Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 178 of 290
Found at i:61046435 original size:39 final size:39
Alignment explanation
Indices: 61046369--61046465 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 39
61046359 AATTTAGTTC
* * * * *
61046369 GAGTATTTAATTATGTCATTATTTGAACATCATTAATAT
1 GAGTTTTTAATTATGTCATAATCTGAACAACATTAATAA
*
61046408 GAGTTTTTAATTTTGTCATAATCTGAACAACATTAATAA
1 GAGTTTTTAATTATGTCATAATCTGAACAACATTAATAA
*
61046447 G-GGTTTTAATTATGTCATA
1 GAGTTTTTAATTATGTCATA
61046466 GTTTAGGACA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 16 0.32
39 34 0.68
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (39 bp):
GAGTTTTTAATTATGTCATAATCTGAACAACATTAATAA
Found at i:61046483 original size:39 final size:38
Alignment explanation
Indices: 61046374--61046483 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 38
61046364 AGTTCGAGTA
* *
61046374 TTTAATTATGTCATTATTTGAACATCATTAATATGAGTT
1 TTTAATTATGTCA-TATTTGAACATCATTAATAAGAGGT
* * *
61046413 TTTAATTTTGTCATAATCTGAACAACATTAATAAG-GGT
1 TTTAATTATGTCAT-ATTTGAACATCATTAATAAGAGGT
* *
61046451 TTTAATTATGTCATAGTTTAGGACATCTTTAAT
1 TTTAATTATGTCATA-TTT-GAACATCATTAAT
61046484 GCATATTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
37 1 0.02
38 18 0.31
39 39 0.67
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (38 bp):
TTTAATTATGTCATATTTGAACATCATTAATAAGAGGT
Found at i:61047937 original size:52 final size:53
Alignment explanation
Indices: 61047857--61047958 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 53
61047847 TTAAGAAGTC
* ** * *
61047857 TGACTTAATAACATGCATTGATGTTGTTCAAACTAGAGCATAGTTAATAGGTG
1 TGACTTAATAACATCCATTGATAATGTTCAAACTAGAACATACTTAATAGGTG
* * *
61047910 TGACTTAA-AGCATCCATTGATAATGTTCGAATTAGAACATACTTAATAG
1 TGACTTAATAACATCCATTGATAATGTTCAAACTAGAACATACTTAATAG
61047959 ACATAAATCA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
52 33 0.80
53 8 0.20
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (53 bp):
TGACTTAATAACATCCATTGATAATGTTCAAACTAGAACATACTTAATAGGTG
Found at i:61052829 original size:13 final size:14
Alignment explanation
Indices: 61052811--61052839 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61052801 AAATTTGCTT
61052811 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
61052824 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
61052838 AA
1 AA
61052840 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:61058760 original size:45 final size:45
Alignment explanation
Indices: 61058709--61058796 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
61058699 TGTGAACCAA
* * *
61058709 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCGG
61058754 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACC
61058797 AAGTATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCGG
Found at i:61063195 original size:13 final size:13
Alignment explanation
Indices: 61063177--61063201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61063167 ATCATCAAAA
61063177 GAAAAAGTTTCAC
1 GAAAAAGTTTCAC
61063190 GAAAAAGTTTCA
1 GAAAAAGTTTCA
61063202 TCACGTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
GAAAAAGTTTCAC
Found at i:61065120 original size:53 final size:53
Alignment explanation
Indices: 61065040--61065145 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
61065030 CTTTTTTTTT
61065040 TAATTCATAACACCATTCCCTCCAATAATACCAAAATCCTTATGTGCCCAAAC
1 TAATTCATAACACCATTCCCTCCAATAATACCAAAATCCTTATGTGCCCAAAC
*
61065093 TAATTCATAACACCATTCCCTCCAATAATACCAAAATCCTTATGTGCCGAAAC
1 TAATTCATAACACCATTCCCTCCAATAATACCAAAATCCTTATGTGCCCAAAC
61065146 CTCCTAACAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (53 bp):
TAATTCATAACACCATTCCCTCCAATAATACCAAAATCCTTATGTGCCCAAAC
Found at i:61065121 original size:25 final size:25
Alignment explanation
Indices: 61065040--61065121 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
61065030 CTTTTTTTTT
61065040 TAATTCATAACACCATTCCCTCCAA
1 TAATTCATAACACCATTCCCTCCAA
* * *
61065065 TAATACCA-AA-ATCCTTATGTGCC-CAAA
1 TAAT-TCATAACA-CC--AT-TCCCTCCAA
61065092 CTAATTCATAACACCATTCCCTCCAA
1 -TAATTCATAACACCATTCCCTCCAA
61065118 TAAT
1 TAAT
61065122 ACCAAAATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
24 1 0.02
25 15 0.36
26 7 0.17
27 7 0.17
28 11 0.26
29 1 0.02
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (25 bp):
TAATTCATAACACCATTCCCTCCAA
Found at i:61066382 original size:3 final size:3
Alignment explanation
Indices: 61066374--61066401 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
61066364 GATCCCGAAA
61066374 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
61066402 TCCTACAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:61068590 original size:14 final size:14
Alignment explanation
Indices: 61068571--61068597 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61068561 GTGGTCTAGT
61068571 TGAACTGAACCGAG
1 TGAACTGAACCGAG
61068585 TGAACTGAACCGA
1 TGAACTGAACCGA
61068598 CCAAGAAATG
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:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:61072146 original size:13 final size:13
Alignment explanation
Indices: 61072130--61072157 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61072120 TTCTGAGTTC
61072130 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
61072143 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
61072156 TT
1 TT
61072158 CTTGTTCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:61073817 original size:54 final size:54
Alignment explanation
Indices: 61073742--61073856 Score: 196
Period size: 54 Copynumber: 2.1 Consensus size: 54
61073732 TCGAGCCCAA
* *
61073742 TTCTAGTTTCTTTTAGCTTGAGAATTTAATTGCTGGAATAAAGAA-TTAATTCGG
1 TTCTAGTTTCCTTTAGCTTGAGAATTTAATTGCTGGAATAAA-AATTTAATTCAG
61073796 TTCTAGTTTCCTTTAGCTTGAGAATTTAATTGCTGGAATAAAAATTTAATTCAG
1 TTCTAGTTTCCTTTAGCTTGAGAATTTAATTGCTGGAATAAAAATTTAATTCAG
61073850 TTCTAGT
1 TTCTAGT
61073857 CAGTTAGTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (54 bp):
TTCTAGTTTCCTTTAGCTTGAGAATTTAATTGCTGGAATAAAAATTTAATTCAG
Found at i:61076480 original size:49 final size:49
Alignment explanation
Indices: 61076423--61076522 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
61076413 TATGTGCGAC
* *
61076423 ATTTTTGAAATGTGATAGGTCGAAGCATAAGGACCTATTAGTGCATGAA
1 ATTTTTGAAATGTGATAGGTCAAAGCATAAGGACCTAGTAGTGCATGAA
61076472 ATTTTTGAAATGTGATAGGTCAAAGCATAAGGACCTAGTAGTGCATGAA
1 ATTTTTGAAATGTGATAGGTCAAAGCATAAGGACCTAGTAGTGCATGAA
61076521 AT
1 AT
61076523 AAAAAAGGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (49 bp):
ATTTTTGAAATGTGATAGGTCAAAGCATAAGGACCTAGTAGTGCATGAA
Found at i:61076811 original size:74 final size:74
Alignment explanation
Indices: 61076674--61076822 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 74
61076664 AGGAGCATGG
*
61076674 GCATAAAATAATGAAAAGGGAATATGATGAATACAAAAAAAAATGTGTGTAGTTGTTTCCCCCCC
1 GCATAAAATAATGAAAAGGGAATATGATGAATACAAAAAAAAATGTGTGCAGTTGTTTCCCCCCC
61076739 CATTGCCGT
66 CATTGCCGT
61076748 GCATAAAATAATGAAAAGGGAATATGATGAATACAAAAAAAAAATGTGTGCAGTTGTTTCCCCCC
1 GCATAAAATAATGAAAAGGGAATATGATGAATAC-AAAAAAAAATGTGTGCAGTTGTTTCCCCCC
61076813 CCATTGCCGT
65 CCATTGCCGT
61076823 AAGTTAAAGA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
74 34 0.47
75 39 0.53
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (74 bp):
GCATAAAATAATGAAAAGGGAATATGATGAATACAAAAAAAAATGTGTGCAGTTGTTTCCCCCCC
CATTGCCGT
Found at i:61078071 original size:39 final size:39
Alignment explanation
Indices: 61078024--61078100 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
61078014 AGACTAAGAT
* *
61078024 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTGGTGCGAGATACTAAATCCGGGCTAAGC
* *
61078063 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG
1 CCGAAGGCATTGGTGCGAGATACTAAATCCGGGCTAAG
61078101 TCTCCGGGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
CCGAAGGCATTGGTGCGAGATACTAAATCCGGGCTAAGC
Found at i:61078187 original size:40 final size:39
Alignment explanation
Indices: 61078103--61078287 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
61078093 GGGTTAAGTC
* * * *
61078103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
61078143 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
61078183 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
61078222 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
61078263 -CCGGGCTATGTCCCGAAGTCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
61078288 AAGGAGGAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 36 0.29
40 79 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61078208 original size:132 final size:132
Alignment explanation
Indices: 61077971--61078234 Score: 510
Period size: 132 Copynumber: 2.0 Consensus size: 132
61077961 TTGAATGATG
61077971 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
61078036 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG
66 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG
61078101 TC
131 TC
*
61078103 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
*
61078168 GTGCGAGATACTAATTCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG
66 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG
61078233 TC
131 TC
61078235 CCGAAGGCAT
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 130 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (132 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG
TC
Found at i:61078239 original size:79 final size:81
Alignment explanation
Indices: 61078103--61078285 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
61078093 GGGTTAAGTC
* *
61078103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
61078167 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61078182 TTCCGGGCTAAGT-CCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61078244 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
61078262 ACCGGGCTATGTCCCGAAGTCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
61078286 TGAAGGAGGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:61085756 original size:12 final size:12
Alignment explanation
Indices: 61085739--61085764 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61085729 CATTCCGAAG
61085739 TATATATATACA
1 TATATATATACA
61085751 TATATATATACA
