Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 259 of 276
Found at i:85678810 original size:105 final size:105
Alignment explanation
Indices: 85678689--85679165 Score: 731
Period size: 105 Copynumber: 4.4 Consensus size: 105
85678679 TTTTACATTG
85678689 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTT
85678754 TATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAA
66 TATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAA
85678794 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTT
85678859 TATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAA
66 TATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAA
85678899 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTT
85678964 TATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAA
66 TATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAA
** * *
85679004 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAATTTTGTGATTAGGTTAACTATTTGTTTAGG
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAG-----TTACT-ATTA--TAAATTATTTGTTTA--
** * * * * *
85679069 GTTTAGGGTTTACTATGATTTGTT-AGATTATGAATGTAATCTTTTAATAT
56 GTTTAATGTTTATTGTGATTTGTTAAG-TTATGAATGTAATTTTTTATTAA
* *
85679119 TTTTTAATTTATTTGAAAGTTATTTTGTTAGTAACTATTATAAATTA
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTA
85679166 ATTCTTAGTT
Statistics
Matches: 344, Mismatches: 17, Indels: 20
0.90 0.04 0.05
Matches are distributed among these distances:
105 241 0.70
107 5 0.01
109 4 0.01
110 5 0.01
111 4 0.01
113 13 0.04
114 2 0.01
115 70 0.20
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.57
Consensus pattern (105 bp):
TTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTT
TATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAA
Found at i:85678849 original size:25 final size:26
Alignment explanation
Indices: 85678803--85678851 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
85678793 ATTTTTAATT
*
85678803 TATTTTAAAGTTATTTTGTTAGTTAC
1 TATTATAAAGTTATTTTGTTAGTTAC
85678829 TATTATAAA-TTA-TTTGTTTAGTT
1 TATTATAAAGTTATTTTG-TTAGTT
85678852 TAATGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 9 0.43
26 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (26 bp):
TATTATAAAGTTATTTTGTTAGTTAC
Found at i:85678954 original size:25 final size:26
Alignment explanation
Indices: 85678908--85678956 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
85678898 ATTTTTAATT
*
85678908 TATTTTAAAGTTATTTTGTTAGTTAC
1 TATTATAAAGTTATTTTGTTAGTTAC
85678934 TATTATAAA-TTA-TTTGTTTAGTT
1 TATTATAAAGTTATTTTG-TTAGTT
85678957 TAATGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 9 0.43
26 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (26 bp):
TATTATAAAGTTATTTTGTTAGTTAC
Found at i:85679001 original size:54 final size:54
Alignment explanation
Indices: 85678733--85679001 Score: 224
Period size: 54 Copynumber: 5.1 Consensus size: 54
85678723 CTATTATAAA
85678733 TTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTT
1 TTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTT
* * ** * ***
85678787 TTATTAATTTTTAATTT-AT-TTTAAAGTTATTTTGTT-AGTTACT--AT-T-ATAAA
1 TTATT--TGTTTAGTTTAATGTTTATTGTGA-TTTGTTAAGTTA-TGAATGTAATTTT
85678838 TTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTT
1 TTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTT
* * ** * ***
85678892 TTATTAATTTTTAATTT-AT-TTTAAAGTTATTTTGTT-AGTTACT--AT-T-ATAAA
1 TTATT--TGTTTAGTTTAATGTTTATTGTGA-TTTGTTAAGTTA-TGAATGTAATTTT
85678943 TTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTT
1 TTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTT
85678997 TTATT
1 TTATT
85679002 AATTTTTAAT
Statistics
Matches: 161, Mismatches: 32, Indels: 44
0.68 0.14 0.19
Matches are distributed among these distances:
49 16 0.10
50 18 0.11
51 38 0.24
52 6 0.04
53 6 0.04
54 43 0.27
55 18 0.11
56 16 0.10
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (54 bp):
TTATTTGTTTAGTTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTT
Found at i:85679011 original size:51 final size:51
Alignment explanation
Indices: 85678745--85679011 Score: 208
Period size: 51 Copynumber: 5.1 Consensus size: 51
85678735 ATTTGTTTAG
85678745 TTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAATT
1 TTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAATT
* * * * * * * *
85678796 TTTAAT-TTATTTTAAAGTTATTTTGTT-AGTTACT-ATTATAAATTATTTGTTTA-G
1 TTTAATGTT-TATT---GTGA-TTTGTTAAGTTA-TGAATGT-AATTTTTTATTAATT
85678850 TTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAATT
1 TTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAATT
* * * * * * * *
85678901 TTTAAT-TTATTTTAAAGTTATTTTGTT-AGTTACT-ATTATAAATTATTTGTTTA-G
1 TTTAATGTT-TATT---GTGA-TTTGTTAAGTTA-TGAATGT-AATTTTTTATTAATT
85678955 TTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAATT
1 TTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAATT
85679006 TTTAAT
1 TTTAAT
85679012 TTATTTTAAA
Statistics
Matches: 162, Mismatches: 32, Indels: 44
0.68 0.13 0.18
Matches are distributed among these distances:
50 38 0.23
51 46 0.28
54 40 0.25
55 38 0.23
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (51 bp):
TTTAATGTTTATTGTGATTTGTTAAGTTATGAATGTAATTTTTTATTAATT
Found at i:85679088 original size:115 final size:113
Alignment explanation
Indices: 85678944--85679152 Score: 312
Period size: 115 Copynumber: 1.8 Consensus size: 113
85678934 TATTATAAAT
* * * * *
85678944 TATTTGTTTAGTTTAATGTTTATTGTGATTTGTTA-AGTTATGAATGTAATTTTTTATTAATTTT
1 TATTTGTTTAGTTTAAGGTTTACTATGATTTGTTAGA-TTATGAATGTAATCTTTTAATAATTTT
*
85679008 TAATTTATTTTAAAGTTATTTTGTTAGTAAATTTTGTGATTAGGTTAAC
65 TAATTTATTTGAAAGTTATTTTGTTAGTAAATTTTGTGATTAGGTTAAC
* *
85679057 TATTTGTTTAGGGTTTAGGGTTTACTATGATTTGTTAGATTATGAATGTAATCTTTTAATATTTT
1 TATTTGTTTA--GTTTAAGGTTTACTATGATTTGTTAGATTATGAATGTAATCTTTTAATAATTT
85679122 TTAATTTATTTGAAAGTTATTTTGTTAGTAA
64 TTAATTTATTTGAAAGTTATTTTGTTAGTAA
85679153 CTATTATAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
113 10 0.12
115 74 0.87
116 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.56
Consensus pattern (113 bp):
TATTTGTTTAGTTTAAGGTTTACTATGATTTGTTAGATTATGAATGTAATCTTTTAATAATTTTT
AATTTATTTGAAAGTTATTTTGTTAGTAAATTTTGTGATTAGGTTAAC
Found at i:85685468 original size:18 final size:18
Alignment explanation
Indices: 85685445--85685497 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
85685435 TTATTCAATT
*
85685445 AATTAATATTTTAAAAAA
1 AATTAATATTATAAAAAA
* * *
85685463 AATTAAAAATTCTAACAAA
1 AATT-AATATTATAAAAAA
*
85685482 AACTAATATTATAAAA
1 AATTAATATTATAAAA
85685498 TTAATATATA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAATATTATAAAAAA
Found at i:85689145 original size:81 final size:81
Alignment explanation
Indices: 85689048--85689208 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 81
85689038 CCTTGGTTTA
* * * * *
85689048 TAAAACTACCAAAATACCCCTGATTT-GTGAAATTACCGAAATACCCTCGACTTGTAAAATTGTT
1 TAAAACTACCAAAATACCCCTAATTTAG-AAAATTACCGAAATACCCTCGACTTGGAAAATTATA
85689112 GAAATACCCCTAATTTG
65 GAAATACCCCTAATTTG
* * * *
85689129 TAAAAGTACCAAAATACCCCTAATTTAGAAAATTATCGAAATACCCTTGATTTGGAAAATTATAG
1 TAAAACTACCAAAATACCCCTAATTTAGAAAATTACCGAAATACCCTCGACTTGGAAAATTATAG
*
85689194 AAATACCCTTAATTT
66 AAATACCCCTAATTT
85689209 ACGAAATTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
81 68 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
TAAAACTACCAAAATACCCCTAATTTAGAAAATTACCGAAATACCCTCGACTTGGAAAATTATAG
AAATACCCCTAATTTG
Found at i:85689186 original size:27 final size:27
Alignment explanation
Indices: 85689032--85689292 Score: 141
Period size: 27 Copynumber: 9.6 Consensus size: 27
85689022 AGAATTACTA
* ** * *
85689032 AAATACCCTTGGTTTATAAAACTACCA
1 AAATACCCTTGATTTGGAAAATTACCG
*
85689059 AAATACCCCTGATTTGTG-AAATTACCG
1 AAATACCCTTGATTTG-GAAAATTACCG
* * * ***
85689086 AAATACCCTCGACTTGTAAAATTGTTG
1 AAATACCCTTGATTTGGAAAATTACCG
* * * * *
85689113 AAATACCCCTAATTTGTAAAAGTACCA
1 AAATACCCTTGATTTGGAAAATTACCG
* * * *
85689140 AAATACCCCTAATTTAGAAAATTATCG
1 AAATACCCTTGATTTGGAAAATTACCG
**
85689167 AAATACCCTTGATTTGGAAAATTATAG
1 AAATACCCTTGATTTGGAAAATTACCG
* * **
85689194 AAATACCCTTAATTTACG-AAATTACAA
1 AAATACCCTTGATTT-GGAAAATTACCG
* ** **
85689221 AAATACCATTGACTTTTAAAAAATTATAG
1 AAATACCCTTGA--TTTGGAAAATTACCG
* *
85689250 AAATACCATT-AGTTTGCAAAATTACCG
1 AAATACCCTTGA-TTTGGAAAATTACCG
*
85689277 AAATACCCTTGGTTTG
1 AAATACCCTTGATTTG
85689293 TAGATTTACC
Statistics
Matches: 179, Mismatches: 48, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
27 157 0.88
28 2 0.01
29 20 0.11
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTGGAAAATTACCG
Found at i:85689224 original size:81 final size:81
Alignment explanation
Indices: 85689024--85689286 Score: 208
Period size: 81 Copynumber: 3.2 Consensus size: 81
85689014 TGTAGGGTAG
** * * * * * *
85689024 AATTACTA-AAATACCCTTGGTTTATAAAACTACCAAAATACCCCTGATTT-GTGAAATTACCGA
1 AATTA-TAGAAATACCCTTAATTTACAAAAGTACAAAAATACCCCTAATTTAG-AAAATTATCGA
* * *
85689087 AATACCCTCGACTTGTAA
64 AATACCCTTGATTTGCAA
* * * ** *
85689105 AATTGTTGAAATACCCCTAATTTGTAAAAGTACCAAAATACCCCTAATTTAGAAAATTATCGAAA
1 AATTATAGAAATACCCTTAATTTACAAAAGTACAAAAATACCCCTAATTTAGAAAATTATCGAAA
*
85689170 TACCCTTGATTTGGAA
66 TACCCTTGATTTGCAA
* * ** * * *
85689186 AATTATAGAAATACCCTTAATTTACGAAATTACAAAAATACCATTGACTTTTAAAAAATTATAGA
1 AATTATAGAAATACCCTTAATTTACAAAAGTACAAAAATACCCCT-A-ATTTAGAAAATTATCGA
*
