Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 15 of 345
Found at i:4677536 original size:17 final size:17
Alignment explanation
Indices: 4677516--4677555 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
4677506 TATGTGTTAT
4677516 AAATTACATAATATAAA
1 AAATTACATAATATAAA
*
4677533 AAATAACATAATATAAA
1 AAATTACATAATATAAA
*
4677550 ATATTA
1 AAATTA
4677556 TAAACTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATTACATAATATAAA
Found at i:4677950 original size:14 final size:15
Alignment explanation
Indices: 4677931--4677964 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4677921 TTTTAAATTG
*
4677931 ATTTTACATA-TTTT
1 ATTTTAAATATTTTT
4677945 ATTTTAAATATTTTT
1 ATTTTAAATATTTTT
4677960 ATTTT
1 ATTTT
4677965 TATAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTAAATATTTTT
Found at i:4678065 original size:19 final size:19
Alignment explanation
Indices: 4678041--4678085 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4678031 TTATATAAAT
* *
4678041 ATATATGTATGTAATTGAG
1 ATATATGTATATAAATGAG
* *
4678060 ATATATATATATAAATGAT
1 ATATATGTATATAAATGAG
4678079 ATATATG
1 ATATATG
4678086 AAAATACTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
ATATATGTATATAAATGAG
Found at i:4683016 original size:3 final size:3
Alignment explanation
Indices: 4683008--4683034 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4682998 ATTCATTTGA
4683008 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
4683035 TAAATTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4683266 original size:27 final size:28
Alignment explanation
Indices: 4683209--4683267 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
4683199 AAAACAAAAA
4683209 AAAATCAAAATAATCTAAAAAAATTCAT
1 AAAATCAAAATAATCTAAAAAAATTCAT
* * * *
4683237 AAAATTAAAA-AATTTATAAAAATTCTT
1 AAAATCAAAATAATCTAAAAAAATTCAT
4683264 AAAA
1 AAAA
4683268 ATGATATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAATCAAAATAATCTAAAAAAATTCAT
Found at i:4687691 original size:24 final size:25
Alignment explanation
Indices: 4687638--4687685 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4687628 TTGGCCCTCT
* *
4687638 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
4687663 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
4687686 TGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:4687778 original size:26 final size:25
Alignment explanation
Indices: 4687743--4687809 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
4687733 GTAGCTCTTA
* *
4687743 TGAGCGTCCCGA-TATATGGCTCTTCG
1 TGAGCTTCCCGATTA-AAGGCT-TTCG
*
4687769 TGAGCTTCCCGATTAAAGGCTTTTG
1 TGAGCTTCCCGATTAAAGGCTTTCG
*
4687794 TGAGCTTCCTGATTAA
1 TGAGCTTCCCGATTAA
4687810 TGATTCTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 18 0.50
26 16 0.44
27 2 0.06
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGATTAAAGGCTTTCG
Found at i:4690095 original size:17 final size:18
Alignment explanation
Indices: 4690073--4690107 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4690063 CCTCCCATGA
4690073 TCAGCAC-CCCACACACG
1 TCAGCACGCCCACACACG
4690090 TCAGCACGCCCACACACG
1 TCAGCACGCCCACACACG
4690108 ATCCCTGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.29, C:0.51, G:0.14, T:0.06
Consensus pattern (18 bp):
TCAGCACGCCCACACACG
Found at i:4691313 original size:30 final size:29
Alignment explanation
Indices: 4691249--4691317 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
4691239 TTCATATTAT
*
4691249 TTTATGTA-AATATTTTCTTTTAAATTTA
1 TTTATGTATAATATTTTCTTTAAAATTTA
4691277 -TTATGTATATATATTTTCTTTAAAATTTA
1 TTTATGTATA-ATATTTTCTTTAAAATTTA
4691306 TTTATGTATAAT
1 TTTATGTATAAT
4691318 TTGGCTTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 7 0.19
28 1 0.03
29 20 0.54
30 9 0.24
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.59
Consensus pattern (29 bp):
TTTATGTATAATATTTTCTTTAAAATTTA
Found at i:4691325 original size:28 final size:29
Alignment explanation
Indices: 4691265--4691325 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
4691255 TAAATATTTT
* **
4691265 CTTTTAAATTTATTATGTATATATATTTT
1 CTTTAAAATTTATTATGTATATATATTGG
4691294 CTTTAAAATTTATTTATGTATA-AT-TTGG
1 CTTTAAAATTTA-TTATGTATATATATTGG
4691322 CTTT
1 CTTT
4691326 CTTTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 13 0.46
30 9 0.32
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (29 bp):
CTTTAAAATTTATTATGTATATATATTGG
Found at i:4692086 original size:127 final size:128
Alignment explanation
Indices: 4691945--4692194 Score: 457
Period size: 129 Copynumber: 2.0 Consensus size: 128
4691935 TTTTCGTCGC
4691945 GTGTTTTGGAAATCATGAGGTGATCTCAG-TTTTTGGAGGCTTAAAATATCGTGTCCTAACGTGC
1 GTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCGTGTCCTAACGTGC
*
4692009 TGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTCAAAATCCAACTGGAGTTGCTTCGT
66 TGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTCAAAATCCAACTCGAGTTGCTTCGT
4692072 GTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTTGGAGGCTTAAAATATCGTGTCCTAACGTG
1 GTGTTTTGGAAATCATGAGGTGATCTCAG-TTTTTTGGAGGCTTAAAATATCGTGTCCTAACGTG
* *
4692137 CTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTCGAGTTG
65 CTGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTCAAAATCCAACTCGAGTTG
4692195 TTCACACACT
Statistics
Matches: 118, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
127 29 0.25
129 89 0.75
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (128 bp):
GTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCGTGTCCTAACGTGC
TGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTCAAAATCCAACTCGAGTTGCTTCGT
Found at i:4699128 original size:40 final size:40
Alignment explanation
Indices: 4699068--4699289 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
4699058 GAGGATTATA
* *
4699068 TCCGAGTTAAGTCCCAAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
4699108 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
*
4699148 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* **
4699188 TCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCACTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * * * *
4699228 TTCGGGTTAAGTCCCGAAGGCATTTGTGGTGGTTGTTACAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTA-TT
* *
4699269 T-CGGGCTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
4699290 ATTGGGTTGG
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 162 0.99
41 2 0.01
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:4709445 original size:22 final size:22
Alignment explanation
Indices: 4709402--4709446 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4709392 TAAAAGGGAG
* *
4709402 ATTTTTATTTTTTTATTATTTT
1 ATTTTTATTCTTTTACTATTTT
* *
4709424 ATTTTTCTTCTTTTACTGTTTT
1 ATTTTTATTCTTTTACTATTTT
4709446 A
1 A
4709447 AAGGAAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (22 bp):
ATTTTTATTCTTTTACTATTTT
Found at i:4718346 original size:29 final size:29
Alignment explanation
Indices: 4718304--4718366 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
4718294 AGTGTTATTT
4718304 ATGATGTCAATTATCACGTCCCATCTGAA
1 ATGATGTCAATTATCACGTCCCATCTGAA
4718333 ATGATGTCAATTATCACGTCCCATCTGAA
1 ATGATGTCAATTATCACGTCCCATCTGAA
4718362 ATGAT
1 ATGAT
4718367 TAATAGTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (29 bp):
ATGATGTCAATTATCACGTCCCATCTGAA
Found at i:4718526 original size:2 final size:2
Alignment explanation
Indices: 4718519--4718549 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4718509 TGAAGGGGAG
4718519 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4718550 AAGCTACTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4719099 original size:3 final size:3
Alignment explanation
Indices: 4719091--4719138 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
4719081 GAGATAAAAA
* * *
4719091 GAT GAT GAT GAT TAT GAT GAC AAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
4719139 CTAGAAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:4720592 original size:56 final size:56
Alignment explanation
Indices: 4720526--4720637 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
4720516 CATAGTGACT
* *
4720526 GAGTAGACTTAAATGTACATATACTGGATGTTTAATTAGTTATGATTGAAGTATTA
1 GAGTAAACTTAAATGTACATATACTGGATGTTTAATTAGTTATGACTGAAGTATTA
4720582 GAGTAAACTTAAATGTACATATACTGGATGTTTAATTAGTTATGACTGAAGTATTA
1 GAGTAAACTTAAATGTACATATACTGGATGTTTAATTAGTTATGACTGAAGTATTA
4720638 ATGGATGGCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (56 bp):
GAGTAAACTTAAATGTACATATACTGGATGTTTAATTAGTTATGACTGAAGTATTA
Found at i:4721071 original size:67 final size:67
Alignment explanation
Indices: 4720930--4721071 Score: 149
Period size: 67 Copynumber: 2.1 Consensus size: 67
4720920 CACCTTGAAA
* * * * * * *
4720930 GAAGTATAATGTGTAAGACCACAGCTCAGCTTTGGCAACATATGAAGTCCACCAAAATATTAAAT
1 GAAGTATAATATATAAAACCACAACTCAGCTATGGCAACATATGAAGTCCACCAAAACATTAAAC
4720995 AT
66 AT
** * * * * **
4720997 GGGGTATAATATATAAAACCATAACTTAGCTATGGCAACATGTGAAGTCCGCCAGGACATTAAAC
1 GAAGTATAATATATAAAACCACAACTCAGCTATGGCAACATATGAAGTCCACCAAAACATTAAAC
4721062 AT
66 AT
4721064 GAAGTATA
1 GAAGTATA
4721072 CTATGTAGGA
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (67 bp):
GAAGTATAATATATAAAACCACAACTCAGCTATGGCAACATATGAAGTCCACCAAAACATTAAAC
AT
Found at i:4722192 original size:11 final size:13
Alignment explanation
Indices: 4722167--4722198 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4722157 TAGTTTATTA
4722167 ATATTTTAAATTG
1 ATATTTTAAATTG
4722180 AT-TTTTAAA-TG
1 ATATTTTAAATTG
4722191 ATATTTTA
1 ATATTTTA
4722199 TTATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAAATTG
Found at i:4723921 original size:40 final size:40
Alignment explanation
Indices: 4723877--4723954 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
4723867 TAAGATTCGC
* *
4723877 TCCTGATTCACTATGGTAATTTAAAGTGAATAGGATTTAT
1 TCCTGATTCACTATGGTAACTTAAAGCGAATAGGATTTAT
* *
4723917 TCCTGATTCACTATGGTAACTTAAGGCGGATAGGATTT
1 TCCTGATTCACTATGGTAACTTAAAGCGAATAGGATTT
4723955 GACCTGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (40 bp):
TCCTGATTCACTATGGTAACTTAAAGCGAATAGGATTTAT
Found at i:4724088 original size:79 final size:78
Alignment explanation
