Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 67 of 410
Found at i:18781077 original size:42 final size:42
Alignment explanation
Indices: 18780976--18781079 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
18780966 TGACACAAAA
* * * *
18780976 GCTAGCAGAATGCCACAAAGGCCTTATTAGAATATCACAGAG
1 GCTAACAGAATGCCACAAAGGCCATATCAGAATACCACAGAG
* *
18781018 GCTAACAAAATACCACAAAGGCCATATCAGAATACCACAGAG
1 GCTAACAGAATGCCACAAAGGCCATATCAGAATACCACAGAG
*
18781060 GCTAACAGAATGTCACAAAG
1 GCTAACAGAATGCCACAAAG
18781080 ATCAAAATAC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.15
Consensus pattern (42 bp):
GCTAACAGAATGCCACAAAGGCCATATCAGAATACCACAGAG
Found at i:18789491 original size:23 final size:23
Alignment explanation
Indices: 18789439--18789549 Score: 106
Period size: 23 Copynumber: 4.8 Consensus size: 23
18789429 TACTGATATA
18789439 TCAGCTC-ATAAGAGCTTA-CTATTT
1 TCAGCTCAAT-AGAGCTTATC-A-TT
* *
18789463 TTAGCTCATTAGAGCTTATCATT
1 TCAGCTCAATAGAGCTTATCATT
*
18789486 TTAGCTC-ATATGAGCTTA-C-TGT
1 TCAGCTCAATA-GAGCTTATCAT-T
*
18789508 TCAGCTCAATAGAGCTTATCGTT
1 TCAGCTCAATAGAGCTTATCATT
18789531 TCAGCTCAATAGAGCTTAT
1 TCAGCTCAATAGAGCTTAT
18789550 TGTCCATCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
21 1 0.01
22 17 0.22
23 40 0.53
24 16 0.21
25 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (23 bp):
TCAGCTCAATAGAGCTTATCATT
Found at i:18789527 original size:45 final size:46
Alignment explanation
Indices: 18789439--18789548 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 46
18789429 TACTGATATA
* * * *
18789439 TCAGCTCATAAGAGCTTACTATTTTTAGCTCATTAGAGCTTATCATT
1 TCAGCTCATATGAGCTTAC-ATGTTCAGCTCAATAGAGCTTATCATT
* *
18789486 TTAGCTCATATGAGCTTAC-TGTTCAGCTCAATAGAGCTTATCGTT
1 TCAGCTCATATGAGCTTACATGTTCAGCTCAATAGAGCTTATCATT
18789531 TCAGCTCA-ATAGAGCTTA
1 TCAGCTCATAT-GAGCTTA
18789549 TTGTCCATCA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 2 0.04
45 36 0.65
47 17 0.31
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (46 bp):
TCAGCTCATATGAGCTTACATGTTCAGCTCAATAGAGCTTATCATT
Found at i:18792274 original size:26 final size:26
Alignment explanation
Indices: 18792245--18792294 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
18792235 AATTAGGAAT
18792245 TAAAGATATTATGTATCTAATATAAA
1 TAAAGATATTATGTATCTAATATAAA
18792271 TAAAGATATTATGTATCTAATATA
1 TAAAGATATTATGTATCTAATATA
18792295 CTTTTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (26 bp):
TAAAGATATTATGTATCTAATATAAA
Found at i:18792865 original size:11 final size:12
Alignment explanation
Indices: 18792825--18792868 Score: 54
Period size: 11 Copynumber: 3.6 Consensus size: 12
18792815 TTTGATACTC
18792825 TGTTTTCAAGATA
1 TGTTTT-AAGATA
*
18792838 TGTTTTTAAGTTA
1 TG-TTTTAAGATA
18792851 TGTTTTAA-ATA
1 TGTTTTAAGATA
18792862 TGTTTTA
1 TGTTTTA
18792869 CACGTGCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.32
12 6 0.21
13 9 0.32
14 4 0.14
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (12 bp):
TGTTTTAAGATA
Found at i:18792937 original size:14 final size:14
Alignment explanation
Indices: 18792888--18792937 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
18792878 CTATGCGAGC
18792888 CTATGTTTTAAAAG
1 CTATGTTTTAAAAG
18792902 C-ATGTTTTAAAAG
1 CTATGTTTTAAAAG
** *
18792915 -TACAATTTTATAAG
1 CTA-TGTTTTAAAAG
18792929 CTATGTTTT
1 CTATGTTTT
18792938 TATGAGTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 13 0.46
14 13 0.46
15 2 0.07
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (14 bp):
CTATGTTTTAAAAG
Found at i:18797523 original size:46 final size:46
Alignment explanation
Indices: 18797470--18797644 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
18797460 TATTTGGGCA
18797470 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
18797516 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
18797563 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
18797609 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18797645 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 4 0.04
45 17 0.15
46 51 0.46
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:18797625 original size:93 final size:92
Alignment explanation
Indices: 18797466--18797636 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
18797456 GGGATATTTG
* *
18797466 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18797531 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGT-CGAGTTCGTGAGATGTAACTA
*
18797559 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18797624 TTGAGTCGAGTTC
66 TTGAGTCGAGTTC
18797637 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 7 0.09
93 68 0.91
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCGAGTTCGTGAGATGTAACTA
Found at i:18800616 original size:15 final size:15
Alignment explanation
Indices: 18800596--18800664 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
18800586 GTATCTTGGG
18800596 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
18800611 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
18800626 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
18800641 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
18800656 TTTCTTTAT
1 TTTCTTTAT
18800665 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:18800665 original size:30 final size:30
Alignment explanation
Indices: 18800587--18800674 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
18800577 CATAGTATCG
* * * *
18800587 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
