Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 192 of 325
Found at i:62344299 original size:16 final size:17
Alignment explanation
Indices: 62344278--62344310 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62344268 TTTTTTAAAA
62344278 ATTT-AATATATCAAAT
1 ATTTAAATATATCAAAT
62344294 ATTTAAATATATCAAAT
1 ATTTAAATATATCAAAT
62344311 GAATTAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAATATATCAAAT
Found at i:62345742 original size:124 final size:124
Alignment explanation
Indices: 62345572--62345820 Score: 489
Period size: 124 Copynumber: 2.0 Consensus size: 124
62345562 TTTCATGAAA
62345572 GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTATAAAGTTGATAATATAAAAAAAAGA
1 GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTATAAAGTTGATAATATAAAAAAAAGA
62345637 CCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
66 CCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
*
62345696 GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTGTAAAGTTGATAATATAAAAAAAAGA
1 GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTATAAAGTTGATAATATAAAAAAAAGA
62345761 CCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
66 CCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
62345820 G
1 G
62345821 AAATGTGTTT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (124 bp):
GGAATTTGATATTGGCTTTGGAAATATCTGGAAAGAGTTATAAAGTTGATAATATAAAAAAAAGA
CCAAATCATAAATTTTGAAAAATATTGATTATTGCGTATTATTTAACATGAAACAAATT
Found at i:62352533 original size:19 final size:19
Alignment explanation
Indices: 62352509--62352547 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
62352499 TTTATTTATG
62352509 TTAATTAAGT-TAGGTTAAT
1 TTAATTAA-TCTAGGTTAAT
62352528 TTAATTAATCTAGGTTAAT
1 TTAATTAATCTAGGTTAAT
62352547 T
1 T
62352548 AAAGATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (19 bp):
TTAATTAATCTAGGTTAAT
Found at i:62355138 original size:18 final size:18
Alignment explanation
Indices: 62355112--62355152 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
62355102 AAAACATCAT
62355112 TGTTCAAGGGGA-AGCTAC
1 TGTTCAAGGGGAGA-CTAC
*
62355130 TGTTTAAGGGGAGACTAC
1 TGTTCAAGGGGAGACTAC
62355148 TGTTC
1 TGTTC
62355153 CAGAAAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (18 bp):
TGTTCAAGGGGAGACTAC
Found at i:62357181 original size:22 final size:23
Alignment explanation
Indices: 62357153--62357197 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
62357143 TATCAACACC
62357153 TTGCATT-AAAAAAAGAGAGGGA
1 TTGCATTAAAAAAAAGAGAGGGA
62357175 TTGCATTAAAAAAAAGAGAGGGA
1 TTGCATTAAAAAAAAGAGAGGGA
62357198 GTGAGCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.51, C:0.04, G:0.27, T:0.18
Consensus pattern (23 bp):
TTGCATTAAAAAAAAGAGAGGGA
Found at i:62362653 original size:18 final size:17
Alignment explanation
Indices: 62362627--62362660 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62362617 TTAACAAATC
*
62362627 ATATTTTTTTTACATTTA
1 ATATATTTTTTA-ATTTA
62362645 ATATATTTTTTAATTT
1 ATATATTTTTTAATTT
62362661 CAAAATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATATTTTTTAATTTA
Found at i:62364691 original size:14 final size:14
Alignment explanation
Indices: 62364657--62364699 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
62364647 GTAATTTGTT
*
62364657 TTATATTATATTAGA
1 TTATA-TATATTAAA
62364672 TATATATATATTAAA
1 T-TATATATATTAAA
*
62364687 TTATACATATTAA
1 TTATATATATTAA
62364700 TCATTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.44
15 10 0.40
16 4 0.16
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TTATATATATTAAA
Found at i:62364696 original size:20 final size:20
Alignment explanation
Indices: 62364658--62364696 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62364648 TAATTTGTTT
* *
62364658 TATATTATATTAGATATATA
1 TATATTAAATTAGACATATA
*
62364678 TATATTAAATTATACATAT
1 TATATTAAATTAGACATAT
62364697 TAATCATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTAAATTAGACATATA
Found at i:62366199 original size:22 final size:22
Alignment explanation
Indices: 62366171--62366242 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
62366161 TGAATAAACC
62366171 AAATAAACTTTATTACTGCAGA
1 AAATAAACTTTATTACTGCAGA
* * *
62366193 AAATAAAC-GTA--A-TGTAAA
1 AAATAAACTTTATTACTGCAGA
62366211 CCAAATAAACTTTATTACTGCAGA
1 --AAATAAACTTTATTACTGCAGA
62366235 AAATAAAC
1 AAATAAAC
62366243 GTAATATCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 4 0.11
19 1 0.03
20 8 0.21
21 4 0.11
22 16 0.42
23 1 0.03
24 4 0.11
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.26
Consensus pattern (22 bp):
AAATAAACTTTATTACTGCAGA
Found at i:62366212 original size:42 final size:42
Alignment explanation
Indices: 62366165--62366247 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
62366155 AGAGTGTGAA
62366165 TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAATG
1 TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAATG
62366207 TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAAT
1 TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAAT
62366248 ATCTTTAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (42 bp):
TAAACCAAATAAACTTTATTACTGCAGAAAATAAACGTAATG
Found at i:62367051 original size:103 final size:103
Alignment explanation
Indices: 62366872--62367077 Score: 376
Period size: 103 Copynumber: 2.0 Consensus size: 103
62366862 TTGATTGAGG
** *
62366872 CTATACTTATTATTGGTAATCAGTATGTCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
1 CTATACTTATTATTGACAATCAGTATGGCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
*
62366937 TATATACGATTATCAATAAAATTTATCTCTAAACCAAA
66 TATATAAGATTATCAATAAAATTTATCTCTAAACCAAA
62366975 CTATACTTATTATTGACAATCAGTATGGCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
1 CTATACTTATTATTGACAATCAGTATGGCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
62367040 TATATAAGATTATCAATAAAATTTATCTCTAAACCAAA
66 TATATAAGATTATCAATAAAATTTATCTCTAAACCAAA
62367078 TGAGATAATC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (103 bp):
CTATACTTATTATTGACAATCAGTATGGCACCAAATATAGAACCTTACTCCCACTAAACTTATGG
TATATAAGATTATCAATAAAATTTATCTCTAAACCAAA
Found at i:62367522 original size:23 final size:22
Alignment explanation
Indices: 62367487--62367532 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
62367477 ATATAATAAA
* *
62367487 TATATTTTCTTTTATTTTTAAT
1 TATATTTTATTTTAATTTTAAT
62367509 TATATTTATATTTTAATTTTAAT
1 TATATTT-TATTTTAATTTTAAT
62367532 T
1 T
62367533 TTAATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TATATTTTATTTTAATTTTAAT
Found at i:62370454 original size:17 final size:16
Alignment explanation
Indices: 62370433--62370467 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
62370423 TTGCATATAA
62370433 TATATATACACAC-AT
1 TATATATACACACAAT
62370448 TATATATACACACAAT
1 TATATATACACACAAT
62370464 TATA
1 TATA
62370468 ATAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (16 bp):
TATATATACACACAAT
Found at i:62372040 original size:9 final size:9
Alignment explanation
Indices: 62372028--62372122 Score: 66
Period size: 9 Copynumber: 10.6 Consensus size: 9
62372018 AAGAAGAAGA
62372028 AGAAGGAGG
1 AGAAGGAGG
*
62372037 AGAAAGAGG
1 AGAAGGAGG
* *
62372046 GGGAGGAGG
1 AGAAGGAGG
*
62372055 AGAAGGAGA
1 AGAAGGAGG
* *
62372064 AGAAGAAAG
1 AGAAGGAGG
*
62372073 AGAAGGAAGA
1 AGAAGG-AGG
* *
62372083 AGAAGAAGA
1 AGAAGGAGG
* *
62372092 AGAAAGAAG
1 AGAAGGAGG
62372101 A-AAGGAGG
1 AGAAGGAGG
*
62372109 AGGAGGAGG
1 AGAAGGAGG
62372118 AGAAG
1 AGAAG
62372123 AAGAAGAAGA
Statistics
Matches: 62, Mismatches: 22, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
8 6 0.10
9 50 0.81
10 6 0.10
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (9 bp):
AGAAGGAGG
Found at i:62372067 original size:3 final size:3
Alignment explanation
Indices: 62372055--62372151 Score: 97
Period size: 3 Copynumber: 31.3 Consensus size: 3
62372045 GGGGAGGAGG
*
62372055 AGA AGG AGA AGA AGA A-A GAGA AGGA AGA AGA AGA AGA AGAA AGA AGAA
1 AGA AGA AGA AGA AGA AGA -AGA A-GA AGA AGA AGA AGA AG-A AGA AG-A
* * * * *
62372103 AGG AGG AGG AGG AGG AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
62372151 A
1 A
62372152 ACATAAAATT
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
2 1 0.01
3 74 0.87
4 10 0.12
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:62379049 original size:29 final size:29
Alignment explanation
Indices: 62379007--62379068 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
62378997 TGGAATTGGT
* ** *
62379007 GAACGAAAGTGAGAGGGGTATAAGTAGGA
1 GAACCAAAGTGAGAAAGGTATAAGTAAGA
62379036 GAACCAAAGTGAGAAAGGTATAAGTAAGA
1 GAACCAAAGTGAGAAAGGTATAAGTAAGA
62379065 GAAC
1 GAAC
62379069 TGAAGATGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.34, T:0.13
Consensus pattern (29 bp):
GAACCAAAGTGAGAAAGGTATAAGTAAGA
Found at i:62389575 original size:23 final size:24
Alignment explanation
Indices: 62389529--62389578 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
62389519 ACGTCTTAGG
*
62389529 AAATAAATAAAAAATAATGAGAGT
1 AAATAAACAAAAAATAATGAGAGT
*
62389553 AAATAAACAAGAAAT-ATGAGAGT
1 AAATAAACAAAAAATAATGAGAGT
62389576 AAA
1 AAA
