Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 164 of 182
Found at i:50363389 original size:63 final size:61
Alignment explanation
Indices: 50363284--50363414 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 61
50363274 CAAATGTGCC
** *
50363284 AACAGAAGCTTGAAAGCTGAACAGAAGCTCATAAGAGCTGAACAGAAACTCTTAAGAGTTA
1 AACAGAAGCTTGAAAGCTGAACAGAAAATCATAAGAGCTGAACAGAAACTCGTAAGAGTTA
* * * * *
50363345 AACAGAAGCTCTTAAGAGCTGAACAGAAAATCATTAGAGTTGAACAGAAGCTCGTAAGAGTTG
1 AACAGAAGCT-TGAA-AGCTGAACAGAAAATCATAAGAGCTGAACAGAAACTCGTAAGAGTTA
50363408 AACAGAA
1 AACAGAA
50363415 AGTAAAACAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 10 0.17
62 3 0.05
63 47 0.78
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (61 bp):
AACAGAAGCTTGAAAGCTGAACAGAAAATCATAAGAGCTGAACAGAAACTCGTAAGAGTTA
Found at i:50365095 original size:18 final size:19
Alignment explanation
Indices: 50365064--50365104 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
50365054 AGGCTAACCA
50365064 TGACTGTTTCTAGCTACTT
1 TGACTGTTTCTAGCTACTT
*
50365083 TGAC-GTTTTTAGCTACTT
1 TGACTGTTTCTAGCTACTT
50365101 TGAC
1 TGAC
50365105 ACGCTAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (19 bp):
TGACTGTTTCTAGCTACTT
Found at i:50369689 original size:34 final size:31
Alignment explanation
Indices: 50369651--50369725 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 31
50369641 TTTTACTGTC
*
50369651 ACTGTAATGGGCTAAGGCCCACACTGATACTGA
1 ACTGTAATGGGCTAAAGCCCA-ACTGA-ACTGA
*
50369684 TACTGTAATAGGCTAAAGCCCAACTGAACTGA
1 -ACTGTAATGGGCTAAAGCCCAACTGAACTGA
50369716 ACTGTTAATG
1 ACTG-TAATG
50369726 AATTGGGCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 4 0.11
32 9 0.24
33 5 0.14
34 19 0.51
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (31 bp):
ACTGTAATGGGCTAAAGCCCAACTGAACTGA
Found at i:50371976 original size:9 final size:9
Alignment explanation
Indices: 50371941--50372162 Score: 64
Period size: 9 Copynumber: 25.6 Consensus size: 9
50371931 ATCCAAAGTT
50371941 TTATGTAAG
1 TTATGTAAG
*
50371950 TTATGATATGAT
1 TTATG-TA--AG
50371962 TTATGTAAG
1 TTATGTAAG
50371971 TTATGTAAG
1 TTATGTAAG
*
50371980 TTATGATATG
1 TTATG-TAAG
* * **
50371990 ATATAT-TT
1 TTATGTAAG
50371998 TTATGT-A-
1 TTATGTAAG
*
50372005 TTACGTAAG
1 TTATGTAAG
*
50372014 TTATGATATG
1 TTATG-TAAG
* * *
50372024 ATATCT-AT
1 TTATGTAAG
50372032 TTATGTAAG
1 TTATGTAAG
*
50372041 TTATGTAAT
1 TTATGTAAG
50372050 TTATG--A-
1 TTATGTAAG
*
50372056 -TATGTATAT
1 TTATGTA-AG
50372065 TTATGT-A-
1 TTATGTAAG
50372072 TTATGTAAG
1 TTATGTAAG
*
50372081 TTATGATATG
1 TTATG-TAAG
* * *
50372091 ATATAT-AT
1 TTATGTAAG
50372099 TTATGTAAG
1 TTATGTAAG
*
50372108 TTATGTAAT
1 TTATGTAAG
50372117 TTATG---G
1 TTATGTAAG
*
50372123 -TATGATATAT
1 TTATG-TA-AG
50372133 TTATGT-A-
1 TTATGTAAG
50372140 TTATGTAAG
1 TTATGTAAG
*
50372149 TTACGTAAG
1 TTATGTAAG
50372158 TTATG
1 TTATG
50372163 ATCCACAGTT
Statistics
Matches: 155, Mismatches: 33, Indels: 50
0.65 0.14 0.21
Matches are distributed among these distances:
5 8 0.05
7 18 0.12
8 19 0.12
9 72 0.46
10 26 0.17
11 6 0.04
12 6 0.04
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:50372004 original size:36 final size:36
Alignment explanation
Indices: 50371951--50372164 Score: 255
Period size: 36 Copynumber: 6.0 Consensus size: 36
50371941 TTATGTAAGT
*
50371951 TATGATAT-GATTTATGTAAGTTATGTAAGTTATGA
1 TATGATATATATTTATGTAAGTTATGTAAGTTATGA
* *
50371986 TATGATATATTTTTATGT-A-TTACGTAAGTTATGA
1 TATGATATATATTTATGTAAGTTATGTAAGTTATGA
* *
50372020 TATGATATCTATTTATGTAAGTTATGTAATTTATGA
1 TATGATATATATTTATGTAAGTTATGTAAGTTATGA
50372056 TATG---TATATTTATGT-A-TTATGTAAGTTATGA
1 TATGATATATATTTATGTAAGTTATGTAAGTTATGA
* *
50372087 TATGATATATATTTATGTAAGTTATGTAATTTATGG
1 TATGATATATATTTATGTAAGTTATGTAAGTTATGA
*
50372123 TATGATATATTTATGTATTATGTAAGTTACGTAAGTTATGA
1 TATGATATA--TA--T-TTATGTAAGTTATGTAAGTTATGA
50372164 T
1 T
50372165 CCACAGTTTT
Statistics
Matches: 152, Mismatches: 14, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
31 18 0.12
32 1 0.01
33 10 0.07
34 41 0.27
35 11 0.07
36 46 0.30
38 2 0.01
40 1 0.01
41 22 0.14
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.49
Consensus pattern (36 bp):
TATGATATATATTTATGTAAGTTATGTAAGTTATGA
Found at i:50372058 original size:31 final size:29
Alignment explanation
Indices: 50371941--50372147 Score: 128
Period size: 34 Copynumber: 6.3 Consensus size: 29
50371931 ATCCAAAGTT
* *
50371941 TTATGTAAGTTATGATAT-GATTTATGTAA
1 TTATGTAATTTATGATATATATTTATGT-A
*
50371970 GTTATGTAAGTTATGATATGATATATTTTTATGTA
1 -TTATGTAA--T-T--TATGATATATATTTATGTA
* *
50372005 TTACGTAAGTTATGATATGATATCTATTTATGTAA
1 TTATGTAA--T-T--TATGATATATATTTATGT-A
50372040 GTTATGTAATTTATGATATGTATATTTATGTA
1 -TTATGTAATTTATGATA--TATATTTATGTA
50372072 TTATGTAAGTTATGATATGATATATATTTATGTAA
1 TTATGTAA--T-T--TATGATATATATTTATGT-A
50372107 GTTATGTAATTTATGGTATGATATATTTATGTA
1 -TTATGTAATTTAT-G-AT-ATATATTTATGTA
50372140 TTATGTAA
1 TTATGTAA
50372148 GTTACGTAAG
Statistics
Matches: 149, Mismatches: 8, Indels: 38
0.76 0.04 0.19
Matches are distributed among these distances:
30 8 0.05
31 18 0.12
32 10 0.07
33 17 0.11
34 56 0.38
35 11 0.07
36 29 0.19
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (29 bp):
TTATGTAATTTATGATATATATTTATGTA
Found at i:50372061 original size:14 final size:14
Alignment explanation
Indices: 50372042--50372090 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
50372032 TTATGTAAGT
50372042 TATGTAATTTATGA
1 TATGTAATTTATGA
50372056 TATGTATATTTATGTA
1 TATGTA-ATTTATG-A
*
50372072 TTATGTAAGTTATGA
1 -TATGTAATTTATGA
50372087 TATG
1 TATG
50372091 ATATATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 10 0.32
15 8 0.26
16 7 0.23
17 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (14 bp):
TATGTAATTTATGA
Found at i:50372093 original size:67 final size:67
Alignment explanation
Indices: 50371951--50372151 Score: 323
Period size: 67 Copynumber: 3.0 Consensus size: 67
50371941 TTATGTAAGT
* * *
50371951 TATGATATGATTTATGTAAGTTATGTAAGTTATGATATGATATATTTTTATGTATTACGTAAGTT
1 TATGATATTATTTATGTAAGTTATGTAATTTATGATATGATATA--TTTATGTATTATGTAAGTT
50372016 ATGA
64 ATGA
50372020 TATGATATCTATTTATGTAAGTTATGTAATTTATGATATG-TATATTTATGTATTATGTAAGTTA
1 TATGATAT-TATTTATGTAAGTTATGTAATTTATGATATGATATATTTATGTATTATGTAAGTTA
50372084 TGA
65 TGA
*
50372087 TATGATATATATTTATGTAAGTTATGTAATTTATGGTATGATATATTTATGTATTATGTAAGTTA
1 TATGATAT-TATTTATGTAAGTTATGTAATTTATGATATGATATATTTATGTATTATGTAAGTTA
50372152 CGTAAGTTAT
Statistics
Matches: 125, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
67 60 0.48
68 24 0.19
69 12 0.10
70 29 0.23
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (67 bp):
TATGATATTATTTATGTAAGTTATGTAATTTATGATATGATATATTTATGTATTATGTAAGTTAT
GA
Found at i:50372106 original size:27 final size:30
Alignment explanation
Indices: 50371941--50372112 Score: 138
Period size: 34 Copynumber: 5.5 Consensus size: 30
50371931 ATCCAAAGTT
*
50371941 TTATGTAAGTTATGATATG-AT-TTATGTAA
1 TTATGTAAGTTATGATATGTATATTATAT-A
*
50371970 GTTATGTAAGTTATGATATGATATATTTTTATGTA
1 -TTATGTAAGTTATGATATG-TATA---TTATATA
* *
50372005 TTACGTAAGTTATGATATGATATCTATTTATGTAA
1 TTATGTAAGTTATGATATG-TA--TA-TTATAT-A
* *
50372040 GTTATGTAATTTATGATATGTATATTTATGTA
1 -TTATGTAAGTTATGATATGTATA-TTATATA
50372072 TTATGTAAGTTATGATATG-ATA-TATAT-
1 TTATGTAAGTTATGATATGTATATTATATA
50372099 TTATGTAAGTTATG
1 TTATGTAAGTTATG
50372113 TAATTTATGG
Statistics
Matches: 127, Mismatches: 5, Indels: 23
0.82 0.03 0.15
Matches are distributed among these distances:
27 14 0.11
28 4 0.03
30 22 0.17
31 18 0.14
32 3 0.02
33 9 0.07
34 28 0.22
35 4 0.03
36 25 0.20
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.49
Consensus pattern (30 bp):
TTATGTAAGTTATGATATGTATATTATATA
Found at i:50372129 original size:41 final size:41
Alignment explanation
Indices: 50372082--50372162 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
50372072 TTATGTAAGT
* *
50372082 TATGATATGATATATAT-TTATGTAAGTTATGTAATTTATGG
1 TATGATAT-ATATATATATTATGTAAGTTACGTAAGTTATGG
* *
50372123 TATGATATATTTATGTATTATGTAAGTTACGTAAGTTATG
1 TATGATATATATATATATTATGTAAGTTACGTAAGTTATG
50372163 ATCCACAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 6 0.17
41 29 0.83
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (41 bp):
TATGATATATATATATATTATGTAAGTTACGTAAGTTATGG
Found at i:50372199 original size:94 final size:97
Alignment explanation
Indices: 50372098--50372278 Score: 287
Period size: 98 Copynumber: 1.9 Consensus size: 97
50372088 ATGATATATA
* * *
50372098 TTTATGTAAGTTATGTAATTTATGGTATG-ATATATTTATGT-A-TTATGTAAGTTACGTAAGTT
1 TTTATGTAAGTTATGTAAGTTATGATATGAATATATTTATGTAAGTTATGTAAATTACGTAAGTT
*
50372160 ATGATCCACAGTTTTTTTTTATTCTTTAAATG
66 ATGATCCAAAGTTTTTTTTTATTCTTTAAATG
*
50372192 TTTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAATTATGTAAGT
1 TTTATGTAAGTTATGTAAGTTATGATATGA-ATATATTTATGTAAGTTATGTAAATTACGTAAGT
50372257 TATGATCCAAAGTTTTTTTTTA
65 TATGATCCAAAGTTTTTTTTTA
50372279 AATGTTTATG
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
94 27 0.35
96 12 0.15
97 1 0.01
98 38 0.49
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (97 bp):
TTTATGTAAGTTATGTAAGTTATGATATGAATATATTTATGTAAGTTATGTAAATTACGTAAGTT
ATGATCCAAAGTTTTTTTTTATTCTTTAAATG
Found at i:50372207 original size:9 final size:9
Alignment explanation
Indices: 50372193--50372260 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
50372183 CTTTAAATGT
50372193 TTATGTAAG
1 TTATGTAAG
50372202 TTATGTAAG
1 TTATGTAAG
*
50372211 TTATGATATG
1 TTATG-TAAG
* * *
50372221 ATATAT-AT
1 TTATGTAAG
50372229 TTATGTAAG
1 TTATGTAAG
*
50372238 TTATGTAAA
1 TTATGTAAG
50372247 TTATGTAAG
1 TTATGTAAG
50372256 TTATG
1 TTATG
50372261 ATCCAAAGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
8 4 0.09
9 37 0.79
10 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:50373107 original size:13 final size:13
Alignment explanation
Indices: 50373089--50373134 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
50373079 GATTTGTTAT
50373089 TTCTTTTGTTTAC
1 TTCTTTTGTTTAC
** * *
50373102 TTCTTTTCATAAT
1 TTCTTTTGTTTAC
50373115 TTCTTTTGTTTAC
1 TTCTTTTGTTTAC
50373128 TTCTTTT
1 TTCTTTT
50373135 CATTTTGTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (13 bp):
TTCTTTTGTTTAC
Found at i:50373123 original size:26 final size:26
Alignment explanation
Indices: 50373087--50373137 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
50373077 AAGATTTGTT
50373087 ATTTCTTTTGTTTACTTCTTTTCATA
1 ATTTCTTTTGTTTACTTCTTTTCATA
50373113 ATTTCTTTTGTTTACTTCTTTTCAT
1 ATTTCTTTTGTTTACTTCTTTTCAT
50373138 TTTGTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.14, C:0.16, G:0.04, T:0.67
Consensus pattern (26 bp):
ATTTCTTTTGTTTACTTCTTTTCATA
Found at i:50373332 original size:72 final size:71
Alignment explanation
Indices: 50373187--50373560 Score: 293
Period size: 72 Copynumber: 5.2 Consensus size: 71
50373177 AATATTACCG
** * * * * * * * *
50373187 AATAAACTATTTTACTTAATATCAAAACTCAATAAATCAAATTAATTTAATCTTCTCAAAACATA
