Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 290 of 343
Found at i:95807543 original size:43 final size:43
Alignment explanation
Indices: 95807449--95807549 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 43
95807439 AACGGCCATG
*
95807449 ACGTGGTCTTACAT-GTAATCACATATCGATGCCACTGTTCCAA
1 ACGTGGTCTTAC-TCGTAATCACATATCGATGCCAATGTTCCAA
*
95807492 ACAG-GGTCTTACTCGTAATCACATATCGATGCCAATGTAT-TAA
1 AC-GTGGTCTTACTCGTAATCACATATCGATGCCAATGT-TCCAA
95807535 ACGTGGTCTTACTCG
1 ACGTGGTCTTACTCG
95807550 CACACATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
42 2 0.04
43 48 0.92
44 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
ACGTGGTCTTACTCGTAATCACATATCGATGCCAATGTTCCAA
Found at i:95807561 original size:43 final size:43
Alignment explanation
Indices: 95807465--95807568 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 43
95807455 TCTTACATGT
* *
95807465 AATCACATATCGATGCCACTGTTCCAAACAGGGTCTTACTCGT
1 AATCACATATCGATGCCAATGTTCCAAACAGGGTCTTACTCGC
*
95807508 AATCACATATCGATGCCAATGTAT-TAAAC-GTGGTCTTACTCGC
1 AATCACATATCGATGCCAATGT-TCCAAACAG-GGTCTTACTCGC
* *
95807551 ACA-CATATATCGAAGCCA
1 A-ATCACATATCGATGCCA
95807569 TGGTCTTACT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
42 1 0.02
43 50 0.94
44 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
AATCACATATCGATGCCAATGTTCCAAACAGGGTCTTACTCGC
Found at i:95808733 original size:14 final size:14
Alignment explanation
Indices: 95808716--95808742 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95808706 AAATCATGAA
95808716 AATTTCACACATAT
1 AATTTCACACATAT
95808730 AATTTCACACATA
1 AATTTCACACATA
95808743 ATAAAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:95816993 original size:14 final size:15
Alignment explanation
Indices: 95816961--95816996 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
95816951 AATTAAAATT
95816961 AAAACCCTCCGTTGA
1 AAAACCCTCCGTTGA
95816976 AAAACCCTCCGTTGA
1 AAAACCCTCCGTTGA
95816991 AAAACC
1 AAAACC
95816997 TCCTAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.33, G:0.11, T:0.17
Consensus pattern (15 bp):
AAAACCCTCCGTTGA
Found at i:95820785 original size:67 final size:64
Alignment explanation
Indices: 95820650--95820833 Score: 194
Period size: 64 Copynumber: 2.8 Consensus size: 64
95820640 ATATAGTTCG
* * * * * * *
95820650 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACTTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACA-TATATCCCGT
95820712 A
64 A
* * * *
95820713 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCG
95820778 TA
63 TA
*
95820780 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
95820834 CATAATATCT
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 29 0.29
66 22 0.22
67 29 0.29
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:95824120 original size:30 final size:30
Alignment explanation
Indices: 95824085--95824147 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
95824075 TTTTATTTTA
95824085 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
* * *
95824115 TTGTTAATTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
95824145 TTG
1 TTG
95824148 CTTGTTACGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.13, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:95827037 original size:18 final size:18
Alignment explanation
Indices: 95827014--95827048 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
95827004 TTAGTAGCTT
*
95827014 TTCCTTTTGTTTTTATTG
1 TTCCTTTTATTTTTATTG
95827032 TTCCTTTTATTTTTATT
1 TTCCTTTTATTTTTATT
95827049 TCTTTTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (18 bp):
TTCCTTTTATTTTTATTG
Found at i:95832825 original size:26 final size:26
Alignment explanation
Indices: 95832789--95832841 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
95832779 TTCTCAACCA
95832789 AACATGGCCATATCATAAAATTATTT
1 AACATGGCCATATCATAAAATTATTT
95832815 AACATGGCCATATCATAAAATTATTT
1 AACATGGCCATATCATAAAATTATTT
95832841 A
1 A
95832842 CACAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (26 bp):
AACATGGCCATATCATAAAATTATTT
Found at i:95833410 original size:46 final size:46
Alignment explanation
Indices: 95833343--95833514 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
95833333 AACCCGCCCC
*
95833343 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
95833389 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * * *
95833437 TCA-CGAACTCGAACTCAACTCAATGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
95833482 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
95833515 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:95833457 original size:93 final size:93
Alignment explanation
Indices: 95833348--95833518 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
95833338 GCCCCTAAGT
* * *
95833348 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
95833413 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
95833441 GAACTCGAACTCAACTCAATGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
95833506 CGAGTTCGGATGC
66 CGAGTTCGGATGC
95833519 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:95833972 original size:30 final size:30
Alignment explanation
Indices: 95833938--95833997 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
95833928 ATTTAATACG
95833938 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * *
95833968 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
95833998 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:95840405 original size:31 final size:31
Alignment explanation
Indices: 95840370--95840434 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
95840360 GTACCAACAA
95840370 ACTTGTTTTCCAATTATCAAAGATTTGAAAC
1 ACTTGTTTTCCAATTATCAAAGATTTGAAAC
95840401 ACTTGTTTTCCAATTATCAAAGATTTGAAAC
1 ACTTGTTTTCCAATTATCAAAGATTTGAAAC
95840432 ACT
1 ACT
95840435 CAATTAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (31 bp):
ACTTGTTTTCCAATTATCAAAGATTTGAAAC
Found at i:95840765 original size:15 final size:15
Alignment explanation
Indices: 95840741--95840770 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95840731 AATCACTGTT
95840741 GAAGAAAAAGAAAAA
1 GAAGAAAAAGAAAAA
*
95840756 GAAGATAAAGAAAAA
1 GAAGAAAAAGAAAAA
95840771 TTAGGGAAAA
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:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (15 bp):
GAAGAAAAAGAAAAA
Found at i:95840883 original size:19 final size:18
Alignment explanation
Indices: 95840859--95840942 Score: 75
Period size: 18 Copynumber: 4.6 Consensus size: 18
95840849 AATGAGCATA
*
95840859 TTAATTTTTAAAGTTTTAT
1 TTAATTTTT-AAGTTTTTT
95840878 TTAATTTTTAA-TTTATTT
1 TTAATTTTTAAGTTT-TTT
* *
95840896 TTATTTTTTGAATTTTTTT
1 TTAATTTTT-AAGTTTTTT
*
95840915 TTAA-TTTTATG-TTTTT
1 TTAATTTTTAAGTTTTTT
95840931 TTAATTTATTAA
1 TTAATTT-TTAA
95840943 AACTTTTTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
16 9 0.17
17 6 0.11
18 19 0.35
19 17 0.31
20 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
TTAATTTTTAAGTTTTTT
Found at i:95840902 original size:16 final size:15
Alignment explanation
Indices: 95840882--95840940 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
95840872 TTTTATTTAA
95840882 TTTTTAATTTATTTT
1 TTTTTAATTTATTTT
*
95840897 TATTTT--TTGAATTTT
1 T-TTTTAATT-TATTTT
*
95840912 TTTTTAATTTTATGTT
1 TTTTTAA-TTTATTTT
95840928 TTTTTAATTTATT
1 TTTTTAATTTATT
95840941 AAAACTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
14 6 0.17
15 12 0.34
16 15 0.43
17 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTAATTTATTTT
Found at i:95840917 original size:25 final size:27
Alignment explanation
Indices: 95840880--95840930 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
95840870 AGTTTTATTT
*
95840880 AATTTTTAATTTATTTTTAT-TTTTTG
1 AATTTTTAATTTAATTTTATGTTTTTG
*
95840906 AATTTTT-TTTTAATTTTATGTTTTT
1 AATTTTTAATTTAATTTTATGTTTTT
95840931 TTAATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (27 bp):
AATTTTTAATTTAATTTTATGTTTTTG
Found at i:95845615 original size:26 final size:26
Alignment explanation
Indices: 95845579--95845631 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
95845569 CTGTCGTAGT
95845579 AAGTCTGCATTTAAGTAGCAGCTGCA
1 AAGTCTGCATTTAAGTAGCAGCTGCA
95845605 AAGTCTGCATTTAAGTAGCAGCTGCA
1 AAGTCTGCATTTAAGTAGCAGCTGCA
95845631 A
1 A
95845632 CGCGATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (26 bp):
AAGTCTGCATTTAAGTAGCAGCTGCA
Found at i:95851835 original size:142 final size:142
Alignment explanation
Indices: 95851579--95851847 Score: 389
Period size: 142 Copynumber: 1.9 Consensus size: 142
95851569 ATAGACAAGA
** * * * *
95851579 GGAAAACTTGGGCATCTAAAGCAAAACTGATTTAAAAGGGAATAACAGTCTTTCACTCTCATCAC
1 GGAAAACCAGGGCATCTAAAACAAAACTCATTTAAAAGGGAACAACAGTCTATCACTCTCATCAC
** * *
95851644 CTACCATCTCCTTCGAGACTCGATTACGTTAGGAAACAGAAGATATATGAATGAAAATTGATACA
66 CTACCATCTCCCCCGAGACTCAATTACGTTAGGAAACAGAAGATATATGAATGAAAACTGATACA
95851709 AAACAAATATGT
131 AAACAAATATGT
*
95851721 GGAAAACCAGGGCATCTAAAACAAAAC-CATTTTAAAAGGGAACAACAGTCTATCATTCTCATCA