Indices: 4723920--4724157 Score: 361
Period size: 78 Copynumber: 3.0 Consensus size: 78
4723910 GATTTATTCC
* *
4723920 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
*
4723985 GTTACATAATATA
66 GTTACATGATATA
* *
4723998 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCTTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTAC
* *
4724063 GGTTACACGATATA
65 AGTTACATGATATA
* *
4724077 TGATTTC-TTATGATAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTAC
1 TGA-TTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTAC
*
4724141 AGTTACATGAGATA
65 AGTTACATGATATA
4724155 TGA
1 TGA
4724158 CTCAAGAGAA
Statistics
Matches: 144, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
78 73 0.51
79 68 0.47
80 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (78 bp):
TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
GTTACATGATATA
Found at i:4725202 original size:78 final size:78
Alignment explanation
Indices: 4725101--4725259 Score: 291
Period size: 78 Copynumber: 2.0 Consensus size: 78
4725091 TTTCCAGTTG
4725101 TACACTCGAGGTGTACGTTTCTTTCCGAGTGGTACACATAAAGTATACCTTTCCTTTTCAAATGG
1 TACACTCGAGGTGTACGTTTCTTTCCGAGTGGTACACATAAAGTATACCTTTCCTTTTCAAATGG
4725166 TATACAAAAAGTA
66 TATACAAAAAGTA
* *
4725179 TACACTTGAGGTGTACGTTTCTTTCCGAGTGGTACATATAAAGTATACCTTTCCTTTTCAAATGG
1 TACACTCGAGGTGTACGTTTCTTTCCGAGTGGTACACATAAAGTATACCTTTCCTTTTCAAATGG
*
4725244 TATACACAAAGTA
66 TATACAAAAAGTA
4725257 TAC
1 TAC
4725260 CTAACCTTTC
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (78 bp):
TACACTCGAGGTGTACGTTTCTTTCCGAGTGGTACACATAAAGTATACCTTTCCTTTTCAAATGG
TATACAAAAAGTA
Found at i:4725255 original size:33 final size:32
Alignment explanation
Indices: 4725218--4725368 Score: 185
Period size: 32 Copynumber: 4.7 Consensus size: 32
4725208 TGGTACATAT
4725218 AAAGTATACCTTTCCTTTTCAAATGGTATACAC
1 AAAGTATACCTTTCCTTTTCAAAT-GTATACAC
** * * *
4725251 AAAGTATACCTAACCTTTCCAAGTGTACACAC
1 AAAGTATACCTTTCCTTTTCAAATGTATACAC
* * ** * *
4725283 AAAGTGTACATCACCTTTTCCAATGAATACAC
1 AAAGTATACCTTTCCTTTTCAAATGTATACAC
4725315 AAAGTATACCTTTCCTTTTCAAATGGTATACAC
1 AAAGTATACCTTTCCTTTTCAAAT-GTATACAC
4725348 AAAGTATACCTTTCCTTTTCA
1 AAAGTATACCTTTCCTTTTCA
4725369 CATTCGATAG
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
32 50 0.51
33 48 0.49
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (32 bp):
AAAGTATACCTTTCCTTTTCAAATGTATACAC
Found at i:4725403 original size:29 final size:29
Alignment explanation
Indices: 4725361--4725633 Score: 483
Period size: 29 Copynumber: 9.4 Consensus size: 29
4725351 GTATACCTTT
4725361 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
4725390 CCTTTTCACATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
4725419 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
4725448 CATTTTTACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
4725477 CCTTTTCACATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
4725506 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
4725535 CATTTTTACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
4725564 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
4725593 CCTTTTCATATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
4725622 CCTTTTCACATT
1 CCTTTTCACATT
4725634 GTACACACAA
Statistics
Matches: 230, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 230 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.34
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:4730024 original size:23 final size:23
Alignment explanation
Indices: 4729998--4730042 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4729988 TGGGTATGTG
*
4729998 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
4730021 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
4730043 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:4732152 original size:13 final size:13
Alignment explanation
Indices: 4732136--4732160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4732126 TGTAAAAAAA
4732136 ATGTAAAAGTGTT
1 ATGTAAAAGTGTT
4732149 ATGTAAAAGTGT
1 ATGTAAAAGTGT
4732161 AAAAGTGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (13 bp):
ATGTAAAAGTGTT
Found at i:4732156 original size:21 final size:21
Alignment explanation
Indices: 4732132--4732173 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4732122 AATTTGTAAA
*
4732132 AAAAATGTAAAAGTGTTATGT
1 AAAAATGTAAAAGTGATATGT
*
4732153 AAAAGTGTAAAAGTGATATGT
1 AAAAATGTAAAAGTGATATGT
4732174 GTGCATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (21 bp):
AAAAATGTAAAAGTGATATGT
Found at i:4734612 original size:20 final size:20
Alignment explanation
Indices: 4734587--4734627 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4734577 TAGTAAGAAA
4734587 ATTTAGTTAGTTAAGTTGAG
1 ATTTAGTTAGTTAAGTTGAG
4734607 ATTTAGTTAGTTAAGTTGAG
1 ATTTAGTTAGTTAAGTTGAG
4734627 A
1 A
4734628 ATTGAACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (20 bp):
ATTTAGTTAGTTAAGTTGAG
Found at i:4741182 original size:86 final size:92
Alignment explanation
Indices: 4741035--4741200 Score: 236
Period size: 86 Copynumber: 1.9 Consensus size: 92
4741025 GTCTTCAAAT
*
4741035 TTTTTCAAAAAAAGCAATTAAGCCCCTACTCTCTTTTTTTACACTCAATTGGATACTTGAACTTT
1 TTTTTCAAAAAAAGCAATTAAGCCCCTACGCTCTTTTTTTACACTCAATTGGATACTTGAACTTT
4741100 CAAAATGCATCAAAAGGCCCTCAAACC
66 CAAAATGCATCAAAAGGCCCTCAAACC
** * *
4741127 TTTTT-AAAAAAA-CAATTAAG-CCC-A-GCT-TTTTTTTGGACTTAATTGGGTACTTGAACTTT
1 TTTTTCAAAAAAAGCAATTAAGCCCCTACGCTCTTTTTTTACACTCAATTGGATACTTGAACTTT
*
4741186 CAAAATGTATCAAAA
66 CAAAATGCATCAAAA
4741201 ACACCCTCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
86 42 0.62
87 2 0.03
88 1 0.01
89 3 0.04
90 8 0.12
91 7 0.10
92 5 0.07
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (92 bp):
TTTTTCAAAAAAAGCAATTAAGCCCCTACGCTCTTTTTTTACACTCAATTGGATACTTGAACTTT
CAAAATGCATCAAAAGGCCCTCAAACC
Found at i:4742723 original size:27 final size:23
Alignment explanation
Indices: 4742658--4742708 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
4742648 ATACATAAAT
4742658 AAATTT-AAAAAATATATATATA
1 AAATTTGAAAAAATATATATATA
*
4742680 AAATTTGAAAGAAAATATTTATATA
1 AAATTTG-AA-AAAATATATATATA
4742705 AAAT
1 AAAT
4742709 AATATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
24 2 0.08
25 17 0.68
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATTTGAAAAAATATATATATA
Found at i:4746814 original size:12 final size:12
Alignment explanation
Indices: 4746799--4746829 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4746789 TTCTCTTTTA
4746799 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
4746811 TTTTTCTTTCTC
1 TTTTTCTTTCCC
4746823 TTTTTCT
1 TTTTTCT
4746830 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:4746930 original size:16 final size:16
Alignment explanation
Indices: 4746909--4746939 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4746899 TTTATTATTT
4746909 TATTAACATAATATAA
1 TATTAACATAATATAA
*
4746925 TATTAATATAATATA
1 TATTAACATAATATA
4746940 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:4747828 original size:131 final size:131
Alignment explanation
Indices: 4747567--4747988 Score: 398
Period size: 132 Copynumber: 3.2 Consensus size: 131
4747557 AGGTCATTAC
* * * *** * * *
4747567 AGGGCACGATTCTCAAATTGTCAAACATTGAACATCACCTTCGTTTTAAAGTGTTTTCTTAAAAG
1 AGGGCACGATTCCCGAATTGCCAAACACCAAACATTACCTTCATTTTAAAGAG--TTCTTAAAAG
* ** * * * * * **
4747632 ACATGAGTGTAAA-CCTAAAGGAATATTCGATTGTTTTGAGCAAATGAGAGATCACAACCCAGCA
64 ACATGAATG-AAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCA
*
4747696 CGAT
128 CGTT
* * * ** * *
4747700 AGGGCATGATTCCCGAATTGTCAAACACCGAGTATTACCTTCATTTTAAATGA-TTTTTAGAAGA
1 AGGGCACGATTCCCGAATTGCCAAACACCAAACATTACCTTCATTTTAAA-GAGTTCTTAAAAGA
* * *
4747764 CATGAATGGAATTTTGAAGGGATATTCGATCATTTTAAGCAAACGAGAAATTGCAACCCAGCACG
65 CATGAATGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACG
4747829 TT
130 TT
* *** * * * *
4747831 AGGGCACGATTCTACGAATTGCCAAATGTCAAACCTTGCCTTCGTTTTAAAGAGTTCTTAAAAGG
1 AGGGCACGATTC-CCGAATTGCCAAACACCAAACATTACCTTCATTTTAAAGAGTTCTTAAAAGA
* * * *
4747896 CTTGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGTGAAATTGCAACCCAACACG
65 CATGAATGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACG
4747961 TT
130 TT
4747963 AGGGCACGATTCCGCGAATTGCCAAA
1 AGGGCACGATTCC-CGAATTGCCAAA
4747989 TATCGGATCT
Statistics
Matches: 235, Mismatches: 49, Indels: 11
0.80 0.17 0.04
Matches are distributed among these distances:
130 2 0.01
131 72 0.31
132 119 0.51
133 41 0.17
134 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (131 bp):
AGGGCACGATTCCCGAATTGCCAAACACCAAACATTACCTTCATTTTAAAGAGTTCTTAAAAGAC
ATGAATGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
T
Found at i:4748006 original size:132 final size:132
Alignment explanation
Indices: 4747773--4748024 Score: 378
Period size: 132 Copynumber: 1.9 Consensus size: 132
4747763 ACATGAATGG
*
4747773 AATTTTGAAGGGATATTCGATCATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCAC
1 AATTTTGAAGGGATATTCGATCATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCAC
* * * *
4747838 GATTCTACGAATTGCCAAATGTCAAACCTTGCCTTCGTTTTAAAGAGTTCTTAAAAGGCTTGAGT
66 GATTCCACGAATTGCCAAATATCAAACCTCGCCTTCGTTTTAAAGAATTCTTAAAAGGCTTGAGT
4747903 GA
131 GA
* * *
4747905 AATTTTGAAGGGATATTCGATTATTTTGAGCAAACGTGAAATTGCAACCCAACACGTTAGGGCAC
1 AATTTTGAAGGGATATTCGATCATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCAC
* ** * * *
4747970 GATTCCGCGAATTGCCAAATATCGGATCTCGTCTTCGTTTTAAAGAATTTTTAAA
66 GATTCCACGAATTGCCAAATATCAAACCTCGCCTTCGTTTTAAAGAATTCTTAAA
4748025 TGAATGCTCA
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 106 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (132 bp):
AATTTTGAAGGGATATTCGATCATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCAC
GATTCCACGAATTGCCAAATATCAAACCTCGCCTTCGTTTTAAAGAATTCTTAAAAGGCTTGAGT
GA
Found at i:4757991 original size:37 final size:37
Alignment explanation
Indices: 4757951--4758193 Score: 240
Period size: 37 Copynumber: 6.5 Consensus size: 37
4757941 GATATCGCTT
4757951 ATTTGAGCAACTTTCAGTATAATCAGTAGACATTGCT-
1 ATTTGAGC-ACTTTCAGTATAATCAGTAGACATTGCTC
* *
4757988 ATTTTGAGCA-TGTTCAGTATATTCAGTAGAGATTGCTC
