Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 21 of 38
Found at i:3223502 original size:25 final size:25
Alignment explanation
Indices: 3223463--3223527 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
3223453 TAAAAGGGAG
* * *
3223463 ATAATTTGTTGAGGGAGAGTATTAA
1 ATAATTTATTAAGGGAAAGTATTAA
*
3223488 ATAATTTATTAAGGGAAAGTATTAT
1 ATAATTTATTAAGGGAAAGTATTAA
3223513 ATAATTTATTAAGGG
1 ATAATTTATTAAGGG
3223528 GGAGAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (25 bp):
ATAATTTATTAAGGGAAAGTATTAA
Found at i:3227415 original size:52 final size:52
Alignment explanation
Indices: 3227267--3227395 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3227257 CGAAATATGA
*
3227267 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
3227319 AACTTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
3227371 AAATTTGCCTGCATGTATCTATACA
1 AAATTTGCCTGCATGTATCGATACA
3227396 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:3228220 original size:20 final size:20
Alignment explanation
Indices: 3228195--3228250 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3228185 ATTGCCAAGG
*
3228195 AAATGTATTGATACATTAAT
1 AAATGTATCGATACATTAAT
*
3228215 AAATGTATCGATACATTTAT
1 AAATGTATCGATACATTAAT
* *
3228235 CATTGTATCGATACAT
1 AAATGTATCGATACAT
3228251 CTGGATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTAAT
Found at i:3231697 original size:21 final size:20
Alignment explanation
Indices: 3231667--3231708 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
3231657 CTCTAAATAA
*
3231667 AAAAAAGAAACTAAAGAAAAG
1 AAAAAAGAAAATAAA-AAAAG
*
3231688 AAAAATGAAAATAAAAAAAG
1 AAAAAAGAAAATAAAAAAAG
3231708 A
1 A
3231709 GCATGCAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (20 bp):
AAAAAAGAAAATAAAAAAAG
Found at i:3231750 original size:7 final size:7
Alignment explanation
Indices: 3231731--3231776 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
3231721 GAAAAGGTGT
3231731 AGAAAAA
1 AGAAAAA
3231738 GAGAAAAA
1 -AGAAAAA
*
3231746 TGAAAAA
1 AGAAAAA
3231753 AGAAAAA
1 AGAAAAA
3231760 AGAAAAA
1 AGAAAAA
* *
3231767 TGAAAGA
1 AGAAAAA
3231774 AGA
1 AGA
3231777 TGAGGAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (7 bp):
AGAAAAA
Found at i:3231763 original size:21 final size:22
Alignment explanation
Indices: 3231731--3231776 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
3231721 GAAAAGGTGT
3231731 AGAAAAAGAGAAAAATGAAAAA
1 AGAAAAAGAGAAAAATGAAAAA
*
3231753 AGAAAAA-AGAAAAATGAAAGA
1 AGAAAAAGAGAAAAATGAAAAA
3231774 AGA
1 AGA
3231777 TGAGGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (22 bp):
AGAAAAAGAGAAAAATGAAAAA
Found at i:3232041 original size:10 final size:10
Alignment explanation
Indices: 3232026--3232068 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
3232016 AGAGGTTGAT
3232026 AAAAAAAAGG
1 AAAAAAAAGG
*
3232036 AAAAAAAAAG
1 AAAAAAAAGG
* *
3232046 AAGAAAAAGC
1 AAAAAAAAGG
*
3232056 AAAAAAATGG
1 AAAAAAAAGG
3232066 AAA
1 AAA
3232069 GAATGAAGCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:3233430 original size:20 final size:22
Alignment explanation
Indices: 3233405--3233448 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
3233395 GATACTTTGA
*
3233405 ATTATTTTT-A-CTTGAAAAAC
1 ATTATTTTTAAGCTTCAAAAAC
3233425 ATTATTTTTAAGCTTCAAAAAC
1 ATTATTTTTAAGCTTCAAAAAC
3233447 AT
1 AT
3233449 CTATACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTATTTTTAAGCTTCAAAAAC
Found at i:3234123 original size:14 final size:14
Alignment explanation
Indices: 3234104--3234131 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3234094 TATCAAAAGT
3234104 TTATGCAAGCTCTC
1 TTATGCAAGCTCTC
3234118 TTATGCAAGCTCTC
1 TTATGCAAGCTCTC
3234132 CCCCTTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (14 bp):
TTATGCAAGCTCTC
Found at i:3234293 original size:56 final size:56
Alignment explanation
Indices: 3234222--3234347 Score: 216
Period size: 56 Copynumber: 2.2 Consensus size: 56
3234212 AATAATCCCT
* * *
3234222 CCCTTTATGTTATAAGCTAAGTTGATAAAACTAAATTTATGAACAACAATCTCTCC
1 CCCTTTTTGTTATAAGCTAAGTTGACAAAACCAAATTTATGAACAACAATCTCTCC
3234278 CCCTTTTTGTTATAAGCTAAGTTGACAAAACCAAATTTATGAACAACAATCTCTCC
1 CCCTTTTTGTTATAAGCTAAGTTGACAAAACCAAATTTATGAACAACAATCTCTCC
*
3234334 CCTTTTTTGTTATA
1 CCCTTTTTGTTATA
3234348 TCAAAACCAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (56 bp):
CCCTTTTTGTTATAAGCTAAGTTGACAAAACCAAATTTATGAACAACAATCTCTCC
Found at i:3238287 original size:35 final size:36
Alignment explanation
Indices: 3238241--3238309 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
3238231 GGATAGAAAC
**
3238241 CTCCCTATC-TTTTCATGGGCTAAGATAGAACCTTT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTTT
* *
3238276 CTCCCTTTCTTTTTTAAAGGCTAAGATAGAACCT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCT
3238310 CTCAATCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (36 bp):
CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTTT
Found at i:3238871 original size:13 final size:13
Alignment explanation
Indices: 3238853--3238877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3238843 TACAATGAAC
3238853 ATGTATCGATACA
1 ATGTATCGATACA
3238866 ATGTATCGATAC
1 ATGTATCGATAC
3238878 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3238895 original size:33 final size:32
Alignment explanation
Indices: 3238835--3238898 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3238825 TATTTTAGGG
3238835 TGTATCGATACAATGAACATGTATCGATACAA
1 TGTATCGATACAATGAACATGTATCGATACAA
*
3238867 TGTATCGATACTAA-GCAATATGTATCGATACA
1 TGTATCGATAC-AATG-AACATGTATCGATACA
3238899 TTTGGGTCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACAATGAACATGTATCGATACAA
Found at i:3239683 original size:13 final size:13
Alignment explanation
Indices: 3239665--3239694 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3239655 ACATTTTACT
*
3239665 ATGTATTGATACA
1 ATGTATCGATACA
3239678 ATGTATCGATACA
1 ATGTATCGATACA
3239691 ATGT
1 ATGT
3239695 CCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3249232 original size:20 final size:20
Alignment explanation
Indices: 3249207--3249277 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
3249197 TAACAATTCA
3249207 CATTTGCATCATTTCATGTG
1 CATTTGCATCATTTCATGTG
** * *
3249227 CATTTGCTATTTTATTGATCCCTG
1 CATTTGC-ATCAT-TTCAT--GTG
*
3249251 CATTTGCATCGTTTCATGTG
1 CATTTGCATCATTTCATGTG
3249271 CATTTGC
1 CATTTGC
3249278 TATTTTATTG
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
20 16 0.41
21 3 0.08
22 8 0.21
23 3 0.08
24 9 0.23
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.46
Consensus pattern (20 bp):
CATTTGCATCATTTCATGTG
Found at i:3249252 original size:24 final size:24
Alignment explanation
Indices: 3249225--3249297 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
3249215 TCATTTCATG
3249225 TGCATTTGCTATTTTATTGATCCC
1 TGCATTTGCTATTTTATTGATCCC
** * *
3249249 TGCATTTGC-ATCGT-TTCAT--G
1 TGCATTTGCTATTTTATTGATCCC
3249269 TGCATTTGCTATTTTATTGATCCC
1 TGCATTTGCTATTTTATTGATCCC
3249293 TGCAT
1 TGCAT
3249298 GTGCATCATT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 9 0.24
21 3 0.08
22 8 0.22
23 3 0.08
24 14 0.38
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (24 bp):
TGCATTTGCTATTTTATTGATCCC
Found at i:3249270 original size:44 final size:44
Alignment explanation
Indices: 3249207--3249310 Score: 190
Period size: 44 Copynumber: 2.4 Consensus size: 44
3249197 TAACAATTCA
3249207 CATTTGCATCATTTCATGTGCATTTGCTATTTTATTGATCCCTG
1 CATTTGCATCATTTCATGTGCATTTGCTATTTTATTGATCCCTG
*
3249251 CATTTGCATCGTTTCATGTGCATTTGCTATTTTATTGATCCCTG
1 CATTTGCATCATTTCATGTGCATTTGCTATTTTATTGATCCCTG
*
3249295 CATGTGCATCATTTCA
1 CATTTGCATCATTTCA
3249311 CCTACAATTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (44 bp):
CATTTGCATCATTTCATGTGCATTTGCTATTTTATTGATCCCTG
Found at i:3249450 original size:20 final size:20
Alignment explanation
Indices: 3249381--3249451 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
3249371 TGCTGATGCT
* *
3249381 TGCATTTGTATCATTTTACA
1 TGCATTTGCATCATTTAACA
** *
3249401 TGCATTTGCATTCAGATAAGA
1 TGCATTTGCA-TCATTTAACA
*
3249422 TTGGCATTTGCATCATTTAATA
1 -T-GCATTTGCATCATTTAACA
3249444 TGCATTTG
1 TGCATTTG
3249452 GCACTTTACT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 16 0.40
21 7 0.17
22 8 0.20
23 9 0.22
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (20 bp):
TGCATTTGCATCATTTAACA
Found at i:3250195 original size:89 final size:88
Alignment explanation
Indices: 3249951--3250232 Score: 353
Period size: 89 Copynumber: 3.2 Consensus size: 88
3249941 CGTGTAGCCT
*
3249951 ACACATTCCCAATCATA-TCCTTTTTATCCAACCACTAAATGGTATTGATGCATCACCAAGCCTA
1 ACACATTCCCAATCATATTCC-CTTTATCCAA-CACTAAATGGTATTGATGCATCACCAAGCCTA
**
3250015 ATTTCCTTGAGGCAAGGTGTAACCC
64 ATTTCCTTGAGGCAAGGTACAACCC
* *
3250040 ACACATTCCTAATCATATCCCCTTTATCCAAC-C---AT-GTATTGATGCATCACCAAGCCTAAT
1 ACACATTCCCAATCATATTCCCTTTATCCAACACTAAATGGTATTGATGCATCACCAAGCCTAAT
* * *
3250100 TCCCTTGAAGTAAGGTACAACCC
66 TTCCTTGAGGCAAGGTACAACCC
* *
3250123 ACACATTCCCAACCATATTCCCTTCT-TCTAACTACTAAATGGTATTGATGCATCACCAAGCCTA
1 ACACATTCCCAATCATATTCCCTT-TATCCAAC-ACTAAATGGTATTGATGCATCACCAAGCCTA
* * **
3250187 ATTTCCTTGGGGCAAGGTACAGCTA
64 ATTTCCTTGAGGCAAGGTACAACCC
3250212 ACACATTCCCAATCATATTCC
1 ACACATTCCCAATCATATTCC
3250233 TATCACCTAA
Statistics
Matches: 165, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
83 69 0.42
84 3 0.02
85 1 0.01
87 1 0.01
88 3 0.02
89 86 0.52
90 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (88 bp):
ACACATTCCCAATCATATTCCCTTTATCCAACACTAAATGGTATTGATGCATCACCAAGCCTAAT
TTCCTTGAGGCAAGGTACAACCC
Found at i:3250243 original size:89 final size:88
Alignment explanation
Indices: 3249951--3250266 Score: 342
Period size: 89 Copynumber: 3.6 Consensus size: 88
3249941 CGTGTAGCCT
*
3249951 ACACATTCCCAATCATA-TCCTTTTTATCCAACCACTAAATGGTATTGATGCATCACCAAGCCTA
1 ACACATTCCCAATCATATTCC--TTCATCCAACCACTAAATGGTATTGATGCATCACCAAGCCTA
**
3250015 ATTTCCTTGAGGCAAGGTGTAACCC
64 ATTTCCTTGAGGCAAGGTACAACCC
* * *
3250040 ACACATTCCTAATCATATCCCCTTTATCCAA-C-C---AT-GTATTGATGCATCACCAAGCCTAA
1 ACACATTCCCAATCATAT-TCCTTCATCCAACCACTAAATGGTATTGATGCATCACCAAGCCTAA
* * *
3250099 TTCCCTTGAAGTAAGGTACAACCC
65 TTTCCTTGAGGCAAGGTACAACCC
* * * *
3250123 ACACATTCCCAACCATATTCCCTTCTTCTAACTACTAAATGGTATTGATGCATCACCAAGCCTAA
1 ACACATTCCCAATCATATT-CCTTCATCCAACCACTAAATGGTATTGATGCATCACCAAGCCTAA
* * **
3250188 TTTCCTTGGGGCAAGGTACAGCTA
65 TTTCCTTGAGGCAAGGTACAACCC
* **
3250212 ACACATTCCCAATCATATTCCTATCA-CCTAACCACTAGATCATATTGATGCATCA
1 ACACATTCCCAATCATATTCCT-TCATCC-AACCACTAAATGGTATTGATGCATCA
3250267 AAAAGCTCGA
Statistics
Matches: 188, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
83 67 0.36
84 2 0.01
85 1 0.01
87 1 0.01
88 7 0.04
89 108 0.57
91 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (88 bp):
ACACATTCCCAATCATATTCCTTCATCCAACCACTAAATGGTATTGATGCATCACCAAGCCTAAT
TTCCTTGAGGCAAGGTACAACCC
Found at i:3250283 original size:89 final size:89
Alignment explanation
Indices: 3250123--3250292 Score: 191
Period size: 89 Copynumber: 1.9 Consensus size: 89
3250113 GGTACAACCC
** * ** **
3250123 ACACATTCCCAACCATATTCCCTTCTTCTAACTACTAAATGGTATTGATGCATCACCAAGCCTAA
1 ACACATTCCCAACCATATTCCCTTCACCTAACCACTAAATCATATTGATGCATCAAAAAGCCTAA
* * *
3250188 TTTCCTTGGGGCAAGGTACAGCTA
66 TATCCTTAGGGAAAGGTACAGCTA
* *
3250212 ACACATTCCCAATCATATT-CCTATCACCTAACCACTAGATCATATTGATGCATCAAAAAG-CTC
1 ACACATTCCCAACCATATTCCCT-TCACCTAACCACTAAATCATATTGATGCATCAAAAAGCCT-
*
3250275 GATATCCTTAGGGAAAGG
64 AATATCCTTAGGGAAAGG
3250293 ATAACCAACC
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
88 5 0.08
89 61 0.92
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (89 bp):
ACACATTCCCAACCATATTCCCTTCACCTAACCACTAAATCATATTGATGCATCAAAAAGCCTAA
TATCCTTAGGGAAAGGTACAGCTA
Found at i:3250533 original size:35 final size:35
Alignment explanation
Indices: 3250494--3250572 Score: 122
Period size: 35 Copynumber: 2.3 Consensus size: 35
3250484 GATCAAATTT
* *
3250494 TTCCATCATCGTTTAACTGTACCTGGTCAAACTCA
1 TTCCATCATCATTTAACTATACCTGGTCAAACTCA
* *
3250529 TTCCATCATCATTTGACTATACCTGGTCAAACTCT
1 TTCCATCATCATTTAACTATACCTGGTCAAACTCA
3250564 TTCCATCAT
1 TTCCATCAT
3250573 TATCTGGCGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.37
Consensus pattern (35 bp):
TTCCATCATCATTTAACTATACCTGGTCAAACTCA
Found at i:3250662 original size:48 final size:46
Alignment explanation
Indices: 3250592--3250735 Score: 157
Period size: 46 Copynumber: 3.1 Consensus size: 46
3250582 GTATCTGATT
* *
3250592 AAACTCTTTCATCCCTTGTTTGATTGTATTGGTATTAGGGCCTAGTC
1 AAACTCTTTCATCCCTCGTTTGATTGTATTGGTGTTAGGGCCT-GTC
* *
3250639 AAACTCTTTCCATCCCTCGTTTGACTGTATTGGTGTTAGAG--TGATC
1 AAACTCTTT-CATCCCTCGTTTGATTGTATTGGTGTTAGGGCCTG-TC
* * **