85689251 AATACCATT-AGTTTGCAA
64 AATACCCTTGA-TTTGCAA
**
85689269 AATTACCGAAATACCCTT
1 AATTATAGAAATACCCTT
85689287 GGTTTGTAGA
Statistics
Matches: 147, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 99 0.67
82 3 0.02
83 44 0.30
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTATAGAAATACCCTTAATTTACAAAAGTACAAAAATACCCCTAATTTAGAAAATTATCGAAA
TACCCTTGATTTGCAA
Found at i:85689597 original size:41 final size:41
Alignment explanation
Indices: 85689552--85689673 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
85689542 GGAAGAAGAA
* *
85689552 ATTGAGGATCGCATGGTTGCTTGACGATCATGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
85689593 ATTGAGGATCGTATGGTTGCTTGGA-GACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTT-GACGACCGTGGATCCACCG
* *
85689634 ATTAAGGATCGCATGGCTGCTTGACGACCGTGGATCCACC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
85689674 AGTGGCTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.03
41 69 0.95
42 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.25
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:85690084 original size:22 final size:22
Alignment explanation
Indices: 85690032--85690096 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
85690022 GCCAATTATT
* * *
85690032 CTGATTATGGCTTTACGCCAAC
1 CTGATTATAGCTCTATGCCAAC
*
85690054 CT-ACATATAGCTCTATGCCAAC
1 CTGA-TTATAGCTCTATGCCAAC
* *
85690076 CTGATTATAGCTGTGTGCCAA
1 CTGATTATAGCTCTATGCCAA
85690097 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (22 bp):
CTGATTATAGCTCTATGCCAAC
Found at i:85690232 original size:216 final size:216
Alignment explanation
Indices: 85689688--85690234 Score: 837
Period size: 216 Copynumber: 2.5 Consensus size: 216
85689678 GCTTTTAAGC
* * *
85689688 CCAATATATGATTATTGATGACTCTGTGTCGATCATATTTACCCGAGGCTATGTGCCGACTATAT
1 CCAATATATGATTATTGACGACTCTGTGTCGATCATATTTACCTGAGGCTGTGTGCCGACTATAT
* *
85689753 TACCGTCGCTGATGGCTATGTGCCTAACATGATACAACTACCAATGGCTTAAAGCCAATTATTCT
66 TACCGTCGTTGATGGCTATGTGCCTAACATGATACAACTACCGATGGCTTAAAGCCAATTATTCT
* * * * *
85689818 GATTATGACTTTGCGCCAACCTACATATGGCTCTGTGGCAACCTGATTATGGCTGTGTGCCAAAC
131 GATTATGACTTTACGCCAACCTACATATAGCTCTATGCCAACCTGATTATAGCTGTGTGCCAAAC
85689883 GTATTTGCCTAAGGCTATGTG
196 GTATTTGCCTAAGGCTATGTG
*
85689904 CCAATATATGATTATTGACGACTCTGTGTCGATCATATTTACCTGAGGCTGTGTTCCGACTATAT
1 CCAATATATGATTATTGACGACTCTGTGTCGATCATATTTACCTGAGGCTGTGTGCCGACTATAT
* * * *
85689969 TACCGTCGTTGATGGCTATATGCGTAACCTGATACAGCTACCGATGGCTTAAAGCCAATTATTCT
66 TACCGTCGTTGATGGCTATGTGCCTAACATGATACAACTACCGATGGCTTAAAGCCAATTATTCT
*
85690034 GATTATGGCTTTACGCCAACCTACATATAGCTCTATGCCAACCTGATTATAGCTGTGTGCCAAAC
131 GATTATGACTTTACGCCAACCTACATATAGCTCTATGCCAACCTGATTATAGCTGTGTGCCAAAC
85690099 GTATTTGCCTAAGGCTATGTG
196 GTATTTGCCTAAGGCTATGTG
* ** *
85690120 CCAATATATGGTTATTGACGACTCTGTGTCGATCATATTTACCT-AGGGCTGTGTGCCGGTTATG
1 CCAATATATGATTATTGACGACTCTGTGTCGATCATATTTACCTGA-GGCTGTGTGCCGACTATA
* * * * *
85690184 TTACTC-TAGTTGATGGCTATGTGCCTAACATAATGCAATTATCGATGGCTT
65 TTAC-CGTCGTTGATGGCTATGTGCCTAACATGATACAACTACCGATGGCTT
85690235 TGTGCCATTG
Statistics
Matches: 299, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
215 1 0.00
216 297 0.99
217 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (216 bp):
CCAATATATGATTATTGACGACTCTGTGTCGATCATATTTACCTGAGGCTGTGTGCCGACTATAT
TACCGTCGTTGATGGCTATGTGCCTAACATGATACAACTACCGATGGCTTAAAGCCAATTATTCT
GATTATGACTTTACGCCAACCTACATATAGCTCTATGCCAACCTGATTATAGCTGTGTGCCAAAC
GTATTTGCCTAAGGCTATGTG
Found at i:85698510 original size:58 final size:56
Alignment explanation
Indices: 85698440--85698562 Score: 140
Period size: 57 Copynumber: 2.1 Consensus size: 56
85698430 ACAGAAATGG
* * * *
85698440 TGAAAATGGAGAAATGGGAAACATTTGGAAATTGTTATG-GTTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAAT-GGAAACAGTTGGAAA-CG-AATGAGTTTTCTCCAAAATGAAAA
**
85698498 TGAAAATAGAGAAATGGAATTAGTTGGAAACGAATGTAGTTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAATGGAAACAGTTGGAAACGAATG-AGTTTTCTCCAAAATGAAAA
*
85698555 TGGAAATA
1 TGAAAATA
85698563 AATCATTTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
55 3 0.05
56 1 0.02
57 38 0.68
58 14 0.25
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.28
Consensus pattern (56 bp):
TGAAAATAGAGAAATGGAAACAGTTGGAAACGAATGAGTTTTCTCCAAAATGAAAA
Found at i:85703032 original size:38 final size:38
Alignment explanation
Indices: 85702990--85703069 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
85702980 ATATAAAACG
*
85702990 CATACCTGGCACAC-AAAGTGCATATTGGCGCATAAGCA
1 CATACCTGGCACACGAAA-TGCATACTGGCGCATAAGCA
*
85703028 CATACCTGGCACACGAAATGCATACTGGCGTATAAGCA
1 CATACCTGGCACACGAAATGCATACTGGCGCATAAGCA
85703066 CATA
1 CATA
85703070 ATCCCATACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 36 0.92
39 3 0.08
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (38 bp):
CATACCTGGCACACGAAATGCATACTGGCGCATAAGCA
Found at i:85703256 original size:21 final size:21
Alignment explanation
Indices: 85703207--85703256 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
85703197 CATCACAATC
*
85703207 CATTTCAATAGCATTTCACATA
1 CATTTC-ATAGAATTTCACATA
*
85703229 TATTTCATAGAATTTC-CATA
1 CATTTCATAGAATTTCACATA
85703249 CATATTCA
1 CAT-TTCA
85703257 CACAATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 13 0.54
22 5 0.21
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (21 bp):
CATTTCATAGAATTTCACATA
Found at i:85703299 original size:16 final size:17
Alignment explanation
Indices: 85703278--85703310 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
85703268 TGGCACATAA
85703278 CATATT-TATAACAATT
1 CATATTATATAACAATT
*
85703294 CATATTATTTAACAATT
1 CATATTATATAACAATT
85703311 TATTCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
CATATTATATAACAATT
Found at i:85714200 original size:19 final size:19
Alignment explanation
Indices: 85714176--85714214 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
85714166 AACAACTCAG
85714176 ATGTTTTTTCATTTTTCTT
1 ATGTTTTTTCATTTTTCTT
85714195 ATGTTTTTTCATTTTTCTT
1 ATGTTTTTTCATTTTTCTT
85714214 A
1 A
85714215 CTTTATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (19 bp):
ATGTTTTTTCATTTTTCTT
Found at i:85714402 original size:12 final size:12
Alignment explanation
Indices: 85714385--85714410 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85714375 TCTCGGTATT
85714385 GAAGAAGATGAG
1 GAAGAAGATGAG
85714397 GAAGAAGATGAG
1 GAAGAAGATGAG
85714409 GA
1 GA
85714411 TATGGATGAA
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:0.00, G:0.42, T:0.08
Consensus pattern (12 bp):
GAAGAAGATGAG
Found at i:85723219 original size:19 final size:19
Alignment explanation
Indices: 85723195--85723232 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
85723185 CTTCATTTTT
85723195 AATTATAAATAGTAAAAAA
1 AATTATAAATAGTAAAAAA
85723214 AATTATAAATAGTAAAAAA
1 AATTATAAATAGTAAAAAA
85723233 GATAACTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AATTATAAATAGTAAAAAA
Found at i:85723835 original size:29 final size:30
Alignment explanation
Indices: 85723802--85723860 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
85723792 TCACGTGAAT
85723802 AATTACAC-CAAATTAAAGTTCATGTATAC
1 AATTACACACAAATTAAAGTTCATGTATAC
*
85723831 AATTACACATTAAATTAAAGTTCATGTATA
1 AATTACACA-CAAATTAAAGTTCATGTATA
85723861 ATTTTGAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
31 19 0.70
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.34
Consensus pattern (30 bp):
AATTACACACAAATTAAAGTTCATGTATAC
Found at i:85724750 original size:65 final size:65
Alignment explanation
Indices: 85724644--85724767 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 65
85724634 TGTGGTTAAC
* * ** * *
85724644 TAAATCTTTAGTTTGAATTTATATATAACTGTAACACTAATTAAGTGATAATCTATTTATAATGT
1 TAAATATTTAGTTTGAATTCATATATAACCATAACACTAATTAAGTGACAATCAATTTATAATGT
* *
85724709 TAAATATTT-GTTTTAATTCATAATATAACCATAACATTAATTAAGTGACAATCAATTTA
1 TAAATATTTAGTTTGAATTCAT-ATATAACCATAACACTAATTAAGTGACAATCAATTTA
85724768 AAATAATAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
64 10 0.20
65 40 0.80
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (65 bp):
TAAATATTTAGTTTGAATTCATATATAACCATAACACTAATTAAGTGACAATCAATTTATAATGT
Found at i:85726481 original size:20 final size:20
Alignment explanation
Indices: 85726456--85726507 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
85726446 TACAAAAATG
*
85726456 GTCACTTTTGTTACATTTTA
1 GTCACTTTTGTTAAATTTTA
85726476 GTCACTTTTGTTAAATTTTA
1 GTCACTTTTGTTAAATTTTA
*
85726496 GTCACTTATGTT
1 GTCACTTTTGTT
85726508 TGAATGTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.54
Consensus pattern (20 bp):
GTCACTTTTGTTAAATTTTA
Found at i:85731103 original size:145 final size:145
Alignment explanation
Indices: 85730926--85731220 Score: 554
Period size: 145 Copynumber: 2.0 Consensus size: 145
85730916 CATAATATAT
85730926 AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCCAGAATCATATCACAGAGGGGTTGTAG
1 AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCCAGAATCATATCACAGAGGGGTTGTAG
*
85730991 TTGCAGCAGTCATCCAAAGAGAAAGCAACAGCATAAAGCTTCCATGGCTGCAAATGACAAACAAG
66 TTGCAGCAGTCATCCAAAGAGAAAGCAACAACATAAAGCTTCCATGGCTGCAAATGACAAACAAG
85731056 ATCACCTTCTTCAAC
131 ATCACCTTCTTCAAC
* *
85731071 AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCTAGAATCATATCACGGAGGGGTTGTAG
1 AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCCAGAATCATATCACAGAGGGGTTGTAG
