Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 68 of 135
Found at i:22615463 original size:14 final size:15
Alignment explanation
Indices: 22615446--22615490 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
22615436 CTCATTTATC
22615446 TTTTTCGTAT-TTTA
1 TTTTTCGTATATTTA
*
22615460 TTTTT-TTCATATTTA
1 TTTTTCGT-ATATTTA
22615475 -TTTTCGTATATTTA
1 TTTTTCGTATATTTA
22615489 TT
1 TT
22615491 CATTCTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
13 1 0.04
14 18 0.72
15 6 0.24
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (15 bp):
TTTTTCGTATATTTA
Found at i:22615476 original size:15 final size:15
Alignment explanation
Indices: 22615439--22615478 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
22615429 GTATTTTCTC
* *
22615439 ATTTATCTTTTTCGT
1 ATTTATTTTTTTCAT
22615454 ATTTTATTTTTTTCAT
1 A-TTTATTTTTTTCAT
22615470 ATTTATTTT
1 ATTTATTTT
22615479 CGTATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (15 bp):
ATTTATTTTTTTCAT
Found at i:22615743 original size:97 final size:97
Alignment explanation
Indices: 22615610--22615799 Score: 292
Period size: 97 Copynumber: 2.0 Consensus size: 97
22615600 AAAATATTTA
22615610 AAATCAAGGCAATATTCCTTTATTTTGGATTTTGAAAATTCATGCCA-TAACTTACTAGGCGCGA
1 AAATCAAGGCAATATTCCTTTATTTTGGATTTTGAAAATTCATG-CATTAACTTACTAGGCGCGA
* *
22615674 TTTTTCTTCAAACCGGGATAATCGAATACCCTT
65 CTTTTCTTCAAACCAGGATAATCGAATACCCTT
* * * ** *
22615707 AAATCGAGGTAATATTCCTTTATTTTGGGTTTTGAAAATTTGTGCATTAACTTACTAGGCGTGAC
1 AAATCAAGGCAATATTCCTTTATTTTGGATTTTGAAAATTCATGCATTAACTTACTAGGCGCGAC
22615772 TTTTCTTCAAACCAGGATAATCGAATAC
66 TTTTCTTCAAACCAGGATAATCGAATAC
22615800 TCTGTTTCAA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 2 0.02
97 82 0.98
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (97 bp):
AAATCAAGGCAATATTCCTTTATTTTGGATTTTGAAAATTCATGCATTAACTTACTAGGCGCGAC
TTTTCTTCAAACCAGGATAATCGAATACCCTT
Found at i:22616277 original size:10 final size:10
Alignment explanation
Indices: 22616262--22616286 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22616252 TTTCAACATT
22616262 AAACTTAGCA
1 AAACTTAGCA
22616272 AAACTTAGCA
1 AAACTTAGCA
22616282 AAACT
1 AAACT
22616287 CCAAACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
AAACTTAGCA
Found at i:22618232 original size:13 final size:13
Alignment explanation
Indices: 22618214--22618268 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
22618204 TTTTTGAAAA
22618214 AAAGTCAACGGTC
1 AAAGTCAACGGTC
22618227 AAAGTCAACGGTC
1 AAAGTCAACGGTC
* *
22618240 AACGGTCAACGATC
1 AA-AGTCAACGGTC
22618254 AAAGTCAACGGTC
1 AAAGTCAACGGTC
22618267 AA
1 AA
22618269 CGGTCAATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
13 26 0.70
14 11 0.30
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (13 bp):
AAAGTCAACGGTC
Found at i:22618240 original size:7 final size:7
Alignment explanation
Indices: 22618217--22618275 Score: 77
Period size: 7 Copynumber: 8.7 Consensus size: 7
22618207 TTGAAAAAAA
22618217 GTCAACG
1 GTCAACG
*
22618224 GTCAA-A
1 GTCAACG
22618230 GTCAACG
1 GTCAACG
22618237 GTCAACG
1 GTCAACG
22618244 GTCAACG
1 GTCAACG
* *
22618251 ATCAA-A
1 GTCAACG
22618257 GTCAACG
1 GTCAACG
22618264 GTCAACG
1 GTCAACG
22618271 GTCAA
1 GTCAA
22618276 TCAACACCGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
6 9 0.20
7 35 0.80
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:22618242 original size:20 final size:20
Alignment explanation
Indices: 22618214--22618275 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
22618204 TTTTTGAAAA
*
22618214 AAAGTCAACGGTCAA-AGTC
1 AAAGTCAACGGTCAACGGTC
* *
22618233 AACGGTCAACGGTCAACGATC
1 AA-AGTCAACGGTCAACGGTC
22618254 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
22618274 AA
1 AA
22618276 TCAACACCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.06
20 30 0.83
21 4 0.11
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.15
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGGTC
Found at i:22618255 original size:27 final size:27
Alignment explanation
Indices: 22618217--22618275 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
22618207 TTGAAAAAAA
*
22618217 GTCAACGGTCAAAGTCAACGGTCAACG
1 GTCAACGATCAAAGTCAACGGTCAACG
22618244 GTCAACGATCAAAGTCAACGGTCAACG
1 GTCAACGATCAAAGTCAACGGTCAACG
22618271 GTCAA
1 GTCAA
22618276 TCAACACCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (27 bp):
GTCAACGATCAAAGTCAACGGTCAACG
Found at i:22618288 original size:21 final size:21
Alignment explanation
Indices: 22618262--22618310 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
22618252 TCAAAGTCAA
*
22618262 CGGTCAACGGTCAATCAACAC
1 CGGTCAACAGTCAATCAACAC
**
22618283 CGGTCAACAGTCGGTCAACAC
1 CGGTCAACAGTCAATCAACAC
*
22618304 CGATCAA
1 CGGTCAA
22618311 TACAGGTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.14
Consensus pattern (21 bp):
CGGTCAACAGTCAATCAACAC
Found at i:22624347 original size:3 final size:3
Alignment explanation
Indices: 22624339--22624372 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
22624329 TACATCCCAA
22624339 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22624373 TAGAATAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22627848 original size:22 final size:22
Alignment explanation
Indices: 22627822--22627864 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22627812 GACTGTAACC
*
22627822 GAAAAACGTGCTAAAAAGCAAA
1 GAAAAACGTGCCAAAAAGCAAA
**
22627844 GAAAATTGTGCCAAAAAGCAA
1 GAAAAACGTGCCAAAAAGCAA
22627865 GGTTATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.14, G:0.19, T:0.12
Consensus pattern (22 bp):
GAAAAACGTGCCAAAAAGCAAA
Found at i:22628211 original size:21 final size:21
Alignment explanation
Indices: 22628177--22628229 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
22628167 TAAAATGTGA
* * *
22628177 TTTTTATTACTTTTGAA-TAT
1 TTTTTATAAATTTTAAAGTAT
22628197 TATTTTATAAATTTTAAAGTAT
1 T-TTTTATAAATTTTAAAGTAT
*
22628219 TTTTCATAAAT
1 TTTTTATAAAT
22628230 ATGTTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTTATAAATTTTAAAGTAT
Found at i:22631687 original size:27 final size:27
Alignment explanation
Indices: 22631643--22631706 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
22631633 TAAGAAGACT
*
22631643 ATATAAAAAAATTCAATAAATAAAA-AA
1 ATATAAAATAATTCAAT-AATAAAATAA
* * *
22631670 ATATAAAATTATTGAATATTAAAATAA
1 ATATAAAATAATTCAATAATAAAATAA
22631697 AT-TAAAATAA
1 ATATAAAATAA
22631707 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (27 bp):
ATATAAAATAATTCAATAATAAAATAA
Found at i:22632092 original size:26 final size:26
Alignment explanation
Indices: 22632062--22632153 Score: 78
Period size: 26 Copynumber: 3.3 Consensus size: 26
22632052 GTTATTAAAT
22632062 TTTAATAAAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
* *
22632088 TTTAATAAAAATAATAAATAATT-AATCATAT
1 TTTAAT-AAAAT--T--ATTATTAAAT-ATAA
* *
22632119 TTTAATATAATTATTATTAAACATAA
1 TTTAATAAAATTATTATTAAATATAA
*
22632145 ATTAATAAA
1 TTTAATAAA
22632154 TAATATATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
26 21 0.41
27 7 0.14
28 1 0.02
29 1 0.02
30 7 0.14
31 14 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAATATAA
Found at i:22632124 original size:57 final size:56
Alignment explanation
Indices: 22632060--22632192 Score: 178
Period size: 57 Copynumber: 2.3 Consensus size: 56
22632050 TTGTTATTAA
* * * * *
22632060 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAATAATAAATAA-TTAATCAT
1 ATTTTAATATAATTATTATTAAACATAAATTAAT--AAATAATAAATAACTTAATAAC
*
22632117 ATTTTAATATAATTATTATTAAACATAAATTAATAAATAATATATAACTTAATAAC
1 ATTTTAATATAATTATTATTAAACATAAATTAATAAATAATAAATAACTTAATAAC
22632173 ATTCTTAATATAATTATTAT
1 ATT-TTAATATAATTATTAT
22632193 AATAACATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
55 12 0.18
56 9 0.13
57 47 0.69
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (56 bp):
ATTTTAATATAATTATTATTAAACATAAATTAATAAATAATAAATAACTTAATAAC
Found at i:22639972 original size:16 final size:16
Alignment explanation
Indices: 22639953--22639988 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22639943 AATAAGGCTA
*
22639953 TAATGGAATAGAGTTG
1 TAATGAAATAGAGTTG
*
22639969 TAATGAAATTGAGTTG
1 TAATGAAATAGAGTTG
22639985 TAAT
1 TAAT
22639989 CAGTAATTCA
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:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (16 bp):
TAATGAAATAGAGTTG
Found at i:22640056 original size:44 final size:44
Alignment explanation
Indices: 22640001--22640091 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
22639991 GTAATTCAAT
22640001 TGTTTGGTTGAATGTAATAGAATAGAACTGTAATAATATTCTTG
1 TGTTTGGTTGAATGTAATAGAATAGAACTGTAATAATATTCTTG
*
22640045 TGTTTGGTTGAATGTAATGGAATAGAACTGTAATAATATTCTTG
1 TGTTTGGTTGAATGTAATAGAATAGAACTGTAATAATATTCTTG
22640089 TGT
1 TGT
22640092 GAATGAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (44 bp):
TGTTTGGTTGAATGTAATAGAATAGAACTGTAATAATATTCTTG
Found at i:22640293 original size:22 final size:22
Alignment explanation
Indices: 22640268--22640310 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22640258 TTTTTTTATA
*
22640268 TTAAATTATATTGAAAGATTTT
1 TTAAATTATATTAAAAGATTTT
*
22640290 TTAAATTATATTAAAATATTT
1 TTAAATTATATTAAAAGATTT
22640311 AAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TTAAATTATATTAAAAGATTTT
Found at i:22651958 original size:5 final size:5
Alignment explanation
Indices: 22651948--22651992 Score: 63
Period size: 5 Copynumber: 8.6 Consensus size: 5
22651938 GGCAACCTAG
*
22651948 TTTAA TTTAA TTTAA TTTAA TTTAA TTTCAAA TTTAA TTTTA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT--AA TTTAA TTTAA TTT
22651993 TAGGATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 32 0.86
7 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:22655212 original size:128 final size:128
Alignment explanation
Indices: 22654984--22655296 Score: 538
Period size: 128 Copynumber: 2.4 Consensus size: 128
22654974 AATGTGATTG
* *
22654984 AATTGAGTAACCAGGTTGAGGTGCTTGGCTTGTCATCTCAATTCGCGTAAAAAGATTTAAGTGAT