1 TATATATATACA
61085763 TA
1 TA
61085765 AGTATGCCAT
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:61086277 original size:27 final size:27
Alignment explanation
Indices: 61086246--61086423 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61086236 TAAATTGTAC
61086246 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61086273 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61086299 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61086327 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61086355 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61086382 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61086409 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61086424 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61086360 original size:82 final size:81
Alignment explanation
Indices: 61086247--61086402 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61086237 AAATTGTACA
* *
61086247 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61086311 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61086328 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61086393 TGCGAGTTGA
65 TGCGAATTGA
61086403 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61086414 original size:82 final size:81
Alignment explanation
Indices: 61086243--61086423 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61086233 GATTAAATTG
* *
61086243 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61086308 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61086324 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61086388 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61086406 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61086424 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61087935 original size:50 final size:50
Alignment explanation
Indices: 61087876--61087975 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
61087866 AGAAACATGA
61087876 AAATTATAGAAATTGATGATTTTGGTATTTTATTTGTAAAAGCTTGACTG
1 AAATTATAGAAATTGATGATTTTGGTATTTTATTTGTAAAAGCTTGACTG
61087926 AAATTATAGAAATTGATGATTTTGGTATTTTATTTGTAAAAGCTTGACTG
1 AAATTATAGAAATTGATGATTTTGGTATTTTATTTGTAAAAGCTTGACTG
61087976 GTATTCAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (50 bp):
AAATTATAGAAATTGATGATTTTGGTATTTTATTTGTAAAAGCTTGACTG
Found at i:61102214 original size:21 final size:21
Alignment explanation
Indices: 61102189--61102230 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
61102179 AATTCTTGAG
61102189 TGGCTAGCATACCAATTCGGC
1 TGGCTAGCATACCAATTCGGC
61102210 TGGCTAGCATACCAATTCGGC
1 TGGCTAGCATACCAATTCGGC
61102231 ACTATCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (21 bp):
TGGCTAGCATACCAATTCGGC
Found at i:61103514 original size:30 final size:30
Alignment explanation
Indices: 61103480--61103576 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
61103470 AGCTCACTCC
61103480 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
61103510 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
*
61103540 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
61103570 TAGCTCA
1 TAGCTCA
61103577 TTTTAGTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:61117477 original size:27 final size:27
Alignment explanation
Indices: 61117458--61117626 Score: 230
Period size: 27 Copynumber: 6.3 Consensus size: 27
61117448 ATTACCAAAG
*
61117458 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
61117485 TACCCTTGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
61117512 TACCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
61117539 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
61117566 TACCCCCAATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
61117593 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
61117620 TACCCTC
1 TACCCTC
61117627 AATTATGAAG
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:61117630 original size:54 final size:54
Alignment explanation
Indices: 61117458--61117630 Score: 265
Period size: 54 Copynumber: 3.2 Consensus size: 54
61117448 ATTACCAAAG
* * * * *
61117458 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTT
1 TACCCTCAATTTACAGAATTATCATTTTACCCTTGATTTATAGAATTACCGTTT
* *
61117512 TACCCTCGATTTACAGAATTATCATTTTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCAATTTACAGAATTATCATTTTACCCTTGATTTATAGAATTACCGTTT
* *
61117566 TACCCCCAATTTACAGAATTATCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTATCATTTTACCCTTGATTTATAGAATTACCGTTT
61117620 TACCCTCAATT
1 TACCCTCAATT
61117631 ATGAAGTTAC
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCAATTTACAGAATTATCATTTTACCCTTGATTTATAGAATTACCGTTT
Found at i:61117667 original size:27 final size:27
Alignment explanation
Indices: 61117637--61117811 Score: 159
Period size: 27 Copynumber: 6.5 Consensus size: 27
61117627 AATTATGAAG
** *
61117637 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTATTGTAAAA
*
61117664 TTACCGAAATACCCCTAGT-TTGTAAAA
1 TTACTGAAATACCCCT-GTATTGTAAAA
61117691 TTACTGAAATACCCCTG-ATTTGTAAAA
1 TTACTGAAATACCCCTGTA-TTGTAAAA
*
61117718 TTACTGAAATACTCCTG-ATT-TACAAAA
1 TTACTGAAATACCCCTGTATTGT--AAAA
* * *
61117745 TTATTAAAATACCTCTG-ATTTGTAAAA
1 TTACTGAAATACCCCTGTA-TTGTAAAA
61117772 TTACTGAAATA-CCCTG-ATT-TACAAAA
1 TTACTGAAATACCCCTGTATTGT--AAAA
61117798 TTACTGAAATACCC
1 TTACTGAAATACCC
61117812 TTAGTTTGTA
Statistics
Matches: 125, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.01
25 3 0.02
26 23 0.18
27 93 0.74
28 4 0.03
29 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
TTACTGAAATACCCCTGTATTGTAAAA
Found at i:61117720 original size:54 final size:54
Alignment explanation
Indices: 61117637--61117811 Score: 221
Period size: 54 Copynumber: 3.3 Consensus size: 54
61117627 AATTATGAAG
** * * **
61117637 TTACTGAAATACCCCTG-TAGGGTAGAATTACCGAAATACCCCT-AGTTTGTAAAA
1 TTACTGAAATACCCCTGAT-TTGTAAAATTACTGAAATACCCCTGA-TTTACAAAA
*
61117691 TTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACTCCTGATTTACAAAA
1 TTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCCTGATTTACAAAA
* * *
61117745 TTATTAAAATACCTCTGATTTGTAAAATTACTGAAATA-CCCTGATTTACAAAA
1 TTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCCTGATTTACAAAA
61117798 TTACTGAAATACCC
1 TTACTGAAATACCC
61117812 TTAGTTTGTA
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 25 0.24
54 78 0.74
55 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (54 bp):
TTACTGAAATACCCCTGATTTGTAAAATTACTGAAATACCCCTGATTTACAAAA
Found at i:61117797 original size:26 final size:26
Alignment explanation
Indices: 61117687--61117812 Score: 171
Period size: 27 Copynumber: 4.7 Consensus size: 26
61117677 CCTAGTTTGT
**
61117687 AAAATTACTGAAATACCCCTGATTTGT
1 AAAATTACTGAAATA-CCCTGATTTAC
61117714 AAAATTACTGAAATACTCCTGATTTAC
1 AAAATTACTGAAATAC-CCTGATTTAC
* * **
61117741 AAAATTATTAAAATACCTCTGATTTGT
1 AAAATTACTGAAATACC-CTGATTTAC
61117768 AAAATTACTGAAATACCCTGATTTAC
1 AAAATTACTGAAATACCCTGATTTAC
61117794 AAAATTACTGAAATACCCT
1 AAAATTACTGAAATACCCT
61117813 TAGTTTGTAG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 28 0.32
27 59 0.68
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (26 bp):
AAAATTACTGAAATACCCTGATTTAC
Found at i:61117902 original size:27 final size:27
Alignment explanation
Indices: 61117872--61117959 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
61117862 ACCCCTATTA
* **
61117872 GGTAAAAAGACCTTAAAGCTTCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
**
61117899 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** * *
61117926 GGTAAAGTGACTGTAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
61117953 GGTAAAA
1 GGTAAAA
61117960 TGACGAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:61117963 original size:27 final size:27
Alignment explanation
Indices: 61117893--61117963 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
61117883 CTTAAAGCTT
61117893 CTGTAGGGTAAAGTGACCGTAAAGCCC
1 CTGTAGGGTAAAGTGACCGTAAAGCCC
*
61117920 CTGTAGGGTAAAGTGACTGTAATA-CCC
1 CTGTAGGGTAAAGTGACCGTAA-AGCCC
* *
61117947 CTGTATGGTAAAATGAC
1 CTGTAGGGTAAAGTGAC
61117964 GAATATGCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (27 bp):
CTGTAGGGTAAAGTGACCGTAAAGCCC
Found at i:61118327 original size:22 final size:21
Alignment explanation
Indices: 61118299--61118341 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
61118289 CAATGGGCAG
*
61118299 GAATTGGGCCCAATGGGCTTT
1 GAATTGGGCCAAATGGGCTTT
61118320 NGAATTGGGCCAAATGGGCTTT
1 -GAATTGGGCCAAATGGGCTTT
61118342 TGGGCCCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.28
Consensus pattern (21 bp):
GAATTGGGCCAAATGGGCTTT
Found at i:61118832 original size:25 final size:25
Alignment explanation
Indices: 61118794--61118863 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
61118784 AGGAAGTGCT
* *
61118794 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
61118819 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
61118844 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
61118864 ATTTAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:61118876 original size:24 final size:24
Alignment explanation
Indices: 61118795--61118876 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
61118785 GGAAGTGCTA
* *
61118795 AAAG-GGCTATGCCCCAGTTTACC
1 AAAGAGGCTTTGCCCCAGTTTATC
61118818 GAAA-AGGGCTTTGCCCCAGTTTATC
1 -AAAGA-GGCTTTGCCCCAGTTTATC
* *
61118843 AAAAAGGGCTTTGCCCCAG-TTATTT
1 AAAGA-GGCTTTGCCCCAGTTTA-TC
61118868 AAAGAGGCT
1 AAAGAGGCT
61118877 AGGCCTACAG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
24 13 0.26
25 37 0.74
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAGAGGCTTTGCCCCAGTTTATC
Found at i:61120243 original size:46 final size:47
Alignment explanation
Indices: 61120184--61120304 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
61120174 ACATTGGAAC
* *
61120184 TAAGACAATGATACCATGTAAGAGCATGTTT-GAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
61120230 TAAGACAAGGATACCGTTTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
61120277 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
61120305 CCAAGGCATG
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 27 0.41
47 39 0.59
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:61120412 original size:55 final size:54