*
85731136 TTGCAGCAGTCATCCAAAGAGAAAGCAACAACATAAAGCTTCCCTGGCTGCAAATGACAAACAAG
66 TTGCAGCAGTCATCCAAAGAGAAAGCAACAACATAAAGCTTCCATGGCTGCAAATGACAAACAAG
85731201 ATCACCTTCTTCAAC
131 ATCACCTTCTTCAAC
85731216 AATAT
1 AATAT
85731221 CTTTGAAAAA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 146 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (145 bp):
AATATAATATAAGTTATTGCTGATGCAGGATCTCAGCCCAGAATCATATCACAGAGGGGTTGTAG
TTGCAGCAGTCATCCAAAGAGAAAGCAACAACATAAAGCTTCCATGGCTGCAAATGACAAACAAG
ATCACCTTCTTCAAC
Found at i:85735423 original size:34 final size:34
Alignment explanation
Indices: 85735385--85735452 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
85735375 TCAGTCAAAT
* *
85735385 GCAGTCCGGGCCTAAGCCCATTTCAGTTTCAGTA
1 GCAGTCCAGGCCTAAGCCAATTTCAGTTTCAGTA
* *
85735419 GCAGTTCAGGCCTTAGCCAATTTCAGTTTCAGTA
1 GCAGTCCAGGCCTAAGCCAATTTCAGTTTCAGTA
85735453 TCAGATATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (34 bp):
GCAGTCCAGGCCTAAGCCAATTTCAGTTTCAGTA
Found at i:85736729 original size:5 final size:5
Alignment explanation
Indices: 85736719--85736746 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
85736709 TTATTGGGGT
85736719 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
85736747 ATTTTGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:85742627 original size:34 final size:34
Alignment explanation
Indices: 85742589--85742656 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
85742579 TCAGTCAAAT
* * *
85742589 GCAGTCCGGGCCTAAGCCTATTTCAGTTTCAGTA
1 GCAGTCAGGACCTAAGCCCATTTCAGTTTCAGTA
* * *
85742623 GCAGTTAGGACTTTAGCCCATTTCAGTTTCAGTA
1 GCAGTCAGGACCTAAGCCCATTTCAGTTTCAGTA
85742657 TCAGATATGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (34 bp):
GCAGTCAGGACCTAAGCCCATTTCAGTTTCAGTA
Found at i:85745169 original size:17 final size:18
Alignment explanation
Indices: 85745137--85745174 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
85745127 AATGAGCTTA
*
85745137 AAAAGTATTATGAAAATT
1 AAAAGTATTATGAAAAAT
*
85745155 AAAATTATT-TGAAAAAT
1 AAAAGTATTATGAAAAAT
85745172 AAA
1 AAA
85745175 TAAAACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAAAGTATTATGAAAAAT
Found at i:85746668 original size:29 final size:29
Alignment explanation
Indices: 85746591--85746676 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
85746581 ATGTTGACAA
* *
85746591 TTAATTAATTTTTTAAAAATTAAAATATT
1 TTAAATAATTTTTTAAAATTTAAAATATT
*
85746620 TTTAAT-ATTTTTTATTAAATTTAATAA-ATT
1 TTAAATAATTTTTTA--AAATTTAA-AATATT
*
85746650 TTAAATAACTTTTTAAAATTTTAAAAT
1 TTAAATAATTTTTTAAAA-TTTAAAAT
85746677 TAATTAATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
28 8 0.17
29 9 0.20
30 20 0.43
31 9 0.20
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAAATAATTTTTTAAAATTTAAAATATT
Found at i:85749558 original size:18 final size:18
Alignment explanation
Indices: 85749535--85749578 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
85749525 ATATTTATAT
*
85749535 TAAATATTTTTAAAAATA
1 TAAATATATTTAAAAATA
*
85749553 TAAATATATTTAAATATA
1 TAAATATATTTAAAAATA
*
85749571 TAATTATA
1 TAAATATA
85749579 ACAATTTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATATATTTAAAAATA
Found at i:85749615 original size:17 final size:16
Alignment explanation
Indices: 85749589--85749620 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
85749579 ACAATTTCTA
85749589 TTAAATTATAATTATT
1 TTAAATTATAATTATT
85749605 TTAAATGTATAATTAT
1 TTAAAT-TATAATTAT
85749621 CATAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTATAATTATT
Found at i:85749626 original size:17 final size:16
Alignment explanation
Indices: 85749590--85749628 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
85749580 CAATTTCTAT
**
85749590 TAAATTATAATTATTT
1 TAAATTATAATTATCA
85749606 TAAATGTATAATTATCA
1 TAAAT-TATAATTATCA
85749623 TAAATT
1 TAAATT
85749629 CTATTTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (16 bp):
TAAATTATAATTATCA
Found at i:85749631 original size:43 final size:44
Alignment explanation
Indices: 85749551--85749633 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
85749541 TTTTTAAAAA
*
85749551 TATAAATATATTTAAATATATAATTATAACAATTTCTATTAAAT
1 TATAAATATATTTAAATATATAATTATAACAAATTCTATTAAAT
* * * *
85749595 TATAATTAT-TTTAAATGTATAATTATCATAAATTCTATT
1 TATAAATATATTTAAATATATAATTATAACAAATTCTATT
85749634 TTACATCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 26 0.76
44 8 0.24
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (44 bp):
TATAAATATATTTAAATATATAATTATAACAAATTCTATTAAAT
Found at i:85768256 original size:3 final size:3
Alignment explanation
Indices: 85768248--85768274 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
85768238 AACATAAAAT
85768248 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
85768275 TAACATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:85769604 original size:23 final size:23
Alignment explanation
Indices: 85769578--85769695 Score: 96
Period size: 23 Copynumber: 5.0 Consensus size: 23
85769568 GAGCTGATGG
**
85769578 ATAGTAAGCTCCATTGAGCTGAA
1 ATAGTAAGCTCCAACGAGCTGAA
*
85769601 ATAGTAAGCTCTAACGAGCTGAA
1 ATAGTAAGCTCCAACGAGCTGAA
*
85769624 ATAGTAAGCT-CATACGAGCTGGGA
1 ATAGTAAGCTCCA-ACGAGCT-GAA
* ** *
85769648 ACAGTAAGCTCTTACGAGTTGATA
1 ATAGTAAGCTCCAACGAGCTGA-A
85769672 TATCAGTAAGCT-CATACGAGCTGA
1 -AT-AGTAAGCTCCA-ACGAGCTGA
85769696 GGTGAGTCCA
Statistics
Matches: 74, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
22 1 0.01
23 38 0.51
24 18 0.24
25 1 0.01
26 16 0.22
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (23 bp):
ATAGTAAGCTCCAACGAGCTGAA
Found at i:85769690 original size:50 final size:47
Alignment explanation
Indices: 85769578--85769694 Score: 139
Period size: 47 Copynumber: 2.4 Consensus size: 47
85769568 GAGCTGATGG
* * *
85769578 ATAGTAAGCTCCAT-TGAGCT-GAAATAGTAAGCTCTAACGAGCTGAA
1 ATAGTAAGCT-CATACGAGCTGGGAACAGTAAGCTCTAACGAGCTGAA
* *
85769624 ATAGTAAGCTCATACGAGCTGGGAACAGTAAGCTCTTACGAGTTGATA
1 ATAGTAAGCTCATACGAGCTGGGAACAGTAAGCTCTAACGAGCTGA-A
85769672 TATCAGTAAGCTCATACGAGCTG
1 -AT-AGTAAGCTCATACGAGCTG
85769695 AGGTGAGTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
45 3 0.05
46 15 0.25
47 21 0.34
48 1 0.02
49 2 0.03
50 19 0.31
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (47 bp):
ATAGTAAGCTCATACGAGCTGGGAACAGTAAGCTCTAACGAGCTGAA
Found at i:85770570 original size:37 final size:37
Alignment explanation
Indices: 85770520--85770591 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
85770510 AATGATAGCA
*
85770520 GGAATGAGGAGTATAAACTCCTCGAACCACCATGACC
1 GGAATGAGGAGTATAAACTCCTCAAACCACCATGACC
85770557 GGAATGAGGAGTATAAACTCCTCAAACCACCATGA
1 GGAATGAGGAGTATAAACTCCTCAAACCACCATGA
85770592 TCATTTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (37 bp):
GGAATGAGGAGTATAAACTCCTCAAACCACCATGACC
Found at i:85777622 original size:23 final size:23
Alignment explanation
Indices: 85777596--85777675 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
85777586 GAGCTGATGG
*
85777596 ACAGTAAGCTCCATTGAGCTGAA
1 ACAGTAAGCTCCATCGAGCTGAA
* *
85777619 ACAGTAAGCTCTAACGAGCTGAA
1 ACAGTAAGCTCCATCGAGCTGAA
*
85777642 ACAGTAAGCT-CATGCGAGATGAGA
1 ACAGTAAGCTCCAT-CGAGCTGA-A
85777666 ACAGTAAGCT
1 ACAGTAAGCT
85777676 ATTACGAGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
22 1 0.02
23 37 0.76
24 11 0.22
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (23 bp):
ACAGTAAGCTCCATCGAGCTGAA
Found at i:85777683 original size:24 final size:23
Alignment explanation
Indices: 85777615--85777683 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
85777605 TCCATTGAGC
* * *
85777615 TGAAACAGTAAGCTCTAACGAGC
1 TGAAACAGTAAGCTATTACGAGA
*
85777638 TGAAACAGTAAGCTCA-TGCGAGA
1 TGAAACAGTAAGCT-ATTACGAGA
85777661 TGAGAACAGTAAGCTATTACGAG
1 TGA-AACAGTAAGCTATTACGAG
85777684 TTGATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 22 0.58
24 16 0.42
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (23 bp):
TGAAACAGTAAGCTATTACGAGA
Found at i:85784465 original size:9 final size:9
Alignment explanation
Indices: 85784451--85784475 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
85784441 ATTGTAAGAG
85784451 AAATAAAAA
1 AAATAAAAA
85784460 AAATAAAAA
1 AAATAAAAA
85784469 AAATAAA
1 AAATAAA
85784476 GTGATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAAAAA
Found at i:85785539 original size:73 final size:73
Alignment explanation
Indices: 85785398--85785548 Score: 191
Period size: 73 Copynumber: 2.1 Consensus size: 73
85785388 TTTATCCGAT
85785398 TAGCACTGGGTGCAATCACCATTGGTTTATCCAACTAGGCTGGGCTCACAATAATTATCATCGGT
1 TAGCACTGGGTGCAA-CACCATTGGTTTATCCAACTAGGCTGGGCTCACAATAATTATCATCGGT
85785463 TAATCCAAC
65 TAATCCAAC
* * * * *
85785472 TAGCACTGGGTGCAA-A-TATTGTTGTTATCCAACTAGAGCTGGGCTCACATTTATTAGT-GTCG
1 TAGCACTGGGTGCAACACCATTGGT-TTATCCAACTAG-GCTGGGCTCACAATAATTA-TCATCG
*
85785534 TTTAATCCAAC
63 GTTAATCCAAC
85785545 TAGC
1 TAGC
85785549 GTTGGGCCCA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
71 5 0.07
72 13 0.19
73 34 0.50
74 16 0.24
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (73 bp):
TAGCACTGGGTGCAACACCATTGGTTTATCCAACTAGGCTGGGCTCACAATAATTATCATCGGTT
AATCCAAC
Found at i:85789236 original size:20 final size:22
Alignment explanation
Indices: 85789196--85789236 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
85789186 TGTAAAAGTG
*
85789196 ATTTCTCTATCAATAACCTTTT
1 ATTTCTCTATCAATAAACTTTT
