAATGGATAATAATAATAAAAAT
Found at i:88063426 original size:27 final size:27
Alignment explanation
Indices: 88063396--88063573 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
88063386 ATATTGAGCC
* *
88063396 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
88063423 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
88063450 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
88063478 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
88063505 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
88063532 CGCACAATTAGTGCAACATAATCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
88063559 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88063574 GTACAATTTA
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 100 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:88063535 original size:82 final size:81
Alignment explanation
Indices: 88063417--88063572 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
88063407 TGCTATATAA
* * * * *
88063417 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATTAGTGCAACATAATC-GAATCGCA
88063482 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
88063499 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACAATTAGTGCAACATAATCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACAATTAGTGCAACATAATCGAATCGCA
88063563 CACTTAGTGC
65 CACTTAGTGC
88063573 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 19 0.30
82 45 0.70
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATTAGTGCAACATAATCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88065888 original size:44 final size:44
Alignment explanation
Indices: 88065742--88065925 Score: 171
Period size: 44 Copynumber: 4.3 Consensus size: 44
88065732 ATGCTGATAT
* * * ** *
88065742 TTCGATCTGCTCTCTGTCGAACACAGAGACACCAAATTTGCT-TC
1 TTCGATCTGCTCTATGAC-AATACAGAGATGCCAAATCTGCTATC
* * * ** *
88065786 TTCGCTTTGTTCCCTGATAATACAGAGATGCCAAA--T-C-ATC
1 TTCGATCTGCTCTATGACAATACAGAGATGCCAAATCTGCTATC
* *
88065826 TTCGATCTGCTCTCTGACAATACAGAGATACCAAATCTGCTATC
1 TTCGATCTGCTCTATGACAATACAGAGATGCCAAATCTGCTATC
* *
88065870 TTCGATCTTCTCTATGACAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTATGACAATACAGAGATGCCAAATCTGCTATC
*
88065914 TTCAATCTGCTC
1 TTCGATCTGCTC
88065926 CTTGTAAACA
Statistics
Matches: 114, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
40 32 0.28
41 1 0.01
42 1 0.01
43 15 0.13
44 65 0.57
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (44 bp):
TTCGATCTGCTCTATGACAATACAGAGATGCCAAATCTGCTATC
Found at i:88065892 original size:84 final size:84
Alignment explanation
Indices: 88065742--88065906 Score: 208
Period size: 84 Copynumber: 2.0 Consensus size: 84
88065732 ATGCTGATAT
* * * * * *
88065742 TTCGATCTGCTCTCTGTCGAACACAGAGACACCAAATTTGCTTCTTCGCTTTGTTCCCTGATAAT
1 TTCGATCTGCTCTCTGACGAACACAGAGACACCAAATCTGCTTCTTCGATTTGCTCCATGACAAT
*
88065807 ACAGAGATGCCAAATCATC
66 ACAGAGACGCCAAATCATC
* * *
88065826 TTCGATCTGCTCTCTGAC-AATACAGAGATACCAAATCTGCTATCTTCGATCTT-CTCTATGACA
1 TTCGATCTGCTCTCTGACGAACACAGAGACACCAAATCTGCT-TCTTCGAT-TTGCTCCATGACA
88065889 ATACAGAGACGCCAAATC
64 ATACAGAGACGCCAAATC
88065907 TGCTATCTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 20 0.29
84 47 0.68
85 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (84 bp):
TTCGATCTGCTCTCTGACGAACACAGAGACACCAAATCTGCTTCTTCGATTTGCTCCATGACAAT
ACAGAGACGCCAAATCATC
Found at i:88066082 original size:220 final size:221
Alignment explanation
Indices: 88065804--88066329 Score: 689
Period size: 220 Copynumber: 2.4 Consensus size: 221
88065794 GTTCCCTGAT
* * * *
88065804 AATACAGAGATGCCAAATC-A--TCTTCGATCTGCTCTCTGACAATACAGAGATACCAAATCTGC
1 AATATAGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCT-C
* * * * * *
88065866 TATCTTCGATCTTC-TCTA-TG-ACAATACAGAGACGCCAAATCTGCT-ATCTTCAATCTGCTCC
65 -ATCTTAGATCTACTTC-AGCGTA-AACACAGAAAAGCCAAATCTGCTAATCTTCAATCTGCTCC
* * * * * **
88065927 TTGTAAACACAAGGATGCTAAATCATTTTGGATCTGCTTCGATGCAAAAACATCTGAAGGTTAGA
127 TTATAAACACAAGGATACCAAATCATCTTGGATCTACTTCGATGCAAAAACATCCAAAGGTTAGA
88065992 TCTG-CATGTCTTCGATCTACTCTCCGTCG
192 TCTGCCATGTCTTCGATCTACTCTCCGTCG
* *
88066021 AATATAGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGAAAATACAGATATGCCAAA--TCA
1 AATATAGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCTCA
* *
88066084 TCTTAGATCTACTTCAGCGTAAACACATAAAAGCCAAATCTGCTACATCTTCGATCTGCTCCTTA
66 TCTTAGATCTACTTCAGCGTAAACACAGAAAAGCCAAATCTGCTA-ATCTTCAATCTGCTCCTTA
* *
88066149 TAAACGCAAGGATACCAAATCATCTTGGATCTACTTCGATGTAAAAACATCCAAAGGTTAGATCT
