Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 142 of 259
Found at i:46253176 original size:24 final size:23
Alignment explanation
Indices: 46253127--46253191 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
46253117 TGATGGACAT
* *
46253127 TAAGCTCTATTGAGATG-AAACGG
1 TAAGCTCTA-TGAGTTGAAAACAG
46253150 TAAGCTCTGATGAGTTGAAAACAG
1 TAAGCTCT-ATGAGTTGAAAACAG
46253174 TAAGCTCTTATGAGTTGA
1 TAAGCTC-TATGAGTTGA
46253192 TATATCAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 14 0.38
24 22 0.59
25 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (23 bp):
TAAGCTCTATGAGTTGAAAACAG
Found at i:46284960 original size:15 final size:15
Alignment explanation
Indices: 46284940--46284969 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46284930 CCGAATGAGG
46284940 CCTAAGAAAGAGCTA
1 CCTAAGAAAGAGCTA
46284955 CCTAAGAAAGAGCTA
1 CCTAAGAAAGAGCTA
46284970 ACATACTTCG
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:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (15 bp):
CCTAAGAAAGAGCTA
Found at i:46287933 original size:34 final size:34
Alignment explanation
Indices: 46287885--46287977 Score: 150
Period size: 34 Copynumber: 2.7 Consensus size: 34
46287875 GCGCATACAT
* *
46287885 TCTGGGCCTAAGCCCATATCAGTAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
46287919 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCGG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
46287953 TCTGGGCTTTAGCCCATTTCAGTAA
1 TCTGGGCCTTAGCCCATTTCAGTAA
46287978 TATTAATCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:46287995 original size:18 final size:18
Alignment explanation
Indices: 46287981--46288048 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
46287971 TCAGTAATAT
46287981 TAATCAATGCAGTAACAG
1 TAATCAATGCAGTAACAG
46287999 TAATCAATGC-GATAACCA-
1 TAATCAATGCAG-TAA-CAG
*
46288017 TGATCAATGCAGTAACAG
1 TAATCAATGCAGTAACAG
*
46288035 TAATCAGTGCAGTA
1 TAATCAATGCAGTA
46288049 TGTAAGCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
17 3 0.07
18 37 0.86
19 3 0.07
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (18 bp):
TAATCAATGCAGTAACAG
Found at i:46288436 original size:27 final size:27
Alignment explanation
Indices: 46288389--46288447 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
46288379 TGGAACAAAT
* **
46288389 GTCATTTTACCTTACCGGGGTATTACA
1 GTCATTTTACCCTACAAGGGTATTACA
*
46288416 GTCATTTTACCCTACAAGGGTATTTCA
1 GTCATTTTACCCTACAAGGGTATTACA
46288443 GTCAT
1 GTCAT
46288448 CCTACCCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACA
Found at i:46288500 original size:27 final size:27
Alignment explanation
Indices: 46288407--46288511 Score: 96
Period size: 27 Copynumber: 4.1 Consensus size: 27
46288397 ACCTTACCGG
* *
46288407 GGTATTACAGTCATTTTACCCTA-CAA
1 GGTATTTCAGTCATTTTACCCTATGAA
** * *
46288433 GGGTATTTCAGTCATCCTACCCAATG-G
1 -GGTATTTCAGTCATTTTACCCTATGAA
46288460 GGTATTT---TCATTTTACCCTATGAA
1 GGTATTTCAGTCATTTTACCCTATGAA
*
46288484 GGTATTTCGGTCATTTTACCCTAT-AA
1 GGTATTTCAGTCATTTTACCCTATGAA
46288510 GG
1 GG
46288512 GCAAAATCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
23 12 0.19
24 7 0.11
26 11 0.17
27 33 0.52
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTATTTCAGTCATTTTACCCTATGAA
Found at i:46291230 original size:25 final size:25
Alignment explanation
Indices: 46291173--46291246 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
46291163 TTTCTAATCC
* * *
46291173 CAATTTTACTCCAATAAAATTTTGA
1 CAATTTTACTCTAGTAAAATTTTAA
*
46291198 CAACTTTACTCTAGTAAAATTTTAA
1 CAATTTTACTCTAGTAAAATTTTAA
** *
46291223 TGATTTTACCCTCAGTAAAATTTT
1 CAATTTTACTCT-AGTAAAATTTT
46291247 GAGAAAATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 29 0.73
26 11 0.28
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (25 bp):
CAATTTTACTCTAGTAAAATTTTAA
Found at i:46312688 original size:31 final size:31
Alignment explanation
Indices: 46312650--46312751 Score: 195
Period size: 31 Copynumber: 3.3 Consensus size: 31
46312640 TTACTAGGCG
46312650 GAAGCCTTTTCATAAATCATATCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
46312681 GAAGCCTTTTCATAAATCATATCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
*
46312712 GAAGCCTTTTCATAAATCATTTCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
46312743 GAAGCCTTT
1 GAAGCCTTT
46312752 ACTGTAAACA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
GAAGCCTTTTCATAAATCATATCACTGGGCC
Found at i:46313047 original size:26 final size:26
Alignment explanation
Indices: 46312957--46313092 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
46312947 CTGGAGGCCT
*
46312957 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
46312981 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
46313006 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*** *
46313032 AGCCCTTTTTGGTAAACTGGAGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
46313058 AGCCATTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
46313084 AGCCCTTTT
1 AGCCCTTTT
46313093 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 32 0.34
26 52 0.55
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:46313077 original size:52 final size:51
Alignment explanation
Indices: 46312963--46313092 Score: 194
Period size: 52 Copynumber: 2.6 Consensus size: 51
46312953 GCCTAGCCTC
* * *
46312963 TTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCC
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGAGCAAAGCCA
*
46313011 TTTTCAATAAACTGGGGCATAAGCCCTTTTTGGTAAACTGGAGCATAAGCCA
1 TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGAGCA-AAGCCA
46313063 TTTTCAATAAACTGGGGCATAAGCCCTTTT
1 TTTTCAATAAACTGGGGCATAAGCCCTTTT
46313093 GCACTTCCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
48 4 0.05
49 3 0.04
50 9 0.12
51 23 0.31
52 35 0.47
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (51 bp):
TTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGAGCAAAGCCA
Found at i:46313167 original size:20 final size:20
Alignment explanation
Indices: 46313142--46313228 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
46313132 TTATGAATAC
46313142 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
46313162 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
46313182 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
46313202 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
46313222 ATCATGT
1 ATCATGT
46313229 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:46314051 original size:54 final size:54
Alignment explanation
Indices: 46313934--46314065 Score: 187
Period size: 54 Copynumber: 2.4 Consensus size: 54
46313924 GGGCATATTC
*
46313934 GTCATTTTACCATACAGGGGTATTACGGTCACTTTACCTTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGTATTACGGTCACTTTACCCTACAGGGGCTTTACG
* *
46313988 GTCACTTTACCCTACAGGGGCT-TTACGGTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGG-TATTACGGTCACTTTACCCTACAGGGGCTTTACG
* *
46314042 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
46314066 TTAGTCATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
53 2 0.03
54 66 0.96
55 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCATTTTACCATACAGGGGTATTACGGTCACTTTACCCTACAGGGGCTTTACG
Found at i:46314061 original size:27 final size:27
Alignment explanation
Indices: 46313934--46314044 Score: 179
Period size: 27 Copynumber: 4.1 Consensus size: 27
46313924 GGGCATATTC
* *
46313934 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
46313961 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
46313988 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
46314015 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
46314042 GTC
1 GTC
46314045 TTTTTACCTA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 79 0.99
28 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:46314136 original size:27 final size:27
Alignment explanation
Indices: 46314091--46314415 Score: 214
Period size: 27 Copynumber: 12.0 Consensus size: 27
46314081 TAAAATGGTG
* * *
46314091 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
** * *
46314118 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* * *
46314145 TTTCT-ATAATTTCTAGAAAGTCAAGGGTA
1 TTT-TGGTAATTT-TATAAA-CCAAGGGTA
* ** *
46314174 TTTCT-GTAATTTTGTAAATTAGGGGTA
1 TTT-TGGTAATTTTATAAACCAAGGGTA
* ***
46314201 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* *
46314228 TTTTGGTAATTTCACAAACC-AGTGGTA
1 TTTTGGTAATTTTATAAACCAAG-GGTA
* * *
46314255 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
*
46314282 TTTTGGTAATTTTACAAACC-AGAGGTA
1 TTTTGGTAATTTTATAAACCAAG-GGTA
* * * *
46314309 TTATAGCAATTTTACT-GACC-AGGGTA
1 TTTTGGTAATTTTA-TAAACCAAGGGTA
* *
46314335 TTTTGGTAATTTTACT-AATCGAGGGTA
1 TTTTGGTAATTTTA-TAAACCAAGGGTA
*
46314362 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* * * *
46314389 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