85789218 ATTT-TCTATC-ATAAACTTT
1 ATTTCTCTATCAATAAACTTT
85789237 CAATTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTT
Found at i:85789242 original size:21 final size:22
Alignment explanation
Indices: 85789196--85789242 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
85789186 TGTAAAAGTG
* *
85789196 ATTTCTCTATCAATAACCTTTT
1 ATTTCTCTATCAATAAACTTTA
85789218 ATTT-TCTATC-ATAAACTTTCA
1 ATTTCTCTATCAATAAACTTT-A
85789239 ATTT
1 ATTT
85789243 ACAACATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 8 0.36
21 10 0.45
22 4 0.18
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTA
Found at i:85791928 original size:12 final size:12
Alignment explanation
Indices: 85791911--85791935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85791901 ACCGACTACT
85791911 GTTACTGTTACC
1 GTTACTGTTACC
85791923 GTTACTGTTACC
1 GTTACTGTTACC
85791935 G
1 G
85791936 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:85792052 original size:47 final size:47
Alignment explanation
Indices: 85791970--85792082 Score: 167
Period size: 47 Copynumber: 2.4 Consensus size: 47
85791960 TTGTTATTGT
*
85791970 TACCGTTACTGTTACTGTTTCGAATTTTTTCCGATGAGGTACTCTGTG
1 TACCG-TACTGTTACTGTTCCGAATTTTTTCCGATGAGGTACTCTGTG
85792018 TACCGTACTGTTACTGTTCC-AGATTTGTTT-CGATGAGGTACTCTGTG
1 TACCGTACTGTTACTGTTCCGA-ATTT-TTTCCGATGAGGTACTCTGTG
*
85792065 TACCGTACTGTTATTGTT
1 TACCGTACTGTTACTGTT
85792083 ACTGCTCCGG
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
46 1 0.02
47 52 0.85
48 8 0.13
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (47 bp):
TACCGTACTGTTACTGTTCCGAATTTTTTCCGATGAGGTACTCTGTG
Found at i:85792246 original size:18 final size:19
Alignment explanation
Indices: 85792204--85792252 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
85792194 AAAGATCGAC
85792204 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
85792223 TGTTACTGTAT-ATTTTAT
1 TGTTACTGAATAATTTAAT
*
85792241 TTTTACTGAATA
1 TGTTACTGAATA
85792253 GTTGACTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:85792264 original size:18 final size:18
Alignment explanation
Indices: 85792201--85792266 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
85792191 TGGAAAGATC
85792201 GACTGTTACTGAATAATTT
1 GACTGTTACTGAAT-ATTT
* * *
85792220 AATTGTTACTGTATATTT
1 GACTGTTACTGAATATTT
* * * *
85792238 TATTTTTACTGAATAGTT
1 GACTGTTACTGAATATTT
85792256 GACTGTTACTG
1 GACTGTTACTG
85792267 GATAACCGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
18 26 0.70
19 11 0.30
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (18 bp):
GACTGTTACTGAATATTT
Found at i:85792312 original size:18 final size:18
Alignment explanation
Indices: 85792288--85792345 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
85792278 AATTGATTGA
85792288 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
85792306 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
85792324 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
85792342 TACT
1 TACT
85792346 AACTAAATAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:85792359 original size:36 final size:36
Alignment explanation
Indices: 85792283--85792360 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
85792273 CGATCAATTG
* * * * * *
85792283 ATTGATACTGAATAACTGATTATTATTGAATAATTG
1 ATTGTTACCGAATAACTGACTATTACTGAATAAATA
85792319 ATTGTTACCGAATAACTGACTATTACT-AACTAAATA
1 ATTGTTACCGAATAACTGACTATTACTGAA-TAAATA
85792355 ATTGTT
1 ATTGTT
85792361 TTGATTGACT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 2 0.06
36 33 0.94
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (36 bp):
ATTGTTACCGAATAACTGACTATTACTGAATAAATA
Found at i:85794403 original size:45 final size:45
Alignment explanation
Indices: 85794339--85794552 Score: 259
Period size: 45 Copynumber: 4.7 Consensus size: 45
85794329 TATGTGAGCT
85794339 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGTC
* * * ** * * *
85794384 AGTGTAAGATCATGCCTGGGACATGGCATCGGCACCGACAGATGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-TTG--ATATGTG-TC
* *
85794433 TAGTGTAAGA-CATGTCTGGGACATGGAATTAGCTTGATATGTGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGTC
**
85794478 AGTGTAAGACCATGTCTGGGACATGGCATTGGCTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGTC
*
85794523 AGTGTATGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
85794553 GGCACCAACA
Statistics
Matches: 142, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
44 9 0.06
45 92 0.65
46 6 0.04
48 6 0.04
49 20 0.14
50 9 0.06
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGTC
Found at i:85794497 original size:94 final size:95
Alignment explanation
Indices: 85794334--85794506 Score: 303
Period size: 94 Copynumber: 1.8 Consensus size: 95
85794324 GCTGTTATGT
* *
85794334 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGTCAGTGTAAGATCATGC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGAATCAGCTTGATATGTGTCAGTGTAAGACCATGC
85794399 CTGGGACATGGCATCGGCACCGACAGATGA
66 CTGGGACATGGCATCGGCACCGACAGATGA
* *
85794429 GAGCTAGTGTAAGA-CATGTCTGGGACATGGAATTAGCTTGATATGTGTCAGTGTAAGACCATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGAATCAGCTTGATATGTGTCAGTGTAAGACCATGC
85794493 CTGGGACATGGCAT
66 CTGGGACATGGCAT
85794507 TGGCTTGATA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 60 0.81
95 14 0.19
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (95 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGAATCAGCTTGATATGTGTCAGTGTAAGACCATGC
CTGGGACATGGCATCGGCACCGACAGATGA
Found at i:85794618 original size:50 final size:47
Alignment explanation
Indices: 85794329--85794665 Score: 242
Period size: 45 Copynumber: 7.1 Consensus size: 47
85794319 ACACTGCTGT
*
85794329 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CTTGA
1 TATGTGAGC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
* * * *
85794376 TATGTG-TCAGTGTAAGATCATGCCTGGGACATGGCATCGGCAC-CGACA
1 TATGTGAGCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCG--A
* * * * *
85794424 GATGAGAGCTAGTGTAAGA-CATGTCTGGGACATGGAATTAG-CTTGA
1 TATGTGAGC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
* * * *
85794470 TATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCAT-TGGCTTGA
1 TATGTGAGCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
* * * *
85794515 TATGTG-TCAGTGTATGACCATGTCTGGGACATGGCATCGGCAC-CAACA
1 TATGTGAGCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTC--GA
* * * *
85794563 GATGAGAGCTAGTGTATGACCATGTCTAGGACATGGCATCAGCCTCGATA
1 TATGTGAGC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCG--A
* * * * * * *
85794613 TATGAGAGCCAGTGTAAGACCATATCTGGAATATGACATCGGCATCGA
1 TATGTGAG-CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
85794661 TATGT
1 TATGT
85794666 ATAAGATTTC
Statistics
Matches: 232, Mismatches: 39, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
44 10 0.04
45 89 0.38
46 8 0.03
47 9 0.04
48 16 0.07
49 21 0.09
50 78 0.34
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (47 bp):
TATGTGAGCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
Found at i:85797011 original size:29 final size:29
Alignment explanation
Indices: 85796969--85797037 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
85796959 GAAAAGGTGG
*
85796969 AGAACTTGTTCGTTGAGTGTTCACGATGA
1 AGAACTTGTTCGTTGAATGTTCACGATGA
*
85796998 AGAATTTGTTCGTTGAATGTTCACGATGA
1 AGAACTTGTTCGTTGAATGTTCACGATGA
85797027 AGAACTTGTTC
1 AGAACTTGTTC
85797038 ATTGGGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (29 bp):
AGAACTTGTTCGTTGAATGTTCACGATGA
Found at i:85797049 original size:29 final size:28
Alignment explanation
Indices: 85796969--85797049 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
85796959 GAAAAGGTGG
**
85796969 AGAACTTGTTCGTTGAGTGTTCACGATGA
1 AGAACTTGTTCGTTG-GAATTCACGATGA
*
85796998 AGAATTTGTTCGTT-GAATGTTCACGATGA
1 AGAACTTGTTCGTTGGAA--TTCACGATGA
*
85797027 AGAACTTGTTCATTGGGAATTCA
1 AGAACTTGTTCGTT-GGAATTCA
85797050 TGTCAAGGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 1 0.02
29 39 0.91
31 3 0.07
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (28 bp):
AGAACTTGTTCGTTGGAATTCACGATGA
Found at i:85797896 original size:84 final size:84
Alignment explanation
Indices: 85797755--85798115 Score: 713
Period size: 84 Copynumber: 4.3 Consensus size: 84
85797745 TGTAACCGGA
*
85797755 ATCCTCCAGCTCCTTAGCAAGTTGAGAGGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
1 ATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
85797820 CAGCAATTCTAGAATATTT
66 CAGCAATTCTAGAATATTT
85797839 ATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
1 ATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
85797904 CAGCAATTCTAGAATATTT
66 CAGCAATTCTAGAATATTT
85797923 ATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
1 ATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
85797988 CAGCAATTCTAGAATATTT
66 CAGCAATTCTAGAATATTT
85798007 ATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
1 ATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
85798072 CAGCAATTCTAGAATATTT
66 CAGCAATTCTAGAATATTT
85798091 ATCCTCCAGCTCCTTAGCAAGTTGA
1 ATCCTCCAGCTCCTTAGCAAGTTGA
85798116 TCAGAAGACA
Statistics
Matches: 276, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 276 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (84 bp):
ATCCTCCAGCTCCTTAGCAAGTTGAGAAGATGATTGGGGAGTTTTGTCAACAAAAGGTTTCCAGG
CAGCAATTCTAGAATATTT