62389579 AGAGAACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.66, C:0.02, G:0.14, T:0.18
Consensus pattern (24 bp):
AAATAAACAAAAAATAATGAGAGT
Found at i:62396418 original size:21 final size:20
Alignment explanation
Indices: 62396362--62396423 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
62396352 TTGCTAAAGT
*
62396362 TTTAATGTCAAACTTCAATGA
1 TTTAAT-TCAAATTTCAATGA
***
62396383 TTTAAGTTGTTATTTCAATGCA
1 TTTAA-TTCAAATTTCAATG-A
62396405 TTTAATTCAAATTTACAAT
1 TTTAATTCAAATTT-CAAT
62396424 TTTTTAATGC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (20 bp):
TTTAATTCAAATTTCAATGA
Found at i:62396429 original size:21 final size:21
Alignment explanation
Indices: 62396405--62396448 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
62396395 TTTCAATGCA
*
62396405 TTTAATTC-AAATTTACAATTT
1 TTTAATGCTAAATTTA-AATTT
*
62396426 TTTAATGCTACATTTAAATTT
1 TTTAATGCTAAATTTAAATTT
62396447 TT
1 TT
62396449 GCTTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAATGCTAAATTTAAATTT
Found at i:62399185 original size:23 final size:23
Alignment explanation
Indices: 62399155--62399201 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
62399145 GGAAAGATAG
*
62399155 AAGTTTGACCGAGCTTCTGCGAC
1 AAGTTTGACCAAGCTTCTGCGAC
62399178 AAGTTTGACCAAGCTTCTGCGAC
1 AAGTTTGACCAAGCTTCTGCGAC
62399201 A
1 A
62399202 CTGACTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (23 bp):
AAGTTTGACCAAGCTTCTGCGAC
Found at i:62400283 original size:29 final size:29
Alignment explanation
Indices: 62400241--62400298 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
62400231 ACACGATCGA
* *
62400241 TCACATGGCTTGTCACACGCCCGTGTGGC
1 TCACACGGCCTGTCACACGCCCGTGTGGC
* *
62400270 TCACACGGCCTGTCACACGTCTGTGTGGC
1 TCACACGGCCTGTCACACGCCCGTGTGGC
62400299 AAACACGCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (29 bp):
TCACACGGCCTGTCACACGCCCGTGTGGC
Found at i:62400848 original size:20 final size:20
Alignment explanation
Indices: 62400807--62400852 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
62400797 TCCGATTAAT
*
62400807 AAGAAAAATATAAAAATGAA
1 AAGAAAAATACAAAAATGAA
*
62400827 AAGAAAAAGTACAACAAT-AA
1 AAGAAAAA-TACAAAAATGAA
62400847 AA-AAAA
1 AAGAAAA
62400853 TGGGAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 12 0.52
21 7 0.30
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (20 bp):
AAGAAAAATACAAAAATGAA
Found at i:62400849 original size:21 final size:20
Alignment explanation
Indices: 62400807--62400849 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
62400797 TCCGATTAAT
* *
62400807 AAGAAAAATATAAAAATGAA
1 AAGAAAAATACAAAAATAAA
*
62400827 AAGAAAAAGTACAACAATAAA
1 AAGAAAAA-TACAAAAATAAA
62400848 AA
1 AA
62400850 AAATGGGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (20 bp):
AAGAAAAATACAAAAATAAA
Found at i:62416887 original size:15 final size:15
Alignment explanation
Indices: 62416867--62416896 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62416857 TATTTTATTT
*
62416867 ATATTAGGATAATTA
1 ATATTAAGATAATTA
62416882 ATATTAAGATAATTA
1 ATATTAAGATAATTA
62416897 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:62416924 original size:27 final size:26
Alignment explanation
Indices: 62416863--62416925 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
62416853 ACTCTATTTT
62416863 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
62416890 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
62416918 ATTTTATT
1 ATTTTATT
62416926 TTAATTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:62416940 original size:10 final size:10
Alignment explanation
Indices: 62416921--62416952 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
62416911 TTTTAGGATT
62416921 TTAT-TTTAA
1 TTATATTTAA
62416930 TTATATTTAA
1 TTATATTTAA
62416940 TTATATTTAA
1 TTATATTTAA
62416950 TTA
1 TTA
62416953 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATTTAA
Found at i:62416963 original size:20 final size:19
Alignment explanation
Indices: 62416920--62416963 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
62416910 ATTTTAGGAT
* *
62416920 TTTATTTTAATTATATTTA
1 TTTATTTTAATTAAATGTA
*
62416939 ATTATATTTAATTAAATGTA
1 TTTAT-TTTAATTAAATGTA
62416959 TTTAT
1 TTTAT
62416964 CTTTTTAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTATTTTAATTAAATGTA
Found at i:62421842 original size:21 final size:20
Alignment explanation
Indices: 62421802--62421842 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
62421792 CCCATGTGGG
* *
62421802 CCCAAAATCTCACGGCCTGT
1 CCCAAAATCCCACAGCCTGT
62421822 CCCAAAATCCCACAAGCCTGT
1 CCCAAAATCCCAC-AGCCTGT
62421843 ATGGTCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.29, C:0.41, G:0.12, T:0.17
Consensus pattern (20 bp):
CCCAAAATCCCACAGCCTGT
Found at i:62429513 original size:48 final size:48
Alignment explanation
Indices: 62429384--62429521 Score: 179
Period size: 48 Copynumber: 2.9 Consensus size: 48
62429374 ACATACTGAG
* * * * *
62429384 GCCGACGCCATATCCCAGATATGGTCTTACACTAGC-ACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATATCAAT
*
62429432 GCCGATGCCATGTCCCATACATGGTCTTACACTGGCTATCATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATCAAT
* * *
62429480 GCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT
62429522 TAATCGTGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 78 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATCAAT
Found at i:62436066 original size:42 final size:42
Alignment explanation
Indices: 62435997--62436108 Score: 181
Period size: 42 Copynumber: 2.7 Consensus size: 42
62435987 GTGCAGTTTT
* * *
62435997 CACACGGCCAAGACATACGCCTGTGTCTTAGGCCGTGTAGTA
1 CACACGGCTAAGACACACGCCTGTGTCTTAGGACGTGTAGTA
62436039 CACACGGCTAAGACACACGCTCT-TGTCTTAGGACGTGTAGTA
1 CACACGGCTAAGACACACGC-CTGTGTCTTAGGACGTGTAGTA
62436081 CACACGGCTAAGACACACGCCTGTGTCT
1 CACACGGCTAAGACACACGCCTGTGTCT
62436109 CTGCTAGTGT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 2 0.03
42 61 0.94
43 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.21
Consensus pattern (42 bp):
CACACGGCTAAGACACACGCCTGTGTCTTAGGACGTGTAGTA
Found at i:62439005 original size:49 final size:48
Alignment explanation
Indices: 62438941--62439246 Score: 235
Period size: 46 Copynumber: 6.5 Consensus size: 48
62438931 AATTCTATGT
*
62438941 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG
* * * * *
62438989 CCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCCG-TGTCGATG
1 -CATGTCCCAGACAGGTCTTACACTGACTCTCATATAT-CGAGGCCGATG
* * * * * *
62439038 CCATGTCCTAGACAGGTCTTACACTGA--CACACA-A-C-AAGCTGACG
1 -CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG
*
62439082 CCATGTCCCAGACAGGTCTTATACT-AGCTCGT-ATA-ACTCGAGGCCGATG
1 -CATGTCCCAGACAGGTCTTACACTGA-CTC-TCATATA-TCGAGGCCGATG
* * * * *
62439131 CATGTCCCAGACATGTCTTACACT-AGCTCTC--GTCTCAATGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCGAGGCCGATG
* * * *
62439177 CATGTCCCAGACATGTCCTACACTGGCTCTCATA-AT-GTGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG
*
62439223 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
62439247 AGCACACATA
Statistics
Matches: 206, Mismatches: 37, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
46 73 0.35
47 5 0.02
48 28 0.14
49 69 0.33
50 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG
Found at i:62454926 original size:75 final size:75
Alignment explanation
Indices: 62454820--62454961 Score: 248
Period size: 75 Copynumber: 1.9 Consensus size: 75
62454810 ATGCTCTACT
* *
62454820 TTTTATTTACAGGTGGTGATGACGAACAATGATGACTCAGACACCATTCACTTTCGATTAGACGG
1 TTTTATTTACAGGTGGTGATGACAAACAATGACGACTCAGACACCATTCACTTTCGATTAGACGG
62454885 TCGAAAGAAC
66 TCGAAAGAAC
* *
62454895 TTTTATTTACAGGTGGTGATGACAAATAATGACGACTCAGACACCATTCACTTTCGATTAGGCGG
1 TTTTATTTACAGGTGGTGATGACAAACAATGACGACTCAGACACCATTCACTTTCGATTAGACGG
62454960 TC
66 TC
62454962 TAGTTCTTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (75 bp):
TTTTATTTACAGGTGGTGATGACAAACAATGACGACTCAGACACCATTCACTTTCGATTAGACGG
TCGAAAGAAC
Found at i:62455785 original size:6 final size:6
Alignment explanation
Indices: 62455764--62455837 Score: 93
Period size: 6 Copynumber: 12.8 Consensus size: 6
62455754 TGACTCCTCC
62455764 TATTTT T-TTATT TATTTT TATTTT TA-TTT TA-TTT TA-TTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* *
62455809 TATTTT TATTTT GATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTTT TATTT
62455838 CAATTTTATT
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
5 17 0.27
6 43 0.69
7 2 0.03
ACGTcount: A:0.18, C:0.01, G:0.01, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:62455793 original size:5 final size:5
Alignment explanation
Indices: 62455769--62455857 Score: 76
Period size: 5 Copynumber: 16.8 Consensus size: 5
62455759 CCTCCTATTT
62455769 TTTTA -TTTA TTTTTA TTTTTA TTTTA TTTTA TTTTA TTTTTA TTTTTA
1 TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
*
62455817 TTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
62455858 GAAAGACATA
Statistics
Matches: 73, Mismatches: 2, Indels: 18
0.78 0.02 0.19
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 31 0.42
6 31 0.42