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATCGAACTAAATTAACCTTTTAAAAATACA
*
50373252 TAACTTG
66 TAA-TTA
* * *
50373259 AATAAACGGTTTTACTTAATATCGAAACTCAATGAATCGAACTAAAATAGA-CTTTTAAAAAATA
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATCGAACTAAATTA-ACCTTTT-AAAAATA
*
50373323 CATAATTG
64 CATAATTA
* * ** * * *** * *
50373331 AATAAATGGTTCTACTTAATATCGGAATTCAATAAATTGAACTAAATT-TTTTTTTTAAAATGCA
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATCGAACTAAATTAACCTTTTAAAAATACA
50373395 TAATTA
66 TAATTA
* ** ** ** * * * * **
50373401 AACAAGTGGTTTTACTTTGTATCAAATTTCAATAAATCAAACTAAATTAAGCTTCTGAAAATGTA
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATCGAACTAAATTAACCTTTTAAAAATACA
*
50373466 TAACTA
66 TAATTA
* * * *
50373472 AATAAACGGTTTCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTATTAAAAACAC
1 AATAAACGGTTTTACTTAATATCAAAACTCAATAAATCGAACTAAATTAACCTT-TTAAAAATAC
50373537 ATAATTA
65 ATAATTA
*
50373544 AATAAACGATTTTACTT
1 AATAAACGGTTTTACTT
50373561 TATAATTAAT
Statistics
Matches: 236, Mismatches: 61, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
70 50 0.21
71 61 0.26
72 115 0.49
73 10 0.04
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (71 bp):
AATAAACGGTTTTACTTAATATCAAAACTCAATAAATCGAACTAAATTAACCTTTTAAAAATACA
TAATTA
Found at i:50375084 original size:76 final size:77
Alignment explanation
Indices: 50374958--50375170 Score: 356
Period size: 76 Copynumber: 2.8 Consensus size: 77
50374948 TAATTCCCCC
* **
50374958 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCTTTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
*
50375023 CTTGAATGT-GA
66 CTTGAATGTAAA
* *
50375034 AAGGGGTTGCTAAGTGTTGATTTCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
50375099 CTTGAATGTAAA
66 CTTGAATGTAAA
*
50375111 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACC
50375171 GATAACGGTT
Statistics
Matches: 127, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
76 69 0.54
77 58 0.46
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
CTTGAATGTAAA
Found at i:50377295 original size:13 final size:13
Alignment explanation
Indices: 50377277--50377317 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
50377267 TCAATTTTCC
50377277 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
50377290 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
*
50377303 CCTTTT-TTTCCTT
1 -CTTTTCTTTCTTT
50377316 CT
1 CT
50377318 CTGTTTCGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 2 0.08
13 19 0.73
14 5 0.19
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:50379565 original size:39 final size:39
Alignment explanation
Indices: 50379517--50379627 Score: 125
Period size: 41 Copynumber: 2.8 Consensus size: 39
50379507 TCGCAGCGAC
*
50379517 TATGA-AAAACGTTGCTATTGCTTACCTTTTGCAGCATT
1 TATGAGAAAACGTTACTATTGCTTACCTTTTGCAGCATT
* ** * * *
50379555 TGTGAGAAAACGCCACTATAGTTCTAACCTTTTGCGGCATT
1 TATGAGAAAACGTTACTAT--TGCTTACCTTTTGCAGCATT
50379596 TATGAGAAAACGTTACTATTGCTTTACCTTTT
1 TATGAGAAAACGTTACTATTGC-TTACCTTTT
50379628 ACGGCGTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 4 0.07
39 12 0.21
40 8 0.14
41 33 0.58
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (39 bp):
TATGAGAAAACGTTACTATTGCTTACCTTTTGCAGCATT
Found at i:50380614 original size:39 final size:39
Alignment explanation
Indices: 50380571--50380648 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
50380561 TGTGAGGCCG
* *
50380571 TGTGGGTCACACGGGCT-ATGCCAATTTAGGCGTGTGGGC
1 TGTGGGCCACACGGG-TAAGGCCAATTTAGGCGTGTGGGC
*
50380610 TGTGGGCCACACGGGTAAGGCCAATTTGGGCGTGTGGGC
1 TGTGGGCCACACGGGTAAGGCCAATTTAGGCGTGTGGGC
50380649 CTAAATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.15, C:0.21, G:0.41, T:0.23
Consensus pattern (39 bp):
TGTGGGCCACACGGGTAAGGCCAATTTAGGCGTGTGGGC
Found at i:50388137 original size:71 final size:71
Alignment explanation
Indices: 50388021--50388156 Score: 238
Period size: 71 Copynumber: 1.9 Consensus size: 71
50388011 TTTGCTAAGT
**
50388021 AAATTTTAAAAGCACCTTCAATTTTTTTTAAAAATTATTTTAATCATTCATTTAACTTTTCATCT
1 AAATTTTAAAAGCACCTTCAATTTTTTAAAAAAATTATTTTAATCATTCATTTAACTTTTCATCT
50388086 GGTTTA
66 GGTTTA
50388092 AAATTTTAAAAGCACCTTCAA-TTTTTAAAAAAATTTATTTTAATCATTCATTTAACTTTTCATC
1 AAATTTTAAAAGCACCTTCAATTTTTTAAAAAAA-TTATTTTAATCATTCATTTAACTTTTCATC
50388156 T
65 T
50388157 TTTTTAGTCT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 10 0.16
71 52 0.84
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.48
Consensus pattern (71 bp):
AAATTTTAAAAGCACCTTCAATTTTTTAAAAAAATTATTTTAATCATTCATTTAACTTTTCATCT
GGTTTA
Found at i:50388333 original size:26 final size:25
Alignment explanation
Indices: 50388294--50388382 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 25
50388284 TTTTTTTAAA
*
50388294 TTTAAGAATTTAAAAATATTATAATT
1 TTTAA-AAATTAAAAATATTATAATT
50388320 TTTGAAAAATTAAAAATCATTA-AATT
1 TTT-AAAAATTAAAAAT-ATTATAATT
* * *
50388346 TATTAAATA-TATAAATATTTTAATATT
1 T-TTAAAAATTAAAAATATTAT-A-ATT
50388373 TTTAAAAATT
1 TTTAAAAATT
50388383 TTAAAAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
24 3 0.06
25 6 0.12
26 29 0.57
27 13 0.25
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTAAAAATTAAAAATATTATAATT
Found at i:50389459 original size:13 final size:14
Alignment explanation
Indices: 50389424--50389452 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50389414 ATTATTTTAA
50389424 AATGAAAAATATTG
1 AATGAAAAATATTG
50389438 AATGAAAAAT-TTG
1 AATGAAAAATATTG
50389451 AA
1 AA
50389453 GATAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (14 bp):
AATGAAAAATATTG
Found at i:50396303 original size:16 final size:16
Alignment explanation
Indices: 50396282--50396316 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50396272 CAATTTGTAG
50396282 AAAAGAAAAAAAAATA
1 AAAAGAAAAAAAAATA
**
50396298 AAAAGAAAAGTAAATA
1 AAAAGAAAAAAAAATA
50396314 AAA
1 AAA
50396317 TAGATAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAGAAAAAAAAATA
Found at i:50397156 original size:40 final size:40
Alignment explanation
Indices: 50397106--50397594 Score: 511
Period size: 40 Copynumber: 11.8 Consensus size: 40
50397096 GGTTTCTTTC
50397106 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
* ** *
50397146 ATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGT-G
*
50397191 -TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
** *
50397230 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTTTTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-C-----TTGATGT-G
* *
50397277 -TCTGCTCCACTACTGCTTAGAGAGATAAGACTTGATGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
** *
50397316 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGT-G
* *
50397361 -TCTGCTCTACTACTGCTTAGGGAGATAAGACTTGATGTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
* *
50397400 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGTG
* * *
50397443 -TCTGCTCCACTACTGCTTATGGAGATAAGACGTGATGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
* *
50397482 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGTG
* * *
50397525 -TCTGCTCCACTACTGCTTATGGAGATAAGACGTGATGCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
50397564 ATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGA
50397595 TCTGTGGTTC
Statistics
Matches: 373, Mismatches: 48, Indels: 56
0.78 0.10 0.12
Matches are distributed among these distances:
39 8 0.02
40 188 0.50
41 8 0.02
42 60 0.16
43 8 0.02
44 64 0.17
45 3 0.01
46 33 0.09
47 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (40 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
Found at i:50397210 original size:84 final size:84
Alignment explanation
Indices: 50397080--50397598 Score: 800
Period size: 84 Copynumber: 6.2 Consensus size: 84
50397070 CATTGCAACT
* *
50397080 TTAGGGAGATAGGAT-TGGTTTCTTTCATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATG
1 TTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATG
* *
50397144 TGATCTGCTCCACTATTGC
66 CGATCTGCTCCACTACTGC
*
50397163 TTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATG
1 TTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATG
*
50397228 TGATCTGCTCCACTACTGC
66 CGATCTGCTCCACTACTGC
* *
50397247 TTAGGGAGATAAGATCTGGTTTTTTTTTCGTCTGCTCCACTACTGCTTAGAGAGATAAGACTTGA
1 TTAGGGAGATAAGATCTGG--TTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGA
50397312 TGCGATCTGCTCCACTACTGC
64 TGCGATCTGCTCCACTACTGC
*
50397333 TTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCTACTACTGCTTAGGGAGATAAGACTTGATG
1 TTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATG
**
50397398 TAATCTGCTCCACTACTGC
66 CGATCTGCTCCACTACTGC
* * *
50397417 TTAGGGAGATAAGATCTGTGGTTC--T-GTCTGCTCCACTACTGCTTATGGAGATAAGACGTGAT
1 TTAGGGAGATAAGATCTG-GTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAT
50397479 GCGATCTGCTCCACTACTGC
65 GCGATCTGCTCCACTACTGC
* * *
50397499 TTAGGGAGATAAGATCTGTGGTTC--T-GTCTGCTCCACTACTGCTTATGGAGATAAGACGTGAT
1 TTAGGGAGATAAGATCTG-GTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAT
50397561 GCGATCTGCTCCACTACTGC
65 GCGATCTGCTCCACTACTGC
50397581 TTAGGGAGATAAGATCTG
1 TTAGGGAGATAAGATCTG
50397599 TGGTTCTGTT
Statistics
Matches: 413, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
82 152 0.37
83 15 0.04
84 162 0.39
85 4 0.01
86 80 0.19
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (84 bp):
TTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATG
CGATCTGCTCCACTACTGC
Found at i:50397304 original size:170 final size:167
Alignment explanation
Indices: 50397080--50397598 Score: 798
Period size: 170 Copynumber: 3.1 Consensus size: 167
50397070 CATTGCAACT
* * *
50397080 TTAGGGAGATAGGAT-TGGTTTCTTTCATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATG
1 TTAGGGAGATAAGATCTGGTTTTTTTCGTCTGCTCCACTACTGCTTA-GGAGATAAGACTTGATG
* * *
50397144 TGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTACTT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTT
50397209 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGC
130 AGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGC
50397247 TTAGGGAGATAAGATCTGGTTTTTTTTTCGTCTGCTCCACTACTGCTTAGAGAGATAAGACTTGA
1 TTAGGGAGATAAGATCTGG--TTTTTTTCGTCTGCTCCACTACTGCTTAG-GAGATAAGACTTGA
*
50397312 TGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCTACTACTGC
63 TGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGC
*
50397377 TTAGGGAGATAAGACTTGATGTAATCTGCTCCACTACTGC
128 TTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGC
** * *
50397417 TTAGGGAGATAAGATCT-GTGGTTCT-GTCTGCTCCACTACTGCTTATGGAGATAAGACGTGATG
1 TTAGGGAGATAAGATCTGGTTTTTTTCGTCTGCTCCACTACTGCTTA-GGAGATAAGACTTGATG
*
50397480 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTC--T-GTCTGCTCCACTACTGCT
65 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-GTTTCTTTCGTCTGCTCCACTACTGCT
* * *
50397542 TATGGAGATAAGACGTGATGCGATCTGCTCCACTACTGC
129 TAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGC
50397581 TTAGGGAGATAAGATCTG
1 TTAGGGAGATAAGATCTG
50397599 TGGTTCTGTT
Statistics
