Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 324 of 373
Found at i:108829862 original size:11 final size:11
Alignment explanation
Indices: 108829741--108829862 Score: 57
Period size: 11 Copynumber: 10.7 Consensus size: 11
108829731 TGTTTTAATG
*
108829741 TTATTTTCTTA
1 TTATTTTATTA
* **
108829752 TTATTTTCTCC
1 TTATTTTATTA
108829763 TTATTTTATTA
1 TTATTTTATTA
**
108829774 CCATTTTATTA
1 TTATTTTATTA
* **
108829785 TTATATTACCA
1 TTATTTTATTA
*
108829796 TTATTTTGTTA
1 TTATTTTATTA
*
108829807 TTATTGT-TTA
1 TTATTTTATTA
* **
108829817 GATATTGTATAACA
1 -TTATT-T-TATTA
*
108829831 CTTATTTTATTG
1 -TTATTTTATTA
108829843 TTAATTTTATTA
1 TT-ATTTTATTA
108829855 TTATTTTA
1 TTATTTTA
108829863 GAGACATTTA
Statistics
Matches: 79, Mismatches: 27, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
10 3 0.04
11 57 0.72
12 12 0.15
13 2 0.03
14 5 0.06
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:108841559 original size:20 final size:19
Alignment explanation
Indices: 108841497--108841561 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
108841487 CATATTTTAT
*
108841497 TTTTTATAAT-ATTTTAGAA
1 TTTTT-TAATAATTTTAAAA
* *
108841516 TCTTTTAATAATTATTAATA
1 TTTTTTAATAATT-TTAAAA
108841536 TTTTTTAATAATTTTAAAA
1 TTTTTTAATAATTTTAAAA
108841555 GTTTTTT
1 -TTTTTT
108841562 TCACTCATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 22 0.58
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTTTAATAATTTTAAAA
Found at i:108847194 original size:40 final size:40
Alignment explanation
Indices: 108847129--108847205 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
108847119 ACTATGTTTG
* *
108847129 GCACTTAGTGTGCGTTTCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGATTCGAGATAGCTCCGGCTATATAAA
*
108847169 GCACTTAGTGTGCGAATTGGA-ATAGCTCCGGCTATAT
1 GCACTTAGTGTGCG-ATTCGAGATAGCTCCGGCTATAT
108847206 GTGGCACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTCCGGCTATATAAA
Found at i:108847213 original size:40 final size:41
Alignment explanation
Indices: 108847127--108847223 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
108847117 TGACTATGTT
* *
108847127 TGGCACTTAGTGTGCG-TTTCGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATA
** * *
108847167 AAGCACTTAGTGTGCGAATTGGA-ATAGCTCCGGCTATATG
1 TGGCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATA
* *
108847207 TGGCACTAAGTCTGCGA
1 TGGCACTTAGTGTGCGA
108847224 TACTAGGATA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATA
Found at i:108859130 original size:60 final size:58
Alignment explanation
Indices: 108859003--108859131 Score: 141
Period size: 58 Copynumber: 2.2 Consensus size: 58
108858993 CACGTGACAT
** * * *
108859003 CCCCAAACTATGATTTTCATTCTAAAGTAGTTCCAAACTTCAAATATTTTAATTACAT
1 CCCCAAACTATGATACTCATTCTAAACTAGTTCCAAACTTCAAATATTCTAATTACAA
* * * *
108859061 CCCCGAACTATGATACTCATTCTAAACTGGTATCTAAGCTTCAAAATATTCTAATTACAA
1 CCCCAAACTATGATACTCATTCTAAACTAGT-TCCAAACTTC-AAATATTCTAATTACAA
**
108859121 CTTCAAACTAT
1 CCCCAAACTAT
108859132 CAATGTTTTA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
58 26 0.46
59 8 0.14
60 23 0.40
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (58 bp):
CCCCAAACTATGATACTCATTCTAAACTAGTTCCAAACTTCAAATATTCTAATTACAA
Found at i:108863531 original size:28 final size:28
Alignment explanation
Indices: 108863500--108863563 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
108863490 TTATTTTTTA
*
108863500 AAATTATTAAATAATA-TAAT-TTCATTTC
1 AAATTATTAAATAAGACTAATATT-A-TTC
* *
108863528 AAATCATTAATTAAGACTAATATTATTC
1 AAATTATTAAATAAGACTAATATTATTC
108863556 AAATTATT
1 AAATTATT
108863564 GAACTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 23 0.77
29 5 0.17
30 2 0.07
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATTATTAAATAAGACTAATATTATTC
Found at i:108864042 original size:62 final size:62
Alignment explanation
Indices: 108863945--108864068 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
108863935 ATTATTCGTC
*
108863945 AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCGGAAAAAAATCACA
1 AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCAGAAAAAAATCACA
108864007 AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCAGAAAAAAATCACA
1 AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCAGAAAAAAATCACA
108864069 GGTAAAACAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.56, C:0.11, G:0.09, T:0.24
Consensus pattern (62 bp):
AAGCAATAAAAATAAAAACACGTAGATTTTATATGAAAAATCTTTATCAGAAAAAAATCACA
Found at i:108868441 original size:18 final size:18
Alignment explanation
Indices: 108868418--108868454 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
108868408 CACTAAATCC
108868418 ACATTTGCCAAGTACTGA
1 ACATTTGCCAAGTACTGA
108868436 ACATTTGCCAAGTACTGA
1 ACATTTGCCAAGTACTGA
108868454 A
1 A
108868455 GTATTTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (18 bp):
ACATTTGCCAAGTACTGA
Found at i:108869245 original size:28 final size:28
Alignment explanation
Indices: 108869214--108869280 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
108869204 AGTTTTTGGC
* *
108869214 TTTAGGGTTTAGTC-TTTAATATTTTAAG
1 TTTAGGGTTTAG-CATTTAAGATTTAAAG
* *
108869242 TTTAGGGTGTAGCATTTAAGGTTTAAAG
1 TTTAGGGTTTAGCATTTAAGATTTAAAG
108869270 TTTAGGGTTTA
1 TTTAGGGTTTA
108869281 TGTATTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTAGCATTTAAGATTTAAAG
Found at i:108871625 original size:14 final size:15
Alignment explanation
Indices: 108871589--108871626 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
108871579 AGGGTCAAGA
108871589 TTTATGGTTTCATGT
1 TTTATGGTTTCATGT
*
108871604 TTT-GGGTTT-ATGT
1 TTTATGGTTTCATGT
108871617 TTTATGGTTT
1 TTTATGGTTT
108871627 GAGTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 7 0.35
14 10 0.50
15 3 0.15
ACGTcount: A:0.11, C:0.03, G:0.24, T:0.63
Consensus pattern (15 bp):
TTTATGGTTTCATGT
Found at i:108871627 original size:20 final size:21
Alignment explanation
Indices: 108871589--108871633 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
108871579 AGGGTCAAGA
* *
108871589 TTTATGGTTTCATGTTTTGGG
1 TTTATGGTTTCATGGTTTGAG
*
108871610 TTTAT-GTTTTATGGTTTGAG
1 TTTATGGTTTCATGGTTTGAG
108871630 TTTA
1 TTTA
108871634 AAGTTTTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.13, C:0.02, G:0.24, T:0.60
Consensus pattern (21 bp):
TTTATGGTTTCATGGTTTGAG
Found at i:108888029 original size:13 final size:13
Alignment explanation
Indices: 108888013--108888046 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
108888003 AATAAAATAA
108888013 TAAAATATCTTAT
1 TAAAATATCTTAT
108888026 TAAAATATCTTAT
1 TAAAATATCTTAT
108888039 TAAAATAT
1 TAAAATAT
108888047 TAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:108903275 original size:15 final size:15
Alignment explanation
Indices: 108903255--108903284 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108903245 TAGAACAATT
108903255 AATATGAAAAGTTTA
1 AATATGAAAAGTTTA
*
108903270 AATATGAAAATTTTA
1 AATATGAAAAGTTTA
108903285 TTTCAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AATATGAAAAGTTTA
Found at i:108907049 original size:202 final size:202
Alignment explanation
Indices: 108906703--108907108 Score: 803
Period size: 202 Copynumber: 2.0 Consensus size: 202
108906693 GTGAAGATAT
108906703 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
1 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
*
108906768 CTTTATTAAACCCTTGATTCTTTTTTTTTTCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
66 CTTTATTAAACCCTTGATTCTTTTTTTTTCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
108906833 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
131 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
108906898 TCGACAA
196 TCGACAA
108906905 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
1 TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
108906970 CTTTATTAAACCCTTGATTCTTTTTTTTTCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
66 CTTTATTAAACCCTTGATTCTTTTTTTTTCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
108907035 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
131 AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
108907100 TCGACAA
196 TCGACAA
108907107 TC
1 TC
108907109 TGTTCTGAGT
Statistics
Matches: 203, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 203 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (202 bp):
TCACCAAATCATGTCATCTTACTTTGATATTATTTGCAACCATAAAAGAATTCATTTTCATTTAA
CTTTATTAAACCCTTGATTCTTTTTTTTTCCTATTTATGACCTTGCTCTCTTTTCATTAATATGA
AATTCATAGTTTTATGTTTGTGTCTAGATAATTTAGCAGTACTAAGTCTTTCCAGTTAAGGATGT
TCGACAA
Found at i:108916381 original size:31 final size:31
Alignment explanation
Indices: 108916305--108916387 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
108916295 TGAGAATTTG
108916305 ATTAAATCAAAATTTCATGTATAAAATTACAC
1 ATTAAATCAAAA-TTCATGTATAAAATTACAC
* *
108916337 A--AAATCAAAATTCATGTATACAAA-TGCAT
1 ATTAAATCAAAATTCATGTATA-AAATTACAC
* *
108916366 ATTAAATGAAAATTCATATATA
1 ATTAAATCAAAATTCATGTATA
108916388 GTTTTGAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 14 0.32
30 12 0.27
31 17 0.39
32 1 0.02
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.33
Consensus pattern (31 bp):
ATTAAATCAAAATTCATGTATAAAATTACAC
Found at i:108920871 original size:24 final size:24
Alignment explanation
Indices: 108920836--108920889 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
108920826 TATTTTAATA
*
108920836 TATAAA-ATATAAATTTTAAATATT
1 TATAAACA-ATAAATATTAAATATT
* *
108920860 TTTAAACAATAAATATTAATTATT
1 TATAAACAATAAATATTAAATATT
108920884 TATAAA
1 TATAAA