1 GGAAAACCAGGGCATCTAAAACAAAACTCA-TTTAAAAGGGAACAACAGTCTATCACTCTCATCA
* *
95851785 CCTACCATCTCCCCCGAGACTCAATTA-TTATATGAAACAGAAGATATATGAATGAAAACTGAT
65 CCTACCATCTCCCCCGAGACTCAATTACGT-TAGGAAACAGAAGATATATGAATGAAAACTGAT
95851848 TAAAAAAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
141 2 0.02
142 110 0.98
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (142 bp):
GGAAAACCAGGGCATCTAAAACAAAACTCATTTAAAAGGGAACAACAGTCTATCACTCTCATCAC
CTACCATCTCCCCCGAGACTCAATTACGTTAGGAAACAGAAGATATATGAATGAAAACTGATACA
AAACAAATATGT
Found at i:95857499 original size:24 final size:24
Alignment explanation
Indices: 95857472--95857523 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
95857462 TTAGTAAGTC
*
95857472 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
95857496 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
95857520 AAAT
1 AAAT
95857524 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:95859469 original size:24 final size:24
Alignment explanation
Indices: 95859442--95859493 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
95859432 TTAGTAAGTC
*
95859442 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
95859466 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
95859490 AAAT
1 AAAT
95859494 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:95863807 original size:10 final size:10
Alignment explanation
Indices: 95863773--95863820 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
95863763 AATTTAAGAT
*
95863773 TTATTTTTAA
1 TTATCTTTAA
*
95863783 TTATATTTAA
1 TTATCTTTAA
95863793 TTATCTTTAA
1 TTATCTTTAA
* *
95863803 TTATCTGTAT
1 TTATCTTTAA
95863813 TTATCTTT
1 TTATCTTT
95863821 TAGAATTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:95867564 original size:25 final size:26
Alignment explanation
Indices: 95867511--95867593 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 26
95867501 TTTATTTTAT
*
95867511 TTTTA-TTTATTTTATTTATTGT-TTTC
1 TTTTATTTTATTTTA-TTATT-TATTAC
* *
95867537 TTTTGTTTTCTTTT-TTATTTATTAC
1 TTTTATTTTATTTTATTATTTATTAC
*
95867562 -TTTATTTTATTTTATTATTTGTTAC
1 TTTTATTTTATTTTATTATTTATTAC
95867587 -TTTATTT
1 TTTTATTT
95867594 GGATATTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 12 0.25
25 25 0.52
26 4 0.08
27 7 0.15
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTTATTTTATTTTATTATTTATTAC
Found at i:95868800 original size:92 final size:92
Alignment explanation
Indices: 95868625--95868800 Score: 253
Period size: 92 Copynumber: 1.9 Consensus size: 92
95868615 TTTTTAAGAA
* * **
95868625 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCGTGTCAAAAGGTTTG
1 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
* *
95868690 ATATGTTCTTAAGAAAAAAATTAGTAG
66 ATATATTCCTAAGAAAAAAATTAGTAG
* * * *
95868717 TGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTGTCTTCGCGTCAAAAGGTTCA
1 TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
*
95868782 ATATATTCCTAAGTAAAAA
66 ATATATTCCTAAGAAAAAA
95868801 TAAATTAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (92 bp):
TGTGTTAGGATGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
ATATATTCCTAAGAAAAAAATTAGTAG
Found at i:95876890 original size:12 final size:12
Alignment explanation
Indices: 95876873--95876907 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
95876863 CATTTAAAAA
95876873 ATAATTAAAATT
1 ATAATTAAAATT
*
95876885 ATAATTATAATT
1 ATAATTAAAATT
95876897 ATTAATTAAAA
1 A-TAATTAAAA
95876908 AATTTGTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAATTAAAATT
Found at i:95878253 original size:47 final size:48
Alignment explanation
Indices: 95878184--95878279 Score: 185
Period size: 47 Copynumber: 2.0 Consensus size: 48
95878174 CATGTGTTTT
95878184 AGGTGAAAGGTTCGAGGGTTGGTATTCCAAAGAAAATAAGAAAA-AAA
1 AGGTGAAAGGTTCGAGGGTTGGTATTCCAAAGAAAATAAGAAAAGAAA
95878231 AGGTGAAAGGTTCGAGGGTTGGTATTCCAAAGAAAATAAGAAAAGAAA
1 AGGTGAAAGGTTCGAGGGTTGGTATTCCAAAGAAAATAAGAAAAGAAA
95878279 A
1 A
95878280 AAGGATAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 44 0.92
48 4 0.08
ACGTcount: A:0.47, C:0.06, G:0.28, T:0.19
Consensus pattern (48 bp):
AGGTGAAAGGTTCGAGGGTTGGTATTCCAAAGAAAATAAGAAAAGAAA
Found at i:95881372 original size:8 final size:8
Alignment explanation
Indices: 95881361--95881391 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
95881351 TTTTCTTCTT
95881361 TTTTTTTC
1 TTTTTTTC
95881369 TTTTTTTC
1 TTTTTTTC
*
95881377 TTTTTTTA
1 TTTTTTTC
95881385 TTTTTTT
1 TTTTTTT
95881392 AAATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:95881374 original size:21 final size:22
Alignment explanation
Indices: 95881348--95881389 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
95881338 TTAGTACTTA
95881348 TTTTTTTCTTCTTTT-TTTTTC
1 TTTTTTTCTTCTTTTATTTTTC
*
95881369 TTTTTTTCTTTTTTTATTTTT
1 TTTTTTTCTTCTTTTATTTTT
95881390 TTAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (22 bp):
TTTTTTTCTTCTTTTATTTTTC
Found at i:95881676 original size:118 final size:118
Alignment explanation
Indices: 95881514--95881862 Score: 599
Period size: 118 Copynumber: 3.0 Consensus size: 118
95881504 TATTTCCGGT
****
95881514 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCAC
95881579 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
* *
95881632 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAACAC
1 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCAC
95881697 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
95881750 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCAC
* * * **
95881815 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACC
95881863 ATGGAAAACA
Statistics
Matches: 218, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 218 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (118 bp):
TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCAC
CCCACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
Found at i:95882852 original size:6 final size:6
Alignment explanation
Indices: 95882817--95882892 Score: 88
Period size: 6 Copynumber: 13.2 Consensus size: 6
95882807 ATTAATATTT
* * *
95882817 AAAT-A AAAT-A AAATAA AAA-AT AAATAAA AAATAA AAA-AT TAATAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA
95882862 AAATAA AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
95882893 GATTGGGTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
5 16 0.26
6 40 0.66
7 5 0.08
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:95886399 original size:12 final size:12
Alignment explanation
Indices: 95886382--95886421 Score: 66
Period size: 11 Copynumber: 3.5 Consensus size: 12
95886372 TTAGTACTTA
95886382 TTTTTTTCTTCT
1 TTTTTTTCTTCT
95886394 TTTTTTTCTT-T
1 TTTTTTTCTTCT
95886405 TTTTTTT-TTCT
1 TTTTTTTCTTCT
95886416 TTTTTT
1 TTTTTT
95886422 AAATTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 2 0.07
11 15 0.56
12 10 0.37
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:95886400 original size:13 final size:12
Alignment explanation
Indices: 95886382--95886421 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
95886372 TTAGTACTTA
*
95886382 TTTTTTTCTTCT
1 TTTTTTTCTTTT
95886394 TTTTTTTCTTTTT
1 TTTTTTTC-TTTT
95886407 TTTTTTTCTTTT
1 TTTTTTTCTTTT
95886419 TTT
1 TTT
95886422 AAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:95886428 original size:22 final size:22
Alignment explanation
Indices: 95886382--95886428 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
95886372 TTAGTACTTA
***
95886382 TTTTTTTCTTCTTTTTTTTCTT
1 TTTTTTTCTTCTTTTTTTAAAT
*
95886404 TTTTTTTTTTCTTTTTTTAAAT
1 TTTTTTTCTTCTTTTTTTAAAT
95886426 TTT
1 TTT
95886429 ATTATTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTTTCTTCTTTTTTTAAAT
Found at i:95887758 original size:6 final size:6
Alignment explanation
Indices: 95887742--95887806 Score: 100
Period size: 6 Copynumber: 11.3 Consensus size: 6
95887732 ATATTTAACT
*
95887742 AAAAT- AAAATA AAAATA AAAA-A AATA-A AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
95887787 AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AA
95887807 GATTGGGTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
5 13 0.23
6 43 0.77
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:95887777 original size:12 final size:11
Alignment explanation
Indices: 95887742--95887806 Score: 78
Period size: 11 Copynumber: 5.7 Consensus size: 11
95887732 ATATTTAACT
*
95887742 AAAATAAAATA
1 AAAATAAAAAA
95887753 AAAATAAAAAA
1 AAAATAAAAAA
*
95887764 AATAA-AAAATA
1 AA-AATAAAAAA
95887775 AAAATAAAAATA
1 AAAATAAAAA-A
95887787 AAAATAAAAATA
1 AAAATAAAAA-A
95887799 AAAATAAA
1 AAAATAAA
95887807 GATTGGGTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
10 2 0.04
11 23 0.48
12 23 0.48
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:95895131 original size:20 final size:20
Alignment explanation
Indices: 95895106--95895147 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
95895096 AACCAATGTA
95895106 ATTTTTTTTACTGTTTTGCT
1 ATTTTTTTTACTGTTTTGCT
*
