Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 146 of 255
Found at i:47239078 original size:27 final size:26
Alignment explanation
Indices: 47239031--47239086 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
47239021 TCGATCGATC
47239031 AACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
47239057 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
47239084 AAC
1 AAC
47239087 GCTTCCTCCG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:47239315 original size:27 final size:27
Alignment explanation
Indices: 47239285--47239480 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
47239275 GGGGCAAAAT
* * *
47239285 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47239312 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47239339 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47239366 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47239393 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47239420 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47239447 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47239474 AGTAATT
1 GGTAATT
47239481 TCACAATCAA
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47239866 original size:27 final size:27
Alignment explanation
Indices: 47239485--47239867 Score: 477
Period size: 27 Copynumber: 14.2 Consensus size: 27
47239475 GTAATTTCAC
* *
47239485 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
47239512 AATTGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47239539 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
47239566 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
47239593 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47239620 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47239647 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *
47239674 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47239701 AATTGAGGGTAAAAAGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47239728 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47239755 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
47239782 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47239809 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
47239836 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
47239863 AATCG
1 AATCG
47239868 GGAGTACTTT
Statistics
Matches: 304, Mismatches: 44, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 298 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:47243643 original size:47 final size:46
Alignment explanation
Indices: 47243571--47243761 Score: 224
Period size: 47 Copynumber: 4.1 Consensus size: 46
47243561 ACACGTTTCG
* * * *
47243571 CATTAGCCATTCGGCTTTACCACATATAT-ATACTTCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATCAT-CTT-CACATTCATCA
** *
47243618 CATTGGCCATTTTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATAT-CATCTTCACATTCATCA
* *
47243665 TATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATAT-CATCTTCACATTCATCA
*
47243712 CATTGGCCATTCGGCCTTATCTCATATATACA-CATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATAT-CATC-TTCACATTCATCA
47243759 CAT
1 CAT
47243762 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
47 123 0.97
48 2 0.02
49 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.36
Consensus pattern (46 bp):
CATTGGCCATTCGGCCTTATCACATATATCATCTTCACATTCATCA
Found at i:47243712 original size:25 final size:25
Alignment explanation
Indices: 47243636--47243714 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
47243626 ATTTTGCCTT
47243636 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
* *
47243661 AT--CATAT-TGGCCA--TTCGGCCTT-
1 ATCACATATAT-G-CATGTTC-ACATTC
47243683 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
47243708 ATCACAT
1 ATCACAT
47243715 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.27
24 11 0.27
25 13 0.32
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:47247098 original size:23 final size:23
Alignment explanation
Indices: 47247057--47247100 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
47247047 AACCCCTAAT
47247057 ATGCATAATTGAATGATTTATGA
1 ATGCATAATTGAATGATTTATGA
*
47247080 ATGCATGA-TGAATGCATTTAT
1 ATGCATAATTGAATG-ATTTAT
47247101 TATTAGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (23 bp):
ATGCATAATTGAATGATTTATGA
Found at i:47262159 original size:27 final size:27
Alignment explanation
Indices: 47262129--47262306 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
47262119 ATATTGAGCC
* * **
47262129 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
47262156 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
47262183 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
* ** ** *
47262211 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
47262238 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
47262265 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
47262292 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
47262307 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:47262268 original size:82 final size:81
Alignment explanation
Indices: 47262155--47262305 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
47262145 TATAATCATC
* * * *
47262155 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACTCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACCCTT
47262220 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
47262237 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
47262301 AGTGC
65 AGTGC
47262306 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
GTGCCGCATGGTCAAT
Found at i:47270085 original size:27 final size:27
Alignment explanation
Indices: 47270055--47270232 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
47270045 ATATTGAGCC
* * **
47270055 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
47270082 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
* *
47270109 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-AAT
* ** ** *
47270137 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
47270164 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
47270191 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
47270218 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
47270233 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:47270194 original size:82 final size:81
Alignment explanation
Indices: 47270081--47270231 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
47270071 TATAATCATC
* * * *
47270081 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCACTCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACCCTT
47270146 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
47270163 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTT
47270227 AGTGC
65 AGTGC
47270232 TGTACAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACCCTTA
GTGCCGCATGGTCAAT
Found at i:47291196 original size:25 final size:25
Alignment explanation
Indices: 47291168--47291273 Score: 69
Period size: 25 Copynumber: 4.4 Consensus size: 25
47291158 CGTAATATGT
47291168 ATTTATTATTAAAATATTAATATAA
1 ATTTATTATTAAAATATTAATATAA
* *
47291193 ATTT-TTCAATAATATATT-A-A-AA
1 ATTTATT-ATTAAAATATTAATATAA
* * *
47291215 ATATATTAATAAAATTTTAATATAA
1 ATTTATTATTAAAATATTAATATAA
* * * *
47291240 A-TAATTTATTAAAATAATAAAATAT
1 ATTTA-TTATTAAAATATTAATATAA
*
47291265 ATTGATTAT
1 ATTTATTAT
47291274 ATTGTTATAT
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
22 14 0.23
23 4 0.07
24 5 0.08
25 36 0.59
26 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
ATTTATTATTAAAATATTAATATAA
Found at i:47291234 original size:11 final size:11
Alignment explanation
Indices: 47291171--47291264 Score: 59
Period size: 11 Copynumber: 8.3 Consensus size: 11
47291161 AATATGTATT
*
47291171 TATTATTAAAA
1 TATTAATAAAA
47291182 TATTAATATAAA
1 TATTAATA-AAA
* *
47291194 TTTTTCAATAATA
1 -TATT-AATAAAA
47291207 TATTAA-AAATA
1 TATTAATAAA-A
47291218 TATTAATAAAA
1 TATTAATAAAA
*
47291229 TTTTAATATAAA
1 TATTAATA-AAA
* *
47291241 TAATTTATTAAA
1 T-ATTAATAAAA
47291253 -A-TAATAAAA
1 TATTAATAAAA
47291262 TAT
1 TAT
47291265 ATTGATTATA
Statistics
Matches: 63, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
9 6 0.10
10 4 0.06
11 24 0.38
12 16 0.25
13 9 0.14
14 4 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:47291261 original size:47 final size:46
Alignment explanation
Indices: 47291171--47291267 Score: 115
Period size: 47 Copynumber: 2.1 Consensus size: 46
47291161 AATATGTATT
* * * *
47291171 TATTATTAAAATATTAATATAAATTTTTCAATAATATATTAAAAATA
1 TATTAATAAAATATTAATATAAATATTTCAATAAAATAAT-AAAATA
* *
47291218 TATTAATAAAATTTTAATATAAATAATTT-ATTAAAATAATAAAATA
1 TATTAATAAAATATTAATATAAAT-ATTTCAATAAAATAATAAAATA
47291264 TATT
1 TATT
47291268 GATTATATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
46 10 0.23
47 30 0.70
48 3 0.07
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (46 bp):
TATTAATAAAATATTAATATAAATATTTCAATAAAATAATAAAATA
Found at i:47297561 original size:18 final size:18
Alignment explanation
Indices: 47297538--47297576 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
47297528 AACAAAAATG
*
47297538 AAAACGGTATTAAATGGT
1 AAAACGATATTAAATGGT
47297556 AAAACGATATTAAATGGT
1 AAAACGATATTAAATGGT
47297574 AAA
1 AAA
47297577 TAAACTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (18 bp):
AAAACGATATTAAATGGT
Found at i:47298533 original size:20 final size:20
Alignment explanation
Indices: 47298488--47298540 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
47298478 CCTCAAAACG
**
47298488 GTATTGATACCAT-CATAAA
1 GTATTGATACTTTACATAAA
* *
47298507 GTGTTGATACTTTACATAAT
1 GTATTGATACTTTACATAAA
47298527 GTATTGATACTTTA
1 GTATTGATACTTTA
47298541 GAATAAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATTGATACTTTACATAAA
Found at i:47298550 original size:20 final size:19
Alignment explanation
Indices: 47298505--47298550 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
47298495 TACCATCATA
* *
47298505 AAGTGTTGATACTTTACAT
1 AAGTATTGATACTTTAAAT
47298524 AATGTATTGATACTTTAGAAT
1 AA-GTATTGATACTTTA-AAT
47298545 AAGTAT
1 AAGTAT
47298551 CATGTTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 17 0.74
21 4 0.17
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (19 bp):
AAGTATTGATACTTTAAAT
Found at i:47301978 original size:27 final size:27
Alignment explanation
Indices: 47301945--47301997 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