108920890 ATTTAATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAACAATAAATATTAAATATT
Found at i:108922263 original size:34 final size:34
Alignment explanation
Indices: 108922225--108922289 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
108922215 ATAAATTCCA
*
108922225 ATTTAATCTAAACAAGTTTAGTTATTTTATTAGT
1 ATTTAATCTAAACAAATTTAGTTATTTTATTAGT
*
108922259 ATTTAATCTGAACAAATTTAGTTATTTTATT
1 ATTTAATCTAAACAAATTTAGTTATTTTATT
108922290 TTTGTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (34 bp):
ATTTAATCTAAACAAATTTAGTTATTTTATTAGT
Found at i:108924897 original size:22 final size:23
Alignment explanation
Indices: 108924872--108924917 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
108924862 CAACCAAACC
108924872 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
108924894 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
108924917 A
1 A
108924918 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:108936265 original size:69 final size:69
Alignment explanation
Indices: 108936180--108936389 Score: 197
Period size: 69 Copynumber: 3.3 Consensus size: 69
108936170 TAAATTCATA
* *
108936180 TAAGAATTTGAGTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
1 TAAGAATTTTATTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
108936245 TTAT
66 TTAT
** * * *
108936249 TAAGAATTTTATTAAATTATA-TATTTTA-ATTAT-A----A-TATATTTA-ATAA-TA-ATT-A
1 TAAGAATTTTATTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
*
108936302 -TGT
66 TTAT
*
108936305 T---AATTTATATT---TTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
1 TAAGAATTT-TATTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTA
108936364 ATTAT
65 ATTAT
108936369 TAAGAATTTTATTAAATTATA
1 TAAGAATTTTATTAAATTATA
108936390 TATTTTAATC
Statistics
Matches: 105, Mismatches: 16, Indels: 40
0.65 0.10 0.25
Matches are distributed among these distances:
51 4 0.04
52 5 0.05
53 10 0.10
54 5 0.05
56 3 0.03
57 1 0.01
58 4 0.04
59 7 0.07
60 8 0.08
61 7 0.07
62 4 0.04
63 1 0.01
64 3 0.03
66 5 0.05
67 10 0.10
68 5 0.05
69 23 0.22
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (69 bp):
TAAGAATTTTATTAAATTATAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAA
TTAT
Found at i:108936293 original size:15 final size:15
Alignment explanation
Indices: 108936258--108936309 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
108936248 TTAAGAATTT
*
108936258 TATTAAATTAT-ATA
1 TATTTAATTATAATA
108936272 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
108936286 TATTTAATAATAAT-
1 TATTTAATTATAATA
108936300 TATGTTAATT
1 TAT-TTAATT
108936310 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:108936341 original size:120 final size:120
Alignment explanation
Indices: 108936200--108936545 Score: 683
Period size: 120 Copynumber: 2.9 Consensus size: 120
108936190 AGTAAATTAT
108936200 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
108936265 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAC
108936320 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
*
108936385 TTATATATTTTAATCATAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAC
108936440 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
108936505 TTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TTATATATTTTAATTATAATATATTTAATAATAATTATGTT
108936546 TAAATATGAT
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 224 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAC
Found at i:108936366 original size:66 final size:66
Alignment explanation
Indices: 108936291--108936488 Score: 208
Period size: 66 Copynumber: 3.2 Consensus size: 66
108936281 TAATATATTT
108936291 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
1 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
108936356 G
66 G
* * * * *
108936357 AATATTAATTAT-TAAGAATTT-TA--TTA-A--ATTATATATT-TTA-ATCA-T-AA-T-ATAT
1 AATAATAATTATGT--TAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATAT
**
108936409 -TT
64 AAG
108936411 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
1 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
108936476 G
66 G
*
108936477 AATATTAATTAT
1 AATAATAATTAT
108936489 TAAGAATTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 12 0.12
60 4 0.04
61 12 0.12
62 1 0.01
63 3 0.03
64 4 0.04
65 5 0.05
66 24 0.24
67 5 0.05
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (66 bp):
AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
G
Found at i:108936408 original size:16 final size:16
Alignment explanation
Indices: 108936387--108936428 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
108936377 TTATTAAATT
*
108936387 ATATATTTTAATCATA
1 ATATATTTTAATAATA
108936403 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
*
108936418 AT-TATGTTAAT
1 ATATATTTTAAT
108936429 TTATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:108936528 original size:16 final size:16
Alignment explanation
Indices: 108936507--108936548 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
108936497 TTATTAAATT
*
108936507 ATATATTTTAATTATA
1 ATATATTTTAATAATA
108936523 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
108936538 AT-TATGTTTAA
1 ATATAT-TTTAA
108936549 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:108936533 original size:15 final size:15
Alignment explanation
Indices: 108936498--108936539 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
108936488 TTAAGAATTT
*
108936498 TATTAAATTAT-ATA
1 TATTTAATTATAATA
108936512 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
108936526 TATTTAATAATAAT
1 TATTTAATTATAAT
108936540 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:108936785 original size:16 final size:16
Alignment explanation
Indices: 108936764--108936831 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
108936754 GATTTGCTAT
108936764 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
108936780 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
108936796 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
*
108936812 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
108936828 TACA
1 TACA
108936832 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:108940417 original size:33 final size:30
Alignment explanation
Indices: 108940355--108940417 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 30
108940345 ATTTAAATAT
**
108940355 TTTTTAAAATTTTATATATTTTATTTTTAA
1 TTTTTAAAATTTTATATAAATTATTTTTAA
108940385 TTTTTAAAATTTATATAAATAAATTATTTTTAA
1 TTTTTAAAATTT-TAT--ATAAATTATTTTTAA
108940418 AATTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 12 0.43
31 3 0.11
33 13 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTAAAATTTTATATAAATTATTTTTAA
Found at i:108941110 original size:45 final size:45
Alignment explanation
Indices: 108941059--108941146 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
108941049 GTACTGTAAT
108941059 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
1 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
108941104 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCA
1 GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCA
108941147 TTAATATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.20
Consensus pattern (45 bp):
GAAAAGATAGTTAAATAACATAATAGAATCCAAGACTATGGCAAA
Found at i:108946171 original size:21 final size:21
Alignment explanation
Indices: 108946145--108946185 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108946135 ATCTGCTCAA
* *
108946145 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
108946166 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
108946186 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:108949222 original size:48 final size:48
Alignment explanation
Indices: 108949146--108949242 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
108949136 TAGAAAGCAA
* * *
108949146 TCAGTCAGTTGAAGCGAAAGCAATAACTCTGGAAGTGCTCCACTTACT
1 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
*
108949194 TCAGTTAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
1 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
108949242 T
1 T
108949243 TTATGAATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (48 bp):
TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
Found at i:108950829 original size:24 final size:24
Alignment explanation
Indices: 108950796--108950845 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
108950786 GATTAAAGTT
*
108950796 TCAACGTCTTGTTTCTTCATTCTG
1 TCAACGTCTTGTTTCTTCATCCTG
*
108950820 TCAACTTCTTGTTTCTTCATCCTG
1 TCAACGTCTTGTTTCTTCATCCTG
108950844 TC
1 TC
108950846 TATTGCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.10, T:0.50
Consensus pattern (24 bp):
TCAACGTCTTGTTTCTTCATCCTG
Found at i:108950858 original size:24 final size:24
Alignment explanation
Indices: 108950796--108950858 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
108950786 GATTAAAGTT
* * *
108950796 TCAACGTCTTGTTTCTTCATTCTG
1 TCAACTTCTTATTTCTTCATCCTG
*
108950820 TCAACTTCTTGTTTCTTCATCCTG
1 TCAACTTCTTATTTCTTCATCCTG
*
108950844 TCTA-TTGCTTATTTC
1 TCAACTT-CTTATTTC
108950859 ATCACATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.13, C:0.25, G:0.10, T:0.52
Consensus pattern (24 bp):
TCAACTTCTTATTTCTTCATCCTG
Found at i:108953750 original size:23 final size:23
Alignment explanation
Indices: 108953723--108953767 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
108953713 ACATATGATA
108953723 TTTATCATACACTTGTATTTATT
1 TTTATCATACACTTGTATTTATT
*
108953746 TTTATCATACACTTGTCTTTAT
1 TTTATCATACACTTGTATTTAT
108953768 ATGCACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTATCATACACTTGTATTTATT
Found at i:108966482 original size:12 final size:11
Alignment explanation
Indices: 108966418--108966527 Score: 62
Period size: 12 Copynumber: 10.4 Consensus size: 11
108966408 AATAATAATT
108966418 TTATATTAAAA
1 TTATATTAAAA
108966429 TTATTATT-AAA
1 TTA-TATTAAAA
108966440 -TATTATTAATAA
1 TTA-TATTAA-AA
108966452 TTATATTAATAA
1 TTATATTAA-AA
108966464 TGT-TATTAAAA
1 T-TATATTAAAA
108966475 TATATATT---A
1 T-TATATTAAAA
*
108966484 TTTTATT-AAA
1 TTATATTAAAA
*
108966494 TTATATT--TA
1 TTATATTAAAA
108966503 TTATATTAAAA
1 TTATATTAAAA
108966514 -TATAATT-AAA
1 TTAT-ATTAAAA
108966524 TTAT
1 TTAT
108966528 TTATTTTTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 24
0.74 0.05 0.22
Matches are distributed among these distances:
8 5 0.06
9 10 0.12
10 20 0.24
11 18 0.22
12 26 0.32
13 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:108966503 original size:19 final size:20
Alignment explanation
Indices: 108966466--108966521 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
108966456 ATTAATAATG
108966466 TTATTAAAATATATATTATT
1 TTATTAAAATATATATTATT
*
108966486 TTATTAAATTATAT-TTATT
1 TTATTAAAATATATATTATT
*
108966505 ATATTAAAATATA-ATTA
1 TTATTAAAATATATATTA
108966522 AATTATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTAAAATATATATTATT
Found at i:108966528 original size:19 final size:19
Alignment explanation
Indices: 108966461--108966528 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
108966451 ATTATATTAA
108966461 TAATGTTATTAAAATATATAT
1 TAAT-TTATTAAAATATA-AT
* *
108966482 TATTTTATTAAATTAT-AT
1 TAATTTATTAAAATATAAT
*
108966500 TTATTATATTAAAATATAAT
1 TAATT-TATTAAAATATAAT
*
108966520 TAAATTATT
1 TAATTTATT
108966529 TATTTTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 5 0.13
19 14 0.37
20 16 0.42
21 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (19 bp):
TAATTTATTAAAATATAAT
Found at i:108966731 original size:44 final size:46
Alignment explanation
Indices: 108966661--108966754 Score: 149
Period size: 44 Copynumber: 2.1 Consensus size: 46
108966651 ATTACAACAT
108966661 CATTCCATTCAACCAAACATAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
*
108966705 CATTCCATTCAACCAAACAGT-TGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAATTACTGATTACAGCTCTATTC
108966751 CATT
1 CATT
108966755 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
Found at i:108966757 original size:16 final size:16
Alignment explanation
Indices: 108966736--108966787 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
108966726 TGAATTACTG
108966736 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
108966752 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
108966768 ATTACAAC-CTTATTCC
1 ATTACAGCTC-TATTCC
108966784 ATTA
1 ATTA
108966788 AGGTGAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:108968124 original size:14 final size:14
Alignment explanation
Indices: 108968100--108968133 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
108968090 TACTTTTTAA
108968100 TGGACCTATAGAATG
1 TGGA-CTATAGAATG
108968115 TGGACTATAGAATG
1 TGGACTATAGAATG
108968129 TGGAC
1 TGGAC
108968134 GGCGTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (14 bp):
TGGACTATAGAATG
Found at i:108968883 original size:22 final size:23
Alignment explanation
Indices: 108968840--108968886 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
108968830 CAATTATGAA
*
108968840 TTTTGTTCTTGTACTTGGAAATT
1 TTTTGTTCTTGTACTTAGAAATT
* *
108968863 TTTTGTT-TTGTATTTATAAATT
1 TTTTGTTCTTGTACTTAGAAATT
108968885 TT
1 TT
108968887 AAAATTACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.64
Consensus pattern (23 bp):
TTTTGTTCTTGTACTTAGAAATT
Found at i:108969877 original size:31 final size:30
Alignment explanation
Indices: 108969839--108969906 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
108969829 ATTTTTTTTG
* *
108969839 TATTTTTAAAATTTTTAAAATTTTCGGATTT
1 TATTTTTAAAA-ATATAAAATTTTCGGATTT
** *
108969870 TATTTTTAAAAATATACTATTTTCGTATTT
1 TATTTTTAAAAATATAAAATTTTCGGATTT
108969900 TATTTTT
1 TATTTTT
108969907 TTATATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (30 bp):
TATTTTTAAAAATATAAAATTTTCGGATTT
Found at i:108970011 original size:152 final size:152
Alignment explanation
Indices: 108969849--108970265 Score: 701
Period size: 152 Copynumber: 2.7 Consensus size: 152
108969839 TATTTTTAAA
108969849 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
*
108969914 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAATAAATAACC
* * *
108969979 CTGATTTTGGCTCTTTGTTTGT
131 CTAATTTTGGCCCTTTCTTTGT
*
108970001 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTTGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* *
108970066 ATTTTAGTACATAATGTTTCAAATATATTACTTTAGTGTTTTTTATATTAATTTAATAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAATAAATAACC
108970131 CTAATTTTGGCCCTTTCTTTGT
131 CTAATTTTGGCCCTTTCTTTGT
* * *
108970153 ATTTTTAATATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* * *
108970217 ATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTGTTTTTTTATAT
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGT-ATTTTTTATAT
108970266 AAAAAACCGA
Statistics
Matches: 249, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
151 45 0.18
152 204 0.82
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (152 bp):
ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAATAAATAACC
CTAATTTTGGCCCTTTCTTTGT
Found at i:108991453 original size:1 final size:1
Alignment explanation
Indices: 108991375--108991437 Score: 90
Period size: 1 Copynumber: 63.0 Consensus size: 1
108991365 GAGAAATAAT
* * * *
108991375 AAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATATAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
108991438 TGCATAGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.94, C:0.00, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:108995433 original size:37 final size:39
Alignment explanation
Indices: 108995364--108995440 Score: 140
Period size: 37 Copynumber: 2.0 Consensus size: 39
108995354 AGGTGATGGT
108995364 AAATATATCTGCAAGAAATTAACAAATTACTTACTTGGA
1 AAATATATCTGCAAGAAATTAACAAATTACTTACTTGGA
108995403 AAAT-TATCTGCAAGAAA-TAACAAATTACTTACTTGGA
1 AAATATATCTGCAAGAAATTAACAAATTACTTACTTGGA
108995440 A
1 A
108995441 GGGACAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 21 0.55
38 13 0.34
39 4 0.11
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (39 bp):
AAATATATCTGCAAGAAATTAACAAATTACTTACTTGGA
Found at i:109001432 original size:23 final size:23
Alignment explanation
Indices: 109001406--109001449 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
109001396 TAAAAAATTT
*
109001406 ATCAAATTTAAATTCTAAATTGA
1 ATCAAATTTAAATACTAAATTGA
*
109001429 ATCAAATTTAGATACTAAATT
1 ATCAAATTTAAATACTAAATT
109001450 AGAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.39
Consensus pattern (23 bp):
ATCAAATTTAAATACTAAATTGA
Found at i:109006522 original size:66 final size:66
Alignment explanation
Indices: 109006416--109006546 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
109006406 CAAAAGGTTT
* *
109006416 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
109006481 G
66 G
* *
109006482 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
109006547 CACATTTGCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:109006814 original size:16 final size:16
Alignment explanation
Indices: 109006787--109006820 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
109006777 ATTTTAGTAA
109006787 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
109006804 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
109006819 AT
1 AT
109006821 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:109006849 original size:47 final size:47
Alignment explanation
Indices: 109006798--109006942 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
109006788 TTATATAAGA
*
109006798 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
109006845 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
109006889 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
109006936 ATATTTA
1 ATATTTA
109006943 ATTAAAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:109006909 original size:44 final size:43
Alignment explanation
Indices: 109006784--109006910 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
109006774 ATGATTTTAG
109006784 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTATATAAGAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
109006830 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA--ATATTTATTATTAAGAATTTTAAATTATA
* *
109006874 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATT-ATATAAGAATATTTATTATTAAGAATTTTA
109006911 TGAAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 9 0.14
47 19 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTATATAAGAATATTTATTATTAAGAATTTTAAATTATA
Found at i:109006934 original size:18 final size:18
Alignment explanation
Indices: 109006908--109006970 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
109006898 ATCAAGAATT
*
109006908 TTATGAAATTATATATTA
1 TTATTAAATTATATATTA
109006926 TTATTAAATTATAT-TTA
1 TTATTAAATTATATATTA
109006943 --ATTAAA--ATATATT-
1 TTATTAAATTATATATTA
*
109006956 TTAATTAAAATATAT
1 TT-ATTAAATTATAT
109006971 TTAATAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 4 0.11
14 2 0.05
15 6 0.16
16 6 0.16
17 3 0.08
18 17 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATTAAATTATATATTA
Found at i:109006948 original size:15 final size:15
Alignment explanation
Indices: 109006918--109006975 Score: 80
Period size: 16 Copynumber: 3.7 Consensus size: 15