1 AATTGAGTAACCAGGTTGAGGTGCTTGGCTTGTCATCTCAATTCGCGAAAAAAGATTCAAGTGAT
* * *
22655049 GAACCGAAGCTTGTAACACTTCACTAACCGAGCTACCTTGAAAAATAAGGTAAAGACTTTTCA
66 GAACCGAAGCTTGTAACACTCCACTAACCGAGCTACCTTGAAAAATAAGCTAAAGACATTTCA
* * *
22655112 AATTGAGTAACCGGGTTGAGGTGCTTGGCTTATCATCTCAATTCGCGAAAAAAGATTCGAGTGAT
1 AATTGAGTAACCAGGTTGAGGTGCTTGGCTTGTCATCTCAATTCGCGAAAAAAGATTCAAGTGAT
22655177 GAACCGAAGCTTGTAACACTCCACTAACCGAGCTACCTTGAAAAATAAGCTAAAGACATTTCA
66 GAACCGAAGCTTGTAACACTCCACTAACCGAGCTACCTTGAAAAATAAGCTAAAGACATTTCA
22655240 AATTGAGTAACCAGGTTGAGGTGCTTGGCTTGTCATCTCAATTCGC-ATAAAAAGATT
1 AATTGAGTAACCAGGTTGAGGTGCTTGGCTTGTCATCTCAATTCGCGA-AAAAAGATT
22655297 TGATTAGGTC
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
127 1 0.01
128 173 0.99
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (128 bp):
AATTGAGTAACCAGGTTGAGGTGCTTGGCTTGTCATCTCAATTCGCGAAAAAAGATTCAAGTGAT
GAACCGAAGCTTGTAACACTCCACTAACCGAGCTACCTTGAAAAATAAGCTAAAGACATTTCA
Found at i:22655343 original size:14 final size:13
Alignment explanation
Indices: 22655324--22655354 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
22655314 ATGTGTAAAT
22655324 AAAAAATACAAGAA
1 AAAAAAT-CAAGAA
22655338 AAAAAATCAAGAA
1 AAAAAATCAAGAA
22655351 AAAA
1 AAAA
22655355 TGTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAATCAAGAA
Found at i:22667194 original size:329 final size:329
Alignment explanation
Indices: 22666596--22667250 Score: 1229
Period size: 329 Copynumber: 2.0 Consensus size: 329
22666586 TGTCCTTCTC
22666596 AACCACCTTTTTTACTCTATAAGGAACCTCCTCGATCCATACCCTTTGATCTAGCCATTGTTTAC
1 AACCACCTTTTTTACTCTATAAGGAACCTCCTCGATCCATACCCTTTGATCTAGCCATTGTTTAC
*
22666661 CCTCTACGGCCATCGCATGCACAGCTTGATTCGTCAATCTGCCCACAAATGCACAGGTAAAGCTT
66 CCTCTACGGCCATCGCATGCACAGCTTGATTCGTCAATCTGCCCACAAATGCAAAGGTAAAGCTT
22666726 TCAAACCTCTACGAGTTTTCCTTGATTTCTTGTATTATCACCGCAATACTTGATCGATCTTCATT
131 TCAAACCTCTACGAGTTTTCCTTGATTTCTTGTATTATCACCGCAATACTTGATCGATCTTCATT
22666791 TTTTTCCCTTATTTTTTCAATGACGGTCAAACAGTCCCCTTCTATTGCCAATTTTCAAAAATCGA
196 TTTTTCCCTTATTTTTTCAATGACGGTCAAACAGTCCCCTTCTATTGCCAATTTTCAAAAATCGA
* *
22666856 ATTCCTCTACCATTGTTACTGCCTGCAAGCATGCCTTTGCTTTTGCCGTGGTAGCGTCCGCTACA
261 ATTCCTCTACCATTGTTACTGCCTGCAAGCATGCCTTCGCTTTTACCGTGGTAGCGTCCGCTACA
22666921 TCTT
326 TCTT
* *
22666925 AACCACCTTTTTTACTCTATAAGGAACCTCCTTGATCCATACCCTTTGATCTAGCCATTGTTTAT
1 AACCACCTTTTTTACTCTATAAGGAACCTCCTCGATCCATACCCTTTGATCTAGCCATTGTTTAC
* *
22666990 CCTCTACGGCCATCGCATGCGCAGCTTGATTCGTCAATCTGTCCACAAATGCAAAGGTAAAGCTT
66 CCTCTACGGCCATCGCATGCACAGCTTGATTCGTCAATCTGCCCACAAATGCAAAGGTAAAGCTT
*
22667055 TCAAACCTCTACGATTTTTCCTTGATTTCTTGTATTATCACCGCAATACTTGATCGATCTTCATT
131 TCAAACCTCTACGAGTTTTCCTTGATTTCTTGTATTATCACCGCAATACTTGATCGATCTTCATT
*
22667120 TTTTTCCCTTATTTTTTCAATGACGGTCAAACAGTCCCCTTCTATTGCCAATTTTCAAAAATTGA
196 TTTTTCCCTTATTTTTTCAATGACGGTCAAACAGTCCCCTTCTATTGCCAATTTTCAAAAATCGA
22667185 ATTCCTCTACCATTGTTACTGCCTGCAAGCATGCCTTCGCTTTTACCGTGGTAGCGTCCGCTACA
261 ATTCCTCTACCATTGTTACTGCCTGCAAGCATGCCTTCGCTTTTACCGTGGTAGCGTCCGCTACA
22667250 T
326 T
22667251 GGAGAGCGTC
Statistics
Matches: 317, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
329 317 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (329 bp):
AACCACCTTTTTTACTCTATAAGGAACCTCCTCGATCCATACCCTTTGATCTAGCCATTGTTTAC
CCTCTACGGCCATCGCATGCACAGCTTGATTCGTCAATCTGCCCACAAATGCAAAGGTAAAGCTT
TCAAACCTCTACGAGTTTTCCTTGATTTCTTGTATTATCACCGCAATACTTGATCGATCTTCATT
TTTTTCCCTTATTTTTTCAATGACGGTCAAACAGTCCCCTTCTATTGCCAATTTTCAAAAATCGA
ATTCCTCTACCATTGTTACTGCCTGCAAGCATGCCTTCGCTTTTACCGTGGTAGCGTCCGCTACA
TCTT
Found at i:22667260 original size:18 final size:18
Alignment explanation
Indices: 22667237--22667272 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22667227 TTACCGTGGT
22667237 AGCGTCCGCTACATGGAG
1 AGCGTCCGCTACATGGAG
22667255 AGCGTCCGCTACATGGAG
1 AGCGTCCGCTACATGGAG
22667273 GTTCTGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (18 bp):
AGCGTCCGCTACATGGAG
Found at i:22679229 original size:15 final size:15
Alignment explanation
Indices: 22679201--22679235 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22679191 TATTCAGATC
*
22679201 AGGATTACAGTTACG
1 AGGATAACAGTTACG
*
22679216 AGGATAACATTTACG
1 AGGATAACAGTTACG
22679231 AGGAT
1 AGGAT
22679236 GATATCTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (15 bp):
AGGATAACAGTTACG
Found at i:22688312 original size:18 final size:18
Alignment explanation
Indices: 22688291--22688327 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22688281 TTGATTTTCG
*
22688291 AATTCGAATAACTTGAAT
1 AATTCGAATAAATTGAAT
22688309 AATTCGAATAAATTGAAT
1 AATTCGAATAAATTGAAT
22688327 A
1 A
22688328 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGAATAAATTGAAT
Found at i:22689686 original size:26 final size:26
Alignment explanation
Indices: 22689657--22689725 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 26
22689647 CATTAAACCC
22689657 TAAATCTAAACTTTAAACAC-CAAA-TT
1 TAAATCTAAAC-TTAAAC-CTCAAATTT
*
22689683 TAAAT-TCAAACTTAAACCTTAAATTT
1 TAAATCT-AAACTTAAACCTCAAATTT
22689709 TAAATCTTAAACCTTAA
1 TAAATC-TAAA-CTTAA
22689726 GTTTAAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
24 1 0.03
25 10 0.28
26 16 0.44
27 3 0.08
28 6 0.17
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAATCTAAACTTAAACCTCAAATTT
Found at i:22689871 original size:17 final size:19
Alignment explanation
Indices: 22689831--22689871 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
22689821 TGCAAAAAAA
*
22689831 TAAAAAAATATAAACTTAT
1 TAAAAAAATATAAACTGAT
*
22689850 GAAAAAAATA-AAA-TGAT
1 TAAAAAAATATAAACTGAT
22689867 TAAAA
1 TAAAA
22689872 TTTGTAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 7 0.37
18 3 0.16
19 9 0.47
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (19 bp):
TAAAAAAATATAAACTGAT
Found at i:22689880 original size:26 final size:27
Alignment explanation
Indices: 22689824--22689890 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
22689814 AATTGAGTGC
* *
22689824 AAAAAAATAAAAAAATATAAACTTATG
1 AAAAAAATAAAATAATATAAAATTATG
*
22689851 AAAAAAATAAAATGAT-TAAAATT-TG
1 AAAAAAATAAAATAATATAAAATTATG
22689876 TAAAAGAAA-AAAATA
1 -AAAA-AAATAAAATA
22689891 TTTGTTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.06
26 15 0.44
27 17 0.50
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.22
Consensus pattern (27 bp):
AAAAAAATAAAATAATATAAAATTATG
Found at i:22693890 original size:29 final size:29
Alignment explanation
Indices: 22693825--22693890 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
22693815 TTCAATTACA
* *
22693825 AATGGTAAGAAAATATTATTAATTATTAT
1 AATGTTAAGAAAATATTATAAATTATTAT
* *
22693854 GATGTTAAGAGAATATTATCAAATTATT-T
1 AATGTTAAGAAAATATTAT-AAATTATTAT
*
22693883 AATTTTAA
1 AATGTTAA
22693891 ATAGTTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (29 bp):
AATGTTAAGAAAATATTATAAATTATTAT
Found at i:22694427 original size:72 final size:72
Alignment explanation
Indices: 22694345--22694502 Score: 210
Period size: 72 Copynumber: 2.2 Consensus size: 72
22694335 CGGGAAGAGG
* * ** ** * *
22694345 CGAGGCCGAAGATCAACCGCGACGTGCACGTGAAGACAAGGTTGAAGATCAACCTCGACGTGCA-
1 CGAGGCCGAAGATCAACCCCAACGTGCACACGAAGACAAGGCCGAAGATCAACCCCAACGTGCAC
22694409 AATGAAGA
66 AA-GAAGA
*
22694417 CGAGGTCGAAGATCAACCCCAACGTGCACACGAAGACAAGGCCGAAGATCAACCCCAACGTGCAC
1 CGAGGCCGAAGATCAACCCCAACGTGCACACGAAGACAAGGCCGAAGATCAACCCCAACGTGCAC
22694482 AAGAAGA
66 AAGAAGA
*
22694489 CGGGGCCGAAGATC
1 CGAGGCCGAAGATC
22694503 TAGTGGAGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
72 72 0.97
73 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.28, T:0.09
Consensus pattern (72 bp):
CGAGGCCGAAGATCAACCCCAACGTGCACACGAAGACAAGGCCGAAGATCAACCCCAACGTGCAC
AAGAAGA
Found at i:22694496 original size:36 final size:36
Alignment explanation
Indices: 22694347--22694502 Score: 179
Period size: 36 Copynumber: 4.3 Consensus size: 36
22694337 GGAAGAGGCG
* * **
22694347 AGGCCGAAGATCAACCGCGACGTGCACGTGAAGACA
1 AGGCCGAAGATCAACCCCAACGTGCACAAGAAGACA
** * * *
22694383 AGGTTGAAGATCAACCTCGACGTGCA-AATGAAGACG
1 AGGCCGAAGATCAACCCCAACGTGCACAA-GAAGACA
* *
22694419 AGGTCGAAGATCAACCCCAACGTGCACACGAAGACA
1 AGGCCGAAGATCAACCCCAACGTGCACAAGAAGACA
*
22694455 AGGCCGAAGATCAACCCCAACGTGCACAAGAAGACG
1 AGGCCGAAGATCAACCCCAACGTGCACAAGAAGACA
*
22694491 GGGCCGAAGATC
1 AGGCCGAAGATC
22694503 TAGTGGAGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
36 102 0.99
37 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.28, T:0.10
Consensus pattern (36 bp):
AGGCCGAAGATCAACCCCAACGTGCACAAGAAGACA
Found at i:22695421 original size:20 final size:19
Alignment explanation
Indices: 22695396--22695439 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
22695386 AAAAAATATC
*
22695396 AAAAAT-TAAATTTTTGATTA
1 AAAAATATAAAATTTT-A-TA
22695416 AAAAATATAAAATTTTATA
1 AAAAATATAAAATTTTATA
22695435 AAAAA
1 AAAAA
22695440 AACCATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 7 0.32
21 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAATATAAAATTTTATA
Found at i:22695440 original size:20 final size:20
Alignment explanation
Indices: 22695396--22695440 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
22695386 AAAAAATATC
* *
22695396 AAAAATTAAATTTTTGATTA
1 AAAAATTAAAATTTTGATAA
22695416 AAAAATATAAAATTTT-ATAA
1 AAAAAT-TAAAATTTTGATAA
22695436 AAAAA
1 AAAAA
22695441 ACCATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAATTAAAATTTTGATAA
Found at i:22700619 original size:23 final size:26
Alignment explanation
Indices: 22700587--22700635 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 26
22700577 ATAAATAAAA
*
22700587 AAAATTATCTC-T-AGAG-ATTTTCT
1 AAAATAATCTCTTCAGAGAATTTTCT
22700610 AAAATAATCTCTTCAGAGAATTTTCT
1 AAAATAATCTCTTCAGAGAATTTTCT
22700636 CTTTACAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 4 0.18
26 7 0.32
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (26 bp):
AAAATAATCTCTTCAGAGAATTTTCT
Found at i:22700909 original size:25 final size:25
Alignment explanation
Indices: 22700855--22700909 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