Matches: 327, Mismatches: 18, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
164 69 0.21
165 1 0.00
166 72 0.22
167 23 0.07
168 3 0.01
169 2 0.01
170 157 0.48
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (167 bp):
TTAGGGAGATAAGATCTGGTTTTTTTCGTCTGCTCCACTACTGCTTAGGAGATAAGACTTGATGC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTA
GGGAGATAAGACTTGATGTGATCTGCTCCACTACTGC
Found at i:50397607 original size:82 final size:83
Alignment explanation
Indices: 50397107--50397605 Score: 754
Period size: 82 Copynumber: 6.0 Consensus size: 83
50397097 GTTTCTTTCA
* *
50397107 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTATTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
*
50397172 TAAGATCTG-GTTTCTTTCG
66 TAAGATCTGTGGTTC--TCG
* *
50397191 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
** *
50397256 TAAGATCTGGTTTTTTTTTCG
66 TAAGATCT-G--TGGTTCTCG
*
50397277 TCTGCTCCACTACTGCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
*
50397342 TAAGATCTG-GTTTCTTTCG
66 TAAGATCTGTGGTTC--TCG
* **
50397361 TCTGCTCTACTACTGCTTAGGGAGATAAGACTTGATGTAATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
50397426 TAAGATCTGTGGTTCT-G
66 TAAGATCTGTGGTTCTCG
* *
50397443 TCTGCTCCACTACTGCTTATGGAGATAAGACGTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
50397508 TAAGATCTGTGGTTCT-G
66 TAAGATCTGTGGTTCTCG
* *
50397525 TCTGCTCCACTACTGCTTATGGAGATAAGACGTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
50397590 TAAGATCTGTGGTTCT
66 TAAGATCTGTGGTTCT
50397606 GTTCTCTGGG
Statistics
Matches: 389, Mismatches: 19, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
82 162 0.42
83 1 0.00
84 144 0.37
85 6 0.02
86 73 0.19
88 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (83 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTCTCG
Found at i:50414236 original size:33 final size:34
Alignment explanation
Indices: 50414157--50414236 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
50414147 TAAAACTAAC
50414157 GATACATAAAATATTTTAAAAACTTTAAATATAAT
1 GATACATAAAATA-TTTAAAAACTTTAAATATAAT
* * *
50414192 -A-ACA-AATAATATTTAAATAGTTT-TATATAAT
1 GATACATAA-AATATTTAAAAACTTTAAATATAAT
50414223 GATACATAAAATAT
1 GATACATAAAATAT
50414237 AAACTAATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
31 7 0.18
32 13 0.34
33 15 0.39
34 3 0.08
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (34 bp):
GATACATAAAATATTTAAAAACTTTAAATATAAT
Found at i:50421005 original size:29 final size:28
Alignment explanation
Indices: 50420954--50421028 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
50420944 GCTTATAATT
* *
50420954 TTTTTATATATTTCTAT-ATATTTTACAA
1 TTTTTATA-ATTTTTATAAAATTTTACAA
50420982 TTTTT-TAAGATTTTTATAAAATTTTACAA
1 TTTTTAT-A-ATTTTTATAAAATTTTACAA
50421011 TTTTTATAATTTTTATAA
1 TTTTTATAATTTTTATAA
50421029 TTTTTTTCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 1 0.02
28 23 0.56
29 16 0.39
30 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (28 bp):
TTTTTATAATTTTTATAAAATTTTACAA
Found at i:50421035 original size:29 final size:30
Alignment explanation
Indices: 50420974--50421072 Score: 82
Period size: 29 Copynumber: 3.4 Consensus size: 30
50420964 TTTCTATATA
**
50420974 TTTTACAATTTTT-TAAGATTTTTATAA-AA
1 TTTTACAATTTTTAT-AGATTTTTATAATTT
50421003 TTTTACAATTTTTATA-ATTTTTATAATTT
1 TTTTACAATTTTTATAGATTTTTATAATTT
* * *
50421032 TTTT-CTAA-TTTTAAATATTTTTATATTTT
1 TTTTAC-AATTTTTATAGATTTTTATAATTT
*
50421061 TTATTAAAATTT
1 TT-TTACAATTT
50421073 AATAATTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
28 17 0.29
29 34 0.59
30 5 0.09
31 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (30 bp):
TTTTACAATTTTTATAGATTTTTATAATTT
Found at i:50421043 original size:9 final size:9
Alignment explanation
Indices: 50420954--50421101 Score: 68
Period size: 9 Copynumber: 15.6 Consensus size: 9
50420944 GCTTATAATT
50420954 TTTTTATATA
1 TTTTTATA-A
*
50420964 TTTCTAT-A
1 TTTTTATAA
*
50420972 TATTTTACAA
1 T-TTTTATAA
50420982 TTTTT-TAAGA
1 TTTTTAT-A-A
50420992 TTTTTATAAA
1 TTTTTAT-AA
* *
50421002 ATTTTACAA
1 TTTTTATAA
50421011 TTTTTATAA
1 TTTTTATAA
50421020 TTTTTATAA
1 TTTTTATAA
*
50421029 TTTTTTTCTAA
1 --TTTTTATAA
*
50421040 -TTTTAAATA
1 TTTTTATA-A
*
50421049 TTTTTATAT
1 TTTTTATAA
50421058 TTTTTATTAAA
1 TTTTTA-T-AA
* *
50421069 ATTTAATAA
1 TTTTTATAA
* *
50421078 TTTTTTTTAT
1 -TTTTTATAA
*
50421088 TTTTTATCA
1 TTTTTATAA
50421097 TTTTT
1 TTTTT
50421102 TGTTATATGT
Statistics
Matches: 103, Mismatches: 23, Indels: 25
0.68 0.15 0.17
Matches are distributed among these distances:
8 7 0.07
9 47 0.46
10 33 0.32
11 16 0.16
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50421061 original size:18 final size:19
Alignment explanation
Indices: 50420946--50421061 Score: 64
Period size: 19 Copynumber: 6.1 Consensus size: 19
50420936 GTATAAAAGC
*
50420946 TTATAATTTTTTTATATATT
1 TTATAATATTTTTATAT-TT
*
50420966 TCTAT-ATA-TTTTACAATTT
1 T-TATAATATTTTTA-TATTT
* *
50420985 TT-TAAGATTTTTATAAAATT
1 TTATAATATTTTTAT--ATTT
*
50421005 TTA-CA-ATTTTTATAATTT
1 TTATAATATTTTTAT-ATTT
* * *
50421023 TTATAATTTTTTTCTAATT
1 TTATAATATTTTTATATTT
50421042 TTA-AATATTTTTATATTT
1 TTATAATATTTTTATATTT
50421060 TT
1 TT
50421062 TATTAAAATT
Statistics
Matches: 73, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
17 1 0.01
18 24 0.33
19 28 0.38
20 17 0.23
21 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
TTATAATATTTTTATATTT
Found at i:50421073 original size:29 final size:29
Alignment explanation
Indices: 50421016--50421095 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 29
50421006 TACAATTTTT
*
50421016 ATAATTTTTATAATTTTTT-TCTAATTTTA
1 ATAATTTTTAT-ATTTTTTATCTAAATTTA
50421045 A-ATATTTTTATATTTTTTAT-TAAAATTTA
1 ATA-ATTTTTATATTTTTTATCT-AAATTTA
*
50421074 ATAATTTTTTTTATTTTTTATC
1 ATAA-TTTTTATATTTTTTATC
50421096 ATTTTTTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
28 9 0.21
29 18 0.42
30 16 0.37
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (29 bp):
ATAATTTTTATATTTTTTATCTAAATTTA
Found at i:50421083 original size:30 final size:30
Alignment explanation
Indices: 50421016--50421094 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
50421006 TACAATTTTT
* ** *
50421016 ATAA-TTTTTATAATTTTT-TTCTAATTTT
1 ATAATTTTTTATATTTTTTATTAAAATTTA
50421044 A-AATATTTTTATATTTTTTATTAAAATTTA
1 ATAAT-TTTTTATATTTTTTATTAAAATTTA
*
50421074 ATAATTTTTTTTATTTTTTAT
1 ATAATTTTTTATATTTTTTAT
50421095 CATTTTTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 13 0.31
30 23 0.55
31 3 0.07
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (30 bp):
ATAATTTTTTATATTTTTTATTAAAATTTA
Found at i:50426048 original size:71 final size:71
Alignment explanation
Indices: 50425871--50426048 Score: 171
Period size: 71 Copynumber: 2.5 Consensus size: 71
50425861 ACGCATTTAA
* * * * * * * * *
50425871 TATCGTCGATTTATCTGACTAGCACTAGGCGA-AAACCAATGTCGATTCGTTTGACTAGTGTTGG
1 TATCGTTGGTTTATCCGACTAGCACTGGGC-ACAAACCAATATCGATTCGATCGACTAGTGCTAG
50425935 GCACATC
65 GCACATC
* * ** ** * *
50425942 TATCATCTGG-TTATCCGACTAACGGTGGGTGCAAACCACTATCGATTTGATCGACTAGTGCTAG
1 TATCGT-TGGTTTATCCGACTAGCACTGGGCACAAACCAATATCGATTCGATCGACTAGTGCTAG
50426006 GCACATC
65 GCACATC
50426013 TATCGTTGGTTTATCCGACTAGCACTGGGCACAAAC
1 TATCGTTGGTTTATCCGACTAGCACTGGGCACAAAC
50426049 TTATTACAAG
Statistics
Matches: 81, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
70 3 0.04
71 77 0.95
72 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (71 bp):
TATCGTTGGTTTATCCGACTAGCACTGGGCACAAACCAATATCGATTCGATCGACTAGTGCTAGG
CACATC
Found at i:50428590 original size:58 final size:57
Alignment explanation
Indices: 50428460--50428638 Score: 234
Period size: 58 Copynumber: 3.1 Consensus size: 57
50428450 TTCTTTTTCT
* * * * * * *
50428460 TTTTCTTTTTCATTTTGAAGAAAATCACATTTATTTCCAAATGATTT-CATTTCTCTA
1 TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATG-TTTCCATTTCTCCA
*
50428517 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTACCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATGTTT-CCATTTCTCCA
* *
50428575 TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATTTTTCTCATTTCTCCG
1 TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATGTTTC-CATTTCTCCA
50428633 TTTTCA
1 TTTTCA
50428639 CAATTCCTAT
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
56 3 0.03
57 38 0.35
58 68 0.62
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.47
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATGTTTCCATTTCTCCA
Found at i:50430587 original size:24 final size:24
Alignment explanation
Indices: 50430547--50430593 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
50430537 AAAGGGAAAT
*
50430547 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
50430571 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
50430594 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:50436148 original size:14 final size:14
Alignment explanation
Indices: 50436129--50436161 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
50436119 TCTGAAATAA
50436129 TTTCTTCAGAGAAT
1 TTTCTTCAGAGAAT
50436143 TTTCTTCAGAGAAT
1 TTTCTTCAGAGAAT
50436157 TTTCT
1 TTTCT
50436162 CTCTACAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (14 bp):
TTTCTTCAGAGAAT
Found at i:50436909 original size:18 final size:19
Alignment explanation
Indices: 50436873--50436910 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50436863 AAATATAATT
*
50436873 TTAATTTTAATTAATTTGA
1 TTAATTTTAATTAACTTGA
*
50436892 TTAA-TTTAATTTACTTGA
1 TTAATTTTAATTAACTTGA
50436910 T
1 T
50436911 CAAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (19 bp):
TTAATTTTAATTAACTTGA
Found at i:50438818 original size:17 final size:17
Alignment explanation
Indices: 50438788--50438832 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
50438778 CCGATATAAT
* *
50438788 AAATATATTTATTTTTA
1 AAATATTTTTAATTTTA
50438805 AAAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
50438821 AAATATTTTTAA
1 AAATATTTTTAA
50438833 AATACTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:50438830 original size:11 final size:11
Alignment explanation
Indices: 50438816--50438882 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
50438806 AATTTTTTAA
50438816 TTTTAAAATAT
1 TTTTAAAATAT
50438827 TTTTAAAATACT
1 TTTTAAAATA-T
* *
50438839 TTTT-TATTAT
1 TTTTAAAATAT
*
50438849 TTTT----TAA
1 TTTTAAAATAT
50438856 TTTTAAAATAT
1 TTTTAAAATAT
50438867 TTTTAAAATACT
1 TTTTAAAATA-T
50438879 TTTT
1 TTTT
50438883 TAATTTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 6 0.13
10 5 0.11
11 25 0.54
12 10 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50438843 original size:40 final size:40
Alignment explanation
Indices: 50438799--50438885 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
50438789 AATATATTTA
50438799 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATACT
**
50438839 TTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATACT
50438879 TTTTTAA
1 TTTTTAA
50438886 TTTTTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:50438859 original size:30 final size:31