3250685 AAACTCTTTTCATCCCTCATTTGATTGCATTAATGTTAGGGCCTGGTC
1 AAACTC-TTTCATCCCTCGTTTGATTGTATTGGTGTTAGGGCCT-GTC
3250733 AAA
1 AAA
3250736 TTCTCCTCTT
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 34 0.42
47 12 0.15
48 33 0.41
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.40
Consensus pattern (46 bp):
AAACTCTTTCATCCCTCGTTTGATTGTATTGGTGTTAGGGCCTGTC
Found at i:3250708 original size:46 final size:47
Alignment explanation
Indices: 3250586--3250708 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 47
3250576 CTGGCGGTAT
* * * *
3250586 CTGATTAAACTC-TTTCATCCCTTGTTTGATTGTATTGGTATTAGGG
1 CTGATCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTATTAGAG
* *
3250632 CCT-AGTCAAACTCTTTCCATCCCTCGTTTGACTGTATTGGTGTTAGAG
1 -CTGA-TCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTATTAGAG
*
3250680 -TGATCAAACTCTTTTCATCCCTCATTTGA
1 CTGATCAAACTCTTTTCATCCCTCGTTTGA
3250709 TTGCATTAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
46 26 0.40
47 10 0.15
48 29 0.45
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.41
Consensus pattern (47 bp):
CTGATCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTATTAGAG
Found at i:3250841 original size:44 final size:44
Alignment explanation
Indices: 3250793--3250954 Score: 141
Period size: 44 Copynumber: 3.7 Consensus size: 44
3250783 TTTTCTTTTC
* *
3250793 GATTTGACATATGGTTACCACCCTCGTCAAATTCTTTTTATTTT
1 GATTTGACATATGGTTACCACCCTGGTCAAATTCTTTTTATTCT
* * * *
3250837 GATTTGATGA-ATGGTTACCACCTTGGTCAAATCTGCCTCTT-TTCT
1 GATTTGA-CATATGGTTACCACCCTGGTCAAAT-T-CTTTTTATTCT
* * * * *
3250882 G-TTTGACTTATGGTTACCTCCCTGGTTAGATTCTTTTTATTCC
1 GATTTGACATATGGTTACCACCCTGGTCAAATTCTTTTTATTCT
** * *
3250925 GATTTGATGTATGGTTACTACCTTGGTCAA
1 GATTTGACATATGGTTACCACCCTGGTCAA
3250955 GTCTGCCTCC
Statistics
Matches: 90, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
42 4 0.04
43 5 0.06
44 71 0.79
45 6 0.07
46 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (44 bp):
GATTTGACATATGGTTACCACCCTGGTCAAATTCTTTTTATTCT
Found at i:3250843 original size:88 final size:88
Alignment explanation
Indices: 3250786--3250999 Score: 286
Period size: 88 Copynumber: 2.4 Consensus size: 88
3250776 CAGATTTTTT
** *
3250786 TCTTTTC-GATTTGACATATGGTTACCACCCTCGTCAAATTCTTTTTATTTTGATTTGATGAATG
1 TCTTTTCTG-TTTGACATATGGTTACCACCCTCGTCAAATTCTTTTTATTCCGATTTGATGTATG
*
3250850 GTTACCACCTTGGTCAAATCTGCC
65 GTTACTACCTTGGTCAAATCTGCC
* * * * *
3250874 TCTTTTCTGTTTGACTTATGGTTACCTCCCTGGTTAGATTCTTTTTATTCCGATTTGATGTATGG
1 TCTTTTCTGTTTGACATATGGTTACCACCCTCGTCAAATTCTTTTTATTCCGATTTGATGTATGG
*
3250939 TTACTACCTTGGTCAAGTCTGCC
66 TTACTACCTTGGTCAAATCTGCC
* * * *
3250962 TCCTTCCTGTTTGACGTATGGTTACCACCCTAGTCAAA
1 TCTTTTCTGTTTGACATATGGTTACCACCCTCGTCAAA
3251000 CGATTTGGAT
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 107 0.99
89 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (88 bp):
TCTTTTCTGTTTGACATATGGTTACCACCCTCGTCAAATTCTTTTTATTCCGATTTGATGTATGG
TTACTACCTTGGTCAAATCTGCC
Found at i:3250998 original size:44 final size:44
Alignment explanation
Indices: 3250795--3250999 Score: 130
Period size: 44 Copynumber: 4.7 Consensus size: 44
3250785 TTCTTTTCGA
* * ** * *
3250795 TTTGACATATGGTTACCACCCTCGTCAAATTCT-TTTTATT-TTG
1 TTTGACGTATGGTTACCACCCTGGTCAAA-TCTGCCTCATTCCTG
* * * * *
3250838 ATTTGATGAATGGTTACCACCTTGGTCAAATCTGCCTCTTTTCTG
1 -TTTGACGTATGGTTACCACCCTGGTCAAATCTGCCTCATTCCTG
* * * * ** *
3250883 TTTGACTTATGGTTACCTCCCTGGTTAGATTCT-TTTTATTCC-G
1 TTTGACGTATGGTTACCACCCTGGTCA-AATCTGCCTCATTCCTG
* * * * *
3250926 ATTTGATGTATGGTTACTACCTTGGTCAAGTCTGCCTCCTTCCTG
1 -TTTGACGTATGGTTACCACCCTGGTCAAATCTGCCTCATTCCTG
*
3250971 TTTGACGTATGGTTACCACCCTAGTCAAA
1 TTTGACGTATGGTTACCACCCTGGTCAAA
3251000 CGATTTGGAT
Statistics
Matches: 117, Mismatches: 38, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
43 8 0.07
44 102 0.87
45 7 0.06
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (44 bp):
TTTGACGTATGGTTACCACCCTGGTCAAATCTGCCTCATTCCTG
Found at i:3251238 original size:42 final size:42
Alignment explanation
Indices: 3251159--3251392 Score: 189
Period size: 42 Copynumber: 5.6 Consensus size: 42
3251149 GTCAGCTCAA
* * * * * *
3251159 ACCTAGGAAACTTTTTCCTCTTTCGTTTGCCCATTGGCTTTG
1 ACCTGGGAGACTTCTTCATCTTTCGTATGCCCGTTGGCTTTG
* * * *
3251201 ACCTGGGAGACTTCTTTATCTTTTGTCTGCCCGTTGGCTTAG
1 ACCTGGGAGACTTCTTCATCTTTCGTATGCCCGTTGGCTTTG
* * *
3251243 GCTTGGGAGACTTCTTCATCTTTCGTATGCCCGTTAGCTTTG
1 ACCTGGGAGACTTCTTCATCTTTCGTATGCCCGTTGGCTTTG
* * * * * * **
3251285 ACCTGGGAGAATTCTTCATCTTCCATTTGCTCGTCGGCTTAA
1 ACCTGGGAGACTTCTTCATCTTTCGTATGCCCGTTGGCTTTG
* * * * * * **
3251327 ACATAGGAGACTTCTTCATCTTTCGTTTGCTCATCGGCTCCG
1 ACCTGGGAGACTTCTTCATCTTTCGTATGCCCGTTGGCTTTG
* *
3251369 ACCCGAGAGACTTCTTCATCTTTC
1 ACCTGGGAGACTTCTTCATCTTTC
3251393 ATTTGCCTGT
Statistics
Matches: 152, Mismatches: 40, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 152 1.00
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.38
Consensus pattern (42 bp):
ACCTGGGAGACTTCTTCATCTTTCGTATGCCCGTTGGCTTTG
Found at i:3251324 original size:84 final size:84
Alignment explanation
Indices: 3251148--3251424 Score: 221
Period size: 84 Copynumber: 3.3 Consensus size: 84
3251138 GAGACTTGCT
* * * * * * * * *
3251148 CGTCAGCTCAAACCTAGGAAACTTTTTCCTCTTTCGTTTGCCCATTGGCTTTGACCTGGGAGACT
1 CGTCGGCTTAAACATAGGAGACTTCTTCATCTTTCGTATGCCCATTAGCTTTGACCTGGGAGAAT
* ***
3251213 TCTTTATCTTTTGTCTGCC
66 TCTTCATCTTCCATCTGCC
* ** * * *
3251232 CGTTGGCTTAGGCTTGGGAGACTTCTTCATCTTTCGTATGCCCGTTAGCTTTGACCTGGGAGAAT
1 CGTCGGCTTAAACATAGGAGACTTCTTCATCTTTCGTATGCCCATTAGCTTTGACCTGGGAGAAT
* *
3251297 TCTTCATCTTCCATTTGCT
66 TCTTCATCTTCCATCTGCC
* * ** ** * * *
3251316 CGTCGGCTTAAACATAGGAGACTTCTTCATCTTTCGTTTGCTCATCGGCTCCGACCCGAGAGACT
1 CGTCGGCTTAAACATAGGAGACTTCTTCATCTTTCGTATGCCCATTAGCTTTGACCTGGGAGAAT
* *
3251381 TCTTCATCTTTCATTTGCC
66 TCTTCATCTTCCATCTGCC
* ** * *
3251400 TGTCAACTCAAACCTAGGAGACTTC
1 CGTCGGCTTAAACATAGGAGACTTC
3251425 CTCACCCTTT
Statistics
Matches: 151, Mismatches: 42, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
84 151 1.00
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.36
Consensus pattern (84 bp):
CGTCGGCTTAAACATAGGAGACTTCTTCATCTTTCGTATGCCCATTAGCTTTGACCTGGGAGAAT
TCTTCATCTTCCATCTGCC
Found at i:3251421 original size:42 final size:42
Alignment explanation
Indices: 3251248--3251424 Score: 142
Period size: 42 Copynumber: 4.2 Consensus size: 42
3251238 CTTAGGCTTG
* * * * *** *
3251248 GGAGACTTCTTCATCTTTCGTATGCCCGTTAGCTTTGACCTG
1 GGAGACTTCTTCATCTTTCATTTGCTCGTCAGCTCAAACCTA
* * * * *
3251290 GGAGAATTCTTCATCTTCCATTTGCTCGTCGGCTTAAACATA
1 GGAGACTTCTTCATCTTTCATTTGCTCGTCAGCTCAAACCTA
* * * ** *
3251332 GGAGACTTCTTCATCTTTCGTTTGCTCATCGGCTCCGACC-C
1 GGAGACTTCTTCATCTTTCATTTGCTCGTCAGCTCAAACCTA
*
3251373 GAGAGACTTCTTCATCTTTCATTTGC-CTGTCAACTCAAACCTA
1 G-GAGACTTCTTCATCTTTCATTTGCTC-GTCAGCTCAAACCTA
3251416 GGAGACTTC
1 GGAGACTTC
3251425 CTCACCCTTT
Statistics
Matches: 105, Mismatches: 27, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
41 2 0.02
42 102 0.97
43 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (42 bp):
GGAGACTTCTTCATCTTTCATTTGCTCGTCAGCTCAAACCTA
Found at i:3251660 original size:39 final size:41
Alignment explanation
Indices: 3251617--3251701 Score: 138
Period size: 39 Copynumber: 2.1 Consensus size: 41
3251607 TTCCCGTTAG
*
3251617 CTCAAACCCAGGAAACTTCTTCATCTTTT-TT-CTCGTTGC
1 CTCAAACCCAAGAAACTTCTTCATCTTTTCTTCCTCGTTGC
*
3251656 CTCAAACCTAAGAAACTTCTTCATCTTTTCTTCCTCGTTGC
1 CTCAAACCCAAGAAACTTCTTCATCTTTTCTTCCTCGTTGC
3251697 CTCAA
1 CTCAA
3251702 TCTCGAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 27 0.64
40 2 0.05
41 13 0.31
ACGTcount: A:0.22, C:0.32, G:0.08, T:0.38
Consensus pattern (41 bp):
CTCAAACCCAAGAAACTTCTTCATCTTTTCTTCCTCGTTGC
Found at i:3252917 original size:167 final size:166
Alignment explanation
Indices: 3252689--3252995 Score: 407
Period size: 167 Copynumber: 1.8 Consensus size: 166
3252679 CTTCTCCGTA
*
3252689 AATTTTTTCAAGAGGATTTTTCTTAATTTTAAAATTTTAAGATTCATAAAACATCATTATTTATT
1 AATTTTTTCAAGAGGATTTTTCTTAATTTTAAAATTTTAAAATTCATAAAACATCATTATTTATT
* * * *
3252754 TCAAATTAATTTAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTTAATTTTTTTCCTTGAAAT
66 TCAAATTAATTAAGTTTTAAAAAACTAATTCATTTGCATGAGTTTTGAATTTTTTTCCTTGAAA-
*
3252819 TTTCTTTTTTTTGAAATACAGTGTTTTCTACTTCATC
130 TCTCTTTTTTTTGAAATACAGTGTTTTCTACTTCATC
* * ** ** * * ** *
3252856 AATTTTTTTAGGAGGATTTTTCTTGGTTTTCGATTTTTAAAATTCATCAAGTATTATTATTTATT
1 AATTTTTTCAAGAGGATTTTTCTTAATTTTAAAATTTTAAAATTCATAAAACATCATTATTTATT
* * * * *
3252921 TCATATTAATTAAGTTTTCAAAAACTCATTCATTTGCATGAGTTTTGGATTTTTTTCTTTGAAAT
66 TCAAATTAATTAAGTTTTAAAAAACTAATTCATTTGCATGAGTTTTGAATTTTTTTCCTTGAAAT
3252986 CTCTTTTTTT
131 CTCTTTTTTT
3252996 CCAAAAAATC
Statistics
Matches: 118, Mismatches: 22, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
166 10 0.08
167 108 0.92
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.53
Consensus pattern (166 bp):
AATTTTTTCAAGAGGATTTTTCTTAATTTTAAAATTTTAAAATTCATAAAACATCATTATTTATT
TCAAATTAATTAAGTTTTAAAAAACTAATTCATTTGCATGAGTTTTGAATTTTTTTCCTTGAAAT
CTCTTTTTTTTGAAATACAGTGTTTTCTACTTCATC
Found at i:3253039 original size:167 final size:164
Alignment explanation
Indices: 3252744--3253239 Score: 497
Period size: 167 Copynumber: 3.0 Consensus size: 164
3252734 ATAAAACATC
* **
3252744 ATTATTTATTTCAAATTAATTTAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTTAATTTTTT
1 ATTATTTATTTCAAATTAATTAAGTTTT-AAAAATTAATTCATTTTCATGAGTTTTGGATTTTTT
* * * * * * * *
3252809 TCCTTGAAATTTTCTTTTTTTTGAAATA-CAGTGTTTTCTACTTCATCAATTTTTTTAGGAGGAT
65 TCTTTGAAA-TCTC-TTTTTTTGAAAAATC-GAGTTTTCTAATCCATAAATATTTTT-GGAGGAT
*** *
3252873 TTTTC-TTGGTTTTCGATTTTTAAAAT-TCATC-AAGTATT
126 TTTTCTTTGGTTTAAAATTTTTAAAATGT-ATCTAA-TAAT
* * * *
3252911 ATTATTTATTTCATATTAATTAAGTTTTCAAAAACTCATTCATTTGCATGAGTTTTGGATTTTTT
1 ATTATTTATTTCAAATTAATTAAGTTTT-AAAAATTAATTCATTTTCATGAGTTTTGGATTTTTT
* *
3252976 TCTTTGAAATCTCTTTTTTTCCAAAAAATCGAGTTTTCAAATCCATAAATATTTTTGGGAGGA-T
65 TCTTTGAAATCTCTTTTTTT--GAAAAATCGAGTTTTCTAATCCATAAATATTTTT-GGAGGATT
*
3253040 TTTCTTTGGTTTAAAATTTTTCAAATGTATCTAATAAT
127 TTTCTTTGGTTTAAAATTTTTAAAATGTATCTAATAAT
* * ** * * *
3253078 GTCATGAAATTTC-CATTAAATCAGTTTTAAAAATTTAATTCATTTTCATGAGTTTTGGA-TTTT
1 ATTAT-TTATTTCAAATTAATTAAGTTTTAAAAA-TTAATTCATTTTCATGAGTTTTGGATTTTT
* * *
3253141 TTCTTTGCAATCTCCCTTTTCTTGAAAACT-GAGTTTTCTAATCCATAAATATTTTTGGAGGA-T
64 TTCTTTGAAATCT--CTTTTTTTGAAAAATCGAGTTTTCTAATCCATAAATATTTTTGGAGGATT
*
3253204 TTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATA
127 TTTCTTTGGTTTAAAATTTTTAAAATGTATCTAATA
3253240 TTGTCACTGA
Statistics
Matches: 278, Mismatches: 41, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
164 41 0.15
165 32 0.12
166 34 0.12
167 155 0.56
168 16 0.06
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (164 bp):
ATTATTTATTTCAAATTAATTAAGTTTTAAAAATTAATTCATTTTCATGAGTTTTGGATTTTTTT
CTTTGAAATCTCTTTTTTTGAAAAATCGAGTTTTCTAATCCATAAATATTTTTGGAGGATTTTTC
TTTGGTTTAAAATTTTTAAAATGTATCTAATAAT
Found at i:3253224 original size:164 final size:166
Alignment explanation
Indices: 3252948--3253306 Score: 487
Period size: 164 Copynumber: 2.2 Consensus size: 166
3252938 TCAAAAACTC
* *
3252948 ATTCATTTGCATGAGTTTTGGATTTTTTTCTTTGAAATCTCTTTTTTTCCAAAAAATCGAGTTTT
1 ATTCATTTTCATGAGTTTTGGA-TTTTTTCTTTGAAATCTCTTTTCTT-CAAAAAATCGAGTTTT
* *
3253013 CAAATCCATAAATATTTTTGGGAGGATTTTCTTTGGTTTAAAATTTTTCAAATGTATCTAATAAT
64 CAAATCCATAAATATTTTTGGGAGGATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAAT
* * *
3253078 GTCA-TGAAATTTCCATTAAATCAGTTTT-AAAAATTTA
129 GTCACTG-AACTCCCATTAAATCAATTTTGAAAAATTTA
* * *
3253115 ATTCATTTTCATGAGTTTTGGATTTTTTCTTTGCAATCTCCCTTTTCTT-GAAAACT-GAGTTTT
1 ATTCATTTTCATGAGTTTTGGATTTTTTCTTTGAAATCT--CTTTTCTTCAAAAAATCGAGTTTT
* *
3253178 CTAATCCATAAATATTTTT-GGAGGATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATATT
64 CAAATCCATAAATATTTTTGGGAGGATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAAT
*
3253242 GTCACTGAACTCCCATTAATTCAATTTTGAAAAATTTA
129 GTCACTGAACTCCCATTAAATCAATTTTGAAAAATTTA
* * *
3253280 ATTTA-TTTCATGAATTTTGAATTTTTT
1 ATTCATTTTCATGAGTTTTGGATTTTTT
3253307 TGTATGTATT
Statistics
Matches: 172, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
164 83 0.48
165 40 0.23
166 21 0.12
167 21 0.12
168 7 0.04
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.48
Consensus pattern (166 bp):
ATTCATTTTCATGAGTTTTGGATTTTTTCTTTGAAATCTCTTTTCTTCAAAAAATCGAGTTTTCA
AATCCATAAATATTTTTGGGAGGATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAATAATGT
CACTGAACTCCCATTAAATCAATTTTGAAAAATTTA
Found at i:3253807 original size:24 final size:23
Alignment explanation
Indices: 3253773--3253817 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3253763 AGCTGGAAAA