7 4 0.05
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:62455825 original size:12 final size:11
Alignment explanation
Indices: 62455768--62455857 Score: 87
Period size: 12 Copynumber: 7.9 Consensus size: 11
62455758 TCCTCCTATT
62455768 TTTTTA-TTTA
1 TTTTTATTTTA
62455778 TTTTTATTTT-
1 TTTTTATTTTA
62455788 TATTTTATTTTA
1 T-TTTTATTTTA
62455800 -TTTTATTTTTA
1 TTTTTA-TTTTA
62455811 TTTTTATTTTGA
1 TTTTTATTTT-A
62455823 TTTTTATTTTCA
1 TTTTTATTTT-A
**
62455835 TTTCAATTTTA
1 TTTTTATTTTA
62455846 TTATTTTATTTT
1 -T-TTTTATTTT
62455858 GAAAGACATA
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
10 12 0.18
11 22 0.33
12 26 0.39
13 7 0.10
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:62459265 original size:9 final size:9
Alignment explanation
Indices: 62459247--62459289 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
62459237 TCCTTTCTTC
62459247 TTTCTCTTTT
1 TTTCT-TTTT
62459257 TTTCTTTTT
1 TTTCTTTTT
62459266 TTTCTTTATT
1 TTTCTTT-TT
*
62459276 TTTCTTTCT
1 TTTCTTTTT
62459285 TTTCT
1 TTTCT
62459290 ATCTGTTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
9 17 0.55
10 14 0.45
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:62465444 original size:17 final size:17
Alignment explanation
Indices: 62465422--62465455 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62465412 CCACAATTAA
62465422 ATTATTAAATATAATTT
1 ATTATTAAATATAATTT
* *
62465439 ATTATTATATTTAATTT
1 ATTATTAAATATAATTT
62465456 CAATTAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTAAATATAATTT
Found at i:62466758 original size:16 final size:18
Alignment explanation
Indices: 62466739--62466777 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
62466729 TTTAATAAAA
62466739 AAATATTTA-AAAATT-T
1 AAATATTTATAAAATTAT
62466755 AAAT-TTTATAAAATTAT
1 AAATATTTATAAAATTAT
62466772 AAATAT
1 AAATAT
62466778 ATAGAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 5 0.25
18 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTTATAAAATTAT
Found at i:62466922 original size:17 final size:17
Alignment explanation
Indices: 62466900--62466933 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62466890 GCATTTTATA
62466900 ATTTTTCTATAATTTTT
1 ATTTTTCTATAATTTTT
* *
62466917 ATTTTTTTATCATTTTT
1 ATTTTTCTATAATTTTT
62466934 TGCCACAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTCTATAATTTTT
Found at i:62467075 original size:17 final size:18
Alignment explanation
Indices: 62467035--62467106 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
62467025 TTTTCGATGC
62467035 ATTTTATAATTTTTATAAA
1 ATTTTAT-ATTTTTATAAA
*
62467054 ATTTTATATTTTTA-AAT
1 ATTTTATATTTTTATAAA
* **
62467071 TTTTTATATTTCAATTAAA
1 ATTTTATATTTTTA-TAAA
* *
62467090 ATTTAATAATTTTATAA
1 ATTTTATATTTTTATAA
62467107 CTTTTATTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 13 0.32
18 10 0.24
19 18 0.44
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTATATTTTTATAAA
Found at i:62472026 original size:26 final size:27
Alignment explanation
Indices: 62471997--62472064 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
62471987 GCTAAATGTG
*
62471997 TTGGTGAGCTGGTGTTCACCAGT-TTA
1 TTGGTGAGCTGGGGTTCACCAGTCTTA
* * *
62472023 TTGGCGAGTTGGGGTTCGCCAGTCTTA
1 TTGGTGAGCTGGGGTTCACCAGTCTTA
*
62472050 TT-GTGACCTGGGGTT
1 TTGGTGAGCTGGGGTT
62472065 TGCCAGTCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 29 0.85
27 5 0.15
ACGTcount: A:0.12, C:0.16, G:0.35, T:0.37
Consensus pattern (27 bp):
TTGGTGAGCTGGGGTTCACCAGTCTTA
Found at i:62472758 original size:41 final size:41
Alignment explanation
Indices: 62472701--62472879 Score: 182
Period size: 41 Copynumber: 4.3 Consensus size: 41
62472691 TTACAAGCTA
*
62472701 TGTATCAGCAAAGCTCCCCTCGTAAGCTTATG-GATAAGTTG
1 TGTATCAGCGAAGCT-CCCTCGTAAGCTTATGTGATAAGTTG
* * *
62472742 TGTATCAGCGAAGCTCCCCCATGAGCTTATGTGATAAGTTG
1 TGTATCAGCGAAGCTCCCTCGTAAGCTTATGTGATAAGTTG
* * * * * *
62472783 TGTGATCAGCAAAGCTCCCTTGTGAGATTAT-AGATAAGCTG
1 TGT-ATCAGCGAAGCTCCCTCGTAAGCTTATGTGATAAGTTG
* * * *
62472824 TGTATCAACGAAGCTCCCTACGTAAGCTTAAGTGACAAATTG
1 TGTATCAGCGAAGCTCCCT-CGTAAGCTTATGTGATAAGTTG
*
62472866 TGTATCAGTGAAGC
1 TGTATCAGCGAAGC
62472880 ACAAGCCAGT
Statistics
Matches: 111, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
40 27 0.24
41 44 0.40
42 40 0.36
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (41 bp):
TGTATCAGCGAAGCTCCCTCGTAAGCTTATGTGATAAGTTG
Found at i:62472873 original size:82 final size:82
Alignment explanation
Indices: 62472701--62472873 Score: 213
Period size: 82 Copynumber: 2.1 Consensus size: 82
62472691 TTACAAGCTA
* * * * * *
62472701 TGTATCAGCAAAGCTCCCCTCGTAAGCTTATGGATAAGTTGTGTATCAGCGAAGCTCCCCCATGA
1 TGTATCAGCAAAGCTCCCCTCGTAAGATTATAGATAAGCTGTGTATCAACGAAGCTCCCACATAA
* * *
62472766 GCTTATGTGATAAGTTG
66 GCTTAAGTGACAAATTG
* * *
62472783 TGTGATCAGCAAAGCT-CCCTTGTGAGATTATAGATAAGCTGTGTATCAACGAAGCTCCCTACGT
1 TGT-ATCAGCAAAGCTCCCCTCGTAAGATTATAGATAAGCTGTGTATCAACGAAGCTCCC-ACAT
62472847 AAGCTTAAGTGACAAATTG
64 AAGCTTAAGTGACAAATTG
62472866 TGTATCAG
1 TGTATCAG
62472874 TGAAGCACAA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
82 45 0.58
83 32 0.42
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (82 bp):
TGTATCAGCAAAGCTCCCCTCGTAAGATTATAGATAAGCTGTGTATCAACGAAGCTCCCACATAA
GCTTAAGTGACAAATTG
Found at i:62475208 original size:71 final size:71
Alignment explanation
Indices: 62475088--62475234 Score: 224
Period size: 71 Copynumber: 2.1 Consensus size: 71
62475078 GGAAATTTTG
* * *
62475088 AAAA-TGTTAATAGGAAGTGATATTCATCAAATTGGATGTTGTAATGAAATTGAGACTGATAAAT
1 AAAATTGTTAATAGGAAGTCATATGCATCAAATTGGATGTTGTAATGAAATTGAGACTAATAAAT
**
62475152 TGAAAT
66 CAAAAT
* *
62475158 AAAATTGTTAATAGGAAGTCATATGCCTCAAATTTGATGTTGTAATGAAATTGAGACTAATAAAT
1 AAAATTGTTAATAGGAAGTCATATGCATCAAATTGGATGTTGTAATGAAATTGAGACTAATAAAT
62475223 CAAAAT
66 CAAAAT
62475229 AAAATT
1 AAAATT
62475235 ACTGCATAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 4 0.06
71 65 0.94
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (71 bp):
AAAATTGTTAATAGGAAGTCATATGCATCAAATTGGATGTTGTAATGAAATTGAGACTAATAAAT
CAAAAT
Found at i:62480759 original size:13 final size:13
Alignment explanation
Indices: 62480741--62480767 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62480731 ATTACTTATC
62480741 ATTTCTGATCGAG
1 ATTTCTGATCGAG
62480754 ATTTCTGATCGAG
1 ATTTCTGATCGAG
62480767 A
1 A
62480768 CCTGAGATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (13 bp):
ATTTCTGATCGAG
Found at i:62482961 original size:46 final size:46
Alignment explanation
Indices: 62482908--62483075 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
62482898 TATTTGGGCA
62482908 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
62482954 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * * **
62483001 TACGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
62483047 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
62483076 GCTTGTGGGC
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 57 0.58
47 30 0.31
48 2 0.02
50 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62483063 original size:93 final size:93
Alignment explanation
Indices: 62482904--62483076 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
62482894 GGGATATTTG
* * * *
62482904 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATACGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
62482969 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
62482997 GGCATACGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAATGCCCGAGCTCGTTGAG
1 GGCATACGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
62483062 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
62483077 CTTGTGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATACGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62488481 original size:46 final size:46
Alignment explanation
Indices: 62488428--62488603 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
62488418 TATTTGGGCA
62488428 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
62488474 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * *
62488521 TCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
62488567 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62488604 GCAGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62488583 original size:93 final size:93
Alignment explanation
Indices: 62488424--62488596 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
62488414 GGGATATTTG
* * *
62488424 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
62488489 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
62488517 GGCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
62488582 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
62488597 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62489038 original size:15 final size:15
Alignment explanation
Indices: 62489018--62489049 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62489008 CACACTCACA
62489018 CTATCCGTATACCAT
1 CTATCCGTATACCAT
62489033 CTATCCGTATACCAT
1 CTATCCGTATACCAT
62489048 CT
1 CT