Alignment explanation
Indices: 50438825--50438896 Score: 96
Period size: 29 Copynumber: 2.4 Consensus size: 31
50438815 ATTTTAAAAT
* *
50438825 ATTTTTAAAATACTTTTT-TATTA-TTTTTTA
1 ATTTTTAAAATA-TTTTTAAAATACTTTTTTA
50438855 A-TTTTAAAATATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATATTTTTAAAATACTTTTTTA
50438885 ATTTTTAAAATA
1 ATTTTTAAAATA
50438897 AATTTTTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.14
29 13 0.35
30 9 0.24
31 10 0.27
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:50438902 original size:20 final size:20
Alignment explanation
Indices: 50438865--50438903 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50438855 ATTTTAAAAT
**
50438865 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
50438885 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
50438904 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:50444907 original size:23 final size:20
Alignment explanation
Indices: 50444877--50444921 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
50444867 ATTTTTTTTT
50444877 TAAAAGTTCAACAAAGAATAAA
1 TAAAAGTTC-ACAAA-AATAAA
*
50444899 TAAATAGTTCACCAAAATAAA
1 TAAA-AGTTCACAAAAATAAA
50444920 TA
1 TA
50444922 GAATGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 8 0.38
23 5 0.24
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.22
Consensus pattern (20 bp):
TAAAAGTTCACAAAAATAAA
Found at i:50451402 original size:22 final size:22
Alignment explanation
Indices: 50451376--50451419 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
50451366 AAATCCTCTG
50451376 TATCATGATGACACCTTTGACA
1 TATCATGATGACACCTTTGACA
50451398 TATCATGATGACACCTTTGACA
1 TATCATGATGACACCTTTGACA
50451420 GGACGCACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (22 bp):
TATCATGATGACACCTTTGACA
Found at i:50452773 original size:25 final size:27
Alignment explanation
Indices: 50452739--50452800 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
50452729 TATATTATAT
*
50452739 TATAATTATCAC-AA-CT-TTTTTTTAA
1 TATAATTATC-CTAATCTATTTTTTCAA
*
50452764 TATAACTATCCTAATCTATTTTTTCAA
1 TATAATTATCCTAATCTATTTTTTCAA
50452791 TATAATTATC
1 TATAATTATC
50452801 TCCATCTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 11 0.35
26 2 0.06
27 17 0.55
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (27 bp):
TATAATTATCCTAATCTATTTTTTCAA
Found at i:50452807 original size:27 final size:26
Alignment explanation
Indices: 50452739--50452810 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
50452729 TATATTATAT
* * *
50452739 TATAATTATCACAACT-TTTTTTTAA
1 TATAATTATCCCATCTATTTTTTCAA
* *
50452764 TATAACTATCCTAATCTATTTTTTCAA
1 TATAATTATCC-CATCTATTTTTTCAA
50452791 TATAATTATCTCCATCTATT
1 TATAATTATC-CCATCTATT
50452811 CCCTAGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 9 0.24
26 3 0.08
27 24 0.65
28 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (26 bp):
TATAATTATCCCATCTATTTTTTCAA
Found at i:50456439 original size:24 final size:24
Alignment explanation
Indices: 50456412--50456463 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
50456402 TTAGTAAGTC
*
50456412 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
50456436 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
50456460 AAAT
1 AAAT
50456464 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:50458409 original size:24 final size:24
Alignment explanation
Indices: 50458382--50458433 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
50458372 TTAGTAAGTC
*
50458382 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
50458406 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
50458430 AAAT
1 AAAT
50458434 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:50458874 original size:16 final size:16
Alignment explanation
Indices: 50458835--50458889 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
50458825 TATTAGAGGG
*
50458835 TGAAGAAATGAAATAA
1 TGAATAAATGAAATAA
50458851 TGACATAAAT-AAATAGA
1 TGA-ATAAATGAAATA-A
50458868 TGAATAAA-GAAA-AA
1 TGAATAAATGAAATAA
*
50458882 TAAATAAA
1 TGAATAAA
50458890 AAGATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 8 0.24
15 1 0.03
16 16 0.47
17 9 0.26
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (16 bp):
TGAATAAATGAAATAA
Found at i:50459143 original size:65 final size:65
Alignment explanation
Indices: 50459053--50459254 Score: 258
Period size: 65 Copynumber: 3.2 Consensus size: 65
50459043 TGCTTAATGA
* * * *
50459053 AAAAGAAATATAAGTAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGAT
1 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAGAT
* * *
50459118 AAAACAAATATAAATAGTATTAAATTTAAGTATTTAAAAAATAAAAG---AA-CAAT--A-A-AT
1 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAGAT
*
50459175 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAAGTAAAAGAATAATAAACAAATAGA
1 AAAACAAATATAAATAATATTAAATTTAAGTATTT-AAAAAGTAAAAGAATAATAAATAAATAGA
50459240 T
65 T
*
50459241 AAAACGAATATAAA
1 AAAACAAATATAAA
50459255 AGGATGAAAT
Statistics
Matches: 116, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
57 36 0.31
58 12 0.10
59 1 0.01
61 5 0.04
62 4 0.03
64 1 0.01
65 42 0.36
66 15 0.13
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (65 bp):
AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAGAT
Found at i:50459161 original size:57 final size:57
Alignment explanation
Indices: 50459111--50459231 Score: 206
Period size: 57 Copynumber: 2.1 Consensus size: 57
50459101 ATAATAAATA
* *
50459111 AATAGATAAAACAAATATAAATAGTATTAAATTTAAGTATTTAAAAAATAAAAGAAC
1 AATAAATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAATAAAAGAAC
*
50459168 AATAAATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAAGTAAAAGAAT
1 AATAAATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAA-TAAAAGAAC
50459226 AATAAA
1 AATAAA
50459232 CAAATAGATA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 46 0.77
58 14 0.23
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (57 bp):
AATAAATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAATAAAAGAAC
Found at i:50460768 original size:44 final size:44
Alignment explanation
Indices: 50460720--50461242 Score: 541
Period size: 44 Copynumber: 11.8 Consensus size: 44
50460710 TTGTTGCTTC
* * * *
50460720 AATCTACTCCACCGCAACTTCAGGGAGATTAGACTTGTAGA-TTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA-ACTTT
** * * *** * *
50460764 AATCTGCTCCACTGCAACTTCAAAGAGATGAGACTCACATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * * * *
50460808 AATCTACTCTATTGCAACTTCAGGGAGATGAGATTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* *
50460852 AATCTGCTCCACTGTAACTTCAGGGAGATGAGATTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
** ** * * *
50460896 AATCTGCTCCACTATAACTTCAATGAGATGAGGTTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* *
50460940 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * *
50460984 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGAAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * * *
50461028 AATCTGCTCCACTGCAAGTTCAGGAAGATAAGATTTCTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * *
50461072 AATATGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT-ATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTT
*
50461116 CAATCTGCTTCACTGCAACTTCAGGGAGATAAGATTTGTAA-TTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * * * *
50461160 CAATCTGCTCTACTGTAATTTCAGAGAGATAAGATTTGCT-ATTTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTT
* *
50461205 CAATCTGCTCCACTGCAACTTTAGGGAGATAAAATTTG
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
50461243 CCACGATAAC
Statistics
Matches: 405, Mismatches: 68, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
44 333 0.82
45 72 0.18
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
Found at i:50464150 original size:41 final size:41
Alignment explanation
Indices: 50464105--50464379 Score: 478
Period size: 41 Copynumber: 6.7 Consensus size: 41
50464095 GGTTTTAAAA
50464105 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
50464146 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
50464187 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
50464228 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
50464269 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
50464310 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
50464351 CCTAACAGGGCTAAGTGCCAGTGAATCTG
1 CCTAGCA-GGCTAAGTGCCGGTG-ATCTG
50464380 TTTAAATTAA
Statistics
Matches: 223, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
41 205 0.92
42 13 0.06
43 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:50467497 original size:24 final size:25
Alignment explanation
Indices: 50467444--50467491 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
50467434 TTGGCTCTCA
* *
50467444 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
50467469 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
50467492 CGGAGCATCC
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:50467595 original size:25 final size:25
Alignment explanation
Indices: 50467565--50467647 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 25
50467555 GTCCTAATAT
50467565 ATGGCTCTTCAGAGCTTCCCGATTA
1 ATGGCTCTTCAGAGCTTCCCGATTA
* **
50467590 AAGGCTCTTTCATGAGCTTCTTGATTA
1 ATGGCTC-TTCA-GAGCTTCCCGATTA
*
50467617 ATGGCTC-TCCGAAGCTTCCCGA-TA
1 ATGGCTCTTCAG-AGCTTCCCGATTA
50467641 ATGGCTC
1 ATGGCTC
50467648 GCTTGAACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 10 0.21
25 16 0.33
26 4 0.08
27 18 0.38
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGGCTCTTCAGAGCTTCCCGATTA
Found at i:50467658 original size:24 final size:24
Alignment explanation
Indices: 50467631--50467695 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
50467621 CTCTCCGAAG
* *
50467631 CTTCCCGATAATGGCTCGCTTGAA
1 CTTCCCGATTATGGCTCGCTTAAA
* *
50467655 CTTCTCGTTTATGGCTCGCTTAAA
1 CTTCCCGATTATGGCTCGCTTAAA
50467679 CTTCCCGATTATGGCTC
1 CTTCCCGATTATGGCTC
50467696 TTATGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.35
Consensus pattern (24 bp):
CTTCCCGATTATGGCTCGCTTAAA
Found at i:50467706 original size:24 final size:24
Alignment explanation
Indices: 50467564--50467706 Score: 71
Period size: 24 Copynumber: 5.8 Consensus size: 24
50467554 CGTCCTAATA
50467564 TATGGCTCTTCA-GAGCTTCCCGAT
1 TATGGCTCTT-ATGAGCTTCCCGAT
* **
50467588 TAAAGGCTCTTTCATGAGCTTCTTGAT
1 T-ATGGCTC-TT-ATGAGCTTCCCGAT
**
50467615 TAATGGCTC-TCCGAAGCTTCCCGAT
1 T-ATGGCTCTTATG-AGCTTCCCGAT
* * * * *
50467640 AATGGCTCGCT-TGAACTTCTCGTT
1 TATGGCTC-TTATGAGCTTCCCGAT
*
50467664 TATGGCTCGCTTA--AACTTCCCGAT
1 TATGGCT--CTTATGAGCTTCCCGAT
50467688 TATGGCTCTTATGAGCTTC
1 TATGGCTCTTATGAGCTTC
50467707 TCGTTATATA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
22 4 0.04
24 44 0.49
25 18 0.20
26 6 0.07
27 18 0.20
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.36
Consensus pattern (24 bp):
TATGGCTCTTATGAGCTTCCCGAT
Found at i:50467707 original size:48 final size:49
Alignment explanation
Indices: 50467579--50467712 Score: 128