Found at i:85799636 original size:18 final size:19
Alignment explanation
Indices: 85799576--85799636 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
85799566 AAAAGGTGAG
*
85799576 AAGTAAAAGTTTATGAAGGA
1 AAGTAAAAGTTT-TGAGGGA
85799596 AA-TAAAAAGTTTTG-GGG-
1 AAGT-AAAAGTTTTGAGGGA
85799613 -AGTAAAA-TTTTGAGGGA
1 AAGTAAAAGTTTTGAGGGA
85799630 AAGTAAA
1 AAGTAAA
85799637 TAAGGAAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
15 5 0.14
16 8 0.23
17 1 0.03
18 8 0.23
19 3 0.09
20 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (19 bp):
AAGTAAAAGTTTTGAGGGA
Found at i:85799947 original size:30 final size:30
Alignment explanation
Indices: 85799888--85799948 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
85799878 GATGGGAGGG
* **
85799888 GAGTAAAAATTTTGAGGGAAAAGTGAAAAT
1 GAGTAAAAACTTTGAGGGAAAAGAAAAAAT
* *
85799918 GAGTAAAAGCTTTGGGGGAAAAGAAAAAAT
1 GAGTAAAAACTTTGAGGGAAAAGAAAAAAT
85799948 G
1 G
85799949 TTTGAGGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.30, T:0.20
Consensus pattern (30 bp):
GAGTAAAAACTTTGAGGGAAAAGAAAAAAT
Found at i:85800063 original size:52 final size:52
Alignment explanation
Indices: 85800005--85800111 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
85799995 AACTCGATCC
85800005 GAACTCGAAATTTGAAAAAAATTCAAGTTGACTCGAATAACTCGAATAACTT
1 GAACTCGAAATTTGAAAAAAATTCAAGTTGACTCGAATAACTCGAATAACTT
* *
85800057 GAACTCGAAATTTGAAAAAAATTTAAGTTGACTTGAATAACTCGAATAACTT
1 GAACTCGAAATTTGAAAAAAATTCAAGTTGACTCGAATAACTCGAATAACTT
85800109 GAA
1 GAA
85800112 TAACTCAGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (52 bp):
GAACTCGAAATTTGAAAAAAATTCAAGTTGACTCGAATAACTCGAATAACTT
Found at i:85804534 original size:18 final size:19
Alignment explanation
Indices: 85804474--85804534 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
85804464 AAAAGGTGAG
*
85804474 AAGTAAAAGTTTATGAAGGA
1 AAGTAAAAGTTT-TGAGGGA
85804494 AA-TAAAAAGTTTTG-GGG-
1 AAGT-AAAAGTTTTGAGGGA
85804511 -AGTAAAA-TTTTGAGGGA
1 AAGTAAAAGTTTTGAGGGA
85804528 AAGTAAA
1 AAGTAAA
85804535 TAAGGAAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
15 5 0.14
16 8 0.23
17 1 0.03
18 8 0.23
19 3 0.09
20 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (19 bp):
AAGTAAAAGTTTTGAGGGA
Found at i:85804845 original size:30 final size:30
Alignment explanation
Indices: 85804786--85804846 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
85804776 GATGGGAGGG
* **
85804786 GAGTAAAAATTTTGAGGGAAAAGTGAAAAT
1 GAGTAAAAACTTTGAGGGAAAAGAAAAAAT
* *
85804816 GAGTAAAAGCTTTGGGGGAAAAGAAAAAAT
1 GAGTAAAAACTTTGAGGGAAAAGAAAAAAT
85804846 G
1 G
85804847 TTTGAGGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.30, T:0.20
Consensus pattern (30 bp):
GAGTAAAAACTTTGAGGGAAAAGAAAAAAT
Found at i:85804961 original size:52 final size:52
Alignment explanation
Indices: 85804903--85805009 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
85804893 AACTCGATCC
85804903 GAACTCGAAATTTGAAAAAAATTCAAGTTGACTCGAATAACTCGAATAACTT
1 GAACTCGAAATTTGAAAAAAATTCAAGTTGACTCGAATAACTCGAATAACTT
* *
85804955 GAACTCGAAATTTGAAAAAAATTTAAGTTGACTTGAATAACTCGAATAACTT
1 GAACTCGAAATTTGAAAAAAATTCAAGTTGACTCGAATAACTCGAATAACTT
85805007 GAA
1 GAA
85805010 TAACTCAGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (52 bp):
GAACTCGAAATTTGAAAAAAATTCAAGTTGACTCGAATAACTCGAATAACTT
Found at i:85811196 original size:3 final size:3
Alignment explanation
Indices: 85811188--85811231 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
85811178 ATTACATCCA
85811188 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
85811232 AACATGTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85818611 original size:21 final size:21
Alignment explanation
Indices: 85818578--85818628 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
85818568 AAGAAAAAGG
*
85818578 AATC-AGCTGAAACGAGCTAA
1 AATCAAGCTCAAACGAGCTAA
*
85818598 AATCAAGCTCAAACGAGCTGA
1 AATCAAGCTCAAACGAGCTAA
85818619 AA-CAAGCTCA
1 AATCAAGCTCA
85818629 GGTGAGCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.14
Consensus pattern (21 bp):
AATCAAGCTCAAACGAGCTAA
Found at i:85821882 original size:32 final size:32
Alignment explanation
Indices: 85821819--85821883 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
85821809 AACTTGATCA
** *
85821819 CTTCTTTTTTTTTTTTAATTTTGAACTTTTTT
1 CTTCTTTTTTTTTTGAAATTTCGAACTTTTTT
*
85821851 CTTCTTTTTTTCTTTGAAATTTCGTACTTTTTT
1 CTTCTTTTTTT-TTTGAAATTTCGAACTTTTTT
85821884 TTAATACCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.71
Consensus pattern (32 bp):
CTTCTTTTTTTTTTGAAATTTCGAACTTTTTT
Found at i:85825064 original size:17 final size:18
Alignment explanation
Indices: 85825042--85825078 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
85825032 TTATATATTT
85825042 TTTAGAA-TTTAAAAAAA
1 TTTAGAATTTTAAAAAAA
85825059 TTTAGAATTTTTAAAAAAA
1 TTTAGAA-TTTTAAAAAAA
85825078 T
1 T
85825079 ATATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTAGAATTTTAAAAAAA
Found at i:85825089 original size:19 final size:19
Alignment explanation
Indices: 85825049--85825089 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
85825039 TTTTTTAGAA
* *
85825049 TTTAAAAAAATTTAGAATT
1 TTTAAAAAAATATAGAAAT
*
85825068 TTTAAAAAAATATATAAAT
1 TTTAAAAAAATATAGAAAT
85825087 TTT
1 TTT
85825090 GGAATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTAAAAAAATATAGAAAT
Found at i:85825115 original size:19 final size:19
Alignment explanation
Indices: 85825080--85825136 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
85825070 TAAAAAAATA
*
85825080 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
85825098 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
* *
85825116 TAAAAATTATTTTAAATTTT
1 TATAAA-TATTTTGAATTTT
85825136 T
1 T
85825137 GAAAATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 15 0.45
19 14 0.42
20 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:85825117 original size:18 final size:18
Alignment explanation
Indices: 85825080--85825135 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
85825070 TAAAAAAATA
*
85825080 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAA-TTT
85825098 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
* *
85825116 TAAAAATTATTTTAAATTT
1 TATAAA-TATTTTGAATTT
85825135 T
1 T
85825136 TGAAAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:85825141 original size:20 final size:19
Alignment explanation
Indices: 85825092--85825153 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
85825082 TAAATTTTGG
*
85825092 AATTTTTATAAA-TATTTTG
1 AATTTTTA-AAATTATTTTA
*
85825111 AATTTTAAAAATTATTTTA
1 AATTTTTAAAATTATTTTA
85825130 AATTTTTGAAAATTATTTTA
1 AATTTTT-AAAATTATTTTA
85825150 AATT
1 AATT
85825154 ATTTTATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.08
19 19 0.50
20 16 0.42
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTA
Found at i:85825152 original size:10 final size:10
Alignment explanation
Indices: 85825119--85825164 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
85825109 TGAATTTTAA
85825119 AAATTATTTT
1 AAATTATTTT
*
85825129 AAATT-TTTGA
1 AAATTATTT-T
85825139 AAATTATTTT
1 AAATTATTTT
85825149 AAATTATTTT
1 AAATTATTTT
85825159 ATAATT
1 A-AATT
85825165 TTTGTTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 3 0.10
10 21 0.68
11 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
AAATTATTTT
Found at i:85825806 original size:21 final size:21
Alignment explanation
Indices: 85825780--85825819 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
85825770 CGAAACAACG
*
85825780 TAGTTTTGTCTTTTAACTTAA
1 TAGTTTTGACTTTTAACTTAA
85825801 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
85825820 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:85826365 original size:28 final size:28
Alignment explanation
Indices: 85826323--85826383 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
85826313 AGCCATACTT
*
85826323 GAAAAAAAATGAAAATTGTAAAGATGGA
1 GAAAAAAAATAAAAATTGTAAAGATGGA
85826351 GAAAAAAAATAAAAATTGTAAAGATGGA
1 GAAAAAAAATAAAAATTGTAAAGATGGA
85826379 GAAAA
1 GAAAA
85826384 GAGAGTGGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (28 bp):
GAAAAAAAATAAAAATTGTAAAGATGGA
Found at i:85831008 original size:15 final size:15
Alignment explanation
Indices: 85830988--85831017 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85830978 CCGGGGAGAT
85830988 TGTTTCGGTGAAGAA
1 TGTTTCGGTGAAGAA
85831003 TGTTTCGGTGAAGAA
1 TGTTTCGGTGAAGAA
85831018 AGTGCCTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (15 bp):
TGTTTCGGTGAAGAA
Found at i:85831876 original size:31 final size:31
Alignment explanation
Indices: 85831841--85831899 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
85831831 ACCATATTTA
*
85831841 CTAAAAAATTACTTTCTTTACCACATGTTTG
1 CTAAAAAATTACTCTCTTTACCACATGTTTG
*
85831872 CTAAAAAATTACTCTCTTTGCCACATGT
1 CTAAAAAATTACTCTCTTTACCACATGT
85831900 ATCTATTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (31 bp):
CTAAAAAATTACTCTCTTTACCACATGTTTG
Found at i:85832671 original size:30 final size:30
Alignment explanation
Indices: 85832629--85832702 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
85832619 TAACTTTGAG
85832629 TTGAA-TGATTGTAACAATTTGTGTGTTTTC
1 TTGAATTG-TTGTAACAATTTGTGTGTTTTC
** * *
85832659 TTGAATTGTTGTAGTAATTTTTGTGTTTTG
1 TTGAATTGTTGTAACAATTTGTGTGTTTTC
*
85832689 TTGAATGGTTGTAA
1 TTGAATTGTTGTAA