47301935 CTTTCAGAGA
47301945 TCGCCACAAAGGTTAGTCTTCCATTAT
1 TCGCCACAAAGGTTAGTCTTCCATTAT
* *
47301972 TCGCCACAAAGGTTATTCTTTCATTA
1 TCGCCACAAAGGTTAGTCTTCCATTA
47301998 GTTACCACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (27 bp):
TCGCCACAAAGGTTAGTCTTCCATTAT
Found at i:47302005 original size:27 final size:27
Alignment explanation
Indices: 47301948--47302015 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
47301938 TCAGAGATCG
* *
47301948 CCACAAAGGTTAGTCTTCCATTATTCG
1 CCACAAAGGTTATTCTTCCATTATTCA
*
47301975 CCACAAAGGTTATTCTTTCATTAGTT-A
1 CCACAAAGGTTATTCTTCCATTA-TTCA
* *
47302002 CCACAGAGGCTATT
1 CCACAAAGGTTATT
47302016 TGTCGCGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (27 bp):
CCACAAAGGTTATTCTTCCATTATTCA
Found at i:47307530 original size:18 final size:18
Alignment explanation
Indices: 47307509--47307560 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 18
47307499 AAATAAATAT
47307509 TTATTATATTTATTATTA
1 TTATTATATTTATTATTA
47307527 TTATT-TATTTA--ATTGA
1 TTATTATATTTATTATT-A
47307543 -TATTATA-TTATTA-TA
1 TTATTATATTTATTATTA
47307558 TTA
1 TTA
47307561 ATGAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
15 11 0.38
16 6 0.21
17 7 0.24
18 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATTATATTTATTATTA
Found at i:47308946 original size:36 final size:36
Alignment explanation
Indices: 47308906--47308985 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
47308896 TGAATAAAGG
* *
47308906 TACTGAATAACTGACTGTTACTGAATAATTGATTGT
1 TACTGAATAACTGACTGCTACTGAATAATAGATTGT
* **
47308942 TACTGAATAACTGATTGCTGTTGAATAATAGATTGT
1 TACTGAATAACTGACTGCTACTGAATAATAGATTGT
*
47308978 AACTGAAT
1 TACTGAAT
47308986 GATATTGATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (36 bp):
TACTGAATAACTGACTGCTACTGAATAATAGATTGT
Found at i:47308956 original size:18 final size:18
Alignment explanation
Indices: 47308906--47308985 Score: 90
Period size: 18 Copynumber: 4.4 Consensus size: 18
47308896 TGAATAAAGG
*
47308906 TACTGAATAACTGACTGT
1 TACTGAATAACTGATTGT
*
47308924 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
*
47308942 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
**
47308960 TGTTGAATAA-TAGATTGT
1 TACTGAATAACT-GATTGT
*
47308978 AACTGAAT
1 TACTGAAT
47308986 GATATTGATA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
17 1 0.02
18 50 0.98
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:47309022 original size:20 final size:19
Alignment explanation
Indices: 47308985--47309031 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
47308975 TGTAACTGAA
*
47308985 TGATATTG-ATAAATTGAT
1 TGATATTGAAAAAATTGAT
47309003 TGATATTGAAAAATATTGAT
1 TGATATTGAAAAA-ATTGAT
47309023 TGATATTGA
1 TGATATTGA
47309032 GCTTGGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 15 0.58
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (19 bp):
TGATATTGAAAAAATTGAT
Found at i:47311188 original size:26 final size:26
Alignment explanation
Indices: 47311159--47311229 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
47311149 CCAATATCGC
* *
47311159 AGCAAAGCTACCAGTAATAGTAACGT
1 AGCAAAGCTACCAGTAACAGTAACAT
** *
47311185 AGCAGGGCTACCAGTAACAGTATCAT
1 AGCAAAGCTACCAGTAACAGTAACAT
* * *
47311211 AGCAAGGCTGCTAGTAACA
1 AGCAAAGCTACCAGTAACA
47311230 AAATAGCTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
AGCAAAGCTACCAGTAACAGTAACAT
Found at i:47311314 original size:32 final size:32
Alignment explanation
Indices: 47311278--47311354 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
47311268 TAAACAGGAT
*** *
47311278 GGCACAAAGCCATCAGTAGCTGTAGTATGATC
1 GGCACAAAGCCATCAGTAAAGGTAATATGATC
* *
47311310 GGCACAGAGCTATCAGTAAAGGTAATATGATC
1 GGCACAAAGCCATCAGTAAAGGTAATATGATC
* *
47311342 AGTACAAAGCCAT
1 GGCACAAAGCCAT
47311355 GATCAAGATG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAAAGGTAATATGATC
Found at i:47311426 original size:22 final size:22
Alignment explanation
Indices: 47311349--47311427 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
47311339 ATCAGTACAA
* *
47311349 AGCCATGATCA-AGATGGCACGG
1 AGCCATAATCAGA-ATGGCACAG
*
47311371 AGCCATAAT-AGGGATGGCACAG
1 AGCCATAATCA-GAATGGCACAG
**
47311393 AGCCATCTTCAGAATGGCACAG
1 AGCCATAATCAGAATGGCACAG
47311415 AGCCATAATCAGA
1 AGCCATAATCAGA
47311428 TCAAGTGGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.02
22 44 0.96
23 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.27, T:0.15
Consensus pattern (22 bp):
AGCCATAATCAGAATGGCACAG
Found at i:47311520 original size:43 final size:43
Alignment explanation
Indices: 47311473--47311575 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
47311463 GTCTCGCGTG
* *
47311473 ACCCGTGCGACCTTAATAGAATAGTCCACAGTCATCTCGTGCA
1 ACCCGTGCGACCTTAACAGAATAGTCCACAGTCATCTCGTACA
* * *
47311516 ACCCGTGCAACCTTAACAGAATAGTCCACAGTCGTCTCGTACG
1 ACCCGTGCGACCTTAACAGAATAGTCCACAGTCATCTCGTACA
47311559 ACCCGTGCGACCTTAAC
1 ACCCGTGCGACCTTAAC
47311576 TGATCAATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.21
Consensus pattern (43 bp):
ACCCGTGCGACCTTAACAGAATAGTCCACAGTCATCTCGTACA
Found at i:47311933 original size:54 final size:55
Alignment explanation
Indices: 47311875--47311991 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 55
47311865 TTACCCTATA
* * * *
47311875 GGGGTATTTTAG-TAATTTTACAAACTAGGGGTATTTTTGTAATTTTACAAATCG
1 GGGGTATTTTAGATAATCTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCG
* *
47311929 GGGGTA-TTTCGATAATCTTACAACCCAGGGGTATTTTGGTAATTTTACAAACCG
1 GGGGTATTTTAGATAATCTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCG
*
47311983 AGGGTATTT
1 GGGGTATTT
47311992 CGGTGGTGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.07
54 48 0.89
55 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.38
Consensus pattern (55 bp):
GGGGTATTTTAGATAATCTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCG
Found at i:47311987 original size:27 final size:28
Alignment explanation
Indices: 47311874--47311991 Score: 136
Period size: 27 Copynumber: 4.4 Consensus size: 28
47311864 TTTACCCTAT
* *
47311874 AGGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGGTATTTTGGTAATTTTACAAACCG
* *
47311901 AGGGGTATTTTTGTAATTTTACAAATCG
1 AGGGGTATTTTGGTAATTTTACAAACCG
* * * *
47311929 -GGGGTATTTCGATAATCTTAC-AACCC
1 AGGGGTATTTTGGTAATTTTACAAACCG
47311955 AGGGGTATTTTGGTAATTTTACAAACCG
1 AGGGGTATTTTGGTAATTTTACAAACCG
47311983 A-GGGTATTT
1 AGGGGTATTT
47311992 CGGTGGTGTT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.04
27 67 0.88
28 6 0.08
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAACCG
Found at i:47311992 original size:54 final size:54
Alignment explanation
Indices: 47311887--47311993 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
47311877 GGTATTTTAG
* * * * *
47311887 TAATTTTACAAACTAGGGGTATTTTTGTAATTTTACAAATCGGGGGTATTTCGA
1 TAATCTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCGA
*
47311941 TAATCTTACAACCCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCG
1 TAATCTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCG
47311994 GTGGTGTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (54 bp):
TAATCTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCGA
Found at i:47313857 original size:24 final size:24
Alignment explanation
Indices: 47313828--47313882 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
47313818 GAGTAAAATT
47313828 AGCAGTAAAACAGTTTTGGACAGC
1 AGCAGTAAAACAGTTTTGGACAGC
47313852 AGCAGTAAAACAGTTTTGGACAGC
1 AGCAGTAAAACAGTTTTGGACAGC
*
47313876 AACAGTA
1 AGCAGTA
47313883 GTATAACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (24 bp):
AGCAGTAAAACAGTTTTGGACAGC
Found at i:47325755 original size:40 final size:40
Alignment explanation
Indices: 47325678--47325815 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
47325668 AAACCAAGTA
* * *
47325678 CCTTCGGGATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
47325717 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47325757 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47325797 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47325816 TTATCATCCG
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.16
40 76 0.84
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47332317 original size:101 final size:101
Alignment explanation
Indices: 47332208--47332402 Score: 300
Period size: 101 Copynumber: 1.9 Consensus size: 101
47332198 TACGCTCATA
* * *
47332208 GTGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGTCTTACATATAG
1 GTGCCATAACCCAATTATAGTATTATCATCAAAATGCCATAGCCCAACTATGGTCTTACATATAA
*
47332273 ATACTGCCATGGTCCAACCATGGTCTTACATTTAAG
66 AAACTGCCATGGTCCAACCATGGTCTTACATTTAAG
* * * * *
47332309 GTGCCATAACCCAGTTATAGTATTTTCATTAAAATTCCATAGCCCAGCTATGGTCTTACATATAA
1 GTGCCATAACCCAATTATAGTATTATCATCAAAATGCCATAGCCCAACTATGGTCTTACATATAA
*
47332374 AAACTTCCATGGTCCAACCATGGTCTTAC
66 AAACTGCCATGGTCCAACCATGGTCTTAC
47332403 GTTCAATTCA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (101 bp):
GTGCCATAACCCAATTATAGTATTATCATCAAAATGCCATAGCCCAACTATGGTCTTACATATAA
AAACTGCCATGGTCCAACCATGGTCTTACATTTAAG
Found at i:47332375 original size:33 final size:32
Alignment explanation
Indices: 47332209--47332402 Score: 118
Period size: 33 Copynumber: 5.8 Consensus size: 32
47332199 ACGCTCATAG
* * *
47332209 TGCCATAACCCAATTATGGTCTTATCATCAAAA
1 TGCCATAGCCCAACTATGGTCTTA-CATTAAAA
*
47332242 TGCCATAGCCCAACTATGGTCTTACATATAGATAC
1 TGCCATAGCCCAACTATGGTCTTACAT-TA-A-AA
* * * **
47332277 TGCCATGGTCCAACCATGGTCTTACATTTAAGG
1 TGCCATAGCCCAACTATGGTCTTACA-TTAAAA
* ** * * *
47332310 TGCCATAACCCAGTTATAGTATTTTCATTAAAA
1 TGCCATAGCCCAACTATGGT-CTTACATTAAAA
* *
47332343 TTCCATAGCCCAGCTATGGTCTTACATATAAAAA
1 TGCCATAGCCCAACTATGGTCTTACAT-T-AAAA
* * * *
47332377 CTTCCATGGTCCAACCATGGTCTTAC
1 -TGCCATAGCCCAACTATGGTCTTAC
47332403 GTTCAATTCA
Statistics
Matches: 123, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
32 8 0.07
33 57 0.46
34 10 0.08
35 47 0.38
36 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (32 bp):
TGCCATAGCCCAACTATGGTCTTACATTAAAA
Found at i:47333982 original size:20 final size:20
Alignment explanation
Indices: 47333959--47334012 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
47333949 TTCAATTTTA
*
47333959 GTGGCTTGTCCACATTTCTG
1 GTGGCTTGTCCACATTACTG
* * *
47333979 GTGGTTTAT-TAGCATTACTG
1 GTGGCTTGTCCA-CATTACTG
47333999 GTGGCTTGTCCACA
1 GTGGCTTGTCCACA
47334013 AACTGTTGTG
