Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 37 of 143
Found at i:11237257 original size:23 final size:23
Alignment explanation
Indices: 11237214--11237258 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11237204 TTAGCATATG
*
11237214 TTTTTTTAAATTTATACTTTAAA
1 TTTTTTTAAATTTATAATTTAAA
*
11237237 TTTTATTTAAGTTT-TAATTTAA
1 TTTT-TTTAAATTTATAATTTAA
11237259 TCCTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTTTTAAATTTATAATTTAAA
Found at i:11245514 original size:21 final size:20
Alignment explanation
Indices: 11245468--11245514 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
11245458 CGATCTGAGG
11245468 AAAAATAAAAGAAATAAAATT
1 AAAAATAAAAGAAA-AAAATT
11245489 AAAAATAAAAGAAAACAGAATT
1 AAAAATAAAAGAAAA-A-AATT
11245511 AAAA
1 AAAA
11245515 GAAATAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 1 0.04
21 15 0.62
22 8 0.33
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAGAAAAAAATT
Found at i:11246916 original size:11 final size:11
Alignment explanation
Indices: 11246887--11246916 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
11246877 ATTTTAGTTC
11246887 TTTTCCTTTGA
1 TTTTCCTTTGA
11246898 TTTT-CTTTGA
1 TTTTCCTTTGA
11246908 TTTTCCTTT
1 TTTTCCTTT
11246917 TTTCCTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.70
Consensus pattern (11 bp):
TTTTCCTTTGA
Found at i:11254911 original size:22 final size:22
Alignment explanation
Indices: 11254864--11254925 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
11254854 GCGATCTGAG
* * *
11254864 GAAAAATAAAAG-GAACAGAAT
1 GAAAAATAAAAGAAAATAGAAA
*
11254885 TAAAAATAAAAGAAAATAGAAA
1 GAAAAATAAAAGAAAATAGAAA
*
11254907 GAAAAGA-AATAGAAAATAG
1 GAAAA-ATAAAAGAAAATAG
11254926 GGAAGTCGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.33
22 21 0.64
23 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.11
Consensus pattern (22 bp):
GAAAAATAAAAGAAAATAGAAA
Found at i:11254916 original size:15 final size:16
Alignment explanation
Indices: 11254892--11254921 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11254882 AATTAAAAAT
11254892 AAAAGAAAATAGAAAG
1 AAAAGAAAATAGAAAG
11254908 AAAAG-AAATAGAAA
1 AAAAGAAAATAGAAA
11254922 ATAGGGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (16 bp):
AAAAGAAAATAGAAAG
Found at i:11261763 original size:3 final size:3
Alignment explanation
Indices: 11261755--11261802 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
11261745 CAAAATCCAA
*
11261755 AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11261802 A
1 A
11261803 TATTCTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11262874 original size:7 final size:7
Alignment explanation
Indices: 11262858--11262979 Score: 56
Period size: 7 Copynumber: 18.0 Consensus size: 7
11262848 TTCGAAAAAA
11262858 GTCAACG
1 GTCAACG
*
11262865 GTCAATG
1 GTCAACG
11262872 GTC-A-G
1 GTCAACG
11262877 AGTCAACG
1 -GTCAACG
* *
11262885 ATCAA-A
1 GTCAACG
*
11262891 ATCAACG
1 GTCAACG
*
11262898 GTCAACA
1 GTCAACG
11262905 GTCAAC-
1 GTCAACG
11262911 GTCAACG
1 GTCAACG
**
11262918 GTCAATA
1 GTCAACG
*
11262925 GTCAACA
1 GTCAACG
11262932 GTCAACG
1 GTCAACG
* **
11262939 ATCAATA
1 GTCAACG
* *
11262946 ATCAA-A
1 GTCAACG
*
11262952 GTCAACT
1 GTCAACG
*
11262959 ATCAACG
1 GTCAACG
*
11262966 GTCAATG
1 GTCAACG
11262973 GTCAACG
1 GTCAACG
11262980 ACCGGTCAAC
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
5 1 0.01
6 20 0.22
7 67 0.75
8 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:11262970 original size:20 final size:20
Alignment explanation
Indices: 11262886--11262980 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
11262876 GAGTCAACGA
* *
11262886 TCAAAATCAACGGTCAACAG
1 TCAAAGTCAACGATCAACAG
* * *
11262906 TCAACGTCAACGGTCAATAG
1 TCAAAGTCAACGATCAACAG
* *
11262926 TCAACAGTCAACGATCAATAA
1 TCAA-AGTCAACGATCAACAG
* *
11262947 TCAAAGTCAACTATCAACGG
1 TCAAAGTCAACGATCAACAG
*
11262967 TCAATGGTCAACGA
1 TCAA-AGTCAACGA
11262981 CCGGTCAACG
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 37 0.61
21 24 0.39
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAAGTCAACGATCAACAG
Found at i:11262971 original size:27 final size:28
Alignment explanation
Indices: 11262877--11262971 Score: 99
Period size: 27 Copynumber: 3.5 Consensus size: 28
11262867 CAATGGTCAG
**
11262877 AGTCAACGATCAA-AATCAACGGTCAAC
1 AGTCAACGATCAATAATCAATAGTCAAC
***
11262904 AGTCAACG-TCAACGGTCAATAGTCAAC
1 AGTCAACGATCAATAATCAATAGTCAAC
11262931 AGTCAACGATCAATAATCAA-AGTCAAC
1 AGTCAACGATCAATAATCAATAGTCAAC
*
11262958 TA-TCAACGGTCAAT
1 -AGTCAACGATCAAT
11262972 GGTCAACGAC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
26 4 0.07
27 44 0.77
28 9 0.16
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (28 bp):
AGTCAACGATCAATAATCAATAGTCAAC
Found at i:11264887 original size:163 final size:163
Alignment explanation
Indices: 11264604--11264926 Score: 540
Period size: 163 Copynumber: 2.0 Consensus size: 163
11264594 GCTCATAGCA
* *
11264604 CCACCATTAAGGCAAAACACAAAACCTGATTGTGATCATGAATCATCTTGGTCAGTTTGGAAGCT
1 CCACCATTAAGGCAAAACACAAAACCTGATTGCGATCATGAATCATCTTGGTCAGTTCGGAAGCT
* * *
11264669 AGCATCAGTGTAACCTTTTACACTTAGCTTTTCCACTCCTCCATATATAAGGAATGTATCCTTAG
66 AGCATCAGTGTAACCTTTTACACTTAGCTCTTCCACACCTCAATATATAAGGAATGTATCCTTAG
* *
11264734 TCCTTCGCAAGTACTTAAGGATATTCTTAATTG
131 TCCTTCGCAAGGACTAAAGGATATTCTTAATTG
* * *
11264767 CCACCGTTAAGGTAAAACACAAAACCTGATTGCGATCATGAATCATCCTT-GTTAGTTCGGAAGC
1 CCACCATTAAGGCAAAACACAAAACCTGATTGCGATCATGAATCAT-CTTGGTCAGTTCGGAAGC
11264831 TAGCATCAGTGTAACCTTTTACACTTAGCTCTTCCACACCTCAATATATAAGGAATGTATCCTTA
65 TAGCATCAGTGTAACCTTTTACACTTAGCTCTTCCACACCTCAATATATAAGGAATGTATCCTTA
11264896 GTCCTTCGCAAGGACTAAAGGATATTCTTAA
130 GTCCTTCGCAAGGACTAAAGGATATTCTTAA
11264927 CTACCACCTA
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
163 146 0.98
164 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (163 bp):
CCACCATTAAGGCAAAACACAAAACCTGATTGCGATCATGAATCATCTTGGTCAGTTCGGAAGCT
AGCATCAGTGTAACCTTTTACACTTAGCTCTTCCACACCTCAATATATAAGGAATGTATCCTTAG
TCCTTCGCAAGGACTAAAGGATATTCTTAATTG
Found at i:11279279 original size:41 final size:41
Alignment explanation
Indices: 11279222--11279316 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 41
11279212 GGGCATACAT
* *
11279222 AAGCGCCGTTAAAGATCGGGGCA-TAAGC-GACGCTTAT-GAA
1 AAGCGCCATTAAAGATCAGGGCATTAA-CAG-CGCTTATGGAA
11279262 GAAGCGCCATTAAAGATCAGGGCATTAACAGCGCTTATGGAA
1 -AAGCGCCATTAAAGATCAGGGCATTAACAGCGCTTATGGAA
*
11279304 AAGCGCCACTAAA
1 AAGCGCCATTAAA
11279317 AGTGAATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 41 0.85
42 7 0.15
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (41 bp):
AAGCGCCATTAAAGATCAGGGCATTAACAGCGCTTATGGAA
Found at i:11280114 original size:29 final size:29
Alignment explanation
Indices: 11280072--11280131 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
11280062 AGCTACTAAT
11280072 TATCAAAGGTCTTTATTTATTTTCTCCTG
1 TATCAAAGGTCTTTATTTATTTTCTCCTG
11280101 TATCAAAGGTCTTTATTTATTTTCTCCTG
1 TATCAAAGGTCTTTATTTATTTTCTCCTG
11280130 TA
1 TA
11280132 CTATTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.52
Consensus pattern (29 bp):
TATCAAAGGTCTTTATTTATTTTCTCCTG
Found at i:11281358 original size:22 final size:22
Alignment explanation
Indices: 11281330--11281384 Score: 92
Period size: 24 Copynumber: 2.4 Consensus size: 22
11281320 CTTGTATGTG
11281330 TAAATTTGTAGGTTCAAACTTA
1 TAAATTTGTAGGTTCAAACTTA
11281352 TAAATTTTTGTAGGTTCAAACTTA
1 TAAA--TTTGTAGGTTCAAACTTA
11281376 TAAATTTGT
1 TAAATTTGT
11281385 TCCACTGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 9 0.29
24 22 0.71
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (22 bp):
TAAATTTGTAGGTTCAAACTTA
Found at i:11281364 original size:24 final size:24
Alignment explanation
Indices: 11281334--11281382 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11281324 TATGTGTAAA
11281334 TTTGTAGGTTCAAACTTATAAATT
1 TTTGTAGGTTCAAACTTATAAATT
11281358 TTTGTAGGTTCAAACTTATAAATT
1 TTTGTAGGTTCAAACTTATAAATT
11281382 T
1 T
11281383 GTTCCACTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (24 bp):
TTTGTAGGTTCAAACTTATAAATT
Found at i:11282705 original size:43 final size:43
Alignment explanation
Indices: 11282657--11282777 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
11282647 ATCTGTTAAT
* * *
11282657 TTTAGCAGTGTTTGTGAAAAAAGCGTCGTTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGTCGTTAAAGATCATGTTC
** * * *
11282700 TTTAGCGGCACTTGTGGGAAAAGCGTTGTTAAAGATTATGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGTCGTTAAAGATCATGTTC
* * *
11282743 TTTAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGA
1 TTTAGCGGCGTTTGTGAGAAAAGCGTCGTTAAAGA
11282778 CCTTGTTTTA
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGTCGTTAAAGATCATGTTC
Found at i:11287608 original size:124 final size:122
Alignment explanation
Indices: 11287471--11287808 Score: 489
Period size: 124 Copynumber: 2.7 Consensus size: 122
11287461 CATGATTTCA
* *
11287471 TTAATATCCTTTTGGAAAGGATATAATATGTTAATAAACCATCCATATATTTCTTTAAAGGAATA
1 TTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCATATATTTCTTTAAAGGAATA
* *
11287536 TTTCAATTTTAAAATGAGATATTATATAAAAGGACATTGAATATTAAAAAACATGAAAG
66 TTTC-ATTTTAATATGAGATATTATATAAAAGGAAATTGAATATT-AAAAACATGAAAG
* * *
11287595 TTAATATCCTTTTGGAGAGGATATAATGTTTTAATAAACCTTCCATATATTTCTTTAAAGGAATT
1 TTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCATATATTTCTTTAAAGGAATA
* * * *
11287660 TTTCCATTTTAATATGAGATATTTTATAAAAGGAAATTGAATATTAAAAATATGGAAT
66 TTT-CATTTTAATATGAGATATTATATAAAAGGAAATTGAATATTAAAAACATGAAAG
* *
11287718 TTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTACATATATTTATTTAAA-GATAT
1 TTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCATATATTTCTTTAAAGGA-A-
11287782 TTATTTTCATTTTAATATGAGATATTA
64 -TA-TTTCATTTTAATATGAGATATTA
11287809 AAATAAAAAA
Statistics
Matches: 192, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
122 2 0.01
123 66 0.34
124 100 0.52
125 21 0.11
126 3 0.02
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (122 bp):
TTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCATATATTTCTTTAAAGGAATA
TTTCATTTTAATATGAGATATTATATAAAAGGAAATTGAATATTAAAAACATGAAAG
Found at i:11296161 original size:106 final size:107
Alignment explanation
Indices: 11296047--11296267 Score: 336
Period size: 107 Copynumber: 2.1 Consensus size: 107
11296037 TTTACTGAAT
* * ** *
11296047 ATAATTTAACATAATTATAATTATTAATTTTATTGATTTCGTTAAATATTA-AAATATGGAAGTT
1 ATAATTTAACATAATTATAATTATTAATTATAATGATTTCGAGAAATATTATAAACATGGAAGTT
** *
11296111 AATATCCTTTTGGAAATTATATATTGTTTTAATAAACCTTCC
66 AATATCCTTTTGGAAAGGATATATAGTTTTAATAAACCTTCC
* *
11296153 ATAATTTAACGTAATTATAATTATTAATTATAATGATTTCGAGAAATATTATAAACATTGAAGTT
1 ATAATTTAACATAATTATAATTATTAATTATAATGATTTCGAGAAATATTATAAACATGGAAGTT
11296218 AATATCCTTTTGGAAAGGATATATAGTTTTAATAAACCTTCC
66 AATATCCTTTTGGAAAGGATATATAGTTTTAATAAACCTTCC
11296260 ATATATTT
1 ATA-ATTT
11296268 CTTTAAAGGA
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
106 46 0.45
107 53 0.51
108 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.44
Consensus pattern (107 bp):
ATAATTTAACATAATTATAATTATTAATTATAATGATTTCGAGAAATATTATAAACATGGAAGTT
AATATCCTTTTGGAAAGGATATATAGTTTTAATAAACCTTCC
Found at i:11296344 original size:123 final size:123
Alignment explanation
Indices: 11296196--11296553 Score: 531
Period size: 123 Copynumber: 2.9 Consensus size: 123
11296186 TGATTTCGAG
* *