85832703 TAGCTAACTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.22, C:0.03, G:0.23, T:0.53
Consensus pattern (30 bp):
TTGAATTGTTGTAACAATTTGTGTGTTTTC
Found at i:85836655 original size:17 final size:17
Alignment explanation
Indices: 85836633--85836667 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
85836623 CTAGCATGTG
*
85836633 TTTATTTTTAATTTCAT
1 TTTATTTTGAATTTCAT
85836650 TTTATTTTGAATTTCAT
1 TTTATTTTGAATTTCAT
85836667 T
1 T
85836668 AATTTGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTATTTTGAATTTCAT
Found at i:85837624 original size:21 final size:21
Alignment explanation
Indices: 85837598--85837639 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
85837588 AGCCTTGCAA
85837598 TTAACTCCGCTTAATTATGAT
1 TTAACTCCGCTTAATTATGAT
85837619 TTAACTCCGCTTAATTATGAT
1 TTAACTCCGCTTAATTATGAT
85837640 AATTGTACTC
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:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
TTAACTCCGCTTAATTATGAT
Found at i:85838619 original size:77 final size:76
Alignment explanation
Indices: 85838476--85838620 Score: 168
Period size: 77 Copynumber: 1.9 Consensus size: 76
85838466 AGAGCTTCAT
* * * *
85838476 TGATTTGGCTTCGGGCCATGATATTAGCACTTTGGGTGTAAGATATACCGATGTGGATTCGGGCT
1 TGATTTGGCTTCGGGCCATGATATCAGCACTTTGGATATAAGA-ATACCGATGTGGATTCGAGCT
85838541 ATGAATATCGGC
65 ATGAATATCGGC
* * * *
85838553 TGATTTGGCTTCGGGCCATGATATCAGTA-TTTCGGATATAAG-CTACCTTGATTTGGCTTCGAG
1 TGATTTGGCTTCGGGCCATGATATCAGCACTTT-GGATATAAGAATACC--GATGTGGATTCGAG
85838616 CTATG
63 CTATG
85838621 GTATATGTGC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
75 4 0.07
76 3 0.05
77 50 0.88
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (76 bp):
TGATTTGGCTTCGGGCCATGATATCAGCACTTTGGATATAAGAATACCGATGTGGATTCGAGCTA
TGAATATCGGC
Found at i:85838750 original size:35 final size:35
Alignment explanation
Indices: 85838707--85838776 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
85838697 TGAATGTGTA
*
85838707 TGAGTTTGATGTTAAATGATACAGGTATGTACATG
1 TGAGTTTGATGTTAAATGATACAGGTACGTACATG
85838742 TGAGTTTGATGTTAAATGATACAGGTACGTACATG
1 TGAGTTTGATGTTAAATGATACAGGTACGTACATG
85838777 AATTATATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (35 bp):
TGAGTTTGATGTTAAATGATACAGGTACGTACATG
Found at i:85840502 original size:14 final size:15
Alignment explanation
Indices: 85840483--85840519 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
85840473 ACTGCACAAT
*
85840483 TAATAATATG-GTCA
1 TAATAACATGAGTCA
85840497 TAATAACATGAGTCA
1 TAATAACATGAGTCA
85840512 -AATAACAT
1 TAATAACAT
85840520 AAATAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (15 bp):
TAATAACATGAGTCA
Found at i:85841061 original size:21 final size:21
Alignment explanation
Indices: 85841037--85841079 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
85841027 CCTGCTCAGT
*
85841037 GGCACTATTTGGTAAAGTTTC
1 GGCACTACTTGGTAAAGTTTC
85841058 GGCACTACTTGGTAAAGTTTC
1 GGCACTACTTGGTAAAGTTTC
85841079 G
1 G
85841080 AAATTTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (21 bp):
GGCACTACTTGGTAAAGTTTC
Found at i:85842160 original size:14 final size:14
Alignment explanation
Indices: 85842143--85842178 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
85842133 ATCTCAAACA
85842143 ATATATCTTTAAAT
1 ATATATCTTTAAAT
* *
85842157 ATATTTCTTTCAAT
1 ATATATCTTTAAAT
85842171 ATATATCT
1 ATATATCT
85842179 CTAATGCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATCTTTAAAT
Found at i:85842405 original size:87 final size:87
Alignment explanation
Indices: 85842309--85842470 Score: 243
Period size: 87 Copynumber: 1.9 Consensus size: 87
85842299 CAAACATACT
* * * *
85842309 ATTTTAGTATTTAATTAATTTTTTTATAATAATTAAGTAAGAAGCATACAGATAAATAATAATAC
1 ATTTCAGTATTTAATTAATTTTTTTATAATAATTAAGTAACAAACATACAAATAAATAATAATAC
85842374 AAAAAAAATTCTCAAATATATC
66 AAAAAAAATTCTCAAATATATC
* * * * *
85842396 ATTTCAGTATTTATTTAGTTTTTTTATACTAATTAAGTGACAAACATACAAATAAATAATACTAC
1 ATTTCAGTATTTAATTAATTTTTTTATAATAATTAAGTAACAAACATACAAATAAATAATAATAC
85842461 AAAAAAAATT
66 AAAAAAAATT
85842471 AAAACCCTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 66 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (87 bp):
ATTTCAGTATTTAATTAATTTTTTTATAATAATTAAGTAACAAACATACAAATAAATAATAATAC
AAAAAAAATTCTCAAATATATC
Found at i:85848521 original size:14 final size:14
Alignment explanation
Indices: 85848502--85848531 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85848492 TCGAGAAATT
85848502 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
*
85848516 AAAAAAAGAAGAAG
1 AAAAAAAGAAAAAG
85848530 AA
1 AA
85848532 CAGATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:85849254 original size:18 final size:18
Alignment explanation
Indices: 85849220--85849254 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85849210 TTTATAATAC
* *
85849220 TATATATTGTGTTATTTT
1 TATATATTATGTAATTTT
85849238 TATATATTATGTAATTT
1 TATATATTATGTAATTT
85849255 AGAATACATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:85849914 original size:14 final size:14
Alignment explanation
Indices: 85849897--85849924 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
85849887 TATAAAAGGG
85849897 TAAATATATTTTTA
1 TAAATATATTTTTA
85849911 TAAATATATTTTTA
1 TAAATATATTTTTA
85849925 CTTTTTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAAATATATTTTTA
Found at i:85859263 original size:14 final size:14
Alignment explanation
Indices: 85859239--85859305 Score: 71
Period size: 14 Copynumber: 4.8 Consensus size: 14
85859229 TTGTTTCATT
*
85859239 GAAAATAATTTTCG
1 GAAAATGATTTTCG
* *
85859253 TAAAATGATTTTTG
1 GAAAATGATTTTCG
* *
85859267 GAAAATAACTTTCG
1 GAAAATGATTTTCG
* *
85859281 TAAAATGATTTTTG
1 GAAAATGATTTTCG
85859295 GAAAATGATTT
1 GAAAATGATTT
85859306 GTTTTTCTGA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (14 bp):
GAAAATGATTTTCG
Found at i:85859271 original size:28 final size:28
Alignment explanation
Indices: 85859239--85859305 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
85859229 TTGTTTCATT
85859239 GAAAATAATTTTCGTAAAATGATTTTTG
1 GAAAATAATTTTCGTAAAATGATTTTTG
*
85859267 GAAAATAACTTTCGTAAAATGATTTTTG
1 GAAAATAATTTTCGTAAAATGATTTTTG
*
85859295 GAAAATGATTT
1 GAAAATAATTT
85859306 GTTTTTCTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (28 bp):
GAAAATAATTTTCGTAAAATGATTTTTG
Found at i:85859390 original size:32 final size:33
Alignment explanation
Indices: 85859323--85859394 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
85859313 TGAAAATTTT
* *
85859323 AATATTTTTTGGTGTTTGAATGAATCTGTGTAA
1 AATATTTTTTGGTGTTTGAATAAATCTATGTAA
* *
85859356 AATATTTTTTGTTGTTTG-ATAAATTTAT-TAAA
1 AATATTTTTTGGTGTTTGAATAAATCTATGT-AA
85859388 AATATTT
1 AATATTT
85859395 CATAAAAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.03
32 16 0.47
33 17 0.50
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (33 bp):
AATATTTTTTGGTGTTTGAATAAATCTATGTAA
Found at i:85859816 original size:15 final size:15
Alignment explanation
Indices: 85859761--85859817 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
85859751 TTTATATTAC
85859761 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
85859776 AATATAGTTATAATTGTA
1 AAAATA-TT-T-ATTATT
85859794 ATAAATATTTATTATT
1 A-AAATATTTATTATT
85859810 AAAATATT
1 AAAATATT
85859818 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 12 0.38
16 7 0.22
17 2 0.06
18 7 0.22
19 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:85859859 original size:16 final size:17
Alignment explanation
Indices: 85859840--85859876 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
85859830 TTTTGAATAA
85859840 TATTATTTAAAA-TTAT
1 TATTATTTAAAATTTAT
85859856 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
85859872 TATTA
1 TATTA
85859877 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:85865734 original size:25 final size:25
Alignment explanation
Indices: 85865706--85865755 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
85865696 GTTTTGCACA
* *
85865706 TTTTAAAGTATTA-TTCTTTTAAAT
1 TTTTTAAGTATTATTTATTTTAAAT
*
85865730 TTTTTATGTATTATTTATTTTAAAT
1 TTTTTAAGTATTATTTATTTTAAAT
85865755 T
1 T
85865756 ATCATACGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTTAAGTATTATTTATTTTAAAT
Found at i:85865996 original size:29 final size:28
Alignment explanation
Indices: 85865931--85866005 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
85865921 TATTCTAAGA
*
85865931 TTTCATATATTACTTATATTAAATTGTT
1 TTTCATATATTATTTATATTAAATTGTT
*
85865959 TATAT-ATATATTATTTATTTTAAATT-TACT
1 T-T-TCATATATTATTTATATTAAATTGT--T
85865989 TTTCATATATTATTTAT
1 TTTCATATATTATTTAT
85866006 GTAAAATTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 3 0.08
29 34 0.85
30 3 0.08
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (28 bp):
TTTCATATATTATTTATATTAAATTGTT
Found at i:85866194 original size:23 final size:23
Alignment explanation
Indices: 85866167--85866213 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
85866157 TAGTTTTCCC
85866167 TACCTATTATCCATTTAGAATTG
1 TACCTATTATCCATTTAGAATTG
85866190 TACCTATTATCCATTTAGAATTG
1 TACCTATTATCCATTTAGAATTG
85866213 T
1 T
85866214 TTTATCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.45
Consensus pattern (23 bp):
TACCTATTATCCATTTAGAATTG
Found at i:85878010 original size:44 final size:43
Alignment explanation
Indices: 85877959--85878523 Score: 363
Period size: 44 Copynumber: 13.0 Consensus size: 43