95895126 ATTTTTTTTATTGTTTTGCT
1 ATTTTTTTTACTGTTTTGCT
95895146 AT
1 AT
95895148 CATTTCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.71
Consensus pattern (20 bp):
ATTTTTTTTACTGTTTTGCT
Found at i:95895873 original size:536 final size:536
Alignment explanation
Indices: 95894860--95895931 Score: 1668
Period size: 536 Copynumber: 2.0 Consensus size: 536
95894850 GTCAAACCTA
*
95894860 AACCTAAAATTACATGAATTGAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
1 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
* ** * *
95894925 ACATGGTTAAGCCGAAGGTCTGCTTGAAAAGTGAGAGGATTTGAACAAAAATATAAACTCAAAAA
66 ACATGGCTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAACTCAAAAA
* * * * *
95894990 ATAGGCTTAGACAAAAAATAAGGCCTGTTTTTTAAACGGATCAAGCCTAGGATAAGCTTTTTTGG
131 ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
*
95895055 TCAGAGCTTGACCCAACCTGGCCTAATTTGTAAAAAAAAAAAACCAATGTAATTTTTTTTACTGT
196 TCAGAGCCTGACCCAACCTGGCCTAATTTGTAAAAAAAAAAAACCAATGTAATTTTTTTTACTGT
* *
95895120 TTTGCTATTTTTTTTATTGTTTTGCTATCATTTCATTATTATAATGCTGATATTTTATTGTTATT
261 TTTGCTATCTTTTTAATTGTTTTGCTATCATTTCATTATTATAAT-CTGATATTTTATTGTTATT
*
95895185 GTTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTATTATTTTAGAGATATTTGCCTG
325 GTTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATATTTGCCTG
* * *
95895250 TTAAGTTACACTTATCTTAGTGTTATTTAAGTATTTTTTTAATTTTTTTATTTGTTGGGAAACAT
390 CTAAGTTACACTTATCTTAGTCTTATTTAAGTATTTTCTTAATTTTTTTATTTGTTGGGAAACAT
95895315 TTATTTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATA
455 TTATTTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATA
95895380 ATAATATAAAAAATTTT
520 ATAATATAAAAAATTTT
* *
95895397 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAATTGCACTTGT
1 AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
* * * **
95895462 ACATGGCTAGGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGGATAAAAATATAGGCTCAAAAA
66 ACATGGCTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAACTCAAAAA
* *
95895527 ATAGATTTAGAC-AAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGGTAAG-TTCTTTGG
131 ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
* *** *
95895590 TC-GAGGCCTGACCTAACCTGGCCTGAATTTGTAAAAAAAAAAAATTGATGCTATTTTTTTTTAC
196 TCAGA-GCCTGACCCAACCTGGCCT-AATTTGTAAAAAAAAAAAACCAATG-TAATTTTTTTTAC
* *
95895654 TGTTTTGCTACTGCTTTTTAATTGTTTTGCTATTATTTCATTATTAT-AT-TGATATTTTGTTGT
258 TGTTTTGCTA-T-CTTTTTAATTGTTTTGCTATCATTTCATTATTATAATCTGATATTTTATTGT
*
95895717 TATTGTTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGGTATTTG
321 TATTGTTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATATTTG
* *
95895782 CTTGCTAAGTTACATTTATCTTAGTCTTATTTAAGTATTTTCTTAATTTTTTTATTTGTTGGGAA
386 CCTGCTAAGTTACACTTATCTTAGTCTTATTTAAGTATTTTCTTAATTTTTTTATTTGTTGGGAA
* * * * * *
95895847 ATATTTATTTTAATTTTTTTAGTGTATTTGATGTATTATATTTTTTAAATTTATTTTTATATAAT
451 ACATTTATTTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAA
95895912 AATAATAATATAAAAAATTT
516 AATAATAATATAAAAAATTT
95895932 AATATGGGCG
Statistics
Matches: 487, Mismatches: 43, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
534 2 0.00
535 26 0.05
536 276 0.57
537 149 0.31
538 3 0.01
539 31 0.06
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (536 bp):
AACCTAAAATTACATGAATTAAACTCAGAAAATTTTCATTCATGAATACTTTTAACTACACTTGT
ACATGGCTAAGCCGAAGGTCCACTCGAAAAGTGAGAGGATCTGAACAAAAATATAAACTCAAAAA
ATAGACTTAGACAAAAAACAAGGCCCGTTTTCTAAACGGATCAAGCCTAGGATAAGCTTCTTTGG
TCAGAGCCTGACCCAACCTGGCCTAATTTGTAAAAAAAAAAAACCAATGTAATTTTTTTTACTGT
TTTGCTATCTTTTTAATTGTTTTGCTATCATTTCATTATTATAATCTGATATTTTATTGTTATTG
TTTGGATATTGTATAACTCTTATTTTATTATTAATTTTGCTACTATTTTAGAGATATTTGCCTGC
TAAGTTACACTTATCTTAGTCTTATTTAAGTATTTTCTTAATTTTTTTATTTGTTGGGAAACATT
TATTTTAATATTTTTAGTGTATTTGATATATTATATTTTTAAAATTTATTTCTATATAAAAATAA
TAATATAAAAAATTTT
Found at i:95898971 original size:21 final size:21
Alignment explanation
Indices: 95898942--95898994 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
95898932 TTTTGGATAT
95898942 TTTCC-CCCA-TAATCCCCTAA
1 TTTCCTCCCACTAAT-CCCTAA
*
95898962 TTTCCTCCCACTTATCCCTAA
1 TTTCCTCCCACTAATCCCTAA
*
95898983 CTTCGCTCCCAC
1 TTTC-CTCCCAC
95898995 ACCTCCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 10 0.36
ACGTcount: A:0.19, C:0.47, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTCCTCCCACTAATCCCTAA
Found at i:95900277 original size:51 final size:51
Alignment explanation
Indices: 95900206--95900373 Score: 219
Period size: 51 Copynumber: 3.2 Consensus size: 51
95900196 CTGATCACAT
*
95900206 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
95900257 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCGC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCA-------C
* * * *
95900315 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
95900366 TTGTCACT
1 TTATCACT
95900374 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
51 58 0.55
58 47 0.45
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:95900309 original size:58 final size:57
Alignment explanation
Indices: 95900206--95900378 Score: 223
Period size: 58 Copynumber: 3.1 Consensus size: 57
95900196 CTGATCACAT
* *
95900206 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAA---A--AC-TACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCAC
*
95900257 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCGC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGTCAC
* * *
95900315 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTGTCAC
*
95900373 TGATCA
1 TTATCA
95900379 GAAGTACTCA
Statistics
Matches: 105, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
51 33 0.31
52 2 0.02
55 1 0.01
57 2 0.02
58 67 0.64
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (57 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTGTCAC
Found at i:95903974 original size:18 final size:18
Alignment explanation
Indices: 95903951--95904016 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
95903941 GTAGGATTTG
95903951 TTTTGATTTGATATGACA
1 TTTTGATTTGATATGACA
* **
95903969 TTTTGATATGATAT-ATG
1 TTTTGATTTGATATGACA
* *
95903986 TTTT--TGGTAATATGACA
1 TTTTGAT-TTGATATGACA
95904003 TTTTGATTTGATAT
1 TTTTGATTTGATAT
95904017 TTGTATATGT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 10 0.29
18 18 0.51
19 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (18 bp):
TTTTGATTTGATATGACA
Found at i:95905579 original size:60 final size:60
Alignment explanation
Indices: 95905512--95905644 Score: 203
Period size: 60 Copynumber: 2.2 Consensus size: 60
95905502 ATTTCGGGTT
* ** *
95905512 ACATTTTAGTCATTTATATTTGAAATGTTACGTTTTAGTCATTTACATTAACGTGTTGTA
1 ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
* * *
95905572 ACATTTTAGTCACTTATATTTGAAACATTATGTTTTAGTCACTTGCATTAATGTGTTGTA
1 ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
95905632 ACATTTTAGTCAC
1 ACATTTTAGTCAC
95905645 CGAGCTGTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (60 bp):
ACATTTTAGTCACTTATATTTGAAACATTACGTTTTAGTCACTTACATTAACGTGTTGTA
Found at i:95906390 original size:24 final size:25
Alignment explanation
Indices: 95906363--95906415 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 25
95906353 TCCTTAATTA
*
95906363 TATTTAAAGAA-TTTTTTA-AATATT
1 TATTTAAA-AAGTTTTTGATAATATT
*
95906387 TA-TTAAAAAGTTTTTGATATTATT
1 TATTTAAAAAGTTTTTGATAATATT
95906411 TATTT
1 TATTT
95906416 TGCTCAGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 11 0.46
24 9 0.38
25 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (25 bp):
TATTTAAAAAGTTTTTGATAATATT
Found at i:95911846 original size:30 final size:31
Alignment explanation
Indices: 95911812--95911875 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
95911802 ATTTATTTTA
*
95911812 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
95911842 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
95911873 TTG
1 TTG
95911876 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:95916781 original size:30 final size:30
Alignment explanation
Indices: 95916747--95916807 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
95916737 CATAATAAGG
95916747 AATGCAATCAATAAAGTTGGTTAGAATTCC
1 AATGCAATCAATAAAGTTGGTTAGAATTCC
95916777 AATGCAATCAATAAAGTTGGTTAGAATTCC
1 AATGCAATCAATAAAGTTGGTTAGAATTCC
95916807 A
1 A
95916808 GTCCTAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (30 bp):
AATGCAATCAATAAAGTTGGTTAGAATTCC
Found at i:95922837 original size:21 final size:21
Alignment explanation
Indices: 95922814--95922983 Score: 137
Period size: 21 Copynumber: 8.2 Consensus size: 21
95922804 GTGTTTTACT
* *
95922814 TTCTGTTTAGCTCTTACGAGT
1 TTCTGTTCAGCTCTTACGAGC
* * * * *
95922835 TTCTGTTTAACTCCTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
*
95922856 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
** *
95922877 TTCTGTTCAATTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
** * * *
95922898 TTCTGTTCAATTATTAAGAGT
1 TTCTGTTCAGCTCTTACGAGC
*
95922919 TTCTATTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