130 TAAACACAAGGATACCAAATCATCTTGGATCTACTTCGATGCAAAAACATCCAAAGGTTAGATCT
* *
88066214 GCCATGTCTTCGATCTGCTTTCCGTCG
195 GCCATGTCTTCGATCTACTCTCCGTCG
88066241 AATATAGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA--TCA
1 AATATAGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCTCA
*
88066304 TCTTGGATCTACTTCAGCGTAAACAC
66 TCTTAGATCTACTTCAGCGTAAACAC
88066330 CTGAAGGTCA
Statistics
Matches: 272, Mismatches: 28, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
216 12 0.04
217 41 0.15
218 3 0.01
219 75 0.28
220 141 0.52
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (221 bp):
AATATAGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCTCA
TCTTAGATCTACTTCAGCGTAAACACAGAAAAGCCAAATCTGCTAATCTTCAATCTGCTCCTTAT
AAACACAAGGATACCAAATCATCTTGGATCTACTTCGATGCAAAAACATCCAAAGGTTAGATCTG
CCATGTCTTCGATCTACTCTCCGTCG
Found at i:88066348 original size:220 final size:218
Alignment explanation
Indices: 88065899--88066329 Score: 702
Period size: 220 Copynumber: 2.0 Consensus size: 218
88065889 ATACAGAGAC
* * * * *
88065899 GCCAAATCTGCT-ATCTTCAATCTGCTCCTTGTAAACACAAGGATGCTAAATCATTTTGGATCTG
1 GCCAAATCTGCTAATCTTCAATCTGCTCCTTATAAACACAAGGATACCAAATCATCTTGGATCTA
**
88065963 CTTCGATGCAAAAACATCTGAAGGTTAGATCTGCATGTCTTCGATCTACTCTCCGTCGAATATAG
66 CTTCGATGCAAAAACATCCAAAGGTTAGATCTGCATGTCTTCGATCTACTCTCCGTCGAATATAG
*
88066028 AGATGCCAAATCTATTTCTTCGATTTGTTCTCTGAAAATACAGATATGCCAAATCATCTTAGATC
131 AGATGCCAAATCTATTTCTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATC
88066093 TACTTCAGCGTAAACACATAAAA
196 TACTTCAGCGTAAACACATAAAA
* *
88066116 GCCAAATCTGCTACATCTTCGATCTGCTCCTTATAAACGCAAGGATACCAAATCATCTTGGATCT
1 GCCAAATCTGCTA-ATCTTCAATCTGCTCCTTATAAACACAAGGATACCAAATCATCTTGGATCT
* * *
88066181 ACTTCGATGTAAAAACATCCAAAGGTTAGATCTGCCATGTCTTCGATCTGCTTTCCGTCGAATAT
65 ACTTCGATGCAAAAACATCCAAAGGTTAGATCTG-CATGTCTTCGATCTACTCTCCGTCGAATAT
* *
88066246 AGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGA
129 AGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGA
88066311 TCTACTTCAGCGTAAACAC
194 TCTACTTCAGCGTAAACAC
88066330 CTGAAGGTCA
Statistics
Matches: 196, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
217 12 0.06
219 75 0.38
220 109 0.56
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (218 bp):
GCCAAATCTGCTAATCTTCAATCTGCTCCTTATAAACACAAGGATACCAAATCATCTTGGATCTA
CTTCGATGCAAAAACATCCAAAGGTTAGATCTGCATGTCTTCGATCTACTCTCCGTCGAATATAG
AGATGCCAAATCTATTTCTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATC
TACTTCAGCGTAAACACATAAAA
Found at i:88070113 original size:10 final size:10
Alignment explanation
Indices: 88070098--88070165 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
88070088 TAATATAGGG
88070098 AATAATATAT
1 AATAATATAT
88070108 AATAATATAT
1 AATAATATAT
*
88070118 GATAAGTA-AT
1 AATAA-TATAT
*
88070128 -ACAATATAT
1 AATAATATAT
*
88070137 AAATAAAATAT
1 -AATAATATAT
88070148 AATGAA-ATAT
1 AAT-AATATAT
88070158 AAATAATA
1 -AATAATA
88070166 CAATAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
8 2 0.04
9 5 0.11
10 25 0.53
11 15 0.32
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (10 bp):
AATAATATAT
Found at i:88070368 original size:24 final size:23
Alignment explanation
Indices: 88070337--88070399 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
88070327 TAATAAAATT
*
88070337 TATAAATAAAATGTAT-AATAATAA
1 TATAAATAAAAT-AATGAATAAT-A
* *
88070361 TATAAATAATATAATGGATAATA
1 TATAAATAAAATAATGAATAATA
88070384 TATAAATAAAAATAAT
1 TATAAAT-AAAATAAT
88070400 ATATACTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAAATAAAATAATGAATAATA
Found at i:88070388 original size:47 final size:46
Alignment explanation
Indices: 88070303--88070394 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 46
88070293 ACAAGGAATA
*
88070303 GTATATATAATAACATATAATATATAATAAAATTTATAAATAAAAT
1 GTATATATAATAACATATAATATATAATAAAATATATAAATAAAAT
* *
88070349 GTATA-ATAATAATATA-AATAATATAATGGATAATATATAAATAAAA
1 GTATATATAATAACATATAAT-ATATAAT--AAAATATATAAATAAAA
88070395 ATAATATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
44 3 0.08
45 17 0.43
46 5 0.12
47 15 0.38
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (46 bp):
GTATATATAATAACATATAATATATAATAAAATATATAAATAAAAT
Found at i:88072732 original size:21 final size:21
Alignment explanation
Indices: 88072708--88072747 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88072698 TAGATTTTAA
* *
88072708 TTATAATATATATTTATTATT
1 TTATAAAAGATATTTATTATT
88072729 TTATAAAAGATATTTATTA
1 TTATAAAAGATATTTATTA
88072748 ATTAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTATAAAAGATATTTATTATT
Found at i:88072757 original size:25 final size:23
Alignment explanation
Indices: 88072704--88072757 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
88072694 TACTTAGATT
* *
88072704 TTAATTATAATATATATTTATTA
1 TTAATTATAAAAGATATTTATTA
88072727 TT--TTATAAAAGATATTTATTAA
1 TTAATTATAAAAGATATTTATT-A
88072749 TTAAATTAT
1 TT-AATTAT
88072758 TAAATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 16 0.64
22 3 0.12
23 2 0.08
25 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTAATTATAAAAGATATTTATTA
Found at i:88074786 original size:46 final size:46
Alignment explanation
Indices: 88074729--88074995 Score: 344
Period size: 46 Copynumber: 5.8 Consensus size: 46
88074719 AGTGTGCTCT
*
88074729 CTGAAATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
88074775 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
88074821 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
88074867 GTGACATGAAATGA-ATAAGACCAGGGTTGAAAGATACCATGGTAAC
1 CTGACATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
88074913 ATGACGGGAAA-ATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATATG--TAAGACCATGGTTGAAAGATACCATGGCAAC
*
88074960 GC-GACATGAAATGA-ATAAGACCATGGTTGAAAGATA
1 -CTGACATGAAAT-ATGTAAGACCATGGTTGAAAGATA
88074996 TTATGGCATT
Statistics
Matches: 196, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
44 1 0.01
46 158 0.81
47 36 0.18
49 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:88074895 original size:92 final size:92
Alignment explanation
Indices: 88074729--88074995 Score: 390
Period size: 92 Copynumber: 2.9 Consensus size: 92
88074719 AGTGTGCTCT
* * * **
88074729 CTGAAATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
88074794 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
*
88074821 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
* *
88074886 ACCAGGGTTGAAAGATACCATGGTAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
88074913 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGCGACATGAAATGAATAA
1 CTGAAATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAA
88074978 GACCATGGTTGAAAGATA
65 GACCATGGTTGAAAGATA
88074996 TTATGGCATT
Statistics
Matches: 158, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 88 0.56
93 70 0.44
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:88088261 original size:21 final size:21
Alignment explanation
Indices: 88088237--88088278 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
88088227 AAGACACATA
88088237 GCCGTGTGAAGAGGCCGTGTG
1 GCCGTGTGAAGAGGCCGTGTG
*
88088258 GCCGTGTGAAGAGGCTGTGTG
1 GCCGTGTGAAGAGGCCGTGTG
88088279 CCACACACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.17, G:0.48, T:0.21
Consensus pattern (21 bp):
GCCGTGTGAAGAGGCCGTGTG
Found at i:88089146 original size:45 final size:45
Alignment explanation
Indices: 88089097--88089209 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
88089087 GTGTCATAGT
88089097 GTCTTTTAGCTATGGTATTA-TACGTTTGAATCGTGATGCCATAAC
1 GTCTTTTAGCTATGGTATTACT-CGTTTGAATCGTGATGCCATAAC
* * * * * *
88089142 GTCTTTCAGCTATGGTCTTACTTGTTTGATTCGTGGTGCCATAGC
1 GTCTTTTAGCTATGGTATTACTCGTTTGAATCGTGATGCCATAAC
*
88089187 GTCTTTTAGCTATGGTCTTACTC
1 GTCTTTTAGCTATGGTATTACTC
88089210 ATTTTTTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (45 bp):
GTCTTTTAGCTATGGTATTACTCGTTTGAATCGTGATGCCATAAC
Found at i:88099499 original size:694 final size:694
Alignment explanation
Indices: 88098170--88099552 Score: 2403
Period size: 694 Copynumber: 2.0 Consensus size: 694
88098160 TGGCTCATCC
* *
88098170 ATCGAACTTCCTTTTCAACTTCAATCGGGACATTTATCAATATGTTATTATTAAGGATACATTTC
1 ATCGAACTTCCTTTTCAACCTCAATCGGGACATTTATCAATATGTTATTATTAAGGATACATTCC
** *
88098235 ATGGATTTTCATGCCATCATAAAATTCAATTATGATACATTCATAAACCATGCAATTAAGCATAC
66 ATGGATTTTCATGCCATCATAAAATGAAATTATCATACATTCATAAACCATGCAATTAAGCATAC
*
88098300 TATGAGTTTACTTTAAGTTATTCGAACTTACCTAGTACTCGTCTCGGTATCGTGTTTCGATTATT
131 TATGAGTTTACTTTAAGTTATTCGAACTTACCTAGTACTCATCTCGGTATCGTGTTTCGATTATT
* *
88098365 CTGAAACCTTTTGTTTCCCTCGATCGACCTCTAGAATTTGTTCCTCGGGGTCTATAACAATAAAA
196 CTGAAACCTTTCGTTTCCCTCGATCGACCTCGAGAATTTGTTCCTCGGGGTCTATAACAATAAAA
88098430 ATGAATCATTAACACCTCAAATTATACTATTCGAGTCTAAATTTCACCCCCGGTCCAAATGACAG
261 ATGAATCATTAACACCTCAAATTATACTATTCGAGTCTAAATTTCACCCCCGGTCCAAATGACAG
* *
88098495 TTTTACTCCTAACCTTTCACATTTTTACGATTTAGTCCCTAGGCTCGTATAATGAAATGCATGCA
326 TTTTACCCCTAACCTTTCACATTTTTACGATTTAGTCCCTAGGCTCGTATAATGAAATGCATACA
* * *
88098560 ATGTCTACATTACCCAAGCCTATCCGAATGTTATTTCCTCTTATGAAAGCCCACATTTTCCATTA
391 ATGTATACATTACCCAAGCCTATCCAAATGTTATTTACTCTTATGAAAGCCCACATTTTCCATTA