46314416 AAACAGTAAT
Statistics
Matches: 242, Mismatches: 46, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
26 24 0.10
27 191 0.79
28 9 0.04
29 18 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTATAAACCAAGGGTA
Found at i:46314286 original size:81 final size:79
Alignment explanation
Indices: 46314168--46314400 Score: 238
Period size: 81 Copynumber: 2.9 Consensus size: 79
46314158 TAGAAAGTCA
** ** *
46314168 AGGGTATTTCT-GTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTT
1 AGGGTATTT-TGGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACCAGA-GGTATTA
* *
46314231 TGGTAATTTCACAAACC
63 TAGCAATTTCACAAACC
46314248 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTAT
1 AG-GGTATTTTGGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTAT
* **
46314313 AGCAATTTTACTGACC
64 AGCAATTTCACAAACC
* * ** *
46314329 AGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCA-AGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACCAGA-GGTATTAT
*
46314393 AGTAATTT
64 AGCAATTT
46314401 TGTAAATCGA
Statistics
Matches: 131, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.02
80 62 0.47
81 64 0.49
82 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (79 bp):
AGGGTATTTTGGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTATAG
CAATTTCACAAACC
Found at i:46314381 original size:80 final size:81
Alignment explanation
Indices: 46314194--46314401 Score: 242
Period size: 80 Copynumber: 2.6 Consensus size: 81
46314184 TTTGTAAATT
*** * * * * **
46314194 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTATAGCAATTTTACTGACCAGTGGTATTTT
*
46314259 GGTAATTTTACAAACT
66 GGTAATTTTACAAACG
46314275 AGGGGTATTTTGGTAATTTTACAAACC-AGAGGTATTATAGCAATTTTACTGACCAG-GGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAG-GGTATTATAGCAATTTTACTGACCAGTGGTATTT
*
46314338 TGGTAATTTTACTAATCG
65 TGGTAATTTTAC-AAACG
** * *
46314356 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTATAGCAATTTT
46314402 GTAAATCGAG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
80 59 0.54
81 51 0.46
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTATAGCAATTTTACTGACCAGTGGTATTTT
GGTAATTTTACAAACG
Found at i:46314409 original size:54 final size:54
Alignment explanation
Indices: 46314091--46314415 Score: 243
Period size: 54 Copynumber: 6.0 Consensus size: 54
46314081 TAAAATGGTG
* * ** *
46314091 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAA-CCAATGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCC-AGGGTA
* * * *
46314145 TTTCT-ATAATTTCTAGAAAGTCAAGGGTATTTCT-GTAATTTTGTAAAT-TAGGGGTA
1 TTT-TGGTAATTT-TACAAA-CCAAGGGTATTT-TGGTAATTTTGTAAATCCA-GGGTA
*** ***
46314201 TTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAA-CCAGTGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCCAG-GGTA
* * **
46314255 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CCAGAGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCCAG-GGTA
* * * ** * *
46314309 TTATAGCAATTTTACTGACC-AGGGTATTTTGGTAATTTTACT-AATCGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-GTAAATCCAGGGTA
** * *
46314362 TTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCCAGGGTA
46314416 AAACAGTAAT
Statistics
Matches: 217, Mismatches: 40, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
53 40 0.18
54 127 0.59
55 13 0.06
56 37 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAATCCAGGGTA
Found at i:46314423 original size:27 final size:27
Alignment explanation
Indices: 46314393--46314496 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
46314383 AGGGTATTTT
* *
46314393 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
46314420 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
46314447 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
46314474 AGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTATAAATCGAGGGTA
46314497 CGTTGGTAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:46314425 original size:54 final size:54
Alignment explanation
Indices: 46314367--46314487 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 54
46314357 GGGTATTTTG
* **** * *
46314367 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
* * * *
46314421 GTAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTATGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
46314475 GTAATTATGTAAA
1 GTAATTATGTAAA
46314488 TCGGGGGTAC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.31
Consensus pattern (54 bp):
GTAATTATGTAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:46319535 original size:146 final size:146
Alignment explanation
Indices: 46319343--46319635 Score: 559
Period size: 146 Copynumber: 2.0 Consensus size: 146
46319333 ATGTTACACT
46319343 ATAAATAGGTATTAAGCAATCAATTGTACCAAATGATATAGAAAATACAAGAAAACGAGCATACT
1 ATAAATAGGTATTAAGCAATCAATTGTACCAAATGATATAGAAAATACAAGAAAACGAGCATACT
*
46319408 AATACGAATAATAAATAGTTGAACTTGTTTTTGTTTGGTGGATTAAATTTGTGCATGTTGAGATA
66 AATACGAATAATAAATAGTTGAACTTCTTTTTGTTTGGTGGATTAAATTTGTGCATGTTGAGATA
*
46319473 TTTAGGGATGACCTAA
131 TTTAAGGATGACCTAA
46319489 ATAAATAGGTATTAAGCAATCAATTGTACCAAATGATATAGAAAATACAAGAAAACGAGCATACT
1 ATAAATAGGTATTAAGCAATCAATTGTACCAAATGATATAGAAAATACAAGAAAACGAGCATACT
*
46319554 AATACGAATAATAAATAGTTGAACTTCTTTTTGTTTGGTTGATTAAATTTGTGCATGTTGAGATA
66 AATACGAATAATAAATAGTTGAACTTCTTTTTGTTTGGTGGATTAAATTTGTGCATGTTGAGATA
46319619 TTTAAGGATGACCTAA
131 TTTAAGGATGACCTAA
46319635 A
1 A
46319636 GCATTGTTTG
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
146 144 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.32
Consensus pattern (146 bp):
ATAAATAGGTATTAAGCAATCAATTGTACCAAATGATATAGAAAATACAAGAAAACGAGCATACT
AATACGAATAATAAATAGTTGAACTTCTTTTTGTTTGGTGGATTAAATTTGTGCATGTTGAGATA
TTTAAGGATGACCTAA
Found at i:46323106 original size:16 final size:16
Alignment explanation
Indices: 46323082--46323115 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
46323072 TAGGAACGTC
*
46323082 AGCTGACCTAGGCTTA
1 AGCTAACCTAGGCTTA
46323098 AGCTAACCTAGGCTTA
1 AGCTAACCTAGGCTTA
46323114 AG
1 AG
46323116 GACGACAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (16 bp):
AGCTAACCTAGGCTTA
Found at i:46326027 original size:20 final size:20
Alignment explanation
Indices: 46326004--46326044 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
46325994 CTGTAGCGCT
*
46326004 ATCAAGGGCACCGAAGTGCA
1 ATCAAAGGCACCGAAGTGCA
46326024 ATCAAAGGCACCGAAGTGCA
1 ATCAAAGGCACCGAAGTGCA
46326044 A
1 A
46326045 ATAAGGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.27, T:0.10
Consensus pattern (20 bp):
ATCAAAGGCACCGAAGTGCA
Found at i:46326052 original size:19 final size:20
Alignment explanation
Indices: 46326010--46326064 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
46326000 CGCTATCAAG
46326010 GGCACCGAAGTGC-AATCAAA
1 GGCACCGAAGTGCAAAT-AAA
46326030 GGCACCGAAGTGCAAAT-AA
1 GGCACCGAAGTGCAAATAAA
**
46326049 GGCATTGAAGTGCAAA
1 GGCACCGAAGTGCAAA
46326065 GAATAAGCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 16 0.50
20 13 0.41
21 3 0.09
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (20 bp):
GGCACCGAAGTGCAAATAAA
Found at i:46331937 original size:40 final size:40
Alignment explanation
Indices: 46331854--46332073 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
46331844 ACCCAAGTAT
** * *
46331854 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
46331892 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
46331932 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
46331972 CTTCAGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * * *
46332012 CTTCAGATCTTAGTCTGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
46332052 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
46332074 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 123 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:46334791 original size:25 final size:26
Alignment explanation
Indices: 46334752--46334815 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
46334742 TTAGCTCTTA
*
46334752 TGAGCATCCCGATTAAA-GGCTCTTCG
1 TGAGCTTCCC-ATTAAATGGCTCTTCG
*
46334778 TGAGCTTCCCATTAAATTGGCTCTTTG
1 TGAGCTTCCCATTAAA-TGGCTCTTCG
*
46334805 TGACCTTCCCA
1 TGAGCTTCCCA
46334816 ATAGTGCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.18
26 9 0.27
27 18 0.55
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (26 bp):
TGAGCTTCCCATTAAATGGCTCTTCG
Found at i:46335000 original size:24 final size:23
Alignment explanation
Indices: 46334952--46335003 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
46334942 AGCCCGGATA
* *
46334952 AGCTTCCTAATAGGCTCTTATTG
1 AGCTTCCTAAAAGGCTCTTAGTG
46334975 AGCTTCCTAAAATGGCTCTGT-GTG
1 AGCTTCCTAAAA-GGCTCT-TAGTG
46334999 AGCTT
1 AGCTT
46335004 TCCATTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 13 0.52
25 1 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (23 bp):