95922940 TTCTGTTAAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTACGAGC
* **
95922959 TTCTGTTAAGCTCTTTTGAGC
1 TTCTGTTCAGCTCTTACGAGC
95922980 TTCT
1 TTCT
95922984 ATTAACCCTT
Statistics
Matches: 126, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.13
20 4 0.03
21 105 0.83
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:95923029 original size:21 final size:21
Alignment explanation
Indices: 95922969--95923031 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
95922959 TTCTGTTAAG
*
95922969 CTCTTTTGAGCTTCTATT-AA
1 CTCTTTTGAGCTTTTATTCAA
* * * *
95922989 CCCTTATG-GGTTTTCGTTCAA
1 CTCTTTTGAGCTTTT-ATTCAA
95923010 CTCTTTTGAGCTTTTATTCAA
1 CTCTTTTGAGCTTTTATTCAA
95923031 C
1 C
95923032 CCTTATGGGT
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
19 4 0.13
20 8 0.26
21 14 0.45
22 5 0.16
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (21 bp):
CTCTTTTGAGCTTTTATTCAA
Found at i:95923048 original size:21 final size:20
Alignment explanation
Indices: 95922983--95923048 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
95922973 TTTGAGCTTC
95922983 TATT-AACCCTTATGGGTTT
1 TATTCAACCCTTATGGGTTT
* * * *
95923002 TCGTTCAACTCTTTTGAGCTTT
1 T-ATTCAACCCTTATG-GGTTT
95923024 TATTCAACCCTTATGGGTTT
1 TATTCAACCCTTATGGGTTT
95923044 CTATT
1 -TATT
95923049 TAGCTTTCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 23 0.66
22 5 0.14
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (20 bp):
TATTCAACCCTTATGGGTTT
Found at i:95925428 original size:50 final size:50
Alignment explanation
Indices: 95925356--95925546 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 50
95925346 GGTCACATAG
* * *
95925356 GTATGTACATATATGATGTTATATTGGATCTTGTATATTCG-GATATAAA
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAA
* *
95925405 GCTATGCACAAATGTGATATTATATTTGAAT-TTGTATATTC-AGCCATAT-AA
1 G-TATGCACATATGTGATATTATA-TTGGATCTTGTATATTCGAG--ATATAAA
* * * * * *
95925456 GTAAGCACATATGTGATATTATATTTGATCTTGCATATTTGAGA-ACATAG
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATA-AA
* *
95925506 GTATGCATATATGTGATATTATATTTGATCTTGTATATTCG
1 GTATGCACATATGTGATATTATATTGGATCTTGTATATTCG
95925547 GCCAAATGAA
Statistics
Matches: 116, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
48 1 0.01
49 6 0.05
50 95 0.82
51 10 0.09
52 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (50 bp):
GTATGCACATATGTGATATTATATTGGATCTTGTATATTCGAGATATAAA
Found at i:95925520 original size:100 final size:100
Alignment explanation
Indices: 95925362--95925550 Score: 247
Period size: 100 Copynumber: 1.9 Consensus size: 100
95925352 ATAGGTATGT
* * *
95925362 ACATATATGATGTTATATTGGATCTTGTATATTCGGATATAAAGCTATGCACAAATGTGATATTA
1 ACATATATGATATTATATTGGATCTTGCATATTCGGATACAAAGCTATGCACAAATGTGATATTA
95925427 TATTTGAAT-TTGTATATTCAGCCATATAAGTAAGC
66 TATTTG-ATCTTGTATATTCAGCCATATAAGTAAGC
* * * * * * *
95925462 ACATATGTGATATTATATTTGATCTTGCATATTTGAGA-ACATAGGTATGCATATATGTGATATT
1 ACATATATGATATTATATTGGATCTTGCATATTCG-GATACAAAGCTATGCACAAATGTGATATT
*
95925526 ATATTTGATCTTGTATATTCGGCCA
65 ATATTTGATCTTGTATATTCAGCCA
95925551 AATGAATGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 2 0.03
100 72 0.95
101 2 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (100 bp):
ACATATATGATATTATATTGGATCTTGCATATTCGGATACAAAGCTATGCACAAATGTGATATTA
TATTTGATCTTGTATATTCAGCCATATAAGTAAGC
Found at i:95929166 original size:50 final size:51
Alignment explanation
Indices: 95929089--95929202 Score: 169
Period size: 50 Copynumber: 2.3 Consensus size: 51
95929079 GACCATGGCA
* *
95929089 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTAATAGCGTCGGCTACACTTATCTGATCAAGGATAAA-TG
*
95929140 A-AAGTGATAAGTAATAGCGTCGGCTACACTTATCTGATCAATGATAAATG
1 ACAAGTGATAAGTAATAGCGTCGGCTACACTTATCTGATCAAGGATAAATG
*
95929190 ACAAGTGAAAAGT
1 ACAAGTGATAAGT
95929203 GGTAGCTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 43 0.75
51 14 0.25
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTAATAGCGTCGGCTACACTTATCTGATCAAGGATAAATG
Found at i:95929231 original size:31 final size:31
Alignment explanation
Indices: 95929193--95929372 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
95929183 ATAAATGACA
*
95929193 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
95929224 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
95929255 TGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
95929286 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
95929317 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
95929348 AGTGAATAGTGGCAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
95929373 AAGTGACAAG
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
30 2 0.01
31 131 0.98
32 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:95929598 original size:42 final size:41
Alignment explanation
Indices: 95929491--95929603 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 41
95929481 TATGTGATTC
* * * *
95929491 GTGTAAGACCATAGCTGCGCTATGCCATTGATATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCA-TCATATATGAAGAT
* *
95929533 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCA-TATATGAAGAT
* *
95929575 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGCTGAGCTATGGCATC
95929604 GAGAAAACGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.03
42 60 0.97
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCATATATGAAGAT
Found at i:95930020 original size:20 final size:21
Alignment explanation
Indices: 95929987--95930033 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
95929977 CGAAAGAATG
95929987 AAAAATAAATAAATTA-GTATA
1 AAAAATAAATAAATTAGGTA-A
*
95930008 AAAAATATA-AAATTAGGTAA
1 AAAAATAAATAAATTAGGTAA
95930028 AAAAAT
1 AAAAAT
95930034 GAACAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (21 bp):
AAAAATAAATAAATTAGGTAA
Found at i:95930195 original size:4 final size:4
Alignment explanation
Indices: 95930174--95930213 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
95930164 AAACCAATCT
*
95930174 ATAA A-AA AT-A AT-A ATAA ATAA ATAA ACAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
95930214 TTGAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 9 0.28
4 23 0.72
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:95930251 original size:3 final size:3
Alignment explanation
Indices: 95930243--95930276 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
95930233 ATTTAATAGT
*
95930243 ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
95930277 CGATGTGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:95930405 original size:3 final size:3
Alignment explanation
Indices: 95930399--95930537 Score: 72
Period size: 3 Copynumber: 46.3 Consensus size: 3
95930389 TATTAATAGG
* * * *
95930399 AAT AAT AAT -AT AGACT AAT AAT AAC AAT AAC AAT AA- CAG AAT AAT
1 AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
95930444 AAT AAT AAT AAT -AT AAAT AGT AAT AGA- AA- AAC GAT AAT AGT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * * * * *
95930488 AAC AAC GAT AAT AAT AAAT AAT AAG AGT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
95930534 AAT A
1 AAT A
95930538 CTCTAAATGT
Statistics
Matches: 103, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
2 8 0.08
3 85 0.83
4 8 0.08
5 2 0.02
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:95931663 original size:25 final size:25
Alignment explanation
Indices: 95931629--95931680 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
95931619 CTTTTGCAGG
95931629 GATGGCAGAGGAGTTGGTGGTGACA
1 GATGGCAGAGGAGTTGGTGGTGACA
95931654 GATGGCAGAGGAGTTGGTGGTGACA
1 GATGGCAGAGGAGTTGGTGGTGACA
95931679 GA
1 GA
95931681 CCTCGGGCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.48, T:0.19
Consensus pattern (25 bp):
GATGGCAGAGGAGTTGGTGGTGACA
Found at i:95934236 original size:15 final size:15
Alignment explanation
Indices: 95934216--95934257 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
95934206 AAATTTAAAT
*
95934216 AGAATGTAATT-CTTG
1 AGAATGTAATTAC-TA
95934231 AGAATGTAATTACTA
1 AGAATGTAATTACTA
95934246 AGAATGTAATTA
1 AGAATGTAATTA
95934258 TCAAGAGTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (15 bp):
AGAATGTAATTACTA
Found at i:95934263 original size:15 final size:15
Alignment explanation
Indices: 95934216--95934263 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
95934206 AAATTTAAAT
* **
95934216 AGAATGTAATTCTTG
1 AGAATGTAATTATCA
95934231 AGAATGTAATTA-CTA
1 AGAATGTAATTATC-A
95934246 AGAATGTAATTATCA
1 AGAATGTAATTATCA
95934261 AGA
1 AGA
95934264 GTACATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 27 0.96
16 1 0.04
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (15 bp):
AGAATGTAATTATCA
Found at i:95934496 original size:17 final size:18
Alignment explanation
Indices: 95934474--95934508 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
95934464 AACAAGTAAT
95934474 TTAATATT-TTTATTTTA
1 TTAATATTATTTATTTTA
95934491 TTAATATTATTTATTTTA
1 TTAATATTATTTATTTTA