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.39
Consensus pattern (20 bp):
GTGGCTTGTCCACATTACTG
Found at i:47336895 original size:17 final size:17
Alignment explanation
Indices: 47336875--47336966 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
47336865 ATTTTGATAG
47336875 ATTTAATATTTAATTTA
1 ATTTAATATTTAATTTA
*
47336892 ATTTAATACTT-ATCTTA
1 ATTTAATATTTAAT-TTA
* *
47336909 A--TAGTATTTTA-TTA
1 ATTTAATATTTAATTTA
*
47336923 ATTTAATATTAAAATGATT-
1 ATTTAATATT-TAAT--TTA
*
47336942 GTCTTAATATTTAATTTA
1 AT-TTAATATTTAATTTA
47336960 ATTTAAT
1 ATTTAAT
47336967 TCTTACCTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 20
0.66 0.11 0.24
Matches are distributed among these distances:
14 4 0.07
15 6 0.11
16 9 0.16
17 22 0.39
18 1 0.02
19 4 0.07
20 10 0.18
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTAATATTTAATTTA
Found at i:47337183 original size:14 final size:13
Alignment explanation
Indices: 47337148--47337179 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
47337138 TTGTAGAGAG
47337148 AAAATTCTTTCAA
1 AAAATTCTTTCAA
*
47337161 GAAATTCTTTCAA
1 AAAATTCTTTCAA
47337174 AAAATT
1 AAAATT
47337180 TCTTGAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (13 bp):
AAAATTCTTTCAA
Found at i:47351137 original size:27 final size:27
Alignment explanation
Indices: 47351114--47351221 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
47351104 CAAAATTATT
47351114 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
47351141 AAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
47351168 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
47351195 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
47351222 ATTTTGCCCC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:47351172 original size:54 final size:53
Alignment explanation
Indices: 47351105--47351217 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 53
47351095 CTGGATTTAC
*
47351105 AAAATTATTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGT
1 AAAA-TATCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGT
* * *
47351159 AGAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGT
1 A-AAATATCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGT
47351213 AAAAT
1 AAAAT
47351218 TACCATTTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
53 4 0.07
54 47 0.87
55 3 0.06
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (53 bp):
AAAATATCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGT
Found at i:47351786 original size:22 final size:22
Alignment explanation
Indices: 47351734--47351796 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
47351724 GCCAATTGTT
*
47351734 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
* *
47351756 CT-ACATATGGATTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
47351778 CTGATTATGGCTGTGTGCC
1 CTGATTATGGCTTTGTGCC
47351797 GTTATTGTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:47352099 original size:25 final size:25
Alignment explanation
Indices: 47352054--47352118 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
47352044 CATTCACATT
* * *
47352054 CTGATTATGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
* *
47352079 CTGGTTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
*
47352104 CTGATTCTAATTCTG
1 CTGATTCTGATTCTG
47352119 ATTTTGATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:47352105 original size:19 final size:19
Alignment explanation
Indices: 47352083--47352148 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
47352073 CTGATACTGG
*
47352083 TTCTGATTCTGTCACCTAA
1 TTCTGATTCTGTCACCTGA
* *
47352102 TTCTGATTC--TAATTCTGA
1 TTCTGATTCTGTCA-CCTGA
*
47352120 TTTTGATTCTGTCACCTGA
1 TTCTGATTCTGTCACCTGA
47352139 TTCTGATTCT
1 TTCTGATTCT
47352149 CATTTTGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
17 2 0.05
18 11 0.30
19 22 0.59
20 2 0.05
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.48
Consensus pattern (19 bp):
TTCTGATTCTGTCACCTGA
Found at i:47352110 original size:6 final size:6
Alignment explanation
Indices: 47352051--47352169 Score: 57
Period size: 6 Copynumber: 19.3 Consensus size: 6
47352041 TTGCATTCAC
* * * * *
47352051 ATTCTG ATTATG ATTCTG -TTACCTG ATACTG GTTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
47352101 ATTCTG ATTCTA ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
47352150 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
47352170 AATATTTCTT
Statistics
Matches: 82, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
5 5 0.06
6 65 0.79
7 9 0.11
8 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:47352127 original size:37 final size:37
Alignment explanation
Indices: 47352086--47352158 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
47352076 ATACTGGTTC
47352086 TGATTCTGTCACCTAATTCTGATTCTAATTCTGATTT
1 TGATTCTGTCACCTAATTCTGATTCTAATTCTGATTT
* * *
47352123 TGATTCTGTCACCTGATTCTGATTCTCATTTTGATT
1 TGATTCTGTCACCTAATTCTGATTCTAATTCTGATT
47352159 CTAGTTCTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (37 bp):
TGATTCTGTCACCTAATTCTGATTCTAATTCTGATTT
Found at i:47352167 original size:37 final size:37
Alignment explanation
Indices: 47352087--47352167 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
47352077 TACTGGTTCT
*
47352087 GATTCTGTCACCTAATTCTGATTCTAATTCTGATTTT
1 GATTCTGTCACCTAATTCTGATTCTAATTCTGATTTA
* * *
47352124 GATTCTGTCACCTGATTCTGATTCTCATTTTGATTCTA
1 GATTCTGTCACCTAATTCTGATTCTAATTCTGATT-TA
47352162 G-TTCTG
1 GATTCTG
47352168 ATAATATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 37 0.95
38 2 0.05
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.48
Consensus pattern (37 bp):
GATTCTGTCACCTAATTCTGATTCTAATTCTGATTTA
Found at i:47358018 original size:40 final size:40
Alignment explanation
Indices: 47357788--47358018 Score: 297
Period size: 40 Copynumber: 5.8 Consensus size: 40
47357778 CATTTGAATG
* * * *
47357788 ATATTCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
47357828 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* *
47357868 TTATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
47357908 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
47357948 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
47357988 ATACCCGGG-TCAAGACCCGAAGGCAATTGTG
1 ATATCCGGGCT-AAGACCCGAAGGCATTTGTG
47358019 GTTGTGGTTA
Statistics
Matches: 178, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 174 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:47366277 original size:40 final size:40
Alignment explanation
Indices: 47366047--47366278 Score: 317
Period size: 40 Copynumber: 5.8 Consensus size: 40
47366037 CATTTGAATG
* * *
47366047 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
47366087 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
47366127 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
47366167 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
47366207 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
47366247 ATACCCGGG-TCAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCT-AAGACCCGAAGGCATTTGTGC
47366279 TTGTGGTTAT
Statistics
Matches: 182, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.01
40 178 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:47378667 original size:23 final size:23
Alignment explanation
Indices: 47378632--47378825 Score: 264
Period size: 23 Copynumber: 8.4 Consensus size: 23
47378622 AGCTTATTAT
*
47378632 TTTCAGCTCGATAGAGCTTGCCG
1 TTTCAGCTCGATAGAGCTTACCG
* * *
47378655 TTTTAGCTTGATAGAGCTTGCCG
1 TTTCAGCTCGATAGAGCTTACCG
* *
47378678 TTTTAGCTCGATAGAGCTTACCA
1 TTTCAGCTCGATAGAGCTTACCG
*
47378701 TTTCAGCTCGATAAAGCTTACCG
1 TTTCAGCTCGATAGAGCTTACCG
*
47378724 TTTCAGCTCGATAAAGCTTACCG
1 TTTCAGCTCGATAGAGCTTACCG
47378747 TTTCAGCTCGATAGAGCTTACCG
1 TTTCAGCTCGATAGAGCTTACCG
* *
47378770 TTTCAGCTTGATAGAGCTTACTG
1 TTTCAGCTCGATAGAGCTTACCG
*
47378793 TTTCAGCTC-ATTAGAGCTTACTG
1 TTTCAGCTCGA-TAGAGCTTACCG
47378816 TTATCAGCTC
1 TT-TCAGCTC
47378826 AGGAGGAGCT
Statistics
Matches: 157, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
22 1 0.01
23 149 0.95
24 7 0.04
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (23 bp):
TTTCAGCTCGATAGAGCTTACCG
Found at i:47386351 original size:38 final size:37
Alignment explanation
Indices: 47386278--47386356 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
47386268 TATTACGAAA
* *
47386278 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
47386315 TCTTACCCGGACAAAAAT-TCCTACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCTCC-ACACGAAGTCATCGGG
47386353 TCTT
1 TCTT
47386357 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.41
38 22 0.59
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:47386562 original size:47 final size:47
Alignment explanation
Indices: 47386475--47387080 Score: 878
Period size: 47 Copynumber: 13.1 Consensus size: 47
47386465 CCCTTCGGGA
* * * * * *
47386475 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47386522 CCTGTCACGTATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47386569 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47386616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47386663 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47386712 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47386761 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47386808 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47386855 CCTATCACATATATACACTTTCACATTCATCACATC-GCC---A---
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47386895 --T-TC-C-T-TATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47386936 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47386983 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47387030 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47387077 CTTA
1 CTTA
47387081 CTATCATTTC
Statistics
Matches: 520, Mismatches: 24, Indels: 30
0.91 0.04 0.05
Matches are distributed among these distances:
34 25 0.05
35 4 0.01
36 1 0.00
37 2 0.00
38 1 0.00
43 1 0.00
44 2 0.00
45 1 0.00
46 4 0.01
47 384 0.74
49 95 0.18
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47386904 original size:34 final size:35
Alignment explanation
Indices: 47386866--47386932 Score: 127
Period size: 34 Copynumber: 1.9 Consensus size: 35
47386856 CTATCACATA
47386866 TATACACTTTCACATTCATCACATC-GCCATTCCT
1 TATACACTTTCACATTCATCACATCGGCCATTCCT
47386900 TATACACTTTCACATTCATCACATCGGCCATTC