22700845 AAACATTAAA
*
22700855 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
22700880 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
22700904 TATTAA
1 T-TTAA
22700910 AATAAGCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:22700945 original size:37 final size:39
Alignment explanation
Indices: 22700849--22700951 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 39
22700839 CAAAATAAAC
* *
22700849 ATTAAATTTAAT-TT-AA-TATTAAGATAATCACTTTAAT
1 ATTAAATTTAATATTAAATTATTAAAATAAGCAC-TTAAT
22700886 ATTAAA-TTAATA--AAATACTATTAAAATAAGCA-TTAA-
1 ATTAAATTTAATATTAAAT--TATTAAAATAAGCACTTAAT
22700922 ATTAAATTTAATATTAAATTATTAAAATAA
1 ATTAAATTTAATATTAAATTATTAAAATAA
22700952 TATTATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
36 13 0.23
37 27 0.48
39 16 0.29
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (39 bp):
ATTAAATTTAATATTAAATTATTAAAATAAGCACTTAAT
Found at i:22706525 original size:18 final size:19
Alignment explanation
Indices: 22706489--22706554 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
22706479 ATCGCAAAGT
* *
22706489 AATATATATATAGATTAAA
1 AATATATATAAATATTAAA
*
22706508 AATATA-ATACATATTAAA
1 AATATATATAAATATTAAA
*
22706526 AATATATATAAATAATAAA
1 AATATATATAAATATTAAA
22706545 AATATATATA
1 AATATATATA
22706555 GATAGAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.38
19 26 0.62
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AATATATATAAATATTAAA
Found at i:22706564 original size:19 final size:18
Alignment explanation
Indices: 22706492--22706566 Score: 73
Period size: 19 Copynumber: 4.2 Consensus size: 18
22706482 GCAAAGTAAT
*
22706492 ATATATATAGAT-TAAAA
1 ATATATATAGATAAAAAA
* *
22706509 ATATA-ATACATATTAAAA
1 ATATATATAGATA-AAAAA
*
22706527 ATATATATAAATAATAAAA
1 ATATATATAGATAA-AAAA
*
22706546 ATATATATAGATAGAAAA
1 ATATATATAGATAAAAAA
22706564 ATA
1 ATA
22706567 CTGAATATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
16 5 0.10
17 5 0.10
18 17 0.35
19 22 0.45
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (18 bp):
ATATATATAGATAAAAAA
Found at i:22706564 original size:37 final size:37
Alignment explanation
Indices: 22706489--22706566 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
22706479 ATCGCAAAGT
* * *
22706489 AATATATATATAGATTAAAAATATAATACATATTAAA
1 AATATATATAAAGAATAAAAATATAATACATATGAAA
* *
22706526 AATATATATAAATAATAAAAATATATATAGATA-GAAA
1 AATATATATAAAGAATAAAAATATA-ATACATATGAAA
22706563 AATA
1 AATA
22706567 CTGAATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 29 0.83
38 6 0.17
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (37 bp):
AATATATATAAAGAATAAAAATATAATACATATGAAA
Found at i:22708183 original size:15 final size:15
Alignment explanation
Indices: 22708163--22708193 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22708153 TGGTAATTAT
22708163 ACCATTGTAAGTGTA
1 ACCATTGTAAGTGTA
22708178 ACCATTGTAAGTGTA
1 ACCATTGTAAGTGTA
22708193 A
1 A
22708194 GTGGACGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (15 bp):
ACCATTGTAAGTGTA
Found at i:22709157 original size:52 final size:52
Alignment explanation
Indices: 22709079--22709471 Score: 562
Period size: 52 Copynumber: 7.6 Consensus size: 52
22709069 TAAATGAAAA
* * *
22709079 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGACTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
22709131 AGGTCCGATGACTATGTGTCATCGTGATTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
22709183 AGGACCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
22709235 AGGAT-CGATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAG
1 AGG-TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
22709287 AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
22709339 AGAAT-CGATGAC--TGTCTCATCGTGAGTATATGAATCCTTTACAGATTATG
1 AG-GTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
22709389 AGGAT-CGATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAG
1 AGG-TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
22709441 AGGTCCGATGACTATGTGTCATCATGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
22709472 TAAATGAAAC
Statistics
Matches: 305, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
50 46 0.15
51 2 0.01
52 256 0.84
53 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:22709427 original size:154 final size:155
Alignment explanation
Indices: 22709085--22709471 Score: 650
Period size: 154 Copynumber: 2.5 Consensus size: 155
22709075 AAAAAGGTCT
* * *
22709085 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGACTATGAGGTCCGATGACTATGTGT
1 GATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAGAGGTCCGATGACTATGTGT
* * *
22709150 CATCGTGATTATATGAATCCTTTACAGATTATGAGGACCGATGACTATGTGTCATCGTGAGTATA
66 CATCGTGAGTATATGAATCCTTTACAGATTATGAGAACCGATGAC-ATGTCTCATCGTGAGTATA
*
22709215 TGAATCCTTTACGGATTATAAGGATC
130 TGAATCCTTTACAGATTATAAGGATC
*
22709241 GATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAGAGGTCCAATGACTATGTGT
1 GATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAGAGGTCCGATGACTATGTGT
* *
22709306 CATCGTGAGTATATGAATCCTTTACGGATTATGAGAATCGATGAC-TGTCTCATCGTGAGTATAT
66 CATCGTGAGTATATGAATCCTTTACAGATTATGAGAACCGATGACATGTCTCATCGTGAGTATAT
*
22709370 GAATCCTTTACAGATTATGAGGATC
131 GAATCCTTTACAGATTATAAGGATC
22709395 GATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAGAGGTCCGATGACTATGTGT
1 GATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAGAGGTCCGATGACTATGTGT
*
22709460 CATCATGAGTAT
66 CATCGTGAGTAT
22709472 TAAATGAAAC
Statistics
Matches: 218, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
154 116 0.53
156 102 0.47
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.35
Consensus pattern (155 bp):
GATGACTATGTGTCATCGTGAGTATATGATTCCTTTATGGATTAAGAGGTCCGATGACTATGTGT
CATCGTGAGTATATGAATCCTTTACAGATTATGAGAACCGATGACATGTCTCATCGTGAGTATAT
GAATCCTTTACAGATTATAAGGATC
Found at i:22710236 original size:21 final size:21
Alignment explanation
Indices: 22710210--22710259 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
22710200 TTTTTAGTAC
* * *
22710210 CGGTAGAAGCATGATTTGTTT
1 CGGTAGAAGCATCACTTGTAT
*
22710231 CGGTAGAAGCTTCACTTGTAT
1 CGGTAGAAGCATCACTTGTAT
22710252 CGGTAGAA
1 CGGTAGAA
22710260 CTATCATAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (21 bp):
CGGTAGAAGCATCACTTGTAT
Found at i:22717125 original size:10 final size:10
Alignment explanation
Indices: 22717096--22717140 Score: 63
Period size: 10 Copynumber: 4.3 Consensus size: 10
22717086 TGGCAATGTA
22717096 TTTCTTTCTT
1 TTTCTTTCTT
22717106 TTCTCTTTTCTT
1 TT-TC-TTTCTT
*
22717118 CTTCTTTCTT
1 TTTCTTTCTT
22717128 TTTCTTTCTT
1 TTTCTTTCTT
22717138 TTT
1 TTT
22717141 GTGATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 20 0.65
11 4 0.13
12 7 0.23
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:22717127 original size:15 final size:16
Alignment explanation
Indices: 22717096--22717139 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
22717086 TGGCAATGTA
22717096 TTTCTTTCTTTTCTCT
1 TTTCTTTCTTTTCTCT
22717112 TTTC-TTCTTCTT-TCTT
1 TTTCTTTCTT-TTCTC-T
22717128 TTTCTTTCTTTT
1 TTTCTTTCTTTT
22717140 TGTGATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.28
16 13 0.52
17 5 0.20
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTCTTTTCTCT
Found at i:22721760 original size:24 final size:24
Alignment explanation
Indices: 22721724--22721882 Score: 178
Period size: 24 Copynumber: 6.6 Consensus size: 24
22721714 TTTTAACTCA
* * *
22721724 TTACAAGCACAGAATGATTATCTC
1 TTACGAGCCCAGAATGATTAGCTC
* * *
22721748 TTACAAGCCCAGAATGCTAAGCTC
1 TTACGAGCCCAGAATGATTAGCTC
*
22721772 TTACGAGCCCAAAAT-AGTTAGCTC
1 TTACGAGCCCAGAATGA-TTAGCTC
* * *
22721796 TTACAAGCCCAAAATGGTTAGCTC
1 TTACGAGCCCAGAATGATTAGCTC
* *
22721820 TTACGAGTCCAGAATGGTTAGCTC
1 TTACGAGCCCAGAATGATTAGCTC
22721844 TTACGAGCCCAGAAT-AGTTAGCTC
1 TTACGAGCCCAGAATGA-TTAGCTC
22721868 TTACGAGCCCAGAAT
1 TTACGAGCCCAGAAT
22721883 CAGAATAACC
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
24 117 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (24 bp):
TTACGAGCCCAGAATGATTAGCTC
Found at i:22721832 original size:72 final size:72
Alignment explanation
Indices: 22721724--22721878 Score: 220
Period size: 72 Copynumber: 2.2 Consensus size: 72
22721714 TTTTAACTCA
* * *
22721724 TTACAAGCACAGAATGATTATCTCTTACAAGCCCAGAATGCTAAGCTCTTACGAGCCCAAAATAG
1 TTACAAGCCCAAAATGATTAGCTCTTACAAGCCCAGAATGCTAAGCTCTTACGAGCCCAAAATAG
22721789 TTAGCTC
66 TTAGCTC
* * * * * *
22721796 TTACAAGCCCAAAATGGTTAGCTCTTACGAGTCCAGAATGGTTAGCTCTTACGAGCCCAGAATAG
1 TTACAAGCCCAAAATGATTAGCTCTTACAAGCCCAGAATGCTAAGCTCTTACGAGCCCAAAATAG
22721861 TTAGCTC
66 TTAGCTC
*
22721868 TTACGAGCCCA
1 TTACAAGCCCA
22721879 GAATCAGAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (72 bp):
TTACAAGCCCAAAATGATTAGCTCTTACAAGCCCAGAATGCTAAGCTCTTACGAGCCCAAAATAG
TTAGCTC
Found at i:22721880 original size:48 final size:47
Alignment explanation
Indices: 22721724--22721882 Score: 201
Period size: 48 Copynumber: 3.3 Consensus size: 47
22721714 TTTTAACTCA
* * * * *
22721724 TTACAAGCACAGAATGATTATCTCTTACAAGCCCAGAATGCTAAGCTC
1 TTACGAGCCCAGAATGGTTAGCTCTTACAAGCCCAGAATG-TTAGCTC
* * *
22721772 TTACGAGCCCAAAATAGTTAGCTCTTACAAGCCCAAAATGGTTAGCTC
1 TTACGAGCCCAGAATGGTTAGCTCTTACAAGCCCAGAAT-GTTAGCTC
* *
22721820 TTACGAGTCCAGAATGGTTAGCTCTTACGAGCCCAGAATAGTTAGCTC
1 TTACGAGCCCAGAATGGTTAGCTCTTACAAGCCCAGAAT-GTTAGCTC
22721868 TTACGAGCCCAGAAT
1 TTACGAGCCCAGAAT
22721883 CAGAATAACC
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 94 0.99
49 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (47 bp):
TTACGAGCCCAGAATGGTTAGCTCTTACAAGCCCAGAATGTTAGCTC
Found at i:22721922 original size:27 final size:27
Alignment explanation
Indices: 22721864--22721966 Score: 136
Period size: 27 Copynumber: 3.8 Consensus size: 27
22721854 AGAATAGTTA
*
22721864 GCTCTTACGAGCCCAGAATCAGAATAA-
1 GCTCTTTCGAG-CCAGAATCAGAATAAT
* *
22721891 CCTCTTTCGAGCAAGAATCAGAATAAT
1 GCTCTTTCGAGCCAGAATCAGAATAAT
* *
22721918 GCTCTTTTGAGCTAGAATCAGAATAAT