AGCTTCCTAAAAGGCTCTTAGTG
Found at i:46345241 original size:48 final size:48
Alignment explanation
Indices: 46345170--46345344 Score: 165
Period size: 48 Copynumber: 3.6 Consensus size: 48
46345160 GTGCTACTGT
* * * *
46345170 AAGACCATGTCTGGGACATGGCATCGGCAACGATATGAGAGCCAATGA
1 AAGACCATGTCTGGAACATGGCATCGGCAATGACATGAGAGCCAGTGA
* * * * ** *
46345218 AAGACCATGTTTGGAACATGGCATCGTCATTGAGACAAGAGCTAGTGTA
1 AAGACCATGTCTGGAACATGGCATCGGCAATGACATGAGAGCCAGTG-A
** * *
46345267 AA-ACCATGTCT-GAGACATGGCATCGGCCTTGACATGTGAGCCAGTGT
1 AAGACCATGTCTGGA-ACATGGCATCGGCAATGACATGAGAGCCAGTGA
* *
46345314 AAGACCATGTTTGGAACATGGCATCAGCAAT
1 AAGACCATGTCTGGAACATGGCATCGGCAAT
46345345 TCACCCTCTT
Statistics
Matches: 100, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
47 4 0.04
48 91 0.91
49 5 0.05
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (48 bp):
AAGACCATGTCTGGAACATGGCATCGGCAATGACATGAGAGCCAGTGA
Found at i:46345331 original size:96 final size:96
Alignment explanation
Indices: 46345162--46345338 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
46345152 TGATAGGTGT
* * *
46345162 GCTACTGTAAGACCATGTCTGGGACATGGCATCGGCAACGATATGAGAGCCAATGAAAGACCATG
1 GCTACTGTAAAACCATGTCTGAGACATGGCATCGGCAACGACATGAGAGCCAATGAAAGACCATG
46345227 TTTGGAACATGGCATCGTCATTGAGACAAGA
66 TTTGGAACATGGCATCGTCATTGAGACAAGA
* *** * * *
46345258 GCTAGTGTAAAACCATGTCTGAGACATGGCATCGGCCTTGACATGTGAGCCAGTGTAAGACCATG
1 GCTACTGTAAAACCATGTCTGAGACATGGCATCGGCAACGACATGAGAGCCAATGAAAGACCATG
46345323 TTTGGAACATGGCATC
66 TTTGGAACATGGCATC
46345339 AGCAATTCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (96 bp):
GCTACTGTAAAACCATGTCTGAGACATGGCATCGGCAACGACATGAGAGCCAATGAAAGACCATG
TTTGGAACATGGCATCGTCATTGAGACAAGA
Found at i:46345699 original size:21 final size:21
Alignment explanation
Indices: 46345674--46345734 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 21
46345664 TTGTTACTTT
46345674 TTTATATGCAACTTACTAAGC
1 TTTATATGCAACTTACTAAGC
* *
46345695 -TT-TATGC--TTTACT---T
1 TTTATATGCAACTTACTAAGC
46345709 TTTATATGCAACTTACTAAGC
1 TTTATATGCAACTTACTAAGC
46345730 TTTAT
1 TTTAT
46345735 GCTTACTCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 5 0.17
18 5 0.17
19 5 0.17
20 2 0.07
21 5 0.17
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (21 bp):
TTTATATGCAACTTACTAAGC
Found at i:46345700 original size:19 final size:19
Alignment explanation
Indices: 46345678--46345736 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
46345668 TACTTTTTTA
46345678 TATGCAACTTACTAAGCTT
1 TATGCAACTTACTAAGCTT
* **
46345697 TATGC--TTTACT--TTTT
1 TATGCAACTTACTAAGCTT
46345712 ATATGCAACTTACTAAGCTT
1 -TATGCAACTTACTAAGCTT
46345732 TATGC
1 TATGC
46345737 TTACTCCTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 5 0.17
18 5 0.17
19 10 0.34
20 2 0.07
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (19 bp):
TATGCAACTTACTAAGCTT
Found at i:46345715 original size:35 final size:36
Alignment explanation
Indices: 46345667--46345738 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
46345657 GTTGATGTTG
46345667 TTACTTTTTTATATGCAACTTACTAAGCTTTATGCT
1 TTACTTTTTTATATGCAACTTACTAAGCTTTATGCT
46345703 TTAC-TTTTTATATGCAACTTACTAAGCTTTATGCT
1 TTACTTTTTTATATGCAACTTACTAAGCTTTATGCT
46345738 T
1 T
46345739 ACTCCTTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (36 bp):
TTACTTTTTTATATGCAACTTACTAAGCTTTATGCT
Found at i:46346458 original size:19 final size:19
Alignment explanation
Indices: 46346412--46346451 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
46346402 CTGTGTGGGA
*
46346412 CACGGGTCATGGACACGGG
1 CACGGGTCATGGACACAGG
*
46346431 CACGGGTCATGGGCACAGG
1 CACGGGTCATGGACACAGG
46346450 CA
1 CA
46346452 TGTGTCAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.28, G:0.40, T:0.10
Consensus pattern (19 bp):
CACGGGTCATGGACACAGG
Found at i:46348836 original size:22 final size:22
Alignment explanation
Indices: 46348809--46348850 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
46348799 TATTTCAGTT
*
46348809 TACAGATATTAAGTTTATTTTC
1 TACAGAAATTAAGTTTATTTTC
46348831 TACAGAAATTAAGTTTATTT
1 TACAGAAATTAAGTTTATTT
46348851 GGTTTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (22 bp):
TACAGAAATTAAGTTTATTTTC
Found at i:46351089 original size:13 final size:15
Alignment explanation
Indices: 46351060--46351092 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
46351050 GGTGGAGAAA
46351060 ATAAATATTTGACAT
1 ATAAATATTTGACAT
46351075 ATAAATA-TT-ACAT
1 ATAAATATTTGACAT
46351088 ATAAA
1 ATAAA
46351093 GGAAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (15 bp):
ATAAATATTTGACAT
Found at i:46354725 original size:15 final size:15
Alignment explanation
Indices: 46354705--46354734 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46354695 CAATTAGAAG
*
46354705 TCCTTAATTTTAGTT
1 TCCTTAATTATAGTT
46354720 TCCTTAATTATAGTT
1 TCCTTAATTATAGTT
46354735 CTCATTCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (15 bp):
TCCTTAATTATAGTT
Found at i:46355484 original size:29 final size:30
Alignment explanation
Indices: 46355447--46355510 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
46355437 GAATTCATGA
* * *
46355447 TTAGAAGCTCCCTTCAATGAGTTC-CAAGG
1 TTAGGAGCTCCCTTCAAAGAGTTCTAAAGG
*
46355476 TTAGGAGCTCTCTTCAAAGAGTTCTAAAGG
1 TTAGGAGCTCCCTTCAAAGAGTTCTAAAGG
46355506 TTAGG
1 TTAGG
46355511 TTCTTCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (30 bp):
TTAGGAGCTCCCTTCAAAGAGTTCTAAAGG
Found at i:46363066 original size:58 final size:58
Alignment explanation
Indices: 46362960--46363078 Score: 152
Period size: 58 Copynumber: 2.1 Consensus size: 58
46362950 TTTGTCATGA
* *
46362960 CTTCATTAATCATCATTACGCAATAACACTTTTAACAAGAAGAGTTCATGCCTTGGAC
1 CTTCATCAATCATCATTACGCAATAACACTTTTAACAAGAAGAGTTCATACCTTGGAC
* * **
46363018 CTTCATCAATCATTATTATGCAATAACACTTTTAGTAGTAGAA-A-TTCATACCTTGGAC
1 CTTCATCAATCATCATTACGCAATAACACTTTTA--ACAAGAAGAGTTCATACCTTGGAC
46363076 CTT
1 CTT
46363079 AATATTTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 47 0.89
59 1 0.02
60 5 0.09
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (58 bp):
CTTCATCAATCATCATTACGCAATAACACTTTTAACAAGAAGAGTTCATACCTTGGAC
Found at i:46369890 original size:7 final size:6
Alignment explanation
Indices: 46369862--46369912 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
46369852 ACCCAATCCA
* *
46369862 AAAATT AAAATT AAAATCT ACAAATT ACAATT -AAATT AATATAT AAAATT
1 AAAATT AAAATT AAAAT-T A-AAATT AAAATT AAAATT AAAAT-T AAAATT
46369912 A
1 A
46369913 TTTAATAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.11
6 20 0.54
7 9 0.24
8 4 0.11
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:46369919 original size:17 final size:18
Alignment explanation
Indices: 46369897--46369931 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46369887 TACAATTAAA
*
46369897 TTAATATATAAAA-TTAT
1 TTAATAGATAAAAGTTAT
46369914 TTAATAGATAAAAGTTAT
1 TTAATAGATAAAAGTTAT
46369932 ATGGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
TTAATAGATAAAAGTTAT
Found at i:46370551 original size:21 final size:21
Alignment explanation
Indices: 46370527--46370567 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
46370517 TTTTGTTTTA
* *
46370527 TAAATAATAAATCTTAAAAAG
1 TAAAAAATAAATATTAAAAAG
*
46370548 TAAAAAATATATATTAAAAA
1 TAAAAAATAAATATTAAAAA
46370568 TCAACTAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAAATAAATATTAAAAAG
Found at i:46374537 original size:28 final size:28
Alignment explanation
Indices: 46374506--46374560 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
46374496 GTTAGTTTTA
* *
46374506 ATATATAATCGACTTTGCCGCCTGAATG
1 ATATATAATCAACTCTGCCGCCTGAATG
**
46374534 ATATATGGTCAACTCTGCCGCCTGAAT
1 ATATATAATCAACTCTGCCGCCTGAAT
46374561 ATTATAGTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (28 bp):
ATATATAATCAACTCTGCCGCCTGAATG
Found at i:46393689 original size:11 final size:10
Alignment explanation
Indices: 46393659--46393692 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
46393649 GGAGAGTACC
46393659 AAGAGTCAAA
1 AAGAGTCAAA
*
46393669 AAGAGCCAAA
1 AAGAGTCAAA
46393679 AACGAGTCAAA
1 AA-GAGTCAAA
46393690 AAG
1 AAG
46393693 GGACAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (10 bp):
AAGAGTCAAA
Found at i:46393699 original size:21 final size:21
Alignment explanation
Indices: 46393661--46393700 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46393651 AGAGTACCAA
*
46393661 GAGTCAAAAAGAGCCAAAAAC
1 GAGTCAAAAAGAGACAAAAAC
*
46393682 GAGTCAAAAAGGGACAAAA
1 GAGTCAAAAAGAGACAAAA
46393701 TAGACCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.15, G:0.23, T:0.05
Consensus pattern (21 bp):
GAGTCAAAAAGAGACAAAAAC
Found at i:46399518 original size:22 final size:23
Alignment explanation
Indices: 46399493--46399544 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
46399483 CAAAAATTAC