95934509 AATAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAATATTATTTATTTTA
Found at i:95934612 original size:28 final size:27
Alignment explanation
Indices: 95934572--95934647 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 27
95934562 ACTCTATAAA
95934572 TAAGATCAAGGGTTGACAAGTATCCTAT
1 TAAGA-CAAGGGTTGACAAGTATCCTAT
*
95934600 TAAGACAATGGGTTGACAAGTGTCCTAT
1 TAAGACAA-GGGTTGACAAGTATCCTAT
*
95934628 TAAGACTAAGAGTTGACAAG
1 TAAGAC-AAGGGTTGACAAG
95934648 GGTCTAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 3 0.07
28 39 0.89
29 2 0.05
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (27 bp):
TAAGACAAGGGTTGACAAGTATCCTAT
Found at i:95934839 original size:15 final size:15
Alignment explanation
Indices: 95934803--95934844 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
95934793 ATTAAACTAG
**
95934803 TATAAATTTTAAATTT
1 TATAAA-TTTAAATCA
95934819 TA-AAATTTAAATCA
1 TATAAATTTAAATCA
95934833 TATAAATTTAAA
1 TATAAATTTAAA
95934845 AATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 12 0.52
16 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAAATTTAAATCA
Found at i:95944259 original size:44 final size:44
Alignment explanation
Indices: 95944205--95945225 Score: 1560
Period size: 44 Copynumber: 23.4 Consensus size: 44
95944195 AATCCAAGAT
* *
95944205 GATTTGGCGTCTCTGTAGCGGCAGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
95944249 GATTTGGCGTCTTTGTAGCGGCAGAGAGAAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
95944293 GATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
95944337 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAG---AC-
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
95944377 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
95944421 GATTTGGCGTCTCTGTAGCGGTGGAAAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
95944465 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
95944509 GATTTGGTGTCTCCGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
95944553 GATTTGGCGTCTCTGTAGCGGCGGAGAGAAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
95944597 GATTTGGCGTCTCCGTAGCGGCAGAGAGCAGATCGAACATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
95944641 GATTTGGCGTCTTTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
95944685 AATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
95944729 GATTTGGCCTCTCCGTAGCTGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
95944773 GATCTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
95944817 GATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAATTTAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
95944861 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAATG-TAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA-GATAACA
* *
95944905 GATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGAATG-TAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA-GATAACA
*
95944949 GATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
95944989 GATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
95945033 GATTTGACGTCTTTGTAGCGGCGGAGAGCAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
95945077 GATTTGGTGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
95945121 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATTACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
95945165 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
95945209 GA-TTGAGCGTCTCTGTA
1 GATTTG-GCGTCTCTGTA
95945226 TTAGACGGGG
Statistics
Matches: 897, Mismatches: 69, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
40 75 0.08
41 2 0.00
43 6 0.01
44 814 0.91
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:95946754 original size:19 final size:19
Alignment explanation
Indices: 95946730--95946767 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
95946720 TTGAGATTGC
*
95946730 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
95946749 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
95946768 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:95952896 original size:21 final size:19
Alignment explanation
Indices: 95952846--95952882 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
95952836 ATGTATTTCC
95952846 ATCTAATTTATATATTTTT
1 ATCTAATTTATATATTTTT
95952865 ATCTAATTTATATATTTT
1 ATCTAATTTATATATTTT
95952883 GTCTTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
ATCTAATTTATATATTTTT
Found at i:95964879 original size:25 final size:25
Alignment explanation
Indices: 95964851--95964900 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
95964841 GAAACTAACT
95964851 AGGAGAGTTTCAAGTTGGAACTCGA
1 AGGAGAGTTTCAAGTTGGAACTCGA
95964876 AGGAGAGTTTCAAGTTGGAACTCGA
1 AGGAGAGTTTCAAGTTGGAACTCGA
95964901 GATTACTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (25 bp):
AGGAGAGTTTCAAGTTGGAACTCGA
Found at i:95965881 original size:22 final size:23
Alignment explanation
Indices: 95965856--95965901 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
95965846 CAACCAAATC
95965856 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
95965878 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
95965901 A
1 A
95965902 CGCCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:95970453 original size:25 final size:25
Alignment explanation
Indices: 95970425--95970477 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
95970415 GTGACCCTAC
95970425 TTATCTTAAT-TAAAAATCTAAATTA
1 TTAT-TTAATCTAAAAATCTAAATTA
**
95970450 TTATTTAATCTATTAATCTAAATTA
1 TTATTTAATCTAAAAATCTAAATTA
95970475 TTA
1 TTA
95970478 ATTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATTTAATCTAAAAATCTAAATTA
Found at i:95970478 original size:13 final size:13
Alignment explanation
Indices: 95970439--95970479 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
95970429 CTTAATTAAA
95970439 AATCTAAATTATT
1 AATCTAAATTATT
*
95970452 -AT-TTAATCTATT
1 AATCTAAAT-TATT
95970464 AATCTAAATTATT
1 AATCTAAATTATT
95970477 AAT
1 AAT
95970480 TATTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.17
12 6 0.26
13 9 0.39
14 4 0.17
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (13 bp):
AATCTAAATTATT
Found at i:95970733 original size:27 final size:25
Alignment explanation
Indices: 95970663--95970735 Score: 65
Period size: 27 Copynumber: 2.8 Consensus size: 25
95970653 TATCTAACCT
* *
95970663 ATTAATTTAAAGTATTAATTATCTTA
1 ATTAATTTAAACT-CTAATTATCTTA
* *
95970689 AATAAATTAGAACTCTAATTATCCTTA
1 ATTAATTTA-AACTCTAATTAT-CTTA
*
95970716 TTTAATTTAAACTCCTAATT
1 ATTAATTTAAACT-CTAATT
95970736 CTATTAACTG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 18 0.49
27 19 0.51
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (25 bp):
ATTAATTTAAACTCTAATTATCTTA
Found at i:95974002 original size:16 final size:17
Alignment explanation
Indices: 95973963--95974011 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
95973953 CGTCTGGTTC
95973963 ACTGTAATGGAATAG-G
1 ACTGTAATGGAATAGAG
* *
95973979 ACTATAATTGAATAGAG
1 ACTGTAATGGAATAGAG
95973996 -CTGTAATGGAATAGAG
1 ACTGTAATGGAATAGAG
95974012 TTATAATCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.27
Consensus pattern (17 bp):
ACTGTAATGGAATAGAG
Found at i:95974018 original size:16 final size:16
Alignment explanation
Indices: 95973967--95974018 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
95973957 TGGTTCACTG
95973967 TAATGGAATAG-GACTA
1 TAATGGAATAGAG-CTA
* *
95973983 TAATTGAATAGAGCTG
1 TAATGGAATAGAGCTA
*
95973999 TAATGGAATAGAGTTA
1 TAATGGAATAGAGCTA
95974015 TAAT
1 TAAT
95974019 CAGTAATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:95974234 original size:20 final size:20
Alignment explanation
Indices: 95974209--95974253 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
95974199 ATTATTATTA
95974209 AAAATAATAAATAATTTAAT
1 AAAATAATAAATAATTTAAT
*
95974229 AAAATAATATATAATTTAAT
1 AAAATAATAAATAATTTAAT
95974249 AAAAT
1 AAAAT
95974254 TCTTAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATAATAAATAATTTAAT
Found at i:95980645 original size:6 final size:6
Alignment explanation
Indices: 95980634--95980659 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95980624 AGGAGCAGAG
95980634 AGCTCA AGCTCA AGCTCA AGCTCA AG
1 AGCTCA AGCTCA AGCTCA AGCTCA AG
95980660 TTACAAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (6 bp):
AGCTCA
Found at i:95992101 original size:14 final size:14
Alignment explanation
Indices: 95992078--95992107 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
95992068 TTGAAATTAT
95992078 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
95992092 GTTGATTTGGATTG
1 GTTGAATTGGATTG
95992106 GT
1 GT
95992108 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:95998289 original size:35 final size:35
Alignment explanation
Indices: 95998250--95998320 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
95998240 CGTCGTGCTC
95998250 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
95998285 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
95998320 A
1 A