1 GCTCTTTCGAGCCAGAATCAGAATAAT
*
22721945 GTTCTTTCGAGCCAGAATCAGA
1 GCTCTTTCGAGCCAGAATCAGA
22721967 TTATTCCTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 14 0.21
27 52 0.79
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAGAATAAT
Found at i:22727155 original size:36 final size:35
Alignment explanation
Indices: 22727108--22727253 Score: 224
Period size: 36 Copynumber: 4.1 Consensus size: 35
22727098 GGTAACAGGC
22727108 ATGACCTTTGGGTCATCAGGGAGTAAAATGAGCATA
1 ATGACCTTTGGGTCAT-AGGGAGTAAAATGAGCATA
22727144 ATGACCTTTGGGTCAGTAGGGAGTAAAATGAGCATA
1 ATGACCTTTGGGTCA-TAGGGAGTAAAATGAGCATA
* *
22727180 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
1 ATGACCTTTGGGTC-ATAGGGAGTAAAATGAGCATA
22727216 ATGACCTTTGGGTCAATAGGGAGTAAAATGA--ATA
1 ATGACCTTTGGGTC-ATAGGGAGTAAAATGAGCATA
22727250 ATGA
1 ATGA
22727254 ATATTAAAGT
Statistics
Matches: 104, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
34 6 0.06
36 96 0.92
37 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (35 bp):
ATGACCTTTGGGTCATAGGGAGTAAAATGAGCATA
Found at i:22727225 original size:72 final size:70
Alignment explanation
Indices: 22727108--22727253 Score: 247
Period size: 72 Copynumber: 2.1 Consensus size: 70
22727098 GGTAACAGGC
* *
22727108 ATGACCTTTGGGTCATCAGGGAGTAAAATGAGCATAATGACCTTTGGGTCAGTAGGGAGTAAAAT
1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATAATGACCTTTGGGTCAATAGGGAGTAAAAT
22727173 GAGCATA
66 GA--ATA
*
22727180 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATGACCTTTGGGTCAATAGGGAGTAAAAT
1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATAATGACCTTTGGGTCAATAGGGAGTAAAAT
22727245 GAATA
66 GAATA
22727250 ATGA
1 ATGA
22727254 ATATTAAAGT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 7 0.10
72 64 0.90
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (70 bp):
ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATAATGACCTTTGGGTCAATAGGGAGTAAAAT
GAATA
Found at i:22727953 original size:21 final size:21
Alignment explanation
Indices: 22727929--22727983 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
22727919 TATAAGTAAG
* *
22727929 ACTTGTTTCGGTAGAAGAGTC
1 ACTTGTATCGGTAGAACAGTC
** *
22727950 ACTTGTATCGAAAGAACTGTC
1 ACTTGTATCGGTAGAACAGTC
22727971 ACTTGTATCGGTA
1 ACTTGTATCGGTA
22727984 AAAGTCTGCA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACAGTC
Found at i:22730015 original size:37 final size:36
Alignment explanation
Indices: 22729911--22730015 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
22729901 TGGTAATAGG
*
22729911 CATGACCTTTGGGTCAACAGGGAGAAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
* * *
22729947 AATGACCTTTGGATCAACAGGGAGTAAAATGAGTAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
*
22729983 CATGACCTTTGGGGTCAATAGGGAGTAAAATGA
1 CATGACCTTT-GGGTCAACAGGGAGTAAAATGA
22730016 ATAACGATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
36 41 0.67
37 20 0.33
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
Found at i:22730705 original size:116 final size:115
Alignment explanation
Indices: 22730504--22730754 Score: 380
Period size: 116 Copynumber: 2.2 Consensus size: 115
22730494 GGTAGAACTC
22730504 ATACTTGTATCGGTAGAAGTATAGGGTAGGAGAGAGTTATTCTCTAACTTGAGTTATTTCGATAG
1 ATACTTGTATCGGTAGAAGTATAGGGTAGGAGAGAGTTATTCTCTAACTTGAGTTATTTCGATAG
* *
22730569 TTGTATAACAGGTATCGGTAGTTCTATGCATTGAGGTATCGGTAGTTTAA
66 TTGTATAACAGGTATCGGTAGTTCTATACATTGAGATATCGGTAGTTTAA
* * * *
22730619 ATGCTTGTATCGGTAGAAGTATAGGGTA-GAGGAGAGGTTGTTCTCTGACTTGAGTTGTTTC-AG
1 ATACTTGTATCGGTAGAAGTATAGGGTAGGA-GAGA-GTTATTCTCTAACTTGAGTTATTTCGA-
* * *
22730682 TAGTTGTATAACAGGTATTGGTAGTTCTGTACATTGAGATATTGGTAGTTTAA
63 TAGTTGTATAACAGGTATCGGTAGTTCTATACATTGAGATATCGGTAGTTTAA
22730735 ATACTTGTATCGGTAGAAGT
1 ATACTTGTATCGGTAGAAGT
22730755 TGCAAGGTAG
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
114 2 0.02
115 32 0.26
116 89 0.72
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.37
Consensus pattern (115 bp):
ATACTTGTATCGGTAGAAGTATAGGGTAGGAGAGAGTTATTCTCTAACTTGAGTTATTTCGATAG
TTGTATAACAGGTATCGGTAGTTCTATACATTGAGATATCGGTAGTTTAA
Found at i:22732605 original size:22 final size:23
Alignment explanation
Indices: 22732563--22732606 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22732553 AATTTGATTT
*
22732563 ACTTTTAGTTGCACTGACAATTA
1 ACTTTTAGTTACACTGACAATTA
*
22732586 ACTTTTA-TTACATTGACAATT
1 ACTTTTAGTTACACTGACAATT
22732607 TTAACAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (23 bp):
ACTTTTAGTTACACTGACAATTA
Found at i:22757415 original size:37 final size:36
Alignment explanation
Indices: 22757316--22757421 Score: 149
Period size: 36 Copynumber: 2.9 Consensus size: 36
22757306 CTAGTAACAG
* *
22757316 GCATGACCTTTGGGTCAACAGGGAGAAAAAAGAGCA
1 GCATGACCTTTGGGTCAACAGGGAGTAAAACGAGCA
* * *
22757352 GAATGACCTTTGGGTCAATAGAGAGTAAAACGAGCA
1 GCATGACCTTTGGGTCAACAGGGAGTAAAACGAGCA
*
22757388 TCATGACCTTTGGGGTCAACAGGGAGTAAAACGA
1 GCATGACCTTT-GGGTCAACAGGGAGTAAAACGA
22757422 ATAACGATCA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
36 40 0.67
37 20 0.33
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (36 bp):
GCATGACCTTTGGGTCAACAGGGAGTAAAACGAGCA
Found at i:22758123 original size:116 final size:115
Alignment explanation
Indices: 22757914--22758135 Score: 354
Period size: 116 Copynumber: 1.9 Consensus size: 115
22757904 GAACTCATAA
* * *
22757914 TTGTATCGGTAGAAGTACAAGGTGGGAGAGAGTTGTTCTCTGACTTGAGTTGTTTTGCTTGTTGT
1 TTGTATCGATAGAAGTACAAGGTAGGAGAGAGTTGTTCTCTGACTTGAGTTGTTTTGCTAGTTGT
* *
22757979 ATAATAGGTATCGGTAGTTCTGTGCATTGAGGTATTGGTAGTTTAAATGC
66 ATAATAGGTATCGGTAGTTCTGTACATTGAGGTATCGGTAGTTTAAATGC
* * *
22758029 TTGTATCGATAGAAGTATAGGGTAGGAGAGAGGTTGTTCTCTGACTTGAGTTGTTTTGGTAGTTG
1 TTGTATCGATAGAAGTACAAGGTAGGAGAGA-GTTGTTCTCTGACTTGAGTTGTTTTGCTAGTTG
*
22758094 TATAATAGGTATCGGTAGTTTTGTACATTGAGGTATCGGTAG
65 TATAATAGGTATCGGTAGTTCTGTACATTGAGGTATCGGTAG
22758136 AAGTAGTAGG
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
115 27 0.28
116 70 0.72
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.39
Consensus pattern (115 bp):
TTGTATCGATAGAAGTACAAGGTAGGAGAGAGTTGTTCTCTGACTTGAGTTGTTTTGCTAGTTGT
ATAATAGGTATCGGTAGTTCTGTACATTGAGGTATCGGTAGTTTAAATGC
Found at i:22763814 original size:18 final size:15
Alignment explanation
Indices: 22763791--22763909 Score: 75
Period size: 15 Copynumber: 7.9 Consensus size: 15
22763781 TTTAAAAATC
22763791 ATAAAAAAATTTAAA
1 ATAAAAAAATTTAAA
22763806 ATAAAAAAATTTAAA
1 ATAAAAAAATTTAAA
**
22763821 ATAATAAAAAAATAAA
1 ATAA-AAAAATTTAAA
**** *
22763837 ATTTTTAAA--GAAA
1 ATAAAAAAATTTAAA
*
22763850 ATTATAAAAA-TTAAA
1 A-TAAAAAAATTTAAA
*
22763865 ATCATAAAAA-TTAAA
1 AT-AAAAAAATTTAAA
*
22763880 TTATAAAAATATTTAAA
1 --ATAAAAAAATTTAAA
22763897 ATAAAAAAATTTA
1 ATAAAAAAATTTA
22763910 CGTTTTTTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
13 4 0.05
14 6 0.07
15 50 0.60
16 16 0.19
17 7 0.08
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (15 bp):
ATAAAAAAATTTAAA
Found at i:22764285 original size:46 final size:46
Alignment explanation
Indices: 22764217--22764319 Score: 129
Period size: 45 Copynumber: 2.2 Consensus size: 46
22764207 ATTTGTTATG
*
22764217 ATTTTTAATAATTTTTTGATAATTTTGAT-AATTT-AAATTTTTAAT
1 ATTTTTTATAATTTTTTGATAATTTT-ATAAATTTGAAATTTTTAAT
* *
22764262 ATTTTTTATAGTTTTTATTATAATTTTATAAATTTGAAATTTTTAAT
1 ATTTTTTATAATTTTT-TGATAATTTTATAAATTTGAAATTTTTAAT
*
22764309 ATAATTTTATA
1 AT-TTTTTATA
22764320 TGTGTATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
45 16 0.32
46 14 0.28
47 13 0.26
48 7 0.14
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (46 bp):
ATTTTTTATAATTTTTTGATAATTTTATAAATTTGAAATTTTTAAT
Found at i:22764330 original size:28 final size:29
Alignment explanation
Indices: 22764268--22764330 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
22764258 TAATATTTTT
* * *
22764268 TATAGTTTTTATTATAATTTTATAAATTTG
1 TATAATTTTTAATATAATTTTAT-AATGTG
22764298 -A-AATTTTTAATATAATTTTAT-ATGTG
1 TATAATTTTTAATATAATTTTATAATGTG
22764324 TATAATT
1 TATAATT
22764331 AATTATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 4 0.14
27 1 0.04
28 22 0.79
29 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (29 bp):
TATAATTTTTAATATAATTTTATAATGTG
Found at i:22768262 original size:15 final size:15
Alignment explanation
Indices: 22768239--22768295 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
22768229 TTTATACTAC
*
22768239 AAAACATTTATTATT
1 AAAATATTTATTATT
*
22768254 AAAATATTTATAATTGT
1 AAAATATTTATTA-T-T
22768271 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
22768288 AAAATATT
1 AAAATATT
22768296 AACATTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 18 0.51
16 2 0.06
17 2 0.06
18 2 0.06
19 11 0.31
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:22768293 original size:19 final size:19
Alignment explanation
Indices: 22768255--22768293 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22768245 TTTATTATTA
**
22768255 AAATATTTATAATTGTAAT
1 AAATATTTATAATTAAAAT
*
22768274 AAATATTTATTATTAAAAT
1 AAATATTTATAATTAAAAT
22768293 A
1 A
22768294 TTAACATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AAATATTTATAATTAAAAT
Found at i:22774939 original size:18 final size:18
Alignment explanation
Indices: 22774873--22774939 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
22774863 TGAACATATT
* * *
22774873 TGGCGAGCTCATAGAAAG
1 TGGCAAGCTCACATAAAG
22774891 TGGCAAGCTCACAT-AAG
1 TGGCAAGCTCACATAAAG
*
22774908 ATGGTC-TGCTCACATAAAG
1 -TGG-CAAGCTCACATAAAG
*
22774927 TGGCAAGCACACA
1 TGGCAAGCTCACA
22774940 ACAAGAGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 4 0.10
18 31 0.79
19 4 0.10
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.18
Consensus pattern (18 bp):
TGGCAAGCTCACATAAAG
Found at i:22774955 original size:36 final size:36
Alignment explanation
Indices: 22774877--22774957 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
22774867 CATATTTGGC
* * *
22774877 GAGCTCATAGAAAGTGGCAAGCTCACATAAGATGGT
1 GAGCTCACAGAAAGTGGCAAGCACACACAAGATGGT