1 A-TTTGAGCACT-TTCAGTATAATCAGTAGACATTGCTC
* * * *
4758026 ATTTGAGCCCATTCAGTATAATCAGTGGATATTGCTC
1 ATTTGAGCACTTTCAGTATAATCAGTAGACATTGCTC
* * *
4758063 GTTTGAGCAACTTTCAGTATAATCAATAGACATTTCTC
1 ATTTGAGC-ACTTTCAGTATAATCAGTAGACATTGCTC
* * *
4758101 TTTTGAGCACGTTCAGTA-AATTCAGTAGATATTGCTC
1 ATTTGAGCACTTTCAGTATAA-TCAGTAGACATTGCTC
* * * *
4758138 GTTTGAACACATTCAGTACAATCAGTAGACATTGCTC
1 ATTTGAGCACTTTCAGTATAATCAGTAGACATTGCTC
* * * *
4758175 GTTTAAGCTCATTCAGTAT
1 ATTTGAGCACTTTCAGTAT
4758194 TCCATTTTTC
Statistics
Matches: 172, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
36 3 0.02
37 129 0.75
38 40 0.23
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (37 bp):
ATTTGAGCACTTTCAGTATAATCAGTAGACATTGCTC
Found at i:4758095 original size:112 final size:112
Alignment explanation
Indices: 4757910--4758178 Score: 376
Period size: 112 Copynumber: 2.4 Consensus size: 112
4757900 AGTGGATATC
* * * * **
4757910 GCTCGTTTGAACCCATTCAGCAGAACCAGTGGATATCGCTTATTTGAGCAACTTTCAGTATAATC
1 GCTCGTTTGAACCCATTCAGTACAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATC
* * *
4757975 AGTAGACATTGCTATTTTGAGCATGTTCAGTATATTCAGTAGAGATT
66 AATAGACATTGCTATTTTGAGCACGTTCAGTAAATTCAGTAGAGATT
* * *
4758022 GCTCATTTGAGCCCATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATC
1 GCTCGTTTGAACCCATTCAGTACAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATC
* * *
4758087 AATAGACATTTCTCTTTTGAGCACGTTCAGTAAATTCAGTAGATATT
66 AATAGACATTGCTATTTTGAGCACGTTCAGTAAATTCAGTAGAGATT
* * *
4758134 GCTCGTTTGAACACATTCAGTACAATCAGTAGACATTGCTCGTTT
1 GCTCGTTTGAACCCATTCAGTACAATCAGTGGATATTGCTCGTTT
4758179 AAGCTCATTC
Statistics
Matches: 137, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
112 137 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (112 bp):
GCTCGTTTGAACCCATTCAGTACAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATC
AATAGACATTGCTATTTTGAGCACGTTCAGTAAATTCAGTAGAGATT
Found at i:4758126 original size:75 final size:74
Alignment explanation
Indices: 4757872--4758193 Score: 288
Period size: 75 Copynumber: 4.3 Consensus size: 74
4757862 GTGGATAATA
* * * * * * * * * *
4757872 CTCATTTGAGCATGCATTCCGTACAATCAGTGGATATCGCTCGTTTGAACCCATTCAGCAGAACC
1 CTCATTTGAGCA--CATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTATAATC
* * *
4757937 AGTGGATATCG
64 AGTAGACATTG
* * * ** *
4757948 CTTATTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTATTTTGAGCA-TGTTCAGTATATTC
1 CTCATTTGAGC-ACATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACT-TTCAGTATAATC
*
4758012 AGTAGAGATTG
64 AGTAGACATTG
* *
4758023 CTCATTTGAGCCCATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATCA
1 CTCATTTGAGCACATTCAGTATAATCAGTAGATATTGCTCGTTTGAGC-ACTTTCAGTATAATCA
* *
4758088 ATAGACATTT
65 GTAGACATTG
* * * * *
4758098 CTCTTTTGAGCACGTTCAGTA-AATTCAGTAGATATTGCTCGTTTGAACACATTCAGTACAATCA
1 CTCATTTGAGCACATTCAGTATAA-TCAGTAGATATTGCTCGTTTGAGCACTTTCAGTATAATCA
4758162 GTAGACATTG
65 GTAGACATTG
* * *
4758172 CTCGTTTAAGCTCATTCAGTAT
1 CTCATTTGAGCACATTCAGTAT
4758194 TCCATTTTTC
Statistics
Matches: 197, Mismatches: 43, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
74 72 0.37
75 113 0.57
76 11 0.06
77 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (74 bp):
CTCATTTGAGCACATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTATAATCAG
TAGACATTG
Found at i:4764636 original size:13 final size:13
Alignment explanation
Indices: 4764618--4764648 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4764608 ATTTCTTACT
4764618 TTCAAATTGATAA
1 TTCAAATTGATAA
4764631 TTCAAATTGATAA
1 TTCAAATTGATAA
4764644 -TCAAA
1 TTCAAA
4764649 CTGTTTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (13 bp):
TTCAAATTGATAA
Found at i:4764762 original size:15 final size:15
Alignment explanation
Indices: 4764742--4764771 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4764732 GAAAAAACTC
4764742 TAAATTGCATAAAGT
1 TAAATTGCATAAAGT
4764757 TAAATTGCATAAAGT
1 TAAATTGCATAAAGT
4764772 GCAAACTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (15 bp):
TAAATTGCATAAAGT
Found at i:4765479 original size:2 final size:2
Alignment explanation
Indices: 4765472--4765500 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4765462 GGTTGAATTA
4765472 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 A
4765501 AAGAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4766448 original size:35 final size:35
Alignment explanation
Indices: 4766399--4766468 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
4766389 TAAACTTGTA
* *
4766399 TCATCATAGTAAATAACCCTAGATCTCCCTGGTCC
1 TCATCATAGCAAATAACCCTAGATCTCCCAGGTCC
*
4766434 TCATCATAGCAAATAACCCTAGATTTCCCAGGTCC
1 TCATCATAGCAAATAACCCTAGATCTCCCAGGTCC
4766469 CGACTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.11, T:0.27
Consensus pattern (35 bp):
TCATCATAGCAAATAACCCTAGATCTCCCAGGTCC
Found at i:4778501 original size:113 final size:113
Alignment explanation
Indices: 4778298--4778522 Score: 387
Period size: 113 Copynumber: 2.0 Consensus size: 113
4778288 TATAAAAATT
* * *
4778298 AGATTGGATTAAGGTGAGCAAAACCCTTCTTCAATATCGTCCTTAGCTTCCACTAGTGTAAACCA
1 AGATTGGATTAAGGTGAGCAAAACCCTTCTTCAATATCGTCCTTAGCTCCCACCAATGTAAACCA
* * *
4778363 TGAGTGGGTAAGATCGTTTAAGTTGGTCAGTACTTGTGATGATTGATC
66 TGAGTGAGTAAGATCGTTTAAGTTGGTCAATACTTGTAATGATTGATC
4778411 AGATTGGATTAAGGTGAGCAAAACCCTTCTTCAATATCGTCCTTAGCTCCCACCAATGTAAACCA
1 AGATTGGATTAAGGTGAGCAAAACCCTTCTTCAATATCGTCCTTAGCTCCCACCAATGTAAACCA
*
4778476 TGAGTGAGTAAGATCGTTTAGGTTGGTCAATACTTGTAATGATTGAT
66 TGAGTGAGTAAGATCGTTTAAGTTGGTCAATACTTGTAATGATTGAT
4778523 TGTGATGTTA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 105 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (113 bp):
AGATTGGATTAAGGTGAGCAAAACCCTTCTTCAATATCGTCCTTAGCTCCCACCAATGTAAACCA
TGAGTGAGTAAGATCGTTTAAGTTGGTCAATACTTGTAATGATTGATC
Found at i:4779318 original size:19 final size:18
Alignment explanation
Indices: 4779259--4779345 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 18
4779249 TATAAACTTA
* *
4779259 TAAATATTATAAAAAAATC
1 TAAAAATTAT-AAAAAATT
*
4779278 TAATTAAA-TATAACAAATTT
1 TAA--AAATTATAA-AAAATT
4779298 TAACAAATTATAAAAAATT
1 TAA-AAATTATAAAAAATT
4779317 TATAAAATTAATAAAAAATAT
1 TA-AAAATT-ATAAAAAAT-T
*
4779338 TTAAAATT
1 TAAAAATT
4779346 TTATTAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
19 20 0.36
20 31 0.56
21 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAATTATAAAAAATT
Found at i:4779323 original size:10 final size:10
Alignment explanation
Indices: 4779286--4779433 Score: 51
Period size: 10 Copynumber: 14.8 Consensus size: 10
4779276 TCTAATTAAA
4779286 TATAACAAATT
1 TATAA-AAATT
4779297 T-TAACAAA-T
1 TATAA-AAATT
4779306 TATAAAAAATT
1 TAT-AAAAATT
4779317 TAT-AAAATT
1 TATAAAAATT
*
4779326 AATAAAAAATAT
1 TAT-AAAAAT-T
*
4779338 T-TAAAATTT
1 TATAAAAATT
* *
4779347 TATTAAAATG
1 TATAAAAATT
*
4779357 TATACAAATT
1 TATAAAAATT
**
4779367 CT-TAAAAGCT
1 -TATAAAAATT
*
4779377 TATAAAAAAT
1 TATAAAAATT
*
4779387 CATTAAAAATAT
1 TA-TAAAAAT-T
4779399 T-T--AAATT
1 TATAAAAATT
* * *
4779406 GACATAAATT
1 TATAAAAATT
*
4779416 TATAAAAAAT
1 TATAAAAATT
4779426 TATAAAAA
1 TATAAAAA
4779434 CTTAAATTGT
Statistics
Matches: 100, Mismatches: 23, Indels: 29
0.66 0.15 0.19
Matches are distributed among these distances:
7 1 0.01
8 4 0.04
9 13 0.13
10 60 0.60
11 20 0.20
12 2 0.02
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (10 bp):
TATAAAAATT
Found at i:4779330 original size:20 final size:19
Alignment explanation
Indices: 4779302--4779345 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
4779292 AAATTTTAAC
4779302 AAATTATAAAAAAT-TTATA
1 AAATTATAAAAAATATT-TA
4779321 AAATTAATAAAAAATATTTA
1 AAATT-ATAAAAAATATTTA
4779341 AAATT
1 AAATT
4779346 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 16 0.70
21 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTATAAAAAATATTTA
Found at i:4779974 original size:20 final size:20
Alignment explanation
Indices: 4779951--4780004 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
4779941 CAGTTCATGT
*
4779951 TTTTATGATTTTTTTCATAA
1 TTTTATGATTTTTTTAATAA
*
4779971 TTTTAT-ATAATTTTTAATAA
1 TTTTATGAT-TTTTTTAATAA
4779991 TTTTATGATTTTTT
1 TTTTATGATTTTTT
4780005 ATATGTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATGATTTTTTTAATAA
Found at i:4780138 original size:43 final size:42
Alignment explanation
Indices: 4780050--4780146 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 42
4780040 ATTCTATTAA
* * *
4780050 TTTTATAATTTTTTAAAATTTATTTTTATAATATTTATAAGT
1 TTTTATAATTTATTAAAATTTAATTTTATAATATTTACAAGT
*
4780092 TTTTATTAATTTATTAAAATTCTTAATTTT-TAATAGTTT-CAATT
1 TTTTA-TAATTTATTAAAA-T-TTAATTTTATAATA-TTTACAAGT
*
4780136 TTTTATGATTT
1 TTTTATAATTT
4780147 TTTTAATCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
42 5 0.11
43 17 0.37
44 14 0.30
45 10 0.22
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (42 bp):
TTTTATAATTTATTAAAATTTAATTTTATAATATTTACAAGT
Found at i:4780141 original size:44 final size:43
Alignment explanation
Indices: 4780050--4780141 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 43
4780040 ATTCTATTAA
* * *
4780050 TTTTA-TAATTTTTTAAAATTTATTTTTATAATATTTATAAGT
1 TTTTATTAATTTATTAAAATTTAATTTTATAATATTTACAAGT
*
4780092 TTTTATTAATTTATTAAAATTCTTAATTTT-TAATAGTTT-CAATT
1 TTTTATTAATTTATTAAAA-T-TTAATTTTATAATA-TTTACAAGT
4780136 TTTTAT
1 TTTTAT
4780142 GATTTTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
42 5 0.12
43 12 0.29
44 15 0.36
45 10 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (43 bp):
TTTTATTAATTTATTAAAATTTAATTTTATAATATTTACAAGT
Found at i:4782723 original size:53 final size:53
Alignment explanation
Indices: 4782643--4782747 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
4782633 TAATAGCTAG
4782643 TTTACAAACCACATTCATATGCCATCAAAGGCCAAGTTACCTATACATGCCAA
1 TTTACAAACCACATTCATATGCCATCAAAGGCCAAGTTACCTATACATGCCAA
*
4782696 TTTACAAACTACATTCATATGCCATCAAAGGCCAAGTTACCTATACATGCCA
1 TTTACAAACCACATTCATATGCCATCAAAGGCCAAGTTACCTATACATGCCA
4782748 TTATACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.37, C:0.28, G:0.10, T:0.26
Consensus pattern (53 bp):
TTTACAAACCACATTCATATGCCATCAAAGGCCAAGTTACCTATACATGCCAA