95998321 AAAGAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:95999127 original size:12 final size:12
Alignment explanation
Indices: 95999112--95999154 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
95999102 TTTCGAATTA
95999112 TTTTTTTCTTTT
1 TTTTTTTCTTTT
* *
95999124 TTTTGTGCTTTT
1 TTTTTTTCTTTT
*
95999136 TTTTGTCTCTTTT
1 TTTT-TTTCTTTT
95999149 TTTTTT
1 TTTTTT
95999155 GTTGAACATG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:96012163 original size:169 final size:169
Alignment explanation
Indices: 96011881--96012219 Score: 507
Period size: 169 Copynumber: 2.0 Consensus size: 169
96011871 ATGAATTTCA
* * * * *
96011881 GGGGCCTTATAAAATCCTGTCATCCTCTATTCTAGACTATTAGCTTCTTCCTTAATAATCGCATT
1 GGGGCCTTATAAAATCCTGTCATCCTCTATTCCAAACTATCAGCTTCCTCCTTAACAATCGCATT
* *
96011946 CACTTAGTTTTTTGAATAGCTTCTTAACATAATCAAAATTTATTCCTTCCATGCTAAGCATAAAC
66 CACATAGTTTTTTGAATAGCTTCTTAACATAATCAAAATTCATTCCTTCCATGCTAAGCATAAAC
* *
96012011 TCTCTCGAGTTCCTTCAGTTGGGAAGACAATACCGTTTT
131 TCCCTCGAGTTCCTTCAGTCGGGAAGACAATACCGTTTT
* * * *
96012050 GGGGCCTTATAAAATCCTTTGATCCTCTATTCCAAACTATCAGCTTCCTCCTTAACAATTGTATT
1 GGGGCCTTATAAAATCCTGTCATCCTCTATTCCAAACTATCAGCTTCCTCCTTAACAATCGCATT
* * * *
96012115 CAGATGGTTTTTTGAATAGCTTCTTAACATAATCGAAATTCCTTCCTTCCATGCTAAGCATAAAC
66 CACATAGTTTTTTGAATAGCTTCTTAACATAATCAAAATTCATTCCTTCCATGCTAAGCATAAAC
* *
96012180 TCCCTTGAGTTTCTTCAGTCGGGAAGACAATACCGTTTT
131 TCCCTCGAGTTCCTTCAGTCGGGAAGACAATACCGTTTT
96012219 G
1 G
96012220 AAAGCTGTAC
Statistics
Matches: 151, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
169 151 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (169 bp):
GGGGCCTTATAAAATCCTGTCATCCTCTATTCCAAACTATCAGCTTCCTCCTTAACAATCGCATT
CACATAGTTTTTTGAATAGCTTCTTAACATAATCAAAATTCATTCCTTCCATGCTAAGCATAAAC
TCCCTCGAGTTCCTTCAGTCGGGAAGACAATACCGTTTT
Found at i:96013183 original size:20 final size:20
Alignment explanation
Indices: 96013158--96013218 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
96013148 AAGTGAACCC
96013158 TTAATCGAAAAAACTCCCCT
1 TTAATCGAAAAAACTCCCCT
* **
96013178 TTAATCCAAGTGAA---CCC-
1 TTAATCGAA-AAAACTCCCCT
96013195 TTAATCGAAAAAACTCCCCT
1 TTAATCGAAAAAACTCCCCT
96013215 TTAA
1 TTAA
96013219 CTTCTGATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 2 0.07
17 8 0.27
18 3 0.10
19 3 0.10
20 12 0.40
21 2 0.07
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (20 bp):
TTAATCGAAAAAACTCCCCT
Found at i:96013194 original size:37 final size:37
Alignment explanation
Indices: 96013144--96013218 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
96013134 GTTTCTAAGC
96013144 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
1 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
96013181 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
1 ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
96013218 A
1 A
96013219 CTTCTGATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (37 bp):
ATCCAAGTGAACCCTTAATCGAAAAAACTCCCCTTTA
Found at i:96013676 original size:43 final size:43
Alignment explanation
Indices: 96013566--96013800 Score: 289
Period size: 43 Copynumber: 5.5 Consensus size: 43
96013556 GCTTATGAAA
* * * *
96013566 AAAAACGCCGCTATAGAACATGACCTTTAGCAGTGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTC
* *
96013609 AAAAAGCGCCGCTAAAGAACATGGCCTTTAGTGGCGCTTTTCTC
1 AAAAA-CGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTC
* * *
96013653 AAAAACGCCGCTAAAGAACATGGCCTTTAGCGACGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTC
*
96013696 ACAAACGCCGCTAAAGAACAT-ACCTTTAGCGGCGCTTTT-TCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCT-C
* * * *
96013738 ACAAACGCCACT--ATAATATAGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTCTC
96013780 AAAAACGCCGCTAAAGAACAT
1 AAAAACGCCGCTAAAGAACAT
96013801 TTAAAATTAT
Statistics
Matches: 165, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
40 5 0.03
42 57 0.35
43 61 0.37
44 42 0.25
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTC
Found at i:96017464 original size:53 final size:51
Alignment explanation
Indices: 96017361--96017464 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 51
96017351 CCAACCATAT
*
96017361 ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATGAAATA
1 ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATAAAATA
* * *
96017412 ACCTCTTCCCTTTTTTCCCCTCAA-AAACTAAGAGTAATGGAACAAGTAAAATA
1 ACCTCTT--CTTTTTTCCCCACAAGAAACT-AGAGTAATCGAACAAATAAAATA
96017465 TCATTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
51 7 0.15
52 5 0.11
53 34 0.74
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (51 bp):
ACCTCTTCTTTTTTCCCCACAAGAAACTAGAGTAATCGAACAAATAAAATA
Found at i:96018355 original size:8 final size:8
Alignment explanation
Indices: 96018344--96018422 Score: 67
Period size: 7 Copynumber: 9.9 Consensus size: 8
96018334 ATATTAAATA
96018344 TTAAATTT
1 TTAAATTT
*
96018352 TTAAGTTT
1 TTAAATTT
*
96018360 TT-TATTT
1 TTAAATTT
96018367 TT-AATTT
1 TTAAATTT
96018374 TT-AATTT
1 TTAAATTT
*
96018381 TTAGA-TT
1 TTAAATTT
96018388 TTAAATTTTT
1 TTAAA--TTT
96018398 TTAAGATTT
1 TTAA-ATTT
96018407 TTATAATTT
1 TTA-AATTT
96018416 TTAAATT
1 TTAAATT
96018423 AACATATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
7 24 0.41
8 14 0.24
9 13 0.22
10 7 0.12
11 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (8 bp):
TTAAATTT
Found at i:96018355 original size:15 final size:15
Alignment explanation
Indices: 96018337--96018422 Score: 66
Period size: 15 Copynumber: 5.5 Consensus size: 15
96018327 GACTAAAATA
*
96018337 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
96018352 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
*
96018367 TT-AATTTTTAATTT
1 TTAAATTTTAAATTT
*
96018381 TTAGATTTTAAATTTTT
1 TTAAATTTTAAA--TTT
96018398 TTAAGATTTTTATAATTT
1 TTAA-A-TTTTA-AATTT
96018416 TTAAATT
1 TTAAATT
96018423 AACATATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
14 12 0.21
15 20 0.36
16 2 0.04
17 7 0.12
18 8 0.14
19 5 0.09
20 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:96018372 original size:22 final size:22
Alignment explanation
Indices: 96018344--96018397 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
96018334 ATATTAAATA
*
96018344 TTAAATTTTTAAGTTTTT-TATT
1 TTAAATTTTTAA-TTTTTAGATT
*
96018366 TTTAATTTTTAATTTTTAGATT
1 TTAAATTTTTAATTTTTAGATT
96018388 TTAAATTTTT
1 TTAAATTTTT
96018398 TTAAGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TTAAATTTTTAATTTTTAGATT
Found at i:96018404 original size:18 final size:19
Alignment explanation
Indices: 96018378--96018417 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
96018368 TAATTTTTAA
96018378 TTTTTAGA-TTTTA-AATT
1 TTTTTAGATTTTTATAATT
96018395 TTTTTAAGATTTTTATAATT
1 TTTTT-AGATTTTTATAATT
96018415 TTT
1 TTT
96018418 AAATTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 3 0.15
19 5 0.25
20 7 0.35
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTTAGATTTTTATAATT
Found at i:96019301 original size:21 final size:21
Alignment explanation
Indices: 96019255--96019301 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
96019245 TATAAAATAA
* * *
96019255 AAAATCATAAATCCTAAACTC
1 AAAACCATAAACCCTAAAATC
*
96019276 TAAACCATAAACCCTAAAATC
1 AAAACCATAAACCCTAAAATC
96019297 AAAAC
1 AAAAC
96019302 TCTAATCACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAACCATAAACCCTAAAATC
Found at i:96019913 original size:39 final size:38
Alignment explanation
Indices: 96019870--96019979 Score: 130
Period size: 41 Copynumber: 2.8 Consensus size: 38
96019860 GATCGAGCAT
*
96019870 TAGCGGCGTTTTTAAAAAGCGCCACTAAAGGTGTACCTA
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTG-ACCTA
** * *
96019909 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAATACTTGATCTT
1 TAGCGGCG-TTTTT-AAAAAGCGCCGCTAA-AGGTGACCTA
*
96019950 TAGTGGCGTTTTTAAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAAAG
96019980 CCACTAAAGG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 23 0.38
40 10 0.16
41 24 0.39
42 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (38 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTGACCTA
Found at i:96020665 original size:12 final size:13
Alignment explanation
Indices: 96020633--96020671 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
96020623 CAAAATTTTC
*
96020633 AAATTAATAATTGT
1 AAATT-ATAATTAT
96020647 AAATTATAATTAT
1 AAATTATAATTAT
96020660 -AATTATAATTAT
1 AAATTATAATTAT
96020672 CACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 7 0.29
14 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATTATAATTAT
Found at i:96022721 original size:25 final size:25
Alignment explanation
Indices: 96022693--96022741 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
96022683 ATATATATCA
96022693 TAAA-ATAGCATATAAAAGAAATAAT
1 TAAACATAGCATATAAAA-AAATAAT
96022718 TAAACATAGCATATAAAAAAATAA
1 TAAACATAGCATATAAAAAAATAA
96022742 AACTATGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (25 bp):
TAAACATAGCATATAAAAAAATAAT