Alignment explanation
Indices: 61120283--61120476 Score: 257
Period size: 55 Copynumber: 3.6 Consensus size: 54
61120273 TTGGTAAGAT
* * *
61120283 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
61120337 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
61120392 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
61120445 AAGGATACCACGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
61120477 NNNNNNNNNN
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.24
54 42 0.34
55 43 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:61122776 original size:98 final size:97
Alignment explanation
Indices: 61122650--61122826 Score: 246
Period size: 97 Copynumber: 1.8 Consensus size: 97
61122640 TAAGGATATT
* * * * *
61122650 ATGTAAGACCATGCTAAGGCATGGCATTGATAAGTTCTAAAAGGCAAGTAAATCATGTAAGACCG
1 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-AAAAGGCAAGGAAACCACGTAAGACCA
*
61122715 TGTCAGGACATGGCATTGATGAGTAAAGGTCCC
65 TGTCAAGACATGGCATTGATGAGTAAAGGTCCC
* * * *
61122748 ATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCAT
1 ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCAAAAGGCAAGGAAACCACGTAAGACCAT
*
61122813 GTTAAGACATGGCA
66 GTCAAGACATGGCA
61122827 ATGGTAAGTT
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
97 34 0.50
98 34 0.50
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (97 bp):
ATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCAAAAGGCAAGGAAACCACGTAAGACCAT
GTCAAGACATGGCATTGATGAGTAAAGGTCCC
Found at i:61129536 original size:55 final size:54
Alignment explanation
Indices: 61129423--61129609 Score: 173
Period size: 55 Copynumber: 3.5 Consensus size: 54
61129413 ATAAAGATAT
* *
61129423 CATGTAAGACCATGCCAATG-CATGGCATTGATAAGTTCTATAAGGAAAGGAAAT
1 CATGTAAGACCATGCCAA-GACATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
* * * * * **
61129477 CATGTCAGGCCGTGTCAAGACATGGCACTGATGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-AAAGGAAAC
* * * * *
61129532 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATACGGAAAGTATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
** *
61129585 CACATAAGACCATGTCAAGACATGG
1 CATGTAAGACCATGCCAAGACATGG
61129610 AAATGGTAAG
Statistics
Matches: 106, Mismatches: 23, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
52 4 0.04
53 29 0.27
54 30 0.28
55 38 0.36
56 5 0.05
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
Found at i:61136186 original size:41 final size:41
Alignment explanation
Indices: 61136049--61136381 Score: 280
Period size: 41 Copynumber: 8.1 Consensus size: 41
61136039 TCAAAAAGTG
* * ***
61136049 TAAAACACAGAGCAATAGCGGCG-TTTTACCAAAAACGCCAC
1 TAAAAAACAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCAC
* * * * * ** * *
61136090 T-AAAAACTGAGCAATAGTGGTGTTTTTTTTAAAACACCGC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
* *
61136130 T-AAAAACAGAACATTAGCGGCGCTTTTAGTAAAACGCCAC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
* * *
61136170 TAAAAAACAGAGCATTAACGACGCTTTTGGTAAAATGCCAC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
* * **
61136211 TAAAAAAATAGAGCATTAGCGGCGCTTTTGGTAAAACTCTGC
1 T-AAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
* * * * *
61136253 TAAAAAATAGAGCATTAGTGGTGCTTTTGGTAAAACGGCTC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
* * *
61136294 TAAAAAACAGAGCATTAGTGGCGTTTTTGGTAAAACGCCGC
1 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
* * *
61136335 T-AAAAACAAGAGCAATAGTGGTG-TTTATGGTCAAAACGCCAC
1 TAAAAAAC-AGAGCATTAGCGGCGCTTT-TGGT-AAAACGCCAC
61136377 TAAAA
1 TAAAA
61136382 GTCATATAAC
Statistics
Matches: 240, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
40 65 0.27
41 128 0.53
42 44 0.18
43 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (41 bp):
TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
Found at i:61136245 original size:83 final size:82
Alignment explanation
Indices: 61136131--61136348 Score: 267
Period size: 83 Copynumber: 2.6 Consensus size: 82
61136121 AAACACCGCT
* * *
61136131 AAAAACAGAACATTAGCGGCGCTTTTAGTAAAACGCCACTAAAAAACAGAGCATTAACGACGCTT
1 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAACAGAGCATTAACGACGCTT
*
61136196 TTGGTAAAATGCCACTAA
66 TTGGTAAAACGCCACT-A
* * * * ** **
61136214 AAAAATAGAGCATTAGCGGCGCTTTTGGTAAAACTCTGCTAAAAAATAGAGCATTAGTGGTGCTT
1 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAACAGAGCATTAACGACGCTT
* *
61136279 TTGGTAAAACGGCTCTA
66 TTGGTAAAACGCCACTA
* *
61136296 AAAAACAGAGCATTAGTGGCGTTTTTGGTAAAACGCCGCT-AAAAACAAGAGCA
1 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAAC-AGAGCA
61136349 ATAGTGGTGT
Statistics
Matches: 114, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
81 5 0.04
82 42 0.37
83 67 0.59
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (82 bp):
AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAACAGAGCATTAACGACGCTT
TTGGTAAAACGCCACTA
Found at i:61136563 original size:7 final size:7
Alignment explanation
Indices: 61136552--61136615 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
61136542 TTTTTTTTTG
*
61136552 GGTTTAG
1 GGTTTAA
61136559 GGTTTAA
1 GGTTTAA
*
61136566 TGTTTAA
1 GGTTTAA
61136573 GGTTTAA
1 GGTTTAA
* *
61136580 GGTCTAT
1 GGTTTAA
* *
61136587 GGTCTAG
1 GGTTTAA
*
61136594 GGTTTTAT
1 GG-TTTAA
61136602 GGTTTAA
1 GGTTTAA
61136609 GGTTTAA
1 GGTTTAA
61136616 TGGCCATGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
7 42 0.89
8 5 0.11
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:61136934 original size:22 final size:22
Alignment explanation
Indices: 61136881--61136934 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
61136871 TTTAATCGTT
61136881 TAAAGTTTAGATGATAAGGGGG
1 TAAAGTTTAGATGATAAGGGGG
* *
61136903 TAAGGGTTAGA-GATTAA-GGGG
1 TAAAGTTTAGATGA-TAAGGGGG
61136924 TAGAAGTTTAG
1 TA-AAGTTTAG
61136935 GGTTTATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.35, C:0.00, G:0.37, T:0.28
Consensus pattern (22 bp):
TAAAGTTTAGATGATAAGGGGG
Found at i:61136965 original size:28 final size:29
Alignment explanation
Indices: 61136929--61136999 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
61136919 AGGGGTAGAA
* *
61136929 GTTTA-GGGTTTATGT-TTATGGCTTATG
1 GTTTAGGGGTTTAAGTGTTATGGCTTACG
*
61136956 GTTTAGGGG-TTAAGTGTTATGGGTTACG
1 GTTTAGGGGTTTAAGTGTTATGGCTTACG
*
61136984 GGTTATGGGGTTTAAG
1 GTTTA-GGGGTTTAAG
61137000 GCTTAGGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 10 0.28
28 17 0.47
29 4 0.11
30 5 0.14
ACGTcount: A:0.17, C:0.03, G:0.37, T:0.44
Consensus pattern (29 bp):
GTTTAGGGGTTTAAGTGTTATGGCTTACG
Found at i:61136981 original size:7 final size:7
Alignment explanation
Indices: 61136944--61137088 Score: 58
Period size: 7 Copynumber: 20.3 Consensus size: 7
61136934 GGGTTTATGT
*
61136944 TTATGGC
1 TTATGGG
*
61136951 TTATGGT
1 TTATGGG
*
61136958 TTAGGGG
1 TTATGGG
* *
61136965 TTAAGTG
1 TTATGGG
61136972 TTATGGG
1 TTATGGG
*
61136979 TTACGGG
1 TTATGGG
61136986 TTATGGGG
1 TTAT-GGG
* *
61136994 TTTAAGGC
1 -TTATGGG
*
61137002 TTA-GGAT
1 TTATGG-G
*
61137009 TTATGTG
1 TTATGGG
*
61137016 TTAGGGG
1 TTATGGG
*
61137023 TTTTAGGG
1 TTAT-GGG
*
61137031 TTAAGGG
1 TTATGGG
**
61137038 ACATGGG
1 TTATGGG
*
61137045 TTAGGGG
1 TTATGGG
*
61137052 TTAGGGG
1 TTATGGG
*
61137059 TTAAGGG
1 TTATGGG
*
61137066 TTAAGGG
1 TTATGGG
*
61137073 TTAAGGG
1 TTATGGG
*
61137080 TTAGGGG
1 TTATGGG
61137087 TT
1 TT
61137089 TAGGGTAATT
Statistics
Matches: 105, Mismatches: 28, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
6 2 0.02
7 89 0.85
8 11 0.10
9 3 0.03
ACGTcount: A:0.19, C:0.03, G:0.41, T:0.37
Consensus pattern (7 bp):
TTATGGG
Found at i:61137093 original size:14 final size:14
Alignment explanation
Indices: 61136958--61137094 Score: 88
Period size: 14 Copynumber: 10.1 Consensus size: 14
61136948 GGCTTATGGT
*
61136958 TTAGGGGTTAAGTG
1 TTAGGGGTTAAGGG
* *
61136972 TTATGGGTTACGGG
1 TTAGGGGTTAAGGG
*
61136986 TTATGGGGTTTAAGGC
1 TTA-GGGG-TTAAGGG
** * *
61137002 TTAGGATTTATGTG
1 TTAGGGGTTAAGGG
61137016 TTAGGGGTT-----
1 TTAGGGGTTAAGGG
61137025 TTA-GGGTTAAGGG
1 TTAGGGGTTAAGGG
** * *
61137038 ACATGGGTTAGGGG
1 TTAGGGGTTAAGGG
61137052 TTAGGGGTTAAGGG
1 TTAGGGGTTAAGGG
*
61137066 TTAAGGGTTAAGGG
1 TTAGGGGTTAAGGG
*
61137080 TTAGGGGTTTAGGG
1 TTAGGGGTTAAGGG
61137094 T
1 T
61137095 AATTAGTGTG
Statistics
Matches: 92, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
8 5 0.05
9 3 0.03
13 1 0.01
14 70 0.76
15 5 0.05
16 8 0.09
ACGTcount: A:0.20, C:0.02, G:0.43, T:0.35
Consensus pattern (14 bp):
TTAGGGGTTAAGGG
Found at i:61137219 original size:17 final size:17
Alignment explanation
Indices: 61137193--61137236 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
61137183 AATCTATATA
* *
61137193 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
61137210 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
61137226 TTAAAAAATTT
1 TTAAAAAATTT
61137237 TCAAGGTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:61138111 original size:180 final size:180
Alignment explanation
Indices: 61137809--61138157 Score: 599
Period size: 180 Copynumber: 1.9 Consensus size: 180
61137799 TTTCCCTGTT
* * *
61137809 TTTTCCCCAGTTCTATTTCCCCCTTCTTCTTTATCCTAAATCCCTAAAGTATTATCACCCATTCC
1 TTTTCCCCAGTTCTATTCCCCCCTTCTTCCTCATCCTAAATCCCTAAAGTATTATCACCCATTCC
*
61137874 CGAATTCGACATCCCAAATCCCTAACGAATTCTCCCCGATTTGAAATCCCAAAGATTCACCTCTC
66 CGAATTCGACATCCCAAATCCCTAACGAATTCTCCCCGATTTGAAATCCCAAAGATTCACCCCTC
*
61137939 CCACCGGCCTTCTAGTCAATACCCCGTAATCCCATCTATCATTTTCCCCG
131 CCACCGGCCTTCCAGTCAATACCCCGTAATCCCATCTATCATTTTCCCCG
*
61137989 TTTTCCCCAGTTCTATTCCCCCCTTTTTCCTCATCCTAAATCCCTAAAGTATTATCACCCATTCC
1 TTTTCCCCAGTTCTATTCCCCCCTTCTTCCTCATCCTAAATCCCTAAAGTATTATCACCCATTCC
* * * *
61138054 TGAATTCGACATCCCAAATCCCTAACGATTTTTCCCCGATTTGAAATCCCTAAGATTCACCCCTC
66 CGAATTCGACATCCCAAATCCCTAACGAATTCTCCCCGATTTGAAATCCCAAAGATTCACCCCTC
*
61138119 CCACCGGCCTTCCAGTCAATACCCTGTAATCCCATCTAT
131 CCACCGGCCTTCCAGTCAATACCCCGTAATCCCATCTAT
61138158 AGAAAATCGA
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
180 158 1.00
ACGTcount: A:0.24, C:0.37, G:0.07, T:0.32
Consensus pattern (180 bp):
TTTTCCCCAGTTCTATTCCCCCCTTCTTCCTCATCCTAAATCCCTAAAGTATTATCACCCATTCC
CGAATTCGACATCCCAAATCCCTAACGAATTCTCCCCGATTTGAAATCCCAAAGATTCACCCCTC