11296196 AAATATTATAAACATTGAAGTTAATATCCTTTTGGAAAGGATAT-ATAGTTTTAATAAACCTTCC
1 AAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAAT-GTTTTAATAAACCTTCC
*
11296260 ATATATTTCTTTAAAGGAATATTTCCATTTTAATATAAGATATTATATAAAAGGAAATT
65 ATATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAGGAAATT
* *
11296319 GAATATTAAAAATATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCA
1 AAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCA
* * *
11296384 TATATTTCTTTAAAGGAATATTTACATTTTAATATGAGATTTTATATAAAATGAAATT
66 TATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAGGAAATT
* * **
11296442 AAATATTAAAAAACATGGAAGTTAATATCCTTCTGGAAAGGATATAATGTCTCGATAAACCTTCC
1 AAATATT-AAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCC
* *
11296507 ATATATTTCTCTAAA-GATATAGATTTCAATTTTAATATGAGATATTA
65 ATATATTTCTTTAAAGGA-AT--ATTTCCATTTTAATATGAGATATTA
11296554 AAATAAAAAA
Statistics
Matches: 212, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
123 120 0.57
124 70 0.33
126 22 0.10
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.39
Consensus pattern (123 bp):
AAATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCA
TATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAGGAAATT
Found at i:11297341 original size:16 final size:17
Alignment explanation
Indices: 11297314--11297346 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11297304 TATTTATTCC
*
11297314 ATTATATGTTTTTATGA
1 ATTATATGTTTTGATGA
11297331 ATTAT-TGTTTTGATGA
1 ATTATATGTTTTGATGA
11297347 TGATTAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTATATGTTTTGATGA
Found at i:11315735 original size:15 final size:16
Alignment explanation
Indices: 11315699--11315734 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11315689 GAAAAAAGTG
*
11315699 TTTTTGAGACTTCTAA
1 TTTTTGAGACCTCTAA
*
11315715 TTTTTGAGACCTGTAA
1 TTTTTGAGACCTCTAA
11315731 TTTT
1 TTTT
11315735 GGGATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTTTGAGACCTCTAA
Found at i:11320092 original size:17 final size:16
Alignment explanation
Indices: 11320070--11320115 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
11320060 TGGCAATATA
11320070 TTTCTTTTCTTTTCTTT
1 TTTCTTTTCTTTTC-TT
11320087 TTTCTTCTTC-TTTCTT
1 TTTCTT-TTCTTTTCTT
11320103 TTTC-TTTCTTTTC
1 TTTCTTTTCTTTTC
11320116 ATGAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.11
15 5 0.19
16 6 0.22
17 10 0.37
18 3 0.11
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTTCTTTTCTT
Found at i:11332110 original size:9 final size:9
Alignment explanation
Indices: 11332098--11332135 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
11332088 TAGCAATTTA
11332098 TTCTTCTTT
1 TTCTTCTTT
11332107 TTCTT-TTCT
1 TTCTTCTT-T
11332116 TTCTTCTTT
1 TTCTTCTTT
11332125 TTCTTCTTT
1 TTCTTCTTT
11332134 TT
1 TT
11332136 TTTTCAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.07
9 23 0.85
10 2 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTCTTT
Found at i:11367152 original size:21 final size:21
Alignment explanation
Indices: 11367109--11367148 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11367099 TGTAGGTATT
11367109 GAGGAAGAGAAAGAAGAAGAG
1 GAGGAAGAGAAAGAAGAAGAG
*
11367130 GAGGAGGAGAAA-AAGAAGA
1 GAGGAAGAGAAAGAAGAAGA
11367149 AGGAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (21 bp):
GAGGAAGAGAAAGAAGAAGAG
Found at i:11371830 original size:26 final size:26
Alignment explanation
Indices: 11371774--11371830 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
11371764 TGAGGATGAG
* * * *
11371774 GTGGTAATGAATTTGTCTCTACTTGT
1 GTGGTAATGAATCTATCTCCACTTCT
*
11371800 ATGGTAATGAATCTATCTCCACTTCT
1 GTGGTAATGAATCTATCTCCACTTCT
11371826 GTGGT
1 GTGGT
11371831 TATGTGTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (26 bp):
GTGGTAATGAATCTATCTCCACTTCT
Found at i:11381738 original size:3 final size:3
Alignment explanation
Indices: 11381724--11381784 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
11381714 GTGGGTGTTA
*
11381724 AAG AAG ATG AAG AAG AAG -AG AAGG AAG AAG AAG -AG AAG AAAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG -AAG AAG
* *
11381769 AAG AAA AAG AGG AAG A
1 AAG AAG AAG AAG AAG A
11381785 CATTGTAGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:11381750 original size:15 final size:15
Alignment explanation
Indices: 11381732--11381772 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
11381722 TAAAGAAGAT
11381732 GAAGAAGAAGAGAAG
1 GAAGAAGAAGAGAAG
11381747 GAAGAAGAAGAGAAG
1 GAAGAAGAAGAGAAG
*
11381762 AAAGAAGAAGA
1 GAAGAAGAAGA
11381773 AAAAGAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAGAGAAG
Found at i:11384820 original size:56 final size:56
Alignment explanation
Indices: 11384758--11384868 Score: 141
Period size: 56 Copynumber: 2.0 Consensus size: 56
11384748 AGGTACAAGA
* * **
11384758 GACACACAAGCTGAGCACACGTGCGTGTGCTAGACCGTGTGTGTATACTGTTTTGT
1 GACACACAAGCTGAGCACACGGGCGTGTGCCAGACCGTGTGAATATACTGTTTTGT
** * * *
11384814 GACACACTGGCTGGGCATATGGGCGTGTGCCAGACCGTGTGAATATACTGTTTTG
1 GACACACAAGCTGAGCACACGGGCGTGTGCCAGACCGTGTGAATATACTGTTTTG
11384869 CAATTGTAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (56 bp):
GACACACAAGCTGAGCACACGGGCGTGTGCCAGACCGTGTGAATATACTGTTTTGT
Found at i:11398428 original size:14 final size:14
Alignment explanation
Indices: 11398409--11398439 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11398399 CTTGCACAAA
11398409 AATAGTTCGCATAC
1 AATAGTTCGCATAC
*
11398423 AATAGTTCGCATTC
1 AATAGTTCGCATAC
11398437 AAT
1 AAT
11398440 TGATTCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (14 bp):
AATAGTTCGCATAC
Found at i:11398467 original size:15 final size:15
Alignment explanation
Indices: 11398442--11398476 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11398432 CATTCAATTG
*
11398442 ATTCACATATAAACA
1 ATTCGCATATAAACA
*
11398457 GTTCGCATATAAACA
1 ATTCGCATATAAACA
11398472 ATTCG
1 ATTCG
11398477 GTGATATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (15 bp):
ATTCGCATATAAACA
Found at i:11399070 original size:17 final size:17
Alignment explanation
Indices: 11399023--11399070 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
11399013 AAACATCAGA
11399023 CATGCAATAATAGTGTTCG
1 CATGCAAT-ATA-TGTTCG
** *
11399042 CATAAAACATATGTTCG
1 CATGCAATATATGTTCG
11399059 CATGCAATATAT
1 CATGCAATATAT
11399071 ATACATTTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 15 0.65
18 3 0.13
19 5 0.22
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (17 bp):
CATGCAATATATGTTCG
Found at i:11399575 original size:21 final size:21
Alignment explanation
Indices: 11399551--11399604 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
11399541 CTTATAATAG
11399551 TTCTACTGATACAAGT-ATAAC
1 TTCTACTGATACAAGTCAT-AC
* * **
11399572 TTCTACCGAAACAAGTCATGT
1 TTCTACTGATACAAGTCATAC
11399593 TTCTACTGATAC
1 TTCTACTGATAC
11399605 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (21 bp):
TTCTACTGATACAAGTCATAC
Found at i:11407462 original size:41 final size:42
Alignment explanation
Indices: 11407375--11407559 Score: 162
Period size: 41 Copynumber: 4.4 Consensus size: 42
11407365 ATGGTCTGCT
* * * *
11407375 GAGTCATAAGTCTTCCTTTTCAAACATAATCTCATGCTCATTCC
1 GAGTCATGAGTCTTCC-TTT-AATCATATTCTCATGCTCATCCC
*
11407419 GAGTCATGAGTCTT-CTTTAATCATATTCTCATTCTCATCCC
1 GAGTCATGAGTCTTCCTTTAATCATATTCTCATGCTCATCCC
* * * **
11407460 GAGACATGAGTCTTCCTTTAAT-ATATCCTCATGCTCGTTTC
1 GAGTCATGAGTCTTCCTTTAATCATATTCTCATGCTCATCCC
* ** * *
11407501 TAGTCACAAGTCTTCCATTCATAT-AAATTCTCATGCTCAAT-CC
1 GAGTCATGAGTCTTCC-TTTA-ATCATATTCTCATGCTC-ATCCC
11407544 GAGTCATGAGTCTTCC
1 GAGTCATGAGTCTTCC
11407560 ATTCATACCT
Statistics
Matches: 114, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
41 58 0.51
42 13 0.11
43 29 0.25
44 14 0.12
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.37
Consensus pattern (42 bp):
GAGTCATGAGTCTTCCTTTAATCATATTCTCATGCTCATCCC
Found at i:11410692 original size:63 final size:63
Alignment explanation
Indices: 11410622--11410775 Score: 200
Period size: 63 Copynumber: 2.4 Consensus size: 63
11410612 CGTGTGATGT
* * * * *
11410622 GGTGCTTGTGGAAAATAAATTGGTGCTATATGTGTTGATGCATGGAACGATTGCGCATGTTGA
1 GGTGCTTGTGGAAAATAAATTAGTGCTATATGTGTTGATGCAAGGAACGATTACGCATGCTAA
* * * *
11410685 GGTGCTTGTGGAAAATAAATTAGTGTTGTATGTGTTGATGCAAGGAATGATTACGCGTGCTAA
1 GGTGCTTGTGGAAAATAAATTAGTGCTATATGTGTTGATGCAAGGAACGATTACGCATGCTAA
* * *
11410748 GGTGCTTGTGAAAAATAAACTAGAGCTA
1 GGTGCTTGTGGAAAATAAATTAGTGCTA
11410776 AAGGTGTAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 77 1.00
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.32
Consensus pattern (63 bp):
GGTGCTTGTGGAAAATAAATTAGTGCTATATGTGTTGATGCAAGGAACGATTACGCATGCTAA
Found at i:11413309 original size:30 final size:29
Alignment explanation
Indices: 11413275--11413428 Score: 98
Period size: 30 Copynumber: 5.1 Consensus size: 29
11413265 TTTGGGGGGC
11413275 TAAATTCAAATTTTTGGGAAGTTCAAGGGT
1 TAAATTCAAATTTTT-GGAAGTTCAAGGGT
* * *
11413305 TAAA-TCTGAATTTTTAGGAAGTTCGAGCGT
1 TAAATTC-AAATTTTT-GGAAGTTCAAGGGT
* * ***
11413335 CAAATTCAAATTTTTGGAGATTTTGGGGGT
1 TAAATTCAAATTTTTGGA-AGTTCAAGGGT
* *
11413365 CAAATTCAAATTTTTGAAAAG-TCAAGGGGT
1 TAAATTCAAATTTTTG-GAAGTTCAA-GGGT
* * *
11413395 TAAA-ACATAATTTTTGGATAGTTTAGGGGT
1 TAAATTCA-AATTTTTGGA-AGTTCAAGGGT
11413425 TAAA
1 TAAA
11413429 ATGCAATTTG
Statistics
Matches: 96, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
29 9 0.09
30 82 0.85
31 5 0.05
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (29 bp):
TAAATTCAAATTTTTGGAAGTTCAAGGGT
Found at i:11414313 original size:12 final size:12
Alignment explanation
Indices: 11414293--11414323 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11414283 ATGTATGCGC
11414293 ATATATGTATGT
1 ATATATGTATGT
*
11414305 ATGTATGTATGT
1 ATATATGTATGT
11414317 ATATATG
1 ATATATG
11414324 ATATATACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (12 bp):
ATATATGTATGT
Found at i:11414368 original size:8 final size:8
Alignment explanation
Indices: 11414293--11414339 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
11414283 ATGTATGCGC
11414293 ATATATGT
1 ATATATGT
*
11414301 ATGTATGT
1 ATATATGT
*
11414309 ATGTATGT
1 ATATATGT
11414317 ATATATGAT
1 ATATATG-T
11414326 ATATACT-T
1 ATATA-TGT
11414334 ATATAT
1 ATATAT
11414340 ATCTATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 1 0.03
8 27 0.77
9 6 0.17
10 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (8 bp):
ATATATGT
Found at i:11415376 original size:48 final size:48
Alignment explanation
Indices: 11415320--11415460 Score: 201
Period size: 48 Copynumber: 2.9 Consensus size: 48
11415310 ATTGAGCTCC
* * * *
11415320 GCTTCATTATTCTGGTCTACTTCTCTTTATTTCATCAGGAAGATGACT
1 GCTTCATTATTTTGATCTACTTCTCTATATCTCATCAGGAAGATGACT
* * *
11415368 GCTTCATTATTTTGATCTACTTCTCTGTATCTCATCAGAAAGATGATT
1 GCTTCATTATTTTGATCTACTTCTCTATATCTCATCAGGAAGATGACT
* *
11415416 GCTTCATTGTTTTGATCCACTTCTCTATATCTCATCAGGAAGATG
1 GCTTCATTATTTTGATCTACTTCTCTATATCTCATCAGGAAGATG
11415461 GGGTTTGAAG
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.43
Consensus pattern (48 bp):
GCTTCATTATTTTGATCTACTTCTCTATATCTCATCAGGAAGATGACT
Found at i:11415550 original size:171 final size:170
Alignment explanation
Indices: 11415246--11415583 Score: 473
Period size: 171 Copynumber: 2.0 Consensus size: 170
11415236 TGGTGTTGTA
* *
11415246 GCTTCATCTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAACTTTCACTCTCA
1 GCTTCATCTTTTGATCCACTTCTCTATATCTCATCAAGAAGATGGGGTTTGAACTTTCACTCTCA
* * ** * *
11415311 TTGAGCTCCGCTTCATTATTCTGGTCTACTTCTCTTTATTTCATCAGGAAGATGACTGCTTCATT
66 TTGAGCTCCGCTTCATTATTCTGGTCCACTTCTCTGTACCTCATAAGGAAGATGACCGCTTCATT
11415376 ATTTTGATCTACTTCTCTGTATCTCATC-AGAAAGATGATT
131 ATTTTGATCTACTTCTCTGTATCTCATCAAG-AAGATGATT
* * *
11415416 GCTTCATTGTTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTTTCACT-TA
1 GCTTCA-TCTTTTGATCCACTTCTCTATATCTCATCAAGAAGATGGGGTTTGAACTTTCACTCT-
** * * * * *
11415480 CATTGAGCTTTGTTTCATTGTTTTGGTCCACTTCTCTGTACCTCATAAGGAAGATTACCGCTTTA
64 CATTGAGCTCCGCTTCATTATTCTGGTCCACTTCTCTGTACCTCATAAGGAAGATGACCGCTTCA
11415545 TTATTTTGATCTACTTCTCTGTATCTCATCAAGAAGATG
129 TTATTTTGATCTACTTCTCTGTATCTCATCAAGAAGATG
11415584 GGGGTGTGAA
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
170 7 0.05
171 138 0.94
172 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (170 bp):
GCTTCATCTTTTGATCCACTTCTCTATATCTCATCAAGAAGATGGGGTTTGAACTTTCACTCTCA
TTGAGCTCCGCTTCATTATTCTGGTCCACTTCTCTGTACCTCATAAGGAAGATGACCGCTTCATT
ATTTTGATCTACTTCTCTGTATCTCATCAAGAAGATGATT
Found at i:11415655 original size:124 final size:123
Alignment explanation
Indices: 11415368--11415781 Score: 564
Period size: 123 Copynumber: 3.4 Consensus size: 123
11415358 GAAGATGACT
* * * ** *
11415368 GCTTCATTATTTTGATCTACTTCTCTGTATCTCATCAGAAAGATGATTGCTTCATTGTTTTGATC
1 GCTTCATTATTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTGTTTTGATC
* * *
11415433 CACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTTACATTGAGCTTT-
66 CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAG-TTTC
* * * * * *
11415491 GTTTCATTGTTTTGGTCCACTTCTCTGTACCTCATAAGGAAGATTACCGCTTTATTATTTTGATC
1 GCTTCATTATTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTGTTTTGATC
* *
11415556 TACTTCTCTGTATCTCATCAAGAAGATGGGGGTGTGAAGTTTCACTCACATTGAGTTTC
66 CACTTCTCTGTATCTCATCAAGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGTTTC
* *
11415615 GCTTCATTATTTTGGTCCACTTCTTTGTATCTCAAT-AGGAAGATGACCGCTATATTGTTTTGAT
1 GCTTCATTATTTTGGTCCACTTCTCTGTATCTC-ATCAGGAAGATGACCGCTTTATTGTTTTGAT
* * * *
11415679 CCACTTCTCTGTATCTCATCACGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTCC
65 CCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGTTTC
*
11415738 GCTTCATT-TTTTGGTCCACTTCTTTGTATCTCATCAGGAAGATG
1 GCTTCATTATTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATG
11415782 GTCGTTTCAT
Statistics
Matches: 257, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
121 2 0.01
122 33 0.13
123 115 0.45
124 105 0.41
125 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (123 bp):
GCTTCATTATTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTGTTTTGATC
CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGTTTC
Found at i:11415896 original size:46 final size:45
Alignment explanation
Indices: 11415828--11416623 Score: 698
Period size: 45 Copynumber: 18.3 Consensus size: 45
11415818 AGATAATAGT
* *
11415828 TTCAATCTGCCCCTCTTAACTTAGGGGTAAAATATTGGATGATGGC
1 TTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTGGATGATGGC
* *
11415874 TTCAATCTGCCTCTTTTGACT-----T---A-A--GGATGATGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* *
11415908 TTCAATCTACCCCTCTTAACTTAGGGGTAAAAGATTGGATGATGGC
1 TTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTGGATGATGGC
* *
11415954 TTCAATCTGCCTCTTTTGACT-----T---A-A--GGATGATGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* **
11415988 TTCAATCTACCTTTCTTGACTTAGGGGTAAAAGATTGGATGATGGC
1 TTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTGGATGATGGC
* *
11416034 TTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGA--ATGAC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* * * *
11416077 TTCAA-CTTGCCCCTCTAGATTAGGGGTAAAAGATTGGA-CAGTGAC
1 TTCAATC-TGCCCCTCTTGACTAGGGGTAAAAGATTGGATGA-TGGC
* * *
11416122 TTCACT-TACCCCTCTTGACTAGGGGTAAGAGATTGGAATG-TGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGG-ATGATGGC
* * *
11416166 TTCAATCTGCCCTTCTTGATTAGGGGTAAAAGATTGGAAGATGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* * * * *
11416211 TTCAATCTACCTCTCTTAACTAGGGGTAAAAGATTAGATGATGGT
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* * * * * *
11416256 TTTAATCTACCCGGTCATGACTAGGGGTAAAATATTAGATGATGGC
1 TTCAATCTGCCC-CTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* * *
11416302 TTCAATCTGCCCCTCTTAACTTAGTGGTAAAAGATTGGA--ATGAC
1 TTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTGGATGATGGC
* * * ** *
11416346 TTTCAACCTGCCCCT-TTGGATTAGAGGTAAAAGATT-GAACAGTGAC
1 -TTCAATCTGCCCCTCTT-GACTAGGGGTAAAAGATTGGATGA-TGGC
* * *
11416392 TTCAATCTGCCCCTCTTGACAAGGGGTAAAAGTTTGGAAGATGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* *
11416437 TTCAATCTGCCTCTCTTGACTAGGGGTAAAAGATAGGAATG-TGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGG-ATGATGGC
* *
11416482 TTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGAAGATGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* * * *
11416527 TTCAATCTACCCTTTTTGACTAGGAGTAAAAGATT--A-GAT-G-
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
* *
11416567 TT-AATCTGCCCCGTCTTGACTAGAGATAAAAGATTGGATGATGGC
1 TTCAATCTGCCCC-TCTTGACTAGGGGTAAAAGATTGGATGATGGC
11416612 TTCAATCTGCCC
1 TTCAATCTGCCC
11416624 TGTGGTCGGG
Statistics
Matches: 612, Mismatches: 88, Indels: 100
0.76 0.11 0.12
Matches are distributed among these distances:
34 53 0.09
35 2 0.00
36 2 0.00
37 2 0.00
39 8 0.01
40 24 0.04
41 1 0.00
42 5 0.01
43 47 0.08
44 62 0.10
45 263 0.43
46 143 0.23
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGATGATGGC
Found at i:11415930 original size:34 final size:34
Alignment explanation
Indices: 11415864--11415930 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
11415854 GTAAAATATT
* * * *
11415864 GGATGATGGCTTCAATCTGCCTCTTTTGACTTAA
1 GGATGATGGCTTCAATCTACCCCTCTTAACTTAA
11415898 GGATGATGGCTTCAATCTACCCCTCTTAACTTA
1 GGATGATGGCTTCAATCTACCCCTCTTAACTTA
11415931 GGGGTAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (34 bp):
GGATGATGGCTTCAATCTACCCCTCTTAACTTAA
Found at i:11415961 original size:80 final size:80
Alignment explanation
Indices: 11415828--11416044 Score: 389
Period size: 80 Copynumber: 2.7 Consensus size: 80
11415818 AGATAATAGT
* *
11415828 TTCAATCTGCCCCTCTTAACTTAGGGGTAAAATATTGGATGATGGCTTCAATCTGCCTCTTTTGA
1 TTCAATCTACCCCTCTTAACTTAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCTCTTTTGA
11415893 CTTAAGGATGATGGC
66 CTTAAGGATGATGGC
11415908 TTCAATCTACCCCTCTTAACTTAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCTCTTTTGA
1 TTCAATCTACCCCTCTTAACTTAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCTCTTTTGA
11415973 CTTAAGGATGATGGC
66 CTTAAGGATGATGGC
** *
11415988 TTCAATCTACCTTTCTTGACTTAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCC
1 TTCAATCTACCCCTCTTAACTTAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCC
11416045 CCTCTTGATT
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 132 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (80 bp):
TTCAATCTACCCCTCTTAACTTAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCTCTTTTGA
CTTAAGGATGATGGC
Found at i:11415987 original size:34 final size:34
Alignment explanation
Indices: 11415944--11416010 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
11415934 GTAAAAGATT
*
11415944 GGATGATGGCTTCAATCTGCCTCTT-TTGACTTAA
1 GGATGATGGCTTCAATCTACCT-TTCTTGACTTAA
11415978 GGATGATGGCTTCAATCTACCTTTCTTGACTTA
1 GGATGATGGCTTCAATCTACCTTTCTTGACTTA
11416011 GGGGTAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (34 bp):
GGATGATGGCTTCAATCTACCTTTCTTGACTTAA
Found at i:11416419 original size:226 final size:223
Alignment explanation
Indices: 11415982--11416623 Score: 702
Period size: 226 Copynumber: 2.9 Consensus size: 223
11415972 ACTTAAGGAT
* *
11415982 GATGGCTTCAATCTACCTTTCTTGACTTAGGGGTAAAAGATTGGATGATGGCTTCAATCTGCCCC
1 GATGGCTTCAATCTACCTCTCTTGAC-TAGGGGTAAAAGATTAGATGATGGCTTCAATCTGCCCC
*
11416047 TCTTGATTAGGGGTAAAAGATTGGA-ATGACTTCAA-CTTGCCCCTCTAGATTAGGGGTAAAAGA
65 TCTTGATTAGGGGTAAAAGATTGGAGATGGCTTCAATC-TGCCCCTCTAGATTAGGGGTAAAAGA
* * * * *
11416110 TTGGACAGTGACTTCACTTACCCCTCTTGACTAGGGGTAAGAGATTGGAATGTGGCTTCAATCTG
129 TTGGACAGTGACTTCACCTACCCCTCTTGACTAGAGGTAAAAGATTGGAAAGTGACTTCAATCTG
* **
11416175 CCCTTCTTGATTAGGGGTAAAAGATTGGAA
194 CCCCTCTTGACAAGGGGTAAAAGATTGGAA
* * * * *
11416205 GATGGCTTCAATCTACCTCTCTTAACTAGGGGTAAAAGATTAGATGATGGTTTTAATCTACCCGG
1 GATGGCTTCAATCTACCTCTCTTGACTAGGGGTAAAAGATTAGATGATGGCTTCAATCTGCCC-C
* * * * *
11416270 TCATGACTAGGGGTAAAATATTAGATGATGGCTTCAATCTGCCCCTCTTA-ACTTAGTGGTAAAA
65 TCTTGATTAGGGGTAAAAGATTGGA-GATGGCTTCAATCTGCCCCTC-TAGA-TTAGGGGTAAAA
* *
11416334 GATTGGA-A-TGACTTTCAACCTGCCCCT-TTGGATTAGAGGTAAAAGATT-GAACAGTGACTTC
127 GATTGGACAGTGAC-TTC-ACCTACCCCTCTT-GACTAGAGGTAAAAGATTGGAA-AGTGACTTC
*
11416395 AATCTGCCCCTCTTGACAAGGGGTAAAAGTTTGGAA
188 AATCTGCCCCTCTTGACAAGGGGTAAAAGATTGGAA
*
11416431 GATGGCTTCAATCTGCCTCTCTTGACTAGGGGTAAAAGA-TAGGAATG-TGGCTTCAATCTGCCC
1 GATGGCTTCAATCTACCTCTCTTGACTAGGGGTAAAAGATTA-G-ATGATGGCTTCAATCTGCCC
* * * * * *
11416494 CTCTTGATTAGGGGTAAAAGATTGGAAGATGGCTTCAATCTACCCTTTTTGACTAGGAGTAAAAG
64 CTCTTGATTAGGGGTAAAAGATTGG-AGATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAG
* * * * * * *
11416559 ATT--AGA-TG--TTAATCTGCCCCGTCTTGACTAGAGATAAAAGATTGG-ATGATGGCTTCAAT
128 ATTGGACAGTGACTTCACCTACCCC-TCTTGACTAGAGGTAAAAGATTGGAAAG-TGACTTCAAT
11416618 CTGCCC
191 CTGCCC
11416624 TGTGGTCGGG
Statistics
Matches: 353, Mismatches: 47, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
219 9 0.03
220 35 0.10
221 3 0.01
222 34 0.10
223 48 0.14
224 18 0.05
225 68 0.19
226 135 0.38
227 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (223 bp):
GATGGCTTCAATCTACCTCTCTTGACTAGGGGTAAAAGATTAGATGATGGCTTCAATCTGCCCCT
CTTGATTAGGGGTAAAAGATTGGAGATGGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATT
GGACAGTGACTTCACCTACCCCTCTTGACTAGAGGTAAAAGATTGGAAAGTGACTTCAATCTGCC
CCTCTTGACAAGGGGTAAAAGATTGGAA
Found at i:11416657 original size:42 final size:41
Alignment explanation
Indices: 11416595--11416692 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 41
11416585 ACTAGAGATA
** **
11416595 AAAGATTGGATGATGGCTTCAATCTGCCCTGTGGTCGGGGT
1 AAAGATTGGATGATAACTTCAATCTGCCCCATGGTCGGGGT
* *
11416636 AAGAGATTGGATGATAACTTCAATTTTCCCCATGGTCGGGGT
1 AA-AGATTGGATGATAACTTCAATCTGCCCCATGGTCGGGGT
*
11416678 AAATGATTAGATGAT
1 AAA-GATTGGATGAT
11416693 GATGTAACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.06
42 45 0.94
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (41 bp):
AAAGATTGGATGATAACTTCAATCTGCCCCATGGTCGGGGT
Found at i:11416995 original size:49 final size:49
Alignment explanation
Indices: 11416942--11417232 Score: 171
Period size: 49 Copynumber: 5.9 Consensus size: 49
11416932 ATGCTTCTGT
** *
11416942 ACATCTTCAGGGTATAAGATTTACCGTTACGACTTCAATCTTTCCCTTC
1 ACATCTTCAGGGTATAAGATTTACCGTTGTGGCTTCAATCTTTCCCTTC
* * ** * *
11416991 ACATC-TCTAGGGTATAAGGTTCACTTTTGTGGCTTCCACCTTTCCC-TC
1 ACATCTTC-AGGGTATAAGATTTACCGTTGTGGCTTCAATCTTTCCCTTC
* * *
11417039 TTCATCTTTAGGGTATAAGATTTATCGTTGTGGCTTCAATCTTTCCCTTC
1 -ACATCTTCAGGGTATAAGATTTACCGTTGTGGCTTCAATCTTTCCCTTC
* * * ** * * * *
11417089 ACATC-ACTAAGGTATAAGGTTTGTCGATGCGGCTTCAACCTTTCCCATC
1 ACATCTTC-AGGGTATAAGATTTACCGTTGTGGCTTCAATCTTTCCCTTC
* * ** * ** *
11417138 ACATC-TCTAAGGTAGAAGATTCGCCATTGCAGCTTTAATCTCTT-CCTTC
1 ACATCTTC-AGGGTATAAGATTTACCGTTGTGGCTTCAATCT-TTCCCTTC
* * * * **
11417187 ACAT-TCCTATGGTACAAGATTCACCGTTGCAGCTTCAATCTTTCCC