Found at i:4783785 original size:88 final size:88
Alignment explanation
Indices: 4783636--4783821 Score: 372
Period size: 88 Copynumber: 2.1 Consensus size: 88
4783626 GTAGAATCAT
4783636 ATTTCATGTACAGGAAATCACATGTATCTATCGATTTTCATTATTCCAACAGAATTTACAATTTA
1 ATTTCATGTACAGGAAATCACATGTATCTATCGATTTTCATTATTCCAACAGAATTTACAATTTA
4783701 ATGACTTTTGCAATCATGTAACC
66 ATGACTTTTGCAATCATGTAACC
4783724 ATTTCATGTACAGGAAATCACATGTATCTATCGATTTTCATTATTCCAACAGAATTTACAATTTA
1 ATTTCATGTACAGGAAATCACATGTATCTATCGATTTTCATTATTCCAACAGAATTTACAATTTA
4783789 ATGACTTTTGCAATCATGTAACC
66 ATGACTTTTGCAATCATGTAACC
4783812 ATTTCATGTA
1 ATTTCATGTA
4783822 TTTATAACAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 98 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (88 bp):
ATTTCATGTACAGGAAATCACATGTATCTATCGATTTTCATTATTCCAACAGAATTTACAATTTA
ATGACTTTTGCAATCATGTAACC
Found at i:4792067 original size:19 final size:19
Alignment explanation
Indices: 4792026--4792067 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
4792016 TAGAAAATTC
*
4792026 TATTTTATTTTTATTTATT
1 TATTTTATTTTTATTTATA
4792045 TATTTTATTTTTGATTT-TA
1 TATTTTATTTTT-ATTTATA
4792064 TATT
1 TATT
4792068 AAATTAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTTATTTTTATTTATA
Found at i:4794885 original size:25 final size:26
Alignment explanation
Indices: 4794857--4794915 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
4794847 CATGTAAACA
**
4794857 GGAAGCTCATT-CAAGCCGTATATCG
1 GGAAGCTCATTGCAAGCCAAATATCG
4794882 GGAAGCTC-TTGCAAGCCAAATATCG
1 GGAAGCTCATTGCAAGCCAAATATCG
4794907 GGAAGCTCA
1 GGAAGCTCA
4794916 AGAGAACTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (26 bp):
GGAAGCTCATTGCAAGCCAAATATCG
Found at i:4806399 original size:17 final size:19
Alignment explanation
Indices: 4806372--4806407 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
4806362 CTCGACCAAT
4806372 TGGGCCGTGTGGGT-CACA
1 TGGGCCGTGTGGGTACACA
4806390 TGGG-CGTGTGGGTACACA
1 TGGGCCGTGTGGGTACACA
4806408 CGAGTGAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.14, C:0.19, G:0.44, T:0.22
Consensus pattern (19 bp):
TGGGCCGTGTGGGTACACA
Found at i:4809116 original size:4 final size:4
Alignment explanation
Indices: 4809109--4809143 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
4809099 TTACTATATA
4809109 TATT TA-T T-TT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
4809144 TTATCTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 4 0.14
4 25 0.86
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TATT
Found at i:4821240 original size:7 final size:7
Alignment explanation
Indices: 4821228--4821252 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4821218 TTATTATTAA
4821228 AAAATTT
1 AAAATTT
4821235 AAAATTT
1 AAAATTT
4821242 AAAATTT
1 AAAATTT
4821249 AAAA
1 AAAA
4821253 CCATTTATTT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:4823978 original size:60 final size:60
Alignment explanation
Indices: 4823868--4823995 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 60
4823858 TTTGTTGGAG
* *
4823868 TTTTATTTTTTTTAAAGTTAGACCCTTAACTTGATAATTATTCTCACATTG-GGATTTAAAC
1 TTTT-TTTTTTTTAAAGTTACACCCTTAACTTGACAATTATTCTCACATTGAGG-TTTAAAC
** * *
4823929 TTTTTTTTTGTTTAAA-TTACA-CCTTAAACTTGACAATTATTCTTTCATTGAGGTTTGAGC
1 TTTTTTTTT-TTTAAAGTTACACCCTT-AACTTGACAATTATTCTCACATTGAGGTTTAAAC
4823989 TTTTTTT
1 TTTTTTT
4823996 ATCCAAGGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
59 4 0.07
60 42 0.72
61 12 0.21
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (60 bp):
TTTTTTTTTTTTAAAGTTACACCCTTAACTTGACAATTATTCTCACATTGAGGTTTAAAC
Found at i:4827639 original size:22 final size:24
Alignment explanation
Indices: 4827587--4827641 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 24
4827577 ATTTTTATGA
4827587 TTAAATTATTGTTATTAAATATACT
1 TTAAATTATTGTTATT-AATATACT
*
4827612 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATAC-T
4827634 TTAAATTA
1 TTAAATTA
4827642 AATTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 12 0.44
24 4 0.15
25 10 0.37
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATACT
Found at i:4827724 original size:5 final size:5
Alignment explanation
Indices: 4827714--4827784 Score: 142
Period size: 5 Copynumber: 14.2 Consensus size: 5
4827704 TGATACAATG
4827714 TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT
1 TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT
4827764 TGTAT TGTAT TGTAT TGTAT T
1 TGTAT TGTAT TGTAT TGTAT T
4827785 TAAAATAGCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 66 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.61
Consensus pattern (5 bp):
TGTAT
Found at i:4837496 original size:22 final size:22
Alignment explanation
Indices: 4837454--4837496 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4837444 TAAAGTATAT
* *
4837454 TATTTTCATTCATCCATTATTG
1 TATTTTCATGCATACATTATTG
4837476 TATTTT-ATGCATACATATATT
1 TATTTTCATGCATACAT-TATT
4837497 ATCCCATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (22 bp):
TATTTTCATGCATACATTATTG
Found at i:4837855 original size:131 final size:131
Alignment explanation
Indices: 4837648--4838124 Score: 625
Period size: 131 Copynumber: 3.6 Consensus size: 131
4837638 AAGGCGATAC
* *
4837648 TCGATGTTTGGCAATTC-AGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTC-CTGTTTGTTCA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTC-GTTTGTTCA
* * * * * * **
4837711 AAACAATCGAATATTCCTATGGAATTTCACTCATGTCTTTAAAAATTATTTAAAATGAAGGTGAT
65 AAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTAAAAACTCTTTAAAACGAAGGAAAT
4837776 GT
130 GT
* * * *
4837778 TCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAA
* * * *
4837843 AATAATCTAATATTCATTTAGAATTTCATTCATGTTTTCTAAAAACTCTTTAAAACGAAGGAAAT
66 AATAATCGAATATTCCTTTAGAATTTCACTCATGTCTT-TAAAAACTCTTTAAAACGAAGGAAAT
4837908 GT
130 GT
* * * *
4837910 TCGATGTTTGACAATTCGGGGAGTCGTGCCCTATCGTGCTGGATTACAATTTCTCGTTTGTTCAA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAA
* * * * *
4837975 AATAATCGAATATCCCTTTAGAATTTCGCTCATGTCTTTAAAAACTCTTTAAAGCGAAGGCAATA
66 AATAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTAAAAACTCTTTAAAACGAAGGAAATG
4838040 T
131 T
* * * * *
4838041 TCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAA
1 TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAA
*
4838106 AATAATCAAATATTCCTTT
66 AATAATCGAATATTCCTTT
4838125 GAAATTTTAC
Statistics
Matches: 300, Mismatches: 44, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
130 16 0.05
131 171 0.57
132 113 0.38
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAA
AATAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTAAAAACTCTTTAAAACGAAGGAAATG
T
Found at i:4838144 original size:263 final size:262
Alignment explanation
Indices: 4837648--4838147 Score: 671
Period size: 263 Copynumber: 1.9 Consensus size: 262
4837638 AAGGCGATAC
* * * *
4837648 TCGATGTTTGGCAATTCAGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCTGTTTGTTCAAA
1 TCGATGTTTGACAATTCAGGAATCGTGCCCTATCGTGCTGGATTACAATTTCCTGTTTGTTCAAA
* * * * ** *
4837713 ACAATCGAATATTCCTATGGAATTTCACTCATGTCTTTAAAAATTATTTAAAATGAAGGTGATGT
66 ACAATCGAATATCCCTATAGAATTTCACTCATGTCTTTAAAAACTATTTAAAACGAAGGCAATAT
* * *
4837778 TCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAA
131 TCGATATTTGGAAATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCAA
* *
4837843 AATAATCTAATATTCATTTAGAATTTCATTCATGTTTTCTAAAAACTCTTTAAAACGAAGGAAAT
196 AATAATCAAATATTCATTTAGAATTTCACTCATGTTTTCTAAAAACTCTTTAAAACGAAGGAAAT
4837908 GT
261 GT
* *
4837910 TCGATGTTTGACAATTCGGGGAGTCGTGCCCTATCGTGCTGGATTACAATTT-CTCGTTTGTTCA
1 TCGATGTTTGACAATTC-AGGAATCGTGCCCTATCGTGCTGGATTACAATTTCCT-GTTTGTTCA
* * * * *
4837974 AAATAATCGAATATCCCTTTAGAATTTCGCTCATGTCTTTAAAAACTCTTTAAAGCGAAGGCAAT
64 AAACAATCGAATATCCCTATAGAATTTCACTCATGTCTTTAAAAACTATTTAAAACGAAGGCAAT
* * * * * *
4838039 ATTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTC
129 ATTCGATATTTGGAAATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTC
* * *
4838104 AAAATAATCAAATATTCCTTT-GAAATTTTACTCGTGTTTTCTAA
194 AAAATAATCAAATATTCATTTAG-AATTTCACTCATGTTTTCTAA
4838148 GGCGAGGCAA
Statistics
Matches: 203, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
262 19 0.09
263 184 0.91
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (262 bp):
TCGATGTTTGACAATTCAGGAATCGTGCCCTATCGTGCTGGATTACAATTTCCTGTTTGTTCAAA
ACAATCGAATATCCCTATAGAATTTCACTCATGTCTTTAAAAACTATTTAAAACGAAGGCAATAT
TCGATATTTGGAAATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCCCGTTTGCTCAA
AATAATCAAATATTCATTTAGAATTTCACTCATGTTTTCTAAAAACTCTTTAAAACGAAGGAAAT
GT
Found at i:4848474 original size:3 final size:3
Alignment explanation
Indices: 4848466--4848513 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
4848456 TCAACATTGT
4848466 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4848514 AACCTTCTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4850446 original size:12 final size:12
Alignment explanation
Indices: 4850429--4850453 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4850419 GGTGTTCATT
4850429 CGGTTAACCGAC
1 CGGTTAACCGAC
4850441 CGGTTAACCGAC
1 CGGTTAACCGAC
4850453 C
1 C
4850454 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:4850628 original size:9 final size:9
Alignment explanation
Indices: 4850614--4850674 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
4850604 TTTGGTTAAA
4850614 AATTACCCG
1 AATTACCCG
4850623 AATTACCCG
1 AATTACCCG
4850632 AATTACCCG
1 AATTACCCG
*
4850641 AATTAACCG
1 AATTACCCG
*
4850650 AATTAACCG
1 AATTACCCG
*
4850659 AATTAACCG
1 AATTACCCG
4850668 AATTACC
1 AATTACC
4850675 GAAAAATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:4855236 original size:2 final size:2
Alignment explanation
Indices: 4855229--4855287 Score: 86
Period size: 2 Copynumber: 30.5 Consensus size: 2
4855219 TCACTCAATC
4855229 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
4855270 TA TA T- TT TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
4855288 GTTATCACTC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4859653 original size:21 final size:22
Alignment explanation
Indices: 4859602--4859654 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