*
3253773 AAGAGAGAAAAGAGAAAGAAAAGC
1 AAGAGAAAAAAGAG-AAGAAAAGC
*
3253797 AAGAGAAAAAATAGAAGAAAA
1 AAGAGAAAAAAGAGAAGAAAA
3253818 TAGCAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (23 bp):
AAGAGAAAAAAGAGAAGAAAAGC
Found at i:3253812 original size:9 final size:9
Alignment explanation
Indices: 3253800--3253835 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
3253790 GAAAAGCAAG
3253800 AGAAAAAAT
1 AGAAAAAAT
3253809 AGAAGAAAAT
1 AGAA-AAAAT
*
3253819 AGCAAAAAT
1 AGAAAAAAT
3253828 AGAAAAAA
1 AGAAAAAA
3253836 ACCAAGCTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.75, C:0.03, G:0.14, T:0.08
Consensus pattern (9 bp):
AGAAAAAAT
Found at i:3255193 original size:168 final size:164
Alignment explanation
Indices: 3254802--3255229 Score: 508
Period size: 168 Copynumber: 2.6 Consensus size: 164
3254792 TATTTCCATA
* * ** *
3254802 TTAATTAT-TTTTTTAATCTTTTATATTCTTATGGGCATTTGTAGGGGTATAAAA-ATTTTCAAA
1 TTAATCATCTTTTTTAATCTTTTATATTCCTATGGGCATCCGTAAGGGTATAAAAGATTTTCAAA
* * * * * *
3254865 ACCTTTTTGTATCTTTTTGGGCTTCCATTAAGGTACAAAATGATATTTTTCGAAATTAAATAAAT
66 AACGTTTTATATCTTTTCGGGCTTCCATCAAGGTAAAAAATGATATTTTTCGAAATTAAATAAAT
* * *
3254930 AATAAAATTAGCACTTTCGTAGCCAAAACAAATT
131 AATAAAATTAACACTTTCATAACCAAAACAAATT
* * * * *
3254964 TTAATCATCTATTTTAATTTTTTATATTCCTATAGGCATCC-AAAGGGGTATAAGAGATTTTCAA
1 TTAATCATCTTTTTTAATCTTTTATATTCCTATGGGCATCCGTAA-GGGTATAAAAGATTTTCAA
*
3255028 AAACGTTTTATATCTTTTCGGGCTTCTATCAAGGTAAAAAATGATATTTTTCGAAATTAAATAAA
65 AAACGTTTTATATCTTTTCGGGCTTCCATCAAGGTAAAAAATGATATTTTTCGAAATTAAATAAA
* *
3255093 TAAATAATTAAATTAACACTTTTATAACCAAAATAAATT
130 T-AAT-A--AAATTAACACTTTCATAACCAAAACAAATT
* * *
3255132 TTAATCATCTTTTTTAATCTTTTATTTTCCTAGGGGTATCCGTAAGGGTATAAAAGATTTTC-AA
1 TTAATCATCTTTTTTAATCTTTTATATTCCTATGGGCATCCGTAAGGGTATAAAAGATTTTCAAA
* * *
3255196 AA--TTTTCGTATCTTTTCAGGCTTCCATTAAGGTA
66 AACGTTTT-ATATCTTTTCGGGCTTCCATCAAGGTA
3255230 TGAAATGGAA
Statistics
Matches: 223, Mismatches: 34, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
162 8 0.04
163 35 0.16
164 67 0.30
165 7 0.03
166 24 0.11
167 4 0.02
168 76 0.34
169 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (164 bp):
TTAATCATCTTTTTTAATCTTTTATATTCCTATGGGCATCCGTAAGGGTATAAAAGATTTTCAAA
AACGTTTTATATCTTTTCGGGCTTCCATCAAGGTAAAAAATGATATTTTTCGAAATTAAATAAAT
AATAAAATTAACACTTTCATAACCAAAACAAATT
Found at i:3255882 original size:156 final size:153
Alignment explanation
Indices: 3255343--3255880 Score: 558
Period size: 156 Copynumber: 3.5 Consensus size: 153
3255333 TCTATAAATC
* * **
3255343 TTTTAAGTCTTTTAGGGGTATCAGATACTTTTACGTCGAAGGTATCCCCTAGGAGG-ATTTTTGT
1 TTTTAAGTCTTTTA-GGGTATCAGGTACTTTTACATCGAAGGTATCCCCTA-GAGGCATTTTCAT
* ** ** * *
3255407 AATTTTCCAGAACCGAGTTTTAGGTTATCACCGGGTCTGCTTTTATGTCAAAGGTAGATATTTAG
64 AATTTTTCAGAACCGAGTCCTAGGTTATCACTAGGTCCGCTTTTATGTCGAAGGTAGATATTTAG
* *
3255472 GATAGG-TCATGGCCTTTTTATTATCCT
129 GATAGGTTCAT--CCCTTCTA-TATCCT
* * * * *
3255499 CTTTAAGTCTTTTAGGAGTACCGGGTACTTTTACATGGAAGGTATCCCCTAGAGGTATTTTCATA
1 TTTTAAGTCTTTTAGG-GTATCAGGTACTTTTACATCGAAGGTATCCCCTAGAGGCATTTTCATA
* * * * * * * *
3255564 ATTTTTCAGAATCGAGTCCTAGGTTGTCACTAGGTTCGCTTTCATGCCGAATGTGGGTATTTAGG
65 ATTTTTCAGAACCGAGTCCTAGGTTATCACTAGGTCCGCTTTTATGTCGAAGGTAGATATTTAGG
* *
3255629 ATAGGTTCACCCCTTCTATATCAT
130 ATAGGTTCATCCCTTCTATATCCT
* * * * *
3255653 TTTTTAGTCTTTTTGGGTTATCAGGATACTTTCACATCGAAGGTATACCCTCGAGGGCATTTTCA
1 TTTTAAGTCTTTTAGGG-TATCAGG-TACTTTTACATCGAAGGTATCCCCTAGA-GGCATTTTCA
** * * * * *
3255718 TAATTTTTTGGAACCAACTCCTAGGTCATCACTAGATCCGTTTTTATGTCGAAGGTAGATATTTA
63 TAATTTTTCAGAACCGAGTCCTAGGTTATCACTAGGTCCGCTTTTATGTCGAAGGTAGATATTTA
*
3255783 GGTTAGGTTCATCCCTTCTATAATCCT
128 GGATAGGTTCATCCCTTCTAT-ATCCT
** * *
3255810 TTTTAAGTCCATTAGAGGTATTAGGTACTTTTACATCGAAGGTATCCCCTAGAGGCATTTTCGTA
1 TTTTAAGTCTTTTAG-GGTATCAGGTACTTTTACATCGAAGGTATCCCCTAGAGGCATTTTCATA
3255875 ATTTTT
65 ATTTTT
3255881 TTTGAACTTA
Statistics
Matches: 310, Mismatches: 64, Indels: 17
0.79 0.16 0.04
Matches are distributed among these distances:
153 1 0.00
154 23 0.07
155 53 0.17
156 207 0.67
157 24 0.08
158 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (153 bp):
TTTTAAGTCTTTTAGGGTATCAGGTACTTTTACATCGAAGGTATCCCCTAGAGGCATTTTCATAA
TTTTTCAGAACCGAGTCCTAGGTTATCACTAGGTCCGCTTTTATGTCGAAGGTAGATATTTAGGA
TAGGTTCATCCCTTCTATATCCT
Found at i:3262343 original size:13 final size:13
Alignment explanation
Indices: 3262321--3262359 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3262311 ATAATCCCCC
*
3262321 TGTATCGATACAG
1 TGTATCGATACAA
*
3262334 TGTATTGATACAA
1 TGTATCGATACAA
3262347 TGTATCGATACAA
1 TGTATCGATACAA
3262360 AGAAAGATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3262371 original size:20 final size:20
Alignment explanation
Indices: 3262346--3262398 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
3262336 TATTGATACA
*
3262346 ATGTATCGATACA-AAGAAAG
1 ATGTATCGATACACAA-AAAC
3262366 ATGTATCGATACACAAAAAC
1 ATGTATCGATACACAAAAAC
3262386 ATGTATCGATACA
1 ATGTATCGATACA
3262399 TTTTGGAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (20 bp):
ATGTATCGATACACAAAAAC
Found at i:3265590 original size:20 final size:20
Alignment explanation
Indices: 3265567--3265639 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3265557 ACAATTCAAA
3265567 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3265587 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
3265608 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3265628 GTATCGATACAT
1 GTATCGATACAT
3265640 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3265610 original size:21 final size:21
Alignment explanation
Indices: 3265584--3265660 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
3265574 TACATGTTGC
3265584 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
3265605 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
3265625 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
3265645 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
3265661 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:3265618 original size:41 final size:41
Alignment explanation
Indices: 3265567--3265660 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
3265557 ACAATTCAAA
3265567 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
3265608 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
3265649 GTATCGATACAT
1 GTATCGATACAT
3265661 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:3265717 original size:13 final size:13
Alignment explanation
Indices: 3265699--3265724 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3265689 TACAGCAAGT
3265699 ATGTATCGATACA
1 ATGTATCGATACA
3265712 ATGTATCGATACA
1 ATGTATCGATACA
3265725 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3269805 original size:15 final size:15
Alignment explanation
Indices: 3269785--3269815 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3269775 TAAAAATGTC
*
3269785 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3269800 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3269815 C
1 C
3269816 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3271912 original size:13 final size:13
Alignment explanation
Indices: 3271894--3271931 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3271884 CATTTTTTGT
3271894 TGTATCGATACAA
1 TGTATCGATACAA
*
3271907 TGTATCGATACAC
1 TGTATCGATACAA
3271920 TGTATCGATACA
1 TGTATCGATACA
3271932 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3272076 original size:21 final size:21
Alignment explanation
Indices: 3272052--3272098 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3272042 AAATCTTTTG
3272052 CAAAAT-ACTT-GTTCTTCACTT
1 CAAAATAACTTCGTTCTTCA--T
3272073 C-AAATAACTTCGTTCTTCAT
1 CAAAATAACTTCGTTCTTCAT
3272093 CAAAAT
1 CAAAAT
3272099 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (21 bp):
CAAAATAACTTCGTTCTTCAT
Found at i:3272095 original size:20 final size:19
Alignment explanation
Indices: 3272054--3272096 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
3272044 ATCTTTTGCA
3272054 AAATACTTGTTCTTCACTTC
1 AAATACTTGTTCTTCAC-TC
3272074 AAATAACTTCGTTCTTCA-TC
1 AAAT-ACTT-GTTCTTCACTC
3272094 AAA
1 AAA
3272097 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (19 bp):
AAATACTTGTTCTTCACTC
Found at i:3274396 original size:20 final size:20
Alignment explanation
Indices: 3274373--3274445 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3274363 ACAATTCAAA
3274373 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3274393 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
3274414 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3274434 GTATCGATACAT
1 GTATCGATACAT
3274446 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3274416 original size:21 final size:21
Alignment explanation
Indices: 3274390--3274466 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
3274380 TACATGTTGC
3274390 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
3274411 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
3274431 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
3274451 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
3274467 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:3274424 original size:41 final size:41
Alignment explanation
Indices: 3274373--3274466 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
3274363 ACAATTCAAA
3274373 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
3274414 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
3274455 GTATCGATACAT
1 GTATCGATACAT
3274467 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:3274523 original size:13 final size:13
Alignment explanation
Indices: 3274505--3274530 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3274495 TACAGCAAGT
3274505 ATGTATCGATACA
1 ATGTATCGATACA
3274518 ATGTATCGATACA
1 ATGTATCGATACA
3274531 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3276682 original size:31 final size:31
Alignment explanation
Indices: 3276647--3276708 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
3276637 ATGGCATTCT
3276647 TTTTGCTCACATTCTTCTTTTTCAAATTAGG
1 TTTTGCTCACATTCTTCTTTTTCAAATTAGG
3276678 TTTTGCTCACATTCTTCTTTTTCAAATTAGG
1 TTTTGCTCACATTCTTCTTTTTCAAATTAGG
3276709 ACAATCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (31 bp):
TTTTGCTCACATTCTTCTTTTTCAAATTAGG
Found at i:3282020 original size:50 final size:50
Alignment explanation
Indices: 3281966--3282073 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
3281956 TCGTAATATT
* * * *
3281966 GATACATTCTGGGTTTTACCCATATGTATCA-ATACATTTTTCATTGTATC
1 GATACATTCTAGGTTTTACCCAGATGTAT-AGATACATTTCTCAATGTATC
*
3282016 GATACATTCTAGGTTTTACCCAGATGTGTAGATACATTTCTCAATGTATC
1 GATACATTCTAGGTTTTACCCAGATGTATAGATACATTTCTCAATGTATC
*
3282066 -AAACATTC
1 GATACATTC
3282074 AGGCATTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
49 8 0.16
50 43 0.84
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (50 bp):
GATACATTCTAGGTTTTACCCAGATGTATAGATACATTTCTCAATGTATC
Found at i:3284518 original size:79 final size:79
Alignment explanation
Indices: 3284420--3284859 Score: 506
Period size: 79 Copynumber: 5.6 Consensus size: 79
3284410 ATTCATGTTT
** * * *
3284420 TTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATTGAAG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAATTGAGG
3284485 ATACTCCAACCCCG
66 ATACTCCAACCCCG
* * * **
3284499 TTATTTTTGAGGGGATACTCCAACCCTGGTTTTATTTCCAAAATGCCAATTTTTCACAATCAAGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAATTGAGG
*
3284564 ATACTCCAACCTCG
66 ATACTCCAACCCCG
* ** * *
3284578 TTATTTCTGAGGGGATACTCCAACCCCTGTTTTATTTCCAAAATGTCAATTTTTCACAATCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAATTGAGG
*
3284643 ATACTCCAACCCCA
66 ATACTCCAACCCCG
* * * * * *
3284657 TTATTTTTGAGGGGGTACTCTAACCCCGATTTTATTTCCAAAACACCAATCTTTCACAATT-AGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAATTGA-G
* *
3284721 GATACTCTAACCCCA
65 GATACTCCAACCCCG
* * * **
3284736 TTATTTCTAAGGTGATACTCCAACCCCGGTTTTATTTCTAAAATACTGATTTTTCACAATTG-GG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAATTGAGG
* *
3284800 AATACTCTAACCCTG
66 -ATACTCCAACCCCG
* ** ** *
3284815 TTATTTCTGAGGGGGTACTCTGACCCCTTTTTTATCTCCAAAATA
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATA
3284860 TTAAATTTTT
Statistics
Matches: 305, Mismatches: 53, Indels: 6
0.84 0.15 0.02
Matches are distributed among these distances:
78 2 0.01
79 303 0.99
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAATTGAGG
ATACTCCAACCCCG
Found at i:3284820 original size:237 final size:237
Alignment explanation
Indices: 3284429--3284858 Score: 598
Period size: 237 Copynumber: 1.8 Consensus size: 237