Period size: 48 Copynumber: 2.7 Consensus size: 49
50467569 CTCTTCAGAG
* * * * *
50467579 CTTCCCGATTAAAGGCTCTTTCATGAGCTTCTTGATTAATGGCTCTCCGAAG
1 CTTCCCGATT-ATGGCTCGTT-ATGAGCTTCTCG-TTAATGGCTCGCCGAAA
* * * * **
50467631 CTTCCCGATAATGGCTCGCT-TGAACTTCTCGTTTATGGCTCGCTTAAA
1 CTTCCCGATTATGGCTCGTTATGAGCTTCTCGTTAATGGCTCGCCGAAA
50467679 CTTCCCGATTATGGCTC-TTATGAGCTTCTCGTTA
1 CTTCCCGATTATGGCTCGTTATGAGCTTCTCGTTA
50467713 TATAGCTTGA
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
47 1 0.02
48 40 0.61
49 9 0.14
51 7 0.11
52 9 0.14
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (49 bp):
CTTCCCGATTATGGCTCGTTATGAGCTTCTCGTTAATGGCTCGCCGAAA
Found at i:50469959 original size:21 final size:21
Alignment explanation
Indices: 50469935--50469977 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50469925 ATTAATTTTA
50469935 TTTTTTGAGCCCTTTCGGAGG
1 TTTTTTGAGCCCTTTCGGAGG
50469956 TTTTTTGAGCCCTTTCGGAGG
1 TTTTTTGAGCCCTTTCGGAGG
50469977 T
1 T
50469978 AACTCTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (21 bp):
TTTTTTGAGCCCTTTCGGAGG
Found at i:50474387 original size:101 final size:102
Alignment explanation
Indices: 50474271--50474455 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
50474261 AAAGTGGTGG
* * *
50474271 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAG-ATGATAATGGTCACATGTGTACT
50474334 ACTATGTGCAGGCTACTATACGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATACGTACCGGATAGTTTCGA
* * *
50474372 TCACGTGTGTAGTACTATGTGCAAGCTACTGCGTGTATCAGATGGTAATGGTCACATGTGTACTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATGATAATGGTCACATGTGTACTA
*
50474437 CTATGTGCATGCTACTATA
66 CTATGTGCAGGCTACTATA
50474456 TGAACCAAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATGATAATGGTCACATGTGTACTA
CTATGTGCAGGCTACTATACGTACCGGATAGTTTCGA
Found at i:50474432 original size:51 final size:50
Alignment explanation
Indices: 50474268--50474453 Score: 194
Period size: 51 Copynumber: 3.7 Consensus size: 50
50474258 GTGAAAGTGG
* *
50474268 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-ATGGTA
* *** * * *
50474319 -GGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGATAGTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGGTA
* * * * *
50474368 TCGATCACGTGTGTAGTACTATGTGCAAGCTACTGCGTGTATCAGATGGTAA
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGGT-A
* *
50474420 TGGTCACATGTGTACTACTATGTGCATGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
50474454 TATGAACCAA
Statistics
Matches: 106, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 3 0.03
50 37 0.35
51 65 0.61
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGGTA
Found at i:50474515 original size:45 final size:45
Alignment explanation
Indices: 50474464--50474552 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
50474454 TATGAACCAA
* *
50474464 ACATTATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
*
50474509 ACATTATTGATTAATAAGGTGGTTGCTATGTGTTGAATCCACCG
1 ACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
50474553 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (45 bp):
ACATTATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:50478018 original size:19 final size:20
Alignment explanation
Indices: 50477994--50478033 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
50477984 ACTTTACTAG
50477994 AAAACAAA-AC-TCTTTACAT
1 AAAACAAATACAT-TTTACAT
50478013 AAAACAAATACATTTTACAT
1 AAAACAAATACATTTTACAT
50478033 A
1 A
50478034 TACGACATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 10 0.53
21 1 0.05
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAACAAATACATTTTACAT
Found at i:50481508 original size:16 final size:15
Alignment explanation
Indices: 50481469--50481513 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
50481459 TAATGGAGAG
*
50481469 TGAAGAAATGAAATAA
1 TGAATAAAT-AAATAA
50481485 TGACATAAATAAATAGA
1 TGA-ATAAATAAATA-A
50481502 TGAATAAATAAA
1 TGAATAAATAAA
50481514 ATAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.22
Consensus pattern (15 bp):
TGAATAAATAAATAA
Found at i:50481737 original size:30 final size:30
Alignment explanation
Indices: 50481702--50481803 Score: 87
Period size: 33 Copynumber: 3.2 Consensus size: 30
50481692 ATATCATATT
50481702 TAAATATTTAAAAAGTAAAAGAATAATAAA
1 TAAATATTTAAAAAGTAAAAGAATAATAAA
* * * * *
50481732 TAAATAGATAAAACAAATATAAATAATATTAAA
1 TAAATA-TTTAAA-AAGTA-AAAGAATAATAAA
* * *
50481765 TTTAAGTATTTAAAAAGTAAAAGAACAATATA
1 --TAAATATTTAAAAAGTAAAAGAATAATAAA
50481797 TAAATAT
1 TAAATAT
50481804 AATAAATAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
30 12 0.23
31 4 0.08
32 13 0.25
33 15 0.28
34 4 0.08
35 5 0.09
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (30 bp):
TAAATATTTAAAAAGTAAAAGAATAATAAA
Found at i:50481768 original size:65 final size:65
Alignment explanation
Indices: 50481681--50481876 Score: 272
Period size: 65 Copynumber: 3.0 Consensus size: 65
50481671 AATGAAAAGG
* * * * *
50481681 AAATATAAGTAATATCATATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAAC
1 AAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAAC
50481746 AAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAACAATATATAAATATAATAAAT
1 AAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAG---AATA-ATAAATA-AATAAAT
50481811 AAAAC
61 AAAAC
50481816 AAATAT--ATAATATTAAATTTAAGTATTTAAAAAAGTAAAAGAATAATAAA-AAATAAATAAA
1 AAATATAAATAATATTAAATTTAAGTATTT-AAAAAGTAAAAGAATAATAAATAAATAAATAAA
50481877 TAGATAAAAC
Statistics
Matches: 120, Mismatches: 5, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
63 10 0.08
64 1 0.01
65 43 0.36
66 4 0.03
68 26 0.22
69 19 0.16
70 17 0.14
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (65 bp):
AAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAAC
Found at i:50481872 original size:18 final size:20
Alignment explanation
Indices: 50481843--50481885 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
50481833 TTTAAGTATT
50481843 TAAAAAAGTAAA-AGAATA-A
1 TAAAAAAGTAAATA-AATAGA
50481862 TAAAAAA-TAAATAAATAGA
1 TAAAAAAGTAAATAAATAGA
50481881 TAAAA
1 TAAAA
50481886 CGAATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (20 bp):
TAAAAAAGTAAATAAATAGA
Found at i:50488895 original size:41 final size:42
Alignment explanation
Indices: 50488838--50488947 Score: 188
Period size: 41 Copynumber: 2.7 Consensus size: 42
50488828 CATTGAATGT
50488838 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGAT-CAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCCAAA
*
50488879 AAGGGGTTGCTAAGTGCAGATTCCCTGAAACTCTGATCCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCCAAA
*
50488921 AA-GGGTTGCTAAGTGTAGATTCCCCGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA
50488948 GAGGTTGCTA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 59 0.91
42 6 0.09
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (42 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCCAAA
Found at i:50488980 original size:26 final size:26
Alignment explanation
Indices: 50488924--50488973 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
50488914 ATCCAAAAAG
50488924 GGTTGCTAAGTGTAGATTCCCCGAGA
1 GGTTGCTAAGTGTAGATTCCCCGAGA
50488950 GGTTGCTAAGTGCTA-ATTCCCCGA
1 GGTTGCTAAGTG-TAGATTCCCCGA
50488974 ATTGTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (26 bp):
GGTTGCTAAGTGTAGATTCCCCGAGA
Found at i:50488997 original size:42 final size:43
Alignment explanation
Indices: 50488950--50489100 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 43
50488940 TTCCCCGAGA
** *
50488950 GGTTGCTAAGTGCTAATTCC-CCGAATTGTTGATTCTAAAGGT
1 GGTTGCTAAGTGCTAATTCCACCGAATCATTGATTATAAAGGT
* * * * * *
50488992 GGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAAAAGG-
1 GGTTGCTAAGTGCTAATTCCACCGAATCATTGATTAT-AAAGGT
* * * * * *
50489035 GGTTGTTATGTGCTGATTCC-CCGTATCACTGAATAT-AAGGT
1 GGTTGCTAAGTGCTAATTCCACCGAATCATTGATTATAAAGGT
*
50489076 GGTTGCTAAGTGTTAATTCCACCGA
1 GGTTGCTAAGTGCTAATTCCACCGA
50489101 GTAACGGTTA
Statistics
Matches: 85, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
40 4 0.05
41 16 0.19
42 32 0.38
43 28 0.33
44 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (43 bp):
GGTTGCTAAGTGCTAATTCCACCGAATCATTGATTATAAAGGT
Found at i:50489039 original size:43 final size:45
Alignment explanation
Indices: 50488978--50489099 Score: 123
Period size: 43 Copynumber: 2.9 Consensus size: 45
50488968 CCCCGAATTG
* *
50488978 TTGATTCT-AAAGGTGGTTGCTAAGTGTTGATTCCACTGTATC-C
1 TTGATTATAAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCAC
* * * *
50489021 TTGATTGTAAAAGG-GGTTGTTATGTGCTGATTCC-CCGTATCAC
1 TTGATTATAAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCAC
* *
50489064 -TGA--ATATAAGGTGGTTGCTAAGTGTTAATTCCACCG
1 TTGATTATAAAAGGTGGTTGCTAAGTGTTGATTCCACCG
50489100 AGTAACGGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
40 6 0.09
41 16 0.25
42 12 0.19
43 25 0.39
44 5 0.08
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (45 bp):
TTGATTATAAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCAC
Found at i:50491682 original size:43 final size:42
Alignment explanation
Indices: 50491590--50491735 Score: 172
Period size: 43 Copynumber: 3.5 Consensus size: 42
50491580 GTTACTCGGT
* *
50491590 GGAATCAGCACTTAGCAACCACC-TTATATTC-AGTGATACGG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAAG-GATACGG
* *
50491631 GGAATCAGCACATAACAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCACCTTT-ACAATCAAGGATACGG
* ** *
50491673 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 -GGAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACGG
50491716 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
50491736 TCTCAGGGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.02
41 20 0.22
42 31 0.34
43 32 0.36
44 5 0.06
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACGG
Found at i:50491727 original size:42 final size:43
Alignment explanation
Indices: 50491586--50491735 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 43
50491576 AACTGTTACT
* * *
50491586 CGGTGGAATCAGCACTTAGCAACCACC-TTATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
* * *
50491628 CGG-GGAATCAGCACATAACAACC-CCTTTCACAATCAAGGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATA
* * *
50491670 CGGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
50491713 CGG-GGAATCAGCACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
50491736 TCTCAGGGAA
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
40 2 0.02
41 20 0.22
42 35 0.38
43 30 0.33
44 5 0.05
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
Found at i:50491744 original size:26 final size:26
Alignment explanation
Indices: 50491715--50491764 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
50491705 CAATAATTCG
50491715 GGGAATCAGCACTTAGCAACCTCTCA
1 GGGAATCAGCACTTAGCAACCTCTCA
**
50491741 GGGAATTTGCACTTAGCAACCTCT
1 GGGAATCAGCACTTAGCAACCTCT
50491765 TTTTGATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (26 bp):
GGGAATCAGCACTTAGCAACCTCTCA
Found at i:50491795 original size:41 final size:41