4859592 GACACATATG
4859602 CATGGTATAT-ATAAAAATGTA
1 CATGGTATATAATAAAAATGTA
*
4859623 CA-AGTAATATAATAAAAAT-TA
1 CATGGT-ATATAATAAAAATGTA
4859644 CATGGTATATA
1 CATGGTATATA
4859655 TACATGTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 15 0.56
22 10 0.37
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (22 bp):
CATGGTATATAATAAAAATGTA
Found at i:4859655 original size:23 final size:23
Alignment explanation
Indices: 4859607--4859656 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
4859597 ATATGCATGG
4859607 TATAT-ATAAAAATGTACAAGTA
1 TATATAATAAAAATGTACAAGTA
*
4859629 -ATATAATAAAAAT-TACATGGTA
1 TATATAATAAAAATGTACA-AGTA
4859651 TATATA
1 TATATA
4859657 CATGTTAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (23 bp):
TATATAATAAAAATGTACAAGTA
Found at i:4861985 original size:42 final size:42
Alignment explanation
Indices: 4861874--4862001 Score: 204
Period size: 42 Copynumber: 3.1 Consensus size: 42
4861864 AGACACGTGA
*
4861874 CTTCAATCAATTCCACTGAAACTTCAAGGAGATCTGTTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGTTGTAG
* * *
4861916 CTTCGCTTAA-TCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGTTGTAG
*
4861957 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGTTGTGG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGTTGTAG
4861999 CTT
1 CTT
4862002 TTAGCTTCTC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 38 0.49
42 39 0.51
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (42 bp):
CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGTTGTAG
Found at i:4862151 original size:42 final size:44
Alignment explanation
Indices: 4862044--4862163 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 44
4862034 TATTTGATTT
* * *
4862044 TCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCA
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAACA
** * * *
4862088 TTGATCTGTTTCCCTACTGCTTAGGGGTTT-A-GATCTGTAAAC-
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCT-TGTAAACA
4862130 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
4862164 TTTGAAAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.46
43 7 0.11
44 26 0.43
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (44 bp):
TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAACA
Found at i:4862696 original size:44 final size:43
Alignment explanation
Indices: 4862646--4862732 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
4862636 GGGAGACGAA
* *
4862646 ATCTGTAATTTTCAGCCTATGACCCTACTGCTTAGGGGGTTAAG
1 ATCTGTAAATTT-AACCTATGACCCTACTGCTTAGGGGGTTAAG
* * * *
4862690 ATCTGTAAATTTAACCTGTTACCCTACTGCTTATGGGTTTAAG
1 ATCTGTAAATTTAACCTATGACCCTACTGCTTAGGGGGTTAAG
4862733 GCTTGGCGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 26 0.70
44 11 0.30
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (43 bp):
ATCTGTAAATTTAACCTATGACCCTACTGCTTAGGGGGTTAAG
Found at i:4869146 original size:21 final size:22
Alignment explanation
Indices: 4869095--4869147 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
4869085 GACACATATG
4869095 CATGGTATAT-ATAAAAATGTA
1 CATGGTATATAATAAAAATGTA
* *
4869116 TA-AGTAATATAATAAAAAT-TA
1 CATGGT-ATATAATAAAAATGTA
4869137 CATGGTATATA
1 CATGGTATATA
4869148 TACATGTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
20 2 0.08
21 13 0.52
22 10 0.40
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (22 bp):
CATGGTATATAATAAAAATGTA
Found at i:4869988 original size:22 final size:20
Alignment explanation
Indices: 4869963--4870005 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4869953 TATTAATCTA
4869963 AAAAAAATGCCTAAATAATAAT
1 AAAAAAATG-CTAAA-AATAAT
*
4869985 -AAAATATGCTAAAAATAAT
1 AAAAAAATGCTAAAAATAAT
4870004 AA
1 AA
4870006 TACAAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
19 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAAAATGCTAAAAATAAT
Found at i:4875797 original size:728 final size:728
Alignment explanation
Indices: 4873809--4878176 Score: 8407
Period size: 728 Copynumber: 6.0 Consensus size: 728
4873799 ACAATCTTAT
*
4873809 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAAAC
1 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
4873874 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
66 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
*
4873939 AAAAAACATACCTGGAATTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
131 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
4874004 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
196 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
*
4874069 CTGATCATTAAAAATATTTAATCCAGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
261 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
4874134 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
326 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
* *
4874199 CTGCACAGTCACGTTCCTTCTAACACAATTCGAACAATTTTTCGGCTTTTTAAACATAATTCAGG
391 CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
4874264 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
456 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
*
4874329 AGAACACAATTCTAGCAGTAAAATAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
521 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
4874394 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
586 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
*
4874459 CCGTTTAATCTCTGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
651 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
4874524 TGCTTCGATTTTA
716 TGCTTCGATTTTA
*
4874537 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGCGGAATTGAAAATTTTGAGCAAAAACC
1 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
* *
4874602 CAAAAAGAAAATTTGATTTACTGGCAACCTCAAGGACAATTAGCATTGAATATAGAAGGGATT--
66 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
4874665 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
131 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
4874730 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
196 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
4874795 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
261 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
4874860 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
326 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
4874925 CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
391 CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
4874990 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
456 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
4875055 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
521 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
*
4875120 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGACT
586 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
*
4875185 CCATTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
651 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
4875250 TGCTTCGATTTTA
716 TGCTTCGATTTTA
* *
4875263 GCTAATACTTCTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTAAGCAAAAACC
1 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
*
4875328 CAAAAAGAAAATTTGATTTACTTGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
66 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
* * *
4875393 AAAAAACATACCTGGATTTGGATGAGATTAACCAGCGGCAGGACGAAGACAGTTGAAGGTTAGAG
131 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
4875458 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
196 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
4875523 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
261 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
*
4875588 TATAACACTAGAACGCATTTTCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
326 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
* *
4875653 CTGCACAGTCACGTTCCTGCTAACACAATTCAAACAATTTTTCGGCTTCTTAAACATAATTCAGA
391 CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
*
4875718 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACTTGTATACAGTTCAC
456 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
4875783 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
521 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
4875848 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
586 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
4875913 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
651 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
4875978 TGCTTCGATTTTA
716 TGCTTCGATTTTA
4875991 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
1 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
4876056 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
66 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
*
4876121 AAAAAACATACCAGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
131 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
4876186 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
196 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
4876251 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
261 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
*
4876316 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCG
326 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
4876381 CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
391 CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
4876446 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
456 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
4876511 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
521 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
4876576 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
586 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
4876641 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
651 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
4876706 TGCTTCGATTTTA
716 TGCTTCGATTTTA
4876719 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
1 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
*
4876784 CAAAAAGAAAATTTGATTTACTGGCAACCTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