3284419 TTTATTTCCA
*
3284429 AGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATTGAAGATACTCCAA
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATTGAAGATACTCCAA
* * * * *
3284494 CCCCGTTATTTTTGAGGGGATACTCCAACCCTGGTTTTATTTCCAAAATGCCAATTTTTCACAAT
66 CCCCATTATTTCTAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAAT
*
3284559 CAAGGATACTCCAACCTCGTTATTTCTGAGGGGATACTCCAACCCCTGTTTTATTTCCAAAATGT
131 CAAGGATACTCCAACCTCGTTATTTCTGAGGGGATACTCCAACCCCTGTTTTATCTCCAAAATGT
3284624 CAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTG
196 CAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTG
* * * *
3284666 AGGGGGTACTCTAACCCCGATTTTATTTCCAAAACACCAATCTTT-CACAATT-AGGGATACTCT
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAT-TTTCCACAATTGA-AGATACTCC
* * **
3284729 AACCCCATTATTTCTAAGGTGATACTCCAACCCCGGTTTTATTTCTAAAATACTGATTTTTCACA
64 AACCCCATTATTTCTAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACA
** * * ** *
3284794 AT-TGGGAATACTCTAACC-CTGTTATTTCTGAGGGGGTACTCTGACCCCTTTTTTATCTCCAAA
129 ATCAAGG-ATACTCCAACCTC-GTTATTTCTGAGGGGATACTCCAACCCCTGTTTTATCTCCAAA
3284857 AT
192 AT
3284859 ATTAAATTTT
Statistics
Matches: 167, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
236 4 0.02
237 160 0.96
238 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (237 bp):
AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATTGAAGATACTCCAA
CCCCATTATTTCTAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTTCACAAT
CAAGGATACTCCAACCTCGTTATTTCTGAGGGGATACTCCAACCCCTGTTTTATCTCCAAAATGT
CAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTG
Found at i:3286344 original size:52 final size:52
Alignment explanation
Indices: 3286261--3286363 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
3286251 GATGAGAAGA
* * *
3286261 ATGATAAAGGTGCCAATATGCTAATTCAAGGCTAGCGATATTGGGCTTAAAG
1 ATGACAAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAAG
* * * *
3286313 ATGACAAAGGTGCTAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAA
1 ATGACAAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAA
3286364 AAATGCCAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (52 bp):
ATGACAAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATTGGACTTAAAG
Found at i:3286455 original size:96 final size:96
Alignment explanation
Indices: 3286271--3286456 Score: 221
Period size: 96 Copynumber: 1.9 Consensus size: 96
3286261 ATGATAAAGG
* * ** *
3286271 TGCCAATATGCTAATTCAAGGCTAGCGATATTGGGCTTAAAGATGACAAAGGTGCTAATGTGCTG
1 TGCCAATATACTAATTCAAGGCCAGCGATATTGGGCTTAAAGATGACAAAGGTAATAATGTGATG
* ** *
3286336 ATTCAAGGCTAGTGACATTGGACTTAAAAAA
66 ATTCAAGGCCAGCAACATCGGACTTAAAAAA
* * ** *
3286367 TGCCAATATACTAATTCACA-GCCAGCGATATTGGTCTTAGAGATGGTAGAGGTAATAATGTGAT
1 TGCCAATATACTAATTCA-AGGCCAGCGATATTGGGCTTAAAGATGACAAAGGTAATAATGTGAT
*
3286431 GCTTCAAGGCCAGCAACATCGGACTT
65 GATTCAAGGCCAGCAACATCGGACTT
3286457 GAAGATGAAG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
96 73 0.99
97 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (96 bp):
TGCCAATATACTAATTCAAGGCCAGCGATATTGGGCTTAAAGATGACAAAGGTAATAATGTGATG
ATTCAAGGCCAGCAACATCGGACTTAAAAAA
Found at i:3286942 original size:34 final size:33
Alignment explanation
Indices: 3286862--3286994 Score: 128
Period size: 34 Copynumber: 4.0 Consensus size: 33
3286852 TTGAGGAAAG
*
3286862 AAAGGTTGCCACAAACATGTGGGCTTTTGGAGTGA
1 AAAGGTTGCCACAAACATGTGGGCTTTT-GA-AGA
* * **
3286897 AAA-ATTACCACAGGCATGTGGGCTTTTGAACGA
1 AAAGGTTGCCACAAACATGTGGGCTTTTGAA-GA
*
3286930 AAAGGTTGCCACAAACTTGTGGGCTTTTGAAG-
1 AAAGGTTGCCACAAACATGTGGGCTTTTGAAGA
* *
3286962 -AAGGTTGCCACCAACTTGTGTGGGCTTTTGAAG
1 AAAGGTTGCCACAAAC--ATGTGGGCTTTTGAAG
3286995 GAATTTGTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
31 14 0.17
33 23 0.28
34 42 0.51
35 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (33 bp):
AAAGGTTGCCACAAACATGTGGGCTTTTGAAGA
Found at i:3286989 original size:33 final size:33
Alignment explanation
Indices: 3286642--3286994 Score: 197
Period size: 33 Copynumber: 10.6 Consensus size: 33
3286632 AGATGCCGCT
3286642 AACTTGTGTGGGCTTTTG-AGAAGGTTGCCACC
1 AACTTGTGTGGGCTTTTGAAGAAGGTTGCCACC
* * * * *
3286674 GACTTATGTGGAC-TTTAAAGAAGGTTGCCATC
1 AACTTGTGTGGGCTTTTGAAGAAGGTTGCCACC
** * * * **
3286706 GGCTTGTGTAGGCTTTAGAA-AAGGTTTGCTAGT
1 AACTTGTGTGGGCTTTTGAAGAAGG-TTGCCACC
* * ** *
3286739 GACCTGTGTGGGCTTAGGAAAAAGCG-TGCCACC
1 AACTTGTGTGGGCTTTTGAAGAAG-GTTGCCACC
* * *
3286772 AACTTGAGTGGGCTTTAGAAAAAGGTTGCCACC
1 AACTTGTGTGGGCTTTTGAAGAAGGTTGCCACC
* * **
3286805 AACTTGTGTGGGCTTTGGAAAAAGGTTGCCATT
1 AACTTGTGTGGGCTTTTGAAGAAGGTTGCCACC
* * *
3286838 AACTTCTGTGGGCTTTGAGGAAAGAAAGGTTGCCACA
1 AACTTGTGTGGGCTTT--TG-AAG-AAGGTTGCCACC
* * ** *
3286875 AAC--ATGTGGGCTTTTGGAGTGAAAAATTACCA-C
1 AACTTGTGTGGGCTTTT-GA-AG-AAGGTTGCCACC
* * *
3286908 AGGC--ATGTGGGCTTTTGAACGAAAAGGTTGCCACA
1 A-ACTTGTGTGGGCTTTTGAA-G--AAGGTTGCCACC
3286943 AAC-T-TGTGGGCTTTTGAAGAAGGTTGCCACC
1 AACTTGTGTGGGCTTTTGAAGAAGGTTGCCACC
3286974 AACTTGTGTGGGCTTTTGAAG
1 AACTTGTGTGGGCTTTTGAAG
3286995 GAATTTGTAT
Statistics
Matches: 252, Mismatches: 50, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
31 17 0.07
32 38 0.15
33 119 0.47
34 49 0.19
35 14 0.06
36 2 0.01
37 13 0.05
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (33 bp):
AACTTGTGTGGGCTTTTGAAGAAGGTTGCCACC
Found at i:3294238 original size:32 final size:31
Alignment explanation
Indices: 3294167--3294430 Score: 219
Period size: 32 Copynumber: 8.2 Consensus size: 31
3294157 ATACAAGTCA
* * * *
3294167 GTGGCAACCTTTTTCCAAAGCCCACGCAAGCTG
1 GTGGCAACC-TCTT-CAAAGCTCACACAAGTTG
*
3294200 GTGGCAACCCCTTCAAATGCTCACACAAGTTG
1 GTGGCAACCTCTTCAAA-GCTCACACAAGTTG
*
3294232 GTGGCAACCTTCTTCAAAGC-CTACATAAGTTG
1 GTGGCAACC-TCTTCAAAGCTC-ACACAAGTTG
* *
3294264 GTGGCAACCACTTCAAAAGC-CTACACAAATTG
1 GTGGCAACCTCTTC-AAAGCTC-ACACAAGTTG
* * *
3294296 GCGGTAACCTTCTTCAAAGCTCACACAAGTAG
1 GTGGCAACC-TCTTCAAAGCTCACACAAGTTG
* * * *
3294328 GTAGCAA-CTTTTCCTTAAAGCCCACACAAGCTG
1 GTGGCAACCTCTT-C--AAAGCTCACACAAGTTG
* *
3294361 GTGGTAACCTCTTCAAAAGCTTACACAAGTTG
1 GTGGCAACCTCTTC-AAAGCTCACACAAGTTG
* *
3294393 GTGGCAACCTTTTCAAAAGCCCACACAAGTTG
1 GTGGCAACCTCTTC-AAAGCTCACACAAGTTG
3294425 GTGGCA
1 GTGGCA
3294431 TTTCTTTCTA
Statistics
Matches: 188, Mismatches: 33, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
30 3 0.02
31 11 0.06
32 129 0.69
33 41 0.22
34 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (31 bp):
GTGGCAACCTCTTCAAAGCTCACACAAGTTG
Found at i:3294271 original size:64 final size:64
Alignment explanation
Indices: 3294153--3294430 Score: 267
Period size: 64 Copynumber: 4.3 Consensus size: 64
3294143 CTTCTTAAAG
* ** * * * * *
3294153 GCCCATACAAGTCAGTGGCAACCTTTTTCCAAAGCCCACGCAAGCTGGTGGCAACCCCTTCAAAT
1 GCCCACACAAGTTGGTGGCAACCTTCTT-CAAAGCCTACACAAGTTGGTGGCAACCCCTTCAAAA
* * *
3294218 GCTCACACAAGTTGGTGGCAACCTTCTTCAAAGCCTACATAAGTTGGTGGCAACCACTTCAAAA
1 GCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCTACACAAGTTGGTGGCAACCCCTTCAAAA
* * * * * * *
3294282 GCCTACACAAATTGGCGGTAACCTTCTTCAAAG-CTCACACAAGTAGGTAGCAACTTTTCCTT--
1 GCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCT-ACACAAGTTGGTGGCAAC---CCCTTCA
3294344 AAA
62 AAA
* * * **
3294347 GCCCACACAAGCTGGTGGTAACC-TCTTCAAAAGCTTACACAAGTTGGTGGCAACCTTTTCAAAA
1 GCCCACACAAGTTGGTGGCAACCTTCTTC-AAAGCCTACACAAGTTGGTGGCAACCCCTTCAAAA
3294411 GCCCACACAAGTTGGTGGCA
1 GCCCACACAAGTTGGTGGCA
3294431 TTTCTTTCTA
Statistics
Matches: 172, Mismatches: 33, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
62 2 0.01
63 2 0.01
64 99 0.58
65 65 0.38
66 1 0.01
67 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (64 bp):
GCCCACACAAGTTGGTGGCAACCTTCTTCAAAGCCTACACAAGTTGGTGGCAACCCCTTCAAAA
Found at i:3294363 original size:97 final size:96
Alignment explanation
Indices: 3294202--3294422 Score: 259
Period size: 97 Copynumber: 2.3 Consensus size: 96
3294192 GCAAGCTGGT
* * * * * *
3294202 GGCAACC-CCTTCAAATGCTCACACAAGTTGGTGGCAACCTTCTTCAAAGCCTACATAAGTTGGT
1 GGCAACCTTCTTCAAA-GCTCACACAAGTAGGTAGCAACCTTCTTCAAAGCCCACACAAGCTGGT
3294266 GGCAACCACTTCAAAAGCCTACACAAATTGGC
65 GGCAACCACTTCAAAAGCCTACACAAATTGGC
* *
3294298 GGTAACCTTCTTCAAAGCTCACACAAGTAGGTAGCAACTTTTCCTT-AAAGCCCACACAAGCTGG
1 GGCAACCTTCTTCAAAGCTCACACAAGTAGGTAGCAAC-CTT-CTTCAAAGCCCACACAAGCTGG
* * * * *
3294362 TGGTAACCTCTTCAAAAGCTTACACAAGTTGGT
64 TGGCAACCACTTCAAAAGCCTACACAAATTGGC
*
3294395 GGCAACCTT-TTCAAAAGCCCACACAAGT
1 GGCAACCTTCTTC-AAAGCTCACACAAGT
3294423 TGGTGGCATT
Statistics
Matches: 106, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
96 29 0.27
97 74 0.70
98 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (96 bp):
GGCAACCTTCTTCAAAGCTCACACAAGTAGGTAGCAACCTTCTTCAAAGCCCACACAAGCTGGTG
GCAACCACTTCAAAAGCCTACACAAATTGGC
Found at i:3294675 original size:52 final size:52
Alignment explanation
Indices: 3294589--3294696 Score: 126
Period size: 52 Copynumber: 2.1 Consensus size: 52
3294579 TATATTGGCT
* * * * * * *
3294589 CCTTTGTCATCTTTAAGTCTAATGTCGTTGGCCTTGAATTAACACATTAGCA
1 CCTTAGTCATCTTTAAGCCCAATATCGCTAGCCTTAAATTAACACATTAGCA
* * *
3294641 CCTTAGTCATCTTTAAGCCCAATATCGCTAGCCTTAAATTAGCATATTGGCA
1 CCTTAGTCATCTTTAAGCCCAATATCGCTAGCCTTAAATTAACACATTAGCA
3294693 CCTT
1 CCTT
3294697 TATCATTCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
CCTTAGTCATCTTTAAGCCCAATATCGCTAGCCTTAAATTAACACATTAGCA
Found at i:3294744 original size:61 final size:61
Alignment explanation
Indices: 3294677--3294815 Score: 174
Period size: 61 Copynumber: 2.3 Consensus size: 61
3294667 GCTAGCCTTA
* * *
3294677 AATTAGCATATTGGCACCTTTATCATTCTTCT-CAT-CTTCAAGCTCGATATCGTTGGCCGTG
1 AATTAGCATATTGGCACCTTTATCATTC-TCTGCATCCTT-AAGCTCAATATCGTCGACCGTG
* * * * *
3294738 AATTAGCATATTGGTACCTTTATCATTCTCTGCATCCTTACGTTCAATGTCGTCGACCTTG
1 AATTAGCATATTGGCACCTTTATCATTCTCTGCATCCTTAAGCTCAATATCGTCGACCGTG
3294799 AATTAGCATATTGGCAC
1 AATTAGCATATTGGCAC
3294816 TCTTCTCATC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 3 0.04
61 61 0.91
62 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (61 bp):
AATTAGCATATTGGCACCTTTATCATTCTCTGCATCCTTAAGCTCAATATCGTCGACCGTG
Found at i:3296985 original size:20 final size:20
Alignment explanation
Indices: 3296960--3297034 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
3296950 CTGCCAAGGA
3296960 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
3296980 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
3297000 TTTGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
3297020 TTTGTATCGATACAT
1 AATGTATCGATACAT
3297035 CTGGGAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
20 51 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:3300216 original size:593 final size:591
Alignment explanation
Indices: 3299090--3300272 Score: 1979
Period size: 593 Copynumber: 2.0 Consensus size: 591
3299080 TAGGTACTCG
* *
3299090 GATGTCTCCATGCAATCCCGATCAGTCTTAAAACCTTTTTTGAACCTCATTTAGAGCATGTCAAG
1 GATGTCTCCATGCAATCCCGATCAGTCTTAAAACCCTTTTTGAACCTCATTTAGAGCATCTCAAG
* * *
3299155 GCACAAATGCTTTTACATCTTTAGCGTCTTCATTCACATCATTTCCTTCATCAAAATATTAAAAT
66 ACACAAATACTTTTACATCTTTAGCGTCTTCATTCACATCATTTCCTTCATCAAAATATCAAAAT
* *
3299220 TTTATTCATTGGGGATACTCCAACCCCGTTTTTAAACTTGTCAAGATCATTCTTATTTTTACCTA
131 TTTATTCATCGGGGATACTCCAACCCCATTTTTAAACTTGTCAAGATCATTCTTATTTTTACCTA
* * * * **
3299285 AGTTATCATTGTCGGGGACACTCCAATCCTATTCCTTCGAGGGTACACTCCAACCCTGTTTTCAA
196 AGTTATCATTGTCGGGGACACTCCAACCCCATTCCTCCAAGGGTACACTCCAACCCCATTTTCAA
* * *
3299350 CCAAAAATTAAATTCCATTTTCTCTCTCAAATTTTGAGTCAAATCCATTTTCGGACTTCAATTAA
261 CCAAAAATTAAATTCCATTTTCTCTCCCAAAATTTGAGTCAAATCAATTTTCGGACTTCAATTAA
*
3299415 TCAAAGAATCCAGACAAATCTCTAAGTTGTCAATTCGATTATTTCAAGATAATCGGTGGCAATTA
326 TCAAAGAATCCAGACAAATCTCTAAGTTGTCAATTCGATTATTTCAAGATAATCGGTGGCAACTA
* *
3299480 CGAGATATATTACGACTATTACATTTCCTTTATTCTTCCATGTCCAGCCTAGATAATTCATTTGT
391 CGAGATACATTACGACTACTACATTTCCTTTATTCTTCCATGTCCAGCCTAGATAATTCATTTGT
3299545 ATGAAATATCATATGCTTTTATAACTTTATCAGTATGCTTCCTCCTCATTAATCTTGATGGCACT
456 ATGAAATATCATATGCTTTTATAACTTTATCAGTATGCTTCCTCCTCATTAATCTTGATGGCACT
**
3299610 CATATTTTAAAACTGGTTTACAAAAATTGTAAGGCAATGTTCCGTGTCGATACCTCTTTAGTGCT
521 CATATTTTAAAACTGGTTTACAAAAATTGTAAGGCAA-GTTCCGTGTCGATACCTCTCCAGTGCT
3299675 TGACACA
585 TGACACA
*
3299682 GATGTCTCCATGCAATCCCGATTAGTCTTAAAACCCTTTTTGAACCTCATTTAGAGCATCTCAAG
1 GATGTCTCCATGCAATCCCGATCAGTCTTAAAACCCTTTTTGAACCTCATTTAGAGCATCTCAAG
3299747 ACACAAATACTTTTACATCTTTAGCGTCTTCATTCACATCATTTCCTTCATCAAAAATATCAAAA
66 ACACAAATACTTTTACATCTTTAGCGTCTTCATTCACATCATTTCCTTCATC-AAAATATCAAAA
* *
3299812 TTTTATTCATCGGGGATACTCCAACCCCATTTTTTAACTTGTCAAGATCTTTCTTATTTTTACCT
130 TTTTATTCATCGGGGATACTCCAACCCCATTTTTAAACTTGTCAAGATCATTCTTATTTTTACCT
**
3299877 AAGTTATCATTGTCGGGGACACTTTAACCCCATTCCTCCAAGGGTACACTCCAACCCCATTTTCA