1 TATACACTTTCACATTCATCACATCGGCCATTC
47386933 GGCCCTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 25 0.78
35 7 0.22
ACGTcount: A:0.27, C:0.34, G:0.04, T:0.34
Consensus pattern (35 bp):
TATACACTTTCACATTCATCACATCGGCCATTCCT
Found at i:47386926 original size:175 final size:179
Alignment explanation
Indices: 47386517--47387072 Score: 850
Period size: 175 Copynumber: 3.1 Consensus size: 179
47386507 CGTTGGCCAC
* * * * *
47386517 TCGGCCCTGTCACGTATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TCGGCCAT-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATA
* *
47386582 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
65 TACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATC
47386647 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
130 ACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
47386699 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT
1 TCGGCC---A-----T-TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT
*
47386764 ATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTT
55 ATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTTT
* *
47386829 CACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCACA
120 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
47386889 TC-GCCATTC-C-T-TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATAT
1 TCGGCCATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATAT
47386950 ACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCA
*
47387015 CATCGGCCATTAGGCCTTATCTCATATATACACTTTCACATTCATCACA
131 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
47387064 TCGGCCATT
1 TCGGCCATT
47387073 AGGCCTTACT
Statistics
Matches: 347, Mismatches: 16, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
175 161 0.46
176 7 0.02
179 1 0.00
180 2 0.01
181 1 0.00
182 6 0.02
186 1 0.00
189 3 0.01
190 33 0.10
192 132 0.38
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (179 bp):
TCGGCCATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATAT
ACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
Found at i:47387000 original size:128 final size:129
Alignment explanation
Indices: 47386485--47387025 Score: 706
Period size: 128 Copynumber: 4.0 Consensus size: 129
47386475 CTTATCACAT
* * * * * *
47386485 TTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACGTATATACACTTCCACATTC
1 TTATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTC
* *
47386550 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCC---A--
47386615 CCTTATCAC
126 ---T-TC-C
* * *
47386624 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
1 -T-TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCAC--GTATATACACTTTCAC
* *
47386689 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCC
62 ATTCATCACATCGGCCATTCGGCCCTATCAC--ATATATACACTTTCACATTCATCACATCGGCC
47386754 ATTAGGCCCTATCAC
125 ---A-----T-TC-C
47386769 GTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACAT
1 -T-TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACAT
47386834 TCATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCACATC-GCCATTC
64 TCATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTC
47386898 C
129 C
47386899 TTATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTC
1 TTATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTC
47386964 ATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATT
66 ATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATT
47387026 AGGCCTTATC
Statistics
Matches: 379, Mismatches: 16, Indels: 23
0.91 0.04 0.06
Matches are distributed among these distances:
128 119 0.31
129 7 0.02
130 1 0.00
131 2 0.01
132 1 0.00
137 1 0.00
140 4 0.01
141 65 0.17
143 89 0.23
145 90 0.24
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (129 bp):
TTATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTC
ATCACATCGGCCATTCGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTCC
Found at i:47390521 original size:40 final size:40
Alignment explanation
Indices: 47390477--47390552 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
47390467 GAATACATGT
* * *
47390477 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
**
47390517 CACCAGCACGAATGCTCTTCGGAATTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
47390553 TTAGTAACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:47390577 original size:40 final size:40
Alignment explanation
Indices: 47390493--47390714 Score: 215
Period size: 40 Copynumber: 5.5 Consensus size: 40
47390483 CATGATTGCT
* * * *
47390493 CTTCGGGACCTAGCCCGGATATAAC-AC-CAGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTC-GCACCAATGC
* *
47390532 TCTTCGGAAT-TTAGCCCGGATTTAGT-AACTCGCACCAATGC
1 -CTTCGG-GTCTTAGCCCGGATATA-TCAACTCGCACCAATGC
*
47390573 CTTCGGGTCTTAGCCCGGATATATCAACTTGCA-CAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAA-TGC
* * *
47390613 CTTCGGGTCTTAGCCCGGATATATCAATTCGGACAAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
* *
47390653 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGC-TCAATTGC
1 CTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACCAA-TGC
*
47390693 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
47390715 CATTCAAATG
Statistics
Matches: 153, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
39 7 0.05
40 129 0.84
41 16 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
Found at i:47390592 original size:80 final size:78
Alignment explanation
Indices: 47390493--47390714 Score: 250
Period size: 80 Copynumber: 2.8 Consensus size: 78
47390483 CATGATTGCT
* * * *
47390493 CTTCGGGACCTAGCCCGGATATAACACCAGCACGAA-TGCTCTTCGGAATTTAGCCCGGATTTAG
1 CTTCGGGTCTTAGCCCGGATATAACACTAGCAC-AATTGC-CTTCGG-ATTTAGCCCGGATATA-
*
47390557 T-AACTCGCACCAATGC
62 TCAACTCGCACAAATGC
* * *
47390573 CTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATC
1 CTTCGGGTCTTAGCCCGGATATAAC-ACTAGCACAATTGCCTTCGGAT-TTAGCCCGGATATATC
* *
47390638 AATTCGGACAAATGC
64 AACTCGCACAAATGC
* *
47390653 CTTCGGGTCTTAGCCCGGATATAATCACTAGCTCAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATATAA-CACTAGCACAATTGCCTTC-GGATTTAGCCCGGATAT
47390715 CATTCAAATG
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
79 2 0.02
80 107 0.88
81 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (78 bp):
CTTCGGGTCTTAGCCCGGATATAACACTAGCACAATTGCCTTCGGATTTAGCCCGGATATATCAA
CTCGCACAAATGC
Found at i:47391041 original size:29 final size:29
Alignment explanation
Indices: 47391007--47391109 Score: 163
Period size: 29 Copynumber: 3.6 Consensus size: 29
47390997 TAATCAACCA
47391007 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGTACTTTAAACT
47391036 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGTACTTTAAACT
* * *
47391065 CGCACACTTAGTGCCATGCA-TTTCAAGCC
1 CGCACACTTAGTGCCATGTACTTT-AAACT
47391094 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47391110 ATCTCACAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 3 0.04
29 67 0.96
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGTACTTTAAACT
Found at i:47391152 original size:43 final size:43
Alignment explanation
Indices: 47391091--47391279 Score: 351
Period size: 43 Copynumber: 4.4 Consensus size: 43
47391081 TGCATTTCAA
47391091 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
47391134 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
47391177 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* *
47391220 GCTCGCACACTTAGTGCCAATCTCACGACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
47391263 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
47391280 TGAAAACCAA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:47393204 original size:38 final size:37
Alignment explanation
Indices: 47393131--47393209 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
47393121 TATTACGAAA
* *
47393131 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
47393168 TCTTACCCGGACAAAAAT-TCCTACACGTAGTCATCGGG
1 TCTTACCCGGAC-AAAATCTCC-ACACGAAGTCATCGGG
47393206 TCTT
1 TCTT
47393210 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.41
38 22 0.59
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:47393415 original size:47 final size:47
Alignment explanation
Indices: 47393328--47393733 Score: 632
Period size: 47 Copynumber: 8.6 Consensus size: 47
47393318 CCCTTCGGGA
* * * * * *
47393328 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47393375 CCTGTCACGTATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47393422 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47393469 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47393516 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47393565 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47393614 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47393661 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47393708 CCTATCACATGTATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
47393734 ATCACGTGTA
Statistics
Matches: 335, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 241 0.72
49 94 0.28
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47393743 original size:23 final size:23
Alignment explanation
Indices: 47393710--47393765 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 23
47393700 CATTAGGCCC
47393710 TATCACATGTATACACTTTCACA
1 TATCACATGTATACACTTTCACA
*
47393733 TATCACGTGTATACACTTTCACA
1 TATCACATGTATACACTTTCACA
47393756 TTCATCACAT
1 -T-ATCACAT
47393766 CGGCCATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 22 0.76
24 1 0.03
25 6 0.21
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (23 bp):
TATCACATGTATACACTTTCACA
Found at i:47393746 original size:117 final size:117
Alignment explanation
Indices: 47393616--47393850 Score: 416
Period size: 117 Copynumber: 2.0 Consensus size: 117
47393606 CATTCGGCCC
*
47393616 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTT
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTT
* *
47393681 TCACATTCATCACATCGGCCATTAGGCCCTATCACATGTATACACTTTCACA
66 TCACATTCATCACATCGACCATTAGGCCCTATCACATATATACACTTTCACA
* *
47393733 TATCACGTGTATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTT
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTT
*
47393798 TCACATTCATCACATCGACCATTAGGCCCTATCACGTATATACACTTTCACA
66 TCACATTCATCACATCGACCATTAGGCCCTATCACATATATACACTTTCACA
47393850 T
1 T
47393851 TCATCACATC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 112 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (117 bp):
TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACATATATACACTT
TCACATTCATCACATCGACCATTAGGCCCTATCACATATATACACTTTCACA
Found at i:47393747 original size:70 final size:70
Alignment explanation
Indices: 47393663--47393812 Score: 237
Period size: 70 Copynumber: 2.1 Consensus size: 70
47393653 CATTCGGCCT
*
47393663 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATGTATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
47393728 TCACA
66 TCACA
* * * *
47393733 TATCACGTGTATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
47393798 TCACA
66 TCACA
47393803 TTCATCACAT
1 -T-ATCACAT
47393813 CGACCATTAG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
70 65 0.90
71 1 0.01
72 6 0.08
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (70 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
TCACA
Found at i:47393762 original size:164 final size:164
Alignment explanation
Indices: 47393578--47393897 Score: 577
Period size: 164 Copynumber: 2.0 Consensus size: 164
47393568 ATCACATATA
47393578 TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTCA
* * *
47393643 TCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGACCATTAGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47393708 CCTATCACATGTATACACTTTCACATATCACGTG
131 CCTATCACATATATACACTTTCACATATCACGTG
47393742 TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTCA
* *
47393807 TCACATCGACCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGC
66 TCACATCGACCATTAGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47393872 CCTATCACGTATATACACTTTCACAT
131 CCTATCACATATATACACTTTCACAT
47393898 TCATCACATC
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
164 149 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (164 bp):
TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTCA
TCACATCGACCATTAGGCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CCTATCACATATATACACTTTCACATATCACGTG
Found at i:47393828 original size:211 final size:212
Alignment explanation
Indices: 47393529--47393944 Score: 726
Period size: 211 Copynumber: 2.0 Consensus size: 212
47393519 ATCACATATA
*
47393529 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATACACTTTCACATT
* *
47393594 CATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCG
65 CATCACATCGACCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCG
* *
47393659 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATGTATAC
130 GCCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
47393724 ACTTTCACATATCACGTG
195 ACTTTCACATATCACGTG
* *
47393742 TATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCAC-GTATATACACTTTCACATTC
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTC
47393806 ATCACATCGACCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGG
66 ATCACATCGACCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGG
* * *
47393871 CCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATACA
131 CCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACA
47393936 CTTTCACAT
196 CTTTCACAT
47393945 TCATCACATC
Statistics
Matches: 193, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
211 151 0.78
213 42 0.22
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (212 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTC
ATCACATCGACCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGG
CCCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACA
CTTTCACATATCACGTG
Found at i:47393969 original size:47 final size:47
Alignment explanation
Indices: 47393733--47393966 Score: 405
Period size: 47 Copynumber: 5.0 Consensus size: 47
47393723 CACTTTCACA
* *
47393733 TATCACGTGTATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
47393780 TATCACGTATATACACTTTCACATTCATCACATCGACCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
47393827 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
47393874 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
47393921 TATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
47393967 TTACTATCAT
Statistics
Matches: 178, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 178 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:47413026 original size:40 final size:40
Alignment explanation
Indices: 47412979--47413126 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
47412969 TGAATGATAT
* * *
47412979 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
47413019 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
*
47413059 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
* *
47413099 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
47413127 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
Found at i:47415290 original size:6 final size:6
Alignment explanation
Indices: 47415279--47415416 Score: 99
Period size: 6 Copynumber: 22.8 Consensus size: 6
47415269 AACCAAAATG
* *
47415279 AGAATC AGAATC AGAATC AGTAA-C ATAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * *
47415327 AGTAA-C AGAATC AAAATC AGAATC GGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
47415376 AGAATC A-ATATT AGTAA-C AGAATT AGAATC AGAATC AGAAT
1 AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAAT
47415417 TAGGTGACAA
Statistics
Matches: 103, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
5 9 0.09
6 85 0.83
7 6 0.06
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:47415294 original size:30 final size:30
Alignment explanation
Indices: 47415258--47415441 Score: 185
Period size: 30 Copynumber: 6.1 Consensus size: 30
47415248 AAGAAACATT
* *
47415258 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* * *
47415288 ATCAGAATCAGTAACATAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
47415318 ATCA-ATATTAGTAACAGAATCAAAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
* *
47415348 ATCGGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
* *
47415379 ATCA-ATATTAGTAACAGAATTAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
* *
47415409 ATCAGAATTAGGTGACAAAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
47415440 AT
1 AT
47415442 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
29 1 0.01
30 81 0.63
31 46 0.36
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:47415379 original size:61 final size:61
Alignment explanation
Indices: 47415281--47415441 Score: 252
Period size: 61 Copynumber: 2.7 Consensus size: 61
47415271 CCAAAATGAG
* * *
47415281 AATCAGAATCAGAATCA-GTAACATAATCAGAATCAGAATCAATATTAGTAACAGAATCAA
1 AATCAGAATCAGAATTAGGTGACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAA
* * * *
47415341 AATCAGAATCGGAATTAGGTGACAGAATCAGAATCAGAATCAATATTAGTAACAGAATTAG
1 AATCAGAATCAGAATTAGGTGACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAA
47415402 AATCAGAATCAGAATTAGGTGACAAAATCAGAATCAGAAT
1 AATCAGAATCAGAATTAGGTGACAAAATCAGAATCAGAAT
47415442 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
60 15 0.16
61 77 0.84
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (61 bp):
AATCAGAATCAGAATTAGGTGACAAAATCAGAATCAGAATCAATATTAGTAACAGAATCAA
Found at i:47415629 original size:27 final size:27
Alignment explanation
Indices: 47415559--47415640 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
47415549 AACATGGCTG
* *
47415559 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
47415585 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
*
47415612 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
47415639 CC
1 CC
47415641 TAACAGAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 39 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:47415988 original size:27 final size:26
Alignment explanation
Indices: 47415943--47416025 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
47415933 TCGATCGGTC
** *
47415943 AACAGATATTGTGATAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
47415969 ATATAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* * *
47415996 AACAGATATTTGTGGTATAGCAACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
47416023 AAC
1 AAC
47416026 GCTTCCTCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.15
27 40 0.85
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:47416243 original size:27 final size:27
Alignment explanation
Indices: 47416213--47416406 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
47416203 GGGGCAAAAT
* * *
47416213 GGTAATTTTACCCTACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
47416240 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47416267 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47416294 GATAATTCTACCCTAC-AGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
47416320 ACTAATTCTATCCTATAA-GGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47416346 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47416373 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47416400 AGTAATT
1 GGTAATT
47416407 TCACAATCAA
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 43 0.30
27 102 0.70
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47416345 original size:79 final size:81
Alignment explanation
Indices: 47416242--47416398 Score: 230
Period size: 79 Copynumber: 2.0 Consensus size: 81
47416232 GGTATCTCGG
* *
47416242 TAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGA-AATTCTACC
47416306 CTACA-GGGTATTTTAC
65 CTACAGGGGTATTTTAC
* * * *
47416322 TAATTCTATCCTATAA-GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGAAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGAAATTCTACCC
47416386 TACAGGGGTATTT
66 TACAGGGGTATTT
47416399 CAGTAATTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
79 45 0.65
80 24 0.35
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGAAATTCTACCC
TACAGGGGTATTTTAC
Found at i:47416432 original size:106 final size:107
Alignment explanation
Indices: 47416208--47416434 Score: 246
Period size: 106 Copynumber: 2.1 Consensus size: 107
47416198 CCCTAGGGGC
* * * *
47416208 AAAATGGTAATTTTACCCTACAAAGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGGTATT
1 AAAATGGTAATTCTACCCTACAAAGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGGAAAT
**
47416273 TCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGT
66 TCTACCCTACAAGGGTATTTCGATAATTCTACAATACAGGGT
*** ** * * * * *
47416315 ATTTTACTAATTCTATCCTA-TAAGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGAAAT
1 AAAATGGTAATTCTACCCTACAAAGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGGAAAT
*