109006908 TTATGAAATT
*
109006918 ATATATTATTATTAAA
1 ATATATT-TAATTAAA
*
109006934 TTATATTTAATTAAA
1 ATATATTTAATTAAA
109006949 ATATATTTTAATTAAA
1 ATATA-TTTAATTAAA
109006965 ATATATTTAAT
1 ATATATTTAAT
109006976 AATAATTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 17 0.45
16 21 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATTTAATTAAA
Found at i:109006962 original size:91 final size:90
Alignment explanation
Indices: 109006784--109006959 Score: 282
Period size: 91 Copynumber: 1.9 Consensus size: 90
109006774 ATGATTTTAG
* *
109006784 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 TAAATTATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
*
109006849 TTAATATTAATTATTTTAAATTATA
66 TTAATATAAATTATTTTAAATTATA
*
109006874 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATT-ATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
109006939 TTTAAT-TAAAATATATTTTAA
65 TTTAATAT-AAAT-TATTTTAA
109006960 TTAAAATATA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
90 7 0.09
91 64 0.81
92 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (90 bp):
TAAATTATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
TTAATATAAATTATTTTAAATTATA
Found at i:109006963 original size:31 final size:31
Alignment explanation
Indices: 109006918--109006991 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
109006908 TTATGAAATT
*
109006918 ATATATTATT-ATTAAATTATATTTAATTAA-A
1 ATATATT-TTAATTAAAATATATTTAA-TAATA
109006949 ATATATTTTAATTAAAATATATTTAATAATA
1 ATATATTTTAATTAAAATATATTTAATAATA
*
109006980 AT-TATGTTAATT
1 ATATATTTTAATT
109006992 TATATTTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
ATATATTTTAATTAAAATATATTTAATAATA
Found at i:109007087 original size:120 final size:120
Alignment explanation
Indices: 109006768--109007467 Score: 1037
Period size: 120 Copynumber: 5.8 Consensus size: 120
109006758 ATTCTCAAAT
* * *
109006768 TATATTATGATTTTAGTAAATT-ATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATA
1 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
* * * * ** *
109006832 TCATT-ATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATT-CA-TATAA
66 T-TTTAATTAAAATATATTTAATAATAATTATGTT-AATT-TATATTTTACAGTATCA
* * * * *
109006887 GAAAATT-T-ATTATCAAG-AATTTTATGA-AATTATATATT-ATTATTAA-ATTATATTTAATT
1 -TATATTATGATT-TC-AGTAAATTAAT-ATAA-GA-ATATTAATTATTAAGA--AT-TTT-ATT
109006946 AAA--ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
56 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
109007009 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
*
109007074 GTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
66 TTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
*
109007129 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATA
1 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
109007194 TTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
66 TTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
109007249 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
*
109007314 CTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
66 TTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
109007369 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
109007434 TTTTAATTAAAATATATTTAATAATAATTATGTT
66 TTTTAATTAAAATATATTTAATAATAATTATGTT
109007468 TAAATATGAT
Statistics
Matches: 535, Mismatches: 24, Indels: 42
0.89 0.04 0.07
Matches are distributed among these distances:
118 9 0.02
119 9 0.02
120 417 0.78
121 34 0.06
122 55 0.10
123 6 0.01
124 5 0.01
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
TATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
Found at i:109007444 original size:18 final size:17
Alignment explanation
Indices: 109007416--109007450 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
109007406 ATTATTAAGA
*
109007416 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
109007433 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
109007451 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:109007680 original size:44 final size:45
Alignment explanation
Indices: 109007615--109007705 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
109007605 ACCTCTATTC
* * *
109007615 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
109007659 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
109007704 CA
1 CA
109007706 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:109007720 original size:17 final size:16
Alignment explanation
Indices: 109007686--109007738 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
109007676 GATTAGCTAT
109007686 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
109007702 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
109007719 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
109007735 TACA
1 TACA
109007739 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:109010338 original size:19 final size:19
Alignment explanation
Indices: 109010314--109010367 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
109010304 TGAATCAGCT
*
109010314 CTTACGAGCTTCTGTTCAG
1 CTTACGAGCTTCTGTTCAA
*
109010333 CTTACGAGCTTCTGCTCAA
1 CTTACGAGCTTCTGTTCAA
*
109010352 CTTTCGAGCTTCTGTT
1 CTTACGAGCTTCTGTT
109010368 GGCGTATTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.15, C:0.28, G:0.19, T:0.39
Consensus pattern (19 bp):
CTTACGAGCTTCTGTTCAA
Found at i:109010573 original size:21 final size:20
Alignment explanation
Indices: 109010547--109010593 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
109010537 TAGAAGTTAA
109010547 GAATGACAGGAAATTGACAGT
1 GAATGACAGGAAATTGACA-T
*
109010568 GAATGACAGGGAATTGACAT
1 GAATGACAGGAAATTGACAT
109010588 GAATGA
1 GAATGA
109010594 TTTTATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.43, C:0.09, G:0.30, T:0.19
Consensus pattern (20 bp):
GAATGACAGGAAATTGACAT
Found at i:109010869 original size:47 final size:47
Alignment explanation
Indices: 109010817--109010911 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
109010807 TATGGACTTC
*
109010817 ATCAAAGTTAGTTTATGTAAATATTATGAATAATATTTTGTTTATAT
1 ATCAAAGTCAGTTTATGTAAATATTATGAATAATATTTTGTTTATAT
109010864 ATCAAAGTCAGTTTATGTAAATATTATGAATAATATTTTGTTTATAT
1 ATCAAAGTCAGTTTATGTAAATATTATGAATAATATTTTGTTTATAT
109010911 A
1 A
109010912 ACCAACATAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (47 bp):
ATCAAAGTCAGTTTATGTAAATATTATGAATAATATTTTGTTTATAT
Found at i:109014643 original size:39 final size:41
Alignment explanation
Indices: 109014582--109014684 Score: 167
Period size: 39 Copynumber: 2.6 Consensus size: 41
109014572 TGATTCAGTA
109014582 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATG-TAT
1 CACCGGCACTTAGCCTGCTAGACAT-TAGTCTGAAATGTTAT
109014623 CACC-GCA-TTAGCCTGCTAGACATTAGTCTGAAATGTTAT
1 CACCGGCACTTAGCCTGCTAGACATTAGTCTGAAATGTTAT
*
109014662 CACCGGCATTTAGCCTGCTAGAC
1 CACCGGCACTTAGCCTGCTAGAC
109014685 GTAACGTCTG
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
38 12 0.20
39 23 0.39
40 6 0.10
41 18 0.31
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (41 bp):
CACCGGCACTTAGCCTGCTAGACATTAGTCTGAAATGTTAT
Found at i:109030258 original size:14 final size:14
Alignment explanation
Indices: 109030239--109030289 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
109030229 TGATAAAGAA
109030239 AATAAAATATATAT
1 AATAAAATATATAT
*
109030253 AATAAAAT-TA-AA
1 AATAAAATATATAT
109030265 ATATATAAATATATTAT
1 A-ATA-AAATATA-TAT
109030282 AATAAAAT
1 AATAAAAT
109030290 TTTGGTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.07
13 5 0.17
14 12 0.40
15 6 0.20
16 3 0.10
17 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:109030264 original size:20 final size:18
Alignment explanation
Indices: 109030231--109030275 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
109030221 TGTACAATTG
*
109030231 ATAAAGAAAATAAAATAT
1 ATAAATAAAATAAAATAT
109030249 ATATAATAAAATTAAAATAT
1 ATA-AATAAAA-TAAAATAT
109030269 ATAAATA
1 ATAAATA
109030276 TATTATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAATAAAATAAAATAT
Found at i:109030264 original size:29 final size:29
Alignment explanation
Indices: 109030237--109030290 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
109030227 ATTGATAAAG
109030237 AAAATA-AAATATA-TATAATAAAATTAA
1 AAAATATAAATATATTATAATAAAATTAA
*
109030264 AATATATAAATATATTATAATAAAATT
1 AAAATATAAATATATTATAATAAAATT
109030291 TTGGTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 7 0.29
29 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAAATATATTATAATAAAATTAA
Found at i:109030285 original size:18 final size:20
Alignment explanation
Indices: 109030237--109030275 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
109030227 ATTGATAAAG
109030237 AAAA-TAAAATATATATAAT
1 AAAATTAAAATATATATAAT
109030256 AAAATTAAAATATATA-AAT
1 AAAATTAAAATATATATAAT
109030275 A
1 A
109030276 TATTATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTAAAATATATATAAT
Found at i:109031076 original size:28 final size:28
Alignment explanation
Indices: 109031044--109031111 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
109031034 CATAATAAAA
109031044 TATATTAAATA-TATTTT-TATTATATAAT
1 TATA-TAAATATTATTTTAT-TTATATAAT
* *
109031072 TATATAATTATTATTTTATTTATATAAA
1 TATATAAATATTATTTTATTTATATAAT
*
109031100 TA-AAAAATATTA
1 TATATAAATATTA
109031112 GTTAAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 13 0.38
28 20 0.59
29 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATAAATATTATTTTATTTATATAAT
Found at i:109031110 original size:27 final size:28
Alignment explanation
Indices: 109031041--109031111 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