** *
22774913 CTGCTCACATAAAGTGGCAAGCACACAACAAGA-GGT
1 GAGCTCACAGAAAGTGGCAAGCACAC-ACAAGATGGT
22774949 GAGCTCACA
1 GAGCTCACA
22774958 ACAAGAGGCG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
36 31 0.86
37 5 0.14
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (36 bp):
GAGCTCACAGAAAGTGGCAAGCACACACAAGATGGT
Found at i:22774957 original size:18 final size:18
Alignment explanation
Indices: 22774936--22774975 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
22774926 GTGGCAAGCA
*
22774936 CACAACAAGAGGTGAGCT
1 CACAACAAGAGGCGAGCT
22774954 CACAACAAGAGGCGAGCT
1 CACAACAAGAGGCGAGCT
22774972 CACA
1 CACA
22774976 TGAAAAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.28, G:0.25, T:0.07
Consensus pattern (18 bp):
CACAACAAGAGGCGAGCT
Found at i:22774988 original size:18 final size:18
Alignment explanation
Indices: 22774936--22774988 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
22774926 GTGGCAAGCA
*
22774936 CACAACAAGAGGTGAGCT
1 CACAACAAAAGGTGAGCT
* *
22774954 CACAACAAGAGGCGAGCT
1 CACAACAAAAGGTGAGCT
**
22774972 CACATGAAAAGGTGAGC
1 CACAACAAAAGGTGAGC
22774989 CCATTAACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.28, T:0.09
Consensus pattern (18 bp):
CACAACAAAAGGTGAGCT
Found at i:22775062 original size:28 final size:30
Alignment explanation
Indices: 22775013--22775097 Score: 88
Period size: 28 Copynumber: 3.0 Consensus size: 30
22775003 GAACAAAATA
* *
22775013 GTGCAAGTTGTTATAGTAAAGCTAC-AAG-
1 GTGCAAGTTGTCACAGTAAAGCTACGAAGT
* *
22775041 GTGCAAGTTGTCACAGTGAAGCTGCGAAGT
1 GTGCAAGTTGTCACAGTAAAGCTACGAAGT
* *
22775071 GTG--AGTTGTCACAGAAAAGCCACGAAG
1 GTGCAAGTTGTCACAGTAAAGCTACGAAG
22775098 AAAGATAAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
28 41 0.87
29 3 0.06
30 3 0.06
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (30 bp):
GTGCAAGTTGTCACAGTAAAGCTACGAAGT
Found at i:22776079 original size:43 final size:43
Alignment explanation
Indices: 22776018--22776103 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
22776008 TTGGAGATCA
22776018 ATTAGAAAAATATTTAAAATCTTAAAAGAACACAAAAATTTTC
1 ATTAGAAAAATATTTAAAATCTTAAAAGAACACAAAAATTTTC
*
22776061 ATTAGAAAAGTATTTAAAATCTTAAAAGAACACAAAAATTTTC
1 ATTAGAAAAATATTTAAAATCTTAAAAGAACACAAAAATTTTC
22776104 TTCTTTACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (43 bp):
ATTAGAAAAATATTTAAAATCTTAAAAGAACACAAAAATTTTC
Found at i:22788098 original size:94 final size:92
Alignment explanation
Indices: 22787934--22788121 Score: 295
Period size: 94 Copynumber: 2.0 Consensus size: 92
22787924 TTTAATCCCC
** * **
22787934 TTGCTCTTGATGATTTTTCCTCATTTTTTTGTCTATTTATAGCCTCTAAATAATTGTAGATTTCA
1 TTGCTCTTGATGATTTTTCCTCATTTTTTCCTCTATTTATACCCTCTAAATAATTACAGATTTCA
*
22787999 ACCTTCATTCTCAGATTCAGATCTAGA
66 ACCTTCATTCTCAGATTCAAATCTAGA
22788026 TTGCTCTTGATGATTCTTTTCCTCATTTTTTCCTCTATTTATACCCTCTAAATAATTACAGATTT
1 TTGCTCTTGATGA-T-TTTTCCTCATTTTTTCCTCTATTTATACCCTCTAAATAATTACAGATTT
*
22788091 CAGCCTTCATTCTCAGATTCAAATCTAGA
64 CAACCTTCATTCTCAGATTCAAATCTAGA
22788120 TT
1 TT
22788122 TTTTTGTAGC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 13 0.15
93 1 0.01
94 73 0.84
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.46
Consensus pattern (92 bp):
TTGCTCTTGATGATTTTTCCTCATTTTTTCCTCTATTTATACCCTCTAAATAATTACAGATTTCA
ACCTTCATTCTCAGATTCAAATCTAGA
Found at i:22789477 original size:16 final size:18
Alignment explanation
Indices: 22789456--22789491 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
22789446 CAATAACCCT
22789456 AAACCCAA-AT-TAAACC
1 AAACCCAACATCTAAACC
22789472 AAACCCAACATCTAAACC
1 AAACCCAACATCTAAACC
22789490 AA
1 AA
22789492 GTAAACCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.11
Consensus pattern (18 bp):
AAACCCAACATCTAAACC
Found at i:22789524 original size:24 final size:24
Alignment explanation
Indices: 22789495--22789542 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
22789485 AAACCAAGTA
22789495 AACCCATTGACCGAACCTT-ACCCG
1 AACCCATTGACCGAA-CTTGACCCG
22789519 AACCCATTGACCGAACTTGACCCG
1 AACCCATTGACCGAACTTGACCCG
22789543 TTGACCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.29, C:0.40, G:0.15, T:0.17
Consensus pattern (24 bp):
AACCCATTGACCGAACTTGACCCG
Found at i:22789534 original size:13 final size:13
Alignment explanation
Indices: 22789495--22789534 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22789485 AAACCAAGTA
22789495 AACCCATTGACCG
1 AACCCATTGACCG
22789508 AA-CC-TT-ACCCG
1 AACCCATTGA-CCG
22789519 AACCCATTGACCG
1 AACCCATTGACCG
22789532 AAC
1 AAC
22789535 TTGACCCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
10 1 0.04
11 7 0.30
12 4 0.17
13 10 0.43
14 1 0.04
ACGTcount: A:0.33, C:0.40, G:0.12, T:0.15
Consensus pattern (13 bp):
AACCCATTGACCG
Found at i:22789568 original size:21 final size:21
Alignment explanation
Indices: 22789542--22789586 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22789532 AACTTGACCC
*
22789542 GTTGACCATTAATCATTGACA
1 GTTGACCATTAACCATTGACA
* *
22789563 GTTGACCATTGACCATTGATA
1 GTTGACCATTAACCATTGACA
22789584 GTT
1 GTT
22789587 TTCCATTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (21 bp):
GTTGACCATTAACCATTGACA
Found at i:22789574 original size:7 final size:7
Alignment explanation
Indices: 22789543--22789630 Score: 56
Period size: 7 Copynumber: 12.6 Consensus size: 7
22789533 ACTTGACCCG
22789543 TTGACCA
1 TTGACCA
* *
22789550 TTAATCA
1 TTGACCA
22789557 TTGA-CA
1 TTGACCA
22789563 GTTGACCA
1 -TTGACCA
22789571 TTGACCA
1 TTGACCA
*
22789578 TTGA-TA
1 TTGACCA
**
22789584 GTTTTCCA
1 -TTGACCA
*
22789592 TTGACTA
1 TTGACCA
22789599 TTGACCA
1 TTGACCA
22789606 TTGA-CA
1 TTGACCA
*
22789612 GTTGATCA
1 -TTGACCA
*
22789620 TTGACCG
1 TTGACCA
22789627 TTGA
1 TTGA
22789631 TTGTTGATAA
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
6 5 0.08
7 52 0.84
8 5 0.08
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (7 bp):
TTGACCA
Found at i:22789636 original size:21 final size:21
Alignment explanation
Indices: 22789598--22789652 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
22789588 TCCATTGACT
* * *
22789598 ATTGACCATTGACAGTTGATC
1 ATTGACCGTTGATAGTTGATA
*
22789619 ATTGACCGTTGATTGTTGATA
1 ATTGACCGTTGATAGTTGATA
22789640 ATTGACCGTTGAT
1 ATTGACCGTTGAT
22789653 CGTTAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (21 bp):
ATTGACCGTTGATAGTTGATA
Found at i:22792268 original size:151 final size:150
Alignment explanation
Indices: 22791994--22792296 Score: 498
Period size: 151 Copynumber: 2.0 Consensus size: 150
22791984 TAGTTATCCA
* ** * * *
22791994 AGGGTGAGGCCTGTAGTTTCGGTAGCTCCTGTGGGTAGTGTTGGCGGTTCTACTAGTCCTCGTCC
1 AGGGTAAGGCCTACAGTTTCAGCAGCTCCTGTGGGTAGTATTGGCGGTTCTACTAGTCCTCGTCC
** *
22792059 ATTGCATCTTTGTTCTTATTGTAATAAAAGACATGGGGGCGAATGTTGGAGGAAGATTGGGGCAT
66 ATTGCATCTTTGTTCTTATTACAATAAAAGACATGGGGGCGAATGTTGGAGGAAGATTGAGGCAT
22792124 GTTTTAGGTGCGATTCACAGG
131 G-TTTAGGTGCGATTCACAGG
*
22792145 AGGGTAAGGCCTACAGTTTCAGCAGCTCTTGTGGGTAGTATTGGCGGTTCTACTAGTCCTCGTCC
1 AGGGTAAGGCCTACAGTTTCAGCAGCTCCTGTGGGTAGTATTGGCGGTTCTACTAGTCCTCGTCC
22792210 ATTGCATCTTTGTTCTTATTACAATAAAAGACATGGGGGCGAATGTTGGAGGAAGATTGAGGCAT
66 ATTGCATCTTTGTTCTTATTACAATAAAAGACATGGGGGCGAATGTTGGAGGAAGATTGAGGCAT
*
22792275 GTTTAGGTGCGGTTCACAGG
131 GTTTAGGTGCGATTCACAGG
22792295 AG
1 AG
22792297 CACATCTTTA
Statistics
Matches: 141, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
150 20 0.14
151 121 0.86
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (150 bp):
AGGGTAAGGCCTACAGTTTCAGCAGCTCCTGTGGGTAGTATTGGCGGTTCTACTAGTCCTCGTCC
ATTGCATCTTTGTTCTTATTACAATAAAAGACATGGGGGCGAATGTTGGAGGAAGATTGAGGCAT
GTTTAGGTGCGATTCACAGG
Found at i:22796581 original size:16 final size:18
Alignment explanation
Indices: 22796560--22796595 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
22796550 CAATAACCCT
22796560 AAACCCAA-AT-TAAACC
1 AAACCCAACATCTAAACC
22796576 AAACCCAACATCTAAACC
1 AAACCCAACATCTAAACC
22796594 AA
1 AA
22796596 GTGAATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.11
Consensus pattern (18 bp):
AAACCCAACATCTAAACC
Found at i:22796670 original size:14 final size:14
Alignment explanation
Indices: 22796660--22796698 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
22796650 CCATTGATAG
22796660 TTGATCGTTGACTA
1 TTGATCGTTGACTA
* *
22796674 TTGATAGTTGACCA
1 TTGATCGTTGACTA
*
22796688 TTGACCGTTGA
1 TTGATCGTTGA
22796699 TAGTTAACTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (14 bp):
TTGATCGTTGACTA
Found at i:22796670 original size:21 final size:21
Alignment explanation
Indices: 22796643--22796733 Score: 94
Period size: 21 Copynumber: 4.3 Consensus size: 21
22796633 CGAACCCGAC
22796643 CCGTTGACCATTGATAGTTGA
1 CCGTTGACCATTGATAGTTGA
* *
22796664 TCGTTGACTATTGATAGTTGA
1 CCGTTGACCATTGATAGTTGA
* * *
22796685 CCATTGACCGTTGATAGTTAA
1 CCGTTGACCATTGATAGTTGA
* * *
22796706 CTGTTGATCATTGACCA-TTGA
1 CCGTTGACCATTGA-TAGTTGA
22796727 CCGTTGA
1 CCGTTGA
22796734 ACGTTGACTT
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
21 54 0.98
22 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (21 bp):
CCGTTGACCATTGATAGTTGA
Found at i:22796684 original size:35 final size:36
Alignment explanation
Indices: 22796645--22796742 Score: 128
Period size: 35 Copynumber: 2.8 Consensus size: 36
22796635 AACCCGACCC
**
22796645 GTTGACCATTGATAGTTGATCGTTGACTATTGAT-A
1 GTTGACCATTGACCGTTGATCGTTGACTATTGATCA
* * *
22796680 GTTGACCATTGACCGTTGATAGTTAACTGTTGATCA
1 GTTGACCATTGACCGTTGATCGTTGACTATTGATCA
*
22796716 -TTGACCATTGACCGTTGAACGTTGACT
1 GTTGACCATTGACCGTTGATCGTTGACT
22796743 TTTTTTGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
35 53 0.98
36 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (36 bp):
GTTGACCATTGACCGTTGATCGTTGACTATTGATCA
Found at i:22796739 original size:28 final size:28
Alignment explanation
Indices: 22796680--22796741 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
22796670 ACTATTGATA
* *
22796680 GTTGACCATTGACCGTTGATAGTTAACT
1 GTTGACCATTGACCATTGACAGTTAACT
* *
22796708 GTTGATCATTGACCATTGACCGTTGAAC-
1 GTTGACCATTGACCATTGACAGTT-AACT