85877949 TCTCAAATCC
* *
85877959 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGA-TGTAGATCT
* * * * **
85878003 TGTCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTAG-ATCT
* ** * * ** * *
85878047 CATCTCCCTAAGCAGTAGCAGAGCAGATTTAAG--CCACCATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTA-GATCT
* * * *
85878089 TATCTACCTAAGCAGTAGTGGAGTAGGCTGAAAATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGA-TGTAGATCT
* * * * **
85878133 TGTCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTAG-ATCT
* * * ** * *
85878177 TATCTCCCTAAGTAGTAGTGGAGCAGATTTAAG--CCACCATAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTA-GATCT
* * *
85878219 TATCTCCTTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGA-TGTAGATCT
** * * * **
85878263 TGCCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTAG-ATCT
* * ** *
85878307 TATCTCCCTAAGCAGTAGTGGAGCAGATTTAAG--CCACCATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTA-GATCT
* * * *
85878349 TATCTCCCTAAGAAGTAGTGGAGTATGCTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGA-TGTAGATCT
* * * **
85878393 TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTAG-ATCT
* * * ** * *
85878437 TATCTCCCTAAGTAGTAGTGGAGCAGATTTAAG--CCACCATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTA-GATCT
*
85878479 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGA-TGTAGATCT
85878523 T
1 T
85878524 GTATCTTTAG
Statistics
Matches: 385, Mismatches: 116, Indels: 40
0.71 0.21 0.07
Matches are distributed among these distances:
42 120 0.31
43 12 0.03
44 249 0.65
45 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGTAGATCT
Found at i:85878512 original size:86 final size:87
Alignment explanation
Indices: 85878129--85878513 Score: 361
Period size: 86 Copynumber: 4.4 Consensus size: 87
85878119 AAAATTGTAG
* * *
85878129 ATCTTGTCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGAATCTTATCTCCCTAAGTAGTA
*
85878194 GTGGAGCAGATTTAAG-CCACC
66 GTGGAGCAGATTGAAGACCACC
* * * ** * * **
85878215 ATATTATCTCCTTAAGCAGTAGTGGAGTAGGCTGAAGATTG-TAGATCTTGCCTCCCTAAGTAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGA-ATCTTATCTCCCTAAGTAGT
* *** *
85878279 AGTGGAGCAGATCGAAGATGGCGA
65 AGTGGAGCAGATTGAAGACCAC-C
* *** * *
85878303 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-CATCTTATCTCCCTAAGAAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGAATCTTATCTCCCTAAGTAGTA
* * ** *
85878366 GTGGAGTATG-CTGAAGATTGTA-G
66 GTGGAGCA-GATTGAAGA--CCACC
* *
85878389 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGAATCTTATCTCCCTAAGTAGTA
*
85878454 GTGGAGCAGATTTAAG-CCACC
66 GTGGAGCAGATTGAAGACCACC
* * *
85878475 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAT
85878514 TGTAGATCTT
Statistics
Matches: 231, Mismatches: 57, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
85 2 0.01
86 163 0.71
87 4 0.02
88 62 0.27
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (87 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGAATCTTATCTCCCTAAGTAGTA
GTGGAGCAGATTGAAGACCACC
Found at i:85878589 original size:130 final size:130
Alignment explanation
Indices: 85877955--85878618 Score: 995
Period size: 130 Copynumber: 5.1 Consensus size: 130
85877945 AAATTCTCAA
85877955 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
* * * **
85878020 GTGGAACAGATCGAAGATGGCGAATCTCATCTCCCTAAGCAGTAGCAGAGCAGATTTAAGCCACC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACC
* * *
85878085 ATCCTATCTACCTAAGCAGTAGTGGAGTAGGCTGAAAATTGTAGATCTTGTCTCCCTAAGAAGTA
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
85878150 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACC
** * * *
85878215 ATATTATCTCCTTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGCCTCCCTAAGTAGTA
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
*
85878280 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACC
* * *
85878345 ATCTTATCTCCCTAAGAAGTAGTGGAGTATGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
85878410 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACC
* * ** * *
85878475 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTGTATCTTTAGGCATTA
1 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
* * * * * * * * * * * *
85878540 GTGGAGCAGATCGAAAATGACAAATCTTGTCTTCCTAATTTGCAATGGAGCAGACTAAAGCCACA
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACC
*
85878605 AACCTCATCTCCCT
1 ATCCT-ATCTCCCT
85878619 GAAGTTGCAG
Statistics
Matches: 488, Mismatches: 45, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
130 480 0.98
131 8 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (130 bp):
ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTTAAGCCACC
Found at i:85878627 original size:44 final size:44
Alignment explanation
Indices: 85878559--85878715 Score: 147
Period size: 44 Copynumber: 3.6 Consensus size: 44
85878549 ATCGAAAATG
* * * *
85878559 ACAAATCTTGTCTTCCT-AATTTGCAATGGAGCAGACTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGAC
* * * * ** *
85878602 ACAAACCTCATCTCCCTGAAGTTGCAGTGGGGCAGGTTAAA-ATT
1 ACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGA-C
* * *
85878646 ACAAGTCTTATCTCCTTGAAGTTGCAATGGAGCAGACTGAAGAC
1 ACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGAC
**
85878690 ACCGATCTTATCTCCCTGAAGTTGCA
1 ACAAATCTTATCTCCCTGAAGTTGCA
85878716 GTAGAGTAGA
Statistics
Matches: 86, Mismatches: 25, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
43 13 0.15
44 72 0.84
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGAC
Found at i:85878744 original size:44 final size:44
Alignment explanation
Indices: 85878579--85878750 Score: 139
Period size: 44 Copynumber: 3.9 Consensus size: 44
85878569 TCTTCCTAAT
* * ** * *
85878579 TTGCAATGGAGCAGACTAAAGCCACAAACCTCATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTAAAGTTACAGACCTTATCTCCCTGAAG
* * * * *
85878623 TTGCAGTGGGGCAGGTTAAAATTACA-AGTCTTATCTCCTTGAAG
1 TTGCAGTGGAGCAGATTAAAGTTACAGA-CCTTATCTCCCTGAAG
* * * ** * *
85878667 TTGCAATGGAGCAGACTGAAGACACCGATCTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATTAAAGTTACAGACCTTATCTCCCTGAAG
* * *
85878711 TTGCAGTAGAGTAGATTAAAGTTACAGACCTTATTTCCCT
1 TTGCAGTGGAGCAGATTAAAGTTACAGACCTTATCTCCCT
85878751 AAAATTGAAG
Statistics
Matches: 96, Mismatches: 30, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
43 1 0.01
44 94 0.98
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
TTGCAGTGGAGCAGATTAAAGTTACAGACCTTATCTCCCTGAAG
Found at i:85878744 original size:88 final size:88
Alignment explanation
Indices: 85878579--85878744 Score: 208
Period size: 88 Copynumber: 1.9 Consensus size: 88
85878569 TCTTCCTAAT
* * * *
85878579 TTGCAATGGAGCAGACTAAAGCCACAAACCTCATCTCCCTGAAGTTGCAGTGGGGCAGGTTAAAA
1 TTGCAATGGAGCAGACTAAAGACACAAACCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAA
*
85878644 TTACAAGTCTTATCTCCTTGAAG
66 TTACAAGCCTTATCTCCTTGAAG
* ** * * * *
85878667 TTGCAATGGAGCAGACTGAAGACACCGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAG
1 TTGCAATGGAGCAGACTAAAGACACAAACCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAA
85878732 TTAC-AGACCTTAT
66 TTACAAG-CCTTAT
85878745 TTCCCTAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
87 2 0.03
88 63 0.97
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (88 bp):
TTGCAATGGAGCAGACTAAAGACACAAACCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAA
TTACAAGCCTTATCTCCTTGAAG
Found at i:85879993 original size:29 final size:28
Alignment explanation
Indices: 85879928--85880002 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
85879918 TATTCTAAGA
*
85879928 TTTCATATATTACTTATATTAAATTGTT
1 TTTCATATATTATTTATATTAAATTGTT
*
85879956 TATAT-ATATATTATTTATTTTAAATT-TACT
1 T-T-TCATATATTATTTATATTAAATTGT--T
85879986 TTTCATATATTATTTAT
1 TTTCATATATTATTTAT
85880003 GTAAAATTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 3 0.08
29 34 0.85
30 3 0.08
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (28 bp):
TTTCATATATTATTTATATTAAATTGTT
Found at i:85880193 original size:23 final size:23
Alignment explanation
Indices: 85880166--85880210 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
85880156 GTTTTCCCTA
85880166 CCTATTATCCATTTAGAATTGTC
1 CCTATTATCCATTTAGAATTGTC
85880189 CCTATTATCCATTTAGAATTGT
1 CCTATTATCCATTTAGAATTGT
85880211 TTTATCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (23 bp):
CCTATTATCCATTTAGAATTGTC
Found at i:85881408 original size:12 final size:12
Alignment explanation
Indices: 85881391--85881424 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
85881381 TTGTTTCTTT
85881391 TTTTATGTTT-TA
1 TTTTAT-TTTATA
85881403 TTTTATTTTATA
1 TTTTATTTTATA
85881415 TTTTATTTTA
1 TTTTATTTTA
85881425 ATAATGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:85881413 original size:17 final size:17
Alignment explanation
Indices: 85881391--85881424 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85881381 TTGTTTCTTT
*
85881391 TTTTATGTTTTATTTTA
1 TTTTATATTTTATTTTA
85881408 TTTTATATTTTATTTTA
1 TTTTATATTTTATTTTA
85881425 ATAATGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATATTTTATTTTA
Found at i:85881444 original size:16 final size:17
Alignment explanation
Indices: 85881423--85881463 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
85881413 TATTTTATTT
85881423 TAATAATGTAAT-ATAA
1 TAATAATGTAATAATAA
*
85881439 TAATAATTTAATAATAA
1 TAATAATGTAATAATAA
85881456 -AATAATGT