46399493 AAAAGAAATTC-AAAATA-ATTTT
1 AAAA-AAATTCAAAAATATATTTT
*
46399515 -AAAAAATTCAAAAATATCTTTT
1 AAAAAAATTCAAAAATATATTTT
46399537 AAAAAAAT
1 AAAAAAAT
46399545 ATCTTCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 4 0.15
23 7 0.27
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAAAATTCAAAAATATATTTT
Found at i:46399521 original size:20 final size:22
Alignment explanation
Indices: 46399498--46399542 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
46399488 ATTACAAAAG
46399498 AAATTC-AAAATA-ATTTTAAA
1 AAATTCAAAAATATATTTTAAA
*
46399518 AAATTCAAAAATATCTTTTAAA
1 AAATTCAAAAATATATTTTAAA
46399540 AAA
1 AAA
46399543 ATATCTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTCAAAAATATATTTTAAA
Found at i:46409765 original size:73 final size:74
Alignment explanation
Indices: 46409678--46409823 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 74
46409668 GGCAAACTTA
46409678 AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGGC-AAAGAAATAAAAC
1 AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGGCAAAAGAAATAAAAC
46409742 ATAACATTG
66 ATAACATTG
* * **
46409751 AAAATTATTACCATCACCATGATAGTGCTTAGAAGAAACCAAGAAATAGTCAAAAGAAATAATGC
1 AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGGCAAAAGAAATAAAAC
46409816 ATAACATT
66 ATAACATT
46409824 ACCACTGATG
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 49 0.72
74 19 0.28
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (74 bp):
AAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGGCAAAAGAAATAAAAC
ATAACATTG
Found at i:46410156 original size:1 final size:1
Alignment explanation
Indices: 46410150--46410225 Score: 89
Period size: 1 Copynumber: 76.0 Consensus size: 1
46410140 ATTTAAACAT
* * * * * *
46410150 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAACAAAAAAAAAACAAAAACAAAAAAGAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
46410215 AAAAAACAAAA
1 AAAAAAAAAAA
46410226 GAGAGGCAAG
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.91, C:0.08, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:46410193 original size:33 final size:33
Alignment explanation
Indices: 46410144--46410225 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
46410134 TTTCTTATTT
*
46410144 AAACATAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAACA-AAAAACAAAAAAAAAAAAAAAAAAAAAA
* *
46410178 AAACAAAAAACAAAAAAAAAACAAAAACAAAAA
1 AAACAAAAAACAAAAAAAAAAAAAAAAAAAAAA
*
46410211 AGACAAAAAACAAAA
1 AAACAAAAAACAAAA
46410226 GAGAGGCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 39 0.89
34 5 0.11
ACGTcount: A:0.89, C:0.09, G:0.01, T:0.01
Consensus pattern (33 bp):
AAACAAAAAACAAAAAAAAAAAAAAAAAAAAAA
Found at i:46417631 original size:59 final size:56
Alignment explanation
Indices: 46417566--46417751 Score: 144
Period size: 59 Copynumber: 3.1 Consensus size: 56
46417556 ATGATAAATT
*
46417566 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTTATTAA--TATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATC
* * * * * *
46417625 ATATATTATGATT-TTAAAAAATTCATATAAGAA-TATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-T--TTATTAATATATTTA-ATAATAATTATTTAA-ATT-A-TATTTTA-TAGTATC
* *
46417686 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTTATT--AATATATTTAATAATAATTATTT-AAATTATATTTTATAGTATC
46417745 ATATATT
1 ATATATT
46417752 ATGATTTGAG
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 7 0.07
59 36 0.37
60 15 0.15
61 34 0.35
62 6 0.06
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (56 bp):
ATATATTTTTATTAATATATTTAATAATAATTATTTAAATTATATTTTATAGTATC
Found at i:46417677 original size:61 final size:61
Alignment explanation
Indices: 46417612--46417799 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
46417602 GTTAAATTAT
*
46417612 ATTTTATAGTATTATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGA
* * * * * *
46417673 ATTTTATTA-AATCATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAA-ATT-A-
1 ATTTTA-TAGTATCATATATTATGATTTTAAAA-A-A-TTCATATAAGAATATTT-AATATTAAG
*
46417731 T
61 A
* ** * *
46417732 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGA
46417793 ATTTTAT
1 ATTTTAT
46417800 TATAAATTAT
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
58 10 0.11
59 31 0.33
60 8 0.08
61 35 0.37
62 11 0.12
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGA
Found at i:46417773 original size:120 final size:122
Alignment explanation
Indices: 46417559--46417849 Score: 453
Period size: 120 Copynumber: 2.4 Consensus size: 122
46417549 TAGTATGATG
* **
46417559 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
46417624 TATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAAAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
46417680 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
** *
46417743 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAAAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
46417801 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
46417850 ATATGATTAA
Statistics
Matches: 153, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
119 2 0.01
120 105 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAAAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:46417828 original size:18 final size:19
Alignment explanation
Indices: 46417793--46417829 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
46417783 ATTATTAAGA
46417793 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
46417812 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
46417830 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:46418059 original size:44 final size:45
Alignment explanation
Indices: 46417994--46418084 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
46417984 ACCTCTATTC
* * *
46417994 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
46418038 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
46418083 CA
1 CA
46418085 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:46418099 original size:17 final size:16
Alignment explanation
Indices: 46418065--46418117 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
46418055 GATTAGCTAT
46418065 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46418081 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
46418098 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46418114 TACA
1 TACA
46418118 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46418352 original size:22 final size:24
Alignment explanation
Indices: 46418309--46418352 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
46418299 ATTATATTGT
*
46418309 TAAATTGATATTTATAAATATTTA
1 TAAATTGATATTTAGAAATATTTA
*
46418333 TAAATT-A-ATTTAGAATTATT
1 TAAATTGATATTTAGAAATATT
46418353 AATTATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 1 0.06
24 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
TAAATTGATATTTAGAAATATTTA
Found at i:46418508 original size:18 final size:19
Alignment explanation
Indices: 46418464--46418508 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
46418454 AAAAAATTCT
*
46418464 TAATTATTTTTATTTGTTA
1 TAATTATTTTTATTTGTCA
*
46418483 TAAGTATTTTTATTT-TCA
1 TAATTATTTTTATTTGTCA
*
46418501 TATTTATT
1 TAATTATT
46418509 AATCAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TAATTATTTTTATTTGTCA
Found at i:46419248 original size:24 final size:24
Alignment explanation
Indices: 46419204--46419250 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
46419194 TTTTAACTTC
*
46419204 TTTTATTTATAAAATATTATTTAT
1 TTTTATTTATAAAATAATATTTAT
46419228 TTTTAATTTATAAAA-AATATTTA
1 TTTT-ATTTATAAAATAATATTTA
46419251 CCTGCAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATTTATAAAATAATATTTAT
Found at i:46419303 original size:31 final size:31
Alignment explanation
Indices: 46419267--46419333 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 31
46419257 ACACAGGTAG
46419267 GTGAGAAAGAAATATATGGAAACATTGACTT
1 GTGAGAAAGAAATATATGGAAACATTGACTT
*
46419298 GTGAG-AAGAAATATATGGAAACATTGAGTT
1 GTGAGAAAGAAATATATGGAAACATTGACTT
46419328 GTGAGA
1 GTGAGA
46419334 TAGTTTTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.25
Consensus pattern (31 bp):
GTGAGAAAGAAATATATGGAAACATTGACTT
Found at i:46422002 original size:7 final size:7
Alignment explanation
Indices: 46421990--46422022 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
46421980 GAGTCGATTC
46421990 GTATTTA
1 GTATTTA
46421997 GTATTTA
1 GTATTTA
46422004 GTATTTA
1 GTATTTA
*
46422011 CTATTTA
1 GTATTTA
46422018 GTATT
1 GTATT
46422023 ATGTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:46422547 original size:30 final size:29
Alignment explanation
Indices: 46422494--46422584 Score: 103
Period size: 30 Copynumber: 3.1 Consensus size: 29
46422484 GACGCGGGCT
*
46422494 CATCAACAGCG-CCACAGAATCACCGGGCC
1 CATCAACAGCGCCCACACAATCACC-GGCC
* * *
46422523 CATCAATAGTGCCCATACAATCACCAGGCC