Found at i:96022742 original size:21 final size:23
Alignment explanation
Indices: 96022692--96022741 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 23
96022682 AATATATATC
96022692 ATAAAATAGCATATAAAAGAAATA
1 ATAAAATAGCATAT-AAAGAAATA
*
96022716 ATTAAACATAGCATATAAAAAAATA
1 A-TAAA-ATAGCATATAAAGAAATA
96022741 A
1 A
96022742 AACTATGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 13 0.57
26 9 0.39
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (23 bp):
ATAAAATAGCATATAAAGAAATA
Found at i:96023255 original size:22 final size:21
Alignment explanation
Indices: 96023220--96023339 Score: 62
Period size: 19 Copynumber: 6.1 Consensus size: 21
96023210 AAAAGGTATC
* * *
96023220 TACAAATTAAATCTCTTAGAT
1 TACAAATCATATCTCTAAGAT
96023241 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
96023264 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
96023283 TGCCAATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
**
96023302 T--GTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
96023319 TGCAAATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
96023338 TA
1 TA
96023340 TGATTATTGC
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
17 15 0.18
19 41 0.49
21 3 0.04
22 15 0.18
23 9 0.11
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:96023280 original size:19 final size:19
Alignment explanation
Indices: 96023256--96023391 Score: 138
Period size: 19 Copynumber: 6.9 Consensus size: 19
96023246 AATCATATCT
96023256 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96023275 TCTAAGATTGCCA-ATCATA
1 TCTAAGATTG-CATATCATA
96023294 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
96023311 TCTAAGATTGCAAATCATA
1 TCTAAGATTGCATATCATA
*
96023330 TCTAAGATTATGATTATTGCAATCATA
1 TCTAAGA-T-TG--CA-T---ATCATA
96023357 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
96023374 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96023392 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 3, Indels: 28
0.76 0.02 0.21
Matches are distributed among these distances:
17 32 0.32
19 45 0.45
20 4 0.04
21 2 0.02
23 1 0.01
25 2 0.02
26 1 0.01
27 13 0.13
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96023313 original size:36 final size:36
Alignment explanation
Indices: 96023256--96023384 Score: 159
Period size: 36 Copynumber: 3.8 Consensus size: 36
96023246 AATCATATCT
96023256 TCTAAGATTGCATATCATATCTAAGATTGCCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCCAATCATA
*
96023294 TCTAAGATTGTATCATATCTAAGATTGCAAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCCAATCATA
*
96023330 TCTAAGA-T-TAT--GAT-T---ATTG-CAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCCAATCATA
96023357 TCTAAGATTGTATCATATCTAAGATTGC
1 TCTAAGATTGTATCATATCTAAGATTGC
96023385 ATATCATTGA
Statistics
Matches: 78, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.18
28 5 0.06
29 3 0.04
31 3 0.04
32 3 0.04
34 3 0.04
35 5 0.06
36 32 0.41
38 10 0.13
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCCAATCATA
Found at i:96023373 original size:17 final size:17
Alignment explanation
Indices: 96023351--96023383 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96023341 GATTATTGCA
96023351 ATCATATCTAAGATTGT
1 ATCATATCTAAGATTGT
96023368 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
96023384 CATATCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
ATCATATCTAAGATTGT
Found at i:96023389 original size:14 final size:15
Alignment explanation
Indices: 96023352--96023389 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
96023342 ATTATTGCAA
96023352 TCATATCTAAGATTG
1 TCATATCTAAGATTG
96023367 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
96023384 -CATATC
1 TCATATC
96023390 ATTGAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:96024695 original size:22 final size:21
Alignment explanation
Indices: 96024652--96024695 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
96024642 AACCATTTAA
* * *
96024652 AATCGAGTTTTGGAAAATGGG
1 AATCGACTTTAGGAAAACGGG
96024673 AATCGACTTTAGGAAAAACGGG
1 AATCGACTTTAGG-AAAACGGG
96024695 A
1 A
96024696 GTCGCCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.23
Consensus pattern (21 bp):
AATCGACTTTAGGAAAACGGG
Found at i:96025668 original size:12 final size:13
Alignment explanation
Indices: 96025650--96025704 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
96025640 TAAAAATATG
96025650 ATATTTAATAATA
1 ATATTTAATAATA
96025663 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
96025674 GTATTTAATATACA
1 ATATTTAATA-ATA
*
96025688 ATATGTAATATATA
1 ATATTTAATA-ATA
96025702 ATA
1 ATA
96025705 ACAAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.15
12 10 0.29
13 3 0.09
14 16 0.47
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:96025752 original size:24 final size:24
Alignment explanation
Indices: 96025701--96025752 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
96025691 TGTAATATAT
* * *
96025701 AATAACAAAAAATATTTATGAAAG
1 AATAACAAAAAATATATATAAAAA
*
96025725 AATAATAAAAAATATATATAAAAA
1 AATAACAAAAAATATATATAAAAA
96025749 AATA
1 AATA
96025753 TGTAAAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (24 bp):
AATAACAAAAAATATATATAAAAA
Found at i:96025848 original size:19 final size:19
Alignment explanation
Indices: 96025800--96025849 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
96025790 AAATATTAGT
96025800 TTAA-AATGAAAT-AATAC
1 TTAATAATGAAATAAATAC
* *
96025817 ATAATAAAT-AAATAAATAG
1 TTAAT-AATGAAATAAATAC
96025836 TTAATAATGAAATA
1 TTAATAATGAAATA
96025850 TGTATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.12
18 7 0.27
19 16 0.62
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (19 bp):
TTAATAATGAAATAAATAC
Found at i:96025926 original size:12 final size:11
Alignment explanation
Indices: 96025909--96026008 Score: 54
Period size: 12 Copynumber: 9.2 Consensus size: 11
96025899 TAAAATTATA
96025909 AATAATATAAT
1 AATAATATAAT
96025920 GAATAATA-AA-
1 -AATAATATAAT
96025930 ACATAA-ATAAT
1 A-ATAATATAAT
96025941 -ATAATAGATAAT
1 AATAAT--ATAAT
*
96025953 ATATGATATACAT
1 A-ATAATATA-AT
*
96025966 -ATCATATAAT
1 AATAATATAAT
96025976 AAGTAATAT-AT
1 AA-TAATATAAT
96025987 AATAA-A-AAT
1 AATAATATAAT
*
96025996 AAAAATATAAT
1 AATAATATAAT
96026007 AA
1 AA
96026009 ATGTTAATAA
Statistics
Matches: 70, Mismatches: 4, Indels: 29
0.68 0.04 0.28
Matches are distributed among these distances:
9 13 0.19
10 12 0.17
11 19 0.27
12 20 0.29
13 2 0.03
14 4 0.06
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (11 bp):
AATAATATAAT
Found at i:96026093 original size:25 final size:24
Alignment explanation
Indices: 96026045--96026126 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 24
96026035 TATATAGGAA
96026045 AATAATATATGATAAATAAG-ATTTTT
1 AATAA-ATA-GATAAAT-AGTATTTTT
*
96026071 ATATAAATAGATAAATAGTATTTAT
1 A-ATAAATAGATAAATAGTATTTTT
* *
96026096 AAT-AATATATATATAGT-TTTTT
1 AATAAATAGATAAATAGTATTTTT
96026118 AAATAAATA
1 -AATAAATA
96026127 AATTATATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
22 4 0.08
23 15 0.31
24 8 0.17
25 13 0.27
26 4 0.08
27 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
AATAAATAGATAAATAGTATTTTT
Found at i:96027483 original size:30 final size:29
Alignment explanation
Indices: 96027449--96027505 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
96027439 GATGTGTGTA
*
96027449 TAACGGGTCTG-GGTTATTTTGGGTTTGTTG
1 TAACGGGTCTGAGG-TA-TTTGGGCTTGTTG
96027479 TAACGGGTCTGAGGTATTTGGGCTTGT
1 TAACGGGTCTGAGGTATTTGGGCTTGT
96027506 GTTTGGGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 13 0.52
31 2 0.08
ACGTcount: A:0.12, C:0.09, G:0.37, T:0.42
Consensus pattern (29 bp):
TAACGGGTCTGAGGTATTTGGGCTTGTTG
Found at i:96028283 original size:207 final size:206
Alignment explanation
Indices: 96027779--96028326 Score: 823
Period size: 205 Copynumber: 2.7 Consensus size: 206
96027769 AAATCTACTT
*
96027779 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCACCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCACCGTAAACAC
* * *
96027844 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *** * * *
96027909 GGATC-TGCTTCAGTATAAACATCTAAAGGTTGGATTTGCTATGTGTCTGTCCTCCGTCGAAGTG
131 GGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAGTG
96027973 GAAATGCCAGA
196 GAAATGCCAGA
* * * * *
96027984 CTCCGATTT-TCTCTCT-ACCAATTCAGATATGCCAAATCATCTTAGATTTGCTTTAGCGTAAAC
1 CTTCGATTTGT-TCTCTGA-CAATACAGAGATGCCAAATCATCTTAGATTTGCTTCACCGTAAAC
*
96028047 ACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATC
64 ACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
* *
96028112 TTGGATCTTGCTTCAGTCTAATCAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAG
129 TTGGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAG
**
96028177 TGGAGCTGCCAGA
194 TGGAAATGCCAGA
* *
96028190 CTTCGATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTGCTTCATCATAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATG-CCAAATCATCTTAGATTTGCTTCACCGTAAACA
* *