109031031 TAACATAATA
*
109031041 AAATATATTAAATA-TATTTTTATTATAT
1 AAATATA-AAAATATTATTTTTATTATAT
* * *
109031069 AATTATATAATTATTA-TTTTATTTATAT
1 AAATATAAAAATATTATTTTTA-TTATAT
109031097 AAATA-AAAAATATTA
1 AAATATAAAAATATTA
109031112 GTTAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 18 0.50
28 18 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AAATATAAAAATATTATTTTTATTATAT
Found at i:109042200 original size:28 final size:30
Alignment explanation
Indices: 109042169--109042238 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 30
109042159 TTAGTCTATA
* *
109042169 ATAAAATTATATTTTAATT-TTT-AAAATG
1 ATAAAAATATAATTTAATTATTTAAAAATG
*
109042197 ATAAAAATATAATTTAATTATTTAAAAATT
1 ATAAAAATATAATTTAATTATTTAAAAATG
109042227 ATAAAAATATAA
1 ATAAAAATATAA
109042239 AGTATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 17 0.46
29 3 0.08
30 17 0.46
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAAAATATAATTTAATTATTTAAAAATG
Found at i:109042644 original size:41 final size:41
Alignment explanation
Indices: 109042599--109042765 Score: 207
Period size: 41 Copynumber: 4.1 Consensus size: 41
109042589 CAAAAATTAT
* * * *
109042599 AAAACACGGAGCAATAGCGAC-ATTTTGGTAAAATGCCGCTA
1 AAAACAC-GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
109042640 AAAAC-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACAC-GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
109042681 AAAAGCA-GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAA-CACGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
***
109042722 AAAACTA-GAGCATTAGCGGCGCTTTCAATAAAACGCCGCTA
1 AAAAC-ACGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
109042763 AAA
1 AAA
109042766 GTCATATAAT
Statistics
Matches: 114, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
40 13 0.11
41 100 0.88
42 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACACGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:109042651 original size:40 final size:41
Alignment explanation
Indices: 109042621--109042765 Score: 236
Period size: 41 Copynumber: 3.5 Consensus size: 41
109042611 AATAGCGACA
*
109042621 TTTTGGTAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
*
109042662 TTTTGGTAAAACGCCGCTAAAAAGCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
*
109042703 TTTTGGTAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
***
109042744 TTTCAATAAAACGCCGCTAAAA
1 TTTTGGTAAAACGCCGCTAAAA
109042766 GTCATATAAT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (41 bp):
TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
Found at i:109047792 original size:18 final size:20
Alignment explanation
Indices: 109047752--109047803 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
109047742 TCTTTTAACA
*
109047752 AAAAATACAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
*
109047771 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
109047790 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
109047804 TTGTGGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:109049092 original size:42 final size:41
Alignment explanation
Indices: 109049040--109049150 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 41
109049030 AATATATATG
* * *
109049040 GTCTCTAGTGGCGTTTTTGGGAAAAGTGTCGCTAAAGATCAT
1 GTCTTTAGTGGCGTTTTTGGG-AAAGCGCCGCTAAAGATCAT
*
109049082 GTCTTTAGTGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCAT
1 GTCTTTAGTGGCGTTTTT-GGGAAAGCGCCGCTAAAGATCAT
*
109049124 GACTTTTAGTGGCGTTTTTGGGGAAAG
1 GTC-TTTAGTGGCGTTTTT-GGGAAAG
109049151 ACCTTTAGCG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 36 0.59
43 25 0.41
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.33
Consensus pattern (41 bp):
GTCTTTAGTGGCGTTTTTGGGAAAGCGCCGCTAAAGATCAT
Found at i:109049548 original size:24 final size:24
Alignment explanation
Indices: 109049520--109049571 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
109049510 TTTCTAAAAG
* *
109049520 ATTTAGTATTTATTAGTATA-ATAT
1 ATTTAGCATTTATTACTATAGAT-T
109049544 ATTTAGCATTTATTACTATAGATT
1 ATTTAGCATTTATTACTATAGATT
109049568 ATTT
1 ATTT
109049572 GACTTTGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTACTATAGATT
Found at i:109052653 original size:11 final size:11
Alignment explanation
Indices: 109052639--109052678 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
109052629 ATTTTCTCCC
109052639 TATTTTGCTAT
1 TATTTTGCTAT
*
109052650 TATTTTACTAT
1 TATTTTGCTAT
* *
109052661 TATGTTGCTAC
1 TATTTTGCTAT
109052672 TATTTTG
1 TATTTTG
109052679 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:109054142 original size:7 final size:7
Alignment explanation
Indices: 109054130--109054161 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
109054120 TATTTTTTAT
109054130 ATTTGAA
1 ATTTGAA
109054137 ATTTGAA
1 ATTTGAA
109054144 ATTTGAA
1 ATTTGAA
*
109054151 ACTTGAA
1 ATTTGAA
109054158 ATTT
1 ATTT
109054162 AATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (7 bp):
ATTTGAA
Found at i:109054633 original size:38 final size:40
Alignment explanation
Indices: 109054586--109054661 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
109054576 AACTTGACCC
*
109054586 AATTCAAATTTAATT-T-AAATGATAAATAATATTTTTAA
1 AATTCAAATTTAATTATAAAATCATAAATAATATTTTTAA
* *
109054624 AATTTAAATTTAATTATAAAAATCATAAATACTATTTT
1 AATTCAAATTTAATTAT-AAAATCATAAATAATATTTT
109054662 AAATAATGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 14 0.44
39 1 0.03
41 17 0.53
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (40 bp):
AATTCAAATTTAATTATAAAATCATAAATAATATTTTTAA
Found at i:109059752 original size:5 final size:5
Alignment explanation
Indices: 109059742--109059771 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
109059732 TTAGTTGTTA
109059742 ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
109059772 TAACTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:109061044 original size:27 final size:28
Alignment explanation
Indices: 109061012--109061066 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
109061002 GTAAAACAAT
109061012 TTAAAATAGAGT-ATATATATATA-AATA
1 TTAAAATAG-GTAATATATATATATAATA
109061039 TTAAAATAGGTAATATATATATATAATA
1 TTAAAATAGGTAATATATATATATAATA
109061067 AATACTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 2 0.08
27 20 0.77
28 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (28 bp):
TTAAAATAGGTAATATATATATATAATA
Found at i:109061068 original size:25 final size:27
Alignment explanation
Indices: 109061013--109061068 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
109061003 TAAAACAATT
*
109061013 TAAAATAGAGTATATATATATAAATAT
1 TAAAATAGAGTATATATATATAAATAA
*
109061040 TAAAATAG-GTA-ATATATATATATAA
1 TAAAATAGAGTATATATATATAAATAA
109061065 TAAA
1 TAAA
109061069 TACTATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.59
26 3 0.11
27 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (27 bp):
TAAAATAGAGTATATATATATAAATAA
Found at i:109061199 original size:45 final size:44
Alignment explanation
Indices: 109061107--109061204 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
109061097 ATAATAAAAC
* * * *
109061107 AATTTAAAACGAATAAGAGATTTTAAAATAAGTTGTATAAGACA
1 AATTTAAAAAGAATAAGAAAGTTTAAAATAAGTTATATAAGACA
*
109061151 AATTTAAATAAGAATAAGACAAGTTTAAAATAA-TATATATAA-AGA
1 AATTTAAA-AAGAATAAGA-AAGTTTAAAATAAGT-TATATAAGACA
109061196 AATTTAAAA
1 AATTTAAAA
109061205 TAAATATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
44 9 0.20
45 20 0.43
46 17 0.37
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (44 bp):
AATTTAAAAAGAATAAGAAAGTTTAAAATAAGTTATATAAGACA
Found at i:109061252 original size:27 final size:26
Alignment explanation
Indices: 109061222--109061426 Score: 160
Period size: 26 Copynumber: 7.7 Consensus size: 26
109061212 TAAGAGGCTC
*
109061222 AAAAT-AATAATATGTAAAAAGAAATTT
1 AAAATAAATAATATAT-AAAA-AAATTT
* *
109061249 AAAATAAATAATATATAAGAAATTTT
1 AAAATAAATAATATATAAAAAAATTT
* * *
109061275 AAAGTAAATAACATATAAAATAATTT
1 AAAATAAATAATATATAAAAAAATTT
** * * * *
109061301 AAACCAAGTAATACATATAAAACTTT
1 AAAATAAATAATATATAAAAAAATTT
* * * *
109061327 AAAATAGATAATATACACAAAGATTT
1 AAAATAAATAATATATAAAAAAATTT
* * *
109061353 AAAATAAATCATATGTGGAAAAAATTT
1 AAAATAAATAATATAT-AAAAAAATTT
*
109061380 AAAATAAATAATATGTAAAAATAATTTT
1 AAAATAAATAATATATAAAAA-AA-TTT
*
109061408 GAAAATATATAATATATAA
1 -AAAATAAATAATATATAA
109061427 GAAGTATGTA
Statistics
Matches: 137, Mismatches: 36, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
26 77 0.56
27 32 0.23
28 12 0.09
29 16 0.12
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAATAAATAATATATAAAAAAATTT
Found at i:109065131 original size:28 final size:28
Alignment explanation
Indices: 109065100--109065161 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
109065090 TCCCATATTA
109065100 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
109065128 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
109065156 ATGGGG
1 ATGGGG
109065162 ATGATAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:109070538 original size:28 final size:28
Alignment explanation
Indices: 109070507--109070568 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
109070497 TCCCATATTA
109070507 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
109070535 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
109070563 ATGGGG
1 ATGGGG
109070569 ATGATAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:109075600 original size:40 final size:40
Alignment explanation
Indices: 109075545--109075630 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
109075535 TTATTTGATG
* *