1 TAATAATGT
85881464 TTACTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
TAATAATGTAATAATAA
Found at i:85884611 original size:18 final size:18
Alignment explanation
Indices: 85884580--85884614 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
85884570 GTAGAATTTG
85884580 AATAAAAACAACCAACAA
1 AATAAAAACAACCAACAA
85884598 AATACAAAAC-ACCAACA
1 AATA-AAAACAACCAACA
85884615 CACACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.06
Consensus pattern (18 bp):
AATAAAAACAACCAACAA
Found at i:85885911 original size:22 final size:22
Alignment explanation
Indices: 85885885--85885928 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
85885875 AGATGCAAAA
85885885 GTATATTTAAATTTATTGATAT
1 GTATATTTAAATTTATTGATAT
85885907 GTATATTTAAATTTATTGATAT
1 GTATATTTAAATTTATTGATAT
85885929 AGTGAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (22 bp):
GTATATTTAAATTTATTGATAT
Found at i:85888359 original size:29 final size:29
Alignment explanation
Indices: 85888317--85888372 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
85888307 ATTGAATTTA
85888317 AATTTGTCAAGAATGTATTAATTTCAATT
1 AATTTGTCAAGAATGTATTAATTTCAATT
*
85888346 AATTTGTCAAGAATGTATTAGTTTCAA
1 AATTTGTCAAGAATGTATTAATTTCAA
85888373 CCTTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (29 bp):
AATTTGTCAAGAATGTATTAATTTCAATT
Found at i:85893179 original size:30 final size:30
Alignment explanation
Indices: 85893149--85893222 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 30
85893139 TTATGTTTTA
85893149 AAAATTTATATTATATTATTTTAATATTTAAT
1 AAAATTT-TA-TATATTATTTTAATATTTAAT
*
85893181 AAAATTTTATATATT-TTTT--TATTTATT
1 AAAATTTTATATATTATTTTAATATTTAAT
85893208 AAAAGTTTTTATATA
1 AAAA--TTTTATATA
85893223 GTCATTGTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 11 0.28
29 13 0.33
30 6 0.15
31 2 0.05
32 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
AAAATTTTATATATTATTTTAATATTTAAT
Found at i:85894438 original size:15 final size:15
Alignment explanation
Indices: 85894398--85894440 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
85894388 GCAATTAGGG
*
85894398 TTAGGGTTTGAGAATT
1 TTAGGGTTTTA-AATT
* *
85894414 TTAAGTTTTTAAATT
1 TTAGGGTTTTAAATT
85894429 TTAGGGTTTTAA
1 TTAGGGTTTTAA
85894441 GGAAAAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (15 bp):
TTAGGGTTTTAAATT
Found at i:85894541 original size:94 final size:96
Alignment explanation
Indices: 85894428--85894630 Score: 261
Period size: 94 Copynumber: 2.1 Consensus size: 96
85894418 GTTTTTAAAT
* * * *
85894428 TTTAGGGTTTTAAGGAAAAAAATTAAATAAATTAAGGTTTAGTGTT-TTTAATTAAATTAATTAC
1 TTTAGGGTTTTAAGG-AAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA-
* * *
85894492 T-AATTT-TAAAAAATAGATTATG-GTTTAGTG
64 TAAATTTAAAAAAAATAGATTAGGAGTTTAGGG
* * *
85894522 TTTATGGTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
1 TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATA
85894587 AATTTAAAAAAAAATAGATTAGGAGTTTAGGG
66 AATTT-AAAAAAAATAGATTAGGAGTTTAGGG
85894619 TTTAGGGTTTTA
1 TTTAGGGTTTTA
85894631 GGGTATTTAA
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
93 28 0.30
94 33 0.35
96 14 0.15
97 18 0.19
ACGTcount: A:0.41, C:0.01, G:0.18, T:0.40
Consensus pattern (96 bp):
TTTAGGGTTTTAAGGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATA
AATTTAAAAAAAATAGATTAGGAGTTTAGGG
Found at i:85895255 original size:126 final size:126
Alignment explanation
Indices: 85894717--85895244 Score: 837
Period size: 126 Copynumber: 4.2 Consensus size: 126
85894707 AAAAGCTTCT
* *
85894717 ACGTGGACGCTCTTTTGCTGCAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
85894782 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
85894843 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * *
85894908 ATAGTGTAAAAAACGCTTCAAGCATGATGCATTGTT-AGCAAAAGTACTGAAAGAAACTTCT
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATT-TTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
85894969 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTAAAAAAATAATTTTGAGAAGACGTGTCTGCTCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
85895034 ATAGTGGT-AAAAACGCTTCAAGTAGGATGCATTTTCAGCAAAATTACT-AGAAGAAGCTCCC
66 ATAGT-GTAAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGA-AAGAAGCTCCC
* * **
85895095 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
85895160 ATAGTGTAAAAAACGCTTCAAGTAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
85895221 ACGTGGACGCTCTTTTGCTACAGT
1 ACGTGGACGCTCTTTTGCTACAGT
85895245 GGTTTTTGAA
Statistics
Matches: 369, Mismatches: 27, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
125 5 0.01
126 360 0.98
127 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:85898335 original size:17 final size:17
Alignment explanation
Indices: 85898296--85898333 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
85898286 AATATAAAAA
* *
85898296 TATTCAAAATATTGCTT
1 TATTTAAAATAATGCTT
85898313 TATTTAAAATAATG-TT
1 TATTTAAAATAATGCTT
85898329 TATTT
1 TATTT
85898334 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (17 bp):
TATTTAAAATAATGCTT
Found at i:85898450 original size:116 final size:116
Alignment explanation
Indices: 85898274--85898773 Score: 876
Period size: 116 Copynumber: 4.3 Consensus size: 116
85898264 TTTATATTTT
* * * *
85898274 ATTACATTAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATGTT-TATTTTATT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAAT-TTCCATTTTATT
* *
85898338 AAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATATT
65 AAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATCTA
*
85898390 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
85898455 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATCTA
85898506 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
85898571 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATCTA
85898622 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-
*
85898687 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
65 AAAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATCTA
*
85898739 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
85898774 TGTACAAATA
Statistics
Matches: 370, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
115 2 0.01
116 284 0.77
117 84 0.23
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATCTA
Found at i:85899190 original size:18 final size:18
Alignment explanation
Indices: 85899163--85899200 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
85899153 GAAAAAGGAA
*
85899163 ACATATAAGGGCTAGAAT
1 ACATAAAAGGGCTAGAAT
*
85899181 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGAAT
85899199 AC
1 AC
85899201 GTACCTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (18 bp):
ACATAAAAGGGCTAGAAT
Found at i:85909806 original size:70 final size:69
Alignment explanation
Indices: 85909724--85909858 Score: 243
Period size: 70 Copynumber: 1.9 Consensus size: 69
85909714 GGGTTTTCCC
*
85909724 CTTAGCCTCTCCATTTTTACTCTTTTCATTTTCCATTTTCATTATTCATCTTTTCTTTTTTTTTT
1 CTTAGCCTCTCCATTTTTACTCTTTTCATTTTCCATTTTCATTATTCATCTTTT-TTCTTTTTTT
85909789 TTTTT
65 TTTTT
*
85909794 CTTAGCCTCTCCATTTTTACTCTTTTCATTTTCCATTTTCATTCTTCATCTTTTTTCTTTTTTTT
1 CTTAGCCTCTCCATTTTTACTCTTTTCATTTTCCATTTTCATTATTCATCTTTTTTCTTTTTTTT
85909859 GAACTTCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
69 10 0.16
70 53 0.84
ACGTcount: A:0.11, C:0.23, G:0.01, T:0.64
Consensus pattern (69 bp):
CTTAGCCTCTCCATTTTTACTCTTTTCATTTTCCATTTTCATTATTCATCTTTTTTCTTTTTTTT
TTTT
Found at i:85910247 original size:38 final size:38
Alignment explanation
Indices: 85910205--85910281 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
85910195 TGGCCTCTTC
85910205 TTTTCTTTTCTTTAATTTTCATATTTCTATTTTGACTT
1 TTTTCTTTTCTTTAATTTTCATATTTCTATTTTGACTT
** *
85910243 TTTTCTTTTCTTTGCTTTTCATATTTTTATTTTGACTT
1 TTTTCTTTTCTTTAATTTTCATATTTCTATTTTGACTT
85910281 T
1 T
85910282 GATTGATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.70
Consensus pattern (38 bp):
TTTTCTTTTCTTTAATTTTCATATTTCTATTTTGACTT
Found at i:85912963 original size:19 final size:20
Alignment explanation
Indices: 85912934--85912982 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
85912924 CACTTCGTTA
* *
85912934 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
85912953 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
85912973 AAATG-AATGC
1 AAATGTAATGC
85912983 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:85917096 original size:22 final size:23
Alignment explanation
Indices: 85917061--85917108 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
85917051 TAACGAGAGT
85917061 TTTGAGAGGAATTTAAGAGAA-A
1 TTTGAGAGGAATTTAAGAGAATA
*
85917083 TTTGAGAGGAATTTGAGAGAATA
1 TTTGAGAGGAATTTAAGAGAATA
85917106 TTT
1 TTT
85917109 AAAGATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (23 bp):
TTTGAGAGGAATTTAAGAGAATA
Found at i:85921185 original size:28 final size:27
Alignment explanation
Indices: 85921134--85921196 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
85921124 AACTTTTTTA
*
85921134 TTAATTTTTATATATTCTTTTATCAGT
1 TTAATTTTTATATATTCTTCTATCAGT
*
85921161 TTAATTTTTGATATAATT-TTCTATCATT
1 TTAATTTTT-ATAT-ATTCTTCTATCAGT
85921189 TCTAATTT
1 T-TAATTT
85921197 CTTTATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 9 0.29
28 13 0.42
29 9 0.29
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (27 bp):
TTAATTTTTATATATTCTTCTATCAGT
Done.