1 CATCAACAGCGCCCACACAATCACC-GGCC
*
46422553 CATCAACAGCGCCCACACAGTCACTCGGCC
1 CATCAACAGCGCCCACACAATCAC-CGGCC
46422583 CA
1 CA
46422585 ATACTTTAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 9 0.18
30 41 0.80
31 1 0.02
ACGTcount: A:0.31, C:0.42, G:0.16, T:0.11
Consensus pattern (29 bp):
CATCAACAGCGCCCACACAATCACCGGCC
Found at i:46422946 original size:21 final size:21
Alignment explanation
Indices: 46422921--46422968 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
46422911 CCAACACCCA
*
46422921 CAACCAG-ATCCCCTGTCGGAG
1 CAACCAGAATCCCC-GCCGGAG
*
46422942 GAACCAGAATCCCCGCCGGAG
1 CAACCAGAATCCCCGCCGGAG
46422963 CAACCA
1 CAACCA
46422969 CAACCCCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.29, C:0.40, G:0.23, T:0.08
Consensus pattern (21 bp):
CAACCAGAATCCCCGCCGGAG
Found at i:46423184 original size:54 final size:55
Alignment explanation
Indices: 46423102--46423227 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 55
46423092 TATTGTTTCA
* * * *
46423102 TTTAATAAAATAAAAGTTGTTTTGAATAAAG-TA-ATTGT-AATTTACTTTTATATT
1 TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAA--TACTTTTATATT
* * *
46423156 TTTAATAAAATAAAATTTCTTTTAAATAAGGCAATATTTTGAATATTTTTATATT
1 TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAATACTTTTATATT
46423211 TTTAATAAAATATAAAT
1 TTTAATAAAATA-AAAT
46423228 AATGCAACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
54 27 0.44
55 24 0.39
56 8 0.13
57 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (55 bp):
TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAATACTTTTATATT
Found at i:46426543 original size:124 final size:126
Alignment explanation
Indices: 46426229--46426598 Score: 566
Period size: 125 Copynumber: 3.0 Consensus size: 126
46426219 GCCAAATAGG
**** *
46426229 AACTACTGTAGAAAAAGAGCGTCTTTATGGGAGCTTTTTTCAGTACTTTTGTTGACA-TGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* *
46426293 TGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTTTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
* * *
46426354 AACTACTGTAGAAAAATAGCGTCCACGTTGGAGCTTTTTTCAGTACTTTTGCTGACAGTGGATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
46426419 TGCTTGAAGCATTTTTGACACTATTT-TTCAGAAACATCTTCTCAAAATTATTTTTTTAGA
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
46426479 AACTACTGTAGAAAAA-AGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * *
46426543 TGCTTGAAGCGTTTTTTACACTATTTATTCATAAACATCTTTTTAAAATTATTTTT
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTT
46426599 CAGATACATC
Statistics
Matches: 223, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 70 0.31
125 122 0.55
126 31 0.14
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
Found at i:46429549 original size:38 final size:38
Alignment explanation
Indices: 46429494--46429570 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
46429484 TAGGTGTTAG
*
46429494 GGACATCTCACTCTTTCGGCTTAAATTCCCCACTTTTT
1 GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
*
46429532 GGACATATCACTTTTTCGGCTTAAATTCCCCACTTTTT
1 GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
46429570 G
1 G
46429571 ACAACTCTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (38 bp):
GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
Found at i:46429568 original size:22 final size:22
Alignment explanation
Indices: 46429502--46429569 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
46429492 AGGGACATCT
*
46429502 CACTCTTTCGGCTTAAATTCCC
1 CACTTTTTCGGCTTAAATTCCC
*
46429524 CACTTTTT-GG---ACATAT---
1 CACTTTTTCGGCTTAAAT-TCCC
46429540 CACTTTTTCGGCTTAAATTCCC
1 CACTTTTTCGGCTTAAATTCCC
46429562 CACTTTTT
1 CACTTTTT
46429570 GACAACTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 16
0.65 0.06 0.30
Matches are distributed among these distances:
16 8 0.23
17 2 0.06
18 3 0.09
19 2 0.06
20 3 0.09
21 2 0.06
22 15 0.43
ACGTcount: A:0.19, C:0.29, G:0.09, T:0.43
Consensus pattern (22 bp):
CACTTTTTCGGCTTAAATTCCC
Found at i:46437695 original size:20 final size:20
Alignment explanation
Indices: 46437670--46437716 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
46437660 TGGGTTAGGG
46437670 ACACGGGCGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
46437690 ACACGGGCGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
46437710 ACACGGG
1 ACACGGG
46437717 AACCACCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.38, G:0.28, T:0.09
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAACC
Found at i:46440953 original size:19 final size:19
Alignment explanation
Indices: 46440913--46440967 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
46440903 GTAACAAAAT
* *
46440913 AAAATAAAAATAGATTCAAA
1 AAAAT-AAAATAAATTTAAA
*
46440933 AATAAAAAAATAAATTTAAA
1 AA-AATAAAATAAATTTAAA
*
46440953 AAAATAAAATCAATT
1 AAAATAAAATAAATT
46440968 GGTAAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 11 0.38
20 16 0.55
21 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAAATAAATTTAAA
Found at i:46440961 original size:20 final size:20
Alignment explanation
Indices: 46440913--46440961 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
46440903 GTAACAAAAT
*
46440913 AAAATAAAAATAGATTCAAA
1 AAAATAAAAATAAATTCAAA
*
46440933 AATAA-AAAAATAAATTTAAA
1 AA-AATAAAAATAAATTCAAA
46440953 AAAATAAAA
1 AAAATAAAA
46440962 TCAATTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAATAAAAATAAATTCAAA
Found at i:46448803 original size:37 final size:37
Alignment explanation
Indices: 46448740--46448848 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
46448730 AGCTCAGATG
* * *
46448740 AAATCTCCACACGAAGTTATCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
46448777 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
46448814 TAATCTCCACACGTAGCCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
46448849 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:46449049 original size:48 final size:48
Alignment explanation
Indices: 46448990--46449374 Score: 680
Period size: 48 Copynumber: 8.0 Consensus size: 48
46448980 TATACACACG
* * * * *
46448990 TCTCCTACATATTTCACACTAGCCCTTTGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46449038 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
46449086 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46449134 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46449182 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46449230 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
46449278 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46449326 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
46449374 T
1 T
46449375 ATTTATCTTG
Statistics
Matches: 326, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 326 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:46454675 original size:13 final size:13
Alignment explanation
Indices: 46454657--46454699 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
46454647 AAGATTTTTC
46454657 CTAAATATTATTA
1 CTAAATATTATTA
46454670 CTAAATA--ATT-
1 CTAAATATTATTA
*
46454680 CTAAATATTATCA
1 CTAAATATTATTA
46454693 CTAAATA
1 CTAAATA
46454700 ATTCTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
CTAAATATTATTA
Found at i:46454687 original size:23 final size:23
Alignment explanation
Indices: 46454657--46454708 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
46454647 AAGATTTTTC
*
46454657 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
46454680 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
46454703 CTAAAT
1 CTAAAT
46454709 TTAAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:46454721 original size:23 final size:23
Alignment explanation
Indices: 46454657--46454721 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
46454647 AAGATTTTTC
** *
46454657 CTAAATATTATTACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
** *
46454680 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
46454703 CTAAAT-TTAAAAATCAAAT
1 CTAAATATTAAAAAT-AAAT
46454722 TTAAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTAAAAATAAATAATT
Found at i:46455440 original size:22 final size:22
Alignment explanation
Indices: 46455398--46455440 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46455388 TTAATGAAAT
* *
46455398 ATTATAAAAATTAAATGGATTC
1 ATTAAAAAAATTAAATAGATTC
*
46455420 ATTAAAAAAATTAATTAGATT
1 ATTAAAAAAATTAAATAGATT
46455441 TTTTTTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTAAAAAAATTAAATAGATTC
Found at i:46455749 original size:30 final size:30
Alignment explanation
Indices: 46455690--46455749 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
46455680 TATATATTAT
*
46455690 ATTAAAAGGTCTAAGATCTTAACTGATGTG
1 ATTAAAAGGTCTAAGATCTTAACTAATGTG
* *
46455720 ATTATAAGGTCTAAGATCTTAATTAATGTG
1 ATTAAAAGGTCTAAGATCTTAACTAATGTG
46455750 GACGCCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (30 bp):