1 ACATCTTC-AGGGTATAAGATTTACCGTTGTGGCTTCAATCTTTCCC
11417233 ATCTTGCCTT
Statistics
Matches: 189, Mismatches: 45, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
48 6 0.03
49 178 0.94
50 5 0.03
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (49 bp):
ACATCTTCAGGGTATAAGATTTACCGTTGTGGCTTCAATCTTTCCCTTC
Found at i:11417143 original size:98 final size:98
Alignment explanation
Indices: 11416941--11417158 Score: 251
Period size: 98 Copynumber: 2.2 Consensus size: 98
11416931 TATGCTTCTG
* * *
11416941 TACATCTTCAGGGTATAAGATTTACCGTTACGACTTCAATCTTTCCCTTCACATCTCTAGGGTAT
1 TACATCTTTAGGGTATAAGATTTACCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGTAT
** * *
11417006 AAGGTTCACTTTTGTGGCTTCCACCTTTCCCTC
66 AAGGTTCACTGATGCGGCTTCAACCTTTCCCTC
* * ** *
11417039 TTCATCTTTAGGGTATAAGATTTATCGTTGTGGCTTCAATCTTTCCCTTCACATCACTAAGGTAT
1 TACATCTTTAGGGTATAAGATTTACCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGTAT
**
11417104 AAGGTT-TGTCGATGCGGCTTCAACCTTTCCCATC
66 AAGGTTCACT-GATGCGGCTTCAACCTTTCCC-TC
* * *
11417138 -ACATCTCTAAGGTAGAAGATT
1 TACATCTTTAGGGTATAAGATT
11417159 CGCCATTGCA
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
97 1 0.01
98 97 0.97
99 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (98 bp):
TACATCTTTAGGGTATAAGATTTACCGTTACGACTTCAATCTTTCCCTTCACATCACTAAGGTAT
AAGGTTCACTGATGCGGCTTCAACCTTTCCCTC
Found at i:11418092 original size:20 final size:20
Alignment explanation
Indices: 11418069--11418114 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
11418059 TTACCTCTTT
11418069 TTTTTC-TTTTTCTTCTTCCC
1 TTTTTCTTTTTTCTT-TTCCC
11418089 TTTTTCTTTTTTCTTTTCCC
1 TTTTTCTTTTTTCTTTTCCC
11418109 TTTTTC
1 TTTTTC
11418115 ATTTCATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTCTTTTTTCTTTTCCC
Found at i:11418119 original size:18 final size:19
Alignment explanation
Indices: 11418069--11418124 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
11418059 TTACCTCTTT
*
11418069 TTTTTCTTTTTCTTCTTCCC
1 TTTTTCTATTTCTT-TTCCC
*
11418089 TTTTTCTTTTTTCTTTTCCC
1 TTTTTC-TATTTCTTTTCCC
*
11418109 TTTTTC-ATTTCATTTC
1 TTTTTCTATTTCTTTTC
11418125 ATTTCATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.24
20 17 0.52
21 8 0.24
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTCTATTTCTTTTCCC
Found at i:11419113 original size:18 final size:17
Alignment explanation
Indices: 11419084--11419135 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
11419074 ATCTCGACCC
11419084 TTTTCTTTTT-CTT-TT
1 TTTTCTTTTTCCTTCTT
*
11419099 TCTT-TTTTTCCTTCTT
1 TTTTCTTTTTCCTTCTT
11419115 TCTTTCTTTTTCC-TCTT
1 T-TTTCTTTTTCCTTCTT
11419132 TTTT
1 TTTT
11419136 GACCTCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 6 0.19
17 7 0.23
18 7 0.23
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTTCCTTCTT
Found at i:11423160 original size:30 final size:30
Alignment explanation
Indices: 11423093--11423286 Score: 162
Period size: 30 Copynumber: 6.4 Consensus size: 30
11423083 AAAAATGAAA
* * *
11423093 TTTTCGAAAGTTTAAGGGGCTAAAT-TCAAATT
1 TTTTGGAAAGTTTGAGGGTC-AAATCT-AAA-T
*
11423125 TTTTGGGAAGTTTGAGGGTCAAATCTAAAT
1 TTTTGGAAAGTTTGAGGGTCAAATCTAAAT
*
11423155 TTTTGGAAAGTTT-AGGGGTCAAATCTGAAT
1 TTTTGGAAAGTTTGA-GGGTCAAATCTAAAT
* * *
11423185 TTTTGGAAAGTTTAAGGGTTAAATCTGAAT
1 TTTTGGAAAGTTTGAGGGTCAAATCTAAAT
* * *
11423215 TTTTGGGAAGTTTGAGGTTTAAAT-TCAAAT
1 TTTTGGAAAGTTTGAGGGTCAAATCT-AAAT
* * * *
11423245 TTTTGGAGA-TTTTAGGGGTCAAATTTGAAT
1 TTTTGGAAAGTTTGA-GGGTCAAATCTAAAT
*
11423275 TTTTGAAAAGTT
1 TTTTGGAAAGTT
11423287 AAGGGGTCAA
Statistics
Matches: 136, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
29 6 0.04
30 102 0.75
31 11 0.08
32 17 0.12
ACGTcount: A:0.31, C:0.05, G:0.24, T:0.40
Consensus pattern (30 bp):
TTTTGGAAAGTTTGAGGGTCAAATCTAAAT
Found at i:11423209 original size:60 final size:60
Alignment explanation
Indices: 11423124--11423323 Score: 199
Period size: 60 Copynumber: 3.3 Consensus size: 60
11423114 AAATTCAAAT
* * *
11423124 TTTTTGGGAAGTTTGAGGGTCAAATCTAAATTTTTGGAAAGTTTAGGGGTCAAATCTGAA
1 TTTTTGGAAAGTTTAAGGGTCAAATCTGAATTTTTGGAAAGTTTAGGGGTCAAATCTGAA
* * * * *
11423184 TTTTTGGAAAGTTTAAGGGTTAAATCTGAATTTTTGGGAAGTTT-GAGGTTTAAAT-TCAAA
1 TTTTTGGAAAGTTTAAGGGTCAAATCTGAATTTTTGGAAAGTTTAG-GGGTCAAATCT-GAA
* * * * * * *
11423244 TTTTTGGAGATTTTAGGGGTCAAATTTGAATTTTTGAAAAGTTAAGGGGTCAAAACATG-A
1 TTTTTGGAAAGTTTAAGGGTCAAATCTGAATTTTTGGAAAGTTTAGGGGTCAAATC-TGAA
* *
11423304 TTTTTGGATAGTTTAGGGGT
1 TTTTTGGAAAGTTTAAGGGT
11423324 TAAAATGTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
59 2 0.02
60 109 0.96
61 1 0.01
62 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.40
Consensus pattern (60 bp):
TTTTTGGAAAGTTTAAGGGTCAAATCTGAATTTTTGGAAAGTTTAGGGGTCAAATCTGAA
Found at i:11423229 original size:90 final size:91
Alignment explanation
Indices: 11423078--11423291 Score: 265
Period size: 90 Copynumber: 2.4 Consensus size: 91
11423068 AGGAAAAACA
* * *
11423078 GGGTCAAAAATGAAATTTTCGAAAGTTTAAGGGGCTAAATTCAAATTTTTTGGGAAGTTTGAGGG
1 GGGTCAAATATGAATTTTTGGAAAGTTTAA-GGGCTAAATTCAAATTTTTTGGGAAGTTTGAGGG
11423143 TCAAA-TCTAAATTTTTGGAAAGTTTAG
65 TCAAATTC-AAATTTTTGGAAAGTTTAG
* * * *
11423170 GGGTCAAATCTGAATTTTTGGAAAGTTTAAGGGTTAAA-TCTGAA-TTTTTGGGAAGTTTGAGGT
1 GGGTCAAATATGAATTTTTGGAAAGTTTAAGGGCTAAATTC-AAATTTTTTGGGAAGTTTGAGGG
* * *
11423233 TTAAATTCAAATTTTTGGAGATTTTAG
65 TCAAATTCAAATTTTTGGAAAGTTTAG
* *
11423260 GGGTCAAATTTGAATTTTTGAAAAG-TTAAGGG
1 GGGTCAAATATGAATTTTTGGAAAGTTTAAGGG
11423292 GTCAAAACAT
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
89 7 0.06
90 64 0.59
91 11 0.10
92 26 0.24
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (91 bp):
GGGTCAAATATGAATTTTTGGAAAGTTTAAGGGCTAAATTCAAATTTTTTGGGAAGTTTGAGGGT
CAAATTCAAATTTTTGGAAAGTTTAG
Found at i:11423292 original size:30 final size:30
Alignment explanation
Indices: 11423140--11423323 Score: 160
Period size: 30 Copynumber: 6.1 Consensus size: 30
11423130 GGAAGTTTGA
* *
11423140 GGGTCAAATCTAAATTTTTGGAAAGTTTAG
1 GGGTCAAATCTGAATTTTTGGAAAGTTAAG
11423170 GGGTCAAATCTGAATTTTTGGAAAGTTTAA-
1 GGGTCAAATCTGAATTTTTGGAAAG-TTAAG
* * *
11423200 GGGTTAAATCTGAATTTTTGGGAAGTT-TG
1 GGGTCAAATCTGAATTTTTGGAAAGTTAAG
* * * * * *
11423229 AGGTTTAAAT-TCAAATTTTTGGAGATTTTAG
1 -GGGTCAAATCT-GAATTTTTGGAAAGTTAAG
* *
11423260 GGGTCAAATTTGAATTTTTGAAAAGTTAAG
1 GGGTCAAATCTGAATTTTTGGAAAGTTAAG
* * *
11423290 GGGTCAAAACATG-ATTTTTGGATAGTTTAG
1 GGGTCAAATC-TGAATTTTTGGAAAGTTAAG
11423320 GGGT
1 GGGT
11423324 TAAAATGTAA
Statistics
Matches: 124, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
29 3 0.02
30 114 0.92
31 7 0.06
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.39
Consensus pattern (30 bp):
GGGTCAAATCTGAATTTTTGGAAAGTTAAG
Found at i:11423327 original size:90 final size:90
Alignment explanation
Indices: 11423124--11423327 Score: 256
Period size: 90 Copynumber: 2.3 Consensus size: 90
11423114 AAATTCAAAT
*
11423124 TTTTTGGGAAGTTTGAGGGTCAAA-TCTAAATTTTTGGAAAGTTTAGGGGTCAAATCTGAATTTT
1 TTTTTGGGAAGTTTGAGGGTTAAATTC-AAATTTTTGGAAAGTTTAGGGGTCAAATCTGAATTTT
* * *
11423188 TGGAAAGTTTAAGGGTTAAATCTGAA
65 TGAAAAGTTTAAGGGTCAAAACTGAA
* * * *
11423214 TTTTTGGGAAGTTTGAGGTTTAAATTCAAATTTTTGGAGATTTTAGGGGTCAAATTTGAATTTTT
1 TTTTTGGGAAGTTTGAGGGTTAAATTCAAATTTTTGGAAAGTTTAGGGGTCAAATCTGAATTTTT
11423279 GAAAAG-TTAAGGGGTCAAAACATG-A
66 GAAAAGTTTAA-GGGTCAAAAC-TGAA
11423304 TTTTT-GGATAGTTT-AGGGGTTAAA
1 TTTTTGGGA-AGTTTGA-GGGTTAAA
11423328 ATGTAATTTG
Statistics
Matches: 100, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
89 8 0.08
90 88 0.88
91 4 0.04
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.39
Consensus pattern (90 bp):
TTTTTGGGAAGTTTGAGGGTTAAATTCAAATTTTTGGAAAGTTTAGGGGTCAAATCTGAATTTTT
GAAAAGTTTAAGGGTCAAAACTGAA
Found at i:11424242 original size:2 final size:2
Alignment explanation
Indices: 11424155--11424225 Score: 72
Period size: 2 Copynumber: 35.0 Consensus size: 2
11424145 ATGTATGCGC
* * * *
11424155 AT AT AT GT AT GT AT AT AT AT AT AT AT CGT AT AT ACT -T GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT A-T AT AT AT AT
*
11424198 AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11424226 GTTTGTATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
1 1 0.02
2 54 0.95
3 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11458665 original size:15 final size:15
Alignment explanation
Indices: 11458642--11458684 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
11458632 ATCGAGGAGG
*
11458642 AGAAGGAAGAGGAGAA
1 AGAA-GAAGAGAAGAA
*
11458658 AGAAGAAGAAAAGAA
1 AGAAGAAGAGAAGAA
*
11458673 AGAAGGAGAGAA
1 AGAAGAAGAGAA
11458685 AGAGGAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAGAAGAA
Found at i:11464053 original size:50 final size:50
Alignment explanation
Indices: 11463921--11464639 Score: 480
Period size: 50 Copynumber: 14.5 Consensus size: 50
11463911 GCGGTACCAT
* ** *
11463921 GAAGAATTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCCGATACCTTA
1 GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
* * *
11463971 GAAGA--TAAAGGGAAAGATTGAGGCCGCAACGGTGAACCCGATACCTCA
1 GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
*
11464019 GAAGATTTGAAGGGAAAGATTGAGGCTGCAACGGTGAACCCGATACCTCA
1 GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
* * * *
11464069 GAAGATTTGAAGGGAAAGGTTAAGGCTGTAACGGTGAACCCGGTACCTTA
1 GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
** * * * * *
11464119 GAAGACGTGATA-GGAAGGGTTGAGGATGCAACGGTGAACTCGGTACCTTA
1 GAAGATTTGA-AGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
* * * * *
11464169 GAAGATGTGATA-GGAAAAGTTGAAGCTGCAACGGCGAACCCGGTA-C-CA
1 GAAGATTTGA-AGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
* * * * *
11464217 TGAAGATTTGAAGGGAAAGGTTAAGGCCGCAACGATGAACTCGATACCTTA
1 -GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
* * * * * * **
11464268 GAAGATGTGATGGGAAAGGTTAAGGCCGTAATGGCAAACCCTG-TA-C-CA
1 GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCC-GATACCTCA
* * * *
11464316 TGAAAATTTGAAGGGAAAGGTTGAGGCCGTAACGGGGAACCC-AGTA-C-CA
1 -GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGA-TACCTCA
* * * ** **
11464365 TGAAGATATGAA-AGAAAGGGTTGAGG-TCACAACGACGAACCCTTTA-C-CA
1 -GAAGATTTGAAGGGAAA-GGTTGAGGCT-GCAACGGTGAACCCGATACCTCA
* * * * * *
11464414 TGAAGATTTAAAGGGAAAGGTTAAGGCTGCAACGGTAAACCTGGTACCTTA
1 -GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
* * * *
11464465 GAAGATGTGATGGG-AAGGATTGAGGCCT-TAACGGTGAACCCGATACCTTA
1 GAAGATTTGAAGGGAAAGG-TTGAGG-CTGCAACGGTGAACCCGATACCTCA
* * **
11464515 GAAGATGTGATA-GGAAAGGTTGAGGGTGCAACAATGAACCC-AGTACCAT-A
1 GAAGATTTGA-AGGGAAAGGTTGAGGCTGCAACGGTGAACCCGA-TACC-TCA
* * * * * *
11464565 GAAGATATGATA-GG-AAGGATCGAGGCCGCGACGGCGAATCCGATA-C-CA
1 GAAGATTTGA-AGGGAAAGG-TTGAGGCTGCAACGGTGAACCCGATACCTCA
*
11464613 TGAAGATATGAAGGGAAAGGTTGAGGC
1 -GAAGATTTGAAGGGAAAGGTTGAGGC
11464640 CACAACGACG
Statistics
Matches: 542, Mismatches: 96, Indels: 63
0.77 0.14 0.09
Matches are distributed among these distances:
48 53 0.10
49 165 0.30
50 312 0.58
51 12 0.02
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (50 bp):
GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTCA
Found at i:11464776 original size:45 final size:46
Alignment explanation
Indices: 11464703--11464979 Score: 279
Period size: 46 Copynumber: 6.2 Consensus size: 46
11464693 CCTCGATCAT
* *
11464703 GGGGCAGATTG-AGTCAT--TCCAAACTTTTACCCCTAA-TCAAGA
1 GGGGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGA
*
11464745 GGGGCAGATTGCAGCCATCATCCAATCTTTTACCCCTAAGTCAAGA
1 GGGGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGA
* * *
11464791 GGGGCAGATTGAAG--ACCATCCGATCTTTTACCCGTAAGTCAAGA
1 GGGGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGA
* *
11464835 -GGGCAGATTGAAGCTAT-ATTTCAATCTTTTACCCCTAAGTCAAGA
1 GGGGCAGATTGAAGCCATCA-TCCAATCTTTTACCCCTAAGTCAAGA
* * * * *
11464880 GGGGTATATTGCAA-CCATCATCTAGTCATTTACCCCTAAGTCAAGA
1 GGGGCAGATTG-AAGCCATCATCCAATCTTTTACCCCTAAGTCAAGA
* * *** *
11464926 GAGGCAAATTGAAGCCA-CATTCTGCTTTTTTACCCCT-AGTCAAGA
1 GGGGCAGATTGAAGCCATCA-TCCAATCTTTTACCCCTAAGTCAAGA
11464971 GGGGCAGAT
1 GGGGCAGAT
11464980 CAAACCCTAT
Statistics
Matches: 197, Mismatches: 26, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
42 11 0.06
43 18 0.09
44 28 0.14
45 61 0.31
46 76 0.39
47 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (46 bp):
GGGGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAGTCAAGA
Found at i:11464912 original size:135 final size:136
Alignment explanation
Indices: 11464726--11464979 Score: 352
Period size: 135 Copynumber: 1.9 Consensus size: 136
11464716 TCATTCCAAA
* *
11464726 CTTTTACCCCTAATCAAGAGGGGCAGATTGCAGCCATCATCCAATCTTTTACCCCTAAGTCAAGA
1 CTTTTACCCCTAATCAAGAGGGGCAGATTGCAACCATCATCCAATCATTTACCCCTAAGTCAAGA
* * *
11464791 GGGGCAGATTGAAGAC-CA-TCCGATCTTTTACCCGTAAGTCAAGA-GGGCAGATTGAAGCTATA
66 GAGGCAAATTGAAGACACATTCCGATCTTTTACCCCT-AGTCAAGAGGGGCAGATTGAAGCTATA
11464853 TTTCAAT
130 TTTCAAT
* * * *
11464860 CTTTTACCCCTAAGTCAAGAGGGGTATATTGCAACCATCATCTAGTCATTTACCCCTAAGTCAAG
1 CTTTTACCCCTAA-TCAAGAGGGGCAGATTGCAACCATCATCCAATCATTTACCCCTAAGTCAAG
* * * *
11464925 AGAGGCAAATTGAAGCCACATTCTGCTTTTTTACCCCTAGTCAAGAGGGGCAGAT
65 AGAGGCAAATTGAAGACACATTCCGATCTTTTACCCCTAGTCAAGAGGGGCAGAT
11464980 CAAACCCTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
134 13 0.13
135 59 0.57
136 10 0.10
137 21 0.20
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (136 bp):
CTTTTACCCCTAATCAAGAGGGGCAGATTGCAACCATCATCCAATCATTTACCCCTAAGTCAAGA
GAGGCAAATTGAAGACACATTCCGATCTTTTACCCCTAGTCAAGAGGGGCAGATTGAAGCTATAT
TTCAAT
Found at i:11465196 original size:122 final size:124
Alignment explanation
Indices: 11465030--11465298 Score: 292
Period size: 122 Copynumber: 2.2 Consensus size: 124
11465020 GATGACGAAG
* * * * * * *
11465030 TGGTCATCTTTCTGATGAGATACAGAGAAGCGAACCGAAACAATGAAGCCAAGCTCCATGGGAGT
1 TGGTCATCTTCCTGATGAGATACAAACAAGCAAACCGAAACAATGAAGCCAAGCTCAATAGAAGT
* * * * *
11465095 AAAAC-TTCAAATCTCATCTTCCTAATGAGATACAGAGAAATGGAT-AAAACAATGAAA
66 AAAACTTTCAAACCCCATCTTCCTAATAAGATACAAAGAAATGGATCAAAACAATAAAA
* * * * *
11465152 TGGTCATCTTCCTGATGAGATACAAACAAGTAAACC-AATTCAATGAAGCGAAGCTTAATATAAG
1 TGGTCATCTTCCTGATGAGATACAAACAAGCAAACCGAA-ACAATGAAGCCAAGCTCAATAGAAG
* * * * *
11465216 TAAAGCTTTCGAACCCCATCTTCCTAATAAGATACAAAGAAGTGGGTCAAAGCAATAAAA
65 TAAAACTTTCAAACCCCATCTTCCTAATAAGATACAAAGAAATGGATCAAAACAATAAAA
* *
11465276 CGGTCATCTTCCTGATCAGATAC
1 TGGTCATCTTCCTGATGAGATAC
11465299 CGAGAAGTGG
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
121 2 0.02
122 54 0.45
123 33 0.28
124 31 0.26
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (124 bp):
TGGTCATCTTCCTGATGAGATACAAACAAGCAAACCGAAACAATGAAGCCAAGCTCAATAGAAGT
AAAACTTTCAAACCCCATCTTCCTAATAAGATACAAAGAAATGGATCAAAACAATAAAA
Found at i:11465528 original size:48 final size:48
Alignment explanation
Indices: 11465440--11465531 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
11465430 CTTCAAACCC
* * **
11465440 CATCTTTCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGT
1 CATCTTTCTGATGAGATACAGAGAAGTAGACCAAAGCAATAAAGAGGT
*
11465488 CATC-TTCTTGATGAGATACAGAGAAGTAGACCAAATCAATAAAG
1 CATCTTTC-TGATGAGATACAGAGAAGTAGACCAAAGCAATAAAG
11465532 TGAAGCTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
47 3 0.08
48 35 0.92
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (48 bp):
CATCTTTCTGATGAGATACAGAGAAGTAGACCAAAGCAATAAAGAGGT
Found at i:11465549 original size:123 final size:123
Alignment explanation
Indices: 11465319--11465647 Score: 444
Period size: 123 Copynumber: 2.7 Consensus size: 123
11465309 ACCAAATCCG
* * ** ** * * *
11465319 TCTTCTTGATGAAATACAAAGAAGTGGATTGAATTAATGAAGAGGTTATCTTCTTGATTAGATAC
1 TCTTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCTTGATGAGATAC
**
11465384 AAAGAAGTAGACCAAATCAATGTAGCAAAGCTCAATACGAATGAGACTTCAAACCCCA
66 AAAGAAGTAGACCAAATCAATAAAGCAAAGCTCAATACGAATGAGACTTCAAACCCCA
* *
11465442 TCTT-TCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCTTGATGAGATA
1 TCTTCT-TGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCTTGATGAGATA
* ** * *
11465506 CAGAGAAGTAGACCAAATCAATAAAGTGAAGCTCAATATGAATGAGACTTCAAACCTCA
65 CAAAGAAGTAGACCAAATCAATAAAGCAAAGCTCAATACGAATGAGACTTCAAACCCCA
* * * *
11465565 TCTTCTTGATGAGATACAAAGAAGTGGGTTAAAGCAATAAAGCGATCATCTTCCTGATGAGATAC
1 TCTTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCTTGATGAGATAC
11465630 AAAGAAGTAGACCAAATC
66 AAAGAAGTAGACCAAATC
11465648 CGCCTTCCTG
Statistics
Matches: 179, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
122 1 0.01
123 177 0.99
124 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (123 bp):
TCTTCTTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCTTGATGAGATAC
AAAGAAGTAGACCAAATCAATAAAGCAAAGCTCAATACGAATGAGACTTCAAACCCCA
Found at i:11465649 original size:331 final size:332
Alignment explanation
Indices: 11465026--11465853 Score: 986
Period size: 331 Copynumber: 2.5 Consensus size: 332
11465016 GTCAGATGAC
* * * ** * * *
11465026 GAAGTGGTCATCTTTCTGATGAGATACAGAGAAGCGAACCGAAA-CAATGAAGCCAAGCTCCATG
1 GAAGAGGTCATCTTCCTGATGAGATACAAAGAAGTAAACC-AAATCAATGAAGCAAAGCTCAATA
* * * * * * * * * * * *
11465090 GGAGTAAAACTTCAAATCTCATCTTCCTAATGAGATACAGAGAAATGGAT-AAAACAATGAAA-T
65 CGAATGAAACTTCAAACCCCATCTTTCTGATGAGATATAGAGAAGTGGGTCAAAGCAAT-AAAGA
* * * * * * *
11465153 GGTCATCTTCCTGATGAGATACAAACAAGTAAACCAATTCAATGAAGCGAAGCTTAATATAAGTA
129 GGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGCGAAGCTCAATATAAGTA
* *
11465218 AAGCTTTCGAACCCCATCTTCCTAATAAGATACAAAGAAGTGGGTCAAAGCAATAAAACGGTCAT
194 AAGCTTTCAAACCCCATCTTCCTAATAAGATACAAAGAAGTGGGTCAAAGCAATAAAACGATCAT
** * * *
11465283 CTTCCTGATCAGATACCGAGAAGTGGACCAAATCCGTCTTCTTGATGAAATACAAAGAAGTGGAT
259 CTTCCTGATCAGATACAAAGAAGTAGACCAAATCCGCCTTCCTGATGAAATACAAAGAAGTGGAT
*
11465348 TGAATTAAT
324 TGAATAAAT
* * * * *
11465357 GAAGAGGTTATCTTCTTGATTAGATACAAAGAAGTAGACCAAATCAATGTAGCAAAGCTCAATAC
1 GAAGAGGTCATCTTCCTGATGAGATACAAAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATAC
*
11465422 GAATGAGACTTCAAACCCCATCTTTCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGG
66 GAATGAAACTTCAAACCCCATCTTTCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGG
* *
11465487 TCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGTGAAGCTCAATATGAA-T-G
131 TCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGCGAAGCTCAATAT-AAGTAA
* * * * * *
11465550 AGAC-TTCAAACCTCATCTTCTTGATGAGATACAAAGAAGTGGGTTAAAGCAATAAAGCGATCAT
195 AG-CTTTCAAACCCCATCTTCCTAATAAGATACAAAGAAGTGGGTCAAAGCAATAAAACGATCAT
* * * *
11465614 CTTCCTGATGAGATACAAAGAAGTAGACCAAATCCGCCTTCCTGATGAGATATAGAGAAGTGGAT
259 CTTCCTGATCAGATACAAAGAAGTAGACCAAATCCGCCTTCCTGATGAAATACAAAGAAGTGGAT
11465679 TGAATAAAT
324 TGAATAAAT
* * * *
11465688 GAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGTTCAATGC
1 GAAGAGGTCATCTTCCTGATGAGATACAAAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATAC
* * * *
11465753 GAGTGAAACTTCAAACCCCTAT-TTTCCTGATGAGATATAGAGAAGTGGGTCGAAGTAATAAAGC
66 GAATGAAACTTCAAACCCC-ATCTTT-CTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGA
* *
11465817 GGTTATCTTCTTGATGAGATATAGAGAAGTAGACCAA
129 GGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAA
11465854 GAAATGAAGC
Statistics
Matches: 421, Mismatches: 69, Indels: 13
0.84 0.14 0.03
Matches are distributed among these distances:
330 3 0.01
331 283 0.67
332 133 0.32
333 2 0.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (332 bp):
GAAGAGGTCATCTTCCTGATGAGATACAAAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATAC
GAATGAAACTTCAAACCCCATCTTTCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGG
TCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATAAAGCGAAGCTCAATATAAGTAAA
GCTTTCAAACCCCATCTTCCTAATAAGATACAAAGAAGTGGGTCAAAGCAATAAAACGATCATCT
TCCTGATCAGATACAAAGAAGTAGACCAAATCCGCCTTCCTGATGAAATACAAAGAAGTGGATTG
AATAAAT
Found at i:11465661 original size:208 final size:209
Alignment explanation
Indices: 11465447--11465853 Score: 537
Period size: 208 Copynumber: 2.0 Consensus size: 209
11465437 CCCCATCTTT
* * *
11465447 CTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCTTGATGAGATACAGAGA
1 CTGATGAGATATAGAGAAGTGGATCAAAGAAATAAAGAGGTCATCTTCCTGATGAGATACAGAGA
* ** * * * *
11465512 AGTAGACCAAATCAATAAAGTGAAGCTCAATATGAATGAGACTTCAAACCTC-ATCTTCTTGATG
66 AGTAAACCAAATCAATAAAGCAAAGCTCAATACGAATGAAACTTCAAACCCCTATCTTCCTGATG
*
11465576 AGATACAAAGAAGTGGGTTAAAGCAATAAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGA
131 AGATACAAAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGA
11465641 CCAAATCCGCCTTC
196 CCAAATCCGCCTTC
** * * *
11465655 CTGATGAGATATAGAGAAGTGGATTGAATAAATGAAGCGGTCATCTTCCTGATGAGATACAGAGA
1 CTGATGAGATATAGAGAAGTGGATCAAAGAAATAAAGAGGTCATCTTCCTGATGAGATACAGAGA
* * * * *
11465720 AGTAAACCAAATCAATGAAGCAAAGTTCAATGCGAGTGAAACTTCAAACCCCTATTTTCCTGATG
66 AGTAAACCAAATCAATAAAGCAAAGCTCAATACGAATGAAACTTCAAACCCCTATCTTCCTGATG
* * * * * * * * *
11465785 AGATATAGAGAAGTGGGTCGAAGTAATAAAGCGGTTATCTTCTTGATGAGATATAGAGAAGTAGA
131 AGATACAAAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGA
11465850 CCAA
196 CCAA
11465854 GAAATGAAGC
Statistics
Matches: 168, Mismatches: 30, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
208 99 0.59
209 69 0.41
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (209 bp):
CTGATGAGATATAGAGAAGTGGATCAAAGAAATAAAGAGGTCATCTTCCTGATGAGATACAGAGA
AGTAAACCAAATCAATAAAGCAAAGCTCAATACGAATGAAACTTCAAACCCCTATCTTCCTGATG
AGATACAAAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGA
CCAAATCCGCCTTC
Found at i:11465714 original size:85 final size:85
Alignment explanation
Indices: 11465566--11465732 Score: 235
Period size: 85 Copynumber: 2.0 Consensus size: 85
11465556 CAAACCTCAT
* * *
11465566 CTTCTTGATGAGATACAAAGAAGTGGGTTAAAGCAATAAAGCGATCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAAAGAAGTGGATTAAAGAAATAAAGCGATCATCTTCCTGATGAGATACA
*
11465631 AAGAAGTAGACCAAATCCGC
66 AAGAAGTAAACCAAATCCGC
* * * * * *
11465651 CTTCCTGATGAGATATAGAGAAGTGGATTGAATAAATGAAGCGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACAAAGAAGTGGATTAAAGAAATAAAGCGATCATCTTCCTGATGAGATACA
*
11465716 GAGAAGTAAACCAAATC
66 AAGAAGTAAACCAAATC
11465733 AATGAAGCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (85 bp):
CTTCCTGATGAGATACAAAGAAGTGGATTAAAGAAATAAAGCGATCATCTTCCTGATGAGATACA
AAGAAGTAAACCAAATCCGC
Found at i:11467843 original size:60 final size:59
Alignment explanation
Indices: 11467727--11467961 Score: 203
Period size: 60 Copynumber: 4.0 Consensus size: 59
11467717 CTGAACATCT
* * *
11467727 CCAAAATTATATTTTAGCCC-CAAACTTCTCCAAAATC-ACATTTTATCCC-CTAAACTTTC
1 CCAAAATTACATTTTA-CCCTCAAACTTC-CCAAAAACTACATTTTAACCCTC-AAACTTTC
* * * * * * *
11467786 CCAAAATTACATTTTCACCCTCGAACTTCCCAAAAATTATATTTTGACCTTCGAACTTTT
1 CCAAAATTACATTTT-ACCCTCAAACTTCCCAAAAACTACATTTTAACCCTCAAACTTTC
* * ** *
11467846 CCAAAATTACATTTTAACCTCCAAACTTTCTTAAAACTACATTTTAACCCTCAAATTTTC