66 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
4876849 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
131 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
*
4876914 CGGAGAAAGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
196 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
4876979 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
261 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
* *
4877044 TATAACACTAGAACGCATTTCCCATGATTAAGTTATGAGATAACAATATAGAATTCCCCATACCA
326 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
*
4877109 CTGCACAGTCACGTTCCTACTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
391 CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
4877174 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
456 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
4877239 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
521 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
4877304 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
586 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
4877369 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
651 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
4877434 TGCTTCGATTTTA
716 TGCTTCGATTTTA
4877447 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
1 GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
4877512 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
66 CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
4877577 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
131 AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
*
4877642 CGGAGAAGGAGACAAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
196 CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
4877707 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
261 CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
*
4877772 TATAACACTAGAACGCATTTCCCAAGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
326 TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
* * * *
4877837 CTGCACAGTCACGTTCCTGCTAACACAACTCGAAAAATTTTTTGGCTTCTTAAACATAATTTAGG
391 CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
4877902 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
456 ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
4877967 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
521 AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
4878032 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
586 GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
4878097 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
651 CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
4878162 TGCTTCGATTTTA
716 TGCTTCGATTTTA
4878175 GC
1 GC
4878177 CAAGGAAATG
Statistics
Matches: 3582, Mismatches: 56, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
726 712 0.20
728 2870 0.80
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (728 bp):
GCTAATACTACTAAAGCAGAATATATTGTAAACAGAAGAGGAATTGAAAATTTTGAGCAAAAACC
CAAAAAGAAAATTTGATTTACTGGCAACTTCAAGGACAAGTAGCATTGAATATAGAAGGGATTGA
AAAAAACATACCTGGATTTGGATGAGATTGACCAGCGGCAGGACGGAGACAGTTGAAGGTTGGAG
CGGAGAAGGAGACGAAAGTAGTGAGCGGAACAACGAAACCTAGGAATTTTTGGTGAAAATAGAAA
CTGATCATTAAAAATATTTAATCCCGGGCTAAAAAATGCTTACATAAGAGTTTAGTAGAACAATT
TATAACACTAGAACGCATTTCCCAGGATTAAGTTATGAGATAACAATATAGAATTCCCCGTACCA
CTGCACAGTCACGTTCCTGCTAACACAATTCGAACAATTTTTCGGCTTCTTAAACATAATTCAGG
ATCACATTAGATTGAGTATCCCCACTATAGATAATCTCAATACAGTACACATGTATACAGTTCAC
AGAACACAATTCTAGCAGTAAAACAGAAAGAAAAACTTAAACACCCTCGTAATTCCTCCTTTTTG
GCCGACCATCTCTATCTCACCACCATTCAGCCACGGCAATTGACTTCCGGTGATGAGAAGAGGCT
CCGTTTAATCTCCGTTTAAGGCCAAGCCCGAAGGTCTCGGTGCTCACCACCCCAAAGCCACTCTT
TGCTTCGATTTTA
Found at i:4879092 original size:21 final size:22
Alignment explanation
Indices: 4879061--4879101 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4879051 TTTACATTTT
*
4879061 TTAAAGTTAAAAGTCAAAACCA
1 TTAAAGTTAAAAGACAAAACCA
4879083 TTAAA-TTAAAAGACAAAAC
1 TTAAAGTTAAAAGACAAAAC
4879102 TATTTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.59, C:0.12, G:0.07, T:0.22
Consensus pattern (22 bp):
TTAAAGTTAAAAGACAAAACCA
Found at i:4880196 original size:21 final size:21
Alignment explanation
Indices: 4880170--4880231 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
4880160 CGAAAGATAA
*
4880170 GTCACACGGTCGTGTTGCTAG
1 GTCACACGGCCGTGTTGCTAG
* * * *
4880191 GTCACATGACCATGTTG-TTG
1 GTCACACGGCCGTGTTGCTAG
*
4880211 GTCACACGGCCGTGTCGCTAG
1 GTCACACGGCCGTGTTGCTAG
4880232 CCTGTGTAAC
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.16, C:0.26, G:0.31, T:0.27
Consensus pattern (21 bp):
GTCACACGGCCGTGTTGCTAG
Found at i:4883323 original size:44 final size:45
Alignment explanation
Indices: 4883235--4883323 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 45
4883225 AGAACAGAAA
4883235 TGAGCCATGTAAGTCCATATTAGAAATATGGATTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGATTTGGAGACAGGAT
*
4883281 TGAGCCATGTAAGTCCATATT-ATATATGGCA-TTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGG-ATTTGGAGACAGGA
4883324 ATAATTCATG
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 19 0.46
45 1 0.02
46 21 0.51
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGATTTGGAGACAGGAT
Found at i:4883334 original size:44 final size:45
Alignment explanation
Indices: 4883228--4883339 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 45
4883218 ACAGGACAGA
* *
4883228 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGATTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGATTTGGAG
* * *
4883274 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCA-TTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGG-ATTTGGAG
**
4883318 ACAGGAATAATTCATGTAAGTC
1 ACAGGAATAAGCCATGTAAGTC
4883340 TATGTCAAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 31 0.53
45 1 0.02
46 26 0.45
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGATTTGGAG
Found at i:4886580 original size:230 final size:230
Alignment explanation
Indices: 4886177--4886635 Score: 900
Period size: 230 Copynumber: 2.0 Consensus size: 230
4886167 TACTAGTACT
4886177 TGTATTTTATGAAAATTGCGAATTTAGTTCCAATACTGTAAATTGGGTTGGGTTTATAAATTATA
1 TGTATTTTATGAAAATTGCGAATTTAGTTCCAATACTGTAAATTGGGTTGGGTTTATAAATTATA
4886242 CTAAATTAGGTTTATAGTGGGTAGGACTTAGGAGTGCTGGGGTAAGCCGCTGGTTAGGGATTAGA
66 CTAAATTAGGTTTATAGTGGGTAGGACTTAGGAGTGCTGGGGTAAGCCGCTGGTTAGGGATTAGA
4886307 TGGGCAGTAGGCTAAGCATAATACATATAATATATGATATTAGTTATTAAGTTCGATTAATTTGG
131 TGGGCAGTAGGCTAAGCATAATACATATAATATATGATATTAGTTATTAAGTTCGATTAATTTGG
4886372 TTAATTGCTCGCTTTCGAGCCAAATTAACCAATAC
196 TTAATTGCTCGCTTTCGAGCCAAATTAACCAATAC
*
4886407 TGTATTTTATGAAAATTGCGGATTTAGTTCCAATACTGTAAATTGGGTTGGGTTTATAAATTATA
1 TGTATTTTATGAAAATTGCGAATTTAGTTCCAATACTGTAAATTGGGTTGGGTTTATAAATTATA
*
4886472 CTAAATTAGGTTTATAGTGGGTAGGACTTAGGAGTGCTGGGGTAAGCCGCTGGTTAGGGATTAGG
66 CTAAATTAGGTTTATAGTGGGTAGGACTTAGGAGTGCTGGGGTAAGCCGCTGGTTAGGGATTAGA
4886537 TGGGCAGTAGGCTAAGCATAATACATATAATATATGATATTAGTTATTAAGTTCGATTAATTTGG
131 TGGGCAGTAGGCTAAGCATAATACATATAATATATGATATTAGTTATTAAGTTCGATTAATTTGG
4886602 TTAATTGCTCGCTTTCGAGCCAAATTAACCAATA
196 TTAATTGCTCGCTTTCGAGCCAAATTAACCAATA
4886636 ACTGAACTTT
Statistics
Matches: 227, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
230 227 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.36
Consensus pattern (230 bp):
TGTATTTTATGAAAATTGCGAATTTAGTTCCAATACTGTAAATTGGGTTGGGTTTATAAATTATA
CTAAATTAGGTTTATAGTGGGTAGGACTTAGGAGTGCTGGGGTAAGCCGCTGGTTAGGGATTAGA
TGGGCAGTAGGCTAAGCATAATACATATAATATATGATATTAGTTATTAAGTTCGATTAATTTGG
TTAATTGCTCGCTTTCGAGCCAAATTAACCAATAC
Found at i:4887281 original size:22 final size:22
Alignment explanation
Indices: 4887253--4887298 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
4887243 GTTTGACCCC
4887253 CTGCCAACCCCTAGATTCGTCT
1 CTGCCAACCCCTAGATTCGTCT
*
4887275 CTGCCAACCCCTGGATTCGTCT
1 CTGCCAACCCCTAGATTCGTCT
4887297 CT
1 CT
4887299 AACCACGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.41, G:0.15, T:0.28
Consensus pattern (22 bp):
CTGCCAACCCCTAGATTCGTCT
Found at i:4900225 original size:39 final size:39
Alignment explanation
Indices: 4900171--4900298 Score: 195
Period size: 39 Copynumber: 3.3 Consensus size: 39
4900161 TGCATGGTAT
4900171 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTATGC
* *
4900210 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTATGC
* * *
4900249 TGGAAATATATCTGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTA-TGC
4900288 TGGAAAAATAT
1 TGGAAAAATAT
4900299 ATGGGCTAAG
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 2 0.02
39 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTATGC
Found at i:4900316 original size:78 final size:78
Alignment explanation
Indices: 4900171--4900320 Score: 187
Period size: 78 Copynumber: 1.9 Consensus size: 78
4900161 TGCATGGTAT
* * * * *
4900171 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTTATGCTGGAAATATATCCGGACTTGAAGTCC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATACGGACTAGAAGCCC
4900236 GCAGGCTTTATGC
66 GCAGGCTTTATGC
* * * *
4900249 TGGAAATATATCTGGACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAAATATATGGGCTAAGAA-C
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTAA-TGCTGGAAAAATATACGGACT-AGAAGC
4900312 CCGCAGGCT
64 CCGCAGGCT
4900321 CATGCTAGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 2 0.03
78 56 0.92
79 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (78 bp):
TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATACGGACTAGAAGCCC
GCAGGCTTTATGC
Found at i:4901853 original size:25 final size:22
Alignment explanation
Indices: 4901819--4901885 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 22
4901809 TGAATACATA
4901819 TGTTTTTTATATATTTTTTTATTC
1 TGTTTTTT-TAT-TTTTTTTATTC
*
4901843 TGTTTTTTTATTTTTTTTCTTC
1 TGTTTTTTTATTTTTTTTATTC
*
4901865 TTTTATTTTTTTATTTTTTTT
1 ---TGTTTTTTTATTTTTTTT
4901886 TATTTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 10 0.26
23 3 0.08
24 8 0.21
25 17 0.45
ACGTcount: A:0.10, C:0.04, G:0.03, T:0.82
Consensus pattern (22 bp):
TGTTTTTTTATTTTTTTTATTC