62489050 TGGCATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.34, G:0.06, T:0.34
Consensus pattern (15 bp):
CTATCCGTATACCAT
Found at i:62492465 original size:43 final size:42
Alignment explanation
Indices: 62492349--62492465 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
62492339 GATTTGTGAC
* *
62492349 TTACGTGTAAGACCAAGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCAAGTCTGGGACATTGGCACCGAATATGA
* * * * * *
62492391 TTTCGTGTAAAATCC-TGTCTGGGATAGTGGCACCGAAATTTGA
1 TTACGTGTAAGA-CCAAGTCTGGGACATTGGCACCG-AATATGA
* *
62492434 TTACATGTAAGACCACGTCTGGGACATTGGCA
1 TTACGTGTAAGACCAAGTCTGGGACATTGGCA
62492466 TTGTACAAGC
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
42 28 0.48
43 30 0.52
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TTACGTGTAAGACCAAGTCTGGGACATTGGCACCGAATATGA
Found at i:62501202 original size:41 final size:40
Alignment explanation
Indices: 62501140--62501386 Score: 228
Period size: 41 Copynumber: 6.1 Consensus size: 40
62501130 AGAATATTGT
* *
62501140 TGAATTGCACATACATCCCTCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACATGCC-CTGTTTGTACTTCGGTACCCC
* * *
62501181 TGAATTGCACCTACGTGCCTCTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACATGCC-CTGTTTGTACTTCGGTACCCC
* *
62501222 TGAATTG--CATACATGCCCTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACATGCCCTGTTTGTACTTCGGTACCCC
* ** * ** *
62501260 TTAATAACTCATATGTGCCCTTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACATGCCC-TGTTTGTACTTCGGTACCCC
* * * *
62501301 TGAATTGTACGTACATGACCCTATTTGTACTTCAGTACCCC
1 TGAATTGCACATACATG-CCCTGTTTGTACTTCGGTACCCC
* ** * *
62501342 TGAATTGCACGTATGTGCTCCTGTTTGGACTTCGGTGCCCC
1 TGAATTGCACATACATGC-CCTGTTTGTACTTCGGTACCCC
62501383 TGAA
1 TGAA
62501387 AGCACTTGTG
Statistics
Matches: 165, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
38 22 0.13
39 8 0.05
40 10 0.06
41 122 0.74
42 3 0.02
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (40 bp):
TGAATTGCACATACATGCCCTGTTTGTACTTCGGTACCCC
Found at i:62503356 original size:20 final size:20
Alignment explanation
Indices: 62503331--62503374 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
62503321 CCATAAGCTT
62503331 CCAAAATTTCTAACAAAATG
1 CCAAAATTTCTAACAAAATG
62503351 CCAAAATTTCTAACAAAATG
1 CCAAAATTTCTAACAAAATG
62503371 CCAA
1 CCAA
62503375 GTTCTCTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.23
Consensus pattern (20 bp):
CCAAAATTTCTAACAAAATG
Found at i:62503427 original size:19 final size:19
Alignment explanation
Indices: 62503400--62503436 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62503390 TTAAAGTTTT
62503400 TAACAAATACCAAAATTTC
1 TAACAAATACCAAAATTTC
* *
62503419 TAACTAATACCGAAATTT
1 TAACAAATACCAAAATTT
62503437 TCATGAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.30
Consensus pattern (19 bp):
TAACAAATACCAAAATTTC
Found at i:62505164 original size:20 final size:20
Alignment explanation
Indices: 62505135--62505173 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62505125 CAGATATAAA
*
62505135 AATTTGTAACCAAATACCAT
1 AATTTCTAACCAAATACCAT
62505155 AATTTCTAACCAAATACCA
1 AATTTCTAACCAAATACCA
62505174 AAATCTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
AATTTCTAACCAAATACCAT
Found at i:62505182 original size:20 final size:20
Alignment explanation
Indices: 62505141--62505182 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
62505131 TAAAAATTTG
* *
62505141 TAACCAAATACCATAATTTC
1 TAACCAAATACCAAAATCTC
62505161 TAACCAAATACCAAAATCTC
1 TAACCAAATACCAAAATCTC
62505181 TA
1 TA
62505183 TAACAACTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (20 bp):
TAACCAAATACCAAAATCTC
Found at i:62505520 original size:15 final size:15
Alignment explanation
Indices: 62505474--62505521 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
62505464 TGGTTAATTA
*
62505474 TAATTAATTTTTAAT
1 TAATTAAATTTTAAT
* * *
62505489 TAAATAAATTATGAT
1 TAATTAAATTTTAAT
*
62505504 TAATTAAGTTTTAAT
1 TAATTAAATTTTAAT
62505519 TAA
1 TAA
62505522 AAGTATATAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
TAATTAAATTTTAAT
Found at i:62508104 original size:21 final size:21
Alignment explanation
Indices: 62508071--62508116 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
62508061 TATACCAATG
*
62508071 AATTTGACATCAATTTAATAC
1 AATTTGACATCAATTCAATAC
*
62508092 AATTT-ACATTCAATTCAATCC
1 AATTTGACA-TCAATTCAATAC
62508113 AATT
1 AATT
62508117 CATATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTGACATCAATTCAATAC
Found at i:62509610 original size:30 final size:30
Alignment explanation
Indices: 62509561--62509630 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
62509551 GTAATCTCGA
* * *
62509561 TATAATGCCAGCTTGTGTGAGCAAATCTAT
1 TATAATGTCAACTTGTGTGAACAAATCTAT
* * * *
62509591 TATAATGTCAACTTTTGTGAATAATTTTAT
1 TATAATGTCAACTTGTGTGAACAAATCTAT
62509621 TATAATGTCA
1 TATAATGTCA
62509631 GCATTCTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (30 bp):
TATAATGTCAACTTGTGTGAACAAATCTAT
Found at i:62509701 original size:79 final size:79
Alignment explanation
Indices: 62509561--62509711 Score: 230
Period size: 79 Copynumber: 1.9 Consensus size: 79
62509551 GTAATCTCGA
* * * * *
62509561 TATAATGCCAGCTTGTGTGAGCAAATCTATTATAATGTCAACTTTTGTGAATAATTTTATTATAA
1 TATAATGCCAGCTTGTGTAAGCAAATCAATTATAATGTCAACTTGTGTGAACAATTCTATTATAA
62509626 TGTCAGCATTCTAT
66 TGTCAGCATTCTAT
* * *
62509640 TATAATGTCAGCTTGTGTAAGCAAATCAATTATAATGTTAACTTGTGTGAGCAATTCTATTATAA
1 TATAATGCCAGCTTGTGTAAGCAAATCAATTATAATGTCAACTTGTGTGAACAATTCTATTATAA
62509705 TGTCAGC
66 TGTCAGC
62509712 TTGTGTGAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (79 bp):
TATAATGCCAGCTTGTGTAAGCAAATCAATTATAATGTCAACTTGTGTGAACAATTCTATTATAA
TGTCAGCATTCTAT
Found at i:62509718 original size:30 final size:30
Alignment explanation
Indices: 62509633--62509753 Score: 138
Period size: 30 Copynumber: 4.1 Consensus size: 30
62509623 TAATGTCAGC
*
62509633 ATTCTATTATAATGTCAGCTTGTGTAAGCA
1 ATTCTATTATAATGTCAGCTTGTGTGAGCA
* * * *
62509663 AATCAATTATAATGTTAACTTGTGTGAGCA
1 ATTCTATTATAATGTCAGCTTGTGTGAGCA
62509693 ATTCTATTATAATGTCAGCTTGTGTGAG-A
1 ATTCTATTATAATGTCAGCTTGTGTGAGCA
* * * *
62509722 A-CCTTATCATAAAGTTAGCTTGTGTGAGCA
1 ATTC-TATTATAATGTCAGCTTGTGTGAGCA
62509752 AT
1 AT
62509754 ATAATCACAC
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
28 1 0.01
29 23 0.31
30 51 0.68
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (30 bp):
ATTCTATTATAATGTCAGCTTGTGTGAGCA
Found at i:62514266 original size:19 final size:19
Alignment explanation
Indices: 62514238--62514305 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
62514228 ACATATTCCA
62514238 TTAGAAATTTAGGTATTCG
1 TTAGAAATTTAGGTATTCG
* * *
62514257 TTAGAGATTTTGGTATTCA
1 TTAGAAATTTAGGTATTCG
62514276 TTAAGAAATTTTA-GTATTCG
1 TT-AGAAA-TTTAGGTATTCG
62514296 TTAGGAAATT
1 TTA-GAAATT
62514306 AAAAAATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 21 0.52
20 16 0.40
21 3 0.08
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.44
Consensus pattern (19 bp):
TTAGAAATTTAGGTATTCG
Found at i:62514292 original size:20 final size:19
Alignment explanation
Indices: 62514231--62514305 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
62514221 ACATCTAACA
62514231 TATTCCATTAGAAA-TTTAGG
1 TATT-CATTAGAAATTTTA-G
* * *
62514251 TATTCGTTAGAGATTTTGG
1 TATTCATTAGAAATTTTAG
62514270 TATTCATTAAGAAATTTTAG
1 TATTCATT-AGAAATTTTAG
*
62514290 TATTCGTTAGGAAATT
1 TATTCATTA-GAAATT
62514306 AAAAAATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (19 bp):
TATTCATTAGAAATTTTAG
Found at i:62517771 original size:21 final size:21
Alignment explanation
Indices: 62517747--62517787 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
62517737 TCAAATTTGG
62517747 TTCTAAAATCATTTTATTTCA
1 TTCTAAAATCATTTTATTTCA
62517768 TTCTAAAATCATTTTATTTC
1 TTCTAAAATCATTTTATTTC
62517788 TTCGCTCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.54
Consensus pattern (21 bp):
TTCTAAAATCATTTTATTTCA
Found at i:62526886 original size:21 final size:22
Alignment explanation
Indices: 62526848--62526890 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
62526838 AAAAACTAAA
*
62526848 AAAAAGAGAGGGAAGAAAAATT
1 AAAAAGAGAGAGAAGAAAAATT
*
62526870 AAAAAGAG-GAGATGAAAAATT
1 AAAAAGAGAGAGAAGAAAAATT
62526891 TTTTCAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.12
Consensus pattern (22 bp):
AAAAAGAGAGAGAAGAAAAATT
Found at i:62526935 original size:14 final size:14
Alignment explanation
Indices: 62526916--62526946 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62526906 TAGGTTTAAA
62526916 AAATTTAATTAATT
1 AAATTTAATTAATT
*
62526930 AAATTTATTTAATT
1 AAATTTAATTAATT
62526944 AAA
1 AAA
62526947 AATCTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:62527922 original size:13 final size:13
Alignment explanation
Indices: 62527872--62527923 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
62527862 TAAAATTATG
62527872 TAGTGATAATATT
1 TAGTGATAATATT
*
62527885 TTGTGATAATATT
1 TAGTGATAATATT
*
62527898 TA--GA-ATTATT
1 TAGTGATAATATT
62527908 TAGTGATAATATT
1 TAGTGATAATATT
62527921 TAG
1 TAG