96028255 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATACCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
96028320 TGGATCT
130 TGGATCT
96028327 ACTTCGGCAT
Statistics
Matches: 307, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
204 2 0.01
205 121 0.39
206 83 0.27
207 101 0.33
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCACCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACAGCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAAGTG
GAAATGCCAGA
Found at i:96036524 original size:13 final size:14
Alignment explanation
Indices: 96036496--96036524 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96036486 GACGACGATG
96036496 AATACATCAGACTC
1 AATACATCAGACTC
96036510 AATACATCA-ACTC
1 AATACATCAGACTC
96036523 AA
1 AA
96036525 ATTGCCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (14 bp):
AATACATCAGACTC
Found at i:96039113 original size:22 final size:21
Alignment explanation
Indices: 96039070--96039113 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
96039060 AACCATTTAA
* * *
96039070 AATCGAGTTTTGGAAAATGGG
1 AATCGACTTTAGGAAAACGGG
96039091 AATCGACTTTAGGAAAAACGGG
1 AATCGACTTTAGG-AAAACGGG
96039113 A
1 A
96039114 GTCGCCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.23
Consensus pattern (21 bp):
AATCGACTTTAGGAAAACGGG
Found at i:96040154 original size:22 final size:21
Alignment explanation
Indices: 96040105--96040179 Score: 62
Period size: 24 Copynumber: 3.3 Consensus size: 21
96040095 TGTAATATAT
*
96040105 AATAACAAAAAATATTTATGAAA
1 AATAATAAAAAATA-TTAT-AAA
96040128 GAATAATAAAAAATATATATAAA
1 -AATAATAAAAAATAT-TATAAA
*
96040151 AATATGTAAAAGAAT-TTATAAA
1 AATA-ATAAAA-AATATTATAAA
*
96040173 TATAATA
1 AATAATA
96040180 TAATTCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.05
22 13 0.30
23 10 0.23
24 19 0.43
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (21 bp):
AATAATAAAAAATATTATAAA
Found at i:96042420 original size:6 final size:6
Alignment explanation
Indices: 96042409--96042448 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
96042399 AAAATGAGAC
*
96042409 TATAAA TATAAA TATACA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATA
96042449 TTGTATACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (6 bp):
TATAAA
Found at i:96045834 original size:26 final size:26
Alignment explanation
Indices: 96045776--96045858 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
96045766 CATGAATTTC
96045776 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
96045801 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96045827 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
96045853 TTATCA
1 TTATCA
96045859 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 22 0.40
26 33 0.60
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96049731 original size:64 final size:64
Alignment explanation
Indices: 96049658--96049868 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
96049648 CTGGGCCAGA
*
96049658 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
96049722 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
96049784 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
96049795 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
*
96049859 CCCCATTTCA
1 GCCCATTTCA
96049869 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 24 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:96049870 original size:137 final size:137
Alignment explanation
Indices: 96049624--96049910 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
96049614 TATTGGGCCT
**
96049624 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
96049689 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAA
96049754 CATATGC
131 CATATGC
96049761 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
96049826 AGCCCCTTATTCAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAA
96049891 CATATGC
131 CATATGC
96049898 AAGCCCATTTGGG
1 AAGCCCATTTGGG
96049911 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGCCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:96051727 original size:26 final size:26
Alignment explanation
Indices: 96051691--96051774 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
96051681 CATGAATTTC
96051691 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
96051717 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96051743 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
96051769 TTATCA
1 TTATCA
96051775 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96055284 original size:48 final size:48
Alignment explanation
Indices: 96055202--96055383 Score: 167
Period size: 48 Copynumber: 3.8 Consensus size: 48
96055192 CCATGGTTAA
* * *
96055202 TGAGATCCCGTGTAAGAACATGTCTAGGACATGGCATCGGCATCGAGT
1 TGAGATCCCGTATAAGACCATATCTAGGACATGGCATCGGCATCGAGT
* * *
96055250 TGAGATCCCGTATAAGACCATATCAAGGATATGGCTTCGGCATC--GT
1 TGAGATCCCGTATAAGACCATATCTAGGACATGGCATCGGCATCGAGT
* ** * *
96055296 TAAGTGATTTCGTATAAGATCATGTCT-GGACATGGCATCGGCA-CTGA-T
1 T--GAGATCCCGTATAAGACCATATCTAGGACATGGCATCGGCATC-GAGT
* * *
96055344 ATGAGATCTCGTATAAGACCATATCTGGGATATGGCATCG
1 -TGAGATCCCGTATAAGACCATATCTAGGACATGGCATCG
96055384 ATGTGTGGTC
Statistics
Matches: 108, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
46 4 0.04
47 34 0.31
48 69 0.64
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
TGAGATCCCGTATAAGACCATATCTAGGACATGGCATCGGCATCGAGT
Found at i:96065220 original size:18 final size:18
Alignment explanation
Indices: 96065199--96065328 Score: 82
Period size: 18 Copynumber: 6.7 Consensus size: 18
96065189 TAATAGTTAG
*
96065199 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
96065217 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
96065235 TTATTCAGTATCAATCAA
1 TTATTCAGTAACAATCAA
*
96065253 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
*
96065279 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCA-A
* *
96065298 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
96065316 TTATTCAGTAACA
1 TTATTCAGTAACA
96065329 GTCGATCTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
18 52 0.61
19 16 0.19
20 1 0.01
24 1 0.01
25 2 0.02
26 13 0.15
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:96065513 original size:47 final size:47
Alignment explanation
Indices: 96065453--96065566 Score: 151
Period size: 47 Copynumber: 2.4 Consensus size: 47
96065443 AAACAGTAAC
* **
96065453 AGTAGCAGTACGGTACACATTGTACCTCATCGGAACAAATTCAG-AAT
1 AGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAA-TCAGAAAT
* *
96065500 AGTAATAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGAAAT
1 AGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCAGAAAT
96065547 AGTAACAGTAACGGTA-ACAG
1 AGTAACAGT-ACGGTACACAG
96065567 TAACAATATC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
46 3 0.05
47 50 0.85
48 6 0.10
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (47 bp):
AGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCAGAAAT
Found at i:96067045 original size:20 final size:20
Alignment explanation
Indices: 96067008--96067045 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
96066998 TTAATTTATT
* *
96067008 TAATAATAACACCTATTAAA
1 TAATAATAACAACAATTAAA
96067028 TAATAATAACAACAATTA
1 TAATAATAACAACAATTA
96067046 TAACATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (20 bp):
TAATAATAACAACAATTAAA
Found at i:96071500 original size:7 final size:6
Alignment explanation
Indices: 96071473--96071513 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
96071463 AGACCACTGA
*
96071473 TTTTAG TTTTAT TTTTAT TTTTAT TTTTATT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTT
96071514 GCTTTTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:96071500 original size:18 final size:19
Alignment explanation
Indices: 96071473--96071513 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
96071463 AGACCACTGA
96071473 TTTTAGTTTTA-TTTTTAT
1 TTTTAGTTTTATTTTTTAT
*
96071491 TTTTATTTTTATTTTTTAT
1 TTTTAGTTTTATTTTTTAT
96071510 TTTT
1 TTTT
96071514 GCTTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTAGTTTTATTTTTTAT
Found at i:96074915 original size:26 final size:26
Alignment explanation
Indices: 96074884--96074991 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
96074874 TGAAATGCCC
*
96074884 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
96074910 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
96074936 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
96074962 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96074988 ATCA
1 ATCA
96074992 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96079893 original size:12 final size:12
Alignment explanation
Indices: 96079876--96079901 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
96079866 GCCGTCCACC
96079876 CATTACTAAGCA
1 CATTACTAAGCA
96079888 CATTACTAAGCA
1 CATTACTAAGCA
96079900 CA
1 CA
96079902 ATGCTGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.23
Consensus pattern (12 bp):
CATTACTAAGCA
Done.