*
88098625 TTCCACATTTCTACCACATATTTTACACTTTTTTCAAAAAGGTCCTTTTAGGGGTTTTTCATGAA
456 TTCCACATTTCTACCACATATTTTACACCTTTTTCAAAAAGGTCCTTTTAGGGGTTTTTCATGAA
* *
88098690 AATCACCTAGAAAAATATGTTTAACTCACATTCAACTTTCATATTCCTCCATAAAACATCAAAGA
521 AATCACCTAGAAAAAGATGTTTAACTCACATCCAACTTTCATATTCCTCCATAAAACATCAAAGA
* * *
88098755 ATAAACATGTCACACATGTGTCATTTTGAAAACATGGACCCTAACTCAAAATATAGGTAGAAATG
586 ATAAACATGTCACACATGGGTCATTTTGAAAACATGAACCATAACTCAAAATATAGGTAGAAATG
88098820 GAGAGAGTAAGCTACCGAGATTTCAAAAATACGAAGAACATACT
651 GAGAGAGTAAGCTACCGAGATTTCAAAAATACGAAGAACATACT
*
88098864 ATCGAACTTCCTTTTCAACCTCAATCGGGACATTTATCGATATGTTATTATTAAGGATACATTCC
1 ATCGAACTTCCTTTTCAACCTCAATCGGGACATTTATCAATATGTTATTATTAAGGATACATTCC
*
88098929 ATGGATTTTCATGCCATCATCAAATGAAATTATCATACATTCATAAACCATGCAATTAAGCATAC
66 ATGGATTTTCATGCCATCATAAAATGAAATTATCATACATTCATAAACCATGCAATTAAGCATAC
* *
88098994 TATGAGTTTACTTTAAGTTATTCGAACTTACCTGGTACTCATCTTGGTATCGTGTTTCGATTATT
131 TATGAGTTTACTTTAAGTTATTCGAACTTACCTAGTACTCATCTCGGTATCGTGTTTCGATTATT
* *
88099059 CTGAAACCTTTCGTTTTCCTCGATCGACCTTCGA-AATTTGTTTCTCGGGGTCTATAACAATAAA
196 CTGAAACCTTTCGTTTCCCTCGATCGACC-TCGAGAATTTGTTCCTCGGGGTCTATAACAATAAA
** *
88099123 AATGAATCATTAACACCTCACGTTATACTATTCGAGTCTAAATTTCACCCCTGGTCCAAATGATC
260 AATGAATCATTAACACCTCAAATTATACTATTCGAGTCTAAATTTCACCCCCGGTCCAAATGA-C
* *
88099188 -GTTTTTCCCCTAACCTTTCACATTTTTACGATTTAGTCCCTAGGCTTGTATAATGAAATGCATA
324 AGTTTTACCCCTAACCTTTCACATTTTTACGATTTAGTCCCTAGGCTCGTATAATGAAATGCATA
* *
88099252 CAATTTATACATTACCCAAGCCTAGT-CAAATGTTATTTACTCTTATGAAAGCTCACATTTTCCA
389 CAATGTATACATTACCCAAGCCTA-TCCAAATGTTATTTACTCTTATGAAAGCCCACATTTTCCA
*
88099316 TTATTCTACATTTCTACCACATATTTTACACCTTTTTCAAAAAGGTCCTTTTAGGGGTTTTTCAT
453 TTATTCCACATTTCTACCACATATTTTACACCTTTTTCAAAAAGGTCCTTTTAGGGGTTTTTCAT
88099381 GAAAATCACCTAGAAAAAGATGTTTAACTCACATCCAACTTTCATATTCCTCCATAAAACATCAA
518 GAAAATCACCTAGAAAAAGATGTTTAACTCACATCCAACTTTCATATTCCTCCATAAAACATCAA
88099446 AGAATAAACATGTCACACATGGGTCATTTTGAAAACATGAACCATAACTCAAAATATAGGTAGAA
583 AGAATAAACATGTCACACATGGGTCATTTTGAAAACATGAACCATAACTCAAAATATAGGTAGAA
* *
88099511 ATGGAGAGAGTAAGCTACCGGGATTTCAAAAATATGAAGAAC
648 ATGGAGAGAGTAAGCTACCGAGATTTCAAAAATACGAAGAAC
88099553 GTTAAAAACG
Statistics
Matches: 651, Mismatches: 35, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
694 646 0.99
695 5 0.01
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (694 bp):
ATCGAACTTCCTTTTCAACCTCAATCGGGACATTTATCAATATGTTATTATTAAGGATACATTCC
ATGGATTTTCATGCCATCATAAAATGAAATTATCATACATTCATAAACCATGCAATTAAGCATAC
TATGAGTTTACTTTAAGTTATTCGAACTTACCTAGTACTCATCTCGGTATCGTGTTTCGATTATT
CTGAAACCTTTCGTTTCCCTCGATCGACCTCGAGAATTTGTTCCTCGGGGTCTATAACAATAAAA
ATGAATCATTAACACCTCAAATTATACTATTCGAGTCTAAATTTCACCCCCGGTCCAAATGACAG
TTTTACCCCTAACCTTTCACATTTTTACGATTTAGTCCCTAGGCTCGTATAATGAAATGCATACA
ATGTATACATTACCCAAGCCTATCCAAATGTTATTTACTCTTATGAAAGCCCACATTTTCCATTA
TTCCACATTTCTACCACATATTTTACACCTTTTTCAAAAAGGTCCTTTTAGGGGTTTTTCATGAA
AATCACCTAGAAAAAGATGTTTAACTCACATCCAACTTTCATATTCCTCCATAAAACATCAAAGA
ATAAACATGTCACACATGGGTCATTTTGAAAACATGAACCATAACTCAAAATATAGGTAGAAATG
GAGAGAGTAAGCTACCGAGATTTCAAAAATACGAAGAACATACT
Found at i:88101251 original size:13 final size:13
Alignment explanation
Indices: 88101235--88101263 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
88101225 CCCTCCATAT
88101235 ATTAACTCCTTTA
1 ATTAACTCCTTTA
88101248 ATTAACTCCTTTA
1 ATTAACTCCTTTA
88101261 ATT
1 ATT
88101264 TTTAGCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAACTCCTTTA
Found at i:88102200 original size:18 final size:18
Alignment explanation
Indices: 88102166--88102203 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88102156 TTTAATAAAG
*
88102166 TATTTAATATTATAATTT
1 TATTTAATAATATAATTT
88102184 TATTATAATAATA-AATTT
1 TATT-TAATAATATAATTT
88102202 TA
1 TA
88102204 AATAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAATAATATAATTT
Found at i:88113341 original size:72 final size:72
Alignment explanation
Indices: 88113217--88113371 Score: 265
Period size: 72 Copynumber: 2.2 Consensus size: 72
88113207 GACATTGGCA
* * *
88113217 TTGTAAGGGTATGAGAATGGGCATCGAATTTCATGGAAATATAAAGATCATAAATTTGGCACATG
1 TTGTAAGGGTATGAGAATGGGCATCGAATTTCATGGAAATACAAACACCATAAATTTGGCACATG
88113282 GCATGAG
66 GCATGAG
*
88113289 TTGTAAGGGTATGAGAATGGGCATCGAATTTCATGGAAATACATACACCATAAATTTGGCACATG
1 TTGTAAGGGTATGAGAATGGGCATCGAATTTCATGGAAATACAAACACCATAAATTTGGCACATG
88113354 GCATGAG
66 GCATGAG
*
88113361 TTGTAATGGTA
1 TTGTAAGGGTA
88113372 AATTACACGC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 78 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (72 bp):