47416379 TCTACCCTACAGGGGTATTTC-AGTAATT-TCACAAT-CAAGGGT
66 TCTACCCTACAAGGGTATTTCGA-TAATTCT-ACAATAC-AGGGT
47416421 AAAATGGTAATTCT
1 AAAATGGTAATTCT
47416435 GTAAATCGAG
Statistics
Matches: 95, Mismatches: 22, Indels: 7
0.77 0.18 0.06
Matches are distributed among these distances:
105 3 0.03
106 79 0.83
107 13 0.14
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (107 bp):
AAAATGGTAATTCTACCCTACAAAGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGGAAAT
TCTACCCTACAAGGGTATTTCGATAATTCTACAATACAGGGT
Found at i:47416527 original size:27 final size:27
Alignment explanation
Indices: 47416411--47416527 Score: 103
Period size: 27 Copynumber: 4.3 Consensus size: 27
47416401 GTAATTTCAC
* * * *
47416411 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
47416438 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* * *
47416465 AA-CTGAGGAT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAACGA-TAATTTTGTA
** **
47416492 AATTAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGATAATTTTGTA
47416519 AATCGAGGG
1 AATCGAGGG
47416528 CATTTCAGTA
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
26 6 0.09
27 59 0.84
28 5 0.07
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTGTA
Found at i:47418528 original size:30 final size:30
Alignment explanation
Indices: 47418492--47418650 Score: 135
Period size: 30 Copynumber: 5.1 Consensus size: 30
47418482 AAGAAACATT
*
47418492 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAAAATCAGAATCAGA
* * *
47418522 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAAAATCAGAATCAGA
47418552 ATCA-ATATTAGTAACAGAATCAAAATCAGAATCAGA
1 ATCAGA-ATTAG-----GAA-CAAAATCAGAATCAGA
* * *
47418588 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAAAATCAGAATCAGA
*
47418618 ATCAGAATTAGGTGAA-AGAATCAGAATCAGA
1 ATCAGAATTA-G-GAACAAAATCAGAATCAGA
47418649 AT
1 AT
47418651 GTGAATGCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.01
30 54 0.51
31 23 0.22
32 2 0.02
35 2 0.02
36 24 0.23
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAAAATCAGAATCAGA
Found at i:47418553 original size:36 final size:35
Alignment explanation
Indices: 47418513--47418650 Score: 159
Period size: 36 Copynumber: 4.1 Consensus size: 35
47418503 AACCAAAATG
*
47418513 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATC
1 AGAATCAGAATCAG-ATTAGTAACAGAATCAGAATC
*
47418549 AGAATC--AAT---ATTAGTAACAGAATCAAAATC
1 AGAATCAGAATCAGATTAGTAACAGAATCAGAATC
47418579 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
1 AGAATCAGAATCAG-ATTAGTAACAGAATCAGAATC
* *
47418615 AGAATCAGAATTAG-GT-G-AA-AGAATCAGAATC
1 AGAATCAGAATCAGATTAGTAACAGAATCAGAATC
47418646 AGAAT
1 AGAAT
47418651 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
30 25 0.27
31 17 0.19
32 5 0.05
33 1 0.01
34 4 0.04
36 39 0.43
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (35 bp):
AGAATCAGAATCAGATTAGTAACAGAATCAGAATC
Found at i:47418645 original size:6 final size:6
Alignment explanation
Indices: 47418513--47418625 Score: 126
Period size: 6 Copynumber: 18.8 Consensus size: 6
47418503 AACCAAAATG
*
47418513 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
47418561 AGTAA-C AGAATC AAAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
47418609 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
47418626 TAGGTGAAAG
Statistics
Matches: 91, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
5 7 0.08
6 79 0.87
7 4 0.04
8 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:47418807 original size:27 final size:26
Alignment explanation
Indices: 47418768--47418833 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
47418758 AGCATGGCTG
* **
47418768 CCAGAACTGATATCGTGATAGAGTCA
1 CCAGAACAGATATCGTGATAGACCCA
* *
47418794 CCAGATACAGATATTGTGGTAGACCCA
1 CCAGA-ACAGATATCGTGATAGACCCA
47418821 CCAGAATCAGATA
1 CCAGAA-CAGATA
47418834 ATGTGGCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATCGTGATAGACCCA
Found at i:47418848 original size:27 final size:27
Alignment explanation
Indices: 47418792--47418849 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
47418782 GTGATAGAGT
* * *
47418792 CACCAGATACAGATATTGTGGTAGACC
1 CACCAGATACAGATAATGTGGCAAACC
*
47418819 CACCAGA-ATCAGATAATGTGGCAAAGC
1 CACCAGATA-CAGATAATGTGGCAAACC
47418846 CACC
1 CACC
47418850 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:47419191 original size:27 final size:26
Alignment explanation
Indices: 47419152--47419234 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
47419142 TCGATCGGTC
* *
47419152 AACAGATATTGTGATACAGTCACCAG
1 AACAGATATTGTGACACAGCCACCAG
* *
47419178 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACACAGCCACCAG
*
47419205 AACAGATATTTGTTG-CATAGCCACCAG
1 AACAGATA-TTG-TGACACAGCCACCAG
47419232 AAC
1 AAC
47419235 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 8 0.16
27 39 0.80
28 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (26 bp):
AACAGATATTGTGACACAGCCACCAG
Found at i:47419463 original size:27 final size:27
Alignment explanation
Indices: 47419433--47419628 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
47419423 GGGGCAAAAT
* * * *
47419433 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47419460 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47419487 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47419514 GATAATTCTACCCTAC-AGGGATATTTT
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * * *
47419541 GCTAATTCTATCCTATAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47419568 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47419595 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47419622 AGTAATT
1 GGTAATT
47419629 TCACCATTAA
Statistics
Matches: 142, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.03
27 135 0.95
28 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47419499 original size:54 final size:54
Alignment explanation
Indices: 47419433--47419628 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
47419423 GGGGCAAAAT
* * *
47419433 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * *
47419487 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * *
47419541 GCTAATTCTATCCTATAAAGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* ** *
47419595 GGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAAGGTATTTCGGTAATT
47419629 TCACCATTAA
Statistics
Matches: 118, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:47419670 original size:27 final size:27
Alignment explanation
Indices: 47419638--47419749 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
47419628 TTCACCATTA
**
47419638 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACAATAATTCTATAAATCG
* * *
47419665 AGGGTAAAATAATAATTTTGTAAA-CTG
1 AGGGTAAAACAATAATTCTATAAATC-G
* * * *
47419692 AGGGTAAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACAATAATTCTATAAATCG
* * *
47419719 AGGGTAAAACGATAATTTTACAAATCG
1 AGGGTAAAACAATAATTCTATAAATCG
47419746 AGGG
1 AGGG
47419750 CATTTCAGTT
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
26 1 0.02
27 64 0.97
28 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AGGGTAAAACAATAATTCTATAAATCG
Found at i:47419749 original size:54 final size:54
Alignment explanation
Indices: 47419638--47419742 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
47419628 TTCACCATTA
* * * **
47419638 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAATAATTTTGTAAACTG
1 AGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAATAATTTTACAAACTG
* * *
47419692 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAA
1 AGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAATAATTTTACAAA
47419743 TCGAGGGCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.28
Consensus pattern (54 bp):
AGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAATAATTTTACAAACTG
Found at i:47421747 original size:6 final size:6
Alignment explanation
Indices: 47421736--47421873 Score: 124
Period size: 6 Copynumber: 22.8 Consensus size: 6
47421726 AACCAAAATG
* *
47421736 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGACTC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
47421784 AGTAA-C AGAATC AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
47421832 AGAATC AGAATT AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
47421874 GTGAATGCAA
Statistics
Matches: 109, Mismatches: 12, Indels: 22
0.76 0.08 0.15
Matches are distributed among these distances:
5 8 0.07
6 93 0.85
7 6 0.06
8 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:47421751 original size:30 final size:29
Alignment explanation
Indices: 47421715--47421873 Score: 131
Period size: 30 Copynumber: 5.1 Consensus size: 29
47421705 AAGAAACATT
* * *
47421715 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
* *
47421745 ATCAGAATCAGTAACAGAATCAGACTCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
47421775 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
47421805 ATCAGAATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAG----A--ATT-GTAACAGAATCAGAATCAGA
* *
47421841 ATTAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
47421872 AT
1 AT
47421874 GTGAATGCAA
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
29 1 0.01
30 53 0.49
31 24 0.22
32 1 0.01
35 1 0.01
36 29 0.27
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:47421776 original size:36 final size:35
Alignment explanation
Indices: 47421736--47421873 Score: 150
Period size: 36 Copynumber: 4.1 Consensus size: 35
47421726 AACCAAAATG
* *
47421736 AGAATCAGAATCAGAATCAGTAACAGAATCAGACTC
1 AGAATCAGAATCAG-ATTAGTAACAGAATCAGAATC
47421772 AGAATC--AAT---ATTAGTAACAGAATCAGAATC
1 AGAATCAGAATCAGATTAGTAACAGAATCAGAATC
47421802 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
1 AGAATCAGAATCAG-ATTAGTAACAGAATCAGAATC
* * *
47421838 AGAATTAGAATTAG----GTGACAGAATCAGAATC
1 AGAATCAGAATCAGATTAGTAACAGAATCAGAATC
47421869 AGAAT
1 AGAAT
47421874 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
30 25 0.27
31 21 0.23
32 3 0.03
34 3 0.03
36 39 0.43
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (35 bp):
AGAATCAGAATCAGATTAGTAACAGAATCAGAATC
Found at i:47422028 original size:27 final size:26
Alignment explanation
Indices: 47421991--47422056 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
47421981 AGCATGGCTG
**
47421991 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGACCCA
* *
47422017 CCAGATACAGATATTGTGGCAGACCCA
1 CCAGA-ACAGATATCGTGACAGACCCA