ATTAAAAGGTCTAAGATCTTAACTAATGTG
Found at i:46461173 original size:56 final size:56
Alignment explanation
Indices: 46461125--46461260 Score: 254
Period size: 56 Copynumber: 2.4 Consensus size: 56
46461115 TCTTACTGAT
* *
46461125 ACACATATATCGAAATCACATATCGATGCCAGCGTATTAAACGTGGTCTAACTCGC
1 ACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
46461181 ACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
1 ACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
46461237 ACACATATATCGAAATCACATATC
1 ACACATATATCGAAATCACATATC
46461261 ACAAGTCGAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (56 bp):
ACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGC
Found at i:46462605 original size:15 final size:15
Alignment explanation
Indices: 46462580--46462633 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
46462570 ACAAAAATTT
46462580 CACATATATAAATTCA
1 CACATA-ATAAATTCA
*
46462596 CACATAATAAA--AA
1 CACATAATAAATTCA
* *
46462609 AAGAT-ATAAATTCA
1 CACATAATAAATTCA
46462623 CACATAATAAA
1 CACATAATAAA
46462634 CACAAAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
12 5 0.17
13 4 0.14
14 4 0.14
15 10 0.34
16 6 0.21
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.24
Consensus pattern (15 bp):
CACATAATAAATTCA
Found at i:46463667 original size:21 final size:21
Alignment explanation
Indices: 46463641--46463684 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
46463631 ATATCGGTAA
46463641 TAGAATATCAAAGAGAATTTG
1 TAGAATATCAAAGAGAATTTG
*
46463662 TAGAATATGAAAGAGAATTTG
1 TAGAATATCAAAGAGAATTTG
46463683 TA
1 TA
46463685 TGACTCAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.30
Consensus pattern (21 bp):
TAGAATATCAAAGAGAATTTG
Found at i:46466369 original size:241 final size:241
Alignment explanation
Indices: 46465946--46466430 Score: 934
Period size: 241 Copynumber: 2.0 Consensus size: 241
46465936 GCATGAAAAG
46465946 AATTATCCGACGCATGACTTAGAGTTGGCTGCAATTGTGTTCGCATTGAAAATTTGGCGACATTA
1 AATTATCCGACGCATGACTTAGAGTTGGCTGCAATTGTGTTCGCATTGAAAATTTGGCGACATTA
*
46466011 CTTATACGGTGAGAATTGCCACATTTATACAGATAAAAAAAGCTTAAAATATCTGATGTCACAAA
66 CTTACACGGTGAGAATTGCCACATTTATACAGATAAAAAAAGCTTAAAATATCTGATGTCACAAA
46466076 AAGATTTGAATCTGCGACAACGAAGATTGCTTGAGTTATTGAAAGATTATGAATTTGTGATTGAT
131 AAGATTTGAATCTGCGACAACGAAGATTGCTTGAGTTATTGAAAGATTATGAATTTGTGATTGAT
*
46466141 TATCACTCGGGAAAAGCTAATGTTGTTGCTGATGCCCTGAGCCAAA
196 TATCACTCAGGAAAAGCTAATGTTGTTGCTGATGCCCTGAGCCAAA
*
46466187 AATTATCCGACGCATGACTTAGAGTTGGCTGCAATTGTGTTTGCATTGAAAATTTGGCGACATTA
1 AATTATCCGACGCATGACTTAGAGTTGGCTGCAATTGTGTTCGCATTGAAAATTTGGCGACATTA
46466252 CTTACACGGTGAGAATTGCCACATTTATACAGATAAAAAAAGCTTAAAATATCTGATGTCACAAA
66 CTTACACGGTGAGAATTGCCACATTTATACAGATAAAAAAAGCTTAAAATATCTGATGTCACAAA
*
46466317 AAGATTTGAATTTGCGACAACGAAGATTGCTTGAGTTATTGAAAGATTATGAATTTGTGATTGAT
131 AAGATTTGAATCTGCGACAACGAAGATTGCTTGAGTTATTGAAAGATTATGAATTTGTGATTGAT
46466382 TATCACTCAGGAAAAGCTAATGTTGTTGCTGATGCCCTGAGCCAAA
196 TATCACTCAGGAAAAGCTAATGTTGTTGCTGATGCCCTGAGCCAAA
46466428 AAT
1 AAT
46466431 CTTTGTTTGC
Statistics
Matches: 240, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 240 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (241 bp):
AATTATCCGACGCATGACTTAGAGTTGGCTGCAATTGTGTTCGCATTGAAAATTTGGCGACATTA
CTTACACGGTGAGAATTGCCACATTTATACAGATAAAAAAAGCTTAAAATATCTGATGTCACAAA
AAGATTTGAATCTGCGACAACGAAGATTGCTTGAGTTATTGAAAGATTATGAATTTGTGATTGAT
TATCACTCAGGAAAAGCTAATGTTGTTGCTGATGCCCTGAGCCAAA
Found at i:46472531 original size:15 final size:15
Alignment explanation
Indices: 46472507--46472537 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46472497 TAATGTCTTG
46472507 CAACTAGGATAAAAA
1 CAACTAGGATAAAAA
*
46472522 CAACTGGGATAAAAA
1 CAACTAGGATAAAAA
46472537 C
1 C
46472538 TTCTGTGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (15 bp):
CAACTAGGATAAAAA
Found at i:46472812 original size:36 final size:36
Alignment explanation
Indices: 46472743--46472815 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
46472733 CACTTTCCAT
** *
46472743 TTTGCCTCATTGGCAACACTTTCAAATCTTGTTGGG
1 TTTGCCTCATTAACAACACTTTCAAATCATGTTGGG
46472779 TTTGCCTCATTAACAACACTTTCAAAAT-ATGTTGGG
1 TTTGCCTCATTAACAACACTTTC-AAATCATGTTGGG
46472815 T
1 T
46472816 CACAATATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (36 bp):
TTTGCCTCATTAACAACACTTTCAAATCATGTTGGG
Found at i:46474045 original size:74 final size:74
Alignment explanation
Indices: 46473924--46474071 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
46473914 TTATGAATCT
46473924 ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATGCG
1 ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATGCG
46473989 TAACTTGTA
66 TAACTTGTA
46473998 ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATGCG
1 ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATGCG
*
46474063 TGACTTGTA
66 TAACTTGTA
46474072 CACTTTAATT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (74 bp):
ATTCACTTGTGACATTCATAGTGTGGCATACCATAATCTTGAGTGGATGGTGGACTATGTATGCG
TAACTTGTA
Found at i:46476335 original size:28 final size:27
Alignment explanation
Indices: 46476301--46476364 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
46476291 GTATTGTGAT
* *
46476301 TGTACTGTTTTGGGCATAGGCCCATAC
1 TGTACTGTTTAGGGCATAGGCCCAGAC
** *
46476328 TGTTACTGCATAGGGCTTAGGCCCAGAC
1 TG-TACTGTTTAGGGCATAGGCCCAGAC
46476356 TGTACTGTT
1 TGTACTGTT
46476365 AATGAATAGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.33
Consensus pattern (27 bp):
TGTACTGTTTAGGGCATAGGCCCAGAC
Found at i:46476374 original size:33 final size:33
Alignment explanation
Indices: 46476325--46476387 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
46476315 CATAGGCCCA
* * * *
46476325 TACTGTTACTGCATAGGGCTTAGGCCCAGACTG
1 TACTGTTAATGAATAGGGCTCAAGCCCAGACTG
46476358 TACTGTTAATGAATAGGGCTCAAGCCCAGA
1 TACTGTTAATGAATAGGGCTCAAGCCCAGA
46476388 ACGTTACTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (33 bp):
TACTGTTAATGAATAGGGCTCAAGCCCAGACTG
Found at i:46477564 original size:12 final size:12
Alignment explanation
Indices: 46477547--46477572 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46477537 AGAGTTTAAC
46477547 TATGATTAAACT
1 TATGATTAAACT
46477559 TATGATTAAACT
1 TATGATTAAACT
46477571 TA
1 TA
46477573 ATCACTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
TATGATTAAACT
Found at i:46477704 original size:68 final size:67
Alignment explanation
Indices: 46477627--46477753 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 67
46477617 TTAGATTAAA
*
46477627 TTTAATATTAAATCTTATTAAAATA-ATGT-AGATAAACATTAAATTAAATTTAATATTAAGATA
1 TTTAATATT-AAT-TTAATAAAATACAT-TAAGATAAACATTAAATTAAATTTAATATTAAGATA
46477690 TTCAC
63 TTCAC
**
46477695 TTTAATATTAATTTAATAAAATACTATTAAGATAAGTATTAAATTAAATTTAATATTAA
1 TTTAATATTAATTTAATAAAATAC-ATTAAGATAAACATTAAATTAAATTTAATATTAA
46477754 ACTATTAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
66 10 0.19
67 4 0.08
68 39 0.74
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (67 bp):
TTTAATATTAATTTAATAAAATACATTAAGATAAACATTAAATTAAATTTAATATTAAGATATTC
AC
Found at i:46479984 original size:48 final size:48
Alignment explanation
Indices: 46479929--46480026 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
46479919 ATTTCTCCAT
46479929 TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
1 TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
46479977 TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
1 TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
46480025 TT
1 TT
46480027 TCATTCATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (48 bp):
TTAAGAGAAAATCATTTTTAATGAATTCTTTTTCTCTATTTCTATTCA
Found at i:46482689 original size:40 final size:40
Alignment explanation
Indices: 46482550--46482735 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
46482540 ACTGGAATTC
* * * *
46482550 TCACACATTAAGTGCCAAAACATAGCTGAAGCTATTT-TAA
1 TCACACACTAAGTGCC-ATATATAGCTGAAGCTATTTCGAA
* * * * **
46482590 TCTCGCACACTAAGTGCC-TTTCATAGCCGAAGCTATCTTAGTC
1 --TCACACACTAAGTGCCATAT-ATAGCTGAAGCTAT-TTCGAA
*
46482633 TCACACACTAAGTGCCACATATAGCTGAAGCTATTTCGAA
1 TCACACACTAAGTGCCATATATAGCTGAAGCTATTTCGAA
* *
46482673 TCGCACACTAAGTGCCATATATAGCTGAAGCTATTTCAAA
1 TCACACACTAAGTGCCATATATAGCTGAAGCTATTTCGAA
*
46482713 TCACACATTAAGTGCCATATATA
1 TCACACACTAAGTGCCATATATA
46482736 TATCCAAATC
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
40 61 0.51
41 41 0.34
42 17 0.14
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATAGCTGAAGCTATTTCGAA
Found at i:46482697 original size:81 final size:82
Alignment explanation
Indices: 46482548--46482706 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 82
46482538 ATACTGGAAT
* * *
46482548 TCTCACACATTAAGTGCCAAAACATAGCTGAAGCTATTTTAATCTCGCACACTAAGTGCCTTTCA
1 TCTCACACACTAAGTGCCAAAACATAGCTGAAGCTATTTGAA-CTCGCACACTAAGTGCCTATCA