CCACCGGCCTTCCAGTCAATACCCCGTAATCCCATCTATCATTTTCCCCG
Found at i:61138467 original size:39 final size:39
Alignment explanation
Indices: 61138413--61138516 Score: 208
Period size: 39 Copynumber: 2.7 Consensus size: 39
61138403 ATTTTTTGTG
61138413 TGGTTTGATTGGGTTCTATTAATTTGCATTTGCGTATAA
1 TGGTTTGATTGGGTTCTATTAATTTGCATTTGCGTATAA
61138452 TGGTTTGATTGGGTTCTATTAATTTGCATTTGCGTATAA
1 TGGTTTGATTGGGTTCTATTAATTTGCATTTGCGTATAA
61138491 TGGTTTGATTGGGTTCTATTAATTTG
1 TGGTTTGATTGGGTTCTATTAATTTG
61138517 TGGTTTGATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.19, C:0.07, G:0.24, T:0.50
Consensus pattern (39 bp):
TGGTTTGATTGGGTTCTATTAATTTGCATTTGCGTATAA
Found at i:61144962 original size:41 final size:41
Alignment explanation
Indices: 61144855--61145155 Score: 315
Period size: 41 Copynumber: 7.4 Consensus size: 41
61144845 CGTTTTACCA
* * * **
61144855 AAAACGCCACTAAAAACT-GAGCAATAGTGGTG-TTTTTTT
1 AAAACGCCACTAAAAAATAGAGCATTAGTGGCGCTTTTGGT
* * * * * *
61144894 AAAACACCGCT-AAAAACAGAACATTAGCGGCGCTTTTAGT
1 AAAACGCCACTAAAAAATAGAGCATTAGTGGCGCTTTTGGT
* *
61144934 AAAACGCCACTAAAAAATAGAGCATTAGCGACGCTTTTGGT
1 AAAACGCCACTAAAAAATAGAGCATTAGTGGCGCTTTTGGT
*
61144975 AAAATGCCACTAAAAAAATAGAGCATTAGTGGCGCTTTTGGT
1 AAAACGCCACT-AAAAAATAGAGCATTAGTGGCGCTTTTGGT
* * *
61145017 AAAACTCTACTAAAAAATAGAGCATTAGTGGTGCTTTTGGT
1 AAAACGCCACTAAAAAATAGAGCATTAGTGGCGCTTTTGGT
* * * *
61145058 AAAACGGCTCTAAAAAACAGAGCATTAGTGGCGTTTTTGGT
1 AAAACGCCACTAAAAAATAGAGCATTAGTGGCGCTTTTGGT
* * *
61145099 AAAACGCCGCTAAAAACA-AGAGCAATAGTGGTG-TTTATGGT
1 AAAACGCCACTAAAAA-ATAGAGCATTAGTGGCGCTTT-TGGT
61145140 CAAAACGCCACTAAAA
1 -AAAACGCCACTAAAA
61145156 GTCATATAAC
Statistics
Matches: 220, Mismatches: 35, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
38 4 0.02
39 19 0.09
40 17 0.08
41 129 0.59
42 51 0.23
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (41 bp):
AAAACGCCACTAAAAAATAGAGCATTAGTGGCGCTTTTGGT
Found at i:61145096 original size:82 final size:81
Alignment explanation
Indices: 61144855--61145155 Score: 338
Period size: 83 Copynumber: 3.7 Consensus size: 81
61144845 CGTTTTACCA
* ** * * *
61144855 AAAACGCCACTAAAAACT-GAGCAATAGTGGTGTTTTTTTAAAACACCGCT-AAAAACAGAACAT
1 AAAACGCCACTAAAAAATAGAGCAATAGTGGTGTTTTGGTAAAACGCCACTAAAAAACAGAGCAT
* *
61144918 TAGCGGCGCTTTTAGT
66 TAGTGGCGCTTTTGGT
* * ** * *
61144934 AAAACGCCACTAAAAAATAGAGCATTAGCGACGCTTTTGGTAAAATGCCACTAAAAAAATAGAGC
1 AAAACGCCACTAAAAAATAGAGCAATAGTGGTG-TTTTGGTAAAACGCCACT-AAAAAACAGAGC
61144999 ATTAGTGGCGCTTTTGGT
64 ATTAGTGGCGCTTTTGGT
* * * * *
61145017 AAAACTCTACTAAAAAATAGAGCATTAGTGGTGCTTTTGGTAAAACGGCTCTAAAAAACAGAGCA
1 AAAACGCCACTAAAAAATAGAGCAATAGTGGTG-TTTTGGTAAAACGCCACTAAAAAACAGAGCA
*
61145082 TTAGTGGCGTTTTTGGT
65 TTAGTGGCGCTTTTGGT
*
61145099 AAAACGCCGCTAAAAACA-AGAGCAATAGTGGTGTTTATGGTCAAAACGCCACTAAAA
1 AAAACGCCACTAAAAA-ATAGAGCAATAGTGGTGTTT-TGGT-AAAACGCCACTAAAA
61145156 GTCATATAAC
Statistics
Matches: 185, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
79 17 0.09
80 10 0.05
81 16 0.09
82 59 0.32
83 83 0.45
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (81 bp):
AAAACGCCACTAAAAAATAGAGCAATAGTGGTGTTTTGGTAAAACGCCACTAAAAAACAGAGCAT
TAGTGGCGCTTTTGGT
Found at i:61145338 original size:7 final size:7
Alignment explanation
Indices: 61145327--61145390 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
61145317 TTTTTTTTTG
*
61145327 GGTTTAG
1 GGTTTAA
61145334 GGTTTAA
1 GGTTTAA
*
61145341 TGTTTAA
1 GGTTTAA
61145348 GGTTTAA
1 GGTTTAA
* *
61145355 GGTCTAT
1 GGTTTAA
* *
61145362 GGTCTAG
1 GGTTTAA
*
61145369 GGTTTTAT
1 GG-TTTAA
61145377 GGTTTAA
1 GGTTTAA
61145384 GGTTTAA
1 GGTTTAA
61145391 TGGCCATGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
7 42 0.89
8 5 0.11
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:61145708 original size:22 final size:22
Alignment explanation
Indices: 61145655--61145708 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
61145645 TTTAATCGTT
61145655 TAAAGTTTAGATGATAAAGGGG
1 TAAAGTTTAGATGATAAAGGGG
* * *
61145677 TAAGGGTTAGA-GATTAAGGGG
1 TAAAGTTTAGATGATAAAGGGG
61145698 TAGAAGTTTAG
1 TA-AAGTTTAG
61145709 GGTTTATGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.28
Consensus pattern (22 bp):
TAAAGTTTAGATGATAAAGGGG
Found at i:61145739 original size:28 final size:30
Alignment explanation
Indices: 61145703--61145773 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
61145693 AGGGGTAGAA
*
61145703 GTTTA-GGGTTTATGT-TTATGGCTTA-GG
1 GTTTAGGGGTTTAAGTGTTATGGCTTACGG
*
61145730 GTTTAGGGG-TTAAGTGTTATGGGTTACGG
1 GTTTAGGGGTTTAAGTGTTATGGCTTACGG
61145759 G-TTATGGGGTTTAAG
1 GTTTA-GGGGTTTAAG
61145774 GCTTAGGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 10 0.27
28 15 0.41
29 7 0.19
30 5 0.14
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (30 bp):
GTTTAGGGGTTTAAGTGTTATGGCTTACGG
Found at i:61145753 original size:14 final size:14
Alignment explanation
Indices: 61145718--61145861 Score: 58
Period size: 14 Copynumber: 10.1 Consensus size: 14
61145708 GGGTTTATGT
*
61145718 TTATGGCTT-AGGG
1 TTATGGGTTAAGGG
* *
61145731 TTTAGGGGTTAAGTG
1 -TTATGGGTTAAGGG
*
61145746 TTATGGGTTACGGG
1 TTATGGGTTAAGGG
*
61145760 TTATGGGGTTTAAGGC
1 TTAT-GGG-TTAAGGG
* * *
61145776 TTA-GGATTTATGTG
1 TTATGG-GTTAAGGG
* *
61145790 TTAGGGGTTTTAGGG
1 TTATGGG-TTAAGGG
* ** *
61145805 TTAAGGGACATGGG
1 TTATGGGTTAAGGG
* *
61145819 TTAGGGGTTAGGGG
1 TTATGGGTTAAGGG
*
61145833 TTAAGGGTTAAGGG
1 TTATGGGTTAAGGG
* *
61145847 TTAGGGGTTTAGGG
1 TTATGGGTTAAGGG
61145861 T
1 T
61145862 AATTAGTGCG
Statistics
Matches: 95, Mismatches: 29, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
14 69 0.73
15 18 0.19
16 8 0.08
ACGTcount: A:0.19, C:0.03, G:0.42, T:0.36
Consensus pattern (14 bp):
TTATGGGTTAAGGG
Found at i:61145987 original size:17 final size:17
Alignment explanation
Indices: 61145961--61146004 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
61145951 AATCTATATA
* *
61145961 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
61145978 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
61145994 TTAAAAAATTT
1 TTAAAAAATTT
61146005 TCAAGGTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:61146880 original size:181 final size:182
Alignment explanation
Indices: 61146564--61146926 Score: 631
Period size: 181 Copynumber: 2.0 Consensus size: 182
61146554 ATACACTTAA
* * * *
61146564 CATTTTCCCTGTTTTTTCCCCAGTTCTATTTCCCCCTTCTTCTTTATCCTAAATCCCTAAAGTAT
1 CATTTTCCCCGTTTTTTCCCCAGTTCTATTCCCCCCTTCTTCCTCATCCTAAATCCCTAAAGTAT
61146629 TATCACCCATTCCCGAATTCGACATCCCAAATCCCTAACAAATTTTCCCCGATTTGAAATCCCAA
66 TATCACCCATTCCCGAATTCGACATCCCAAATCCCTAACAAATTTTCCCCGATTTGAAATCCCAA
* *
61146694 AGATTCACCTCTCCCACCGGCCTTCTAGTCAATACCCCGTAATCCCATCTAT
131 AGATTCACCCCTCCCACCGGCCTTCCAGTCAATACCCCGTAATCCCATCTAT
61146746 CATTTTCCCCG-TTTTTCCCCAGTTCTATTCCCCCCTT-TATCCTCATCCTAAATCCCTAAAGTA
1 CATTTTCCCCGTTTTTTCCCCAGTTCTATTCCCCCCTTCT-TCCTCATCCTAAATCCCTAAAGTA
*
61146809 TTATCACCCATTCCCGAATTCGACATCCCAAATCCCTAACAAATTTTCCCCGATTTGAAATCCCT
65 TTATCACCCATTCCCGAATTCGACATCCCAAATCCCTAACAAATTTTCCCCGATTTGAAATCCCA
*
61146874 AAGATTCACCCCTCCCACCGGCCTTCCAGTCAATACCCTGTAATCCCATCTAT
130 AAGATTCACCCCTCCCACCGGCCTTCCAGTCAATACCCCGTAATCCCATCTAT
61146927 AGAAAATCGA
Statistics
Matches: 172, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
180 1 0.01
181 161 0.94
182 10 0.06
ACGTcount: A:0.24, C:0.37, G:0.07, T:0.32
Consensus pattern (182 bp):
CATTTTCCCCGTTTTTTCCCCAGTTCTATTCCCCCCTTCTTCCTCATCCTAAATCCCTAAAGTAT
TATCACCCATTCCCGAATTCGACATCCCAAATCCCTAACAAATTTTCCCCGATTTGAAATCCCAA
AGATTCACCCCTCCCACCGGCCTTCCAGTCAATACCCCGTAATCCCATCTAT
Found at i:61150518 original size:9 final size:9
Alignment explanation
Indices: 61150506--61150645 Score: 60
Period size: 9 Copynumber: 16.0 Consensus size: 9
61150496 ATATCATATA
61150506 ATAACTTAC
1 ATAACTTAC
61150515 ATAACTTAC
1 ATAACTTAC
*
61150524 AAAACTTAC
1 ATAACTTAC
61150533 ATAA--TAC
1 ATAACTTAC
* *
61150540 ATAA-ATAT
1 ATAACTTAC
*
61150548 ATATCATATA-
1 ATAAC-T-TAC
61150558 ATAACTTAC
1 ATAACTTAC
*
61150567 AAAACTTAC
1 ATAACTTAC
61150576 ATAA--TAC
1 ATAACTTAC
* *
61150583 ATACCTTAT
1 ATAACTTAC
* *
61150592 ATAAATT-T
1 ATAACTTAC
* *
61150600 ATATCATATC
1 ATAACTTA-C
*
61150610 ATAACTTGC
1 ATAACTTAC
*
61150619 ATAACATAC
1 ATAACTTAC
* *
61150628 AAAACTTAG
1 ATAACTTAC
*
61150637 TTAACTTAC
1 ATAACTTAC
61150646 GTAATATATA
Statistics
Matches: 95, Mismatches: 27, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
7 13 0.14
8 12 0.13
9 59 0.62
10 9 0.09
11 2 0.02
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:61150523 original size:52 final size:52
Alignment explanation
Indices: 61150467--61150635 Score: 234
Period size: 52 Copynumber: 3.2 Consensus size: 52
61150457 CATATAATAT
61150467 CTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTACATAA
1 CTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTACATAA
*
61150519 CTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTACAAAA
1 CTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTACATAA
* * * * * *
61150571 CTTACATAA--TACATACCTTATATAAATTTATATCATATCATAACTTGCATAA
1 CTTACAAAACTTACATA--ATACATAAATATATATCATATAATAACTTACATAA
*
61150623 CATACAAAACTTA
1 CTTACAAAACTTA
61150636 GTTAACTTAC
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
50 6 0.06
52 95 0.92
54 2 0.02
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.33
Consensus pattern (52 bp):
CTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTACATAA
Found at i:61150548 original size:43 final size:44
Alignment explanation
Indices: 61150458--61150585 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 44
61150448 TATATATCAC
* * * *
61150458 ATATAATATCTTACAAAACTTACATAA--TACATAAATATATATC
1 ATATAATATCTTACATAACTTACAAAACTTACAT-AATACATATA
*
61150501 ATATAATAACTTACATAACTTACAAAACTTACATAATACATA-A
1 ATATAATATCTTACATAACTTACAAAACTTACATAATACATATA
61150544 ATAT-ATATCATATA-ATAACTTACAAAACTTACATAATACATA
1 ATATAATATC-T-TACATAACTTACAAAACTTACATAATACATA
61150586 CCTTATATAA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
42 4 0.05
43 57 0.76
44 9 0.12
45 5 0.07
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (44 bp):
ATATAATATCTTACATAACTTACAAAACTTACATAATACATATA
Found at i:61154924 original size:28 final size:28