109075545 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGT
1 TGGAATTGTACCCGGGCTTAAAGACCCGCAGGCTTCGTGC
109075585 TGGAATTGTACCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTACCCGGGCTTAAAGACCCGCAGGCTTCGTGC
109075625 TGGAAT
1 TGGAAT
109075631 GACATCCGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
TGGAATTGTACCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:109075656 original size:39 final size:42
Alignment explanation
Indices: 109075545--109075657 Score: 150
Period size: 40 Copynumber: 2.9 Consensus size: 42
109075535 TTATTTGATG
*
109075545 TGGAATTGT--ATCCGGGCTTAAAGACCCGCAGGCTTCGTGT
1 TGGAATTGTACATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
109075585 TGGAATTGTAC--CCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTACATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
109075625 TGGAA-TG-ACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTGTACATCCGGGCTTAAAGACCCGCAGGCT
109075658 GTGCTAAATA
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
38 2 0.03
39 17 0.26
40 47 0.71
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (42 bp):
TGGAATTGTACATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:109080316 original size:40 final size:40
Alignment explanation
Indices: 109080261--109080346 Score: 172
Period size: 40 Copynumber: 2.1 Consensus size: 40
109080251 TTATTTGATG
109080261 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
109080301 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
109080341 TGGAAT
1 TGGAAT
109080347 GACATCCAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:109080372 original size:39 final size:40
Alignment explanation
Indices: 109080261--109080373 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
109080251 TTATTTGATG
* *
109080261 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGCATCCAGGCTTAAAGACCCGCAGGCTTCGTGC
* *
109080301 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGCATCCAGGCTTAAAGACCCGCAGGCTTCGTGC
* *
109080341 TGGAA-TGACATCCAGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-CATCCAGGCTTAAAGACCCGCAGGCT
109080374 GTGCTAAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 17 0.25
40 51 0.75
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TGGAATTGCATCCAGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:109082175 original size:25 final size:25
Alignment explanation
Indices: 109082076--109082188 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
109082066 ATACATGTAT
*
109082076 GCTCATACGAGC-G-ATAAACGGTAA
1 GCTCATATGAGCTGAAT-AACGGTAA
* * *
109082100 GCTCAT-TCGAGCAGAATATCAGTAA
1 GCTCATAT-GAGCTGAATAACGGTAA
* *
109082125 GCTCCTATGAGCTGAATAACGATAA
1 GCTCATATGAGCTGAATAACGGTAA
* **
109082150 GCTCTTATGAGCTGAGA-ATTGGTAA
1 GCTCATATGAGCTGA-ATAACGGTAA
*
109082175 GCTCATACGAGCTG
1 GCTCATATGAGCTG
109082189 CAGTGAGTCC
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
24 10 0.14
25 56 0.80
26 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (25 bp):
GCTCATATGAGCTGAATAACGGTAA
Found at i:109084832 original size:132 final size:132
Alignment explanation
Indices: 109084587--109085080 Score: 376
Period size: 132 Copynumber: 3.7 Consensus size: 132
109084577 TACTTATTCT
*
109084587 TTTTAAGAATTCTTTAAAACGAAGGCGGTATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
1 TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
* * ** * *
109084652 CGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAGTAATTGAAAGGCCCTTTCGAATTTCACCCATG
66 CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTCAAAAGCCCTTTCGAATTTCACCCATG
109084717 TC
131 TC
* ** * *
109084719 TTTTAAGAGTTCTTTTCAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAA
1 TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
* * * *
109084784 TGTGCTGGGTTGCAATTT-TGCGTTTGCTCAAAACAA-TCAAATATCCC-TTCAAAATTTCACTC
66 CGTGCTGGGTTGCAATTTCT-CGTTTGCTCAAAACAATTCAAA-AGCCCTTTC-GAATTTCACCC
*
109084846 AGGTC
128 ATGTC
* * * * * * *
109084851 TTCTAAAAATCCTTTAAAATGAAGGC-A-AGTCTCGGTGTTTGACAATTC-AGGAATCATGCCCT
1 TTTTAAGAATTCTTTAAAACGAAGGCGATA-T-TCGATATTTGACAATTCGAGGAATCGTGCCCT
* ** * * * * * ** * ** *
109084913 ATCGTGCTGGGTTGTGATCTCTCATTTGTTAAAAACAA-TCGAATATTCCTTTAGGTTTTCACTC
64 AACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTC-AAAAGCCCTTTCGAATTTCACCC
*
109084977 ACGT-
128 ATGTC
* ** * * ** * * * * *
109084981 TTTCTAAAAAACCCTTTAAAATGAAAGAAATGTTCGATGTTTGGCAATTCGGGGGATCGTGCCCT
1 TTT-T-AAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCT
*
109085046 AACGTGTTGGGTTGCAATTTC-CTGTTTGCTCAAAA
64 AACGTGCTGGGTTGCAATTTCTC-GTTTGCTCAAAA
109085081 TAATCGAATG
Statistics
Matches: 286, Mismatches: 62, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
130 3 0.01
131 68 0.24
132 177 0.62
133 38 0.13
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (132 bp):
TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTCAAAAGCCCTTTCGAATTTCACCCATG
TC
Found at i:109084949 original size:131 final size:133
Alignment explanation
Indices: 109084749--109085059 Score: 315
Period size: 131 Copynumber: 2.4 Consensus size: 133
109084739 GAAGGCGATA
* * * * * ** * * * *
109084749 TTCGATATTTGGCAATTCGTGGAATCGTGCCCTAATGTGCTGGGTTGCAAT-TTTGCGTTTGCTC
1 TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCT-CATTTGTTA
* * * *
109084813 AAAACAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCT-AAAAATCCTTTAAAATGAAGGC
65 AAAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGA
109084877 AA-G
130 AATG
* *
109084880 TCTCGGTGTTTGACAATTC-AGGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGTTA
1 T-TCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCTCATTTGTTA
* * * *** *
109084944 AAAACAATCGAATATTCCTTTAGGTTTTCACTCACGTTTTCTAAAAAACCCTTTAAAATGAAAGA
65 AAAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGA
109085009 AATG
130 AATG
* * * * *
109085013 TTCGATGTTTGGCAATTCGGGGGATCGTGCCCTAACGTGTTGGGTTG
1 TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTG
109085060 CAATTTCCTG
Statistics
Matches: 144, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
131 67 0.47
132 52 0.36
133 25 0.17
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (133 bp):
TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCTCATTTGTTAA
AAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGAA
ATG
Found at i:109095510 original size:132 final size:132
Alignment explanation
Indices: 109095173--109095732 Score: 761
Period size: 132 Copynumber: 4.2 Consensus size: 132
109095163 ACAAATCCTA
* * * * *
109095173 TTTCCCTGAAGTTGTAGTGAAACAGATCGAAGACGGCGAGTCTTGGCTTCCTGAAGTTGCAGTGA
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
* * *
109095238 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGGTCC
66 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
109095303 TG
131 TG
* * * *
109095305 TATT-CC-TAAAATGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTCGTAGTG
1 T-TTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTG
*
109095368 AAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATC
65 AAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATC
109095433 TTG
130 TTG
*
109095436 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTGGCTTCCTGAAGTTGCAGTGA
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
* ** *
109095501 AGCAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTACAGATTT
66 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
109095566 TG
131 TG
** * * *
109095568 TTTCCC-TAAAGTTGCAGTGGAA-CAGATCGAAGACGATGAATCTTGGTTTCCTGAAGCTGCAAT
1 TTTCCCTTAAA-TTGCAGT-GAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* * ***
109095631 GAAGCAGATTTACA-CCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAGATAGAAG
64 GAAGCAGATTTA-AGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA-ATTTTAG
109095695 ATCTTG
127 ATCTTG
* * *
109095701 TCTCCCTGAAGTTGCAGTGAAGCAGATCGAAG
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAG
109095733 TCATAATACT
Statistics
Matches: 380, Mismatches: 39, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
130 2 0.01
131 119 0.31
132 220 0.58
133 37 0.10
134 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
TG
Found at i:109095762 original size:264 final size:263
Alignment explanation
Indices: 109095175--109095732 Score: 782
Period size: 263 Copynumber: 2.1 Consensus size: 263
109095165 AAATCCTATT
* * * * * *
109095175 TCCCTGAAGTTGTAGTGAAACAGATCGAAGACGGCGAGTCTTGGCTTCCTGAAGTTGCAGTGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTAGCTTCCTGAAGTTGCAGTGAAG
* ** *
109095240 CAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGGTCCTG
66 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCCTG
* * *
109095305 TATTCCTAAAATGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTCGTAGTGAA
131 TATTCCTAAAATGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTCGCAATGAA
* * * ***
109095370 GTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCTT
196 GCAGATTTAAGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAATAGAAGATCTT
*
109095435 GTT
261 GTC
* *
109095438 TCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTGGCTTCCTGAAGTTGCAGTGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTAGCTTCCTGAAGTTGCAGTGAAG
* **
109095503 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTACAGATTTTG
66 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCCTG
* *
109095568 T-TTCCCTAAAGTTGCAGTGGAA-CAGATCGAAGACGATGAATCTTGGTTTCCTGAAG-CTGCAA
131 TATT-CCTAAA-ATGCAGT-GAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTC-GCAA
109095630 TGAAGCAGATTTACA-CCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAGATAGAA
192 TGAAGCAGATTTA-AGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAA-ATAGAA
109095694 GATCTTGTC
255 GATCTTGTC
*
109095703 TCCCTGAAGTTGCAGTGAAGCAGATCGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAG
109095733 TCATAATACT
Statistics
Matches: 262, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
262 2 0.01
263 125 0.48
264 92 0.35
265 43 0.16
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (263 bp):
TCCCTGAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTAGCTTCCTGAAGTTGCAGTGAAG
CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCCTG
TATTCCTAAAATGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTCGCAATGAA
GCAGATTTAAGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAATAGAAGATCTT
GTC
Found at i:109098800 original size:131 final size:130
Alignment explanation
Indices: 109098561--109099069 Score: 434
Period size: 131 Copynumber: 3.9 Consensus size: 130
109098551 AGAATTCTTG
** *
109098561 AAAACGAAGGCGGTATTCGAT-TTTGACAATTCCTCGAGGAATCGTGCCCTAACGTGTTGGGTTG
1 AAAACGAAGGCAATATTCGATGTTTGACAA-T--TCG-GGAATCGTGCCCTAACGTGCTGGGTTG
* * * * * * * *
109098625 CAATTTCTCGTTTGCTCAAAGTAATCGAAAGATCCTTTC-GAATTTCACCCATGCCTTTTAAGAT
62 CAATTTCTCGTTTGCTCAAACTAATC-AAATATCCCTTCAAAATTTCACTCACG-CTTTTAAAAA
*
109098689 TTCTTT
125 TCCTTT
* * *
109098695 -AAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAA
1 AAAACGAAGGCAATATTCGATGTTTGACAATTCG-GGAATCGTGCCCTAACGTGCTGGGTTGCAA
* * * *
109098759 TTTCGCGTTTGCTCGAACTAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCT
65 TTTCTCGTTTGCTCAAACTAATCAAATATCCCTTCAAAATTTCACTCACG-CTTTTAAAAATCCT
109098824 TT
129 TT
* * * * * * **
109098826 AAAACGAAGGCAAGACTCGGTGTTTGACAATTTGGGAATCATGCCCTATCGTGCTGGGTTGTGAT
1 AAAACGAAGGCAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGCAAT
* * * * ** * *
109098891 CTCTCGTTTGTTCAAAAC-AATCGAATATTCCTT-AAGGTTTTCACTCACGTTTTCTAAAAAACC
66 TTCTCGTTTGCTC-AAACTAATCAAATATCCCTTCAA-AATTTCACTCACGCTTT-T-AAAAATC
109098954 CTTT
127 CTTT
* * * * * *
109098958 AAAACGAAAGAAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGGCAATATTCGATGTTTGACAATTC-GGGAATCGTGCCCTAACGTGCTGGGTTGCAA
* * * * * **
109099023 TTTCCCGTTTGCTCAAAATAATCGAATGTCTCTTCAGGATTTCACTC
65 TTTCTCGTTTGCTCAAACTAATCAAATATCCCTTCAAAATTTCACTC
109099070 GTATTTTCTA
Statistics
Matches: 302, Mismatches: 63, Indels: 21
0.78 0.16 0.05
Matches are distributed among these distances:
130 14 0.05
131 136 0.45
132 66 0.22
133 78 0.26
134 8 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (130 bp):
AAAACGAAGGCAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGCAAT
TTCTCGTTTGCTCAAACTAATCAAATATCCCTTCAAAATTTCACTCACGCTTTTAAAAATCCTTT
Found at i:109102085 original size:58 final size:58
Alignment explanation
Indices: 109101995--109102112 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
109101985 AAGAGGAAAG
109101995 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
1 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
109102053 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
1 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
109102111 AT
1 AT
109102113 TGTTATCTCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (58 bp):
ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
Found at i:109109435 original size:31 final size:31
Alignment explanation
Indices: 109109362--109109435 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
109109352 TTCTGGTTTG
* *
109109362 AATTTTTTTTAAGATTAAGTTCTAAATTTGAT
1 AATTTTTTTT-AGATTAAGTTCTAAACTTGAC
* * *
109109394 AAATATTTTTATATTAGAGTT-TAAACTTGAC
1 AATTTTTTTTAGATTA-AGTTCTAAACTTGAC
109109425 AATTTTTTTTA
1 AATTTTTTTTA
109109436 CATTGGGGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
31 22 0.65
32 12 0.35
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (31 bp):
AATTTTTTTTAGATTAAGTTCTAAACTTGAC
Found at i:109109615 original size:60 final size:60
Alignment explanation
Indices: 109109523--109109661 Score: 174
Period size: 60 Copynumber: 2.3 Consensus size: 60
109109513 TTTTTAAGGA
* ** * * *
109109523 CTAACTTGGA-TAAAAATAAGTTTAAGTTCCAATATGGGAACATTTGCCAAATTTAGGGC
1 CTAACTTGGACTAAAAAAAAGTTTAAGCCCCAATATGGGAACAATTGCCAAATTCAGAGC
*
109109582 CTAACTTGGACTAAAAAAAAGTTT-AGACCCCAATATGGGAACAATTGCCAAGTTCAGAGC
1 CTAACTTGGACTAAAAAAAAGTTTAAG-CCCCAATATGGGAACAATTGCCAAATTCAGAGC
* *
109109642 TTAACTTGGACAAAAAAAAA
1 CTAACTTGGACTAAAAAAAA
109109662 TTCAGGCCTC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 12 0.17
60 57 0.83
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (60 bp):
CTAACTTGGACTAAAAAAAAGTTTAAGCCCCAATATGGGAACAATTGCCAAATTCAGAGC
Found at i:109109694 original size:59 final size:60
Alignment explanation
Indices: 109109551--109109696 Score: 168
Period size: 60 Copynumber: 2.5 Consensus size: 60
109109541 AGTTTAAGTT
* * * * * * *
109109551 CCAATATGGGAACATTTGCCAAATTTAGGGCCTAACTTGGACTAAAAAAAAGTTTAGACC
1 CCAATATGGGAACAATTGCCAAGTTCAGAGCTTAACTTGGACTAAAAAAAAATTCAGACC
*
109109611 CCAATATGGGAACAATTGCCAAGTTCAGAGCTTAACTTGGAC-AAAAAAAAATTCAGGCC
1 CCAATATGGGAACAATTGCCAAGTTCAGAGCTTAACTTGGACTAAAAAAAAATTCAGACC
* * * * *
109109670 TCAATGTGGGAAGAGTTGCTAAGTTCA
1 CCAATATGGGAACAATTGCCAAGTTCA
109109697 AGCCCCAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 36 0.49
60 37 0.51
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (60 bp):
CCAATATGGGAACAATTGCCAAGTTCAGAGCTTAACTTGGACTAAAAAAAAATTCAGACC
Found at i:109114581 original size:6 final size:6
Alignment explanation
Indices: 109114557--109114606 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
109114547 ACAATACCTA
* * * *
109114557 AACAGT AATAAGT AACAGT AGCAGT AACAGT AACTGT AATAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
109114606 A
1 A
109114607 TTCAACACAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (6 bp):
AACAGT
Found at i:109114647 original size:45 final size:45
Alignment explanation
Indices: 109114598--109114696 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
109114588 AACTGTAATA
* *
109114598 GTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGTC-AAATCGGTAACAGTAACG
* *
109114643 GTAACAGTATTCGACACACAAAGTGTCAAATCGGTAACAGTAACT
1 GTAACAGTATTCAACACACAAAGTGTCAAATCGGTAACAGTAACG
109114688 GTAACAGTA
1 GTAACAGTA
109114697 ACAGTAGTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (45 bp):
GTAACAGTATTCAACACACAAAGTGTCAAATCGGTAACAGTAACG
Found at i:109115108 original size:53 final size:53
Alignment explanation
Indices: 109115036--109115141 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
109115026 ACCCAATCAT
109115036 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
1 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
109115089 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
1 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
109115142 GTAAATTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.36
Consensus pattern (53 bp):
AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
Found at i:109115129 original size:25 final size:25
Alignment explanation
Indices: 109115048--109115129 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
109115038 ATTTATCATT
109115048 TTACTCAACACTTACCTTAAAATAC
1 TTACTCAACACTTACCTTAAAATAC
* *
109115073 TTAC-C-ACACATA-ATTAAAATTTATC
1 TTACTCAACACTTACCTTAAAA--TA-C
109115098 ATTTTACTCAACACTTACCTTAAAATAC
1 ---TTACTCAACACTTACCTTAAAATAC
109115126 TTAC
1 TTAC
109115130 CACACATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
22 6 0.14
23 6 0.14
24 3 0.07
25 9 0.20
28 5 0.11
29 3 0.07
30 6 0.14
31 6 0.14
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.35
Consensus pattern (25 bp):
TTACTCAACACTTACCTTAAAATAC
Found at i:109116060 original size:33 final size:32
Alignment explanation
Indices: 109116023--109116085 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
109116013 ATTATTTAAT
*
109116023 TAATAAATATCT-CTTAATTTTAATAATAATAAA
1 TAATAAATATCTAC-TAATTTAAATAA-AATAAA
109116056 TAATAAATATCTACTAATTTAAATAAAATA
1 TAATAAATATCTACTAATTTAAATAAAATA
109116086 TTACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAAATATCTACTAATTTAAATAAAATAAA
Found at i:109123629 original size:33 final size:32
Alignment explanation
Indices: 109123578--109123640 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
109123568 ATTATTTAAT
*
109123578 TAATAAATATATCTTAATTTTAATAATAATAAA
1 TAATAAATATATCTTAATTTAAATAA-AATAAA
*
109123611 TAATAAATATCTAC-TAATTTAAATAAAATA
1 TAATAAATATAT-CTTAATTTAAATAAAATA
109123641 TTACAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 4 0.15
33 22 0.81
34 1 0.04
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAAATATATCTTAATTTAAATAAAATAAA
Found at i:109133317 original size:10 final size:12
Alignment explanation
Indices: 109133291--109133318 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
109133281 GTGCCAGGCC
109133291 GTGTGCTAGGTT
1 GTGTGCTAGGTT
109133303 GTGTGCTAGGTT
1 GTGTGCTAGGTT
109133315 GTGT
1 GTGT
109133319 AACTCACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.43, T:0.43
Consensus pattern (12 bp):
GTGTGCTAGGTT
Found at i:109138602 original size:32 final size:29
Alignment explanation
Indices: 109138539--109138626 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
109138529 TATGTGTGAC
* * * *
109138539 ACACGACCATATGATACGGCCGTGTGT-T
1 ACACAACCATACGACACGACCGTGTGTCT
* *
109138567 ACACACAGCCATGCGACACGATCGTGTGTCGT
1 ACACA-A-CCATACGACACGACCGTGTGTC-T
*
109138599 ACACAACTATACGACACGACCGTGTGTC
1 ACACAACCATACGACACGACCGTGTGTC
109138627 CCTTATAGGC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
28 4 0.09
29 1 0.02
30 35 0.74
31 1 0.02
32 6 0.13
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (29 bp):