Alignment explanation
Indices: 50491738--50491929 Score: 330
Period size: 41 Copynumber: 4.7 Consensus size: 41
50491728 TAGCAACCTC
* * *
50491738 TCAGGGAATTTGCACTTAGCAACCTCTTTTTGATTAGAGTT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
* *
50491779 TCAGGGAATCTGCACTTAGCAACCCTTTTTTTATCAGAGTT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
*
50491820 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
50491861 TCAGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
50491902 TCAGGGAATCTGCACTTAGCAACCCCTT
1 TCAGGGAATCTGCACTTAGCAACCCCTT
50491930 ACATTCAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 142 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (41 bp):
TCAGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
Found at i:50497906 original size:14 final size:14
Alignment explanation
Indices: 50497887--50497926 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50497877 TTGTTTCACT
50497887 GAAAATGACTTATG
1 GAAAATGACTTATG
* *
50497901 GAAAATGATTTCTG
1 GAAAATGACTTATG
*
50497915 AAAAATGACTTA
1 GAAAATGACTTA
50497927 CTTTTCTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (14 bp):
GAAAATGACTTATG
Found at i:50498536 original size:18 final size:18
Alignment explanation
Indices: 50498498--50498533 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
50498488 TTATTATTTT
*
50498498 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
50498516 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
50498534 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:50500159 original size:2 final size:2
Alignment explanation
Indices: 50500152--50500179 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50500142 TCCATGTTTC
50500152 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
50500180 TTATTTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:50505094 original size:17 final size:18
Alignment explanation
Indices: 50505061--50505094 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50505051 TAAATTTTAA
50505061 AATAAATATAGGCATAAT
1 AATAAATATAGGCATAAT
*
50505079 AATAAATTTA-GCATAA
1 AATAAATATAGGCATAA
50505095 CATTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
AATAAATATAGGCATAAT
Found at i:50507942 original size:16 final size:17
Alignment explanation
Indices: 50507921--50507953 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50507911 CTTTCGAATA
50507921 TAGTG-ATTTTTTTTAC
1 TAGTGAATTTTTTTTAC
50507937 TAGTGAATTTTTTTTAC
1 TAGTGAATTTTTTTTAC
50507954 CAGTTGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (17 bp):
TAGTGAATTTTTTTTAC
Found at i:50510199 original size:44 final size:42
Alignment explanation
Indices: 50510139--50510224 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
50510129 AAACATTCAA
* * * *
50510139 ATTGAATCATCGAATTACACAGTATAATTCTAATTAGAATATTC
1 ATTGAATCATCAAATTA-A-AATATAATTCTAATCAAAATATTC
*
50510183 ATTGAATCTTCAAATTAAAATATAATTCTAATCAAAATATTC
1 ATTGAATCATCAAATTAAAATATAATTCTAATCAAAATATTC
50510225 CATTATCAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 21 0.57
43 1 0.03
44 15 0.41
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (42 bp):
ATTGAATCATCAAATTAAAATATAATTCTAATCAAAATATTC
Found at i:50510733 original size:30 final size:29
Alignment explanation
Indices: 50510665--50510745 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 29
50510655 TATTAAAAGT
50510665 ATAATATTTTGGTAAAAAAATTTGGACTTC
1 ATAATATTTTGGTAAAAAAATTT-GACTTC
*
50510695 ATATTATTTTGGTAAATAATAA-TT-ACTTAC
1 ATAATATTTTGGTAAA-AA-AATTTGACTT-C
**
50510725 ATAATATTTTAATAAAAAAAT
1 ATAATATTTTGGTAAAAAAAT
50510746 CCTCTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 2 0.05
29 6 0.14
30 29 0.67
31 4 0.09
32 2 0.05
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (29 bp):
ATAATATTTTGGTAAAAAAATTTGACTTC
Found at i:50511095 original size:16 final size:16
Alignment explanation
Indices: 50511074--50511107 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50511064 TTATTTTATT
* *
50511074 TTTATATACTATGAAA
1 TTTATATAATATAAAA
50511090 TTTATATAATATAAAA
1 TTTATATAATATAAAA
50511106 TT
1 TT
50511108 AAATATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTATATAATATAAAA
Found at i:50525447 original size:50 final size:48
Alignment explanation
Indices: 50525392--50526058 Score: 598
Period size: 50 Copynumber: 13.4 Consensus size: 48
50525382 TGCAATTAAG
* *
50525392 AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTAGA
1 AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTA-A
* *
50525441 ACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAACATTGCAATTAA
1 A-AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGC-AGTAA
* * *
50525491 GAAGATTGAAGCTACAACAGCAGATCTTACTTTCC-AGGCGTTGCAGTGGAA
1 -AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-GCATTGCAGT--AA
* *
50525542 CAGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAA
1 AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGC-AGTAA
* * ** *
50525591 GAATATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGCTGTAGTGGAA
1 -AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGT--AA
* * *
50525642 CAGATTGAAGCTACAACAGCGGATCTCACTTCCCT-GACATTGCAATCAA
1 AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGCAGT-AA
* * * * * * **
50525691 AAGATTGAGGCCACAACGGCGAATCTTATTTCCAT-GCGGTGCAGTGAA
1 AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGT-AA
* *
50525739 ACAGATTGAAGCTACGACAGCGGATCTTACTTCCCT-GACATTGCAATTAA
1 A-AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGC-AGTAA
*
50525789 GAAGATTGAAGCTACAACAGCGGATCTTAC-TCTCCTAGCGTTGCAGTGGAA
1 -AAGATTGAAGCTACAACAGCGGATCTTACTTC-CCTAGCATTGCAGT--AA
* * *
50525840 CAGATTGAAGCTACAACAGCGGATCTCACTTCCCT-GACATTGCAATTAA
1 AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGC-AGTAA
* *
50525889 GAATATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAA
1 -AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGC-AGTAA
* * **
50525939 GAAGATTGAAGCTACAACAGCAGATCTTACTTTCC-AGGCGGTGCAGTGGAA
1 -AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-GCATTGCAGT--AA
* *
50525990 CAGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAA
1 AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGC-AGTAA
*
50526039 GAATATTGAAGCTACAACAG
1 -AAGATTGAAGCTACAACAG
50526059 NNNNNNNNNN
Statistics
Matches: 508, Mismatches: 76, Indels: 67
0.78 0.12 0.10
Matches are distributed among these distances:
48 9 0.02
49 80 0.16
50 393 0.77
51 26 0.05
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (48 bp):
AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTAA
Found at i:50525554 original size:100 final size:100
Alignment explanation
Indices: 50525381--50526020 Score: 898
Period size: 100 Copynumber: 6.4 Consensus size: 100
50525371 AAACCATAGT
*
50525381 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTAGAACAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
*
50525446 TTGAAGCTACAACAGCGGATCTTACTTCCCTAACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
50525481 TTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCC-AGGCGTTGCAGTGGAACAG
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACAG
50525545 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
65 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
50525581 TTGCAATTAAGAATATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGCTGTAGTGGAACAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
*
50525646 TTGAAGCTACAACAGCGGATCTCACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * * * *
50525681 TTGCAATCAA-AAGATTGAGGCCACAACGGCGAATCTTA-TTTCC-ATGCGGTGCAGTGAAACAG
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACAG
*
50525743 ATTGAAGCTACGACAGCGGATCTTACTTCCCTGACA
65 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
50525779 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTCTCCTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
*
50525844 TTGAAGCTACAACAGCGGATCTCACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * * *
50525879 TTGCAATTAAGAATATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAAT-TAAGAA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAA-CA
* * * * *
50525942 GATTGAAGCTACAACAGCAGATCTTACTTTCCAGGCG
64 GATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * *
50525979 GTGCAGTGGAA-CAGATTGAAGCTACAACAGCGGATCTTACTT
1 TTGCAAT-TAAGAAGATTGAAGCTACAACAGCGGATCTTACTT
50526021 CCCTGACATT
Statistics
Matches: 484, Mismatches: 47, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
97 1 0.00
98 62 0.13
99 51 0.11
100 366 0.76
101 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (100 bp):
TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
Found at i:50525647 original size:150 final size:150
Alignment explanation
Indices: 50525393--50526058 Score: 873
Period size: 150 Copynumber: 4.5 Consensus size: 150
50525383 GCAATTAAGA
* * * *
50525393 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGC-AGT-AGAACAGATTGAAGCTA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CATTGCAATTAAG-A-ATATTGAAGCTA
*
50525455 CAACAGCGGATCTTACTTCCCTAACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTA
63 CAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTA
50525520 CTTTCCAGGCGTTGCAGTGGAAC
128 CTTTCCAGGCGTTGCAGTGGAAC
50525543 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAATATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAATATTGAAGCTACAA
* ** * * * * * *
50525608 CAGCGGATCTTACTTTCCT-AGCGCTGTAGTGGAA-CAGATTGAAGCTACAACAGCGGATCTCAC
66 CAGCGGATCTTACTTCCCTGA-CATTGCAAT-TAAGAAGATTGAAGCTACAACAGCAGATCTTAC
* * * * * * *
50525671 TTCCCTGACATTGCAAT-CAAA
129 TTTCCAGGCGTTGCAGTGGAAC
* * * * * * ** * * * *
50525692 AGATTGAGGCCACAACGGCGAATCTTATTTCCATG-CGGTGCAGTGAA-ACAGATTGAAGCTACG
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGA-ATATTGAAGCTACA
*
50525755 ACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACT
65 ACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACT
*
50525820 CTCCTA-GCGTTGCAGTGGAAC
130 TTCC-AGGCGTTGCAGTGGAAC
*
50525841 AGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATTAAGAATATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAATATTGAAGCTACAA
50525906 CAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTT
66 CAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTT
*
50525971 TCCAGGCGGTGCAGTGGAAC
131 TCCAGGCGTTGCAGTGGAAC
50525991 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAATATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAATATTGAAGCTACAA
50526056 CAG
66 CAG
50526059 NNNNNNNNNN
Statistics
Matches: 438, Mismatches: 65, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
147 3 0.01
148 81 0.18
149 64 0.15
150 281 0.64
151 7 0.02
152 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (150 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAGAATATTGAAGCTACAA
CAGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTT
TCCAGGCGTTGCAGTGGAAC
Found at i:50526030 original size:348 final size:348
Alignment explanation
Indices: 50525393--50526035 Score: 958