Found at i:4901856 original size:8 final size:8
Alignment explanation
Indices: 4901845--4901895 Score: 59
Period size: 8 Copynumber: 6.0 Consensus size: 8
4901835 TTTTATTCTG
4901845 TTTTTTTA
1 TTTTTTTA
4901853 TTTTTTT-
1 TTTTTTTA
4901860 TCTTCTTTTA
1 T-TT-TTTTA
4901870 TTTTTTTA
1 TTTTTTTA
4901878 TTTTTTTTTA
1 --TTTTTTTA
4901888 TTTTTTTA
1 TTTTTTTA
4901896 AGAACAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
7 1 0.03
8 22 0.58
9 6 0.16
10 9 0.24
ACGTcount: A:0.10, C:0.04, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTA
Found at i:4901870 original size:17 final size:18
Alignment explanation
Indices: 4901848--4901895 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
4901838 TATTCTGTTT
4901848 TTTTATTTTTTT-TCTTC
1 TTTTATTTTTTTATCTTC
* *
4901865 TTTTATTTTTTTATTTTT
1 TTTTATTTTTTTATCTTC
4901883 TTTTATTTTTTTA
1 TTTTATTTTTTTA
4901896 AGAACAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.10, C:0.04, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTATTTTTTTATCTTC
Found at i:4901881 original size:13 final size:12
Alignment explanation
Indices: 4901821--4901894 Score: 71
Period size: 12 Copynumber: 6.2 Consensus size: 12
4901811 AATACATATG
* *
4901821 TTTTTTATATAT
1 TTTTTTATTTTT
*
4901833 TTTTTTATTCTGT
1 TTTTTTATT-TTT
4901846 TTTTTTATTTTT
1 TTTTTTATTTTT
* *
4901858 TTTCTTCTTTTAT
1 TTTTTTATTTT-T
4901871 TTTTTTA--TTT
1 TTTTTTATTTTT
4901881 TTTTTTATTTTT
1 TTTTTTATTTTT
4901893 TT
1 TT
4901895 AAGAACAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 8 0.16
11 2 0.04
12 24 0.47
13 17 0.33
ACGTcount: A:0.11, C:0.04, G:0.01, T:0.84
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:4906235 original size:26 final size:26
Alignment explanation
Indices: 4906219--4906272 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
4906209 AATGAAAAGA
4906219 AAAGAAGATAAAAATAAATAAATAAAT
1 AAAGAA-ATAAAAATAAATAAATAAAT
*
4906246 AAATAAATAAAAATAAATAAATAAAT
1 AAAGAAATAAAAATAAATAAATAAAT
4906272 A
1 A
4906273 TAAACAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAGAAATAAAAATAAATAAATAAAT
Found at i:4906239 original size:4 final size:4
Alignment explanation
Indices: 4906230--4906272 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
4906220 AAGAAGATAA
4906230 AAAT AAAT AAAT AAAT AAAT AAAT -AA- AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
4906273 TAAACAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 4 0.11
4 33 0.89
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:4906251 original size:22 final size:21
Alignment explanation
Indices: 4906226--4906282 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
4906216 AGAAAAGAAG
4906226 ATAAAAATAAATAAATAAATAA
1 ATAAAAA-AAATAAATAAATAA
4906248 ATAAATAAAAATAAATAAATAA
1 ATAAA-AAAAATAAATAAATAA
*
4906270 ATATAAACAAATA
1 ATA-AAAAAAATA
4906283 TATATATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAAAAAAATAAATAAATAA
Found at i:4906259 original size:18 final size:17
Alignment explanation
Indices: 4906230--4906282 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
4906220 AAGAAGATAA
4906230 AAATAAAT-AAATAAAT
1 AAATAAATAAAATAAAT
4906246 AAATAAATAAAAATAAAT
1 AAATAAAT-AAAATAAAT
*
4906264 AAATAAATATAAACAAAT
1 AAATAAATA-AAATAAAT
4906282 A
1 A
4906283 TATATATAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 24 0.73
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAATAAAATAAAT
Found at i:4906287 original size:14 final size:14
Alignment explanation
Indices: 4906226--4906288 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
4906216 AGAAAAGAAG
*
4906226 ATAAAAATAAATAA
1 ATAAATATAAATAA
4906240 AT-AA-ATAAATAA
1 ATAAATATAAATAA
*
4906252 ATAAAAATAAATAA
1 ATAAATATAAATAA
*
4906266 ATAAATATAAACAA
1 ATAAATATAAATAA
*
4906280 ATATATATA
1 ATAAATATA
4906289 TAGTAATGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 10 0.23
13 4 0.09
14 30 0.68
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAAATATAAATAA
Found at i:4913806 original size:25 final size:25
Alignment explanation
Indices: 4913778--4913825 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4913768 AGGAAGAGCA
4913778 TGCCAAAAGGCAGACACAGAAAACG
1 TGCCAAAAGGCAGACACAGAAAACG
* *
4913803 TGCCATAAGGCAGACAGAGAAAA
1 TGCCAAAAGGCAGACACAGAAAA
4913826 TATATTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.21, G:0.25, T:0.06
Consensus pattern (25 bp):
TGCCAAAAGGCAGACACAGAAAACG
Found at i:4918833 original size:6 final size:6
Alignment explanation
Indices: 4918822--4918855 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
4918812 GATATGACGT
*
4918822 AGAAGG AGAAGG AGAAGG AGAAGG AGAGGG AGAA
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAA
4918856 TAAGAAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:4918861 original size:18 final size:18
Alignment explanation
Indices: 4918822--4918862 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4918812 GATATGACGT
*
4918822 AGAAGGAGAAGGAGAAGG
1 AGAAGGAGAAGGAGAAGA
* *
4918840 AGAAGGAGAGGGAGAATA
1 AGAAGGAGAAGGAGAAGA
4918858 AGAAG
1 AGAAG
4918863 AAGGGGAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.02
Consensus pattern (18 bp):
AGAAGGAGAAGGAGAAGA
Found at i:4918872 original size:27 final size:27
Alignment explanation
Indices: 4918834--4918898 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
4918824 AAGGAGAAGG
*
4918834 AGAAGGAGAAGGAG-AGGGAGAATAAGA
1 AGAAGGGGAAGGAGAAGGG-GAATAAGA
* *
4918861 AGAAGGGGAAGGGGAAGGGGAATAGGA
1 AGAAGGGGAAGGAGAAGGGGAATAAGA
4918888 AG-AGGAGGAAG
1 AGAAGG-GGAAG
4918899 AGGAAGAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 26 0.79
28 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.03
Consensus pattern (27 bp):
AGAAGGGGAAGGAGAAGGGGAATAAGA
Found at i:4918888 original size:6 final size:6
Alignment explanation
Indices: 4918857--4918917 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
4918847 GAGGGAGAAT
* * * * *
4918857 AAGAAG AAGGGG AAGGGG AAGGGG AATAGG AAGA-G --GAGG AAGAGG
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG
4918902 AAGAGG AAGAGG AAGA
1 AAGAGG AAGAGG AAGA
4918918 AGCACTTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
3 2 0.04
4 1 0.02
5 1 0.02
6 43 0.91
ACGTcount: A:0.48, C:0.00, G:0.51, T:0.02
Consensus pattern (6 bp):
AAGAGG
Found at i:4918898 original size:21 final size:21
Alignment explanation
Indices: 4918873--4918919 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4918863 AAGGGGAAGG
* *
4918873 GGAAGGGGAATAGGAAGAGGA
1 GGAAGAGGAAGAGGAAGAGGA
4918894 GGAAGAGGAAGAGGAAGAGGA
1 GGAAGAGGAAGAGGAAGAGGA
*
4918915 AGAAG
1 GGAAG
4918920 CACTTTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.02
Consensus pattern (21 bp):
GGAAGAGGAAGAGGAAGAGGA
Found at i:4918902 original size:15 final size:15
Alignment explanation
Indices: 4918879--4918908 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4918869 AAGGGGAAGG
*
4918879 GGAATAGGAAGAGGA
1 GGAAGAGGAAGAGGA
4918894 GGAAGAGGAAGAGGA
1 GGAAGAGGAAGAGGA
4918909 AGAGGAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (15 bp):
GGAAGAGGAAGAGGA
Found at i:4918903 original size:27 final size:26
Alignment explanation
Indices: 4918843--4918917 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 26
4918833 GAGAAGGAGA
*
4918843 AGGAGAGGGAGAATAAGAAGAAGGGGAAG
1 AGGA-AGGG-GAATAGGAAG-AGGGGAAG
*
4918872 GGGAAGGGGAATAGGAAGAGGAGGAAG
1 AGGAAGGGGAATAGGAAGAGG-GGAAG
* *
4918899 AGGAAGAGGAAGAGGAAGA
1 AGGAAGGGGAATAGGAAGA
4918918 AGCACTTTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.08
27 30 0.75
28 4 0.10
29 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.03
Consensus pattern (26 bp):
AGGAAGGGGAATAGGAAGAGGGGAAG
Found at i:4932291 original size:29 final size:29
Alignment explanation
Indices: 4932225--4932293 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
4932215 ATTTAGTTTT
* * *
4932225 ATATTTTTATAATGTTATTAATTAATTTA
1 ATATGTTTATAATGTAATTAATTAATTAA
* *
4932254 ATATTTTTATAATGTAATTAATTAGTTCAA
1 ATATGTTTATAATGTAATTAATTAATT-AA
4932284 ATA-GTTTATA
1 ATATGTTTATA
4932294 TTTTCAGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 31 0.89
30 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (29 bp):
ATATGTTTATAATGTAATTAATTAATTAA
Found at i:4936025 original size:91 final size:91
Alignment explanation
Indices: 4935870--4936044 Score: 305
Period size: 91 Copynumber: 1.9 Consensus size: 91
4935860 GAATTTTGTC
* ** * *
4935870 ATTTGATTTTTATTTTATGTAATAAATACTTAGTTTCTTGTTCTCAATTATGTGTGCTTCATTCT
1 ATTTGATTTTTATTTTACGTAATAAATACTTAGAATCTTGTTCCCAATTATGTGTGCTTAATTCT
4935935 TGGTTTAATTTTTCTAGAGCTCTGTG
66 TGGTTTAATTTTTCTAGAGCTCTGTG
4935961 ATTTGATTTTTATTTTACGTAATAAATACTTAGAATCTTGTTCCCAATTATGTGTGCTTAATTCT
1 ATTTGATTTTTATTTTACGTAATAAATACTTAGAATCTTGTTCCCAATTATGTGTGCTTAATTCT
4936026 TGGTTTAATTTTTCTAGAG
66 TGGTTTAATTTTTCTAGAG
4936045 TATTGATCCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.52
Consensus pattern (91 bp):
ATTTGATTTTTATTTTACGTAATAAATACTTAGAATCTTGTTCCCAATTATGTGTGCTTAATTCT
TGGTTTAATTTTTCTAGAGCTCTGTG
Found at i:4938528 original size:16 final size:16
Alignment explanation
Indices: 4938507--4938558 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
4938497 TTTGGTTCGC
4938507 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
4938523 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
4938539 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4938555 TGTA
1 TGTA
4938559 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4938815 original size:18 final size:17
Alignment explanation
Indices: 4938794--4938828 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4938784 TTATTATTAA
*
4938794 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4938812 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4938829 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4938882 original size:157 final size:157
Alignment explanation
Indices: 4938681--4938965 Score: 525
Period size: 157 Copynumber: 1.8 Consensus size: 157
4938671 TAGAATACCC
4938681 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
4938746 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4938811 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