TTGTAAGGGTATGAGAATGGGCATCGAATTTCATGGAAATACAAACACCATAAATTTGGCACATG
GCATGAG
Found at i:88118979 original size:15 final size:15
Alignment explanation
Indices: 88118959--88118988 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88118949 TTCACTATTA
*
88118959 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
88118974 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
88118989 ACATCTATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:88120769 original size:51 final size:44
Alignment explanation
Indices: 88120677--88120782 Score: 113
Period size: 46 Copynumber: 2.2 Consensus size: 44
88120667 AGTGATTATC
* * *
88120677 TTAATATTTAATTTAATTTAATGTTTATCTATTATTTTAATAAGTT
1 TTAATATTAAATTTAATCTAATGTTTATCTATTATTATAATAA--T
*
88120723 TTAATATTAAATTTAATCTAATTTTTATCTTGATAAATATTATAATAAT
1 TTAATATTAAATTTAATCTAATGTTTATC-T-AT---TATTATAATAAT
88120772 TTAATATTAAA
1 TTAATATTAAA
88120783 ATGATTAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
46 26 0.51
47 1 0.02
48 2 0.04
49 12 0.24
51 10 0.20
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (44 bp):
TTAATATTAAATTTAATCTAATGTTTATCTATTATTATAATAAT
Found at i:88122276 original size:32 final size:32
Alignment explanation
Indices: 88122234--88122296 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
88122224 TTCCCAAAGT
88122234 TGGCCAAATTTCAAAACAAAATGGAAGGAAGC
1 TGGCCAAATTTCAAAACAAAATGGAAGGAAGC
*
88122266 TGGCCGAATTTCAAAACAAAATGGAAGGAAG
1 TGGCCAAATTTCAAAACAAAATGGAAGGAAG
88122297 GGCGTGGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.16
Consensus pattern (32 bp):
TGGCCAAATTTCAAAACAAAATGGAAGGAAGC
Found at i:88124229 original size:31 final size:30
Alignment explanation
Indices: 88124175--88124244 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
88124165 ATTCGAAAGA
* *
88124175 TTTTATTTATGTCACTAAATTATTAGGAATT
1 TTTTATTTAAGTCACTAAATTATTAAG-ATT
* **
88124206 TTTTATTTAAGTCATTAGGTTATTAAGATT
1 TTTTATTTAAGTCACTAAATTATTAAGATT
88124236 TTTT-TTTAA
1 TTTTATTTAA
88124245 AATTCAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.15
30 7 0.21
31 22 0.65
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.56
Consensus pattern (30 bp):
TTTTATTTAAGTCACTAAATTATTAAGATT
Found at i:88125133 original size:19 final size:19
Alignment explanation
Indices: 88125109--88125170 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
88125099 AATCTTTAAG
88125109 GATATGCAATTTTAGATAT
1 GATATGCAATTTTAGATAT
*
88125128 GATATGCAATCTTAGATAT
1 GATATGCAATTTTAGATAT
*
88125147 GATATGCAATCTTGAAGATAT
1 GATATGCAAT-TT-TAGATAT
88125168 GAT
1 GAT
88125171 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 28 0.74
20 1 0.03
21 9 0.24
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (19 bp):
GATATGCAATTTTAGATAT
Found at i:88128209 original size:16 final size:14
Alignment explanation
Indices: 88128177--88128229 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
88128167 ATCGATACCT
88128177 TTTGCATTCATGCA
1 TTTGCATTCATGCA
88128191 TTTGCATCTCATAGCA
1 TTTGCAT-TCAT-GCA
88128207 TTT-CATTGCAT-CA
1 TTTGCATT-CATGCA
88128220 TTTGCATTCA
1 TTTGCATTCA
88128230 AAATTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (14 bp):
TTTGCATTCATGCA
Found at i:88130872 original size:18 final size:17
Alignment explanation
Indices: 88130849--88130887 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
88130839 AAAAAAAAAG
*
88130849 AAAAGAAAAGAAATAGTA
1 AAAAGAAAA-AAATAATA
88130867 AAAAGAAAAAAATAATA
1 AAAAGAAAAAAATAATA
88130884 AAAA
1 AAAA
88130888 TGGAGAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAAGAAAAAAATAATA
Found at i:88131838 original size:44 final size:44
Alignment explanation
Indices: 88131778--88132317 Score: 413
Period size: 44 Copynumber: 12.3 Consensus size: 44
88131768 CAAAGAAACA
*
88131778 AGATATGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
** * * * * **
88131822 AGATCTAACA-CTCCTGTGCTTACAGCGAAGCAAATCGAAGATTTC
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
88131867 AG--CATGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* ** * * * **
88131910 AGACCTAACA-CTCCTGTGATTACAGCGAAGCAGATCGAAGATTTC
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * *
88131955 -G-GCATGGCATCCCTGTGTTTATAAGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
88131998 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* ** * * * * **
88132042 AGATCTGACATTTCTGTGATTACAGCGAAGTAGATCGAAGATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
88132087 AG--CATGGCATCCCTATGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