1 CCAAAATTACATTTTACCCT-CAAACTTCCCAAAAACTACATTTTAACCCTCAAACTTTC
* * * *
11467906 CCAAAATCACATTTTGACCCCCAAACTTCCC-AAAA-TA-ATTTTAATCCTTAAACTTT
1 CCAAAATTACATTTT-ACCCTCAAACTTCCCAAAAACTACATTTTAACCCTCAAACTTT
11467962 TCTAAAATCA
Statistics
Matches: 140, Mismatches: 30, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
57 16 0.11
58 2 0.01
59 31 0.22
60 87 0.62
61 4 0.03
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (59 bp):
CCAAAATTACATTTTACCCTCAAACTTCCCAAAAACTACATTTTAACCCTCAAACTTTC
Found at i:11467873 original size:90 final size:87
Alignment explanation
Indices: 11467688--11467949 Score: 248
Period size: 90 Copynumber: 3.0 Consensus size: 87
11467678 AAAGAGCCCT
* * *
11467688 CAAACTCTT-CCAAAATTTCATTTTTACCC-CTGAACATCTCCAAAATTATATTTT-AGCCCCAA
1 CAAACT-TTCCCAAAATTACATTTTAACCCTC-GAACTTC-CCAAAATTATATTTTGA-CCCCAA
*
11467750 ACTTCTCCAAAATCACATTTTATCCC
62 ACTTCTCCAAAATCACATTTTAACCC
* * *
11467776 CTAAACTTTCCCAAAATTACATTTTCACCCTCGAACTTCCCAAAAATTATATTTTGACCTTCGAA
1 C-AAACTTTCCCAAAATTACATTTTAACCCTCGAACTTCCC-AAAATTATATTTTGACC-CCAAA
* *
11467841 CTTTTCCAAAATTACATTTTAACCTC
63 CTTCTCCAAAATCACATTTTAACC-C
** * * * * *
11467867 CAAACTTTCTTAAAACTACATTTTAACCCTCAAATTTTCCCAAAATCACATTTTGACCCCCAAAC
1 CAAACTTTCCCAAAATTACATTTTAACCCTCGAA-CTTCCCAAAATTATATTTTGA-CCCCAAAC
11467932 TTC-CCAAAAT-A-ATTTTAA
64 TTCTCCAAAATCACATTTTAA
11467950 TCCTTAAACT
Statistics
Matches: 146, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
87 7 0.05
88 6 0.04
89 51 0.35
90 73 0.50
91 9 0.06
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (87 bp):
CAAACTTTCCCAAAATTACATTTTAACCCTCGAACTTCCCAAAATTATATTTTGACCCCAAACTT
CTCCAAAATCACATTTTAACCC
Found at i:11468045 original size:29 final size:29
Alignment explanation
Indices: 11467684--11468065 Score: 174
Period size: 30 Copynumber: 12.9 Consensus size: 29
11467674 CATAAAAGAG
* *
11467684 CCCTCAAAC-TCTTCCAAAATTTCATTTTTA
1 CCCTCAAACTTC-T-CAAAATTACATTTTAA
* * * *
11467714 CCC-CTGAACATCTCCAAAATTATATTTTAG
1 CCCTC-AAACTTCT-CAAAATTACATTTTAA
* *
11467744 CCC-CAAACTTCTCCAAAATCACATTTTAT
1 CCCTCAAACTTCT-CAAAATTACATTTTAA
* *
11467773 CCC-CTAAACTTTCCCAAAATTACATTTTCA
1 CCCTC-AAAC-TTCTCAAAATTACATTTTAA
* * * *
11467803 CCCTCGAACTTCCCAAAAATTATATTTTGA
1 CCCTCAAACTTCTC-AAAATTACATTTTAA
* * *
11467833 CCTTCGAACTTTTCCAAAATTACATTTTAA
1 CCCTCAAACTTCT-CAAAATTACATTTTAA
* *
11467863 -CCTCCAAACTTTCTTAAAACTACATTTTAA
1 CCCT-CAAAC-TTCTCAAAATTACATTTTAA
* * * *
11467893 CCCTCAAATTTTCCCAAAATCACATTTTGA
1 CCCTCAAA-CTTCTCAAAATTACATTTTAA
* *
11467923 CCCCCAAACTTCCCAAAA-TA-ATTTTAA
1 CCCTCAAACTTCTCAAAATTACATTTTAA
* * * * * *
11467950 TCCTTAAACTTTTCTAAAATCATATTTTGA
1 CCCTCAAACTTCTC-AAAATTACATTTTAA
* ** *
11467980 CCC-CTAAACTTTTTTGAAATTACA-TTTGA
1 CCCTC-AAAC-TTCTCAAAATTACATTTTAA
* * *
11468009 -CCTCCGAACTTCTAAAAATTATATTTTAA
1 CCCT-CAAACTTCTCAAAATTACATTTTAA
*
11468038 CCCTCGAACTT-TCCTAAAATTACATTTT
1 CCCTCAAACTTCT-C-AAAATTACATTTT
11468066 TGGCTCGAAA
Statistics
Matches: 272, Mismatches: 58, Indels: 44
0.73 0.16 0.12
Matches are distributed among these distances:
27 15 0.06
28 18 0.07
29 61 0.22
30 161 0.59
31 17 0.06
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (29 bp):
CCCTCAAACTTCTCAAAATTACATTTTAA
Found at i:11479750 original size:3 final size:3
Alignment explanation
Indices: 11479742--11479769 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11479732 GATATAACCC
11479742 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11479770 GCTGAGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11480505 original size:10 final size:10
Alignment explanation
Indices: 11480472--11480511 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
11480462 TTTCATGTTA
11480472 TTCTTCTTCT
1 TTCTTCTTCT
*
11480482 TTCATCTTCT
1 TTCTTCTTCT
*
11480492 TTCTTCCTCT
1 TTCTTCTTCT
*
11480502 TTCTCCTTCT
1 TTCTTCTTCT
11480512 AATTGTTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:11490834 original size:25 final size:25
Alignment explanation
Indices: 11490786--11490834 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
11490776 ATTCGGTTTA
*
11490786 GTTTTGTTTTTTATATTAATTTTTT
1 GTTTTGTTTTTTAGATTAATTTTTT
*
11490811 GTTTTGATTTTTTAGATTTATTTT
1 GTTTTG-TTTTTTAGATTAATTTT
11490835 GATAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.73
Consensus pattern (25 bp):
GTTTTGTTTTTTAGATTAATTTTTT
Found at i:11491215 original size:13 final size:13
Alignment explanation
Indices: 11491199--11491238 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
11491189 TATTTTTTAG
*
11491199 AAGTGTTTTTAAA
1 AAGTGATTTTAAA
* *
11491212 AAGTGCTTTGAAA
1 AAGTGATTTTAAA
11491225 AAGTGATTTTAAA
1 AAGTGATTTTAAA
11491238 A
1 A
11491239 CTACTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (13 bp):
AAGTGATTTTAAA
Found at i:11498677 original size:41 final size:41
Alignment explanation
Indices: 11498629--11498913 Score: 392
Period size: 41 Copynumber: 7.0 Consensus size: 41
11498619 CGAATAAATT
* * *
11498629 GATTATATTTAAGGAAGACTCATGTCTCGGGGTGAGCATGA
1 GATTATATTAAAGGAAGACTCATGACTCGGGATGAGCATGA
* * **
11498670 GAATATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGA
1 GATTATATTAAAGGAAGACTCATGACTCGGGATGAGCATGA
***
11498711 GATTATATTAAAGGAAGACTCATGACTCAAAATGAGCATGA
1 GATTATATTAAAGGAAGACTCATGACTCGGGATGAGCATGA
* *
11498752 GAGTATATTAAAGGAAGACTCATGTCTCGGGATGAGCATGA
1 GATTATATTAAAGGAAGACTCATGACTCGGGATGAGCATGA
* * *
11498793 GATTATATTAAAGGAAGACTCATGTCTCGGGGTGAGCATTA
1 GATTATATTAAAGGAAGACTCATGACTCGGGATGAGCATGA
*
11498834 GATTATATTAAAGAAAGACTCATGACTCGGGATGAGCATGA
1 GATTATATTAAAGGAAGACTCATGACTCGGGATGAGCATGA
* *
11498875 GATTATATTTAAAGGAAGACTTATGACTCGGTA-GAGCAT
1 GATTATA-TTAAAGGAAGACTCATGACTCGGGATGAGCAT
11498914 AAAATTGTTT
Statistics
Matches: 218, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 196 0.90
42 22 0.10
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (41 bp):
GATTATATTAAAGGAAGACTCATGACTCGGGATGAGCATGA
Found at i:11504121 original size:13 final size:13
Alignment explanation
Indices: 11504103--11504137 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11504093 TGTGAAAAAT
11504103 TAAATTATTAAGA
1 TAAATTATTAAGA
* *
11504116 TAAATTGTTAAGT
1 TAAATTATTAAGA
11504129 TAAATTATT
1 TAAATTATT
11504138 GCTACTATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (13 bp):
TAAATTATTAAGA
Found at i:11504941 original size:79 final size:79
Alignment explanation
Indices: 11504838--11505029 Score: 276
Period size: 79 Copynumber: 2.4 Consensus size: 79
11504828 AGAGTTGGGC
* * * *
11504838 TCACATTTGCGGTTTATCCGCTAGGCAGTGGGTGCTAGGATTTGATGGATTTTGTTGGTTAATCC
1 TCACATTTGCGGTTAATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATTTTGTTGGTTAATCC
11504903 AACTAGAACAGGGG
66 AACTAGAACAGGGG
*
11504917 TCACATTTGCGGTTAATCCTCTAGGCACTGGGTGCCAGGATTTGACGGATTTTGTTGGTTAATCC
1 TCACATTTGCGGTTAATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATTTTGTTGGTTAATCC
***
11504982 AACTAGAGTTGGGG
66 AACTAGAACAGGGG
* * **
11504996 TCACTTTTGCGGTTTATTTGCTAGGCACTGGGTG
1 TCACATTTGCGGTTAATCCGCTAGGCACTGGGTG
11505030 TTCAAATCGT
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 100 1.00
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (79 bp):
TCACATTTGCGGTTAATCCGCTAGGCACTGGGTGCCAGGATTTGACGGATTTTGTTGGTTAATCC
AACTAGAACAGGGG
Found at i:11508779 original size:28 final size:28
Alignment explanation
Indices: 11508739--11508794 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11508729 TGAGGTAATG
11508739 GTAAATTAAATCCCTACAAAGAATAGAA
1 GTAAATTAAATCCCTACAAAGAATAGAA
11508767 GTAAATTAAATCCCTACAAAGAATAGAA
1 GTAAATTAAATCCCTACAAAGAATAGAA
11508795 ATAATTAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (28 bp):
GTAAATTAAATCCCTACAAAGAATAGAA
Found at i:11509858 original size:22 final size:21
Alignment explanation
Indices: 11509819--11509859 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11509809 TATTTGAAAG
**
11509819 ATAAAAACTAAGTTAAAATCT
1 ATAAAAACTAAGGGAAAATCT
11509840 ATAAAAACATAAGGGAAAAT
1 ATAAAAAC-TAAGGGAAAAT
11509860 ACTTGATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (21 bp):
ATAAAAACTAAGGGAAAATCT
Found at i:11512646 original size:23 final size:21
Alignment explanation
Indices: 11512605--11512647 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11512595 CAATGGTTCT
*
11512605 CTCTACCGATACTATACAACC
1 CTCTACCGATACTAAACAACC
11512626 CTCTACCGATACTTCAAACAAC
1 CTCTACCGATAC-T-AAACAAC
11512648 AGTGAGCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 1 0.05
23 6 0.32
ACGTcount: A:0.35, C:0.37, G:0.05, T:0.23
Consensus pattern (21 bp):
CTCTACCGATACTAAACAACC
Found at i:11513494 original size:37 final size:37
Alignment explanation
Indices: 11513444--11513574 Score: 158
Period size: 37 Copynumber: 3.5 Consensus size: 37
11513434 TTTGATCATC
* *
11513444 GGCAC-AAAGCCTGCTAGGAACATAGCCCGAATACACT
1 GGCACGAAA-CCTGCTAGGCACATAGCCTGAATACACT
*
11513481 GGCACGAAACCTGCTAGGCACATAGCTTGAATACA-T
1 GGCACGAAACCTGCTAGGCACATAGCCTGAATACACT
* * *
11513517 CGGTACGAAGCCTGCTAGGCACATAGCCTGAATACACC
1 -GGCACGAAACCTGCTAGGCACATAGCCTGAATACACT
* *
11513555 GGCATGAAGCCTGCTAGGCA
1 GGCACGAAACCTGCTAGGCA
11513575 AATAACTCGA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
36 1 0.01
37 78 0.95
38 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.16
Consensus pattern (37 bp):
GGCACGAAACCTGCTAGGCACATAGCCTGAATACACT
Found at i:11524068 original size:17 final size:18
Alignment explanation
Indices: 11524048--11524087 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11524038 TTAATTTTAA
11524048 TGCATTTT-TATTATCAT
1 TGCATTTTATATTATCAT
*
11524065 TGCATTTTATTTTATCAT
1 TGCATTTTATATTATCAT
*
11524083 CGCAT
1 TGCAT
11524088 CATTTTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (18 bp):
TGCATTTTATATTATCAT
Found at i:11537775 original size:37 final size:37
Alignment explanation
Indices: 11537664--11537781 Score: 148
Period size: 37 Copynumber: 3.2 Consensus size: 37
11537654 AGGTCTGTTT
* * * *
11537664 GGCACAAAGCCTGAATACACCAGCACAAAGCCTGCTA
1 GGCACATAGCCCGAATACACCAGCACGAAGCCTACTA
* *
11537701 GGCACATAACCCGAA-ACACCAGCATGAAGCCTACTA
1 GGCACATAGCCCGAATACACCAGCACGAAGCCTACTA
* * *
11537737 GGCATATAGCCCGAATACATCGGCACGAAGCCTACTA
1 GGCACATAGCCCGAATACACCAGCACGAAGCCTACTA
11537774 GGCACATA
1 GGCACATA
11537782 ACTCGAATTC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.46
37 37 0.54
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.13
Consensus pattern (37 bp):
GGCACATAGCCCGAATACACCAGCACGAAGCCTACTA
Found at i:11537789 original size:37 final size:37
Alignment explanation
Indices: 11537676--11537789 Score: 149
Period size: 37 Copynumber: 3.1 Consensus size: 37
11537666 CACAAAGCCT
* *
11537676 GAATACACCAGCACAAAGCCTGCTAGGCACATAACCC
1 GAATACACCAGCACGAAGCCTACTAGGCACATAACCC
* * *
11537713 GAA-ACACCAGCATGAAGCCTACTAGGCATATAGCCC
1 GAATACACCAGCACGAAGCCTACTAGGCACATAACCC
* * *
11537749 GAATACATCGGCACGAAGCCTACTAGGCACATAACTC
1 GAATACACCAGCACGAAGCCTACTAGGCACATAACCC
11537786 GAAT
1 GAAT
11537790 TCTTTGATGC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 31 0.48
37 34 0.52
ACGTcount: A:0.37, C:0.31, G:0.18, T:0.14
Consensus pattern (37 bp):
GAATACACCAGCACGAAGCCTACTAGGCACATAACCC
Found at i:11540627 original size:17 final size:16
Alignment explanation
Indices: 11540572--11540628 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
11540562 AATATATATG
* *
11540572 GAAATGCAATGACAAT
1 GAAATGCAGTGACAAA
*
11540588 GAAGAGGCAGTGACAAGA
1 GAA-ATGCAGTGACAA-A
*