195 AAGTTATCATTGTCGGGGACACTCCAACCCCATTCCTCCAAGGGTACACTCCAACCCCATTTTCA
* *
3299942 ACCAAAAATTAAATTCCGTTTTCTGTCCCAAAATTTGAGTCAAATCAATTTTCGGACTTCAATTA
260 ACCAAAAATTAAATTCCATTTTCTCTCCCAAAATTTGAGTCAAATCAATTTTCGGACTTCAATTA
* **
3300007 ATTAAAGAATCTGGACAAATCTCTAAGTTGTCAATTCGATTATTTCAAGATAATCGGTGGCAACT
325 ATCAAAGAATCCAGACAAATCTCTAAGTTGTCAATTCGATTATTTCAAGATAATCGGTGGCAACT
** * *
3300072 ACGAGATACATTACGACTACTATGTTTCCTTTCTTCTTCCATGTCTAGCCTAGATAATTCATTTG
390 ACGAGATACATTACGACTACTACATTTCCTTTATTCTTCCATGTCCAGCCTAGATAATTCATTTG
** *
3300137 TATGAAATATCATATGCTTTTATCGCTTTATCAGTATGCTTCCTCCTTATTAATCTTGATGGCAC
455 TATGAAATATCATATGCTTTTATAACTTTATCAGTATGCTTCCTCCTCATTAATCTTGATGGCAC
* * *
3300202 TCATGTTTTAAAACTGGTTTACAAAAATTGTAAGGCAAGTTCTGTGTCGGTACCTCTCCAGTGCT
520 TCATATTTTAAAACTGGTTTACAAAAATTGTAAGGCAAGTTCCGTGTCGATACCTCTCCAGTGCT
3300267 TGACAC
585 TGACAC
3300273 GAAATATCCA
Statistics
Matches: 549, Mismatches: 41, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
592 141 0.26
593 408 0.74
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (591 bp):
GATGTCTCCATGCAATCCCGATCAGTCTTAAAACCCTTTTTGAACCTCATTTAGAGCATCTCAAG
ACACAAATACTTTTACATCTTTAGCGTCTTCATTCACATCATTTCCTTCATCAAAATATCAAAAT
TTTATTCATCGGGGATACTCCAACCCCATTTTTAAACTTGTCAAGATCATTCTTATTTTTACCTA
AGTTATCATTGTCGGGGACACTCCAACCCCATTCCTCCAAGGGTACACTCCAACCCCATTTTCAA
CCAAAAATTAAATTCCATTTTCTCTCCCAAAATTTGAGTCAAATCAATTTTCGGACTTCAATTAA
TCAAAGAATCCAGACAAATCTCTAAGTTGTCAATTCGATTATTTCAAGATAATCGGTGGCAACTA
CGAGATACATTACGACTACTACATTTCCTTTATTCTTCCATGTCCAGCCTAGATAATTCATTTGT
ATGAAATATCATATGCTTTTATAACTTTATCAGTATGCTTCCTCCTCATTAATCTTGATGGCACT
CATATTTTAAAACTGGTTTACAAAAATTGTAAGGCAAGTTCCGTGTCGATACCTCTCCAGTGCTT
GACACA
Found at i:3308509 original size:23 final size:20
Alignment explanation
Indices: 3308454--3308530 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
3308444 AAAAACCTAG
3308454 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGAGA
*
3308474 AATGTATCAATACAATGAGGA
1 AATGTATCGATACAATGA-GA
* **
3308495 AGCATGTATCGATACATTGACT
1 A--ATGTATCGATACAATGAGA
*
3308517 AATGTATGGATACA
1 AATGTATCGATACA
3308531 TTTCCTTGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 29 0.60
21 3 0.06
22 1 0.02
23 15 0.31
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:3310226 original size:47 final size:48
Alignment explanation
Indices: 3310124--3310229 Score: 124
Period size: 47 Copynumber: 2.2 Consensus size: 48
3310114 CGATCTAATG
* * ** *
3310124 ATTAATGTATCGATACATCTAGGTTTTTCAGAATGTATTGATACAATG
1 ATTAATGTATCGATACATCTAGGCTTCTCAGAATGTATCAATACAATC
* * * *
3310172 AATAATGTATCGATACATCTGGGCTTCT-AGATTGTATCAATACATTC
1 ATTAATGTATCGATACATCTAGGCTTCTCAGAATGTATCAATACAATC
3310219 ATTAATGTATC
1 ATTAATGTATC
3310230 AATAAATGCA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 24 0.50
48 24 0.50
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (48 bp):
ATTAATGTATCGATACATCTAGGCTTCTCAGAATGTATCAATACAATC
Found at i:3310573 original size:3 final size:3
Alignment explanation
Indices: 3310567--3310634 Score: 63
Period size: 3 Copynumber: 24.0 Consensus size: 3
3310557 TTATTAAAAA
* * * *
3310567 AAT AAT AAT AAT AAA AAT -AT AAT CAT AAT TA- AAT AAA AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
3310612 AAT AA- AAT AAG AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
3310635 TAATTAATTA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 7 0.14
3 44 0.86
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3310588 original size:14 final size:14
Alignment explanation
Indices: 3310564--3310648 Score: 51
Period size: 14 Copynumber: 6.4 Consensus size: 14
3310554 AGGTTATTAA
3310564 AAAAATAATAATAAT
1 AAAAAT-ATAATAAT
*
3310579 AAAAATATAATCAT
1 AAAAATATAATAAT
3310593 ---AAT-T-A-AAT
1 AAAAATATAATAAT
3310601 AAAAATATAATAAT
1 AAAAATATAATAAT
*
3310615 -AAAATAAGAATAAT
1 AAAAAT-ATAATAAT
*
3310629 AATAAT-TAATTAATT
1 AAAAATATAA-TAA-T
3310644 AAAAA
1 AAAAA
3310649 AACCAGATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
8 2 0.04
9 1 0.02
10 1 0.02
11 6 0.11
12 1 0.02
13 8 0.15
14 20 0.37
15 15 0.28
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (14 bp):
AAAAATATAATAAT
Found at i:3310604 original size:39 final size:42
Alignment explanation
Indices: 3310561--3310650 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 42
3310551 GTCAGGTTAT
*
3310561 TAAAAAAATAATAAT-AATAAAAAT-ATAATCA-TAATTAAA
1 TAAAAAAATAATAATAAATAAAAATAATAATAATTAATTAAA
* * *
3310600 TAAAAATATAATAATAAAATAAGAATAATAATAATTAATTAAT
1 TAAAAAAATAATAAT-AAATAAAAATAATAATAATTAATTAAA
3310643 TAAAAAAA
1 TAAAAAAA
3310651 CCAGATTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.33
41 8 0.19
42 6 0.14
43 14 0.33
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (42 bp):
TAAAAAAATAATAATAAATAAAAATAATAATAATTAATTAAA
Found at i:3310768 original size:17 final size:17
Alignment explanation
Indices: 3310746--3310778 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3310736 ATTAGGTGGT
3310746 ATTTCATGCATGCTTTC
1 ATTTCATGCATGCTTTC
3310763 ATTTCATGCATGCTTT
1 ATTTCATGCATGCTTT
3310779 TAGACATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.48
Consensus pattern (17 bp):
ATTTCATGCATGCTTTC
Found at i:3310978 original size:23 final size:23
Alignment explanation
Indices: 3310952--3311005 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
3310942 AATAAGAAGT
*
3310952 AACAGCTGCAATTAAGCTGCTAA
1 AACAGCTGCAATTAAGCTACTAA
**
3310975 AACAGAAGCAATTAAGCTACTAA
1 AACAGCTGCAATTAAGCTACTAA
*
3310998 ACCAGCTG
1 AACAGCTG
3311006 TAACGCAACA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (23 bp):
AACAGCTGCAATTAAGCTACTAA
Found at i:3311192 original size:28 final size:28
Alignment explanation
Indices: 3311135--3311195 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
3311125 AACAAAAAAT
**
3311135 AAAAGAAAAAAAGCAATACAAAGGGAAA
1 AAAAGAAAAAAAGCAATACAAACAGAAA
3311163 AAAAGAAAAAAAGCAAT-CAAAACAGCAAA
1 AAAAGAAAAAAAGCAATAC-AAACAG-AAA
3311192 AAAA
1 AAAA
3311196 AAAGGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 1 0.03
28 21 0.72
29 7 0.24
ACGTcount: A:0.74, C:0.10, G:0.13, T:0.03
Consensus pattern (28 bp):
AAAAGAAAAAAAGCAATACAAACAGAAA
Found at i:3311290 original size:29 final size:29
Alignment explanation
Indices: 3311201--3311301 Score: 77
Period size: 30 Copynumber: 3.5 Consensus size: 29
3311191 AAAAAAAAGG
* * *
3311201 AAAAAAG-AA-AAAGCAATAGTAGCAAAAT
1 AAAAAAGAAACAAAGCAACAATAG-AAAAA
* *
3311229 AAGAAAGAAACCAAA-CATCAA-AGAAAAGGA
1 AAAAAAGAAA-CAAAGCAACAATAGAAAA--A
3311259 AAAAAAGAAACAAAGCAACAATAG-AAAA
1 AAAAAAGAAACAAAGCAACAATAGAAAAA
3311287 AAAAAAGAAAACAAA
1 AAAAAAG-AAACAAA
3311302 AATATAATCA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
28 18 0.31
29 15 0.26
30 20 0.34
31 5 0.09
ACGTcount: A:0.72, C:0.10, G:0.13, T:0.05
Consensus pattern (29 bp):
AAAAAAGAAACAAAGCAACAATAGAAAAA
Found at i:3311305 original size:24 final size:25
Alignment explanation
Indices: 3311257--3311305 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
3311247 CAAAGAAAAG
* *
3311257 GAAAAAAAGAAACAAAGCAACAATA
1 GAAAAAAAGAAACAAAACAAAAATA
*
3311282 GAAAAAAA-AAAGAAAACAAAAATA
1 GAAAAAAAGAAACAAAACAAAAATA
3311306 TAATCAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.78, C:0.08, G:0.10, T:0.04
Consensus pattern (25 bp):
GAAAAAAAGAAACAAAACAAAAATA
Found at i:3315050 original size:42 final size:42
Alignment explanation
Indices: 3314892--3315095 Score: 137
Period size: 42 Copynumber: 4.8 Consensus size: 42
3314882 GACCCTAAAT
* * * *** *
3314892 ACTTTTTTACCTTTAGTCTACCTATCAACTTTGAGC-TTGGAA
1 ACTTCTTTACCTTTAGTTTGCCTATCGGTTTTGA-CATTGAAA
* * * * **
3314934 ACTTCTTGACCTTTAGTTTGCATCTCAGTTTTGACCCT-AGAA
1 ACTTCTTTACCTTTAGTTTGCCTATCGGTTTTGACATTGA-AA
* * * * *
3314976 ATTTCTTTACCTTTTGTTTGCTTGTCGGTTTTGAC-TTTAAA
1 ACTTCTTTACCTTTAGTTTGCCTATCGGTTTTGACATTGAAA
* * *
3315017 GACTTCTTTACCTTTAGTTTACCTATCGTTTTTGACATTGGAA
1 -ACTTCTTTACCTTTAGTTTGCCTATCGGTTTTGACATTGAAA
*
3315060 ACTT-TTATATCCTTTAGTCTGCCTATCGGTTTTGAC
1 ACTTCTT-TA-CCTTTAGTTTGCCTATCGGTTTTGAC
3315096 CCCAGAAACT
Statistics
Matches: 127, Mismatches: 28, Indels: 13
0.76 0.17 0.08
Matches are distributed among these distances:
41 6 0.05
42 94 0.74
43 27 0.21
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (42 bp):
ACTTCTTTACCTTTAGTTTGCCTATCGGTTTTGACATTGAAA
Found at i:3315076 original size:43 final size:43
Alignment explanation
Indices: 3315018--3315118 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 43
3315008 GACTTTAAAG
* * * ***
3315018 ACTTCTTTA-CCTTTAGTTTACCTATCGTTTTTGACATTGGAA
1 ACTTCTATATCCTTTAGTCTACCTATCGGTTTTGACACCAGAA
* * *
3315060 ACTTTTATATCCTTTAGTCTGCCTATCGGTTTTGACCCCAGAA
1 ACTTCTATATCCTTTAGTCTACCTATCGGTTTTGACACCAGAA
3315103 ACTTCTATATCCTTTA
1 ACTTCTATATCCTTTA
3315119 ATCTGCCTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 7 0.15
43 41 0.85
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.45
Consensus pattern (43 bp):
ACTTCTATATCCTTTAGTCTACCTATCGGTTTTGACACCAGAA
Found at i:3315189 original size:42 final size:41
Alignment explanation
Indices: 3315143--3316027 Score: 306
Period size: 42 Copynumber: 21.4 Consensus size: 41
3315133 TATAACACTA
*
3315143 GAGACTTCTTTACCTTTTGTCTACTGGTCGGCTTTGAATCGG
1 GAGACTTCTTTACCTTTTGTCTACT-GTCGGCTTTGAACCGG
** * * * *
3315185 GAGACTTCTTTACCTTTTAACTGCCTGTCAGCTTTGACCCTG
1 GAGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAACCGG
* * * *
3315227 GAGACTACTTTACCTTTTGACTATCCGTCGGCTTTG-ACCAAG
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACC-GG
** ** * ** * * *
3315269 GAGAAATCTTTACCCATTGTCTGCCCATCGACCTT-AACCTGA
1 GAGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAACC-GG
* **
3315311 GAGACTTCTTTACCTTTTGTCTACCTATTAGCTTTG-ACTCGG
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAAC-CGG
* * ***
3315353 GAGACTTCTTTACCTTTTGTCTGCCTATC-GCTTTGATTAGG
1 GAGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAACCGG
* * * * *
3315394 GAGACTTCCTTAACTTTTGTCTGCCTATCGGCTTTG-ACCTAG
1 GAGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAACC-GG
** * * *
3315436 GAGACTTCTTTATGTTTTGTCTGCTTGTCAGCTTTG-ACCTAG
1 GAGACTTCTTTACCTTTTGTCTAC-TGTCGGCTTTGAACC-GG
* ** * *
3315478 GAGGCTTCTTTTTCTTTTGTCTACCTGTTGGCTTTG-ACCGTA
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCG-G
* * * *
3315520 GAGA---CTTT--CTTTT-TCTACCGATTGACTTTG-ACTGG
1 GAGACTTCTTTACCTTTTGTCTACTG-TCGGCTTTGAACCGG
* * * * * * *
3315555 GTAGACTTTTTTACCTTTTGTTTGCCTATCAGCTTT-AGCGTGG
1 G-AGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAAC-CGG
* * * ** **
3315598 GAGGCTTCTTTACCTTTTGTCTGCCTGTAGGCTTTGGCCCTA
1 GAGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAACCGG
* * * * * *
3315640 GAGGCTTCTTTACCTTTTGACAACCTGTCAGCTTTGACCCGA
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCGG
* * * *
3315682 GAGAATTCTTTACCTTTTGTCTACCTGTCGACTTTGACCCGT
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCGG
* * ***
3315724 GAGACTTCTTTACCATTTGTCTGCTTGTCGGCTTTGAGTAGG
1 GAGACTTCTTTACCTTTTGTCTAC-TGTCGGCTTTGAACCGG
* * * * **
3315766 GAGACTTCTTTACCTTTTCTCTACCTATTGGCTTTGACCCAT
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCGG
* * * * * * *
3315808 AAGACTT-TTT-TCTCTTGTCTACGTGTTGGCTTCGACCCTG
1 GAGACTTCTTTACCTTTTGTCTAC-TGTCGGCTTTGAACCGG
* * * *
3315848 GAGA---C-TT--CTTTTGTCTGCCTGTCAGCTTTGAATCGA
1 GAGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAACCGG
* * * * * * *
3315884 AAGACTTTTTTACCCTTTCTCTACCTCTCGACTTTGACCCGG
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCGG
* * * * * *
3315926 TAGACTTCTTTACCTTTTGTCTGCTTGTTGACCTT-AACTCGA
1 GAGACTTCTTTACCTTTTGTCTAC-TGTCGGCTTTGAAC-CGG
* * * **
3315968 GAGACTTCTTTACTTTTTGTCTACCTGTCGACTTTGACCCTA
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCGG
*
3316010 GAGACTTTTATTACCTTT
1 GAGACTTCT-TTACCTTT
3316028 AGTTTGCTTG
Statistics
Matches: 630, Mismatches: 168, Indels: 89
0.71 0.19 0.10
Matches are distributed among these distances:
35 3 0.00
36 39 0.06
37 8 0.01
39 8 0.01
40 26 0.04
41 50 0.08
42 475 0.75
43 21 0.03
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (41 bp):
GAGACTTCTTTACCTTTTGTCTACTGTCGGCTTTGAACCGG
Found at i:3315238 original size:84 final size:83
Alignment explanation
Indices: 3315143--3316046 Score: 418
Period size: 84 Copynumber: 10.9 Consensus size: 83
3315133 TATAACACTA
* **
3315143 GAGACTTCTTTACCTTTTGTCTACTGGTCGGCTTTGAATCGGGAGACTTCTTTACCTTTTAACTG
1 GAGACTTCTTTACCTTTTGTCTACT-GTCGGCTTTGAACCGGGAGACTTCTTTACCTTTTGTCTG
3315208 CCTGTCAGCTTTGACCCTG
65 CCTGTCAGCTTTGACCCTG
* * * * ** **
3315227 GAGACTACTTTACCTTTTGACTATCCGTCGGCTTTG-ACCAAGGAGAAATCTTTACCCATTGTCT
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACC-GGGAGACTTCTTTACCTTTTGTCT
** * *
3315291 GCCCATC-GACCTT-AACCTG
64 GCCTGTCAG-CTTTGACCCTG