62527924 GAAAAATCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 7 0.22
11 2 0.06
12 2 0.06
13 21 0.66
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TAGTGATAATATT
Found at i:62543209 original size:47 final size:47
Alignment explanation
Indices: 62543143--62543669 Score: 820
Period size: 47 Copynumber: 11.1 Consensus size: 47
62543133 GAAATGATAG
*
62543143 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62543190 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
62543239 TAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62543286 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62543333 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62543380 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
62543429 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
62543476 TAGGGCCTAAAGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
62543525 TAGGGCCTAAAGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62543572 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
62543619 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62543666 TAAG
1 TAAG
62543670 TCCCGAAGGG
Statistics
Matches: 447, Mismatches: 27, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
47 310 0.69
49 137 0.31
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:62543307 original size:96 final size:96
Alignment explanation
Indices: 62543143--62543669 Score: 855
Period size: 96 Copynumber: 5.5 Consensus size: 96
62543133 GAAATGATAG
*
62543143 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
62543208 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* *
62543239 TAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
62543304 GTGATGAATGTGAAAGTG--TATATATGAGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
62543333 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
62543398 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * *
62543429 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAAAGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
62543494 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* *
62543525 TAGGGCCTAAAGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
62543590 GTGATGAATGTGAAA--GTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
62543619 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62543670 TCCCGAAGGG
Statistics
Matches: 406, Mismatches: 23, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
94 149 0.37
96 257 0.63
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:62543422 original size:143 final size:143
Alignment explanation
Indices: 62543143--62543669 Score: 819
Period size: 143 Copynumber: 3.7 Consensus size: 143
62543133 GAAATGATAG
* *
62543143 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
*
62543208 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
62543273 TGTATATA-CGTGA
130 TGTATATATAGTGA
* *
62543286 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
*
62543351 GTGATGAATGTGAAAGTG-TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
62543415 GTATATATATGTGA
131 GTATATATA-GTGA
* * *
62543429 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCTAAAGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
* *
62543494 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAAAGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
62543559 TGTATATAT-GTGA
130 TGTATATATAGTGA
* * * * * *
62543572 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
* *
62543637 GTGATGGATGTGAAAGTG-TATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGATATATATGTGATAAG
62543670 TCCCGAAGGG
Statistics
Matches: 357, Mismatches: 23, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
141 64 0.18
143 242 0.68
145 51 0.14
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATAGTGA
Found at i:62543844 original size:37 final size:37
Alignment explanation
Indices: 62543788--62543866 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62543778 CCGAGCTCTA
* * *
62543788 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62543825 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62543862 AAGAC
1 AAGAC
62543867 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62548085 original size:14 final size:14
Alignment explanation
Indices: 62548068--62548100 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
62548058 ATGTTTTAAA
62548068 GTTAATGATCAAAC
1 GTTAATGATCAAAC
*
62548082 GTTAATGATCAAAG
1 GTTAATGATCAAAC
62548096 GTTAA
1 GTTAA
62548101 AACCCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.30
Consensus pattern (14 bp):
GTTAATGATCAAAC
Found at i:62549799 original size:23 final size:23
Alignment explanation
Indices: 62549773--62549817 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62549763 GTAGTGATAA
*
62549773 TATTTAATGATGATATTAAGAAT
1 TATTTAATGATAATATTAAGAAT
* *
62549796 TATTTAGTGATAATATTTAGAA
1 TATTTAATGATAATATTAAGAA
62549818 AAAATCTAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (23 bp):
TATTTAATGATAATATTAAGAAT
Found at i:62550566 original size:50 final size:49
Alignment explanation
Indices: 62550507--62550608 Score: 168
Period size: 50 Copynumber: 2.1 Consensus size: 49
62550497 ACCAGGATTG
* *
62550507 ACTACATAAGGAAAAGTTGGCGGTCGGGACGTTCTTGGTCGCTATAACCA
1 ACTACATAAGGAAAAGTTGACGGTCAGGACGTTCTTGG-CGCTATAACCA
*
62550557 ACTACATAAGTAAAAGTTGACGGTCAGGACGTTCTTGGCGCTATAACCA
1 ACTACATAAGGAAAAGTTGACGGTCAGGACGTTCTTGGCGCTATAACCA
62550606 ACT
1 ACT
62550609 TATTGCTTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 14 0.29
50 35 0.71
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (49 bp):
ACTACATAAGGAAAAGTTGACGGTCAGGACGTTCTTGGCGCTATAACCA
Found at i:62553065 original size:50 final size:49
Alignment explanation
Indices: 62553000--62553133 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 49
62552990 TACATGATGT
62553000 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGATACGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGA-ACGTGAGA
* * * **
62553050 GTCAGTGTAAAACCATGTTTGGGACATGGCATC-G-ACTTAACGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAACGTGAGA
* *
62553097 GCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
62553134 TTATACCCTA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 36 0.50
48 4 0.06
49 2 0.03
50 30 0.42
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAACGTGAGA
Found at i:62558807 original size:64 final size:64
Alignment explanation
Indices: 62558733--62558856 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
62558723 GTATAATAAA
* * *
62558733 TACATGACCAATGACCTTTCATACTATATTGATAACATAAATTATTTCCACTCCTTAAAAGGTT
1 TACACGACCAATAACCTTTCATACTACATTGATAACATAAATTATTTCCACTCCTTAAAAGGTT
62558797 TACACGACCAATAACCTTTCATACTACATTGATAACATAAATTATTTCCACTCCTTAAAA
1 TACACGACCAATAACCTTTCATACTACATTGATAACATAAATTATTTCCACTCCTTAAAA
62558857 ATGATTCCTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (64 bp):
TACACGACCAATAACCTTTCATACTACATTGATAACATAAATTATTTCCACTCCTTAAAAGGTT
Found at i:62562162 original size:2 final size:2
Alignment explanation
Indices: 62562155--62562183 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62562145 TAGTTAAGTT
62562155 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62562184 GGGTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62563425 original size:28 final size:27
Alignment explanation
Indices: 62563360--62563426 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
62563350 CCTGGCCTGA
* **
62563360 ATATA-TTATGTGTTAAAAATAATTTT
1 ATATATTTATATGTTAAAAATAATGAT
62563386 AT-TAATTATATATGTTAAATAATAATGAT
1 ATAT-ATT-TATATGTTAAA-AATAATGAT
62563415 ATATATTTATAT
1 ATATATTTATAT
62563427 TTATATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 1 0.03
28 15 0.45
29 12 0.36
30 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (27 bp):
ATATATTTATATGTTAAAAATAATGAT
Found at i:62565715 original size:30 final size:30
Alignment explanation
Indices: 62565679--62565770 Score: 130
Period size: 30 Copynumber: 3.1 Consensus size: 30
62565669 GACGCGGGCT
62565679 CATCAACAGCGCCCACACAATCACCGAGCC
1 CATCAACAGCGCCCACACAATCACCGAGCC
* * *
62565709 CATCAACAGCGCTCATACAATCACCAAGCC
1 CATCAACAGCGCCCACACAATCACCGAGCC
* * *
62565739 CATCAACAGCACCCACACAGTCACCGGGCC
1 CATCAACAGCGCCCACACAATCACCGAGCC
62565769 CA
1 CA
62565771 ACACTTCAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.34, C:0.45, G:0.13, T:0.09
Consensus pattern (30 bp):
CATCAACAGCGCCCACACAATCACCGAGCC
Found at i:62565849 original size:18 final size:18
Alignment explanation
Indices: 62565826--62565861 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
62565816 CCAGGTGAGC
*
62565826 ATCCTAGCCCTTTTATGT
1 ATCCTAACCCTTTTATGT
62565844 ATCCTAACCCTTTTATGT
1 ATCCTAACCCTTTTATGT
62565862 TTTTTTCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.08, T:0.44
Consensus pattern (18 bp):
ATCCTAACCCTTTTATGT
Found at i:62566130 original size:21 final size:21
Alignment explanation
Indices: 62566106--62566167 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
62566096 CAACACCCAC
62566106 AACCA-AATCCCCTGCCGGAGG
1 AACCATAAT-CCCTGCCGGAGG
62566127 AACCATAATCCCTGCCGGAGG