22796736 GTTGAC
1 GTTGAC
22796742 TTTTTTTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (28 bp):
GTTGACCATTGACCATTGACAGTTAACT
Found at i:22800224 original size:40 final size:40
Alignment explanation
Indices: 22800180--22800365 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
22800170 TCACCAGTTC
* *
22800180 AAAGCCTGCTAAGTCGTAGCTTGAATCACATCACCGGCTA
1 AAAGCCTGCTAAGCCGTAGCTTGAATCATATCACCGGCTA
* * * *
22800220 AAAGCCTGCTAGGCCGTAACCCT-AATCATATCACCGGCTC
1 AAAGCCTGCTAAGCCGT-AGCTTGAATCATATCACCGGCTA
* * * *
22800260 ATAGCCTGCTAAGCCGTAACTTGAATCATATCATCGGCTC
1 AAAGCCTGCTAAGCCGTAGCTTGAATCATATCACCGGCTA
* * * *
22800300 ATAGTCTGCTAAGCCGTAGCTTGAA-CTAAATCACTGGCTCA
1 AAAGCCTGCTAAGCCGTAGCTTGAATC-ATATCACCGGCT-A
* * *
22800341 AAA-CCTACTAAGTCATAGCTTGAAT
1 AAAGCCTGCTAAGCCGTAGCTTGAAT
22800366 TATAACACAG
Statistics
Matches: 119, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.03
40 110 0.92
41 5 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (40 bp):
AAAGCCTGCTAAGCCGTAGCTTGAATCATATCACCGGCTA
Found at i:22801410 original size:3 final size:3
Alignment explanation
Indices: 22801402--22801430 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22801392 CTAAAGGTAT
22801402 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22801431 CAAGTCTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22807721 original size:99 final size:98
Alignment explanation
Indices: 22807603--22808136 Score: 510
Period size: 99 Copynumber: 5.5 Consensus size: 98
22807593 TTATGGTTCC
* * ** * * * *
22807603 AGATTCGTCGTTGCGGCCTCAATCCTTCCCATCATGT-TTTTAAGGTACAAGGTTCACCGTTGCA
1 AGATCCGTCGTTACGGCCTCAATCCTTCCCATCACATCTTTTAAGGTACACGGTTCGCCATTGCG
22807667 GCCTCAACCTTTCCCCTTTATATTTCCATGGTACT
66 GCCTCAACCTTT-CCCTTT-TATTTCCATGGTACT
* * * * * * *
22807702 AGATCCGTCGTTACGGCCTCGATCCTTTCTATCACATCTTCTAAGGTAC-CGAGTTCACCGTTGT
1 AGATCCGTCGTTACGGCCTCAATCCTTCCCATCACATCTTTTAAGGTACACG-GTTCGCCATTGC
* *
22807766 GGCCTCAACCTTTTCCTTCGTATCTT-CATGGTACT
65 GGCCTCAACCTTTCCCTT-TTAT-TTCCATGGTACT
* *
22807801 AGATTCGTCGTTACGACCTCAATCCTT-CCATCACATCTTTTAAGGTAC-CGAGTTCGCCATTGC
1 AGATCCGTCGTTACGGCCTCAATCCTTCCCATCACATCTTTTAAGGTACACG-GTTCGCCATTGC
* * *
22807864 AGCCTCAACCTTTCCCTTCATATTTTCATGGTA-T
65 GGCCTCAACCTTTCCCTT-TTATTTCCATGGTACT
* * * * * * * * * *
22807898 CGGATTCATCGTTACGGCGTTAATCCTTTCTATTACATCTTTTAAGGTGCAGGGTTCGCCATTGC
1 -AGATCCGTCGTTACGGCCTCAATCCTTCCCATCACATCTTTTAAGGTACACGGTTCGCCATTGC
22807963 GGCCTCAACCTTTCCC-TTTATTTCCATGGTACT
65 GGCCTCAACCTTTCCCTTTTATTTCCATGGTACT
* * * * * * * *
22807996 AG-TCCGTCGTTGCGGTCTCGATCCTTCCCATCACATCTTCTAAGGTACAGGGTTTGCTATTGTG
1 AGATCCGTCGTTACGGCCTCAATCCTTCCCATCACATCTTTTAAGGTACACGGTTCGCCATTGCG
22808060 GCCTCAACCTTT-CCTTTTATTTCCATGGTACT
66 GCCTCAACCTTTCCCTTTTATTTCCATGGTACT
* * * * * **
22808092 AGATCCGCCGTTGCAGCCTCGATCTTTCCCATCATGTCTTTTAAG
1 AGATCCGTCGTTACGGCCTCAATCCTTCCCATCACATCTTTTAAG
22808137 ATACCAAGTT
Statistics
Matches: 365, Mismatches: 59, Indels: 24
0.81 0.13 0.05
Matches are distributed among these distances:
95 2 0.01
96 78 0.21
97 51 0.14
98 82 0.22
99 116 0.32
100 36 0.10
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (98 bp):
AGATCCGTCGTTACGGCCTCAATCCTTCCCATCACATCTTTTAAGGTACACGGTTCGCCATTGCG
GCCTCAACCTTTCCCTTTTATTTCCATGGTACT
Found at i:22807750 original size:50 final size:49
Alignment explanation
Indices: 22807696--22807848 Score: 109
Period size: 50 Copynumber: 3.1 Consensus size: 49
22807686 ATATTTCCAT
22807696 GGTACTAGATCCGTCGTTACGGCCTCGATCCTTTCTATCACATCTTCTAA
1 GGTACTAGATCCGTCGTTACGGCCTC-ATCCTTTCTATCACATCTTCTAA
* * ** * ** *
22807746 GGTACCGAGTTCAC--CGTTGTGGCCTCAACCTTTTCCT-TCGTATCTTC-AT
1 GGTA-CTAGATC-CGTCGTTACGGCCTCATCC-TTT-CTATCACATCTTCTAA
* * * *
22807795 GGTACTAGATTCGTCGTTACGACCTCAATCC-TTCCATCACATCTTTTAA
1 GGTACTAGATCCGTCGTTACGGCCTC-ATCCTTTCTATCACATCTTCTAA
22807844 GGTAC
1 GGTAC
22807849 CGAGTTCGCC
Statistics
Matches: 74, Mismatches: 20, Indels: 19
0.65 0.18 0.17
Matches are distributed among these distances:
47 2 0.03
48 13 0.18
49 23 0.31
50 28 0.38
51 7 0.09
52 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (49 bp):
GGTACTAGATCCGTCGTTACGGCCTCATCCTTTCTATCACATCTTCTAA
Found at i:22807823 original size:198 final size:197
Alignment explanation
Indices: 22807562--22808119 Score: 616
Period size: 197 Copynumber: 2.9 Consensus size: 197
22807552 CCAAATTCGT
* * * *
22807562 CATTGCGGCCTCAATCTTTTTCC-TCTGATCTTTATGGTTCCAGATTCGTCGTTGCGGCCTCAAT
1 CATTGCGGCCTCAA-CCTTTTCCTTCT-ATCTTCATGGTACTAGATTCGTCGTTGCGGCCTCAAT
** * *
22807626 CCTTCCCATCATGT-TTTTAAGGTACAAGGTTCACCGTTGCAGCCTCAACCTTTCCCCTTTATAT
64 CCTTCCCATCACATCTTTTAAGGTACAAGGTTCGCCATTGCAGCCTCAACCTTT-CCCTTTATAT
*
22807690 TTCCATGGTACTAGATCCGTCGTTACGGCCTCGATCCTTTCTATCACATCTTCTAAGGTACCGAG
128 TTCCATGGTACTAGATCCGTCGTTACGGCCTCGATCCTTTCTATCACATCTTCTAAGGTACAGAG
22807755 TTCAC
193 TTCAC
* * * *
22807760 CGTTGTGGCCTCAACCTTTTCCTTCGTATCTTCATGGTACTAGATTCGTCGTTACGACCTCAATC
1 CATTGCGGCCTCAACCTTTTCCTTC-TATCTTCATGGTACTAGATTCGTCGTTGCGGCCTCAATC
* *
22807825 CTT-CCATCACATCTTTTAAGGTAC-CGAGTTCGCCATTGCAGCCTCAACCTTTCCCTTCATATT
65 CTTCCCATCACATCTTTTAAGGTACAAG-GTTCGCCATTGCAGCCTCAACCTTTCCCTTTATATT
* * * * * ** * * * *
22807888 TTCATGGTA-TCGGATTCATCGTTACGGCGTTAATCCTTTCTATTACATCTTTTAAGGTGCAGGG
129 TCCATGGTACT-AGATCCGTCGTTACGGCCTCGATCCTTTCTATCACATCTTCTAAGGTACAGAG
*
22807952 TTCGC
193 TTCAC
* * * *
22807957 CATTGCGGCCTCAACCTTTCCCTT-TAT-TTCCATGGTACTAG-TCCGTCGTTGCGGTCTCGATC
1 CATTGCGGCCTCAACCTTTTCCTTCTATCTT-CATGGTACTAGATTCGTCGTTGCGGCCTCAATC
* * * * **
22808019 CTTCCCATCACATCTTCTAAGGTACAGGGTTTGCTATTGTGGCCTCAACCTTT-CCTTT-TATTT
65 CTTCCCATCACATCTTTTAAGGTACAAGGTTCGCCATTGCAGCCTCAACCTTTCCCTTTATATTT
* * *
22808082 CCATGGTACTAGATCCGCCGTTGCAGCCTCGAT-CTTTC
130 CCATGGTACTAGATCCGTCGTTACGGCCTCGATCCTTTC
22808120 CCATCATGTC
Statistics
Matches: 299, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
192 5 0.02
193 26 0.09
194 26 0.09
195 55 0.18
196 2 0.01
197 100 0.33
198 84 0.28
199 1 0.00
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (197 bp):
CATTGCGGCCTCAACCTTTTCCTTCTATCTTCATGGTACTAGATTCGTCGTTGCGGCCTCAATCC
TTCCCATCACATCTTTTAAGGTACAAGGTTCGCCATTGCAGCCTCAACCTTTCCCTTTATATTTC
CATGGTACTAGATCCGTCGTTACGGCCTCGATCCTTTCTATCACATCTTCTAAGGTACAGAGTTC
AC
Found at i:22819005 original size:25 final size:23
Alignment explanation
Indices: 22818935--22819035 Score: 86
Period size: 23 Copynumber: 4.3 Consensus size: 23
22818925 ACACTAGCGC
*
22818935 GCCCTC-TGTTTAGCACGTT-TCGT
1 GCCCTCTTGATTAGCAC-TTGT-GT
22818958 GCCCTC-TG-TTCAGCACTGTGTGT
1 GCCCTCTTGATT-AGCACT-TGTGT
*
22818981 GCCCTCTATTATTAGCACTTCGTGT
1 GCCCTCT-TGATTAGCACTT-GTGT
22819006 GCCCTC-TGATTAGCACTTTGTGT
1 GCCCTCTTGATTAGCAC-TTGTGT
22819029 GCCCTCT
1 GCCCTCT
22819036 GTTACCCAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
22 3 0.04
23 41 0.61
24 4 0.06
25 17 0.25
26 2 0.03
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.38
Consensus pattern (23 bp):
GCCCTCTTGATTAGCACTTGTGT
Found at i:22819009 original size:48 final size:47
Alignment explanation
Indices: 22818956--22819064 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 47
22818946 AGCACGTTTC
** *
22818956 GTGCCCTCTGTTCAGCACTGTGTGTGCCCTCTATTA-TTAGCACTTCGT
1 GTGCCCTCTGTT-AGCACTGTGTGTGCCCTCTATTACCCAGCACTT-AT
* *
22819004 GTGCCCTCTGATTAGCACTTTGTGTGCCCTCTGTTACCCAGCACTTAT
1 GTGCCCTCTG-TTAGCACTGTGTGTGCCCTCTATTACCCAGCACTTAT
22819052 GTGCCCTCTGTTA
1 GTGCCCTCTGTTA
22819065 AGTACTTCGG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
47 3 0.06
48 42 0.78
49 9 0.17
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.37
Consensus pattern (47 bp):
GTGCCCTCTGTTAGCACTGTGTGTGCCCTCTATTACCCAGCACTTAT
Found at i:22819072 original size:71 final size:70
Alignment explanation
Indices: 22818935--22819073 Score: 167
Period size: 71 Copynumber: 2.0 Consensus size: 70
22818925 ACACTAGCGC
* *
22818935 GCCCTCTGTTTAGCACGTTTCGTGCCCTCTGTTCAGCACTGTGTGTGCCCTCTATTATTAGCACT
1 GCCCTCTGATTAGCACGTTTCGTGCCCTCTGTTCAGCACTGTATGTGCCCTCTATTA-TAGCACT
22819000 TCGTGT
65 TCGTGT
* * *
22819006 GCCCTCTGATTAGCAC-TTTGTGTGCCCTCTGTTACCCAGCACT-TATGTGCCCTCTGTTA-AGT
1 GCCCTCTGATTAGCACGTTT-CGTGCCCTCTGTT---CAGCACTGTATGTGCCCTCTATTATAGC
22819068 ACTTCG
62 ACTTCG
22819074 GTACTTTCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
70 3 0.05
71 35 0.59
73 14 0.24
74 7 0.12
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.37
Consensus pattern (70 bp):
GCCCTCTGATTAGCACGTTTCGTGCCCTCTGTTCAGCACTGTATGTGCCCTCTATTATAGCACTT
CGTGT
Found at i:22824084 original size:30 final size:30
Alignment explanation
Indices: 22824040--22824106 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
22824030 AAATAGATGC
* * *
22824040 AACATAACAAACAAATATCTCTAAAATAGT
1 AACAAAACAAACAAATACCTCTAAAATAAT
* * *
22824070 AACAAAACTAACAAATGCCTCTTAAATAAT
1 AACAAAACAAACAAATACCTCTAAAATAAT
22824100 AACAAAA
1 AACAAAA
22824107 TTAAGAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (30 bp):
AACAAAACAAACAAATACCTCTAAAATAAT
Found at i:22825910 original size:6 final size:6
Alignment explanation
Indices: 22825901--22825929 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22825891 AAATAAAATA
22825901 ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATA
22825930 AAAGGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:22826071 original size:30 final size:29
Alignment explanation
Indices: 22826037--22826242 Score: 155
Period size: 30 Copynumber: 6.9 Consensus size: 29
22826027 GCCAAAATTG
* *
22826037 AATTTTTGGAAACTTTAGGAGTCAAATCAA
1 AATTTTTGGAAAATTTAGG-GTCAAATTAA
* *
22826067 AATTTTTAGAAAATTTAAGGGTCAAATCAA
1 AATTTTTGGAAAATTT-AGGGTCAAATTAA
* * **
22826097 AATTTTTAGAAAATTTAAGGGTCAATTTTG
1 AATTTTTGGAAAATTT-AGGGTCAAATTAA
* **
22826127 AATTTTT-GAAAAGTTTGGGAGTCAAATTTG
1 AATTTTTGGAAAA-TTTAGG-GTCAAATTAA
**
22826157 AATTTTTGGAAAATCTGGGGGTCAAATTAA
1 AATTTTTGGAAAAT-TTAGGGTCAAATTAA
* * *
22826187 AATTTTT-GAAAAGTTTAAGGGTTAGATTTA
1 AATTTTTGGAAAA-TTT-AGGGTCAAATTAA
* *
22826217 AATTTTTAGAAAGTTTAGGGGTCAAA
1 AATTTTTGGAAAATTTA-GGGTCAAA
22826243 ACATAATTTT