* **
3315310 AGAGACTTCTTTACCTTTTGTCTACCTATTAGCTTTG-ACTCGGGAGACTTCTTTACCTTTTGTC
1 -GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAAC-CGGGAGACTTCTTTACCTTTTGTC
* ****
3315374 TGCCTATC-GCTTTGATTAGG
63 TGCCTGTCAGCTTTGACCCTG
* * * * * **
3315394 GAGACTTCCTTAACTTTTGTCTGCCTATCGGCTTTG-ACCTAGGAGACTTCTTTATGTTTTGTCT
1 GAGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAACC-GGGAGACTTCTTTACCTTTTGTCT
*
3315458 GCTTGTCAGCTTTGA-CCTAG
64 GCCTGTCAGCTTTGACCCT-G
* ** * *
3315478 GAGGCTTCTTTTTCTTTTGTCTACCTGTTGGCTTTG-ACCGTAGAGA---CTTT--CTTTT-TCT
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCG-GGAGACTTCTTTACCTTTTGTCT
* *
3315536 ACC-GAT-TGACTTTGA--CTGG
64 GCCTG-TCAG-CTTTGACCCT-G
* * * * * * * *
3315555 GTAGACTTTTTTACCTTTTGTTTGCCTATCAGCTTT-AGCGTGGGAGGCTTCTTTACCTTTTGTC
1 G-AGACTTCTTTACCTTTTGTCT-ACTGTCGGCTTTGAAC-CGGGAGACTTCTTTACCTTTTGTC
* *
3315619 TGCCTGT-AGGCTTTGGCCCTA
63 TGCCTGTCA-GCTTTGACCCTG
* * * * * * * *
3315640 GAGGCTTCTTTACCTTTTGACAACCTGTCAGCTTTGACCCGAGAGAATTCTTTACCTTTTGTCTA
1 GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCGGGAGACTTCTTTACCTTTTGTCTG
3315705 CCTGTC-GACTTTGACCC-G
65 CCTGTCAG-CTTTGACCCTG
* * *** *
3315723 TGAGACTTCTTTACCATTTGTCTGCTTGTCGGCTTTGAGTAGGGAGACTTCTTTACCTTTTCTCT
1 -GAGACTTCTTTACCTTTTGTCTAC-TGTCGGCTTTGAACCGGGAGACTTCTTTACCTTTTGTCT
* * **
3315788 ACCTATTGGCTTTGACCCAT-
64 GCCTGTCAGCTTTGACCC-TG
* * * * * * *
3315808 AAGACTT-TTT-TCTCTTGTCTACGTGTTGGCTTCGACCCTGGAGA---C-TT--CTTTTGTCTG
1 GAGACTTCTTTACCTTTTGTCTAC-TGTCGGCTTTGAACCGGGAGACTTCTTTACCTTTTGTCTG
**
3315865 CCTGTCAGCTTTGAATC-G
65 CCTGTCAGCTTTGACCCTG
* * * * * * * *
3315883 AAAGACTTTTTTACCCTTTCTCTACCTCTCGACTTTGACCCGGTAGACTTCTTTACCTTTTGTCT
1 -GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCGGGAGACTTCTTTACCTTTTGTCT
* * * * *
3315948 GCTTGT-TGACCTTAACTC-G
64 GCCTGTCAG-CTTTGACCCTG
* * * ** * * *
3315967 AGAGACTTCTTTACTTTTTGTCTACCTGTCGACTTTGACCCTAGAGACTTTTATTACCTTTAGTT
1 -GAGACTTCTTTACCTTTTGTCTA-CTGTCGGCTTTGAACCGGGAGACTTCT-TTACCTTTTGTC
*
3316032 TGCTTGTCAGCTTTG
63 TGCCTGTCAGCTTTG
3316047 TTCTCGAAAG
Statistics
Matches: 614, Mismatches: 155, Indels: 101
0.71 0.18 0.12
Matches are distributed among these distances:
76 27 0.04
77 9 0.01
78 63 0.10
79 7 0.01
81 9 0.01
82 26 0.04
83 80 0.13
84 362 0.59
85 28 0.05
86 3 0.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (83 bp):
GAGACTTCTTTACCTTTTGTCTACTGTCGGCTTTGAACCGGGAGACTTCTTTACCTTTTGTCTGC
CTGTCAGCTTTGACCCTG
Found at i:3315651 original size:204 final size:203
Alignment explanation
Indices: 3315143--3315734 Score: 497
Period size: 204 Copynumber: 2.9 Consensus size: 203
3315133 TATAACACTA
* * * * * * **
3315143 GAGACTTCTTTACCTTTTGTCT-ACTGGTCGGCTTTGAATCGGGAGACTTCTTTACCTTTTAACT
1 GAGACTTCTTTACCTTTTGTCTGCCT-ATC-GCTTTGAGTAGGGAGACTTCCTTAACTTTTGTCT
* * * *
3315207 GCCTGTCA-GCTTTGACCCT-GGAGACTACTTTACCTTTTGACTATCC-GTCGGCTTTGACCA-A
64 GCCTAT-AGGCTTTGA-CCTAGGAGACTTCTTTACCTTTTGAC-AACCTGTCAGCTTTGACCAGA
* ** * ** * * * *
3315268 GGAGAAATCTTTACCCATTGTCTGCCCATCGACCTTAACCTGAGAGACTTCTTTACCTTTTGTCT
126 -GAGAATTCTTTACCTTTTGTCTACCTGTCGACTTTGACCCGTGAGA---C-TT--CTTTTGTCT
*
3315333 ACCTATTAGCTTTGACTCGG
184 ACCGATTAGCTTTGACTCGG
*
3315353 GAGACTTCTTTACCTTTTGTCTGCCTATCGCTTTGATTAGGGAGACTTCCTTAACTTTTGTCTGC
1 GAGACTTCTTTACCTTTTGTCTGCCTATCGCTTTGAGTAGGGAGACTTCCTTAACTTTTGTCTGC
* ** * ** * *
3315418 CTATCGGCTTTGACCTAGGAGACTTCTTTATGTTTTGTCTGCTTGTCAGCTTTGACCTAG-GAGG
66 CTATAGGCTTTGACCTAGGAGACTTCTTTACCTTTTGACAACCTGTCAGCTTTGACC-AGAGAGA
* ** * *
3315482 CTTCTTTTTCTTTTGTCTACCTGTTGGCTTTGA-CCGTAGAGACTTTCTTTT-TCTACCGATT-G
130 ATTCTTTACCTTTTGTCTACCTGTCGACTTTGACCCGT-GAGAC-TTCTTTTGTCTACCGATTAG
3315544 ACTTTGACT-GG
193 -CTTTGACTCGG
* * * * * *
3315555 GTAGACTTTTTTACCTTTTGTTTGCCTATCAGCTTTAGCGT-GGGAGGCTTCTTTACCTTTTGTC
1 G-AGACTTCTTTACCTTTTGTCTGCCTATC-GCTTT-GAGTAGGGAGACTTCCTTAACTTTTGTC
* * * *
3315619 TGCCTGTAGGCTTTGGCCCTA-GAGGCTTCTTTACCTTTTGACAACCTGTCAGCTTTGACCCGAG
63 TGCCTATAGGCTTT-GACCTAGGAGACTTCTTTACCTTTTGACAACCTGTCAGCTTTGACCAGAG
3315683 AGAATTCTTTACCTTTTGTCTACCTGTCGACTTTGACCCGTGAGACTTCTTT
127 AGAATTCTTTACCTTTTGTCTACCTGTCGACTTTGACCCGTGAGACTTCTTT
3315735 ACCATTTGTC
Statistics
Matches: 309, Mismatches: 59, Indels: 35
0.77 0.15 0.09
Matches are distributed among these distances:
202 4 0.01
203 50 0.16
204 110 0.36
205 11 0.04
206 4 0.01
208 6 0.02
209 97 0.31
210 25 0.08
211 2 0.01
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.40
Consensus pattern (203 bp):
GAGACTTCTTTACCTTTTGTCTGCCTATCGCTTTGAGTAGGGAGACTTCCTTAACTTTTGTCTGC
CTATAGGCTTTGACCTAGGAGACTTCTTTACCTTTTGACAACCTGTCAGCTTTGACCAGAGAGAA
TTCTTTACCTTTTGTCTACCTGTCGACTTTGACCCGTGAGACTTCTTTTGTCTACCGATTAGCTT
TGACTCGG
Found at i:3315800 original size:126 final size:126
Alignment explanation
Indices: 3315143--3316004 Score: 473
Period size: 126 Copynumber: 7.0 Consensus size: 126
3315133 TATAACACTA
* * ** * **
3315143 GAGACTTCTTTACCTTTTGTCTA-CTGGTCGGCTTTGAATCGGGAGACTTCTTTACCTTTTAACT
1 GAGACTTCTTTACCTTTTCTCTACCT-ATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCT
* * * * **
3315207 GCCTGTC-AGCTTTGACCC-TGGAGACTACTTTACCTTTTGACTATCC-GTCGGCTTTGACCAAG
65 ACCTGTCGAGCTTTGACCCGT-GAGACTTCTTTACCTTTTGTCT-GCCTGTCGGCTTTGA-GTAG
** ** * * * * * * *
3315269 GAGAAATCTTTACCCATTGTCTGCCCATCGACCTTAACCTGAGAGACTTCTTTACCTTTTGTCTA
1 GAGACTTCTTTACCTTTTCTCTACCTATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTA
* * * * * *
3315334 CCTAT-TAGCTTTGACTCGGGAGACTTCTTTACCTTTTGTCTGCCTATC-GCTTTGATTAGG
66 CCTGTCGAGCTTTGACCCGTGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGAGTA-G
* * * * * **
3315394 GAGACTTCCTTAACTTTTGTCTGCCTATCGGCTTTGA-CCTAGGAGACTTCTTTATGTTTTGTCT
1 GAGACTTCTTTACCTTTTCTCTACCTATCGGCTTTGACCCGA-GAGACTTCTTTACCTTTTGTCT
* * * * ** * *
3315458 GCTTGTC-AGCTTTGACCTAG-GAGGCTTCTTTTTCTTTTGTCTACCTGTTGGCTTTGACCGTA-
65 ACCTGTCGAGCTTTGACC-CGTGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGA--GTAG
* * * * * * *
3315520 GAGA---CTTT--CTTTT-TCTACCGATTGACTTTGA-CTGGGTAGACTTTTTTACCTTTTGTTT
1 GAGACTTCTTTACCTTTTCTCTACCTATCGGCTTTGACCCGAG-AGACTTCTTTACCTTTTGTCT
* * * * *
3315578 GCCTATC-AGCTTT-A-GCGTGGGAGGCTTCTTTACCTTTTGTCTGCCTGTAGGCTTTG-GCCCT
65 ACCTGTCGAGCTTTGACCCGT--GAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGAG---T
3315639 A-
125 AG
* ** * * * *
3315640 GAGGCTTCTTTACCTTTTGACAACCTGTCAGCTTTGACCCGAGAGAATTCTTTACCTTTTGTCTA
1 GAGACTTCTTTACCTTTTCTCTACCTATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTA
* *
3315705 CCTGTCGA-CTTTGACCCGTGAGACTTCTTTACCATTTGTCTGCTTGTCGGCTTTGAGTAGG
66 CCTGTCGAGCTTTGACCCGTGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGAGTA-G
* * * *
3315766 GAGACTTCTTTACCTTTTCTCTACCTATTGGCTTTGACCC-ATAAGACTT-TTT-TCTCTTGTCT
1 GAGACTTCTTTACCTTTTCTCTACCTATCGGCTTTGACCCGA-GAGACTTCTTTACCTTTTGTCT
* * * * * *
3315828 ACGTGTTG-GCTTCGACCC-TGGAGA---C-TT--CTTTTGTCTGCCTGTCAGCTTTGAATCG
65 ACCTGTCGAGCTTTGACCCGT-GAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGAGTAG
* * * * *
3315883 AAAGACTTTTTTACCCTTTCTCTACCTCTCGACTTTGACCCG-GTAGACTTCTTTACCTTTTGTC
1 -GAGACTTCTTTACCTTTTCTCTACCTATCGGCTTTGACCCGAG-AGACTTCTTTACCTTTTGTC
* * * * * * * * * *
3315947 TGCTTGTTGA-CCTTAACTCGAGAGACTTCTTTACTTTTTGTCTACCTGTCGACTTTGA
64 TACCTGTCGAGCTTTGACCCGTGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGA
3316005 CCCTAGAGAC
Statistics
Matches: 558, Mismatches: 131, Indels: 94
0.71 0.17 0.12
Matches are distributed among these distances:
117 3 0.01
118 62 0.11
119 5 0.01
120 105 0.19
121 6 0.01
123 9 0.02
124 33 0.06
125 101 0.18
126 222 0.40
127 7 0.01
128 5 0.01
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (126 bp):
GAGACTTCTTTACCTTTTCTCTACCTATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTA
CCTGTCGAGCTTTGACCCGTGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGAGTAG
Found at i:3319869 original size:49 final size:51
Alignment explanation
Indices: 3319766--3320093 Score: 322
Period size: 52 Copynumber: 6.4 Consensus size: 51
3319756 CAACAATTAT
** * *
3319766 TGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCTAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCACC-TTGTCATCTTTAAGTCCAATATCGC
* *
3319818 TGGCCTTGAATCAGCACATTGGCACC-T-TCATCTTTAAGTCCAATATTGC
1 TGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATATCGC
* * *
3319867 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCAAATATCAC
1 TGGCCTTGAATCAGCATATTGGCACC-TTGTCATCTTTAAGTCCAATATCGC
* * * *
3319919 TAGCCTTGAATCAGCATATTGGCACC--CTCATCTTTAATTCCAGTATCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATATCGC
* ** * *
3319968 TGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTT-GTCATCTTT-AAGTCCAATATCGC
* * * * * * *
3320021 TGGCCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCA-CCTTGTCATCTTTAAGTCCAATATCGC
* * * *
3320073 TGACCGTAAATCAGCACATTG
1 TGGCCTTGAATCAGCATATTG
3320094 ACATCCTTTT
Statistics
Matches: 228, Mismatches: 40, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
49 85 0.37
50 1 0.00
51 1 0.00
52 101 0.44
53 37 0.16
54 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (51 bp):
TGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAATATCGC
Found at i:3319896 original size:101 final size:101
Alignment explanation
Indices: 3319766--3320044 Score: 405
Period size: 101 Copynumber: 2.8 Consensus size: 101
3319756 CAACAATTAT
* *
3319766 TGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCA
1 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCAAATGTCGCTGGCCTTGAATCA
* *
3319831 GCACATTGGCACCTTCATCTTTAAGTCCAATATTGC
66 GCACATTGGCACCCTCATCTTTAAGTCCAATATCGC
* * *
3319867 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCAAATATCACTAGCCTTGAATCA
1 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCAAATGTCGCTGGCCTTGAATCA
* * *
3319932 GCATATTGGCACCCTCATCTTTAATTCCAGTATCGC
66 GCACATTGGCACCCTCATCTTTAAGTCCAATATCGC
* ** * * *
3319968 TGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATT
1 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT-AAGTCAAATGTCGCTGGCCTTGAATC
3320033 AGCACATTGGCA
65 AGCACATTGGCA
3320045 TTCTTCTCAT
Statistics
Matches: 157, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 128 0.82
102 29 0.18
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (101 bp):
TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCAAATGTCGCTGGCCTTGAATCA
GCACATTGGCACCCTCATCTTTAAGTCCAATATCGC
Found at i:3319925 original size:52 final size:52
Alignment explanation
Indices: 3319766--3320043 Score: 325
Period size: 49 Copynumber: 5.4 Consensus size: 52
3319756 CAACAATTAT
* * *
3319766 TGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCTAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGC
* * *
3319818 TGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATATTGC
1 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGC
* *
3319867 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCAAATATCAC
1 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGC
* * * * *
3319919 TAGCCTTGAATCAGCATATTGGCACC---CTCATCTTTAATTCCAGTATCGC
1 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGC
* ** * *
3319968 TGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT-AAGTCCAATATCGC
* *
3320021 TGGCCTTGAATTAGCACATTGGC
1 TGGCCTTGAATCAGCATATTGGC
3320044 ATTCTTCTCA
Statistics
Matches: 191, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
49 85 0.45
50 1 0.01
51 1 0.01
52 74 0.39
53 30 0.16
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (52 bp):
TGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATATCGC
Found at i:3320140 original size:55 final size:53
Alignment explanation
Indices: 3319993--3320140 Score: 129
Period size: 52 Copynumber: 2.8 Consensus size: 53
3319983 ATATTGGCGC
* * * * *
3319993 CTTCGTCATCTTTAAAACCCAATGTCGTTGGCCTTGAATTAGCACATTGGCATT
1 CTTC-TCATCCTTAAAACCTAATGTCGTTGGCCGTGAATCAGCACATTGACATT
* ** * * *
3320047 CTTCTCAT-CTTCAAGTCTAATGTCGCTGACCGTAAATCAGCACATTGACATCCTT
1 CTTCTCATCCTTAAAACCTAATGTCGTTGGCCGTGAATCAGCACATTGACA---TT
* *
3320102 TTTCTCATCCTT-AAACCTAATATCGTTGGCCGTGAATCA
1 CTTCTCATCCTTAAAACCTAATGTCGTTGGCCGTGAATCA
3320141 ACATATTGGT
Statistics
Matches: 72, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
52 31 0.43
53 4 0.06
54 4 0.06
55 30 0.42
56 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (53 bp):
CTTCTCATCCTTAAAACCTAATGTCGTTGGCCGTGAATCAGCACATTGACATT
Found at i:3320819 original size:13 final size:13
Alignment explanation
Indices: 3320797--3320844 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
3320787 ACATAAGTTT
3320797 TGTATCGATACAA
1 TGTATCGATACAA
*
3320810 TGTATTGATACATAA
1 TGTATCGATAC--AA
3320825 GTTGTATCGATACAA
1 --TGTATCGATACAA
3320840 TGTAT
1 TGTAT
3320845 TGCTACGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 15 0.52
15 4 0.14