1 AACCATAATCCCTGCCGGAGG
62566148 AACCATAATCCCTGCCGGAG
1 AACCATAATCCCTGCCGGAG
62566168 CAATCACAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 37 0.93
22 3 0.08
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (21 bp):
AACCATAATCCCTGCCGGAGG
Found at i:62568268 original size:39 final size:39
Alignment explanation
Indices: 62568082--62568260 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 39
62568072 GAATGATTGT
* * * *
62568082 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATC
* * *
62568122 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATC
*
62568162 CGGGCTAAG-CCGAAGGCATTTGTGCGATTTACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
*
62568200 CGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
62568239 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGT-CCGAAGGCATT
62568261 GAACGAGTAG
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 34 0.29
39 33 0.28
40 44 0.37
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:62568283 original size:77 final size:77
Alignment explanation
Indices: 62568117--62568284 Score: 182
Period size: 77 Copynumber: 2.2 Consensus size: 77
62568107 CTAAGTGACC
* *
62568117 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCGAAGGCATT
1 ATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCGAAGGCATT
** *
62568182 TGTGCGATTTACT
65 TGAACGATGTACT
* * *
62568195 AAATCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGC
1 ATATCC-GGTTAAGATCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG--CCGAAGGC
62568258 A-TTGAACGA-GTAGCT
62 ATTTGAACGATGTA-CT
62568273 ATATCCGGTTAA
1 ATATCCGGTTAA
62568285 ATTCAAAGGT
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
76 2 0.03
77 41 0.54
78 22 0.29
79 11 0.14
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (77 bp):
ATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCGAAGGCATTT
GAACGATGTACT
Found at i:62576128 original size:79 final size:81
Alignment explanation
Indices: 62575992--62576176 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
62575982 TTGAATGATG
*
62575992 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
62576056 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
62576071 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
62576133 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
62576151 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62576177 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:62576190 original size:40 final size:40
Alignment explanation
Indices: 62575993--62576176 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
62575983 TGAATGATGT
* * * *
62575993 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
62576033 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
62576073 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
62576111 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
62576152 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
62576177 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:62576198 original size:79 final size:79
Alignment explanation
Indices: 62576045--62576209 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
62576035 GGACTAAGAT
* **
62576045 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
62576110 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
62576124 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
62576187 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
62576203 CCGAAGG
1 CCGAAGG
62576210 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:62579517 original size:3 final size:3
Alignment explanation
Indices: 62579509--62579543 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
62579499 AGATATATAA
*
62579509 ATT ATT ATT ATT GTT ATT ATT AATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT A
62579544 AATTAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:62579519 original size:22 final size:22
Alignment explanation
Indices: 62579494--62579541 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
62579484 TCTAAGATTT
62579494 TTATAAGATA-TATAAATTATTA
1 TTAT-AGATATTATAAATTATTA
* * *
62579516 TTATTGTTATTATTAATTATTA
1 TTATAGATATTATAAATTATTA
62579538 TTAT
1 TTAT
62579542 TAAATTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TTATAGATATTATAAATTATTA
Found at i:62579867 original size:8 final size:8
Alignment explanation
Indices: 62579851--62579884 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
62579841 GATAATTATA
*
62579851 TATTCAAT
1 TATTAAAT
62579859 TATTAAAT
1 TATTAAAT
62579867 TATTAAAT
1 TATTAAAT
62579875 TATTAAAT
1 TATTAAAT
62579883 TA
1 TA
62579885 ATAATAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (8 bp):
TATTAAAT
Found at i:62579933 original size:19 final size:17
Alignment explanation
Indices: 62579909--62579945 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
62579899 TAGTTAAATG
62579909 ATAAAATAATACAAAGAAA
1 ATAAAAT-ATA-AAAGAAA
62579928 ATAAAATATAAAAGAAA
1 ATAAAATATAAAAGAAA
62579945 A
1 A
62579946 ACAAAGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
ATAAAATATAAAAGAAA
Found at i:62584557 original size:39 final size:39
Alignment explanation
Indices: 62584292--62584545 Score: 400
Period size: 39 Copynumber: 6.5 Consensus size: 39
62584282 ACAAAGCATG
* *
62584292 CGGGACTTTAAGCCTGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
62584333 CGGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
62584372 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
62584411 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
62584450 CGGGACTTAGCCTGGATATAATACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
62584489 CAGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
62584528 CGGGACTTAGCCCGGATA
1 CGGGACTTAGCCCGGATA
62584546 CTTTTCCAGC
Statistics
Matches: 200, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 192 0.96
40 2 0.01
41 6 0.03
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:62584583 original size:39 final size:39
Alignment explanation
Indices: 62584539--62584670 Score: 187
Period size: 39 Copynumber: 3.4 Consensus size: 39
62584529 GGGACTTAGC
* *
62584539 CCGGATACT-TTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATA-TATTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
62584578 TCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
62584617 CCGGATATATTTCCAACATAAAGCCTGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
*
62584656 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
62584671 ATACCATGCA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
38 2 0.02
39 83 0.98
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:62584671 original size:39 final size:39
Alignment explanation
Indices: 62584560--62584671 Score: 188
Period size: 39 Copynumber: 2.9 Consensus size: 39
62584550 TCCAGCACTT
* * *
62584560 AGCCTGCGGACTTTAAGTTCGGATATATTTCCAGCATAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAACATAA
62584599 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAACATAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAACATAA
*
62584638 AGCCTGCGGACTTCAAGTCCGGATATTTTTCCAA
1 AGCCTGCGGACTTCAAGTCCGGATATATTTCCAA
62584672 TACCATGCAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (39 bp):
AGCCTGCGGACTTCAAGTCCGGATATATTTCCAACATAA
Found at i:62587300 original size:126 final size:126
Alignment explanation
Indices: 62587076--62587578 Score: 706
Period size: 126 Copynumber: 4.0 Consensus size: 126
62587066 GCCAAATAGG
*
62587076 AACTACTGTAGAAAAAGAGCATCCACGTGAGAGC-TTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * *
62587140 TACTTGAAGCATTTTTTACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTTTTAGA
66 TACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* ** *
62587201 AACTACTGTAGAAAAATAGTGTCCACATGAGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCC
1 AACTACTGTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
62587266 TGCTTAAAGCATTTTTGACACTATTTGTTTAGAAATATCTTCTCAAAATTATTTTTTCAGA
66 TACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * *
62587327 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCT
1 AACTACTGTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
62587392 TACTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAGATTATTTTTTCAAA
66 TACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * * * * *
62587453 AACTATTGTAGAAAAAAAGCATCCA-AGTGGGAGCTTTTTTTAGTACTTTTGCTGATAGTTCATT
1 AACTACTGTAGAAAAAGAGCATCCACA-TGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
* *
62587517 C-AGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
65 CTA-CTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
62587579 TACGTCTTCT
Statistics
Matches: 332, Mismatches: 43, Indels: 5
0.87 0.11 0.01
Matches are distributed among these distances:
125 31 0.09
126 301 0.91
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TACTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:62587530 original size:252 final size:251
Alignment explanation
Indices: 62587076--62587578 Score: 783
Period size: 252 Copynumber: 2.0 Consensus size: 251