Alignment explanation
Indices: 61154861--61155070 Score: 341
Period size: 28 Copynumber: 7.5 Consensus size: 28
61154851 ATTTTAAGTC
* *
61154861 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61154888 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61154916 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61154944 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61154972 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61155000 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61155028 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
61155056 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61155071 GTACAATTTA
Statistics
Matches: 171, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.13
28 149 0.87
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:61154953 original size:56 final size:56
Alignment explanation
Indices: 61154861--61155070 Score: 377
Period size: 56 Copynumber: 3.8 Consensus size: 56
61154851 ATTTTAAGTC
* * * *
61154861 CGCACACTCAGTGCTATATAATCAA-CTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAGTCAAACT
61154916 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAGTCAAACT
61154972 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAGTCAAACT
61155028 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCT
61155071 GTACAATTTA
Statistics
Matches: 150, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
55 23 0.15
56 127 0.85
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:61159331 original size:13 final size:14
Alignment explanation
Indices: 61159315--61159343 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61159305 TTATAAATAT
61159315 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
61159328 TTATAATGGTTTAA
1 TTATAATGGTTTAA
61159342 TT
1 TT
61159344 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:61159780 original size:21 final size:21
Alignment explanation
Indices: 61159753--61159818 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
61159743 ACTTAGAGCG
*
61159753 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* ** *
61159774 GCGGCAGCAGCGAAAGAGGTA
1 GAGGCAGCAGCGAGGGAGGCA
*
61159795 GAGGCAGTAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
61159816 GAG
1 GAG
61159819 TAGAGCAGAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.50, T:0.03
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:61166824 original size:15 final size:16
Alignment explanation
Indices: 61166804--61166833 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61166794 AAGATCTTAT
61166804 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
61166819 AATCATAACCTTACT
1 AATCATAACCTTACT
61166834 GAGGGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:61186036 original size:42 final size:42
Alignment explanation
Indices: 61185905--61186039 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 42
61185895 AGATTCCATA
*** ** * *
61185905 TAAGACCATATCTGGGATATGGCATCGGCATGTCATTTTGTG
1 TAAGACCATATCTGGGATATGGCATCAAAATGAGACTTCGTG
** * * *
61185947 TAAGACCACGTCTGGGACATGGCTTCGAAAATGAGACTTCGTA
1 TAAGACCATATCTGGGATATGGCATC-AAAATGAGACTTCGTG
* *
61185990 TAAGACCATATCTGGGATATGGCATCAATATGAGACATCGTG
1 TAAGACCATATCTGGGATATGGCATCAAAATGAGACTTCGTG
61186032 TAAGACCA
1 TAAGACCA
61186040 AGTTGGGCTA
Statistics
Matches: 73, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 43 0.59
43 30 0.41
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCAAAATGAGACTTCGTG
Found at i:61187357 original size:13 final size:13
Alignment explanation
Indices: 61187339--61187363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61187329 GCCTAGCACA
61187339 CGGCCGTGTGACT
1 CGGCCGTGTGACT
61187352 CGGCCGTGTGAC
1 CGGCCGTGTGAC
61187364 CCTATTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGCCGTGTGACT
Found at i:61193788 original size:18 final size:18
Alignment explanation
Indices: 61193767--61193801 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
61193757 TTTTTCTTTT
61193767 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
61193785 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
61193802 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:61194713 original size:15 final size:14
Alignment explanation
Indices: 61194695--61194744 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 14
61194685 TTTAACTTGA
61194695 TTTTTTTTGCTCACC
1 TTTTTTTTGCTCA-C
61194710 TTTTTTTTTGCTCGA-
1 -TTTTTTTTGCTC-AC
61194725 TTTTTTTT--TCAC
1 TTTTTTTTGCTCAC
61194737 TTTTTTTT
1 TTTTTTTT
61194745 TGAATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 1 0.03
12 10 0.31
14 8 0.25
16 12 0.38
17 1 0.03
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.72
Consensus pattern (14 bp):
TTTTTTTTGCTCAC
Found at i:61194715 original size:30 final size:28
Alignment explanation
Indices: 61194673--61194745 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 28
61194663 CTCGCAAGAC
*
61194673 TTTTCA-CTTTTTTTTAACTTGATTTTT
1 TTTTCACCTTTTTTTTAACTCGATTTTT
**
61194700 TTTGCTCACCTTTTTTTTTGCTCGATTTTT
1 TTT--TCACCTTTTTTTTAACTCGATTTTT
*
61194730 TTTTCACTTTTTTTTT
1 TTTTCACCTTTTTTTT
61194746 GAATTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 3 0.08
28 12 0.31
29 3 0.08
30 21 0.54
ACGTcount: A:0.10, C:0.15, G:0.05, T:0.70
Consensus pattern (28 bp):
TTTTCACCTTTTTTTTAACTCGATTTTT
Found at i:61194741 original size:13 final size:14
Alignment explanation
Indices: 61194725--61194788 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 14
61194715 TTTTGCTCGA
*
61194725 TTTTTTTTTC--AC
1 TTTTTTTTTCAAAT
*
61194737 TTTTTTTTT-GAAT
1 TTTTTTTTTCAAAT
61194750 TTTTTTTTTCAATCAAT
1 TTTTTTTTTC-A--AAT
*
61194767 TTTTTTTTTCGAAT
1 TTTTTTTTTCAAAT
61194781 TTTTTTTT
1 TTTTTTTT
61194789 GATTTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 9 0.21
13 10 0.23
14 11 0.26
17 13 0.30
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTTTTTTCAAAT
Found at i:61194793 original size:11 final size:13
Alignment explanation
Indices: 61194711--61194798 Score: 60
Period size: 13 Copynumber: 6.6 Consensus size: 13
61194701 TTGCTCACCT
61194711 TTTTTTTTGCTCG-A
1 TTTTTTTT--TCGAA
*
61194725 TTTTTTTTTC-AC
1 TTTTTTTTTCGAA
61194737 TTTTTTTTT-GAA
1 TTTTTTTTTCGAA
*
61194749 TTTTTTTTTTCAATCAA
1 -TTTTTTTTTC---GAA
61194766 TTTTTTTTTTCGAA
1 -TTTTTTTTTCGAA
61194780 TTTTTTTTT-G-A
1 TTTTTTTTTCGAA
61194791 TTTTTTTT
1 TTTTTTTT
61194799 GTTACTCCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
11 9 0.14
12 13 0.21
13 18 0.29
14 10 0.16
17 13 0.21
ACGTcount: A:0.12, C:0.08, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:61196181 original size:10 final size:10
Alignment explanation
Indices: 61196150--61196206 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
61196140 ATAAAATAAA
*
61196150 TGAGCTGAAT
1 TGAGCTCAAT
*
61196160 TGTAGCTAAAT
1 TG-AGCTCAAT
61196171 TGAGCTCAAT
1 TGAGCTCAAT
* *
61196181 TGAGCTGAAA
1 TGAGCTCAAT
61196191 TGAGCTCAAT
1 TGAGCTCAAT
61196201 TGAGCT
1 TGAGCT
61196207 GGTCGGAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
10 31 0.77
11 9 0.22
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (10 bp):
TGAGCTCAAT
Found at i:61196207 original size:20 final size:20
Alignment explanation
Indices: 61196147--61196207 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
61196137 CCAATAAAAT
*
61196147 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
61196167 AAATTGAGCTCAATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
61196188 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
61196208 GTCGGAGTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
20 24 0.63
21 14 0.37
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:61197695 original size:10 final size:10
Alignment explanation
Indices: 61197682--61197719 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
61197672 TTGTAGCTAA
61197682 ATTGAGCTCG
1 ATTGAGCTCG
61197692 ATTGAGCT-G
1 ATTGAGCTCG
61197701 ACTTGAGCTCG
1 A-TTGAGCTCG
*
61197712 AGTGAGCT
1 ATTGAGCT
61197720 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:61197699 original size:20 final size:20
Alignment explanation
Indices: 61197659--61197719 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
61197649 ACCAATAAAA
61197659 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
61197679 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * *
61197699 TGACTTGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
61197719 T
1 T
61197720 GGAAACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.69
21 10 0.28
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:61197720 original size:20 final size:20
Alignment explanation
Indices: 61197683--61197720 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
61197673 TGTAGCTAAA
*
61197683 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
61197703 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
61197721 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:61200459 original size:30 final size:28
Alignment explanation
Indices: 61200381--61200463 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 28
61200371 GCAAGACTTT
* *
61200381 TCACTTTTTTTTAACTTGATTTTTTTTTGC
1 TCACTTTTTTTT-CCTT-TTTTTTTTTTGC
*
61200411 TCACCTTTTTTTTTCTTTTCTTTTTTTTGC
1 TCA-CTTTTTTTTCCTTTT-TTTTTTTTGC
*
61200441 TCGA-TTTTTTTTCCCTTTTTTTT
1 TC-ACTTTTTTTTCCTTTTTTTTT
61200464 GAATTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 5 0.11
29 13 0.28
30 18 0.39
31 10 0.22
ACGTcount: A:0.07, C:0.17, G:0.05, T:0.71
Consensus pattern (28 bp):
TCACTTTTTTTTCCTTTTTTTTTTTTGC
Found at i:61205389 original size:17 final size:18
Alignment explanation
Indices: 61205367--61205407 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
61205357 CATTTCTTTT
61205367 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
61205384 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
61205402 T-TTTTG
1 TCTTTTG
61205408 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:61207680 original size:11 final size:11
Alignment explanation
Indices: 61207666--61207698 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
61207656 TTTCAAAATA
61207666 TTTTTTTTGAT
1 TTTTTTTTGAT
61207677 TTTTTTTTCGAT
1 TTTTTTTT-GAT
61207689 TTTTTTTTGA