17 10 0.34
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3320832 original size:30 final size:31
Alignment explanation
Indices: 3320784--3320846 Score: 110
Period size: 30 Copynumber: 2.0 Consensus size: 31
3320774 TAAATTTATC
3320784 GATACATAAGTTTTGTATCGATACAATGTATT
1 GATACATAAG-TTTGTATCGATACAATGTATT
3320816 GATACATAAG-TTGTATCGATACAATGTATT
1 GATACATAAGTTTGTATCGATACAATGTATT
3320846 G
1 G
3320847 CTACGAAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 21 0.68
32 10 0.32
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (31 bp):
GATACATAAGTTTGTATCGATACAATGTATT
Found at i:3320836 original size:17 final size:17
Alignment explanation
Indices: 3320780--3320838 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
3320770 TCAGTAAATT
3320780 TATCGATACATAAGTTTTG
1 TATCGATACATAAG--TTG
3320799 TATCGATAC--AA--TG
1 TATCGATACATAAGTTG
*
3320812 TATTGATACATAAGTTG
1 TATCGATACATAAGTTG
3320829 TATCGATACA
1 TATCGATACA
3320839 ATGTATTGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
17 13 0.38
19 9 0.26
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (17 bp):
TATCGATACATAAGTTG
Found at i:3320889 original size:21 final size:21
Alignment explanation
Indices: 3320863--3320903 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3320853 AGCTACTACC
3320863 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
*
3320884 AAGGAAGTGTATCGATACAT
1 AAGGAAATGTATCGATACAT
3320904 CGATCTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:3323304 original size:52 final size:52
Alignment explanation
Indices: 3323245--3323381 Score: 204
Period size: 52 Copynumber: 2.6 Consensus size: 52
3323235 TTAAGTTTCT
**
3323245 CAATTTTTCATAATCGAGGG-TACTCCAACCCCGATTTTATTTTTAAAAACAC
1 CAATTTTTCATAATCG-GGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* *
3323297 TAATTTTTCATAATAGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* *
3323349 CAATTTTTTACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCATAATCGGGGATACTCCAACCCCG
3323382 TTAATCATCG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
51 3 0.04
52 73 0.96
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:3323431 original size:28 final size:27
Alignment explanation
Indices: 3323361--3323435 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
3323351 ATTTTTTACA
3323361 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
3323388 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
3323414 TTCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
3323436 AACTTTATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.52
28 17 0.39
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:3323475 original size:79 final size:79
Alignment explanation
Indices: 3323392--3323749 Score: 472
Period size: 79 Copynumber: 4.5 Consensus size: 79
3323382 TTAATCATCG
**
3323392 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTCCTAAAATATTG
*
3323457 ATTTCTCATAATCA
66 ATTTCTCACAATCA
* * * * * *
3323471 GGGATACTCCAACCCCGTTATTTCCAAAGGGATACT-TAAACCCAGTTTTATTCTTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTCCTAAAATATTG
3323535 ATTTCTCACAATC-
66 ATTTCTCACAATCA
* * * *
3323548 GGGAATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTCTTAAAATATT
1 GGG-ATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTCCTAAAATATT
3323613 GATTTCTCACAATCA
65 GATTTCTCACAATCA
* * *
3323628 GGGATACTCCAACCTCGTTA-TTTCTGAGGGGATACTTCAACCCCGGTTTTATTCCTAAAATATT
1 GGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCAGTTTTATTCCTAAAATATT
* **
3323692 GATTTCTCATAATTG
65 GATTTCTCACAATCA
* *
3323707 GGGATACTCCAACCCCATTATTTTC-ACGGGGGTACTCCAACCC
1 GGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCC
3323750 TTATTCTATT
Statistics
Matches: 246, Mismatches: 27, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
77 3 0.01
78 70 0.28
79 166 0.67
80 7 0.03
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTCCTAAAATATTG
ATTTCTCACAATCA
Found at i:3323562 original size:157 final size:158
Alignment explanation
Indices: 3323388--3323749 Score: 530
Period size: 157 Copynumber: 2.3 Consensus size: 158
3323378 CCCGTTAATC
3323388 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCTAAAAT
*
3323453 ATTGATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTT-AAACCCAGT
66 ATTGATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTTCAAACCCAGT
*
3323517 TTTATTCTTAAAATATTGATTTCTCACA
131 TTTATTCCTAAAATATTGATTTCTCACA
* * * *** *
3323545 ATCGGGAATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTCTTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCTAAAAT
* ** * * *
3323610 ATTGATTTCTCACAATCAGGGATACTCCAACCTCGTTATTTCTGAGGGGATACTTCAACCCCGGT
66 ATTGATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTTCAAACCCAGT
*
3323675 TTTATTCCTAAAATATTGATTTCTCATA
131 TTTATTCCTAAAATATTGATTTCTCACA
* * *
3323703 ATTGGGGATACTCCAACCCCATTATTTTC-ACGGGGGTACTCCAACCC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCC
3323750 TTATTCTATT
Statistics
Matches: 181, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
157 109 0.60
158 72 0.40
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (158 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTCCTAAAAT
ATTGATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTTCAAACCCAGT
TTTATTCCTAAAATATTGATTTCTCACA
Found at i:3324928 original size:13 final size:13
Alignment explanation
Indices: 3324910--3324934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3324900 AACATGTAAC
3324910 TGTATCGATACAA
1 TGTATCGATACAA
3324923 TGTATCGATACA
1 TGTATCGATACA
3324935 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3340230 original size:28 final size:28
Alignment explanation
Indices: 3340190--3340266 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
3340180 TCTCATAATC
*
3340190 GGGGATACTCCAACCCCGTTATCTCCGA
1 GGGGATACTCCAACCCCGTTATCTCCAA
* *
3340218 GGGGATACTCCAACCCCGTTATTTTCAA
1 GGGGATACTCCAACCCCGTTATCTCCAA
*
3340246 GGGGATACTCGAACCCCGTTA
1 GGGGATACTCCAACCCCGTTA
3340267 CTATCTCCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATCTCCAA
Found at i:3342326 original size:4 final size:4
Alignment explanation
Indices: 3342317--3342343 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3342307 TTTTGAGGTG
3342317 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
3342344 GTTTGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:3351262 original size:32 final size:32
Alignment explanation
Indices: 3351215--3351292 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
3351205 GCAGTAGCTT
* * *
3351215 TGTAGCGATAGATTGTATCGATACAATACCTA
1 TGTATCGATACATTGTATCGATACAACACCTA
* *
3351247 TGTATCGATACATTGTATCGATACAACACTTG
1 TGTATCGATACATTGTATCGATACAACACCTA
*
3351279 TTTATCGATACATT
1 TGTATCGATACATT
3351293 TACTGTTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACCTA
Found at i:3351265 original size:13 final size:13
Alignment explanation
Indices: 3351247--3351271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3351237 ACAATACCTA
3351247 TGTATCGATACAT
1 TGTATCGATACAT
3351260 TGTATCGATACA
1 TGTATCGATACA
3351272 ACACTTGTTT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3352228 original size:49 final size:49
Alignment explanation
Indices: 3352163--3352725 Score: 443
Period size: 52 Copynumber: 11.7 Consensus size: 49
3352153 ATGTTAAAGA
* ** *
3352163 TGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGC
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
3352212 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGG
* * * * *
3352264 TGCCAATGTGTTGATTCAAGGCCAGTGATATTGGACTTTAACATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
3352313 TGCCAATGTACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
3352362 TGCCAATGTACTGATTCAAGGCCAGCAACATTGGACTTAAAGATGGCAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGG
* * *
3352414 CGCCAATATGCTGATTTAAGGCCAGCGATATTGGAC-T-----T----G
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
3352453 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
3352501 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
3352540 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * *
3352588 TGCCAATATGCTGATGC-AGGACCAGTGATATTGGGCTTAAAGATGCGAAGAA
1 TGCCAATGTGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGAT--GAAG-G
** * * * * * *
3352640 TGAAAATGTGCTGATTCACGGTCAGTGACATTAGACTTAAAGATGAAAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG--AAG-G
* *
3352692 TGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGG
3352726 GTTAAGGAAT
Statistics
Matches: 413, Mismatches: 66, Indels: 67
0.76 0.12 0.12
Matches are distributed among these distances:
39 64 0.15
40 2 0.00
41 1 0.00
46 2 0.00
47 4 0.01
48 66 0.16
49 125 0.30
50 3 0.01
51 4 0.01
52 140 0.34
53 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:3352251 original size:101 final size:100
Alignment explanation
Indices: 3352111--3352765 Score: 404
Period size: 101 Copynumber: 6.7 Consensus size: 100
3352101 TGAAGAAGAA
** * * * *
3352111 TGCCAATGTGCTGAGACAA-GCCTAGCAACATTGGGCTT-AAGAATGTTAAAGATGCCAATATGC
1 TGCCAATGTGCTGATTCAAGGCC-AGCGACATTGGACTTAAAG-ATGTT-AAGGTGCCAATGTGC
*
3352174 TGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGC
63 TGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGC
* * *
3352212 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGTTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-GTTAAGGTGCCAATGTGCTG
* * * *
3352277 ATTCAAGGCCAGTGATATTGGACTTTAACATAAAGG
65 ATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGC
* * * *
3352313 TGCCAATGTACTGATTCAAGGCCAACGATATTGGACTTAAAGATG--AAGGTGCCAATGTACTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTTAAGGTGCCAATGTGCTGA
** *
3352376 TTCAAGGCCAGCAACATTGGACTTAAAGATGGCAAAGGC
66 TTCAAGGCCAGTGATATTGGACTTAAAGAT-G--AA-GC
* * * *
3352415 -GCCAATATGCTGATTTAAGGCCAGCGATATTGGAC---------TT---GTGCCAATGTGCTAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTTAAGGTGCCAATGTGCTGA
* * * * *
3352467 TTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
66 TTCAAGGCCAGTGATATTGGACTTAAAGATGAAGC
* * *
3352501 TGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------G--CTT-A--TGCCAATGTGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTTAAGGTGCCAATGTGCTGA
* * * * * *
3352554 TTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGG
66 TTCAAGGCCAGTGATATTGGACTTAAAGATGAAGC
* * * * * ** * **
3352588 TGCCAATATGCTGATGC-AGGACCAGTGATATTGGGCTTAAAGATGCGAAGAATGAAAATGTGCT
1 TGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGTTAAG-GTGCCAATGTGCT
* * * * *
3352652 GATTCACGGTCAGTGACATTAGACTTAAAGATGAAAAGAA
64 GATTCAAGGCCAGTGATATTGGACTTAAAGATG--AAG-C
* * * ** *
3352692 TGCCAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAGGAATGTTAAAAATGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGTT-AAGGTGCCAATGTGCT
3352756 GATTCAAGGC
64 GATTCAAGGC
3352766 TGTAGACACT
Statistics
Matches: 450, Mismatches: 70, Indels: 65
0.77 0.12 0.11
Matches are distributed among these distances:
86 4 0.01
87 110 0.24
91 40 0.09
94 1 0.00
97 1 0.00
98 41 0.09
100 36 0.08
101 148 0.33
102 10 0.02
103 8 0.02
104 46 0.10
105 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (100 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTTAAGGTGCCAATGTGCTGA
TTCAAGGCCAGTGATATTGGACTTAAAGATGAAGC
Found at i:3352332 original size:150 final size:150
Alignment explanation
Indices: 3352157--3352451 Score: 446
Period size: 150 Copynumber: 2.0 Consensus size: 150
3352147 TTAAGAATGT
* * *
3352157 TAAAGATGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGCTGCCAATGTG
1 TAAAGATGCCAATATACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGCTGCCAATGTA
* * * ** * * *
3352222 TTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGTTGATTCAAGGCC
66 CTGATTCAAGGCCAGCAACATTGGACTTAAAGATGGCAAAGGCGCCAATATGCTGATTCAAGGCC
*
3352287 AGTGATATTGGACTTTAACA
131 AGCGATATTGGACTTTAACA
* * *
3352307 TAAAGGTGCCAATGTACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTA
1 TAAAGATGCCAATATACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGCTGCCAATGTA
*
3352372 CTGATTCAAGGCCAGCAACATTGGACTTAAAGATGGCAAAGGCGCCAATATGCTGATTTAAGGCC
66 CTGATTCAAGGCCAGCAACATTGGACTTAAAGATGGCAAAGGCGCCAATATGCTGATTCAAGGCC
3352437 AGCGATATTGGACTT
131 AGCGATATTGGACTT
3352452 GTGCCAATGT
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
150 129 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (150 bp):
TAAAGATGCCAATATACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGCTGCCAATGTA
CTGATTCAAGGCCAGCAACATTGGACTTAAAGATGGCAAAGGCGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTTAACA
Found at i:3352474 original size:39 final size:39
Alignment explanation
Indices: 3352415--3352573 Score: 156