47422044 CCAGAATCAGATA
1 CCAGAA-CAGATA
47422057 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGACCCA
Found at i:47422071 original size:27 final size:27
Alignment explanation
Indices: 47422015--47422072 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
47422005 GTGACAGAGT
* *
47422015 CACCAGATACAGATATTGTGGCAGACC
1 CACCAGATACAGATAATGTGGCAAACC
*
47422042 CACCAGA-ATCAGATAATGTGGCAAAGC
1 CACCAGATA-CAGATAATGTGGCAAACC
47422069 CACC
1 CACC
47422073 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:47422864 original size:27 final size:27
Alignment explanation
Indices: 47422657--47422851 Score: 196
Period size: 27 Copynumber: 7.2 Consensus size: 27
47422647 GGGTAAAATG
* * ** * *
47422657 GTAATTTTACCCCACAAAGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
47422684 GTAATTCTACCGTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
47422711 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
47422737 GATAATTCTACCCTACTGGGGTATTT-T
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
47422764 GCTAATTCTATCCTATAAGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
47422792 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
47422819 GAAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
47422846 GTAATT
1 GTAATT
47422852 TCACCATCAA
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 138 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:47422893 original size:27 final size:27
Alignment explanation
Indices: 47422861--47422951 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
47422851 TTCACCATCA
47422861 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
47422888 AGGGTAAAATGATAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* * *
47422915 AGGGTAAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
47422942 AGGGTAAAAC
1 AGGGTAAAAC
47422952 TATAATTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 50 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:47422957 original size:27 final size:27
Alignment explanation
Indices: 47422857--47422958 Score: 102
Period size: 27 Copynumber: 3.8 Consensus size: 27
47422847 TAATTTCACC
**
47422857 ATCAAGGGTAAAACGGTAATTCTGTAA
1 ATCAAGGGTAAAACTATAATTCTGTAA
* *
47422884 ATCGAGGGTAAAA-TGATAATTTTGTAA
1 ATCAAGGGTAAAACT-ATAATTCTGTAA
* *
47422911 A-CTGAGGGT-AAACCAGTAATTCTGTAA
1 ATC-AAGGGTAAAACTA-TAATTCTGTAA
47422938 ATCAAGGGTAAAACTATAATT
1 ATCAAGGGTAAAACTATAATT
47422959 TTACAAATCG
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
26 5 0.08
27 50 0.82
28 6 0.10
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCAAGGGTAAAACTATAATTCTGTAA
Found at i:47422972 original size:54 final size:54
Alignment explanation
Indices: 47422861--47422965 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
47422851 TTCACCATCA
* * **
47422861 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAACTG
1 AGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATGATAATTTTACAAACTG
*
47422915 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACT-ATAATTTTACAAA
1 AGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA-TGATAATTTTACAAA
47422966 TCGAGGGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.29
Consensus pattern (54 bp):
AGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATGATAATTTTACAAACTG
Found at i:47433668 original size:97 final size:97
Alignment explanation
Indices: 47433550--47433746 Score: 394
Period size: 97 Copynumber: 2.0 Consensus size: 97
47433540 CTCCTAACTC
47433550 TTGTGATTCCTTTAACCAAAAAAACTTACATTCTTTGAAATAGTTAGATCAAAGGCTATCCCTTT
1 TTGTGATTCCTTTAACCAAAAAAACTTACATTCTTTGAAATAGTTAGATCAAAGGCTATCCCTTT
47433615 TTGAAGTCCAGCAGTACCACCTCATTAAATAG
66 TTGAAGTCCAGCAGTACCACCTCATTAAATAG
47433647 TTGTGATTCCTTTAACCAAAAAAACTTACATTCTTTGAAATAGTTAGATCAAAGGCTATCCCTTT
1 TTGTGATTCCTTTAACCAAAAAAACTTACATTCTTTGAAATAGTTAGATCAAAGGCTATCCCTTT
47433712 TTGAAGTCCAGCAGTACCACCTCATTAAATAG
66 TTGAAGTCCAGCAGTACCACCTCATTAAATAG
47433744 TTG
1 TTG
47433747 GGACAACACA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 100 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (97 bp):
TTGTGATTCCTTTAACCAAAAAAACTTACATTCTTTGAAATAGTTAGATCAAAGGCTATCCCTTT
TTGAAGTCCAGCAGTACCACCTCATTAAATAG
Found at i:47436684 original size:49 final size:49
Alignment explanation
Indices: 47436588--47436755 Score: 288
Period size: 49 Copynumber: 3.5 Consensus size: 49
47436578 TTAGGATTTT
*
47436588 ATGTGATGAATGTGAGAGTGTATG--TATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
47436635 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
47436684 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
*
47436733 ATGTGATGGAA-GTGGAAGTGTAT
1 ATGTGAT-GAATGTGAAAGTGTAT
47436756 AACTGTGATA
Statistics
Matches: 116, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
47 23 0.20
49 90 0.78
50 3 0.03
ACGTcount: A:0.32, C:0.07, G:0.33, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
Found at i:47440477 original size:46 final size:44
Alignment explanation
Indices: 47440421--47440592 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 44
47440411 ATTCGTGTGT
*
47440421 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGTCATATTATGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGG-CAT-TGA-GAC
* *
47440467 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATTGGCATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCATTGAGAC
* * * * *
47440513 GAGGGCTAGTGTAAGACATGTTTGGAACATGCATCGGCCTCGAGAC
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGAC
47440559 GTAAGCTAGTGTAAGACATGTCTGGGACATGCAT
1 G--AGCTAGTGTAAGACATGTCTGGGACATGCAT
47440593 CGGCTACGAG
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
45 2 0.02
46 59 0.55
47 27 0.25
48 19 0.18
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGAC
Found at i:47440593 original size:46 final size:46
Alignment explanation
Indices: 47440421--47440642 Score: 177
Period size: 46 Copynumber: 4.7 Consensus size: 46
47440411 ATTCGTGTGT
* * **
47440421 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGG-TC-ATATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGA-CGT-A
* * * *
47440467 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATTGGCATTGAGACG-A
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGACGTA
* * *
47440515 GGGCTAGTGTAAGACATGTTTGGAACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACGTA
*
47440562 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACGTA
* * *
47440607 TAG-TCAATGTAAGGCCATGTCTGGGACATGGCATCG
1 GAGCT-AGTGTAA-GACATGTCTGGGACAT-GCATCG
47440643 ACTTAAGATA
Statistics
Matches: 145, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
45 4 0.03
46 71 0.49
47 41 0.28
48 26 0.18
50 1 0.01
51 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACGTA
Found at i:47469708 original size:55 final size:55
Alignment explanation
Indices: 47469605--47469710 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
47469595 ACAAACGTGT
* *
47469605 GACACGCCCGTGTGGAAGAACCATGGGCGAACCTATTAAAACAGCACGGGCATTC
1 GACACGCCCGTGTGGAACAACCATGGGCGAACCTATTAAAACAACACGGGCATTC
* * * * **
47469660 GACACGCCCGTGTGGAACACCCGTGGTCGAACCTGTTAAATTAACACGGGC
1 GACACGCCCGTGTGGAACAACCATGGGCGAACCTATTAAAACAACACGGGC
47469711 GTGGGGCTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (55 bp):
GACACGCCCGTGTGGAACAACCATGGGCGAACCTATTAAAACAACACGGGCATTC
Found at i:47485949 original size:7 final size:7
Alignment explanation
Indices: 47485937--47485964 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47485927 GCCGAAGCCT
47485937 TTTCATA
1 TTTCATA
47485944 TTTCATA
1 TTTCATA
47485951 TTTCATA
1 TTTCATA
47485958 TTTCATA
1 TTTCATA
47485965 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:47485988 original size:31 final size:31
Alignment explanation
Indices: 47485950--47486011 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
47485940 CATATTTCAT
47485950 ATTTCATATTTCATAACACTGGGCCGAAGCC
1 ATTTCATATTTCATAACACTGGGCCGAAGCC
** *
47485981 ATTTCATATTTCATATTATTGGGCCGAAGCC
1 ATTTCATATTTCATAACACTGGGCCGAAGCC
47486012 GTCACTGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (31 bp):
ATTTCATATTTCATAACACTGGGCCGAAGCC
Found at i:47486293 original size:26 final size:25
Alignment explanation
Indices: 47486222--47486305 Score: 118
Period size: 26 Copynumber: 3.4 Consensus size: 25
47486212 CTGGAGGCCT
*
47486222 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
47486246 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
47486271 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-GATAAACTGGGGCAAA
47486297 AGCCCTTTT
1 AGCCCTTTT
47486306 TGCACTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 7 0.13
24 13 0.24
25 11 0.20
26 24 0.44
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:47486375 original size:9 final size:9
Alignment explanation
Indices: 47486361--47486417 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
47486351 ACATCATGTG
47486361 CATATCATA
1 CATATCATA
*
47486370 CATATCATGTG
1 CATATCA--TA
47486381 CATATCATA
1 CATATCATA
*
47486390 CATATCATGTG
1 CATATCA--TA
47486401 CATATCATA
1 CATATCATA
47486410 CATATCAT
1 CATATCAT
47486418 GTATATCAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:47486376 original size:20 final size:20
Alignment explanation
Indices: 47486353--47486419 Score: 134
Period size: 20 Copynumber: 3.4 Consensus size: 20
47486343 TTATGAATAC
47486353 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
47486373 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
47486393 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
47486413 ATCATGT
1 ATCATGT
47486420 ATATCAGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:47486383 original size:40 final size:39
Alignment explanation
Indices: 47486339--47486419 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 39
47486329 CCCATCCAAA
47486339 TGCATTATGAATAC-ATCATGTGCATATCATACATATCATG
1 TGCA-TAT-AATACAATCATGTGCATATCATACATATCATG
*
47486379 TGCATATCATACATATCATGTGCATATCATACATATCATG
1 TGCATATAATACA-ATCATGTGCATATCATACATATCATG
47486419 T
1 T
47486420 ATATCAGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 31 0.82
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (39 bp):
TGCATATAATACAATCATGTGCATATCATACATATCATG
Found at i:47486384 original size:11 final size:11
Alignment explanation
Indices: 47486353--47486408 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
47486343 TTATGAATAC
47486353 ATCATGTGCAT
1 ATCATGTGCAT
*
47486364 ATCA--TACAT