62587066 GCCAAATAGG
*
62587076 AACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTCAGTACTTTTGCTGACAGTGCATCCT
1 AACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTCAATACTTTTGCTGACAGTGCATCCT
* * * *
62587141 ACTTGAAGCATTTTTTACACTATTTGTTCAGAAACATATTCTCAAAATTATTTTTTTAGAAACTA
66 ACTTGAAGCATTTTTGACACTATTTATTCAGAAACATATTCTCAAAATTATTTTTTCAAAAACTA
* ** *
62587206 CTGTAGAAAAATAGTGTCCACATGAGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCCTGCTT
131 CTGTAGAAAAAAAGCATCCACATGAGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCCAGCTT
* *
62587271 AAAGCATTTTTGACACTATTTGTTTAGAAATATCTTCTCAAAATTATTTTTTCAGA
196 AAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
* *
62587327 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAGTGCATCT
1 AACTACTGTAGAAAAAGAGCATCCACGTGAGAGC-TTTTTCAATACTTTTGCTGACAGTGCATCC
* * *
62587392 TACTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAGATTATTTTTTCAAAAACT
65 TACTTGAAGCATTTTTGACACTATTTATTCAGAAACATATTCTCAAAATTATTTTTTCAAAAACT
* * * * *
62587457 ATTGTAGAAAAAAAGCATCCA-AGTGGGAGCTTTTTTTAGTACTTTTGCTGATAGTTCATTCAGC
130 ACTGTAGAAAAAAAGCATCCACA-TGAGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCCAGC
*
62587521 TTGAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
194 TTAAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
62587579 TACGTCTTCT
Statistics
Matches: 228, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
251 34 0.15
252 194 0.85
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (251 bp):
AACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTCAATACTTTTGCTGACAGTGCATCCT
ACTTGAAGCATTTTTGACACTATTTATTCAGAAACATATTCTCAAAATTATTTTTTCAAAAACTA
CTGTAGAAAAAAAGCATCCACATGAGAGCTTTTTTCAGTACTTTTGCTGACAGTTCATCCAGCTT
AAAGCATTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATCATTTTTTCAGA
Found at i:62587608 original size:27 final size:28
Alignment explanation
Indices: 62587568--62587633 Score: 125
Period size: 27 Copynumber: 2.4 Consensus size: 28
62587558 TCTCAAAATC
62587568 ATTTTTTCAGATACGTCTTCTCTAATTT
1 ATTTTTTCAGATACGTCTTCTCTAATTT
62587596 ATTTTTT-AGATACGTCTTCTCTAATTT
1 ATTTTTTCAGATACGTCTTCTCTAATTT
62587623 ATTTTTTCAGA
1 ATTTTTTCAGA
62587634 AACTATTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 27 0.73
28 10 0.27
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.55
Consensus pattern (28 bp):
ATTTTTTCAGATACGTCTTCTCTAATTT
Found at i:62587788 original size:51 final size:51
Alignment explanation
Indices: 62587712--62587810 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 51
62587702 AAATTAATCC
* *
62587712 ATAATTTAATTAATTAACCCTAAACCTTAATCTAATTTATTTT-TTAAATTA
1 ATAATTTAATTAATTAACCCAAAACCCTAAT-TAATTTATTTTCTTAAATTA
* * *
62587763 ATAA-TTAATTTAATTAACTCAAAACCCTAATTTATTTTTTTTCTTAAA
1 ATAATTTAA-TTAATTAACCCAAAACCCTAATTAATTTATTTTCTTAAA
62587811 AATTCTAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 13 0.32
51 28 0.68
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (51 bp):
ATAATTTAATTAATTAACCCAAAACCCTAATTAATTTATTTTCTTAAATTA
Found at i:62596901 original size:22 final size:22
Alignment explanation
Indices: 62596875--62596919 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
62596865 TCATTTTCTG
62596875 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
62596897 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
62596919 T
1 T
62596920 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:62600670 original size:22 final size:22
Alignment explanation
Indices: 62600642--62600686 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
62600632 AGGGGGAGTG
62600642 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
62600664 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
62600686 T
1 T
62600687 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:62612553 original size:126 final size:126
Alignment explanation
Indices: 62612328--62612972 Score: 802
Period size: 126 Copynumber: 5.2 Consensus size: 126
62612318 TAAGGCCAAG
* * * *
62612328 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTCTTCAGTAATTTTGCTGACAATGA
1 CAGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * *
62612393 ATCTTGTTTAAAACGTTTTTGACACTATTTTTTCAGAA-TCGTCTTCTCAAAAGTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACT-GTCTTCTCAAAATTATTTTTT
* * * *
62612454 CAGGAACTATTGTAGAAAAAGAGCGTCCATGTGAGAGCTTTTTTCAGTAATTTTGCTGAAAGTCC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
62612519 ATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
* *
62612580 CAGGAACTACTGTAGAAAAA-AACGTCGATGTGGGAGCTTTTTTCTAGTAATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTC-AGTAATTTTGCTGACAGTG
* * * * *
62612644 CATCCTCCTTAAAGCGTTTTTTACATTATTTTTTCAGAACTGTTTTCTC-AAATTATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
* * * *
62612705 CAGGAACTACTGTAGAAAAAAAGCATCCATGTGAGAACTTTTTTCCAGTAATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTT-CAGTAATTTTGCTGACAGTG
* * ** *
62612770 CATCCTACTTGAAGCGTTTTTGACACTACTTTTTCAGAACCATTTTCTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
* * * * *
62612832 -AGGAACTATTGTAGAAAAAGAGCGTTCATATGGGAGCTTTTTTTAGTAA---T-CTGACAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * * *
62612892 ATCTTGCTTGAAGCGTTTTTAACATTATATTTTCAAAACTGTCTTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
* * *
62612953 CTGAAACTACTGTAAAAAAA
1 CAGGAACTACTGTAGAAAAA
62612973 ATAAAATTCT
Statistics
Matches: 451, Mismatches: 62, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
121 59 0.13
122 16 0.04
125 58 0.13
126 304 0.67
127 14 0.03
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
Found at i:62613098 original size:35 final size:34
Alignment explanation
Indices: 62613054--62613153 Score: 110
Period size: 35 Copynumber: 2.9 Consensus size: 34
62613044 TTAAACACAA
* *
62613054 AATTATTTTAAAAAAACTAAACCCTAATTTAATT
1 AATTTTTTTAAAAAAACTAAAACCTAATTTAATT
** *
62613088 AATTTTTTTTAAAAACTCTAAAAACTAATTTAATT
1 AA-TTTTTTTAAAAAAACTAAAACCTAATTTAATT
* ***
62613123 AATTTGTTTAAAACTCCTAAAACCTAATTTA
1 AATTTTTTTAAAAAAACTAAAACCTAATTTA
62613154 TTTTTTAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 26 0.47
35 29 0.53
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (34 bp):
AATTTTTTTAAAAAAACTAAAACCTAATTTAATT
Found at i:62613121 original size:31 final size:30
Alignment explanation
Indices: 62613083--62613190 Score: 101
Period size: 31 Copynumber: 3.4 Consensus size: 30
62613073 AACCCTAATT
* *
62613083 TAATTAATTTTTTTTAAAAACTCTAAAAAC
1 TAATTTATTTTTTTTAAAAACTCTAAAACC
62613113 TAATTTAATTAATTTGTTT-AAAACTCCTAAAACC
1 TAATTT-ATT--TTT-TTTAAAAACT-CTAAAACC
** * *
62613147 TAATTTATTTTTTAAAAAAAATTCTAAACCC
1 TAATTTATTTTTT-TTAAAAACTCTAAAACC
62613178 TAATTTATTTTTT
1 TAATTTATTTTTT
62613191 AAAAATTTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
30 6 0.09
31 26 0.40
32 5 0.08
33 12 0.18
34 16 0.25
ACGTcount: A:0.42, C:0.11, G:0.01, T:0.46
Consensus pattern (30 bp):
TAATTTATTTTTTTTAAAAACTCTAAAACC
Found at i:62613133 original size:34 final size:35
Alignment explanation
Indices: 62613077--62613153 Score: 113
Period size: 34 Copynumber: 2.2 Consensus size: 35
62613067 AAACTAAACC
*
62613077 CTAATTTAATTAATTTTTTTTAAAAACT-CTAAAAA
1 CTAATTTAATTAATTTTGTTT-AAAACTCCTAAAAA
*
62613112 CTAATTTAATTAA-TTTGTTTAAAACTCCTAAAAC
1 CTAATTTAATTAATTTTGTTTAAAACTCCTAAAAA
62613146 CTAATTTA
1 CTAATTTA
62613154 TTTTTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
33 6 0.15
34 20 0.51
35 13 0.33
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (35 bp):
CTAATTTAATTAATTTTGTTTAAAACTCCTAAAAA
Found at i:62613796 original size:27 final size:29
Alignment explanation
Indices: 62613740--62613807 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
62613730 GTAATTAATA
* *
62613740 ATTTTTTTCA-CTCAATTATTAATTTTTT
1 ATTTTTATCATCTCAATTATTAATTTCTT
*
62613768 ATTTTTATCATCT-AATTA-TAGTTTCTT
1 ATTTTTATCATCTCAATTATTAATTTCTT
62613795 ATTTTTTATCATC
1 A-TTTTTATCATC
62613808 CAACTAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.23
28 25 0.71
29 2 0.06
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (29 bp):
ATTTTTATCATCTCAATTATTAATTTCTT
Found at i:62615253 original size:15 final size:15
Alignment explanation
Indices: 62615204--62615254 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
62615194 AAGTGGAAAG
62615204 AAAATTGGAAGGATGA
1 AAAATT-GAAGGATGA
*
62615220 AAAATTGAGAGG-TAA
1 AAAATTGA-AGGATGA
62615235 AAAACTTGAAGGATGA
1 AAAA-TTGAAGGATGA
62615251 AAAA
1 AAAA
62615255 CATAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.55, C:0.02, G:0.25, T:0.18
Consensus pattern (15 bp):
AAAATTGAAGGATGA
Found at i:62616115 original size:19 final size:20
Alignment explanation
Indices: 62616075--62616118 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
62616065 GAAAACTTTC
62616075 TTTAAAGTTTTGTTAAAAGTT
1 TTTAAAGTTTTGTT-AAAGTT
*
62616096 TTTAAGGTTTTGTT-AAGTT
1 TTTAAAGTTTTGTTAAAGTT
62616115 TTTA
1 TTTA
62616119 TGAAAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (20 bp):
TTTAAAGTTTTGTTAAAGTT
Found at i:62618630 original size:27 final size:28
Alignment explanation