11540606 AAAATGCAGTGACAAA
1 GAAATGCAGTGACAAA
11540622 CGAAATG
1 -GAAATG
11540629 TGATGACAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.12
17 26 0.81
18 2 0.06
ACGTcount: A:0.49, C:0.12, G:0.26, T:0.12
Consensus pattern (16 bp):
GAAATGCAGTGACAAA
Found at i:11557587 original size:51 final size:51
Alignment explanation
Indices: 11557498--11557734 Score: 330
Period size: 51 Copynumber: 4.6 Consensus size: 51
11557488 GCTATAAACG
*
11557498 AAAGAGTCCAATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
* * **
11557550 AAAGGTTCGATTACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
*
11557601 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
* * * ** * *
11557652 AAAGGTCCGATGAGTAAGTATCATCATGAGTAAATGAATCGATGACAAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
* *
11557703 AAAGGTTCGATGACTCAGTGTCATCGTGAGTA
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTA
11557735 TATAAATTCC
Statistics
Matches: 164, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 160 0.98
52 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
Found at i:11577282 original size:22 final size:21
Alignment explanation
Indices: 11577243--11577283 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11577233 TTTTTGAAAG
**
11577243 ATAAAAACTAAGTTAAAATCT
1 ATAAAAACTAAGGAAAAATCT
11577264 ATAAAAACATAAGGAAAAAT
1 ATAAAAAC-TAAGGAAAAAT
11577284 ACTTGCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (21 bp):
ATAAAAACTAAGGAAAAATCT
Found at i:11589355 original size:26 final size:26
Alignment explanation
Indices: 11589306--11589358 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11589296 CACCAAGGAA
*
11589306 TGTCGCTGCATGAATATGTACAGAAT
1 TGTCGCTGCATGAACATGTACAGAAT
* * *
11589332 TGTCGTTGCATGAACGTGTCCAGAAT
1 TGTCGCTGCATGAACATGTACAGAAT
11589358 T
1 T
11589359 ATGCCCAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (26 bp):
TGTCGCTGCATGAACATGTACAGAAT
Found at i:11589681 original size:25 final size:25
Alignment explanation
Indices: 11589647--11589707 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
11589637 TGCTCTTGAT
11589647 GAGGAGCATTTTAAGTACGACGCAA
1 GAGGAGCATTTTAAGTACGACGCAA
* *
11589672 GAGGAGCATTTTAAGTGCTACGCAA
1 GAGGAGCATTTTAAGTACGACGCAA
11589697 GAGGAGCATTT
1 GAGGAGCATTT
11589708 ACGGAAGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (25 bp):
GAGGAGCATTTTAAGTACGACGCAA
Found at i:11596662 original size:26 final size:26
Alignment explanation
Indices: 11596619--11596689 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
11596609 TTAGATCATC
11596619 TTATGCAGCGACACTTCTTG-ACAGGT
1 TTATGCAGCGACACTTC-TGAACAGGT
* * *
11596645 TTATGCATCGATATTTCTGAACAGGT
1 TTATGCAGCGACACTTCTGAACAGGT
** *
11596671 TCCTGCAGCGACAATTCTG
1 TTATGCAGCGACACTTCTG
11596690 GACGCATAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 2 0.06
26 34 0.94
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (26 bp):
TTATGCAGCGACACTTCTGAACAGGT
Found at i:11598007 original size:32 final size:32
Alignment explanation
Indices: 11597967--11598042 Score: 136
Period size: 32 Copynumber: 2.4 Consensus size: 32
11597957 GGTTAGAAAT
11597967 AATA-TAAGTTTAGTAAGTTACAAGGAATACA
1 AATATTAAGTTTAGTAAGTTACAAGGAATACA
11597998 AATATTAAGTTTAGTAAGTTACAAGGAATACA
1 AATATTAAGTTTAGTAAGTTACAAGGAATACA
11598030 AATATTAAAGTTT
1 AATATT-AAGTTT
11598043 TATCGACAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
31 4 0.09
32 33 0.77
33 6 0.14
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.33
Consensus pattern (32 bp):
AATATTAAGTTTAGTAAGTTACAAGGAATACA
Found at i:11616783 original size:12 final size:11
Alignment explanation
Indices: 11616766--11616817 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 11
11616756 GGTATTGAGA
11616766 AGGAGAAGAAAG
1 AGGAGAA-AAAG
11616778 AGGAGAAAGAAG
1 AGGAGAAA-AAG
* *
11616790 AAGAAAAGAAAG
1 AGGAGAA-AAAG
11616802 AAGGAGAAAAAG
1 -AGGAGAAAAAG
11616814 AGGA
1 AGGA
11616818 AGTTTTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 5 0.15
12 22 0.67
13 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (11 bp):
AGGAGAAAAAG
Found at i:11616799 original size:15 final size:15
Alignment explanation
Indices: 11616781--11616811 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11616771 AAGAAAGAGG
11616781 AGAAAGAAGAAGAAA
1 AGAAAGAAGAAGAAA
*
11616796 AGAAAGAAGGAGAAA
1 AGAAAGAAGAAGAAA
11616811 A
1 A
11616812 AGAGGAAGTT
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:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AGAAAGAAGAAGAAA
Found at i:11617905 original size:19 final size:21
Alignment explanation
Indices: 11617883--11617924 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
11617873 GAAAAGAAAG
11617883 AAAGAAAA-AAAGATA-ATAA
1 AAAGAAAAGAAAGATATATAA
*
11617902 AAAGAAAAGAAATATATATAA
1 AAAGAAAAGAAAGATATATAA
11617923 AA
1 AA
11617925 TGAATGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 6 0.30
21 6 0.30
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (21 bp):
AAAGAAAAGAAAGATATATAA
Found at i:11625340 original size:37 final size:37
Alignment explanation
Indices: 11625290--11625373 Score: 123
Period size: 37 Copynumber: 2.3 Consensus size: 37
11625280 TTGATACTAA
* * *
11625290 TGTCGCTGCATGAGCACTTCTAGATTGCGCCCAAAAC
1 TGTCGCCGCATGAGCACTTCCAGATTGCACCCAAAAC
* *
11625327 TGTCGTCGCATGAGCACTTCCAGATTGCACCCAAAAT
1 TGTCGCCGCATGAGCACTTCCAGATTGCACCCAAAAC
11625364 TGTCGCCGCA
1 TGTCGCCGCA
11625374 AGAATATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
TGTCGCCGCATGAGCACTTCCAGATTGCACCCAAAAC
Found at i:11625385 original size:37 final size:37
Alignment explanation
Indices: 11625290--11625394 Score: 102
Period size: 37 Copynumber: 2.8 Consensus size: 37
11625280 TTGATACTAA
* * * * *
11625290 TGTCGCTGCATGAGCACTTCTAGATTGCGCCCAAAAC
1 TGTCGCCGCAAGAACACTTCCAGATTGCACCCAAAAC
* * * *
11625327 TGTCGTCGCATGAGCACTTCCAGATTGCACCCAAAAT
1 TGTCGCCGCAAGAACACTTCCAGATTGCACCCAAAAC
* * *
11625364 TGTCGCCGCAAGAATATTTCCAGAATGCACC
1 TGTCGCCGCAAGAACACTTCCAGATTGCACC
11625395 AAAGACTTCC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
TGTCGCCGCAAGAACACTTCCAGATTGCACCCAAAAC
Found at i:11627979 original size:6 final size:7
Alignment explanation
Indices: 11627962--11627990 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
11627952 AACGCACATA
11627962 AAAAACT
1 AAAAACT
11627969 AAAAACT
1 AAAAACT
11627976 AAAAACT
1 AAAAACT
11627983 AAAAACT
1 AAAAACT
11627990 A
1 A
11627991 TATGCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAACT
Found at i:11646022 original size:38 final size:38
Alignment explanation
Indices: 11645959--11646036 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
11645949 CATTGTCAAT
*
11645959 AATTTTAATATCTAACAAGCTTAAAACATAATAATTTC
1 AATTTTAATATCCAACAAGCTTAAAACATAATAATTTC
*
11645997 AATTTCTAATATCCAACAAGC-TAAAACATAATACTTTC
1 AATTT-TAATATCCAACAAGCTTAAAACATAATAATTTC
11646035 AA
1 AA
11646037 AATCCAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 23 0.62
39 14 0.38
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (38 bp):
AATTTTAATATCCAACAAGCTTAAAACATAATAATTTC
Found at i:11650044 original size:34 final size:34
Alignment explanation
Indices: 11649981--11650050 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
11649971 GTAGCTGTAA
* * *
11649981 TTTAATTGTCACCATATTTCCTTTGTCATTACAT
1 TTTAATTGTCACCACATTTCCGTTATCATTACAT
* * *
11650015 TTTAATTGTCACTACATTTGCGTTATCATTGCAT
1 TTTAATTGTCACCACATTTCCGTTATCATTACAT
11650049 TT
1 TT
11650051 CCATTTATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.50
Consensus pattern (34 bp):
TTTAATTGTCACCACATTTCCGTTATCATTACAT
Found at i:11665368 original size:21 final size:21
Alignment explanation
Indices: 11665344--11665400 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
11665334 AATTGAGTAC
*
11665344 GCGAGCTCGCCTTGCGAGTCT
1 GCGAACTCGCCTTGCGAGTCT
11665365 GCGAACTCGCCTTGCGAGTCT
1 GCGAACTCGCCTTGCGAGTCT
11665386 GCGAACTCGCCTTGC
1 GCGAACTCGCCTTGC
11665401 TTGCATTCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.12, C:0.35, G:0.30, T:0.23
Consensus pattern (21 bp):
GCGAACTCGCCTTGCGAGTCT
Found at i:11666734 original size:2 final size:2
Alignment explanation
Indices: 11666727--11666765 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
11666717 TTTAAGATAA
11666727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11666766 GTTATTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11666770 original size:11 final size:11
Alignment explanation
Indices: 11666727--11666770 Score: 58
Period size: 10 Copynumber: 4.2 Consensus size: 11
11666717 TTTAAGATAA
11666727 ATATATATA-T
1 ATATATATATT
11666737 ATATATATA-T
1 ATATATATATT
11666747 ATATATATATT
1 ATATATATATT
11666758 ATAT-TATAGTT
1 ATATATATA-TT
11666769 AT
1 AT
11666771 TATTTGGTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
ATATATATATT
Found at i:11668693 original size:18 final size:18
Alignment explanation
Indices: 11668653--11668704 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
11668643 GTTCAAGGTA
*
11668653 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAATTTATT
*
11668671 CAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
11668689 TAATTAA--AAATTTATT
1 TAATTAATTAAATTTATT
11668705 ATTATCCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 7 0.23
18 14 0.47
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:11671150 original size:7 final size:8
Alignment explanation
Indices: 11671134--11671172 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
11671124 TAAACAATAC
11671134 AAATTAAA
1 AAATTAAA
11671142 AAATTAAA
1 AAATTAAA
*
11671150 AAAATAAA
1 AAATTAAA
*
11671158 AAAATAAA
1 AAATTAAA
*
11671166 ATATTAA
1 AAATTAA
11671173 CTAAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATTAAA
Found at i:11672198 original size:90 final size:90
Alignment explanation
Indices: 11672045--11672211 Score: 253
Period size: 90 Copynumber: 1.9 Consensus size: 90
11672035 GTTTCCGTTA
* * *
11672045 AAGAAAGAATTGTACGAAACTGTGATTCCACGTCATCCCTATCCCTTTTCAATAGGGGAATGACA
1 AAGAAAGAATTGTACGAAACTGTGATTCCACATCATCCCTATCCCTTTTCAATAAGAGAATGACA
*
11672110 AATTAGATTTTTTCTCTTGACTTTC
66 AATCAGATTTTTTCTCTTGACTTTC
* * * *
11672135 AAGAAAGGATTGTATGAAATTGTGATTTCACATCATCCCTATCCCTTTTCAATAAGAGAATGACA
1 AAGAAAGAATTGTACGAAACTGTGATTCCACATCATCCCTATCCCTTTTCAATAAGAGAATGACA
*
11672200 AATCCGATTTTT
66 AATCAGATTTTT
11672212 CTTCCCGATT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (90 bp):
AAGAAAGAATTGTACGAAACTGTGATTCCACATCATCCCTATCCCTTTTCAATAAGAGAATGACA
AATCAGATTTTTTCTCTTGACTTTC
Found at i:11674180 original size:29 final size:31
Alignment explanation
Indices: 11674115--11674183 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 31
11674105 CTCTATATAT
11674115 AATAATAAAATATTAAAATCATATTTATATTA
1 AATAAT-AAATATTAAAATCATATTTATATTA
* * * *
11674147 TATAATAAAT-TTCAAATTATA-TTATTTTA
1 AATAATAAATATTAAAATCATATTTATATTA
11674176 AATAATAA
1 AATAATAA
11674184 TTAAAAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 14 0.44
30 9 0.28
31 4 0.12
32 5 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (31 bp):
AATAATAAATATTAAAATCATATTTATATTA
Found at i:11675411 original size:3 final size:3
Alignment explanation
Indices: 11675403--11675427 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11675393 ATTCAAAAAT
11675403 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11675428 CACATACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11676442 original size:7 final size:7