1 TTTTTTTTGA
61207699 ATCTACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.79
Consensus pattern (11 bp):
TTTTTTTTGAT
Found at i:61210485 original size:40 final size:41
Alignment explanation
Indices: 61210391--61210493 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 41
61210381 AATGATGTCT
*
61210391 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACC
* * * *
61210431 GGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAACC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAACC
*
61210471 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
61210494 AACGAGTAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 44 0.83
41 8 0.15
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAACC
Found at i:61210802 original size:49 final size:49
Alignment explanation
Indices: 61210718--61211275 Score: 956
Period size: 49 Copynumber: 11.6 Consensus size: 49
61210708 AAGGGTTGGT
* *
61210718 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
61210765 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
61210814 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
61210863 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
61210912 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
61210961 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
61211010 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
61211059 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
61211106 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
61211155 AATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
61211202 AATGTGAAAGTG--TATATATGTGACAGGGCCGAATGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
61211249 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
61211276 TCCCGAAGGG
Statistics
Matches: 491, Mismatches: 14, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
47 152 0.31
48 1 0.00
49 338 0.69
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:61214877 original size:44 final size:44
Alignment explanation
Indices: 61214808--61214892 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
61214798 TATGGATTTG
**
61214808 AATTTCGAGTTTCGTAACTTGAGTTATGATTTATTTAGTGACTT
1 AATTTCGAGTTTCGTAACTCAAGTTATGATTTATTTAGTGACTT
61214852 AATTTCGAGTTTCGTAACTCAAGTTATGATTTATTTAGTGA
1 AATTTCGAGTTTCGTAACTCAAGTTATGATTTATTTAGTGA
61214893 TCATGACGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (44 bp):
AATTTCGAGTTTCGTAACTCAAGTTATGATTTATTTAGTGACTT
Found at i:61217044 original size:43 final size:43
Alignment explanation
Indices: 61216905--61217076 Score: 199
Period size: 43 Copynumber: 4.0 Consensus size: 43
61216895 ACATAGGATC
* *
61216905 CGATATTTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
*
61216948 CGACT-TATGATTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
61216992 CG-TACTTGATTTTGTGTAAGACC-CTGTCTGGGACAG-TGGTAT
1 CGATATTTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * *
61217034 TGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
61217077 TATATGAGCT
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.25
43 47 0.44
44 33 0.31
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:61217073 original size:85 final size:87
Alignment explanation
Indices: 61216914--61217076 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 87
61216904 CCGATATTTG
*
61216914 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTACGTGTAAGACCACGTCT
1 TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTACATGTAAGACCACGTCT
61216979 GGGACGTTGGCATCGTACTTGA
66 GGGACGTTGGCATCGTACTTGA
* * * *
61217001 TTTT-GTGTAAGACCCTGTCTGGGACAG-TGGTATTGA-TATTTGA-TTACATGTAAGACCACGT
1 TTTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGACT-TATGATTTACATGTAAGACCACGT
61217062 CTGGGACGTTGGCAT
64 CTGGGACGTTGGCAT
61217077 TATATGAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
85 33 0.48
86 31 0.45
87 5 0.07
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (87 bp):
TTTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTACATGTAAGACCACGTCT
GGGACGTTGGCATCGTACTTGA
Found at i:61219164 original size:46 final size:46
Alignment explanation
Indices: 61219114--61219289 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
61219104 TGTTTGGGCA
61219114 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61219160 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
61219205 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61219253 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61219290 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61219269 original size:93 final size:93
Alignment explanation
Indices: 61219110--61219282 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
61219100 AGGATGTTTG
* * *
61219110 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
61219175 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
61219203 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
61219268 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
61219283 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61225367 original size:6 final size:6
Alignment explanation
Indices: 61225323--61225465 Score: 71
Period size: 6 Copynumber: 23.3 Consensus size: 6
61225313 AAGAAACATT
* * *
61225323 ATCAGA A-CTAGA ATCAAA ATAAGA CA-CAGA ATCATA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA -ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
61225371 ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAAA ATTAG-
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
* * * *
61225419 GTGACAGA ATTAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA AT
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
61225466 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
5 7 0.07
6 81 0.81
7 8 0.08
8 4 0.04
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:61225405 original size:31 final size:29
Alignment explanation
Indices: 61225366--61225442 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 29
61225356 ATAATCAGAA
61225366 TCAGAATCAGAATCAGAATCAAAATTAGG
1 TCAGAATCAGAATCAGAATCAAAATTAGG
61225395 T--G-A-CAGAATCAGAATCAAAATTAGG
1 TCAGAATCAGAATCAGAATCAAAATTAGG
* *
61225420 TGACAGAATTAGAATCAGTATCA
1 T--CAGAATCAGAATCAGAATCA
61225443 GGTAATAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
25 23 0.57
26 1 0.03
27 1 0.03
29 2 0.05
30 1 0.03
31 12 0.30
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (29 bp):
TCAGAATCAGAATCAGAATCAAAATTAGG
Found at i:61225445 original size:25 final size:25
Alignment explanation
Indices: 61225373--61225436 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
61225363 GAATCAGAAT
61225373 CAGAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAAAATTAGGTGA
61225398 CAGAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAAAATTAGGTGA
*
61225423 CAGAATTAGAATCA
1 CAGAATCAGAATCA
61225437 GTATCAGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATTAGGTGA
Found at i:61225640 original size:27 final size:28
Alignment explanation
Indices: 61225584--61225646 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
61225574 GTGAGGCTGC
*
61225584 CAGATAT-TGTGACGAAGTCACCAGATA
1 CAGATATATGTGACGAAGCCACCAGATA
* *
61225611 CAGATATATGTGGCGAGGCCACCAGA-A
1 CAGATATATGTGACGAAGCCACCAGATA
61225638 CAGATATAT
1 CAGATATAT
61225647 ATATGTGGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (28 bp):
CAGATATATGTGACGAAGCCACCAGATA
Found at i:61225652 original size:31 final size:31
Alignment explanation
Indices: 61225587--61225767 Score: 110
Period size: 31 Copynumber: 5.8 Consensus size: 31
61225577 AGGCTGCCAG
* *
61225587 ATAT-TGTGACGAAGTCACCAGATACAG---
1 ATATATGTGGCGAAGCCACCAGATACAGATT
*
61225614 ATATATGTGGCGAGGCCACCAGA-ACAGATAT
1 ATATATGTGGCGAAGCCACCAGATACAGAT-T
* *
61225645 ATATATGTGGCGAAGCCATCAGATTGCAGCGAGGTT
1 ATATATGTGGCGAAGCCACCAGA-T--A-C-AGATT
* * *
61225681 GCCAGATATTGTGACGAAGTCACCAGATACAG---
1 ---ATATA-TGTGGCGAAGCCACCAGATACAGATT
*
61225713 ATATATGTGGCGAGGCCACCAGA-ACAGATAT
1 ATATATGTGGCGAAGCCACCAGATACAGAT-T
*
61225744 ATATATGTGGCGAAGCCATCAGAT
1 ATATATGTGGCGAAGCCACCAGAT
61225768 TGCAGCGAGG
Statistics
Matches: 118, Mismatches: 16, Indels: 35
0.70 0.09 0.21
Matches are distributed among these distances:
27 12 0.10
28 30 0.25
29 4 0.03
31 42 0.36
35 3 0.03
36 3 0.03
37 4 0.03
39 5 0.04
40 15 0.13
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.22
Consensus pattern (31 bp):
ATATATGTGGCGAAGCCACCAGATACAGATT
Found at i:61225739 original size:27 final size:28
Alignment explanation
Indices: 61225683--61225745 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
61225673 GCGAGGTTGC
*
61225683 CAGATAT-TGTGACGAAGTCACCAGATA
1 CAGATATATGTGACGAAGCCACCAGATA
* *
61225710 CAGATATATGTGGCGAGGCCACCAGA-A
1 CAGATATATGTGACGAAGCCACCAGATA
61225737 CAGATATAT
1 CAGATATAT
61225746 ATATGTGGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (28 bp):
CAGATATATGTGACGAAGCCACCAGATA
Found at i:61225739 original size:99 final size:99
Alignment explanation
Indices: 61225568--61225834 Score: 516
Period size: 99 Copynumber: 2.7 Consensus size: 99
61225558 CACCACAGAA
* *
61225568 ATTGCAGTGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGTTGCCAGATATTGTGACGAAGTCACCAGATACAGATATATGTGGCGAGGCCAC
61225633 CAGAACAGATATATATATGTGGCGAAGCCATCAG
66 CAGAACAGATATATATATGTGGCGAAGCCATCAG
61225667 ATTGCAGCGAGGTTGCCAGATATTGTGACGAAGTCACCAGATACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGTTGCCAGATATTGTGACGAAGTCACCAGATACAGATATATGTGGCGAGGCCAC
61225732 CAGAACAGATATATATATGTGGCGAAGCCATCAG
66 CAGAACAGATATATATATGTGGCGAAGCCATCAG
61225766 ATTGCAGCGAGGTTGCCAGATATTGTGACGAAGTCACCAGATACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGTTGCCAGATATTGTGACGAAGTCACCAGATACAGATATATGTGGCGAGGCCAC
61225831 CAGA
66 CAGA
61225835 TTGCAGCGAG
Statistics
Matches: 166, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 166 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (99 bp):
ATTGCAGCGAGGTTGCCAGATATTGTGACGAAGTCACCAGATACAGATATATGTGGCGAGGCCAC
CAGAACAGATATATATATGTGGCGAAGCCATCAG
Found at i:61225831 original size:28 final size:27
Alignment explanation
Indices: 61225782--61225835 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
61225772 GCGAGGTTGC
*
61225782 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* *