46482613 TAGCCGAAGCTATCTTAG
65 TAGCCGAAGCTATCTTAG
* *
46482631 TCTCACACACTAAGTGCC-ACATATAGCTGAAGCTATTTCGAA-TCGCACACTAAGTGCCATAT-
1 TCTCACACACTAAGTGCCAAAACATAGCTGAAGCTATTT-GAACTCGCACACTAAGTGCC-TATC
*
46482693 ATAGCTGAAGCTAT
64 ATAGCCGAAGCTAT
46482707 TTCAAATCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
81 29 0.43
82 20 0.29
83 19 0.28
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (82 bp):
TCTCACACACTAAGTGCCAAAACATAGCTGAAGCTATTTGAACTCGCACACTAAGTGCCTATCAT
AGCCGAAGCTATCTTAG
Found at i:46483962 original size:35 final size:35
Alignment explanation
Indices: 46483916--46483982 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
46483906 AAAATCTTAC
* *
46483916 TAGTGAATAGGTTAGGGTATTGTTTTCTCATACCT
1 TAGTGAATAGGTTAGGGTACTATTTTCTCATACCT
46483951 TAGTGAATAGGTTAGGGTACTATTTTCTCATA
1 TAGTGAATAGGTTAGGGTACTATTTTCTCATA
46483983 GCATTCTCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (35 bp):
TAGTGAATAGGTTAGGGTACTATTTTCTCATACCT
Found at i:46489169 original size:12 final size:12
Alignment explanation
Indices: 46489152--46489177 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46489142 CACACGCCAA
46489152 TGTGCTAGGCCG
1 TGTGCTAGGCCG
46489164 TGTGCTAGGCCG
1 TGTGCTAGGCCG
46489176 TG
1 TG
46489178 CCAAACCTGT
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:0.08, C:0.23, G:0.42, T:0.27
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:46489328 original size:32 final size:32
Alignment explanation
Indices: 46489281--46489353 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
46489271 ACACCAGAGG
46489281 ACACACGGCCATGCAACATGACCGTGTGTCAC
1 ACACACGGCCATGCAACATGACCGTGTGTCAC
* *
46489313 ACACATGGCCGTGCAACATGACCGTGTGTCAC
1 ACACACGGCCATGCAACATGACCGTGTGTCAC
46489345 ACACACGGC
1 ACACACGGC
46489354 TGAGACACAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.27, C:0.34, G:0.23, T:0.15
Consensus pattern (32 bp):
ACACACGGCCATGCAACATGACCGTGTGTCAC
Found at i:46489370 original size:32 final size:32
Alignment explanation
Indices: 46489281--46489371 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 32
46489271 ACACCAGAGG
*
46489281 ACACACGGCC-ATGCAACATGACCGTGTGTCAC
1 ACACACGGCCGA-GCAACACGACCGTGTGTCAC
* * *
46489313 ACACATGGCCGTGCAACATGACCGTGTGTCAC
1 ACACACGGCCGAGCAACACGACCGTGTGTCAC
* *
46489345 ACACACGGCTGAG-ACACACGCCCGTGT
1 ACACACGGCCGAGCA-ACACGACCGTGT
46489372 CTCTGCCCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 1 0.02
32 49 0.98
ACGTcount: A:0.26, C:0.34, G:0.24, T:0.15
Consensus pattern (32 bp):
ACACACGGCCGAGCAACACGACCGTGTGTCAC
Found at i:46490328 original size:40 final size:40
Alignment explanation
Indices: 46490225--46490368 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 40
46490215 ACTCGAATTC
* *
46490225 TCGCACACTAAGTGCC-TTTCATAGCCGAAGCTATCTCAGTA
1 TCGCACACTAAGTGCCATAT-ATAGCCGAAGCTATCTCA-AA
* * * * *
46490266 TCGTACAATAAGTGCCACATATAGCCGTAGCTATTTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
* **
46490306 TTGCACACTAAGTGCCATATATAGCCGAAGCTATCTCGGA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
46490346 TCGCACACTAAGTGCCATATATA
1 TCGCACACTAAGTGCCATATATA
46490369 TATATCCAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 55 0.64
41 30 0.35
42 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
Found at i:46491715 original size:90 final size:90
Alignment explanation
Indices: 46491562--46491789 Score: 307
Period size: 90 Copynumber: 2.5 Consensus size: 90
46491552 TTTTATTTTT
* **
46491562 GGTTTTGATTTTTATTTCCAGAAGCGAGTTTTTTAAATTAGAATAAAATCTGTTTCGATATTTAT
1 GGTTTTGATTTTTATTTCCAAAAATGAG-TTTTTAAATTAGAATAAAATCTGTTTCGATATTTAT
* * *
46491627 TCCC-GCTGTTTAATGGATTTTATTCC
65 TCCCATC-GCTCAATGGATTTTATTCC
46491653 GGTTTTGATTTTTATTTCCAAAAATGAGTTTTTAAATTAGAATAAAATCTGTTTCAGA-ATTTAT
1 GGTTTTGATTTTTATTTCCAAAAATGAGTTTTTAAATTAGAATAAAATCTGTTTC-GATATTTAT
*
46491717 TCCCATCGCTCAATGGATTTTTTTCC
65 TCCCATCGCTCAATGGATTTTATTCC
** * * *
46491743 AATTTTTATTTTTATTTCCAAAAATAAGTTTTTAAATTTGAATAAAA
1 GGTTTTGATTTTTATTTCCAAAAATGAGTTTTTAAATTAGAATAAAA
46491790 AATTTTTCGC
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
90 95 0.77
91 28 0.23
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (90 bp):
GGTTTTGATTTTTATTTCCAAAAATGAGTTTTTAAATTAGAATAAAATCTGTTTCGATATTTATT
CCCATCGCTCAATGGATTTTATTCC
Found at i:46499781 original size:28 final size:27
Alignment explanation
Indices: 46499718--46499869 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
46499708 ATATTAAGTC
* * *
46499718 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
46499745 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
46499773 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
46499800 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
46499828 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
*
46499855 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46499870 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:46499802 original size:55 final size:55
Alignment explanation
Indices: 46499718--46499869 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
46499708 ATATTAAGTC
* * *
46499718 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
46499773 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
46499828 CGCACACTTAGTGCTACATAGTCAATTTGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
46499870 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:46503626 original size:21 final size:21
Alignment explanation
Indices: 46503600--46503640 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
46503590 TGGTAAGGAT
*
46503600 AATGTAGTGGCTGACGCACTG
1 AATGTAGTGGCTAACGCACTG
46503621 AATGTAGTGGCTAACGCACT
1 AATGTAGTGGCTAACGCACT
46503641 TAGCCGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (21 bp):
AATGTAGTGGCTAACGCACTG
Found at i:46508789 original size:18 final size:18
Alignment explanation
Indices: 46508766--46508813 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
46508756 GTAATAAGTG
46508766 ACGTTTTGAAAGTAAATA
1 ACGTTTTGAAAGTAAATA
46508784 ACGTTTTGAAAGTAAATA
1 ACGTTTTGAAAGTAAATA
*
46508802 ACATTTTGAAAG
1 ACGTTTTGAAAG
46508814 AGAATAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (18 bp):
ACGTTTTGAAAGTAAATA
Found at i:46508809 original size:36 final size:36
Alignment explanation
Indices: 46508769--46508848 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 36
46508759 ATAAGTGACG
46508769 TTTTGAAAGTA-AATAACGTTT-TGA-AAGTAAATAACA
1 TTTTGAAAG-AGAATAAC-TTTGTGATAA-TAAATAACA
* *
46508805 TTTTGAAAGAGAATAACTTTGTGATAATGAATTACA
1 TTTTGAAAGAGAATAACTTTGTGATAATAAATAACA
46508841 TTTTGAAA
1 TTTTGAAA
46508849 ACGAATGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
35 4 0.10
36 33 0.85
37 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (36 bp):
TTTTGAAAGAGAATAACTTTGTGATAATAAATAACA
Found at i:46508819 original size:18 final size:18
Alignment explanation
Indices: 46508769--46508848 Score: 85
Period size: 18 Copynumber: 4.4 Consensus size: 18
46508759 ATAAGTGACG
*
46508769 TTTTGAAAGTAAATAACG
1 TTTTGAAAGTAAATAACA
46508787 TTTTGAAAGTAAATAACA
1 TTTTGAAAGTAAATAACA
46508805 TTTTGAAAG-AGAATAAC-
1 TTTTGAAAGTA-AATAACA
* *
46508822 TTTGTGATAA-TGAATTACA
1 TTT-TGA-AAGTAAATAACA
46508841 TTTTGAAA
1 TTTTGAAA
46508849 ACGAATGACA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
17 6 0.11
18 43 0.80
19 5 0.09
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (18 bp):
TTTTGAAAGTAAATAACA
Found at i:46511739 original size:20 final size:19
Alignment explanation
Indices: 46511711--46511780 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
46511701 AAAAGTTAAA
*
46511711 AAAAATCAAAATAATTTTC
1 AAAATTCAAAATAATTTTC
*
46511730 AAATATTCAAAATAATTTTT
1 AAA-ATTCAAAATAATTTTC
*
46511750 AAAATTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTT-TC
46511769 AAAATTCTAAAA
1 AAAATTC-AAAA
46511781 ATTATATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.09
19 20 0.44
20 21 0.47
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:46511758 original size:19 final size:19
Alignment explanation
Indices: 46511711--46511795 Score: 82
Period size: 19 Copynumber: 4.2 Consensus size: 19
46511701 AAAAGTTAAA
* *
46511711 AAAAATCAAAATAATTTTC
1 AAAATTCAAAATAATTTTT
46511730 AAATATTCAAAATAATTTTT
1 AAA-ATTCAAAATAATTTTT
*
46511750 AAAATTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTT-TT
46511769 AAAATTCTAAAAATTATATTTTT
1 AAAATTC--AAAA-TA-ATTTTT
46511792 AAAA
1 AAAA
46511796 AATTATAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.07
19 20 0.36
20 17 0.31
21 4 0.07
22 1 0.02
23 5 0.09
24 4 0.07
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:46511788 original size:24 final size:25
Alignment explanation
Indices: 46511760--46511808 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
46511750 AAAATTCAAA
*
46511760 ATATTTAT-AAAAATTCTAAAAATT