ACACAACCATACGACACGACCGTGTGTCT
Found at i:109141006 original size:19 final size:19
Alignment explanation
Indices: 109140965--109141006 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
109140955 GAAATAGTAG
*
109140965 AAAAGAAGAAAAAGAAAAC
1 AAAAGAAGAAAAAGAAAAA
*
109140984 AAAAGTAAG-AAATGAAAAA
1 AAAAG-AAGAAAAAGAAAAA
109141003 AAAA
1 AAAA
109141007 TGGGAAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAAGAAGAAAAAGAAAAA
Found at i:109148571 original size:30 final size:30
Alignment explanation
Indices: 109148537--109148599 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
109148527 AACCAAACCA
109148537 TCTGATGATAACCGTCGTAAAACTTATCAG
1 TCTGATGATAACCGTCGTAAAACTTATCAG
109148567 TCTGATGATAACCGTCGTAAAACTTATCAG
1 TCTGATGATAACCGTCGTAAAACTTATCAG
109148597 TCT
1 TCT
109148600 CAGAAAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (30 bp):
TCTGATGATAACCGTCGTAAAACTTATCAG
Found at i:109149522 original size:31 final size:31
Alignment explanation
Indices: 109149484--109149546 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
109149474 TCATGTCTAC
*
109149484 AGGATTTTCATGAGTACTAATTTTGCTCACA
1 AGGATTTTCATGAATACTAATTTTGCTCACA
* *
109149515 AGGATTTTTATGAATACTAATTTTTCTCACA
1 AGGATTTTCATGAATACTAATTTTGCTCACA
109149546 A
1 A
109149547 CAATATCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (31 bp):
AGGATTTTCATGAATACTAATTTTGCTCACA
Found at i:109149748 original size:26 final size:26
Alignment explanation
Indices: 109149712--109149766 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
109149702 AAGAGTCCCT
109149712 TCAACCAAATAGCTTATTTACAAGCA
1 TCAACCAAATAGCTTATTTACAAGCA
109149738 TCAACCAAATAGCTTATTTACAAGCA
1 TCAACCAAATAGCTTATTTACAAGCA
109149764 TCA
1 TCA
109149767 GTAATCACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (26 bp):
TCAACCAAATAGCTTATTTACAAGCA
Found at i:109154605 original size:6 final size:6
Alignment explanation
Indices: 109154596--109154620 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
109154586 TATTCGAACA
109154596 TGTATT TGTATT TGTATT TGTATT T
1 TGTATT TGTATT TGTATT TGTATT T
109154621 TAATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TGTATT
Found at i:109162719 original size:19 final size:19
Alignment explanation
Indices: 109162681--109162720 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
109162671 CACTATAATG
*
109162681 TTTTCTTTCTTTTTTTCTT
1 TTTTCTTTCTTTTTTCCTT
109162700 TTTTCTTT-TTTTTTGCCTT
1 TTTTCTTTCTTTTTT-CCTT
109162719 TT
1 TT
109162721 GGAGGCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTCTTTCTTTTTTCCTT
Found at i:109166490 original size:19 final size:20
Alignment explanation
Indices: 109166468--109166506 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
109166458 TCAAATTTAT
109166468 TTTTTAAATTTA-AATATTC
1 TTTTTAAATTTATAATATTC
*
109166487 TTTTTACATTTATAATATTC
1 TTTTTAAATTTATAATATTC
109166507 GAATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAATTTATAATATTC
Found at i:109170891 original size:37 final size:37
Alignment explanation
Indices: 109170767--109170912 Score: 105
Period size: 37 Copynumber: 3.9 Consensus size: 37
109170757 TATGCAGCAG
* * ** *
109170767 ATGCAC-GAGGCGAAGGCGATGGAGGAGATGAATTGCG
1 ATGCACAG-GGCGAAAGCGACGGAGGAGATGGGTTGCA
* * * * * *
109170804 ATGCTCTGGACGAAGGCGATGGAGGAGATGGTTTGCA
1 ATGCACAGGGCGAAAGCGACGGAGGAGATGGGTTGCA
* * *
109170841 ATGCACAGTGCGAAAGTGACGGAGGAGATGGGTTGCG
1 ATGCACAGGGCGAAAGCGACGGAGGAGATGGGTTGCA
** * *
109170878 ATGCATGGGGCGAAAGCGACGAAAGAGATAGGGTT
1 ATGCACAGGGCGAAAGCGACGGAGGAGAT-GGGTT
109170913 TGGGGGGAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
37 81 0.93
38 6 0.07
ACGTcount: A:0.29, C:0.13, G:0.42, T:0.16
Consensus pattern (37 bp):
ATGCACAGGGCGAAAGCGACGGAGGAGATGGGTTGCA
Found at i:109171521 original size:165 final size:163
Alignment explanation
Indices: 109171178--109171523 Score: 382
Period size: 165 Copynumber: 2.1 Consensus size: 163
109171168 TTTTTGCAAT
* * * * *
109171178 AAAACACCACTAAAAGTTTAATTCCATATTGTGAAAC-GTCGTCGTTCAAGGTTAATGGGTATTG
1 AAAACACCACTAAAAG-TTAAAT-CGTGTTGTGAAACAAT-GTCGTTCAAGGGTAATGGGTATTG
* *
109171242 CACTTTTACGGCGTTTTTCAAAAACGCCCTTAAAACTTAATTCCATGACGTAGAATGATGACGTC
63 AACTTTTACGGCGTTTTACAAAAACGCCCTTAAAACTTAATTCCATGACGTAGAA-GATGACGTC
* * *
109171307 CAGGGTAAATATGTATTATAAATTTGCGGCGTTTATG
127 CAGGGCAAATATGTATTACAAATTTACGGCGTTTATG
109171344 AAAACACCACTAAAAGTTAAATCGTGTTGTGAAACAATGTCGTTCAAGGGTAATGGGTATTGAAC
1 AAAACACCACTAAAAGTTAAATCGTGTTGTGAAACAATGTCGTTCAAGGGTAATGGGTATTGAAC
* * *
109171409 TTTTGCGGCGTTTATACAAAAACGCCAC-TAAAACTTATTTGCC-TGGCGT-GAA-ACT-ACGTC
66 TTTTACGGCGTTT-TACAAAAACGCC-CTTAAAACTTAATT-CCATGACGTAGAAGA-TGACGTC
* *
109171469 TTCGAGGGCAAAT-TGGTGTTGCAAATTTACGGCGTTTATG
127 --C-AGGGCAAATAT-GTATTACAAATTTACGGCGTTTATG
* *
109171509 AAAGCGCCACTAAAA
1 AAAACACCACTAAAA
109171524 ATTTTATTCC
Statistics
Matches: 154, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
162 6 0.04
163 1 0.01
164 53 0.34
165 75 0.49
166 19 0.12
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (163 bp):
AAAACACCACTAAAAGTTAAATCGTGTTGTGAAACAATGTCGTTCAAGGGTAATGGGTATTGAAC
TTTTACGGCGTTTTACAAAAACGCCCTTAAAACTTAATTCCATGACGTAGAAGATGACGTCCAGG
GCAAATATGTATTACAAATTTACGGCGTTTATG
Found at i:109172333 original size:41 final size:41
Alignment explanation
Indices: 109172192--109172332 Score: 194
Period size: 41 Copynumber: 3.5 Consensus size: 41
109172182 GATAAAAACA
* * *
109172192 CCGCTATTGATCAATTTTTAGTGGCGTTTTGGCCAAAAATG
1 CCGCTATTGCTCAGTTTTTAGTGGCATTTTGGCCAAAAATG
* * *
109172233 CCGCTATTGCTCAGTTTTTAGTGGCAGTTAGGCCAAAAACG
1 CCGCTATTGCTCAGTTTTTAGTGGCATTTTGGCCAAAAATG
109172274 CCGCTATTGCTCAGTTTTTAGTGGC-TTTTGGCCAAAAATG
1 CCGCTATTGCTCAGTTTTTAGTGGCATTTTGGCCAAAAATG
* * *
109172314 CTGCTATTGTTAAGTTTTT
1 CCGCTATTGCTCAGTTTTT
109172333 TTGCGAAAAC
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 28 0.32
41 60 0.68
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
CCGCTATTGCTCAGTTTTTAGTGGCATTTTGGCCAAAAATG
Found at i:109174473 original size:35 final size:35
Alignment explanation
Indices: 109174434--109174501 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
109174424 TAGGGATAAG
109174434 GTATCAATACTTCATTG-AAGGTATTGATACCTTTC
1 GTATCAATACTTCA-TGAAAGGTATTGATACCTTTC
* *
109174469 GTATCGATACTTTATGAAAGGTATTGATACCTT
1 GTATCAATACTTCATGAAAGGTATTGATACCTT
109174502 CGATTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (35 bp):
GTATCAATACTTCATGAAAGGTATTGATACCTTTC
Found at i:109182669 original size:26 final size:27
Alignment explanation
Indices: 109182603--109182698 Score: 72
Period size: 27 Copynumber: 3.6 Consensus size: 27
109182593 AATAACTGAT
* * *
109182603 TTCGCGCATTTAGTGCTCAGAAAT-TAA
1 TTCGCACACTTAGTGCTCAG-AATCCAA
** * *
109182630 TTTACACACATAGTGCTTA-AATCCAA
1 TTCGCACACTTAGTGCTCAGAATCCAA
* *
109182656 CTT-GCACACTTAGTGCTCAGTATCGAA
1 -TTCGCACACTTAGTGCTCAGAATCCAA
109182683 TTCGCACACTTAGTGC
1 TTCGCACACTTAGTGC
109182699 ATCCCTGAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
25 3 0.06
26 17 0.32
27 33 0.62
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
TTCGCACACTTAGTGCTCAGAATCCAA
Found at i:109184591 original size:17 final size:18
Alignment explanation
Indices: 109184566--109184616 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
109184556 TTATGTTTTG
* *
109184566 TCATGTATTTTTTTGTA-
1 TCATATATTTTGTTGTAC
109184583 TCATATATTTTGTTGTAC
1 TCATATATTTTGTTGTAC
109184601 TAACATATATTTTGTT
1 T--CATATATTTTGTT
109184617 AACTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.52
18 1 0.03
20 13 0.45
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.59
Consensus pattern (18 bp):
TCATATATTTTGTTGTAC
Found at i:109185448 original size:132 final size:132
Alignment explanation
Indices: 109185140--109185508 Score: 381
Period size: 132 Copynumber: 2.8 Consensus size: 132
109185130 AGTATTCACT
* * * *
109185140 TAAAAATTCTTTAAAACGAAGACGAGAT-T-CGATGTTTGGCAATTCACAGAATAGTGCCCTAAC
1 TAAAAATTCTCTAAAACGAAG--GAAATCTGCGATGTTTGGCAATTCACGGAATCGTGCCCTAAC
* * * *
109185203 GTGTTAGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGT
64 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACTCATAT
*
109185268 CTTT
129 CTTC
* * * ** * * *
109185272 TAAAAATTCTTTCAAACGGAGGTGATGTGCGATATTTGGTAATTCACGGAATCGTGCCCTAACGT
1 TAAAAATTCTCTAAAACGAAGGAAATCTGCGATGTTTGGCAATTCACGGAATCGTGCCCTAACGT
* *
109185337 GCTAGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCCAAAATTTCA-TGCATATC
66 GCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACT-CATATC
109185401 TTC
130 TTC
* * * * ** *
109185404 TAAAAA-TCATCTAAAACGAATGAAATACT-CGGTGTTTGACAATTC-GGGAATCACGCCCTATC
1 TAAAAATTC-TCTAAAACGAAGGAAAT-CTGCGATGTTTGGCAATTCACGGAATCGTGCCCTAAC
* ** *
109185466 GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATAT
64 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATAT
109185509 TCCTTTAGGT
Statistics
Matches: 197, Mismatches: 35, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
130 4 0.02
131 54 0.27
132 138 0.70
133 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (132 bp):
TAAAAATTCTCTAAAACGAAGGAAATCTGCGATGTTTGGCAATTCACGGAATCGTGCCCTAACGT
GCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACTCATATCT
TC
Found at i:109188176 original size:18 final size:19
Alignment explanation
Indices: 109188141--109188176 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
109188131 ATATAAGACA
109188141 AATAGTATCATGTCAACTT
1 AATAGTATCATGTCAACTT
*
109188160 AATAGTA-CATGTGAACT
1 AATAGTATCATGTCAACT
109188177 GCTATACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (19 bp):
AATAGTATCATGTCAACTT
Done.