Statistics
Matches: 148, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
29 14 0.09
30 118 0.80
31 16 0.11
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAAATTTAGGGTCAAATTAA
Found at i:22826131 original size:60 final size:60
Alignment explanation
Indices: 22826037--22826242 Score: 218
Period size: 60 Copynumber: 3.4 Consensus size: 60
22826027 GCCAAAATTG
* * * * **
22826037 AATTTTTGGAAACTTTAGGAGTCAAATCAAAATTTTTAGAAAA-TTTAAGGGTCAAATCAA
1 AATTTTTAGAAAATTTAGGGGTCAAATTAAAATTTTT-GAAAAGTTTAAGGGTCAAATTTA
* * ** * *
22826097 AATTTTTAGAAAATTTAAGGGTCAATTTTGAATTTTTGAAAAGTTT-GGGAGTCAAATTTG
1 AATTTTTAGAAAATTTAGGGGTCAAATTAAAATTTTTGAAAAGTTTAAGG-GTCAAATTTA
* * * * *
22826157 AATTTTTGGAAAATCTGGGGGTCAAATTAAAATTTTTGAAAAGTTTAAGGGTTAGATTTA
1 AATTTTTAGAAAATTTAGGGGTCAAATTAAAATTTTTGAAAAGTTTAAGGGTCAAATTTA
*
22826217 AATTTTTAGAAAGTTTAGGGGTCAAA
1 AATTTTTAGAAAATTTAGGGGTCAAA
22826243 ACATAATTTT
Statistics
Matches: 116, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
59 7 0.06
60 107 0.92
61 2 0.02
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.37
Consensus pattern (60 bp):
AATTTTTAGAAAATTTAGGGGTCAAATTAAAATTTTTGAAAAGTTTAAGGGTCAAATTTA
Found at i:22826152 original size:90 final size:90
Alignment explanation
Indices: 22826034--22826256 Score: 247
Period size: 90 Copynumber: 2.5 Consensus size: 90
22826024 CGGGCCAAAA
* * * *
22826034 TTGAATTTTTGGAAACTTTAGGAGTCAAATCAAAATTTTTAGAAAATTTAAGGGTCAAATCAAAA
1 TTGAATTTTTGAAAAGTTTGGGAGTCAAATCAAAATTTTTAGAAAATCTAAGGGTCAAATCAAAA
22826099 TTTTTAGAAAA-TTTAAGGGTCA-ATT
66 TTTTT-GAAAAGTTTAAGGGTCAGA-T
*** * ** *
22826124 TTGAATTTTTGAAAAGTTTGGGAGTCAAATTTGAATTTTTGGAAAATCTGGGGGTCAAATTAAAA
1 TTGAATTTTTGAAAAGTTTGGGAGTCAAATCAAAATTTTTAGAAAATCTAAGGGTCAAATCAAAA
*
22826189 TTTTTGAAAAGTTTAAGGGTTAGAT
66 TTTTTGAAAAGTTTAAGGGTCAGAT
* * *
22826214 TTAAATTTTT-AGAAAGTTTAGGG-GTCAAAACATAATTTTTAGA
1 TTGAATTTTTGA-AAAGTTT-GGGAGTCAAATCAAAATTTTTAGA
22826257 TAGTTTGGGG
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
89 6 0.05
90 101 0.91
91 4 0.04
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (90 bp):
TTGAATTTTTGAAAAGTTTGGGAGTCAAATCAAAATTTTTAGAAAATCTAAGGGTCAAATCAAAA
TTTTTGAAAAGTTTAAGGGTCAGAT
Found at i:22826251 original size:30 final size:30
Alignment explanation
Indices: 22826037--22826316 Score: 142
Period size: 30 Copynumber: 9.3 Consensus size: 30
22826027 GCCAAAATTG
* * * * *
22826037 AATTTTTGGAAACTTTAGGAGTCAAATCAA
1 AATTTTTAGAAAGTTTAGGGGTCAAAACAT
* * * *
22826067 AATTTTTAGAAAATTTAAGGGTCAAATCAA
1 AATTTTTAGAAAGTTTAGGGGTCAAAACAT
* * ***
22826097 AATTTTTAGAAAATTTAAGGGTC-AATTTT
1 AATTTTTAGAAAGTTTAGGGGTCAAAACAT
**
22826126 GAATTTTT-GAAAAGTTT-GGGAGTC-AAATTT
1 -AATTTTTAG-AAAGTTTAGGG-GTCAAAACAT
* * * * ** *
22826156 GAATTTTTGGAAAATCTGGGGGTCAAATTAA
1 -AATTTTTAGAAAGTTTAGGGGTCAAAACAT
* * * **
22826187 AATTTTT-GAAAAGTTTAAGGGT-TAGATTT
1 AATTTTTAG-AAAGTTTAGGGGTCAAAACAT
22826216 AAATTTTTAGAAAGTTTAGGGGTCAAAACAT
1 -AATTTTTAGAAAGTTTAGGGGTCAAAACAT
* * *
22826247 AATTTTTAGATAGTTTGGGGGTCGAAACAT
1 AATTTTTAGAAAGTTTAGGGGTCAAAACAT
* * *
22826277 AATTTTTGGATAGTTT-GGTTGTCAAAACAT
1 AATTTTTAGAAAGTTTAGG-GGTCAAAACAT
22826307 AATTTTTAGA
1 AATTTTTAGA
22826317 TAAAGCAAGG
Statistics
Matches: 203, Mismatches: 36, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
29 11 0.05
30 181 0.89
31 11 0.05
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (30 bp):
AATTTTTAGAAAGTTTAGGGGTCAAAACAT
Found at i:22826284 original size:90 final size:88
Alignment explanation
Indices: 22826037--22826284 Score: 243
Period size: 90 Copynumber: 2.8 Consensus size: 88
22826027 GCCAAAATTG
* * * * **
22826037 AATTTTTGGAAACTTTAGGAGTCAAATCAAAATTTTTAGAAAATTTAAGGGTCAAATCAAAATTT
1 AATTTTT-GAAAGTTTAGGGGTCAAAACATAATTTTTAGAAAATTTGGGGGTCAAATCAAAATTT
*
22826102 TTAGAAAATTTAAGGGTCAATTTTG
65 TT-GAAAATTTAAGGGTCAATTTTA
** * * *
22826127 AATTTTTGAAAAGTTT-GGGAGTC-AAATTTGAATTTTTGGAAAATCTGGGGGTCAAATTAAAAT
1 AATTTTTG-AAAGTTTAGGG-GTCAAAACAT-AATTTTTAGAAAATTTGGGGGTCAAATCAAAAT
*
22826190 TTTTGAAAAGTTTAAGGGTTAGA-TTTA
63 TTTTGAAAA-TTTAAGGGTCA-ATTTTA
* * *
22826217 AATTTTTAGAAAGTTTAGGGGTCAAAACATAATTTTTAGATAGTTTGGGGGTCGAAA-CATAATT
1 AATTTTT-GAAAGTTTAGGGGTCAAAACATAATTTTTAGAAAATTTGGGGGTC-AAATCAAAATT
22826281 TTTG
64 TTTG
22826285 GATAGTTTGG
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
89 10 0.08
90 106 0.83
91 12 0.09
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (88 bp):
AATTTTTGAAAGTTTAGGGGTCAAAACATAATTTTTAGAAAATTTGGGGGTCAAATCAAAATTTT
TGAAAATTTAAGGGTCAATTTTA
Found at i:22828250 original size:40 final size:37
Alignment explanation
Indices: 22828205--22828350 Score: 148
Period size: 40 Copynumber: 3.7 Consensus size: 37
22828195 ATAGCTTTAG
* *
22828205 GGGTAAAAGATCAGATAATCTTTAATCTGTCCTCTAGTTA
1 GGGTAAAAGATCAGAT--TCTTCAATCTG-CCTCTGGTTA
** *
22828245 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTTG
1 GGGTAAAAGATCAGATT-CTTCAATCTGCCTC-TGGTTA
22828284 GGGTAAAAGATCAGATGGTCTTCAATCTGCCCTCTGGTTA
1 GGGTAAAAGATCAGAT--TCTTCAATCTG-CCTCTGGTTA
**
22828324 GGGTAAAAGATTGGATTGCTTCAATCT
1 GGGTAAAAGATCAGATT-CTTCAATCT
22828351 ACCCCATGGT
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
38 6 0.07
39 36 0.40
40 43 0.48
41 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (37 bp):
GGGTAAAAGATCAGATTCTTCAATCTGCCTCTGGTTA
Found at i:22828288 original size:39 final size:39
Alignment explanation
Indices: 22828228--22828350 Score: 167
Period size: 39 Copynumber: 3.1 Consensus size: 39
22828218 GATAATCTTT
* *
22828228 AATCTGTCCTCTAGTTAGGGTAAAAGATTGGATTGCTTC
1 AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTC
* ** *
22828267 AATCTG-CCTCATGGTTGGGGTAAAAGATCAGATGGTCTTC
1 AATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATTG-CTTC
22828307 AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTC
1 AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTC
22828346 AATCT
1 AATCT
22828351 ACCCCATGGT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.06
39 34 0.47
40 30 0.42
41 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (39 bp):
AATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTC
Found at i:22828324 original size:79 final size:79
Alignment explanation
Indices: 22828204--22828373 Score: 259
Period size: 79 Copynumber: 2.2 Consensus size: 79
22828194 TATAGCTTTA
* *
22828204 GGGGTAAAAGATCAGATAATCTTTAATCTGTCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
1 GGGGTAAAAGATCAGATAATCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
* * *
22828269 TCTGCCTCATGGTT
66 TCTACCCCATGGTC
** *
22828283 GGGGTAAAAGATCAGATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAA
1 GGGGTAAAAGATCAGATAATCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
22828348 TCTACCCCATGGTC
66 TCTACCCCATGGTC
*
22828362 GGGGTAAGAGAT
1 GGGGTAAAAGAT
22828374 TCGGGGTCGT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (79 bp):
GGGGTAAAAGATCAGATAATCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
TCTACCCCATGGTC
Found at i:22828367 original size:39 final size:39
Alignment explanation
Indices: 22828245--22828374 Score: 163
Period size: 39 Copynumber: 3.3 Consensus size: 39
22828235 CCTCTAGTTA
*
22828245 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTTG
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTG
** * *
22828284 GGGTAAAAGATCAGATGGTCTTCAATCTGCCCTC-TGGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTTG
* *
22828324 GGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCG
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTG
*
22828363 GGGTAAGAGATT
1 GGGTAAAAGATT
22828375 CGGGGTCGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 42 0.55
40 32 0.42
41 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (39 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTTG
Found at i:22828614 original size:50 final size:50
Alignment explanation
Indices: 22828399--22828620 Score: 277
Period size: 50 Copynumber: 4.4 Consensus size: 50
22828389 CACTTCATTT
* * * *
22828399 CAGCTTCAGGAGTATAAGATTCGTCC-TTGCGACTTCAGTTTGCCCCTCTA
1 CAGCTTTAGGTGTATAAGATTCG-CCTTTGCGACTTCAATCTGCCCCTCTA
* * *
22828449 CAGCTTTAGGTGAATGAGATTTGCCTTTGCGACTTCAATCTGCCCCTCTA
1 CAGCTTTAGGTGTATAAGATTCGCCTTTGCGACTTCAATCTGCCCCTCTA
* *
22828499 CAGCTTTAGGTGTATGAGATTTGCCTTTGCGACTTCAATCTGCCCCTCTA
1 CAGCTTTAGGTGTATAAGATTCGCCTTTGCGACTTCAATCTGCCCCTCTA
* * **
22828549 CAGCTTTAGGTGTATAAGATTCGCCTTTGTGGCTTCAAT-TCGTTCCTCTA
1 CAGCTTTAGGTGTATAAGATTCGCCTTTGCGACTTCAATCT-GCCCCTCTA
* *
22828599 CAGCTTTAGGGGTATAGGATTC
1 CAGCTTTAGGTGTATAAGATTC
22828621 ATCGTTCTAT
Statistics
Matches: 154, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 3 0.02
50 151 0.98
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (50 bp):
CAGCTTTAGGTGTATAAGATTCGCCTTTGCGACTTCAATCTGCCCCTCTA
Found at i:22831667 original size:23 final size:22
Alignment explanation
Indices: 22831621--22831767 Score: 145
Period size: 23 Copynumber: 6.5 Consensus size: 22
22831611 ACATTAGCAC
*
22831621 GCTTACTGTTCAGCAC--TGTGT
1 GCTTACTGTT-TGCACTGTGTGT
22831642 GCTTACTGTTTAGCACTGTGTGT
1 GCTTACTGTTT-GCACTGTGTGT
* * * *
22831665 GCTTACTGATTCGCGCTATATGT
1 GCTTACTG-TTTGCACTGTGTGT
* * *
22831688 GCTTACTAATTTGCATTATGTGT
1 GCTTACT-GTTTGCACTGTGTGT
22831711 GCTTACTGTTTTGCACTGTGTGT
1 GCTTACTG-TTTGCACTGTGTGT
*
22831734 GCCTACTGATTTGCACTGTGTGT
1 GCTTACTG-TTTGCACTGTGTGT
22831757 GCTTACTGTTT
1 GCTTACTGTTT
22831768 CCCTAACACT
Statistics
Matches: 104, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
21 14 0.13
22 3 0.03
23 85 0.82
24 2 0.02
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (22 bp):
GCTTACTGTTTGCACTGTGTGT
Found at i:22831765 original size:46 final size:45
Alignment explanation
Indices: 22831621--22831767 Score: 163
Period size: 46 Copynumber: 3.2 Consensus size: 45
22831611 ACATTAGCAC
*
22831621 GCTTACTGTTCAGCAC-TGTGTGCTTACTG-TTTAGCACTGTGTGT
1 GCTTACTGTTTAGCACTTGTGTGCTTACTGATTT-GCACTGTGTGT
* * * * * * *
22831665 GCTTACTGATTCGCGCTATATGTGCTTACTAATTTGCATTATGTGT
1 GCTTACTGTTTAGCACT-TGTGTGCTTACTGATTTGCACTGTGTGT
* *