61225809 CAGATATATGTGGCGAGGCCACCAGAT
1 CAGATAT-TGTGACGAAGCCACCAGAT
61225836 TGCAGCGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:61226523 original size:27 final size:27
Alignment explanation
Indices: 61226493--61226619 Score: 103
Period size: 27 Copynumber: 4.7 Consensus size: 27
61226483 ATCGGTAGTC
*
61226493 CTACCCTGCAGGGGTATTTTAGTAATT
1 CTACCCTACAGGGGTATTTTAGTAATT
* *
61226520 CTACCCTACAGGGGTATTTTGGTATTT
1 CTACCCTACAGGGGTATTTTAGTAATT
* * * * *
61226547 CTACTCAACAAGGGTA-TTTCGATATTT
1 CTACCCTACAGGGGTATTTTAG-TAATT
** * *
61226574 CTACCCTACAAAGGTATTTTGGTATTT
1 CTACCCTACAGGGGTATTTTAGTAATT
* **
61226601 CTACCTTACAAAGGTATTT
1 CTACCCTACAGGGGTATTT
61226620 CGATAATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.05
27 78 0.91
28 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (27 bp):
CTACCCTACAGGGGTATTTTAGTAATT
Found at i:61226617 original size:54 final size:54
Alignment explanation
Indices: 61226518--61226624 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
61226508 ATTTTAGTAA
** *
61226518 TTCTACCCTACAGGGGTATTTTGGTATTTCTACTCAACAAGGGTATTTCGATAT
1 TTCTACCCTACAAAGGTATTTTGGTATTTCTACTCAACAAAGGTATTTCGATAT
*
61226572 TTCTACCCTACAAAGGTATTTTGGTATTTCTAC-CTTACAAAGGTATTTCGATA
1 TTCTACCCTACAAAGGTATTTTGGTATTTCTACTC-AACAAAGGTATTTCGATA
61226625 ATTTTGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (54 bp):
TTCTACCCTACAAAGGTATTTTGGTATTTCTACTCAACAAAGGTATTTCGATAT
Found at i:61226696 original size:27 final size:26
Alignment explanation
Indices: 61226666--61226875 Score: 197
Period size: 27 Copynumber: 7.8 Consensus size: 26
61226656 TATAAATCGG
* *
61226666 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATC-A
** **
61226693 GGGTATTTCAGTAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAATC-A
** * *
61226720 GGGTATTTCAGCAATTTCACAAATCA
1 GGGTATTTTGGTAATTTTACAAATCA
*
61226746 GGGGTATTTTGGTAATTTTACAAACTAA
1 -GGGTATTTTGGTAATTTTACAAA-TCA
*
61226774 GGGTATTTTGGTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTACAAATCA
* * *
61226800 GGGGTATTTTCGTAATTTTATAAACCAA
1 -GGGTATTTTGGTAATTTTACAAATC-A
*
61226828 GGGTATTTTAGTAA-TTTACAAATCA
1 GGGTATTTTGGTAATTTTACAAATCA
*
61226853 GGGGTATTTTGGTAATTCTACAA
1 -GGGTATTTTGGTAATTTTACAA
61226876 CTTATCCACT
Statistics
Matches: 155, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.01
26 23 0.15
27 128 0.83
28 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATCA
Found at i:61226805 original size:81 final size:81
Alignment explanation
Indices: 61226659--61226875 Score: 226
Period size: 81 Copynumber: 2.7 Consensus size: 81
61226649 GTAATTCTAT
* * * * ** ***
61226659 AAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCGAGGGT
61226724 A-TTTCAGCAATTTCAC
66 ATTTTC-GCAATTTCAC
61226740 AAATCAGGGGTATTTTGGTAATTTTACAAA-CTAAGGGTATTTTGGTAATTTTACAAACC-AGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTGGTAATTTTACAAACCGA-GG
* * *
61226803 GTATTTTCGTAATTTTAT
64 GTATTTTCGCAATTTCAC
* * * * *
61226821 AAACCAAGGGTATTTTAGTAA-TTTACAAATCAGGGGTATTTTGGTAATTCTACAA
1 AAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAA
61226876 CTTATCCACT
Statistics
Matches: 115, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
80 32 0.28
81 79 0.69
82 4 0.03
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCGAGGGT
ATTTTCGCAATTTCAC
Found at i:61230894 original size:27 final size:27
Alignment explanation
Indices: 61230864--61231053 Score: 274
Period size: 27 Copynumber: 7.0 Consensus size: 27
61230854 CACGATGGGC
61230864 AAAATAGTAATTCTGTAAATCGAGGGT
1 AAAATAGTAATTCTGTAAATCGAGGGT
61230891 AAAATAGTAATTCTGTAAATCGAGGGT
1 AAAATAGTAATTCTGTAAATCGAGGGT
* *
61230918 AAAA-AGGTCATTCTGTAAATCGTGGGT
1 AAAATA-GTAATTCTGTAAATCGAGGGT
*
61230945 AAAATAGTAATTCTGTCAATCGAGGGT
1 AAAATAGTAATTCTGTAAATCGAGGGT
**
61230972 AAAACGGTAATTCTGTAAATCGAGGGT
1 AAAATAGTAATTCTGTAAATCGAGGGT
*
61230999 AAAACAGTAATTCTGTAAATCGAGGGT
1 AAAATAGTAATTCTGTAAATCGAGGGT
* * * *
61231026 AAAATGGTAATTTTGTAATTCGGGGGT
1 AAAATAGTAATTCTGTAAATCGAGGGT
61231053 A
1 A
61231054 CTTTGATAAT
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
AAAATAGTAATTCTGTAAATCGAGGGT
Found at i:61231079 original size:27 final size:27
Alignment explanation
Indices: 61231049--61231199 Score: 132
Period size: 27 Copynumber: 5.6 Consensus size: 27
61231039 TGTAATTCGG
*
61231049 GGGTACTTT-GATAATTTTAC-AAGTCGA
1 GGGTA-TTTCGATAATTTTACAAACT-GA
* *
61231076 GGGTATTTCAATAATTTTGCAAACTGA
1 GGGTATTTCGATAATTTTACAAACTGA
61231103 GGGTATTTCGATAATTTTACAAA-TCGA
1 GGGTATTTCGATAATTTTACAAACT-GA
* * * * *
61231130 GGATATTTGGGTAATTTTATAAACTGG
1 GGGTATTTCGATAATTTTACAAACTGA
* *
61231157 GGGTACTTT-GGTAATTTTAC-AACTGG
1 GGGTA-TTTCGATAATTTTACAAACTGA
*
61231183 GGGTATTTCAATAATTT
1 GGGTATTTCGATAATTT
61231200 GGTAAAGTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
25 3 0.03
26 21 0.20
27 73 0.70
28 7 0.07
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACTGA
Found at i:61231091 original size:54 final size:54
Alignment explanation
Indices: 61231033--61231205 Score: 190
Period size: 54 Copynumber: 3.2 Consensus size: 54
61231023 GGTAAAATGG
* *
61231033 TAATTTTGT-AATTCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTGTAAACT-GGGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAA
* * * ***
61231087 TAATTTTGCAAACTGAGGGTA-TTTCGATAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTGTAAACTGGGGGTACTTT-GATAATTTTACAAATCGAGGGTATTTCAA
* * * *
61231141 TAATTTTATAAACTGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAA
1 TAATTTTGTAAACTGGGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAA
*
61231194 TAATTTGGTAAA
1 TAATTTTGTAAA
61231206 GTAAAGTATT
Statistics
Matches: 96, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
53 21 0.22
54 69 0.72
55 6 0.06
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
TAATTTTGTAAACTGGGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAA
Found at i:61231958 original size:53 final size:55
Alignment explanation
Indices: 61231873--61231999 Score: 177
Period size: 55 Copynumber: 2.3 Consensus size: 55
61231863 TTTTTGATGT
* *
61231873 CTTGACATGGTCTTACATGGTATCTTTGCCTTAT-G-AACTCACCAATGCCATGC
1 CTTGACATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCACCAATGCCATGC
* * * * *
61231926 CTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATGTCATGT
1 CTTGACATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCACCAATGCCATGC
61231981 CTTGACATGGTCTTACATG
1 CTTGACATGGTCTTACATG
61232000 ATATCCTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 30 0.47
54 1 0.02
55 33 0.52
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (55 bp):
CTTGACATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCACCAATGCCATGC
Found at i:61231992 original size:55 final size:53
Alignment explanation
Indices: 61231869--61231999 Score: 181
Period size: 53 Copynumber: 2.4 Consensus size: 53
61231859 AAGCTTTTTG
* *
61231869 ATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAACTCACCAATGCC
1 ATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTATGAACTCACCAATGCC
* * * * *
61231922 ATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATGTC
1 ATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTAT-G-AACTCACCAATGCC
61231977 ATGTCTTGACATGGTCTTACATG
1 ATGTCTTGACATGGTCTTACATG
61232000 ATATCCTTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
53 33 0.49
54 1 0.01
55 33 0.49
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
ATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTATGAACTCACCAATGCC
Found at i:61232038 original size:47 final size:47
Alignment explanation
Indices: 61231985--61232859 Score: 1716
Period size: 47 Copynumber: 18.6 Consensus size: 47
61231975 TCATGTCTTG
*
61231985 ACATGGTCTTACAT-GATATCCTTATCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGA-ATCCTTGTCTTACCAAATGCCATGTTCCAA
61232032 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232079 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232126 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232173 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232220 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232267 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232314 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232361 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232408 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232455 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232502 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232549 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232596 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232643 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232690 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232737 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
61232784 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
*
61232831 ACATGGTCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGAATCCTTGTCTTA
61232860 GTGCCAATGC
Statistics
Matches: 825, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
47 823 1.00
48 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (47 bp):
ACATGGTCTTACATGGAATCCTTGTCTTACCAAATGCCATGTTCCAA
Found at i:61239950 original size:48 final size:48
Alignment explanation
Indices: 61239818--61240044 Score: 218
Period size: 48 Copynumber: 4.8 Consensus size: 48
61239808 GTTATGTACA
* *
61239818 ATCCCATGTAAGACCATGTCTGGGACATGGC-TCTCGCATCGATATGTA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCAT-TGGCATCGATATGTG
**** *
61239866 ATTTGGTGTAAGACCATAGT-TGGG-C-T---ATCGGCATCGATATGTG
1 ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTG
* ** **
61239909 ATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCATCGACCTACG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* **
61239957 ATCCCATGTAAGACCATGTTTGGGACATGATATTGGCATCGATATGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* *
61240005 ATCCCATGTAAGACCATATCCT-GGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGT-CTGGGACATGGCATTGGCATC
61240045 CTACCATGTG
Statistics
Matches: 140, Mismatches: 30, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
42 2 0.01
43 28 0.20
44 2 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 102 0.73