4938838 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
4938903 ATATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
4938966 TAAGGAACCA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 123 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (157 bp):
TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:4938964 original size:15 final size:16
Alignment explanation
Indices: 4938931--4938965 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4938921 TTAATCATAT
*
4938931 TTAAATATAATTATTA
1 TTAAATATAATTATAA
4938947 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
4938962 TTAA
1 TTAA
4938966 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:4942213 original size:28 final size:28
Alignment explanation
Indices: 4942182--4942236 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
4942172 GCAAATCGGT
*
4942182 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
4942210 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
4942237 AGCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:4942607 original size:15 final size:16
Alignment explanation
Indices: 4942585--4942636 Score: 72
Period size: 15 Copynumber: 3.3 Consensus size: 16
4942575 AATAAATAGT
4942585 TAATAATAAAATGATA
1 TAATAATAAAATGATA
*
4942601 TAA-AATAAAATAATA
1 TAATAATAAAATGATA
4942616 -AATAATAAAAATGATA
1 TAATAAT-AAAATGATA
4942632 TAATA
1 TAATA
4942637 TATATTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 2 0.06
15 14 0.45
16 11 0.35
17 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
TAATAATAAAATGATA
Found at i:4942698 original size:14 final size:14
Alignment explanation
Indices: 4942587--4942705 Score: 57
Period size: 15 Copynumber: 8.1 Consensus size: 14
4942577 TAAATAGTTA
4942587 ATAATAAAATGATAT
1 ATAATAAAAT-ATAT
* *
4942602 AAAATAAAATAATAA
1 ATAATAAAAT-ATAT
4942617 ATAATAAAA-ATGAT
1 ATAATAAAATAT-AT
*
4942631 ATAAT-ATATATTAAT
1 ATAATAAAATA-T-AT
* * *
4942646 TTACAT-ATATAAAT
1 ATA-ATAAAATATAT
4942660 ATAATAAAATGA-ATT
1 ATAATAAAAT-ATA-T
4942675 ATAAAGTAAAATATAT
1 AT-AA-TAAAATATAT
*
4942691 ATAATAAAATTTAT
1 ATAATAAAATATAT
4942705 A
1 A
4942706 AGAAACGCAT
Statistics
Matches: 82, Mismatches: 12, Indels: 21
0.71 0.10 0.18
Matches are distributed among these distances:
13 6 0.07
14 25 0.30
15 31 0.38
16 13 0.16
17 7 0.09
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (14 bp):
ATAATAAAATATAT
Found at i:4944350 original size:43 final size:42
Alignment explanation
Indices: 4944279--4944476 Score: 292
Period size: 41 Copynumber: 4.6 Consensus size: 42
4944269 AAACTTAGGA
*
4944279 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGGCAATACAGAG
1 ACGCCAAATC--TTATCTTCGATCTGCTCTCTGACAATACAGAG
*
4944323 ACGCCAAATCTTCATCTTCAATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTT-ATCTTCGATCTGCTCTCTGACAATACAGAG
* *
4944366 ACGCCAAAT-TTGTTTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTTATCTTCGATCTGCTCTCTGACAATACAGAG
*
4944407 ACGCCAAATC-TATTTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTTATCTTCGATCTGCTCTCTGACAATACAGAG
4944448 ACGCCAAATCTGCTATCTTCGATCTGCTC
1 ACGCCAAATCT--TATCTTCGATCTGCTC
4944477 CTTGTAAACA
Statistics
Matches: 142, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
41 76 0.54
42 4 0.03
43 37 0.26
44 25 0.18
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (42 bp):
ACGCCAAATCTTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:4944774 original size:220 final size:220
Alignment explanation
Indices: 4944455--4944902 Score: 684
Period size: 220 Copynumber: 2.0 Consensus size: 220
4944445 GAGACGCCAA
* * * ** *
4944455 ATCTGCTA--TCTTCGATCTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATTTGTTTT
1 ATCTGCTATGTCTTCGATCTGCCCCTTGTAAACACAAGGATACCAAATCATCTTGGATCTACTTC
* * **
4944518 GATGCAAAAACATCTGAAGGTTAGATCTGTTATGTTTTCGATCTGCCCTCCGTTGAATATGGAGA
66 GATGCAAAAACATCCGAAGGTTAGATCTGCTATGTTTTCGATCTGCCCTCCGTCAAATATGGAGA
4944583 TGCCAAATCTGTTTCTTCAATTTGCTCTCTGACAATACAGAGATCCCAAATCATCTTGGATCTAC
131 TGCCAAATCTGTTTCTTCAATTTGCTCTCTGACAATACAGAGATCCCAAATCATCTTGGATCTAC
4944648 TTCAGCGTAAACACCTAAAGGTCAG
196 TTCAGCGTAAACACCTAAAGGTCAG
*
4944673 ATCTGTTATGTCTTCGATCTGCCCCTTGTAAACACAAGGATACCAAATCATCTTGGATCTACTTC
1 ATCTGCTATGTCTTCGATCTGCCCCTTGTAAACACAAGGATACCAAATCATCTTGGATCTACTTC
** *
4944738 GATGTGAAAACATCCGAAGGTTAGATCTGCTATGTTTTCGATCTGCTCTCCGTCAAATATGGAGA
66 GATGCAAAAACATCCGAAGGTTAGATCTGCTATGTTTTCGATCTGCCCTCCGTCAAATATGGAGA
* * * ** *
4944803 TGCCAAATCTGTTTCTTCGATTTTCTTTCTGACAATACAGAGATGTCAAATCATCTTGGATCTGC
131 TGCCAAATCTGTTTCTTCAATTTGCTCTCTGACAATACAGAGATCCCAAATCATCTTGGATCTAC
* *
4944868 TTCAGCGTAAACACCTGAGGGTCAG
196 TTCAGCGTAAACACCTAAAGGTCAG
4944893 ATCTGCTATG
1 ATCTGCTATG
4944903 CTTTGGCCTG
Statistics
Matches: 205, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
218 7 0.03
220 198 0.97
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (220 bp):
ATCTGCTATGTCTTCGATCTGCCCCTTGTAAACACAAGGATACCAAATCATCTTGGATCTACTTC
GATGCAAAAACATCCGAAGGTTAGATCTGCTATGTTTTCGATCTGCCCTCCGTCAAATATGGAGA
TGCCAAATCTGTTTCTTCAATTTGCTCTCTGACAATACAGAGATCCCAAATCATCTTGGATCTAC
TTCAGCGTAAACACCTAAAGGTCAG
Found at i:4949786 original size:15 final size:16
Alignment explanation
Indices: 4949764--4949815 Score: 72
Period size: 15 Copynumber: 3.3 Consensus size: 16
4949754 AATAAATAGT
4949764 TAATAATAAAATGATA
1 TAATAATAAAATGATA
*
4949780 TAA-AATAAAATAATA
1 TAATAATAAAATGATA
4949795 -AATAATAAAAATGATA
1 TAATAAT-AAAATGATA
4949811 TAATA
1 TAATA
4949816 TATATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 2 0.06
15 14 0.45
16 11 0.35
17 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
TAATAATAAAATGATA
Found at i:4949813 original size:26 final size:25
Alignment explanation
Indices: 4949784--4949848 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
4949774 ATGATATAAA
4949784 ATAAAATAATAAATAATAAAAATGAT
1 ATAAAATAATAAATAATAAAAAT-AT
* ** *
4949810 ATAATAT-ATATAATAATTTACATAT
1 ATAAAATAATA-AATAATAAAAATAT
4949835 ATAAATATAATAAA
1 ATAAA-ATAATAAA
4949849 ATGAATTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 9 0.29
26 19 0.61
27 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
ATAAAATAATAAATAATAAAAATAT
Found at i:4953940 original size:3 final size:3
Alignment explanation
Indices: 4953934--4953968 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
4953924 AACTATATAT
4953934 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
4953969 GAACATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4954032 original size:26 final size:24
Alignment explanation
Indices: 4953993--4954046 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
4953983 AATATTATAC
4953993 AAAATATTAAAATAATCTGATATAAA
1 AAAATATTAAAATAA--TGATATAAA
* * *
4954019 AAAATTTTACAATAATGATTTAAA
1 AAAATATTAAAATAATGATATAAA
4954043 AAAA
1 AAAA
4954047 CAAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
26 13 0.52
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
AAAATATTAAAATAATGATATAAA
Found at i:4965318 original size:22 final size:21
Alignment explanation
Indices: 4965263--4965319 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
4965253 TCTAATTTAC
*
4965263 AATTTTTATCAAATTAATTTT
1 AATTTTTATTAAATTAATTTT
*
4965284 TATTTTTAATTAAATTAAATTATT
1 AATTTTT-ATTAAATT-AATT-TT
4965308 AATTTTT-TTAAA
1 AATTTTTATTAAA
4965320 AAAAGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.20
22 12 0.40
23 4 0.13
24 8 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
AATTTTTATTAAATTAATTTT
Found at i:4966134 original size:4 final size:4
Alignment explanation
Indices: 4966125--4966150 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4966115 ATTTAAAATA
4966125 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
4966151 TCATTAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:4970119 original size:43 final size:43
Alignment explanation
Indices: 4970067--4970152 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
4970057 TTGTTATTAC
4970067 TTTAATGGAATTAGAATTG-GGTTAAGAAATTAATTTATTTAAT
1 TTTAATGGAATTAGAA-TGAGGTTAAGAAATTAATTTATTTAAT
4970110 TTTAATGGAATTAGAATGAGGTTAAGAAATTAATTTATTTAAT
1 TTTAATGGAATTAGAATGAGGTTAAGAAATTAATTTATTTAAT
4970153 CTAATTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 2 0.05
43 40 0.95
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (43 bp):
TTTAATGGAATTAGAATGAGGTTAAGAAATTAATTTATTTAAT
Found at i:4970159 original size:37 final size:40
Alignment explanation
Indices: 4970068--4970163 Score: 122
Period size: 43 Copynumber: 2.3 Consensus size: 40
4970058 TGTTATTACT
4970068 TTAATGGAATTAGAATTGGGTTAAGAAATTAATTTATTTAA
1 TTAAT-GAATTAGAATTGGGTTAAGAAATTAATTTATTTAA
4970109 TTTTAATGGAATTAGAA-TGAGGTTAAGAAATTAATTTATTTAA
1 --TTAAT-GAATTAGAATTG-GGTTAAGAAATTAATTTATTTAA
*
4970152 TCTAATTAATTA
1 T-TAATGAATTA
4970164 AATAATATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
41 6 0.12
42 6 0.12
43 38 0.76
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.43
Consensus pattern (40 bp):
TTAATGAATTAGAATTGGGTTAAGAAATTAATTTATTTAA
Found at i:4974319 original size:27 final size:27
Alignment explanation
Indices: 4974267--4974325 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
4974257 TGTTGTGTAA
* **
4974267 ATATTTTCTTCTAATTTATTTTTATAT
1 ATATTTTCTTCTAAATTATTCGTATAT
4974294 ATATTTTCTT-TAAAATTATTCGTATAT
1 ATATTTTCTTCT-AAATTATTCGTATAT
4974321 A-ATTT
1 ATATTT
4974326 GGTTCTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (27 bp):
ATATTTTCTTCTAAATTATTCGTATAT
Found at i:4974406 original size:13 final size:13
Alignment explanation
Indices: 4974388--4974412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4974378 TTTGTATATA
4974388 TATTATTTTCATT
1 TATTATTTTCATT
4974401 TATTATTTTCAT
1 TATTATTTTCAT
4974413 ATAGATATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTTTCATT
Found at i:4974658 original size:12 final size:12
Alignment explanation
Indices: 4974641--4974675 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4974631 ATGTATTACG
4974641 TTTTTTTTTCTC
1 TTTTTTTTTCTC
*
4974653 TTTTTTTTTCTT
1 TTTTTTTTTCTC
4974665 TTTTTTTTTCT
1 TTTTTTTTTCT
4974676 GATTCGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTCTC
Done.