88132130 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
** * * * ** **
88132174 AGATCTAACATTCCTATGCTTATAGCAAAGCAGATCGAAGATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
88132219 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * * **
88132262 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAAT
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
*
88132306 AAATCTGGCATC
1 AGATCTGGCATC
88132318 TCCATTTCGA
Statistics
Matches: 379, Mismatches: 91, Indels: 52
0.73 0.17 0.10
Matches are distributed among these distances:
42 3 0.01
43 53 0.14
44 263 0.69
45 60 0.16
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:88132011 original size:132 final size:132
Alignment explanation
Indices: 88131871--88132303 Score: 740
Period size: 132 Copynumber: 3.3 Consensus size: 132
88131861 GATTTCAGCA
* * *
88131871 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGACCTAACACTCCTGTGATTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGATTACAGC
* *
88131936 GAAGCAGATCGAAGATTTCGGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
88132001 TT
131 TT
* *
88132003 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTTCTGTGATTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGATTACAGC
* *
88132068 GAAGTAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
88132133 TT
131 TT
* * *
88132135 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTATGCTTATAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGATTACAGC
*
88132200 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
88132265 TT
131 TT
*
88132267 TGGCATCCCTGTATTTATAGGGAACAAATCGAAGATA
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATA
88132304 ATAAATCTGG
Statistics
Matches: 283, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 283 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACATTCCTGTGATTACAGC
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
TT
Found at i:88132229 original size:220 final size:218
Alignment explanation
Indices: 88131782--88132265 Score: 557
Period size: 220 Copynumber: 2.2 Consensus size: 218
88131772 GAAACAAGAT
* *
88131782 ATGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCTTACAG
1 ATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACTCCTGTGATTACAG
*
88131847 CGAAGCAAATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAG
66 CGAAGCAAATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGCAG
* ** ** * *
88131912 ACCTAACACTCCTGTGATTACAGCGAAGCAGATCGAAGATTTCGGCATGGCATCCCTGTGTTTAT
131 ACCTAACACTCCTGTGATTACAGCGAAGCAAATCGAAGATAGCGGCATAACATCCCTATGCTTAT
* *
88131977 AAGGAACAAGTTGAAGATAGCAG
196 AAGAAACAAGTCGAAGATAGCAG
* * *
88132000 ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTTCTGTGATTAC
1 A--TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACTCCTGTGATTAC
* * *
88132065 AGCGAAGTAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACA-AGTTGAAGATAG
64 AGCGAAGCAAATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAGA-TCGAAGATAG
** ** * * * * *
88132129 CAGATTTGGCA-TCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAG-ATCTAACATTCCTAT
128 CAGACCTAACACT-CCTGTGATTACAGCGAAGCAAATCGAAGATAGCGGCA--TAACATCCCTAT
**
88132191 GCTTAT-AGCAAAGC-AGATCGAAGATTTCAG
190 GCTTATAAG-AAA-CAAG-TCGAAGATAGCAG
* *
88132221 CATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
1 -ATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGAT
88132266 TTGGCATCCC
Statistics
Matches: 225, Mismatches: 31, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
218 2 0.01
219 17 0.08
220 194 0.86
221 11 0.05
222 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (218 bp):
ATGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTAACACTCCTGTGATTACAG
CGAAGCAAATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGCAG
ACCTAACACTCCTGTGATTACAGCGAAGCAAATCGAAGATAGCGGCATAACATCCCTATGCTTAT
AAGAAACAAGTCGAAGATAGCAG
Found at i:88132317 original size:88 final size:89
Alignment explanation
Indices: 88131782--88132302 Score: 462
Period size: 88 Copynumber: 5.9 Consensus size: 89
88131772 GAAACAAGAT
* *
88131782 ATGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAGATCTAACA-CTCCTGTGCTTAC
1 ATGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTAACATC-CCTGTGTTTAT
*
88131845 AGCGAAGCAAATCGAAGATTTCAGC
65 AGCGAAGCAAATCGAAGATTACAGC
* * *
88131870 ATGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAGACCTAACA-CTCCTGTGATTAC
1 ATGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTAACATC-CCTGTGTTTAT
* * *
88131933 AGCGAAGCAGATCGAAGATTTCGGC