49 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
Found at i:61250508 original size:48 final size:49
Alignment explanation
Indices: 61250308--61250513 Score: 164
Period size: 48 Copynumber: 4.4 Consensus size: 49
61250298 GCATTAGGGT
* * * *
61250308 TATGTACGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCAA
1 TATGTA-GATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGA
* ** * * * *
61250358 TATGCA-ATTTCGTGTAAGACCATAG-CT-GGGC-T---ATCGACATCGA
1 TATGTAGATCCCATGTAAGACCAT-GTCTAGGACATGACATTGGCATCGA
* * * *
61250401 TATGT-GATCCCATGTAAGACCATGTTTGGGTCATGGCATTGGCATCGA
1 TATGTAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGA
*
61250449 -A-CTACGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGA
1 TATGTA-GATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGA
61250497 TATGTAG-TCCCATGTAA
1 TATGTAGATCCCATGTAA
61250514 AACTATATCT
Statistics
Matches: 121, Mismatches: 23, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.01
43 26 0.21
44 3 0.02
45 1 0.01
46 2 0.02
47 4 0.03
48 74 0.61
49 3 0.02
50 7 0.06
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (49 bp):
TATGTAGATCCCATGTAAGACCATGTCTAGGACATGACATTGGCATCGA
Found at i:61253167 original size:22 final size:22
Alignment explanation
Indices: 61253142--61253195 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
61253132 ACGGCTCAAC
* *
61253142 GCCGTAGACAGGACAACATATA
1 GCCGTAAACAGGACAACACATA
61253164 GCCGTAAACAGGACAACACATA
1 GCCGTAAACAGGACAACACATA
*
61253186 GCTGTAAACA
1 GCCGTAAACA
61253196 TCGCAGCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.13
Consensus pattern (22 bp):
GCCGTAAACAGGACAACACATA
Found at i:61253442 original size:41 final size:41
Alignment explanation
Indices: 61253378--61253500 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
61253368 TAAAAGCCAA
* * *
61253378 CGGTGGATCCACGATCGTCAAGCAACCATGCAATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
61253419 CGGTGGATCCACGGTCGTTAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
61253460 CGGTGGATCCACGGTCGTCAAGCAAACATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
61253501 TTCTTCCTCC
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:61253790 original size:27 final size:27
Alignment explanation
Indices: 61253738--61253948 Score: 194
Period size: 27 Copynumber: 7.8 Consensus size: 27
61253728 TTTCACCCTA
* * * * *
61253738 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
*
61253765 CAAGGGTATTTTGGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* **
61253792 CAATGGTATTTCT-GTAATTTTTTAAAGT
1 CAAGGGTATTT-TGGTAATTTTGCAAA-T
* **
61253820 CAAGGGTATTTTTGTAATTTTTTAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* * *
61253847 -AGGGGTATTTCT-ATAATTTTCCAAAT
1 CAAGGGTATTT-TGGTAATTTTGCAAAT
* * *
61253873 CAAAGATATTTTGGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
* *
61253900 CAGGGGTATTTTGGTAATTTTGCTAAT
1 CAAGGGTATTTTGGTAATTTTGCAAAT
61253927 CAAGGGTATTTTGGTAATTTTG
1 CAAGGGTATTTTGGTAATTTTG
61253949 TAAACTGAGG
Statistics
Matches: 155, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.14
27 110 0.71
28 24 0.15
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGCAAAT
Found at i:61253994 original size:27 final size:27
Alignment explanation
Indices: 61253962--61254024 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
61253952 ACTGAGGGTA
*
61253962 TTCAGTAATTCTACCCTACAATGGCAT
1 TTCAGTAATTCTACCCTACAAGGGCAT
* *
61253989 TTCAGTAATTCTACCCTACAGGGGTAT
1 TTCAGTAATTCTACCCTACAAGGGCAT
61254016 TTCAGTAAT
1 TTCAGTAAT
61254025 ATTAGCCCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (27 bp):
TTCAGTAATTCTACCCTACAAGGGCAT
Found at i:61259293 original size:42 final size:42
Alignment explanation
Indices: 61259247--61259339 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
61259237 CATCGTTTAC
* *
61259247 TTGATGCCATAGT-CCA-ACTATGGTCTTACACGAACTCTCATA
1 TTGATGCCAT-GTCCCAGAC-ATGGTCTTACACGAAATCACATA
61259289 TTGATGCCATGTCCCAGACATGGTCTTACACGAAATCACATA
1 TTGATGCCATGTCCCAGACATGGTCTTACACGAAATCACATA
*
61259331 TCGATGCCA
1 TTGATGCCA
61259340 ACGCCATATC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
41 2 0.04
42 42 0.91
43 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
TTGATGCCATGTCCCAGACATGGTCTTACACGAAATCACATA
Found at i:61259365 original size:48 final size:48
Alignment explanation
Indices: 61259292--61259568 Score: 403
Period size: 48 Copynumber: 5.8 Consensus size: 48
61259282 TCTCATATTG
* * **
61259292 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCA
1 ATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * **
61259340 ACGCCATATCCCT-GTTATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGT-CCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
61259388 ATGCCATGTCCTAGACATGGCCTTACATGGGATCACATATTGATGCCA
1 ATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
61259436 ATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * *
61259484 ATACCATGTCCGAGACATGGTCTTACATGGGATCAAATATCGATGCCA
1 ATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
61259532 ATTCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGTCCTAGACATGGTCTTACATGGGATCACA
61259569 ATGCCATAGC
Statistics
Matches: 205, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
47 3 0.01
48 200 0.98
49 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:61266210 original size:22 final size:22
Alignment explanation
Indices: 61266185--61266228 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61266175 AATTATTAAC
* *
61266185 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATAAATTTT
*
61266207 ATAATAAATTTTGATAAATTTT
1 ATAATAAATTTTAATAAATTTT
61266229 TATCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTTTAATAAATTTT
Found at i:61271876 original size:27 final size:26
Alignment explanation
Indices: 61271828--61271879 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
61271818 GCGAGGCTGT
*
61271828 CAGATATTGTGACGAAGTCACCAGAG
1 CAGATATTGTGACGAAGCCACCAGAG
* *
61271854 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
61271880 TTGAAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAG
Found at i:61272581 original size:28 final size:27
Alignment explanation
Indices: 61272531--61272619 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
61272521 AGGGCAAAAT
* * * *
61272531 GGTAATTTTACCTCACAAGGGTATCTC
1 GGTAATTCTACCTTACAGGGGTATTTC
61272558 GGTAATTCTAACCTTACAGGGGTATTTC
1 GGTAATTCT-ACCTTACAGGGGTATTTC
61272586 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCTTACAGGGGTATTTC
61272613 GGTAATT
1 GGTAATT
61272620 GTACAACTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
27 33 0.58
28 24 0.42
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCTTACAGGGGTATTTC
Found at i:61278870 original size:50 final size:50
Alignment explanation
Indices: 61278815--61278914 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
61278805 ATTAAATCAG
*
61278815 AATATAAAATAATAAAAATAAACTAACTTAGAAAAACCAAATTTGCAGAT
1 AATATAAAATAATAAAAATAAACTAACATAGAAAAACCAAATTTGCAGAT
* *
61278865 AATATAAAATAATAACAATAAACTAACATAGAAAAACCAACTTTGCAGAT
1 AATATAAAATAATAAAAATAAACTAACATAGAAAAACCAAATTTGCAGAT
61278915 GATGCGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.23
Consensus pattern (50 bp):
AATATAAAATAATAAAAATAAACTAACATAGAAAAACCAAATTTGCAGAT
Found at i:61279471 original size:27 final size:26
Alignment explanation
Indices: 61279423--61279474 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
61279413 GCGAGGCTGC
*
61279423 CAGATATTGTGACGAAGTCACCAGAG
1 CAGATATTGTGACGAAGCCACCAGAG
* *
61279449 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
61279475 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAG
Found at i:61281144 original size:43 final size:43
Alignment explanation
Indices: 61281053--61281144 Score: 100
Period size: 43 Copynumber: 2.1 Consensus size: 43
61281043 AGTGTTCTCT
*
61281053 TGTAAGACCACGTCTGGAACATTGGCATCAATATGTGATTTTG
1 TGTAAGACCACGTCTGGAACATCGGCATCAATATGTGATTTTG
* * *
61281096 AGTAAGACCATGTCTAGG-ACATCGGTATC-ATAATTGTGA-TTTG
1 TGTAAGACCACGTCT-GGAACATCGGCATCAAT-A-TGTGATTTTG
61281139 TGTAAG
1 TGTAAG
61281145 TCCCTGTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
42 2 0.05
43 32 0.78
44 7 0.17
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGAACATCGGCATCAATATGTGATTTTG
Found at i:61284118 original size:35 final size:35
Alignment explanation
Indices: 61284069--61284875 Score: 1596
Period size: 35 Copynumber: 23.1 Consensus size: 35
61284059 ATAAAATGTG
*
61284069 TAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284104 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284139 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284174 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284209 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284244 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284279 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284314 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284349 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284384 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284419 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284454 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284489 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284524 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284559 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284594 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284629 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284664 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284699 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284734 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284769 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
*
61284804 TAAGACCATGGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284839 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
1 TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
61284874 TA
1 TA
61284876 TGAAATGTGT
Statistics
Matches: 769, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 769 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (35 bp):
TAAGACCATTGTTGAAAGATACCATGGCAACCTGA
Done.