18800617 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
18800647 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
18800675 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:18803113 original size:46 final size:46
Alignment explanation
Indices: 18803060--18803235 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
18803050 TATTTGGGCA
18803060 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
18803106 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
18803153 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
18803199 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18803236 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:18803215 original size:93 final size:93
Alignment explanation
Indices: 18803056--18803227 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18803046 GGGATATTTG
* *
18803056 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18803121 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
18803149 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18803214 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
18803228 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18805247 original size:27 final size:27
Alignment explanation
Indices: 18805182--18805308 Score: 159
Period size: 27 Copynumber: 4.7 Consensus size: 27
18805172 TTAGTTTACC
18805182 AAATTACCAAAATACCCCTGATTTGT-
1 AAATTACCAAAATACCCCTGATTTGTA
* * * *
18805208 GAATTACTAAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * **
18805235 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
18805262 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
18805289 AAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
18805309 TAGGGTAGAG
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.26
27 62 0.74
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:18805322 original size:27 final size:27
Alignment explanation
Indices: 18805263--18805512 Score: 270
Period size: 27 Copynumber: 9.3 Consensus size: 27
18805253 TGGTTTACAA
* ** *
18805263 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
18805290 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
18805317 AGTTACTGAAATACCCCTGTAAGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
18805343 AAGTTACTGAAATACCCCTATAGGGTAG
1 AA-TTACCGAAATACCCCTGTAGGGTAG
* * *
18805371 AGTTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
18805398 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
18805425 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
18805452 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
18805479 AATTACCGAGATAACCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
18805506 AATTACC
1 AATTACC
18805513 ATTTTGCCCC
Statistics
Matches: 194, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
26 3 0.02
27 190 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:18808976 original size:27 final size:28
Alignment explanation
Indices: 18808914--18808977 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
18808904 CAGTCACTTG
*
18808914 CCCACAAGGGCAAAATAGTCATTTAACA
1 CCCACAAGGGCAAAATAGTAATTTAACA
* * *
18808942 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAATAGTAATTTAACA
18808968 CCCACAAGGG
1 CCCACAAGGG
18808978 TATCTCGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.10
27 24 0.80
28 3 0.10
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (28 bp):
CCCACAAGGGCAAAATAGTAATTTAACA
Found at i:18808987 original size:27 final size:27
Alignment explanation
Indices: 18808957--18809253 Score: 387
Period size: 27 Copynumber: 11.0 Consensus size: 27
18808947 AGGGCAAAAT
* * *
18808957 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18808984 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18809011 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
18809038 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18809065 AGTAATTCTACCCTACAGGGGGTATTTC
1 GGTAATTCTACCCTACA-AGGGTATTTC
* *
18809093 AGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18809120 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18809147 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
18809174 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
18809201 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
18809228 GGTATTTCTACCCTACAAGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
18809254 TGATAATTTT
Statistics
Matches: 241, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 217 0.90
28 24 0.10
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:18809275 original size:27 final size:27
Alignment explanation
Indices: 18809245--18809505 Score: 140
Period size: 27 Copynumber: 9.7 Consensus size: 27
18809235 CTACCCTACA
**
18809245 AGGGTATTTTGATAATTTTGTAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* **** * **
18809272 AGGGAAAAACGATAATTCTGTAAATC-
1 AGGGTATTTTGATAATTTTACAAATCG
* * *
18809298 AGGGGTACTTTGGTAATTTTACAAGTCG
1 A-GGGTATTTTGATAATTTTACAAATCG
**
18809326 AGGGTATTTT-AGTAATTTTACAGGTCG
1 AGGGTATTTTGA-TAATTTTACAAATCG
* **
18809353 AGGGTA-TTTCAGTAATTTCCCAAATC-
1 AGGGTATTTTGA-TAATTTTACAAATCG
* **
18809379 AGGGGTATTTTGGTAATTTTACAAATTA
1 A-GGGTATTTTGATAATTTTACAAATCG
* * *
18809407 AGGGTATTTTGGTAATTTTATAAA-CT
1 AGGGTATTTTGATAATTTTACAAATCG
* *
18809433 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTTGATAATTTTACAAATCG
* * * *
18809460 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTTGATAATTTTACAAATCG
18809488 AGGGTATTTT-AGTAATTT
1 AGGGTATTTTGA-TAATTT
18809506 GGTAAACTAA
Statistics