Period size: 348 Copynumber: 1.8 Consensus size: 348
50525383 GCAATTAAGA
* *
50525393 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTAGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTAGAACAGATTGAAGCTACAA
* *
50525458 CAGCGGATCTTACTTCCCTAACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTT
66 CAGCGGATCTTACTTCCCTAACATTGCAATGAAGAAGATTGAAGCTACAACAGCAGATCTCACTT
* * * * *
50525523 TCCAGGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT
131 CCCAGACATTGCAATGGAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT
* * *
50525588 TAAGAATATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGCTGTAGTGGAACAGATTGAAGC
196 TAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTAGCGCTGCAGTGGAACAGATTGAAGC
50525653 TACAACAGCGGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTT
261 TACAACAGCGGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTT
50525718 ATTTCCATGCGGTGCAGTGAAAC
326 ATTTCCATGCGGTGCAGTGAAAC
* *
50525741 AGATTGAAGCTACGACAGCGGATCTTACTTCCCT-GACATTGCAATTA-AGA-AGATTGAAGCTA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAG-CATTGC-AGTAGA-ACAGATTGAAGCTA
* * * * *
50525803 CAACAGCGGATCTTAC-TCTCCTAGCGTTGCAGTGGAA-CAGATTGAAGCTACAACAGCGGATCT
63 CAACAGCGGATCTTACTTC-CCTAACATTGCAAT-GAAGAAGATTGAAGCTACAACAGCAGATCT
* * *
50525866 CACTTCCCTGACATTGCAAT-TAAGAATATTGAAGCTACAACAGCGGATCTTACTTCCCTGACAT
126 CACTTCCCAGACATTGCAATGGAA-AAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACAT
*
50525930 TGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCC-AGGCGGTGCAGTGGAACAGA
190 TGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTA-GCGCTGCAGTGGAACAGA
*
50525994 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT
254 TTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAAT
50526036 TAAGAATATT
Statistics
Matches: 264, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
347 6 0.02
348 252 0.95
349 6 0.02
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (348 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTAGCATTGCAGTAGAACAGATTGAAGCTACAA
CAGCGGATCTTACTTCCCTAACATTGCAATGAAGAAGATTGAAGCTACAACAGCAGATCTCACTT
CCCAGACATTGCAATGGAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT
TAAGAAGATTGAAGCTACAACAGCAGATCTTACTTTCCTAGCGCTGCAGTGGAACAGATTGAAGC
TACAACAGCGGATCTCACTTCCCTGACATTGCAATCAAAAGATTGAGGCCACAACGGCGAATCTT
ATTTCCATGCGGTGCAGTGAAAC
Found at i:50531408 original size:12 final size:12
Alignment explanation
Indices: 50531391--50531417 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50531381 CTTTATAGTC
50531391 TATTTTTTATTT
1 TATTTTTTATTT
50531403 TATTTTTTATTT
1 TATTTTTTATTT
50531415 TAT
1 TAT
50531418 AATTTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:50543215 original size:18 final size:18
Alignment explanation
Indices: 50543192--50543227 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50543182 CGATATCCAT
50543192 TTCATGGAAAGCAAGCAA
1 TTCATGGAAAGCAAGCAA
*
50543210 TTCATGGAAATCAAGCAA
1 TTCATGGAAAGCAAGCAA
50543228 ATCTTATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (18 bp):
TTCATGGAAAGCAAGCAA
Found at i:50553207 original size:24 final size:24
Alignment explanation
Indices: 50553158--50553208 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
50553148 ATTTGATATT
**
50553158 TATTAGAATAAGGTGTTTCACTCC
1 TATTAGAATAAGGTGTTTCAAGCC
*
50553182 TATTAGAATATGGT-TTTACAAGCC
1 TATTAGAATAAGGTGTTT-CAAGCC
50553206 TAT
1 TAT
50553209 AAATAGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (24 bp):
TATTAGAATAAGGTGTTTCAAGCC
Found at i:50556635 original size:24 final size:24
Alignment explanation
Indices: 50556586--50556636 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
50556576 ATTTGATATT
**
50556586 TATTAGAATAAGGTGTTTCACTCC
1 TATTAGAATAAGGTGTTTCAAGCC
*
50556610 TATTAGAATATGGT-TTTACAAGCC
1 TATTAGAATAAGGTGTTT-CAAGCC
50556634 TAT
1 TAT
50556637 AAATAGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (24 bp):
TATTAGAATAAGGTGTTTCAAGCC
Found at i:50559743 original size:21 final size:22
Alignment explanation
Indices: 50559717--50559759 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
50559707 CCAACAAAGA
*
50559717 AATCAATTTTATG-AATTTTAC
1 AATCAATTGTATGAAATTTTAC
50559738 AATCAATTGTATGCAAATTTTA
1 AATCAATTGTATG-AAATTTTA
50559760 TCGCCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
AATCAATTGTATGAAATTTTAC
Found at i:50559869 original size:21 final size:22
Alignment explanation
Indices: 50559843--50559884 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50559833 GTGTAACATC
50559843 TTAAAT-CTATTT-ATATATGTT
1 TTAAATACT-TTTCATATATGTT
50559864 TTAAATACTTTTCATATATGT
1 TTAAATACTTTTCATATATGT
50559885 AAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (22 bp):
TTAAATACTTTTCATATATGTT
Found at i:50560458 original size:5 final size:5
Alignment explanation
Indices: 50560448--50560500 Score: 79
Period size: 5 Copynumber: 10.4 Consensus size: 5
50560438 AAAAAATACA
* *
50560448 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCC TTTCC TTTCTT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTC-T TTTCT
50560499 TT
1 TT
50560501 CCCATCAACA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 41 0.91
6 4 0.09
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTCT
Found at i:50561421 original size:16 final size:15
Alignment explanation
Indices: 50561401--50561442 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
50561391 TCGAATAAAA
*
50561401 TAAATCTTAAATAAT
1 TAAATCCTAAATAAT
*
50561416 TCAAATCCAAAATAAT
1 T-AAATCCTAAATAAT
50561432 TAAATCCTAAA
1 TAAATCCTAAA
50561443 ACTCAACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAATCCTAAATAAT
Found at i:50561742 original size:15 final size:16
Alignment explanation
Indices: 50561724--50561753 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50561714 ATTTTAAATT
50561724 AATAT-TTTTTATAAA
1 AATATATTTTTATAAA
50561739 AATATATTTTTATAA
1 AATATATTTTTATAA
50561754 TTAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATATTTTTATAAA
Found at i:50570756 original size:21 final size:22
Alignment explanation
Indices: 50570730--50570776 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
50570720 CTCTGCTCAA
*
50570730 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
50570751 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
50570773 ACTC
1 ACTC
50570777 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:50574998 original size:16 final size:16
Alignment explanation
Indices: 50574977--50575010 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
50574967 ATTAGAGTCA
50574977 ATTTTGAGTTCAAGTT
1 ATTTTGAGTTCAAGTT
*
50574993 ATTTTGAGTTTAAGTT
1 ATTTTGAGTTCAAGTT
50575009 AT
1 AT
50575011 ACATGTACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (16 bp):
ATTTTGAGTTCAAGTT
Found at i:50578215 original size:284 final size:284
Alignment explanation
Indices: 50577875--50578393 Score: 792
Period size: 284 Copynumber: 1.8 Consensus size: 284
50577865 TGTATCAATG
*
50577875 AATTTCAACACAGGGATATAGTGATCAAAACACAAAATCTACCATATTCCAGAAATACAAAAGTC
1 AATTTCAACACAGGGATATAGTGATCAAAACACAAAATCTACCATATTCAAGAAATACAAAAGTC
* * *
50577940 AATGATCCAAACACAACAACAAAACAGCGTCAAGAACTGGGTTTTGGGTGTTGACTACAA-AAAC
66 AATGATCCAAACACAACAACAAAACAGCATCAAGAACTGGGTTTTGGGTGCTGAATACAAGAAA-
* * **
50578004 AAAAAGGATCAAATCAATGAATTTCAACTAAATGAAGAAA-AA-AAATTGAACCCATTTAAGAAA
130 AAAAAGGATCAAATCAATAAATTTCAACTAAAT-AA-AAACAATAAACTGAACCCACCTAAGAAA
* *
50578067 ATGAGGCAATCTAATTGCAAAAGTGAGCAAAACTAAGAAACAATCTATGTATTGCAATCCGCACA
193 ATAAGGCAATCTAATTGCAAAAGTGAGCAAAACCAAGAAACAATCTATGTATTGCAATCCGCACA
50578132 ATGGAAATGTAAATGTTTAGATTGTGA
258 ATGGAAATGTAAATGTTTAGATTGTGA
*
50578159 AATTTCAACACAGGGATATAGTGATCAAAACACAAAATCTACCATATTCAAGAAATACACAAGTC
1 AATTTCAACACAGGGATATAGTGATCAAAACACAAAATCTACCATATTCAAGAAATACAAAAGTC
* * *
50578224 AATGATCCAAATACAACAACAAAACAGCATCAAGAATTGGGTTTTTGGTGCTGAATACAAGAAAA
66 AATGATCCAAACACAACAACAAAACAGCATCAAGAACTGGGTTTTGGGTGCTGAATACAAGAAAA
* * *** * *
50578289 ATATGGATTTTATCAATAAATTTCAGCTAAATAAAAACAATAACCTGAACCCACCTAAGAAAATA
131 AAAAGGATCAAATCAATAAATTTCAACTAAATAAAAACAATAAACTGAACCCACCTAAGAAAATA
*
50578354 AGGCAATCTAATTGCAAAAGTGAGCAAAGCCAAGAAACAA
196 AGGCAATCTAATTGCAAAAGTGAGCAAAACCAAGAAACAA
50578394 AAGAAAAAGG
Statistics
Matches: 210, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
282 3 0.01
283 4 0.02
284 200 0.95
285 3 0.01
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (284 bp):
AATTTCAACACAGGGATATAGTGATCAAAACACAAAATCTACCATATTCAAGAAATACAAAAGTC
AATGATCCAAACACAACAACAAAACAGCATCAAGAACTGGGTTTTGGGTGCTGAATACAAGAAAA
AAAAGGATCAAATCAATAAATTTCAACTAAATAAAAACAATAAACTGAACCCACCTAAGAAAATA
AGGCAATCTAATTGCAAAAGTGAGCAAAACCAAGAAACAATCTATGTATTGCAATCCGCACAATG
GAAATGTAAATGTTTAGATTGTGA
Found at i:50582320 original size:20 final size:19
Alignment explanation
Indices: 50582295--50582344 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
50582285 TACAATTGTA
50582295 ATAAATACAACTGAATAATT
1 ATAAATACAA-TGAATAATT
* * *
50582315 ATAAATAGAATGATTTATT
1 ATAAATACAATGAATAATT
50582334 ATAATATACAA
1 ATAA-ATACAA
50582345 ATTGATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (19 bp):
ATAAATACAATGAATAATT
Found at i:50583852 original size:3 final size:3
Alignment explanation
Indices: 50583844--50583871 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
50583834 TAGTTTACCC
50583844 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
50583872 GGGTTTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50587483 original size:20 final size:20
Alignment explanation
Indices: 50587458--50587505 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
50587448 AATATATCTA
50587458 AAACACGTAGACAGAATTGT
1 AAACACGTAGACAGAATTGT
50587478 AAACACGTAGACAGAATTGT
1 AAACACGTAGACAGAATTGT
50587498 AAACACGT
1 AAACACGT
50587506 GTATACAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (20 bp):
AAACACGTAGACAGAATTGT
Found at i:50587859 original size:35 final size:35
Alignment explanation
Indices: 50587813--50587882 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
50587803 AAGTTTAAGA
50587813 ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
1 ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
50587848 ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
1 ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
50587883 TTTTAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (35 bp):
ACATTTAGTGAAATTAACCCGATAATATGGTGCAT
Found at i:50589468 original size:16 final size:16
Alignment explanation
Indices: 50589447--50589478 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50589437 CGCTGTATTA
50589447 GAATAGAGGCGTAATG
1 GAATAGAGGCGTAATG
50589463 GAATAGAGGCGTAATG
1 GAATAGAGGCGTAATG
50589479 ACAAATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.38, T:0.19
Consensus pattern (16 bp):
GAATAGAGGCGTAATG
Found at i:50589509 original size:45 final size:45
Alignment explanation
Indices: 50589458--50589569 Score: 199
Period size: 45 Copynumber: 2.5 Consensus size: 45
50589448 AATAGAGGCG