65 AGCGAAGCAAATCGAAGATTACAGC
* * * **
88131958 ATGGCATCCCTGTGTTTATAAGGAACAAG-TTGAAGATAGCAGATTTGGCATCCCTGTGTTTATA
1 ATGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTAACATCCCTGTGTTTATA
*
88132022 GGGAA-CAAATCGAAGA-TAGCAG-
66 GCGAAGCAAATCGAAGATTA-CAGC
* ** * * * ** ** ** *
88132044 ATCTGACATTTCTGTGATTACAGCGAAGTAGATCGAAGATTTCAG--CATGGCATCCCTATGTTT
1 A--TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATC-TAACATCCCTGTGTTT
* * *
88132107 ATAGGGAA-CAAGTTGAAGA-TAGCAG-
63 ATAGCGAAGCAAATCGAAGATTA-CAGC
* * *
88132132 ATTTGGCATCCCTGTGTTTATAGGGAACAA-ATCGAAGATAGCAGATCTAACATTCCTATGCTTA
1 A--TGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTAACATCCCTGTGTTTA
* * *
88132196 TAGCAAAGCAGATCGAAGATTTCAGC
64 TAGCGAAGCAAATCGAAGATTACAGC
* * ** *
88132222 ATGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAGATTTGGCATCCCTGTATTTATA
1 ATGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTAACATCCCTGTGTTTATA
*
88132286 GGGAA-CAAATCGAAGAT
66 GCGAAGCAAATCGAAGAT
88132303 AATAAATCTG
Statistics
Matches: 356, Mismatches: 64, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
86 2 0.01
87 35 0.10
88 292 0.82
89 25 0.07
90 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (89 bp):
ATGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGCAGATCTAACATCCCTGTGTTTATA
GCGAAGCAAATCGAAGATTACAGC
Found at i:88132914 original size:19 final size:19
Alignment explanation
Indices: 88132890--88132951 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
88132880 AATCTTTAAG
88132890 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
88132909 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
88132928 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
88132949 GAT
1 GAT
88132952 CTTGTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
21 9 0.22
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:88137866 original size:16 final size:16
Alignment explanation
Indices: 88137845--88137880 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
88137835 TTTGGTTCGC
*
88137845 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
88137861 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
88137877 TGTA
1 TGTA
88137881 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (16 bp):
TGTATTGGAATAGAGG
Found at i:88137917 original size:45 final size:41
Alignment explanation
Indices: 88137861--88137970 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
88137851 GGATTAGAGG
*
88137861 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
88137903 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
88137946 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
88137971 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:88138118 original size:16 final size:16
Alignment explanation
Indices: 88138081--88138122 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
88138071 TTAATCATAT
*
88138081 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
88138097 TT-AAATATATTATAA
1 TTAAAATATATTATAA
88138112 TTAAAATATAT
1 TTAAAATATAT
88138123 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:88138129 original size:14 final size:15
Alignment explanation
Indices: 88138090--88138131 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
88138080 TTTAAACATA
*
88138090 ATTATTATTAAATAT
1 ATTATAATTAAATAT
88138105 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
88138119 A-TATAATTTAATA
1 ATTATAATTAAATA
88138132 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:88138179 original size:54 final size:54
Alignment explanation
Indices: 88138121--88138353 Score: 236
Period size: 54 Copynumber: 4.1 Consensus size: 54
88138111 ATTAAAATAT
88138121 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
* * * * * * *
88138175 ATAATATATGATACTATAAAATATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAAA
1 ATAAT-T-T-A-A-TA-AAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-T-ACTCAAA
*
88138238 TAT
53 T-C
88138241 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
* *
88138295 ATAATTTAATAAAATTCTTAATAATTAATATTTTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
88138349 ATAAT
1 ATAAT
88138354 ATATGATACT
Statistics
Matches: 145, Mismatches: 18, Indels: 32
0.74 0.09 0.16
Matches are distributed among these distances:
54 62 0.43
55 7 0.05
56 2 0.01
57 13 0.09
58 4 0.03
59 5 0.03
60 16 0.11
61 5 0.03
62 4 0.03
63 13 0.09
64 2 0.01
65 7 0.05
66 5 0.03
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
Found at i:88138249 original size:14 final size:15
Alignment explanation