1 ATCATGTGCAT
47486373 ATCATGTGCAT
1 ATCATGTGCAT
*
47486384 ATCA--TACAT
1 ATCATGTGCAT
47486393 ATCATGTGCAT
1 ATCATGTGCAT
47486404 ATCAT
1 ATCAT
47486409 ACATATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:47489603 original size:21 final size:21
Alignment explanation
Indices: 47489579--47489634 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
47489569 AACAGTGGTG
*
47489579 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
47489600 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
47489621 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
47489635 AACAATGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:47495652 original size:46 final size:46
Alignment explanation
Indices: 47495593--47495810 Score: 319
Period size: 46 Copynumber: 4.7 Consensus size: 46
47495583 ATGAAATGTG
* *
47495593 TAAGACCATGGTTGAAAGATACCATGGTAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
47495639 TAAGACCATGGTTGAAAGATACCATGGCAGCATGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * *
47495685 TAAGACCATGGTTGAAAGGTACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
47495731 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * * *
47495777 TAAGACCATAGTTGAAAGACACAATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
47495811 TCAAAGATAA
Statistics
Matches: 156, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:47497828 original size:23 final size:23
Alignment explanation
Indices: 47497800--47497846 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47497790 ATTAATTCTT
47497800 CCTGATCTTTCAGTAAAGGCCGC
1 CCTGATCTTTCAGTAAAGGCCGC
47497823 CCTGATCTTTCAGTAAAGGCCGC
1 CCTGATCTTTCAGTAAAGGCCGC
47497846 C
1 C
47497847 AGCTTATGGC
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:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (23 bp):
CCTGATCTTTCAGTAAAGGCCGC
Found at i:47499744 original size:39 final size:38
Alignment explanation
Indices: 47499660--47499854 Score: 255
Period size: 39 Copynumber: 5.0 Consensus size: 38
47499650 CAAATCCAAT
* * *
47499660 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* *
47499700 TACCAGCACAAAGCCTACGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAA
*
47499739 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
*
47499778 CACCAGCACAAATGCCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAA
* *
47499817 CACCAGTACAAACGCCTTCGGGAATTAGCCCGGATATA
1 CACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATA
47499855 TATCTCACAC
Statistics
Matches: 140, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.01
39 104 0.74
40 34 0.24
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (38 bp):
CACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:47499866 original size:78 final size:77
Alignment explanation
Indices: 47499687--47499887 Score: 246
Period size: 78 Copynumber: 2.6 Consensus size: 77
47499677 CGGGACTTTA
* * *
47499687 AGCCCGGATATAATACCAGCACAAAGCCTACGGGACTTTAGCCCGGATATAACACCAGCACGAAT
1 AGCCCGGATATAAT-CCAGCACAAAGCCTACAGGACTTTAGCCCGGATATAACACCAGCACAAAC
*
47499752 GCCTTCGGGACTT
65 GCCTTCGGGAATT
* * *
47499765 AGCCCGGATATAACACCAGCACAAATGCCTTCAGGAC-TTAGCCCGGATATAACACCAGTACAAA
1 AGCCCGGATATAA-TCCAGCACAAA-GCCTACAGGACTTTAGCCCGGATATAACACCAGCACAAA
47499829 CGCCTTCGGGAATT
64 CGCCTTCGGGAATT
* * *
47499843 AGCCCGGATATATATCTCA-CACAAGGCCTACGGGTC-TTAGCCCGG
1 AGCCCGGATATA-ATC-CAGCACAAAGCCTACAGGACTTTAGCCCGG
47499888 TTAAAATCCT
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
77 17 0.16
78 78 0.73
79 12 0.11
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.18
Consensus pattern (77 bp):
AGCCCGGATATAATCCAGCACAAAGCCTACAGGACTTTAGCCCGGATATAACACCAGCACAAACG
CCTTCGGGAATT
Found at i:47504145 original size:26 final size:26
Alignment explanation
Indices: 47504109--47504158 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
47504099 CATAAAGACA
47504109 TAAAGGTAAGTTAAATTTACCTAACG
1 TAAAGGTAAGTTAAATTTACCTAACG
47504135 TAAAGGTAAGTTAAATTTACCTAA
1 TAAAGGTAAGTTAAATTTACCTAA
47504159 GTCTTATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (26 bp):
TAAAGGTAAGTTAAATTTACCTAACG
Found at i:47504997 original size:53 final size:53
Alignment explanation
Indices: 47504918--47505023 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
47504908 TTAAATTTTC
* ** *
47504918 CCATATGATGTCATAACTTACTAGTTACAGTCTTACACGATATGGTCTCCTTT
1 CCATATGATGCCATAACCCACAAGTTACAGTCTTACACGATATGGTCTCCTTT
** * *
47504971 CCATATGATGCCATAACCCACAAGTTATGGTCTTACACGATATGTTCTTCTTT
1 CCATATGATGCCATAACCCACAAGTTACAGTCTTACACGATATGGTCTCCTTT
47505024 AGTGTCACGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (53 bp):
CCATATGATGCCATAACCCACAAGTTACAGTCTTACACGATATGGTCTCCTTT
Found at i:47505649 original size:27 final size:27
Alignment explanation
Indices: 47505619--47505674 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
47505609 AAAACCAATT
**
47505619 CACATACATTTTTACCATCATCACAAG
1 CACATACAAATTTACCATCATCACAAG
47505646 CACATACAAATTTACCATCATCACAAG
1 CACATACAAATTTACCATCATCACAAG
47505673 CA
1 CA
47505675 TAGACAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.30, G:0.04, T:0.25
Consensus pattern (27 bp):
CACATACAAATTTACCATCATCACAAG
Found at i:47505681 original size:27 final size:27
Alignment explanation
Indices: 47505629--47505682 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
47505619 CACATACATT
*
47505629 TTTACCATCATCACAAGCACATACAAA
1 TTTACCATCATCACAAGCACAGACAAA
*
47505656 TTTACCATCATCACAAGCATAGACAAA
1 TTTACCATCATCACAAGCACAGACAAA
47505683 CCCCATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (27 bp):
TTTACCATCATCACAAGCACAGACAAA
Found at i:47509190 original size:55 final size:56
Alignment explanation
Indices: 47509130--47509250 Score: 183
Period size: 55 Copynumber: 2.2 Consensus size: 56
47509120 TTAAGTATAC
* *
47509130 ATATTTTTTAAAGTTTATTTCCAATTTGTT-AGGAAATATTTATTTTGAT-TTTTTA
1 ATATTTTTTAAAATTTATTTCCAATTTGTTGA-AAAATATTTATTTTGATCTTTTTA
**
47509185 ATATTTTTTAAAATTTATTTTTAATTTGTTGAAAAATATTTATTTTGATCTTTTTA
1 ATATTTTTTAAAATTTATTTCCAATTTGTTGAAAAATATTTATTTTGATCTTTTTA
47509241 ATATTTTTTA
1 ATATTTTTTA
47509251 TGTATTATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
55 43 0.72
56 17 0.28
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (56 bp):
ATATTTTTTAAAATTTATTTCCAATTTGTTGAAAAATATTTATTTTGATCTTTTTA
Found at i:47516797 original size:39 final size:39
Alignment explanation
Indices: 47516666--47516870 Score: 247
Period size: 39 Copynumber: 5.3 Consensus size: 39
47516656 GGACTAAGAT
* *
47516666 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-TAAATCCGGGTTAAGTC
47516706 CCGAAGGCATTCGTGCGAG--ATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGATATAAATCCGGGTTAAGTC
* *
47516742 CCGAAGGCCTTTGTGCGAGATATAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATAAATCCGGGTTAAGTC
* * *
47516781 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ATAAATCCGGGTTAAGTC
* * * * *
47516821 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATA-TAAATCCGGGTTAAGTC
47516860 CCGAAGGCATT
1 CCGAAGGCATT
47516871 TGAACGAGGA
Statistics
Matches: 147, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
36 18 0.12
37 15 0.10
38 17 0.12
39 53 0.36
40 44 0.30
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATATAAATCCGGGTTAAGTC
Found at i:47516890 original size:79 final size:79
Alignment explanation
Indices: 47516613--47516905 Score: 296
Period size: 79 Copynumber: 3.7 Consensus size: 79
47516603 TTGAATGCTG
* * * * * **
47516613 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAG-GAGTAAATCCGGGTTAAG-TCCCGAAGGCCT
47516676 TTGTGCGAGATACTAAA
63 TTGTGCGAGATACTAAA
47516693 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-GA-TAAATCCGGGTTAAG-CCCGAAGGCCTTTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGGAGTAAATCCGGGTTAAGTCCCGAAGGCCTTTG
47516755 TGCGAGATA-TAAA
66 TGCGAGATACTAAA
** * *
47516768 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGGAG-TAAATCCGGGTTAAGTCCCGAAGGCCTTT
* *
47516832 GTGTGAGTTACTAAA
65 GTGCGAGATACTAAA
* * * * ** * *
47516847 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGGAG-TAAATCCGGGTTAAGTCCCGAAGG
47516906 TACGTGATTT
Statistics
Matches: 182, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
75 35 0.19
76 22 0.12
77 12 0.07
78 41 0.23
79 45 0.25
80 21 0.12
81 6 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGGAGTAAATCCGGGTTAAGTCCCGAAGGCCTTTG
TGCGAGATACTAAA
Found at i:47524604 original size:40 final size:40
Alignment explanation
Indices: 47524521--47524880 Score: 331
Period size: 40 Copynumber: 9.6 Consensus size: 40
47524511 TTGAATGCTG
* * * * * *
47524521 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
47524561 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
47524601 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
47524641 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
47524681 TCCGGGTTAAGT-CCGAA-GCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
47524719 T-C-GGTTAAGT-CCGAAGGCATTCGTGCGAG---TTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
47524753 T-C-GG-T-AGT-CCGAA-G-A-T--T-C--G-TATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
47524779 TCCGGGTTAAGT-CCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47524818 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47524857 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
47524881 TGAACGAGGA
Statistics
Matches: 277, Mismatches: 23, Indels: 41
0.81 0.07 0.12
Matches are distributed among these distances:
24 1 0.00
26 7 0.03
27 2 0.01
28 2 0.01
29 2 0.01
30 9 0.03
31 2 0.01
32 9 0.03
33 2 0.01
34 9 0.03
35 1 0.00
36 14 0.05
37 13 0.05
38 21 0.08
39 57 0.21
40 118 0.43
41 8 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:47524850 original size:39 final size:39
Alignment explanation
Indices: 47524772--47524880 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 39
47524762 CGAAGATTCG
* *
47524772 TATTAAATCCGGGTTAAGT-CCGAAGGCAGTCGTGCGAGT
1 TATTAAATCCGGGTTATGTCCCGAAGGCA-TTGTGCGAGT
* *
47524811 TGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGT
1 TATTAAATCCGGGTTATGTCCCGAAGGCATTGTGCGAGT
* * *
47524850 TACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TATTAAATCCGGGTTATGTCCCGAAGGCATT
47524881 TGAACGAGGA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 52 0.85
40 9 0.15
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (39 bp):
TATTAAATCCGGGTTATGTCCCGAAGGCATTGTGCGAGT
Done.