Alignment explanation
Indices: 11676430--11676454 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11676420 AATGGAACCC
11676430 AATTTTA
1 AATTTTA
11676437 AATTTTA
1 AATTTTA
11676444 AATTTTA
1 AATTTTA
11676451 AATT
1 AATT
11676455 ATTTAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:11676458 original size:17 final size:17
Alignment explanation
Indices: 11676438--11676514 Score: 77
Period size: 17 Copynumber: 4.6 Consensus size: 17
11676428 CCAATTTTAA
*
11676438 ATTTTAAATTTTAAATT
1 ATTTTAAATTTGAAATT
* *
11676455 A-TTTAAGTTTGAATTT
1 ATTTTAAATTTGAAATT
11676471 ATTTTAAATTT-AAACTT
1 ATTTTAAATTTGAAA-TT
* * *
11676488 ATTTTGAGTTTGAATTT
1 ATTTTAAATTTGAAATT
11676505 ATTTTAAATT
1 ATTTTAAATT
11676515 AAATTTAAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
16 15 0.32
17 30 0.64
18 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTGAAATT
Found at i:11676479 original size:33 final size:35
Alignment explanation
Indices: 11676438--11676514 Score: 124
Period size: 34 Copynumber: 2.3 Consensus size: 35
11676428 CCAATTTTAA
11676438 ATTTTAAATTTTAAA-TTA-TTTAAGTTTGAATTT
1 ATTTTAAATTTTAAACTTATTTTAAGTTTGAATTT
*
11676471 ATTTTAAA-TTTAAACTTATTTTGAGTTTGAATTT
1 ATTTTAAATTTTAAACTTATTTTAAGTTTGAATTT
11676505 ATTTTAAATT
1 ATTTTAAATT
11676515 AAATTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
32 6 0.15
33 11 0.28
34 22 0.55
35 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (35 bp):
ATTTTAAATTTTAAACTTATTTTAAGTTTGAATTT
Found at i:11676571 original size:19 final size:20
Alignment explanation
Indices: 11676530--11676577 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
11676520 TAAATTTTAA
11676530 AAGTCCAAAATTACAAATTC
1 AAGTCCAAAATTACAAATTC
11676550 AAGTCCAAAA-TAC-AATTCC
1 AAGTCCAAAATTACAAATT-C
*
11676569 AAGCCCAAA
1 AAGTCCAAA
11676578 CACTAAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (20 bp):
AAGTCCAAAATTACAAATTC
Found at i:11677208 original size:19 final size:20
Alignment explanation
Indices: 11677184--11677224 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
11677174 ATATTAAATG
11677184 AATATTATT-AAT-AATAATA
1 AATATT-TTAAATAAATAATA
11677203 AATATTTTAAATAAATAATA
1 AATATTTTAAATAAATAATA
11677223 AA
1 AA
11677225 AAGGAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.10
19 9 0.45
20 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATATTTTAAATAAATAATA
Found at i:11677406 original size:2 final size:2
Alignment explanation
Indices: 11677399--11677439 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11677389 AGATCTTTAA
11677399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11677440 AGAAACTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11678720 original size:30 final size:29
Alignment explanation
Indices: 11678684--11678826 Score: 137
Period size: 29 Copynumber: 4.8 Consensus size: 29
11678674 CAGAAGGTCT
* *
11678684 CTAAACTCTCCAAAAATCACATTTTAACCC
1 CTAAACT-TCTAAAAATTACATTTTAACCC
**
11678714 CTAAACTTCTTTAAATTACATTTTAACCC
1 CTAAACTTCTAAAAATTACATTTTAACCC
*
11678743 CTAAATTTCTTAAAAATTACATTTTAA-CC
1 CTAAACTTC-TAAAAATTACATTTTAACCC
* * *
11678772 CTCGAGCTTTCTAAAAATTACATTTTTA-CC
1 CT-AAAC-TTCTAAAAATTACATTTTAACCC
* *
11678802 CTCAAACATCTAAAAATCACATTTT
1 CT-AAACTTCTAAAAATTACATTTT
11678827 TGACTTCGAA
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
29 46 0.48
30 46 0.48
31 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.36
Consensus pattern (29 bp):
CTAAACTTCTAAAAATTACATTTTAACCC
Found at i:11678816 original size:59 final size:58
Alignment explanation
Indices: 11678695--11678977 Score: 179
Period size: 59 Copynumber: 4.8 Consensus size: 58
11678685 TAAACTCTCC
* * * ** * **
11678695 AAAAATCACATTTTAACCCCTAAAC-TTCTTTAAATTACATTTTAACCC-CTAAATTTCTT
1 AAAAATTACATTTTAACCTC-GAACTTTCTAAAAATTACATTTTTACCCTC-AAACATC-T
*
11678754 AAAAATTACATTTTAACCCTCGAGCTTTCTAAAAATTACATTTTTACCCTCAAACATCT
1 AAAAATTACATTTTAA-CCTCGAACTTTCTAAAAATTACATTTTTACCCTCAAACATCT
* * * * *
11678813 AAAAATCACATTTTTGACTTCGAATTTTCTAAAAATTACCA-TTTTACCCTCGAACATCT
1 AAAAATTACA-TTTTAACCTCGAACTTTCTAAAAATTA-CATTTTTACCCTCAAACATCT
* * * * ** ** *
11678872 -AAAATTACCATTTT-ACTCCCGAA-TGTCCAAAAATTACATTTTTGCCC-CTGAGTTTT
1 AAAAATTA-CATTTTAAC-CTCGAACTTTCTAAAAATTACATTTTTACCCTCAAACATCT
* *
11678928 CAAAAATTACCATTTT-ACTCTCGAA-TGTCCAAAAATTACATTTTTACCCT
1 -AAAAATTA-CATTTTAAC-CTCGAACTTTCTAAAAATTACATTTTTACCCT
11678978 TGAGCTTCCT
Statistics
Matches: 185, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
56 6 0.03
57 20 0.11
58 59 0.32
59 64 0.35
60 35 0.19
61 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.37
Consensus pattern (58 bp):
AAAAATTACATTTTAACCTCGAACTTTCTAAAAATTACATTTTTACCCTCAAACATCT
Found at i:11678827 original size:29 final size:30
Alignment explanation
Indices: 11678682--11678886 Score: 147
Period size: 30 Copynumber: 6.9 Consensus size: 30
11678672 CCCAGAAGGT
* *
11678682 CTCTAAACTCTCCAAAAATCACATTTTAACC
1 CTCTAAACT-TCTAAAAATTACATTTTAACC
**
11678713 C-CTAAACTTCTTTAAATTACATTTTAACC
1 CTCTAAACTTCTAAAAATTACATTTTAACC
*
11678742 C-CTAAATTTCTTAAAAATTACATTTTAACC
1 CTCTAAACTTC-TAAAAATTACATTTTAACC
* * *
11678772 CTC-GAGCTTTCTAAAAATTACATTTTTACC
1 CTCTAAAC-TTCTAAAAATTACATTTTAACC
* * *
11678802 CTC-AAACATCTAAAAATCACATTTTTGA-C
1 CTCTAAACTTCTAAAAATTACA-TTTTAACC
* * **
11678831 TTCGAATTTTCTAAAAATTACCATTTT-ACC
1 CTCTAAACTTCTAAAAATTA-CATTTTAACC
* *
11678861 CTC-GAACATCT-AAAATTACCATTTTA
1 CTCTAAACTTCTAAAAATTA-CATTTTA
11678887 CTCCCGAATG
Statistics
Matches: 140, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
28 14 0.10
29 46 0.33
30 73 0.52
31 7 0.05
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (30 bp):
CTCTAAACTTCTAAAAATTACATTTTAACC
Found at i:11678903 original size:28 final size:28
Alignment explanation
Indices: 11678843--11679093 Score: 161
Period size: 29 Copynumber: 8.7 Consensus size: 28
11678833 CGAATTTTCT
**
11678843 AAAAATTACCATTTTACCCTCGAACAT-C
1 AAAAATTACCATTTTACCC-CGAATGTCC
*
11678871 TAAAATTACCATTTTACTCCCGAATGTCC
1 AAAAATTACCATTTTAC-CCCGAATGTCC
* * * *
11678900 AAAAATTA-CATTTTTGCCCCTGAGTTTTC
1 AAAAATTACCA-TTTTACCCC-GAATGTCC
*
11678929 AAAAATTACCATTTTACTCTCGAATGTCC
1 AAAAATTACCATTTTAC-CCCGAATGTCC
* *
11678958 AAAAATTA-CATTTTTACCCTTGAGCT-TCC
1 AAAAATTACCA-TTTTACCC-CGA-ATGTCC
* * *
11678987 TAAATTTACCATTTTACCCTCGGATGTCC
1 AAAAATTACCATTTTACCC-CGAATGTCC
* * *
11679016 AAAAATTA-CATTTTTCCCCTCGAGTGTCT
1 AAAAATTACCA-TTTTACCC-CGAATGTCC
* * **
11679045 AAAAATTACCGTTTTACCCCTAAACCTCC
1 AAAAATTACCATTTTACCCC-GAATGTCC
**
11679074 GTAAATTACCATTTTACCCC
1 AAAAATTACCATTTTACCCC
11679094 TGGGCATCCA
Statistics
Matches: 172, Mismatches: 37, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
28 33 0.19
29 131 0.76
30 8 0.05
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (28 bp):
AAAAATTACCATTTTACCCCGAATGTCC
Found at i:11678914 original size:29 final size:28
Alignment explanation
Indices: 11678754--11679063 Score: 180
Period size: 29 Copynumber: 10.6 Consensus size: 28
11678744 TAAATTTCTT
* * *
11678754 AAAAATTACATTTTAACCCTCGAGCTTTCT
1 AAAAATTACATTTT-ACCCTCGA-ATGTCC
* ** *
11678784 AAAAATTACATTTTTACCCTCAAACATCT
1 AAAAATTACA-TTTTACCCTCGAATGTCC
* * * *
11678813 AAAAATCACATTTTTGA-CTTCGAATTTTCT
1 AAAAATTACA-TTTT-ACCCTCGAA-TGTCC
**
11678843 AAAAATTACCATTTTACCCTCGAACAT-C
1 AAAAATTA-CATTTTACCCTCGAATGTCC
*
11678871 TAAAATTACCATTTTACTCC-CGAATGTCC
1 AAAAATTA-CATTTTAC-CCTCGAATGTCC
* * * *
11678900 AAAAATTACATTTTTGCCC-CTGAGTTTTC
1 AAAAATTACA-TTTTACCCTC-GAATGTCC
*
11678929 AAAAATTACCATTTTACTCTCGAATGTCC
1 AAAAATTA-CATTTTACCCTCGAATGTCC
* *
11678958 AAAAATTACATTTTTACCCTTGAGCT-TCC
1 AAAAATTACA-TTTTACCCTCGA-ATGTCC
* * *
11678987 TAAATTTACCATTTTACCCTCGGATGTCC
1 AAAAATTA-CATTTTACCCTCGAATGTCC
* * *
11679016 AAAAATTACATTTTTCCCCTCGAGTGTCT
1 AAAAATTACA-TTTTACCCTCGAATGTCC
*
11679045 AAAAATTACCGTTTTACCC
1 AAAAATTA-CATTTTACCC
11679064 CTAAACCTCC
Statistics
Matches: 220, Mismatches: 43, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
28 31 0.14
29 138 0.63
30 45 0.20
31 6 0.03
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (28 bp):
AAAAATTACATTTTACCCTCGAATGTCC
Found at i:11678990 original size:116 final size:115
Alignment explanation
Indices: 11678755--11679061 Score: 313
Period size: 116 Copynumber: 2.6 Consensus size: 115
11678745 AAATTTCTTA
* * * * * ***
11678755 AAAATTA-CATTTTAACCCTCGAGCTTTCTAAAAATTACATTTTTACCCTCAAACATCTAAAAAT
1 AAAATTACCATTTT-ACCCTCGA-ATGTCCAAAAATTACATTTTTCCCCTCGAGTGTCTAAAAAT
* * *
11678819 CA-CATTTTTGACT-TCGAATTTTCTAAAAATTACCATTTTACCCTCGAACATCT
64 TACCA-TTTT-ACTCTCGAA-TGTCCAAAAATTACCATTTTACCCTCGAACATCT
*
11678872 AAAATTACCATTTTACTCC-CGAATGTCCAAAAATTACATTTTTGCCCCT-GAGT-TTTCAAAAA
1 AAAATTACCATTTTAC-CCTCGAATGTCCAAAAATTACATTTTT-CCCCTCGAGTGTCT-AAAAA
* * *
11678934 TTACCATTTTACTCTCGAATGTCCAAAAATTA-CATTTTTACCCTTGAGCTTCCT
63 TTACCATTTTACTCTCGAATGTCCAAAAATTACCA-TTTTACCCTCGAACAT-CT
* *
11678988 AAATTTACCATTTTACCCTCGGATGTCCAAAAATTACATTTTTCCCCTCGAGTGTCTAAAAATTA
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTCCCCTCGAGTGTCTAAAAATTA
*
11679053 CCGTTTTAC
66 CCATTTTAC
11679062 CCCTAAACCT
Statistics
Matches: 161, Mismatches: 18, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
114 2 0.01
115 36 0.22
116 95 0.59
117 20 0.12
118 8 0.05
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.37
Consensus pattern (115 bp):
AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTCCCCTCGAGTGTCTAAAAATTA
CCATTTTACTCTCGAATGTCCAAAAATTACCATTTTACCCTCGAACATCT
Found at i:11679038 original size:87 final size:87
Alignment explanation
Indices: 11678928--11679117 Score: 208
Period size: 87 Copynumber: 2.2 Consensus size: 87
11678918 CCTGAGTTTT
* * * * * *
11678928 CAAAAATTACCA-TTTTACTCTCGAATGTCCAAAAATTACATTTTTACCCTTGAGCTTCC-TAAA
1 CAAAAATTA-CATTTTTACCCTCGAATGTCCAAAAATTACAGTTTTACCCCTAAACCTCCGTAAA
11678991 TTTACCATTTTA-CCCTCGG-ATGTC
65 -TTACCATTTTACCCCTCGGCA--TC
* * * *
11679015 CAAAAATTACATTTTTCCCCTCGAGTGTCTAAAAATTACCGTTTTACCCCTAAACCTCCGTAAAT
1 CAAAAATTACATTTTTACCCTCGAATGTCCAAAAATTACAGTTTTACCCCTAAACCTCCGTAAAT
*
11679080 TACCATTTTACCCCTGGGCATC
66 TACCATTTTACCCCTCGGCATC
*
11679102 CAAAAATCACATTTTT
1 CAAAAATTACATTTTT
11679118 GACTCTGTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
86 2 0.02
87 74 0.85
88 10 0.11
89 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (87 bp):
CAAAAATTACATTTTTACCCTCGAATGTCCAAAAATTACAGTTTTACCCCTAAACCTCCGTAAAT
TACCATTTTACCCCTCGGCATC
Found at i:11679062 original size:58 final size:56
Alignment explanation
Indices: 11678872--11679063 Score: 244
Period size: 58 Copynumber: 3.3 Consensus size: 56
11678862 TCGAACATCT
*
11678872 AAAATTACCATTTTACTCC-CGAATGTCCAAAAATTACATTTTTGCCCCTGAGTTTTCA
1 AAAATTACCATTTTAC-CCTCGAATGTCCAAAAATTACATTTTT-CCCCTGAGTTCT-A
* *
11678930 AAAATTACCATTTTACTCTCGAATGTCCAAAAATTACATTTTTACCCTTGAGCTTCCT-
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTT-CCCCTGAG-TT-CTA
* *
11678988 AAATTTACCATTTTACCCTCGGATGTCCAAAAATTACATTTTTCCCCTCGAGTGTCTA
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTCCCCT-GAGT-TCTA
*
11679046 AAAATTACCGTTTTACCC
1 AAAATTACCATTTTACCC
11679064 CTAAACCTCC
Statistics
Matches: 118, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
57 8 0.07
58 107 0.91
59 2 0.02
60 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.36
Consensus pattern (56 bp):
AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTCCCCTGAGTTCTA
Done.