50589458 TAATGGAATAGAGGCGTAAT-GACAAATCAATTGTTTGGTTGAATA
1 TAATGGAATAGAGGCGTAATAG-CAAATCAATTGTTTGGTTGAATA
*
50589503 TAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATG
1 TAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATA
50589548 TAATGGAATAGAGGCGTAATAG
1 TAATGGAATAGAGGCGTAATAG
50589570 TTTTCTTGTG
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
45 64 0.98
46 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (45 bp):
TAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATA
Found at i:50589866 original size:196 final size:196
Alignment explanation
Indices: 50589532--50589925 Score: 761
Period size: 196 Copynumber: 2.0 Consensus size: 196
50589522 TAGCAAATCA
** *
50589532 ATTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTTTTCTTGTGTTTGGTTGAATGGAATG
1 ATTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATGGAATA
50589597 GAGGTGTAATAGCATAAGGGAAAAAATTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAG
66 GAGGTGTAATAGCATAAGGGAAAAAATTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAG
50589662 GTGAATGATTATTGTTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAAT
131 GTGAATGATTATTGTTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAAT
50589727 T
196 T
50589728 ATTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATGGAATA
1 ATTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATGGAATA
50589793 GAGGTGTAATAGCATAAGGGAAAAAATTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAG
66 GAGGTGTAATAGCATAAGGGAAAAAATTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAG
50589858 GTGAATGATTATTGTTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAAT
131 GTGAATGATTATTGTTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAAT
50589923 T
196 T
50589924 AT
1 AT
50589926 ATTTTAACAT
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 195 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (196 bp):
ATTGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATGGAATA
GAGGTGTAATAGCATAAGGGAAAAAATTAAAATGACTAGAATACCCTTAGCAGAAATTTGTTTAG
GTGAATGATTATTGTTGTTATTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAAT
T
Found at i:50590095 original size:17 final size:18
Alignment explanation
Indices: 50590044--50590095 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 18
50590034 ATACTATAAA
50590044 ATATAATTTAAANTT-AAAT
1 ATATAATTT-AA-TTAAAAT
50590063 ATAT--TTTAATTAAAAT
1 ATATAATTTAATTAAAAT
50590079 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
50590096 TCTTAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 10 0.33
17 9 0.30
18 5 0.17
19 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:50590150 original size:66 final size:66
Alignment explanation
Indices: 50590080--50590267 Score: 208
Period size: 57 Copynumber: 3.1 Consensus size: 66
50590070 AATTAAAATA
50590080 TATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTCATATAATAATATATGATA
1 TATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTCATATAATAATATATGATA
50590145 C
66 C
* * * ** **
50590146 TATAA---AATATAA-T-TTAA-CAT--A-ATTATTAT-T-AA-AT-ATATTTTAAT-TAAAATA
1 TATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTCATATAATAATATATGATA
50590197 -
66 C
50590197 TATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTCATATAATAATATATGATA
1 TATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTCATATAATAATATATGATA
50590262 C
66 C
50590263 TATAA
1 TATAA
50590268 AATATAATTT
Statistics
Matches: 93, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
51 5 0.05
52 5 0.05
53 8 0.09
54 7 0.08
55 3 0.03
56 5 0.05
57 10 0.11
58 1 0.01
59 1 0.01
60 10 0.11
61 5 0.05
62 3 0.03
63 7 0.08
64 8 0.09
65 5 0.05
66 10 0.11
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (66 bp):
TATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTCATATAATAATATATGATA
C
Found at i:50590182 original size:26 final size:26
Alignment explanation
Indices: 50590150--50590305 Score: 71
Period size: 26 Copynumber: 5.5 Consensus size: 26
50590140 TGATACTATA
50590150 AAATATAATTTAACATAATTATTATT
1 AAATATAATTTAACATAATTATTATT
* * * *
50590176 AAATATATTTTAATTAAAATATATAATT
1 AAATATAATTTAA-CATAAT-TATTATT
* * * * *
50590204 TAATAAAATTCTTA-ATAATCAATATT
1 AAATATAATT-TAACATAATTATTATT
* *
50590230 ATTATATGAATTTCATATAATAATATATGATACTAT
1 A-AATAT-AATTT-A-A-CATAAT-TAT--TA-T-T
50590266 AAAATATAATTTAACATAATTATTATT
1 A-AATATAATTTAACATAATTATTATT
*
50590293 AAATATATTTTAA
1 AAATATAATTTAA
50590306 TTAAAATATA
Statistics
Matches: 94, Mismatches: 22, Indels: 28
0.65 0.15 0.19
Matches are distributed among these distances:
26 27 0.29
27 14 0.15
28 18 0.19
29 5 0.05
31 8 0.09
32 6 0.06
33 1 0.01
34 3 0.03
35 6 0.06
36 6 0.06
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (26 bp):
AAATATAATTTAACATAATTATTATT
Found at i:50590199 original size:18 final size:17
Alignment explanation
Indices: 50590178--50590212 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50590168 TTATTATTAA
*
50590178 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50590196 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50590213 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:50590208 original size:117 final size:117
Alignment explanation
Indices: 50589923--50590330 Score: 593
Period size: 117 Copynumber: 3.5 Consensus size: 117
50589913 ATAATTTAAT
* * * *
50589923 TATATTTTAACATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
* * * * *
50589988 ATATTAAATATATTCTTATATGAATTT-ACTAAAATCAAAATATATAATACTATAAAA
66 ATAAT-CA-ATATTATTATATGAATTTCA-TATAAT---AATATATGATACTATAAAA
*
50590045 TATAA-TT----TAA--A--NTTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
50590101 ATAATCAATATTATTATATGAATTTCATATAATAATATATGATACTATAAAA
66 ATAATCAATATTATTATATGAATTTCATATAATAATATATGATACTATAAAA
50590153 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
50590218 ATAATCAATATTATTATATGAATTTCATATAATAATATATGATACTATAAAA
66 ATAATCAATATTATTATATGAATTTCATATAATAATATATGATACTATAAAA
*
50590270 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
50590331 TAAAAAATTA
Statistics
Matches: 265, Mismatches: 11, Indels: 25
0.88 0.04 0.08
Matches are distributed among these distances:
108 23 0.09
109 2 0.01
111 22 0.08
112 2 0.01
113 49 0.18
115 2 0.01
117 159 0.60
121 2 0.01
122 4 0.02
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (117 bp):
TATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
ATAATCAATATTATTATATGAATTTCATATAATAATATATGATACTATAAAA
Found at i:50590316 original size:18 final size:17
Alignment explanation
Indices: 50590293--50590329 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
50590283 AATTATTATT
50590293 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
50590309 AAATATATGATTTAATA
1 AAATATATGATTTAATA
50590326 AAAT
1 AAAT
50590330 TTAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:50597570 original size:27 final size:27
Alignment explanation
Indices: 50597527--50597592 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
50597517 AAAATTAACT
50597527 AAAATAT-TATAACTTTTTTTATTTACC
1 AAAATATATATAA-TTTTTTTATTTACC
50597554 AAAATATATA-AATTTTTTTATTTACC
1 AAAATATATATAATTTTTTTATTTACC
50597580 AAAATATATATAA
1 AAAATATATATAA
50597593 AAAAACCTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 24 0.65
27 11 0.30
28 2 0.05
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAATATATATAATTTTTTTATTTACC
Found at i:50597680 original size:27 final size:27
Alignment explanation
Indices: 50597641--50597716 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
50597631 AACTAGTCAC
*
50597641 GCCAATGGAATTGGCGGCACCAATGGT
1 GCCAATGCAATTGGCGGCACCAATGGT
*
50597668 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCAATTGGCGGCACCAATGGT
*
50597695 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
50597717 CTCGTATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.18
Consensus pattern (27 bp):
GCCAATGCAATTGGCGGCACCAATGGT
Found at i:50597888 original size:19 final size:21
Alignment explanation
Indices: 50597850--50597888 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
50597840 AATAACTGAT
*
50597850 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
50597871 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
50597889 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:50598184 original size:34 final size:34
Alignment explanation
Indices: 50598146--50598318 Score: 140
Period size: 34 Copynumber: 5.4 Consensus size: 34
50598136 GTTAGTTAGT
*
50598146 TATTATTTTTAGTATAATTAATAATTTTAGTGTG
1 TATTATTTTGAGTATAATTAATAATTTTAGTGTG
* * *
50598180 TATTATTTTGAGTAT-A-TAGTTA-GTTA--GT-
1 TATTATTTTGAGTATAATTAATAATTTTAGTGTG
* *
50598208 TATTATTTTTAGTAAAATTAATAATTTTAGTGTG
1 TATTATTTTGAGTATAATTAATAATTTTAGTGTG
* *
50598242 TATTATTTTGAGTATAA--AAT--TATTA----A
1 TATTATTTTGAGTATAATTAATAATTTTAGTGTG
50598268 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
1 TATTATTTTGAGTAT--AATTAATAATTTTAGTGTG
* *
50598304 TAATATTTTGTGTAT
1 TATTATTTTGAGTAT
50598319 TATTTTGAGT
Statistics
Matches: 106, Mismatches: 17, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
26 15 0.14
28 15 0.14
29 3 0.03
30 11 0.10
31 6 0.06
32 11 0.10
33 3 0.03
34 29 0.27
36 13 0.12
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (34 bp):
TATTATTTTGAGTATAATTAATAATTTTAGTGTG
Found at i:50598200 original size:62 final size:62
Alignment explanation
Indices: 50598134--50598318 Score: 275
Period size: 62 Copynumber: 3.0 Consensus size: 62
50598124 TATAGTTAGT
50598134 TAGTTAGTTAGTTATTATTTTTAGTATAATTAATAATTTTAGTGTGTATTATTTTGAGTATA
1 TAGTTAGTTAGTTATTATTTTTAGTATAATTAATAATTTTAGTGTGTATTATTTTGAGTATA
*
50598196 TAGTTAGTTAGTTATTATTTTTAGTAAAATTAATAATTTTAGTGTGTATTATTTTGAGTATA
1 TAGTTAGTTAGTTATTATTTTTAGTATAATTAATAATTTTAGTGTGTATTATTTTGAGTATA
* * * * * *
50598258 AAATTA-TTA-ATATTATTTTGAGTATAAAATTAATAATTTTAGTGTGTAATATTTTGTGTAT
1 TAGTTAGTTAGTTATTATTTTTAGTAT--AATTAATAATTTTAGTGTGTATTATTTTGAGTAT
50598319 TATTTTGAGT
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
60 13 0.12
61 3 0.03
62 97 0.86
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.53
Consensus pattern (62 bp):
TAGTTAGTTAGTTATTATTTTTAGTATAATTAATAATTTTAGTGTGTATTATTTTGAGTATA
Found at i:50598260 original size:36 final size:36
Alignment explanation
Indices: 50598208--50598318 Score: 102
Period size: 26 Copynumber: 3.4 Consensus size: 36
50598198 GTTAGTTAGT
*
50598208 TATTATTTTTAG--TAAAATTAATAATTTTAGTGTG
1 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
*
50598242 TATTATTTTGAGTATAAAA-T--T-A--TTA----A
1 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
50598268 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
1 TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
* *
50598304 TAATATTTTGTGTAT
1 TATTATTTTGAGTAT
50598319 TATTTTGAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
26 19 0.32
27 1 0.02
29 1 0.02
30 4 0.07
32 4 0.07
33 1 0.02
34 11 0.18
35 1 0.02
36 18 0.30
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (36 bp):
TATTATTTTGAGTATAAAATTAATAATTTTAGTGTG
Done.