Period size: 39 Copynumber: 3.8 Consensus size: 39
3352405 TGGCAAAGGC
* *
3352415 GCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTGT
* * *
3352454 GCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT---------GT
* * *
3352502 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTGT
*
3352541 GCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG
3352574 TCTTAGAGAC
Statistics
Matches: 99, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
39 64 0.65
48 35 0.35
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTGT
Found at i:3352523 original size:48 final size:48
Alignment explanation
Indices: 3352452--3352730 Score: 211
Period size: 48 Copynumber: 5.9 Consensus size: 48
3352442 TATTGGACTT
* *
3352452 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAG
* *
3352500 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A-
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAG
* *
3352540 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAG
* * * *
3352587 GTGCCAATATGCTGATGC-AGGACCAGTGATATTGGGCTTAAAGATGCGAAG
1 GTGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGGCTTAAAGA--C-AAG
* ** * * * * * *
3352638 AATGAAAATGTGCTGATTCACGGTCAGTGACATTAGACTTAAAGATGAAAAG
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT-AA-A-GACAAG
* *
3352690 AATGCCAATGTGCTGATTCAAGGCCAACGACATTGGG-TTAA
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAA
3352731 GGAATGTTAA
Statistics
Matches: 181, Mismatches: 32, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
39 35 0.19
41 1 0.01
46 1 0.01
47 3 0.02
48 68 0.38
50 3 0.02
51 5 0.03
52 58 0.32
53 4 0.02
54 1 0.01
55 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (48 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAG
Found at i:3352545 original size:87 final size:87
Alignment explanation
Indices: 3352362--3352626 Score: 379
Period size: 87 Copynumber: 3.0 Consensus size: 87
3352352 AAGATGAAGG
* * * *
3352362 TGCCAATGTACTGATTCAAGGCCAGCAACATTGGACTTAAAGATGGCAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA---C-AAGGTGCCAATATGCTG
* * *
3352427 ATTTAAGGCCAGCGATATTGGACTTG
62 ATTCAAGGCCAGCGATATTGGGCTTA
*
3352453 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
3352518 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGGCTTA
* *
3352540 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATGC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
3352605 -AGGACCAGTGATATTGGGCTTA
66 AAGG-CCAGCGATATTGGGCTTA
3352627 AAGATGCGAA
Statistics
Matches: 161, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
86 3 0.02
87 118 0.73
88 1 0.01
91 39 0.24
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTA
Found at i:3352722 original size:52 final size:52
Alignment explanation
Indices: 3352539--3352765 Score: 198
Period size: 52 Copynumber: 4.4 Consensus size: 52
3352529 TATTGGGCTT
* *
3352539 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AGA-GACAAG-
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAAAGA
* * * * * **
3352587 GTGCCAATATGCTGATGC-AGGACCAGTGATATTGGGCTTAAAGATGCGAAGA
1 ATGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGGCTTAAAGATGAAAAGA
** * * * * *
3352639 ATGAAAATGTGCTGATTCACGGTCAGTGACATTAGACTTAAAGATGAAAAGA
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAAAGA
* * *
3352691 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGG-TTAAGGAATGTTAAA-A
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAG-ATG-AAAAGA
*
3352743 ATGCCAATATGCTGATTCAAGGC
1 ATGCCAATGTGCTGATTCAAGGC
3352766 TGTAGACACT
Statistics
Matches: 140, Mismatches: 31, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
47 3 0.02
48 29 0.21
50 3 0.02
51 9 0.06
52 91 0.65
53 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (52 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAAAGA
Found at i:3352978 original size:21 final size:20
Alignment explanation
Indices: 3352948--3352986 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
3352938 CACATTTTTG
3352948 TCCAAATGTATCGATACATT
1 TCCAAATGTATCGATACATT
3352968 TCCAGAATGTATCGATACA
1 TCCA-AATGTATCGATACA
3352987 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (20 bp):
TCCAAATGTATCGATACATT
Found at i:3353060 original size:13 final size:13
Alignment explanation
Indices: 3353042--3353162 Score: 62
Period size: 13 Copynumber: 7.9 Consensus size: 13
3353032 ACATAAGTGT
3353042 TGTATCGATACAA
1 TGTATCGATACAA
3353055 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
3353070 GTGTTGTATCGATATAA
1 ----TGTATCGATACAA
3353087 TGTATCGATACATAA
1 TGTATCGATAC--AA
3353102 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3353119 TGTATCGATACATAA
1 TGTATCGATAC--AA
3353134 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
3353151 TATATCGATACA
1 TGTATCGATACA
3353163 TAAGTTTTGT
Statistics
Matches: 87, Mismatches: 3, Indels: 36
0.69 0.02 0.29
Matches are distributed among these distances:
13 43 0.49
15 6 0.07
17 6 0.07
19 32 0.37
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3353060 original size:32 final size:32
Alignment explanation
Indices: 3353023--3353189 Score: 307
Period size: 32 Copynumber: 5.2 Consensus size: 32
3353013 TTCAACAATT
3353023 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3353055 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3353087 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3353119 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
3353151 TATATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3353183 TGTATCG
1 TGTATCG
3353190 CTACGAAGCT
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 130 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3353245 original size:96 final size:96
Alignment explanation
Indices: 3353023--3353225 Score: 279
Period size: 96 Copynumber: 2.1 Consensus size: 96
3353013 TTCAACAATT
* *
3353023 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATATAAT
1 TGTATCGATACATAAGTGTTGTATCGATACAATATATCGATACATAAGTGTTGTATCGATACAAT
* ** * *
3353088 GTATCGATACATAAGTGTTGTATCGATACAA
66 GTATCGATACAGAAGTACTGTATAGAGACAA
*
3353119 TGTATCGATACATAAGTGTTGTATCGATACAATATATCGATACATAAGTTTTGTATCGATACAAT
1 TGTATCGATACATAAGTGTTGTATCGATACAATATATCGATACATAAGTGTTGTATCGATACAAT
*
3353184 GTATCGCTAC-GAAGCTACTGCTA-AG-GA-AA
66 GTATCGATACAGAAG-TACTG-TATAGAGACAA
3353213 TGTATCGATACAT
1 TGTATCGATACAT
3353226 TTGATCTTTG
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
94 15 0.16
95 4 0.04
96 75 0.78
97 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (96 bp):
TGTATCGATACATAAGTGTTGTATCGATACAATATATCGATACATAAGTGTTGTATCGATACAAT
GTATCGATACAGAAGTACTGTATAGAGACAA
Found at i:3356456 original size:49 final size:49
Alignment explanation
Indices: 3356396--3356513 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
3356386 CAACGATATC
* * * * *
3356396 GGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGCGACATT
1 GGACTTAAAGATGAAGATGCCAATATGCTAATGCAAGGCCAGCAACATT
* * * *
3356445 GGTCTTAAAGATAAAGGTGCCAATATGCTAATGCAAGGCCAGCAATATT
1 GGACTTAAAGATGAAGATGCCAATATGCTAATGCAAGGCCAGCAACATT
*
3356494 GGACTT--AGAAGAAGATGCCA
1 GGACTTAAAGATGAAGATGCCA
3356514 CCAACTTTTG
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
47 11 0.20
49 45 0.80
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (49 bp):
GGACTTAAAGATGAAGATGCCAATATGCTAATGCAAGGCCAGCAACATT
Found at i:3356559 original size:29 final size:30
Alignment explanation
Indices: 3356509--3356617 Score: 127
Period size: 30 Copynumber: 3.7 Consensus size: 30
3356499 TAGAAGAAGA
3356509 TGCCACCAACTTTTGTGGGCTTTTGAAAGGGT
1 TGCCACCAAC--TTGTGGGCTTTTGAAAGGGT
*
3356541 TG-CACCAACTTGTGTGCTTTTG-AA-GGT
1 TGCCACCAACTTGTGGGCTTTTGAAAGGGT
*
3356568 TGCCACTAACTTGTGGGCTTTTGAAAAGGG-
1 TGCCACCAACTTGTGGGCTTTTG-AAAGGGT
**
3356598 TGCCACTGACTTGTGGGCTT
1 TGCCACCAACTTGTGGGCTT
3356618 AAAAGGAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.07
28 20 0.29
29 12 0.17
30 21 0.30
31 9 0.13
32 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGCCACCAACTTGTGGGCTTTTGAAAGGGT
Found at i:3356635 original size:34 final size:34
Alignment explanation
Indices: 3356591--3356840 Score: 229
Period size: 34 Copynumber: 8.0 Consensus size: 34
3356581 TGGGCTTTTG
* * *
3356591 AAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
3356625 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
* *
3356657 ----GA-TGCCACGGAGTTGTGGACTTAAAA-G-
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
* *
3356684 ----G-GTGCCA-TGAAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACAG-AGTTGTGGGCTTAAAAGGA
*
3356713 AGAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
**
3356747 AAAAGAGTGCCATGGAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
* *
3356779 ----G-GTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
3356808 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGG
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGG
3356841 GTGCCACGGA
Statistics
Matches: 184, Mismatches: 15, Indels: 34
0.79 0.06 0.15
Matches are distributed among these distances:
26 1 0.01
27 68 0.37
28 5 0.03
33 4 0.02
34 105 0.57
35 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
Found at i:3356663 original size:27 final size:27
Alignment explanation
Indices: 3356632--3356712 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
3356622 GGAAAAAGAG
*
3356632 TGCCACAGAGTTGTGGGCTTAAAAGGA
1 TGCCACAGAGTTGTGGACTTAAAAGGA
* *
3356659 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGA
*
3356686 TGCCA-TGAAGTTGTGGACTTAAAAGGA
1 TGCCACAG-AGTTGTGGACTTAAAAGGA
3356713 AGAAGAGTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
TGCCACAGAGTTGTGGACTTAAAAGGA
Found at i:3356673 original size:61 final size:61
Alignment explanation
Indices: 3356591--3356867 Score: 336
Period size: 61 Copynumber: 4.5 Consensus size: 61
3356581 TGGGCTTTTG
* * *
3356591 AAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
* * *
3356652 AAAAGGATGCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCA-TGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAG-AGTTGTGGGCTT
* * **
3356706 AAAAGGAAGAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGG
1 --AA--AAG--G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGG
3356771 CTT
59 CTT
3356774 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
3356835 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
3356868 GTGAGGAATG
Statistics
Matches: 185, Mismatches: 15, Indels: 32
0.80 0.06 0.14
Matches are distributed among these distances:
53 1 0.01
54 17 0.09
55 1 0.01
56 2 0.01
58 3 0.02
60 2 0.01
61 133 0.72
62 2 0.01
64 3 0.02
66 2 0.01
67 1 0.01
68 17 0.09
69 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
Found at i:3356785 original size:27 final size:27
Alignment explanation
Indices: 3356747--3356870 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 27
3356737 CTTAAAAGGA
* * *
3356747 AAAAGAGTGCCATGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
3356774 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
3356801 AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAA-G-----G-GTGCCACGGAGTTGTGGACTT
3356835 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
3356862 AAAAGGGTG
1 AAAAGGGTG
3356871 AGGAATGTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
27 56 0.67
28 2 0.02
33 2 0.02
34 23 0.28
ACGTcount: A:0.31, C:0.12, G:0.36, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:3358357 original size:12 final size:12
Alignment explanation
Indices: 3358328--3358357 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3358318 TTTGTCTCTC
3358328 TTTTTT-TTTTG
1 TTTTTTGTTTTG
3358339 TTTTTTGTTTTG
1 TTTTTTGTTTTG
3358351 TTTTTTG
1 TTTTTTG
3358358 CGGAGGACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTTTTTGTTTTG
Found at i:3369588 original size:27 final size:27
Alignment explanation
Indices: 3369550--3369604 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
3369540 GATTGAAAAC
3369550 AGGGTTAGAGTGTCCCCTTGGAGGAAT
1 AGGGTTAGAGTGTCCCCTTGGAGGAAT
3369577 AGGGTTAGAGTGTCCCCTTGGAGGAAT
1 AGGGTTAGAGTGTCCCCTTGGAGGAAT
3369604 A
1 A
3369605 AAATTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.36, T:0.25
Consensus pattern (27 bp):
AGGGTTAGAGTGTCCCCTTGGAGGAAT
Found at i:3371881 original size:19 final size:18
Alignment explanation
Indices: 3371853--3371915 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
3371843 AGCGATACAT
*
3371853 TGTATTGATACAACAGTTA
1 TGTATCGATACAACA-TTA
3371872 TGTATCGAT---ACA-T-
1 TGTATCGATACAACATTA
3371885 TGTATCGATACAACACTTA
1 TGTATCGATACAACA-TTA
3371904 TGTATCGATACA
1 TGTATCGATACA
3371916 TTTATTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 20 0.54
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAACATTA
Done.