Indices: 62618546--62618615 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 28
62618536 GATTGAATCA
* *
62618546 AAATTAAAATTTCATGTATAT-ATTAGAACC
1 AAATCAAAGTTTCATGTATATAATT-G--CC
62618576 ACAATCAAAGTTTCATGTATATAATTGCC
1 A-AATCAAAGTTTCATGTATATAATTGCC
62618605 AAATCAAAGTT
1 AAATCAAAGTT
62618616 CTTGTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 10 0.28
29 3 0.08
30 1 0.03
31 19 0.53
32 3 0.08
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (28 bp):
AAATCAAAGTTTCATGTATATAATTGCC
Found at i:62624707 original size:11 final size:11
Alignment explanation
Indices: 62624691--62624719 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
62624681 TTTAATAGGA
62624691 TTTGTTTAATT
1 TTTGTTTAATT
62624702 TTTGTTTAATT
1 TTTGTTTAATT
62624713 TTTGTTT
1 TTTGTTT
62624720 CAAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (11 bp):
TTTGTTTAATT
Found at i:62624841 original size:79 final size:78
Alignment explanation
Indices: 62624710--62624907 Score: 283
Period size: 79 Copynumber: 2.5 Consensus size: 78
62624700 TTTTTGTTTA
* * * *
62624710 ATTTTTGTTTCAAACAAAAAATCAATTGAACAATTCTGTTTTAGGATTTTATTCTTGTCAATTTA
1 ATTTTTGTTTCAAATAGAAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTC-ATTTA
*
62624775 ACAGGATTTATTGG
65 ACAGGATTTATTCG
*
62624789 ATTTTTGTTTTAAATAGAAAATCAATTGAACAAATT-TGTTTCAGGATTTTATTCCTGTCATTTA
1 ATTTTTGTTTCAAATAGAAAATCAATTGAAC-AATTCTGTTTCAGGATTTTATTCCTGTCATTTA
*
62624853 ACAGGATTTGTTCG
65 ACAGGATTTATTCG
*
62624867 ATTTTTTGTTTCAAATAG-AAATCAATTGAATAATTCTGTTT
1 A-TTTTTGTTTCAAATAGAAAATCAATTGAACAATTCTGTTT
62624908 AAGAATTCTT
Statistics
Matches: 107, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
77 4 0.04
78 35 0.33
79 64 0.60
80 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (78 bp):
ATTTTTGTTTCAAATAGAAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCATTTAA
CAGGATTTATTCG
Found at i:62624948 original size:78 final size:77
Alignment explanation
Indices: 62624711--62624948 Score: 228
Period size: 78 Copynumber: 3.0 Consensus size: 77
62624701 TTTTGTTTAA
* * * * * *
62624711 TTTTTGTTTCAAACAAAAAATCAATTGAACAATTCTGTTTTAGGATTTTATTCTTGTCAATTTAA
1 TTTTTGTTTCAAA-TAGAAATCAATTGAAAAATTCTGTTTAAGGATTTTTTTC-TG-CCATTTAA
*
62624776 CAGGATTTATTGGA-
63 CAGGATTTATTCGAT
* * * *
62624790 TTTTTGTTTTAAATAGAAAATCAATTGAACAAATT-TGTTTCAGGATTTTATTCCTGTCATTTAA
1 TTTTTGTTTCAAATAG-AAATCAATTGAA-AAATTCTGTTTAAGGATTTT-TTTCTGCCATTTAA
*
62624854 CAGGATTTGTTCGAT
63 CAGGATTTATTCGAT
* * * *
62624869 TTTTTGTTTCAAATAGAAATCAATTGAATAATTCTGTTTAAGAATTCTTTTTCTGCCGTTCAACA
1 TTTTTGTTTCAAATAGAAATCAATTGAAAAATTCTGTTTAAGGATT-TTTTTCTGCCATTTAACA
** *
62624934 AAATTTATTTGAT
65 GGATTTATTCGAT
62624947 TT
1 TT
62624949 CTGTTGTTAC
Statistics
Matches: 130, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
77 4 0.03
78 64 0.49
79 56 0.43
80 6 0.05
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.46
Consensus pattern (77 bp):
TTTTTGTTTCAAATAGAAATCAATTGAAAAATTCTGTTTAAGGATTTTTTTCTGCCATTTAACAG
GATTTATTCGAT
Found at i:62626791 original size:22 final size:22
Alignment explanation
Indices: 62626762--62626828 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
62626752 GGCACTAATG
62626762 AACAGAGAGCACTAAGGTGCTA
1 AACAGAGAGCACTAAGGTGCTA
* * *
62626784 TACAGAGAGCACAAATGTGCTA
1 AACAGAGAGCACTAAGGTGCTA
** *
62626806 AATGGAAAGCACTAAGGTGCTA
1 AACAGAGAGCACTAAGGTGCTA
62626828 A
1 A
62626829 TATTCAGAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAGGTGCTA
Found at i:62638550 original size:118 final size:118
Alignment explanation
Indices: 62638342--62638590 Score: 320
Period size: 118 Copynumber: 2.1 Consensus size: 118
62638332 GACAGGTGAA
* ** * * * *
62638342 ACCGAGAGGATATCCTGTCGAACGTAACTTGTGCCAAGCGATGAGACAGAGAGGGTATCTGTATG
1 ACCGAGAGGGTATCCTGTCGAACACAACTTATGCCAAGCGATGAGACAAAAAGGGTATCTATATG
* * * * **
62638407 CCTAGGAAGAGACCGAAATGGTGGCTTAGGTGGTATTTTTTAGTGAAGATGAG
66 CCTAAGAAGAGACCGAAAGGGTGGCTTACGTGGTAATCCTTAGTGAAGATGAG
62638460 ACCGAGAGGGTATCCTGTCGAACACAACTTATGCCAAGCGATGAGACAAAAAGGGTAT-TCATAT
1 ACCGAGAGGGTATCCTGTCGAACACAACTTATGCCAAGCGATGAGACAAAAAGGGTATCT-ATAT
* * *
62638524 GCCTAAGAAGAGACCGAGAGGGTGGCTTACTTGGTAATCCTTAGTGAATATGAG
65 GCCTAAGAAGAGACCGAAAGGGTGGCTTACGTGGTAATCCTTAGTGAAGATGAG
* *
62638578 ACCAAGATGGTAT
1 ACCGAGAGGGTAT
62638591 TCTTAGCTAA
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
117 1 0.01
118 111 0.99
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (118 bp):
ACCGAGAGGGTATCCTGTCGAACACAACTTATGCCAAGCGATGAGACAAAAAGGGTATCTATATG
CCTAAGAAGAGACCGAAAGGGTGGCTTACGTGGTAATCCTTAGTGAAGATGAG
Found at i:62643146 original size:21 final size:20
Alignment explanation
Indices: 62643109--62643149 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
62643099 TATAAGGTTG
62643109 AATTGTATATGTGTGTGTTT
1 AATTGTATATGTGTGTGTTT
62643129 AATTGTAGTATGCT-TGTGTTT
1 AATTGTA-TATG-TGTGTGTTT
62643150 GAACGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 11 0.58
22 1 0.05
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (20 bp):
AATTGTATATGTGTGTGTTT
Found at i:62648430 original size:13 final size:13
Alignment explanation
Indices: 62648412--62648436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62648402 GTATTACAAA
62648412 TTTAAAACCCAAG
1 TTTAAAACCCAAG
62648425 TTTAAAACCCAA
1 TTTAAAACCCAA
62648437 TACACAGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (13 bp):
TTTAAAACCCAAG
Found at i:62651436 original size:29 final size:28
Alignment explanation
Indices: 62651392--62651452 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
62651382 CTATAACTGT
62651392 ATATATATTATATATAATAAAACCCACAC
1 ATATATATTATATATAATAAAA-CCACAC
* * *
62651421 ATATATATTATGTATATTAGAACCACAC
1 ATATATATTATATATAATAAAACCACAC
62651449 ATAT
1 ATAT
62651453 TTATGTACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (28 bp):
ATATATATTATATATAATAAAACCACAC
Found at i:62654798 original size:46 final size:48
Alignment explanation
Indices: 62654725--62654827 Score: 129
Period size: 46 Copynumber: 2.2 Consensus size: 48
62654715 GACATGACAG
* * * *
62654725 GACAGAAATGAGCCATATAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATATAAGCCCATATCATATATATATGGCATTGGA
* * *
62654771 GATAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATATAAGCCCATATCATATATATATGGCATTGGA
62654819 GACAGGAAT
1 GACAGGAAT
62654828 AATTCATGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 25 0.53
47 1 0.02
48 21 0.45
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATATAAGCCCATATCATATATATATGGCATTGGA
Found at i:62656811 original size:39 final size:40
Alignment explanation
Indices: 62656694--62656878 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
62656684 GCTACTCGTT
*
62656694 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
62656734 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
62656774 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
62656813 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
62656854 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62656879 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:62656862 original size:79 final size:81
Alignment explanation
Indices: 62656694--62656878 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
62656684 GCTACTCGTT
* *
62656694 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
62656758 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
62656775 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
62656837 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
62656854 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
62656879 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:62660041 original size:24 final size:24
Alignment explanation
Indices: 62660014--62660062 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
62660004 AGGTCCACCG
62660014 TTCAGCACAAGTTTACTAAAGGCT
1 TTCAGCACAAGTTTACTAAAGGCT
*
62660038 TTCAGTACAAGTTTACTAAAGGCT
1 TTCAGCACAAGTTTACTAAAGGCT
62660062 T
1 T
62660063 ACACAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (24 bp):
TTCAGCACAAGTTTACTAAAGGCT
Found at i:62663172 original size:29 final size:29
Alignment explanation
Indices: 62663139--62663368 Score: 216
Period size: 29 Copynumber: 8.0 Consensus size: 29
62663129 CATTACTGGC
* * *
62663139 GATCTCTGTTAAATGGAAGTCTTTATGGT
1 GATCTCTATTAAATGGAAGCCTTTATGGA
* * * **
62663168 TATCTATATTAAATGAAAG-AGTTAGTGGCA
1 GATCTCTATTAAATGGAAGCCTTTA-TGG-A
* * * *
62663198 -ATCTTTGTTAAATGGAAGCCTTTATAGT
1 GATCTCTATTAAATGGAAGCCTTTATGGA
* *
62663226 GATCTCTATTAAATAGAAGCC-TTGTGGA
1 GATCTCTATTAAATGGAAGCCTTTATGGA
*
62663254 GATCTCTATTAAATGGAAGCCTTCT-TAGA
1 GATCTCTATTAAATGGAAGCCTT-TATGGA
*
62663283 GATCTCTATTAAATGGAAGCCTTTGTGGA
1 GATCTCTATTAAATGGAAGCCTTTATGGA
* * *
62663312 GGTCTCTATTAAATGGAAGTCTTTATGGT
1 GATCTCTATTAAATGGAAGCCTTTATGGA
* *
62663341 GATCTCTATTAAATGGATGCCCTTATGG
1 GATCTCTATTAAATGGAAGCCTTTATGG
62663369 CTATCTTAAC
Statistics
Matches: 163, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
28 28 0.17
29 131 0.80
30 4 0.02
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (29 bp):
GATCTCTATTAAATGGAAGCCTTTATGGA
Done.