1 ATATTTATAAAAAATTATAAAAATT
*
46511784 ATATTTTTAAAAAATTATAAAAATT
1 ATATTTATAAAAAATTATAAAAATT
46511809 TTGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTTATAAAAAATTATAAAAATT
Found at i:46522687 original size:55 final size:55
Alignment explanation
Indices: 46522600--46522735 Score: 141
Period size: 55 Copynumber: 2.5 Consensus size: 55
46522590 TGCGACATGG
* * ** ** *
46522600 CCGTGGACGAACCTGCCAAAACAACACAGGCGTGCGACACGCCCGTGCCTTA-AAA
1 CCGTGGTCGAACCTGTCAAATTAACATGGGCGTGAGACACGCCCGTGCC-TAGAAA
* * *
46522655 CCGTGG-CTGAACCTGTCAAATTAACATGGGCGTGAGACACGCCCGTGTCTAGCAC
1 CCGTGGTC-GAACCTGTCAAATTAACATGGGCGTGAGACACGCCCGTGCCTAGAAA
*
46522710 CCGTGGTCGAACCTGTGAAATTAACA
1 CCGTGGTCGAACCTGTCAAATTAACA
46522736 CGGGTGTGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
54 3 0.04
55 64 0.94
56 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (55 bp):
CCGTGGTCGAACCTGTCAAATTAACATGGGCGTGAGACACGCCCGTGCCTAGAAA
Found at i:46529222 original size:13 final size:13
Alignment explanation
Indices: 46529204--46529229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46529194 TTCAAACTAC
46529204 TTTTTATTTTTTA
1 TTTTTATTTTTTA
46529217 TTTTTATTTTTTA
1 TTTTTATTTTTTA
46529230 GAAGATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:46533544 original size:31 final size:31
Alignment explanation
Indices: 46533498--46533566 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
46533488 TACTAGGCTG
*
46533498 AAGCC-TTTCATAATTCATAACACTGGGCCA
1 AAGCCTTTTCAAAATTCATAACACTGGGCCA
** **
46533528 AAGCCTTTTCAAAATTCATATTACTGGGCTG
1 AAGCCTTTTCAAAATTCATAACACTGGGCCA
46533559 AAGCCTTT
1 AAGCCTTT
46533567 ACTGTAAGCG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (31 bp):
AAGCCTTTTCAAAATTCATAACACTGGGCCA
Found at i:46533888 original size:11 final size:10
Alignment explanation
Indices: 46533872--46533908 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
46533862 CATCTCGTAA
46533872 CATATCATGT
1 CATATCATGT
46533882 GCATATCATGT
1 -CATATCATGT
46533893 CATATCATGT
1 CATATCATGT
46533903 -ATATCA
1 CATATCA
46533909 AAATCTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:46533896 original size:21 final size:21
Alignment explanation
Indices: 46533852--46533902 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
46533842 TTTAATGAGT
* *
46533852 ATATCATGTGCATCTCGTAAC
1 ATATCATGTGCATATCATAAC
**
46533873 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
46533894 ATATCATGT
1 ATATCATGT
46533903 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:46548824 original size:39 final size:39
Alignment explanation
Indices: 46548713--46548842 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
46548703 GGACTAAGAT
* * *
46548713 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
46548753 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
46548793 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
46548832 CCGAAGGCATT
1 CCGAAGGCATT
46548843 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.47
40 42 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:46548862 original size:79 final size:79
Alignment explanation
Indices: 46548713--46548877 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
46548703 GGACTAAGAT
* * * ** ** *
46548713 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
46548778 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * * *
46548793 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
46548857 CATCCGGTTAAATC
66 AATCCGGTTAAATC
46548871 CCGAAGG
1 CCGAAGG
46548878 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:46552138 original size:47 final size:47
Alignment explanation
Indices: 46552084--46552513 Score: 617
Period size: 47 Copynumber: 9.1 Consensus size: 47
46552074 TTAGGATTTT
** ** * * *
46552084 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
46552131 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
46552182 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
46552229 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
**
46552276 ATGTGATGAATGTGAACATTTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
46552323 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
46552370 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
46552417 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
46552464 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
46552511 ATG
1 ATG
46552514 CGAAATGTGT
Statistics
Matches: 353, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 312 0.88
50 1 0.00
51 40 0.11
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:46552209 original size:23 final size:23
Alignment explanation
Indices: 46552182--46552256 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
46552172 CGAATGGCCA
46552182 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* **
46552205 ATGTG-TGATAAGGCTG-A-ATGGCCA
1 ATGTGATG--AATG-TGAACAT-GCGT
46552229 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
46552252 ATGTG
1 ATGTG
46552257 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:46552222 original size:25 final size:25
Alignment explanation
Indices: 46552194--46552265 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 25
46552184 GTGATGAATG
46552194 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
* * *
46552219 TG-A-ATG-GCCA-ATGTGATGAATG-
1 TGAACATGCG-TATGTGTGAT-AAGGC
46552241 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
46552266 CGAATGGCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
22 9 0.26
23 8 0.24
24 8 0.24
25 9 0.26
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (25 bp):
TGAACATGCGTATGTGTGATAAGGC
Found at i:46552669 original size:46 final size:46
Alignment explanation
Indices: 46552487--46552668 Score: 265
Period size: 46 Copynumber: 4.0 Consensus size: 46
46552477 GAACATGTAT
* * *
46552487 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATAAGATAG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
* *
46552533 ATATGAGGTAAAGTCGAATGGCTAATGCGAAACGTGTATGAGATAG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
*
46552579 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
* * * * *
46552625 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGAT
46552669 GTGTATATAT
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
Found at i:46558927 original size:37 final size:37
Alignment explanation
Indices: 46558877--46558955 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
46558867 TTATTACGAA
* *
46558877 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
46558914 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
46558951 GTCTT
1 GTCTT
46558956 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:46559152 original size:47 final size:47
Alignment explanation
Indices: 46559076--46559209 Score: 187
Period size: 47 Copynumber: 2.9 Consensus size: 47
46559066 CTTCGGGACT
* * * * * *
46559076 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
46559123 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
46559170 TATCACATATATACACTTTCACATTCATCACATCGGCCAC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCAC
46559210 ATATATACAC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.27, C:0.33, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:46559193 original size:16 final size:16
Alignment explanation
Indices: 46559172--46559227 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
46559162 TTAGGCCTTA
46559172 TCACATATATACACTT
1 TCACATATATACACTT
**
46559188 TCACAT-TCATCACATCGG
1 TCACATAT-AT-ACA-CTT
*
46559206 CCACATATATACACTT
1 TCACATATATACACTT
46559222 TCACAT
1 TCACAT
46559228 TCATCACATC
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 1 0.03
16 14 0.47
17 6 0.20
18 8 0.27
19 1 0.03
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:46559212 original size:34 final size:34
Alignment explanation
Indices: 46559173--46559240 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
46559163 TAGGCCTTAT
46559173 CACATATATACACTTTCACATTCATCACATCGGC
1 CACATATATACACTTTCACATTCATCACATCGGC
46559207 CACATATATACACTTTCACATTCATCACATCGGC
1 CACATATATACACTTTCACATTCATCACATCGGC
46559241 TATTAGGCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.32, G:0.06, T:0.29
Consensus pattern (34 bp):
CACATATATACACTTTCACATTCATCACATCGGC
Found at i:46559217 original size:81 final size:81
Alignment explanation
Indices: 46559126--46559287 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
46559116 TCGGCCCTGT
46559126 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
46559191 CATTCATCACATCGGC
66 CATTCATCACATCGGC
*
46559207 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
46559272 CATTCATCACATCGGC
66 CATTCATCACATCGGC
46559288 TATTAGGCCT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.31
Consensus pattern (81 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGC
Done.