22831711 GCTTACTGTTTTGCACTGTGTGTGCCTACTGATTTGCACTGTGTGT
1 GCTTACTGTTTAGCACT-TGTGTGCTTACTGATTTGCACTGTGTGT
22831757 GCTTACTGTTT
1 GCTTACTGTTT
22831768 CCCTAACACT
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 12 0.14
46 68 0.82
47 3 0.04
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (45 bp):
GCTTACTGTTTAGCACTTGTGTGCTTACTGATTTGCACTGTGTGT
Found at i:22835201 original size:30 final size:28
Alignment explanation
Indices: 22835160--22835442 Score: 151
Period size: 29 Copynumber: 9.6 Consensus size: 28
22835150 AACTTTTTTG
*
22835160 AAATCACATTTTTTACCCCTAAATTACCAA
1 AAATTACA-TTTTTACCCCTAAATT-CCAA
* *
22835190 AAATTACATTTTTGCCCCTAAACTTCTAA
1 AAATTACATTTTTACCCCTAAA-TTCCAA
* * * *
22835219 AAATAACATTTTTGCCCTCGAACTTCCAA
1 AAATTACATTTTTACCC-CTAAATTCCAA
** * * *
22835248 AAAGCACATTTTTACCCTCGAACTTCTTAA
1 AAATTACATTTTTACCC-CTAAATTC-CAA
* * *
22835278 AATTTACATTTTTACCTCCGAACTAT-CAA
1 AAATTACATTTTTACC-CCTAAAT-TCCAA
* * * *
22835307 AAATTACAATTTTACCCTCGAACTACTCAA
1 AAATTACATTTTTACCC-CTAAATTC-CAA
*
22835337 AAATTACATTTTTACCCCTCAAACGTCCAA
1 AAATTACATTTTTACCCCT-AAA-TTCCAA
* * *
22835367 AGATCACATTTTTA-CCCTAAACTTTCCCA
1 AAATTACATTTTTACCCCTAAA--TTCCAA
*
22835396 AAATGACA-TTTTACCCCTAAAACTTTCC-A
1 AAATTACATTTTTACCCCT-AAA--TTCCAA
* *
22835425 AAATTATATTTTAACCCC
1 AAATTACATTTTTACCCC
22835443 AAACTCTTTA
Statistics
Matches: 206, Mismatches: 33, Indels: 28
0.77 0.12 0.10
Matches are distributed among these distances:
28 9 0.04
29 108 0.52
30 86 0.42
31 3 0.01
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (28 bp):
AAATTACATTTTTACCCCTAAATTCCAA
Found at i:22835288 original size:59 final size:58
Alignment explanation
Indices: 22835186--22835384 Score: 197
Period size: 59 Copynumber: 3.4 Consensus size: 58
22835176 CCCTAAATTA
* * * *
22835186 CCAAAAATTACATTTTTGCCC-CTAAACTTC-TAAAAATAACATTTTTGCCCTCGAACTT
1 CCAAAAATCACATTTTTACCCTC-GAACTTCTTAAAAATTACATTTTT-CCCTCGAACTT
* * *
22835244 CCAAAAAGCACATTTTTACCCTCGAACTTCTTAAAATTTACATTTTTACCTCCGAACTAT
1 CCAAAAATCACATTTTTACCCTCGAACTTCTTAAAAATTACATTTTTCCCT-CGAACT-T
* * * * * *
22835304 -CAAAAATTACAATTTTACCCTCGAACTACTCAAAAATTACATTTTTACCCCTCAAACGT
1 CCAAAAATCACATTTTTACCCTCGAACTTCTTAAAAATTACATTTTT--CCCTCGAACTT
*
22835363 CCAAAGATCACATTTTTACCCT
1 CCAAAAATCACATTTTTACCCT
22835385 AAACTTTCCC
Statistics
Matches: 115, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
58 27 0.23
59 62 0.54
60 23 0.20
61 3 0.03
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (58 bp):
CCAAAAATCACATTTTTACCCTCGAACTTCTTAAAAATTACATTTTTCCCTCGAACTT
Found at i:22836542 original size:14 final size:15
Alignment explanation
Indices: 22836523--22836559 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
22836513 TTTATCTATA
22836523 AAATAATAAT-AAAT
1 AAATAATAATAAAAT
22836537 AAATAA-AATAAAAT
1 AAATAATAATAAAAT
*
22836551 AAAAAATAA
1 AAATAATAA
22836560 AATTAGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 3 0.15
14 15 0.75
15 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATAATAATAAAAT
Found at i:22836557 original size:21 final size:19
Alignment explanation
Indices: 22836520--22836560 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
22836510 TTATTTATCT
*
22836520 ATAAAATAATAATAAATAA
1 ATAAAATAATAAAAAATAA
22836539 ATAAAATAAAATAAAAAATAA
1 ATAAAAT--AATAAAAAATAA
22836560 A
1 A
22836561 ATTAGATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAATAATAAAAAATAA
Found at i:22836867 original size:12 final size:13
Alignment explanation
Indices: 22836850--22836880 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22836840 TATTAATGAA
22836850 TTTAAA-CAAAAT
1 TTTAAACCAAAAT
22836862 TTTAAACCAAAAT
1 TTTAAACCAAAAT
22836875 TTTAAA
1 TTTAAA
22836881 TTAAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (13 bp):
TTTAAACCAAAAT
Found at i:22838302 original size:29 final size:28
Alignment explanation
Indices: 22838229--22838311 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
22838219 AAATTTTTTT
*
22838229 AAAAATTCTAAATTTATTTTTAAAAATTAAA
1 AAAAATT-TAAA-TT-TTATTAAAAATTAAA
**
22838260 AATCA-TTAAA-TTTATTAAAAATATAAA
1 AAAAATTTAAATTTTATTAAAAAT-TAAA
22838287 AAAAATTTAAATTTTA--AAAAATTAA
1 AAAAATTTAAATTTTATTAAAAATTAA
22838312 TTAAATGTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
26 13 0.30
27 14 0.32
28 5 0.11
29 8 0.18
30 1 0.02
31 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAAATTTAAATTTTATTAAAAATTAAA
Found at i:22840135 original size:15 final size:14
Alignment explanation
Indices: 22840104--22840138 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
22840094 TGTTTGATTG
22840104 AAAATGATTTTCGA
1 AAAATGATTTTCGA
* *
22840118 AAAATTATTTTTGA
1 AAAATGATTTTCGA
22840132 AAAATGA
1 AAAATGA
22840139 CTTACTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (14 bp):
AAAATGATTTTCGA
Found at i:22840415 original size:15 final size:15
Alignment explanation
Indices: 22840395--22840478 Score: 52
Period size: 14 Copynumber: 5.7 Consensus size: 15
22840385 TTAAATTACT
22840395 ATTAAATATAATTTA
1 ATTAAATATAATTTA
* *
22840410 ATTAAAAATAATAAATA
1 ATTAAATATAAT--TTA
* *
22840427 ATTTAATCATATTTTA
1 ATTAAAT-ATAATTTA
*
22840443 ATT--ATATTA-TT-
1 ATTAAATATAATTTA
*
22840454 ATTAAATATAACTTA
1 ATTAAATATAATTTA
22840469 A-TAAATATAA
1 ATTAAATATAA
22840479 AAATATATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
11 3 0.06
12 2 0.04
13 7 0.13
14 13 0.25
15 12 0.23
16 5 0.09
17 7 0.13
18 4 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAATATAATTTA
Found at i:22840541 original size:62 final size:61
Alignment explanation
Indices: 22840383--22840561 Score: 206
Period size: 62 Copynumber: 2.9 Consensus size: 61
22840373 ATTAAATTAC
* * * * * * *
22840383 AATTAAATTACTATTAAATATAATTTAATTAA-A-AATAATAAATAATTTAATCATATTTT
1 AATTATATTATTATTAAATATAACTTAATAAATATAAAAATATATAATTTAATAATATTTT
22840442 AATTATATTATTATTAAATATAACTTAATAAATATAAAAATATATAATTTAATAATATTTTT
1 AATTATATTATTATTAAATATAACTTAATAAATATAAAAATATATAATTTAATAATA-TTTT
*
22840504 AA-TATAATTATTATTAAAATATGAA-TTAGTAAA-ATAAAAATATATAATATTAATAATA
1 AATTAT-ATTATTATT-AAATAT-AACTTAATAAATATAAAAATATATAAT-TTAATAATA
22840562 AATTTTAAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
59 28 0.27
60 1 0.01
61 22 0.21
62 30 0.29
63 22 0.21
64 2 0.02
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (61 bp):
AATTATATTATTATTAAATATAACTTAATAAATATAAAAATATATAATTTAATAATATTTT
Found at i:22846152 original size:2 final size:2
Alignment explanation
Indices: 22846145--22846210 Score: 123
Period size: 2 Copynumber: 32.5 Consensus size: 2
22846135 TCTCATGATA
22846145 AT AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
22846187 AT AT AT AT AT AT AT AT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT A
22846211 CAGTAAATTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 61 0.97
3 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22848196 original size:20 final size:20
Alignment explanation
Indices: 22848147--22848197 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
22848137 TAAAATATGA
* *
22848147 AATGAAATTGAAATAAGGCT
1 AATGAAATAGAAATAAGGAT
*
22848167 AATGAGATAGAAATAAGGAAT
1 AATGAAATAGAAATAAGG-AT
22848188 AAT-AAATAGA
1 AATGAAATAGA
22848198 GTTTGGGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.20, T:0.22
Consensus pattern (20 bp):
AATGAAATAGAAATAAGGAT
Found at i:22848600 original size:7 final size:7
Alignment explanation
Indices: 22848588--22848614 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
22848578 ATATATATGA
22848588 AAGTGGG
1 AAGTGGG
22848595 AAGTGGG
1 AAGTGGG
22848602 AAGTGGG
1 AAGTGGG
22848609 AAGTGG
1 AAGTGG
22848615 TTATTAGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
AAGTGGG
Found at i:22849788 original size:42 final size:42
Alignment explanation
Indices: 22849728--22849816 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
22849718 GGACACGGTC
* * *
22849728 GTGTCTCAAGTTAGTGAGTTACACGATCTGAGACACAATCGT
1 GTGTCTCAAGTCAATGAGTTACACGAGCTGAGACACAATCGT
* * * *
22849770 GTGTCTCAAGTCAATGAGTTACATGGGCTGGGACACGATCGT
1 GTGTCTCAAGTCAATGAGTTACACGAGCTGAGACACAATCGT
22849812 GTGTC
1 GTGTC
22849817 CCAACTTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
GTGTCTCAAGTCAATGAGTTACACGAGCTGAGACACAATCGT
Found at i:22852320 original size:15 final size:15
Alignment explanation
Indices: 22852297--22852350 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
22852287 CGATTTTGTC
22852297 TAAATTTAAA-TGATT
1 TAAA-TTAAATTGATT
22852312 TAAACTTAAATTGATT
1 TAAA-TTAAATTGATT
* *
22852328 CAAATTAAAAT--TT
1 TAAATTAAATTGATT
22852341 TAAATTAAAT
1 TAAATTAAAT
22852351 CAATCTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 10 0.30
15 15 0.45
16 8 0.24
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (15 bp):
TAAATTAAATTGATT
Found at i:22853963 original size:7 final size:7
Alignment explanation
Indices: 22853950--22853989 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
22853940 TGGTGTGGCA
22853950 AGAAAGG
1 AGAAAGG
*
22853957 GGAAAGG
1 AGAAAGG
22853964 AGAAAGG
1 AGAAAGG
22853971 AGAAAGG
1 AGAAAGG
22853978 AGAAAGG
1 AGAAAGG
*
22853985 GGAAA
1 AGAAA
22853990 AGGGGGGGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (7 bp):
AGAAAGG
Found at i:22853969 original size:14 final size:14
Alignment explanation
Indices: 22853950--22853989 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
22853940 TGGTGTGGCA
22853950 AGAAAGGGGAAAGG
1 AGAAAGGGGAAAGG
*
22853964 AGAAAGGAGAAAGG
1 AGAAAGGGGAAAGG
22853978 AGAAAGGGGAAA
1 AGAAAGGGGAAA
22853990 AGGGGGGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (14 bp):
AGAAAGGGGAAAGG
Found at i:22869311 original size:21 final size:21
Alignment explanation
Indices: 22869282--22869332 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
22869272 GGAGTTTTTA
*
22869282 GTATCGGTAGAAGAAAGACTT
1 GTATCGGTAGAAGAAACACTT
* *
22869303 GTTTCGGTAGAAGAATCACTT
1 GTATCGGTAGAAGAAACACTT
22869324 GTATCGGTA
1 GTATCGGTA
22869333 AAAGTCTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (21 bp):
GTATCGGTAGAAGAAACACTT
Done.