Indices: 88138200--88138251 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
88138190 ATAAAATATA
88138200 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
88138215 TATTAAATATATTAT
1 AATTAAATATATTAT
88138230 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
88138243 AATTTAATA
1 AATTAAATA
88138252 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:88138297 original size:120 final size:120
Alignment explanation
Indices: 88138084--88138299 Score: 432
Period size: 120 Copynumber: 1.8 Consensus size: 120
88138074 ATCATATTTA
88138084 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
88138149 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
88138204 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
88138269 TATTCTTATATGAATTTACTCAAATCATAAT
66 TATTCTTATATGAATTTACTCAAATCATAAT
88138300 TTAATAAAAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:88149503 original size:30 final size:30
Alignment explanation
Indices: 88149469--88149529 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
88149459 TCCTTAACTC
88149469 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
88149499 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
88149529 A
1 A
88149530 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:88162458 original size:8 final size:8
Alignment explanation
Indices: 88162445--88162481 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
88162435 TTATGTTTAG
88162445 TATATTAT
1 TATATTAT
88162453 TATATTAT
1 TATATTAT
*
88162461 TATATTAA
1 TATATTAT
88162469 TATATTAT
1 TATATTAT
88162477 TATAT
1 TATAT
88162482 AATAAAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:88162582 original size:6 final size:6
Alignment explanation
Indices: 88162571--88162603 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
88162561 AACAGGGGAG
88162571 AAAGAA AAAGAA AAAGAA AAAGAA AAAGGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA-GAA AA
88162604 TTTGAGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:88164128 original size:45 final size:45
Alignment explanation
Indices: 88164064--88164212 Score: 246
Period size: 45 Copynumber: 3.3 Consensus size: 45
88164054 CTGTTACCGC
*
88164064 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
88164109 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
88164154 TACTTTTACCGTTACCGATTCGGCACTTTGTGTGTCGGATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
88164199 TACT-ATACTGTTAC
1 TACTGTTACTGTTAC
88164213 TGTTACTGTT
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 8 0.08
45 90 0.92
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:88164461 original size:17 final size:19
Alignment explanation
Indices: 88164414--88164462 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
88164404 AATGAATGAC
88164414 TGTTACTAAATAACTTAAT
1 TGTTACTAAATAACTTAAT
* * *
88164433 TGTTACTGAATATC-TGAT
1 TGTTACTAAATAACTTAAT
88164451 T-TTACTAAATAA
1 TGTTACTAAATAA
88164463 TTGACTGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 9 0.36
18 4 0.16
19 12 0.48
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (19 bp):
TGTTACTAAATAACTTAAT
Found at i:88164529 original size:36 final size:36
Alignment explanation
Indices: 88164489--88164559 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
88164479 AACCGATCAA
* ** *
88164489 TTGATCGATACTGAATAACTGGTTATTATTGAATAT
1 TTGATCGATACCGAATAACTGACTATTACTGAATAT
* *
88164525 TTGATTGTTACCGAATAACTGACTATTACTGAATA
1 TTGATCGATACCGAATAACTGACTATTACTGAATA
88164560 AATAATTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (36 bp):
TTGATCGATACCGAATAACTGACTATTACTGAATAT
Found at i:88164568 original size:36 final size:36
Alignment explanation
Indices: 88164501--88164569 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
88164491 GATCGATACT
** * ** *
88164501 GAATAACTGGTTATTATTGAATATTTGATTGTTACC
1 GAATAACTGACTATTACTGAATAAATAATTGTTACC
88164537 GAATAACTGACTATTACTGAATAAATAATTGTT
1 GAATAACTGACTATTACTGAATAAATAATTGTT
88164570 CTGAGAGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (36 bp):
GAATAACTGACTATTACTGAATAAATAATTGTTACC
Found at i:88165875 original size:22 final size:22
Alignment explanation
Indices: 88165849--88165908 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
88165839 ACGCATCAGT
* *
88165849 ATATGAGAGTCCTTTGTGGGAC
1 ATATGAGAGCCCTTTATGGGAC
* *
88165871 GTATGAGAGCCCTATATGGGAC
1 ATATGAGAGCCCTTTATGGGAC
*
88165893 ATATGAAAGCCCTTTA
1 ATATGAGAGCCCTTTA
88165909 AGAGTGTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (22 bp):
ATATGAGAGCCCTTTATGGGAC
Done.