Matches: 188, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
26 6 0.03
27 175 0.93
28 7 0.04
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGATAATTTTACAAATCG
Found at i:18809342 original size:54 final size:54
Alignment explanation
Indices: 18809293--18809505 Score: 225
Period size: 54 Copynumber: 3.9 Consensus size: 54
18809283 ATAATTCTGT
* *
18809293 AAATCAGGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTTAGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTAC
** ** ** *
18809347 AGGTC-GAGGGTATTTCAGTAATTTCCCAAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTAC
* * * *
18809401 AAATTAAGGGTATTTTGGTAATTTTATAAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTAGTAATTTTAC
* * * *
18809455 AAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTT
1 AAATCAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTT
18809506 GGTAAACTAA
Statistics
Matches: 131, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
53 2 0.02
54 127 0.97
55 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTAC
Found at i:18809439 original size:81 final size:82
Alignment explanation
Indices: 18809293--18809514 Score: 268
Period size: 81 Copynumber: 2.7 Consensus size: 82
18809283 ATAATTCTGT
* * * * ** *
18809293 AAATCAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTA-CAGGTCGAGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAACTAGAGGG
*
18809357 TATTTCAGTAATTTCCC
66 TATTTCAGTAATTTCAC
* *
18809374 AAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTTATAAACTAG-GGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAACTAGAGGG
** *
18809438 TATTTTGGTAATTTTAC
66 TATTTCAGTAATTTCAC
* * * **
18809455 AAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTGGTAAACTA
1 AAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAACTA
18809515 AAGTATTCTA
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 117 0.98
82 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.39
Consensus pattern (82 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAACTAGAGGG
TATTTCAGTAATTTCAC
Found at i:18809512 original size:27 final size:27
Alignment explanation
Indices: 18809300--18809505 Score: 178
Period size: 27 Copynumber: 7.6 Consensus size: 27
18809290 TGTAAATCAG
* * ** *
18809300 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *** *
18809327 GGGTATTTTAGTAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
** *** * *
18809354 GGGTATTTCAGTAATTTCCCAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* **
18809381 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
18809408 GGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
18809435 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
18809462 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
18809489 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
18809506 GGTAAACTAA
Statistics
Matches: 155, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:18811132 original size:25 final size:25
Alignment explanation
Indices: 18811104--18811173 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
18811094 CTCTTTTAAT
* *
18811104 AACTGGGGCAAAGCTCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
18811129 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
18811154 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
18811174 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:18811433 original size:27 final size:27
Alignment explanation
Indices: 18811378--18811591 Score: 279
Period size: 27 Copynumber: 8.0 Consensus size: 27
18811368 GGGGCAAAAT
* *
18811378 GGTAATTTTACCCATA-A-GGGTATGTC
1 GGTAATTCTACCC-TACAGGGGTATTTC
18811404 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
18811431 GGTATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18811458 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
18811485 AGTAATTCTACCATATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18811512 GGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
18811539 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18811566 AGTAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
18811592 TGATATTTTA
Statistics
Matches: 164, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
25 2 0.01
26 13 0.08
27 149 0.91
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:18811494 original size:81 final size:81
Alignment explanation
Indices: 18811379--18811591 Score: 315
Period size: 81 Copynumber: 2.6 Consensus size: 81
18811369 GGGCAAAATG
* * * *
18811379 GTAATTTTACCCATA-A-GGGTATGTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTA
1 GTAATTCTACCC-TACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTT-TA
18811441 CCCTACAAAGGTATTTCA
64 CCCTACAAAGGTATTTCA
* *
18811459 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCATATAGGGGTATTTCGGTAATTTTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACC
* *
18811524 CTACAAGGGTATTTCG
66 CTACAAAGGTATTTCA
18811540 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
18811592 TGATATTTTA
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
79 2 0.02
80 12 0.10
81 102 0.85
82 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACC
CTACAAAGGTATTTCA
Found at i:18811622 original size:26 final size:27
Alignment explanation
Indices: 18811586--18811644 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
18811576 CCCTATAGGG
* *
18811586 GTATTTTGAT-ATTTTACAAATCAAAA
1 GTATTTCGATAATTTCACAAATCAAAA
* *
18811612 GTATTTCGATAATTTCACAAATCGAGA
1 GTATTTCGATAATTTCACAAATCAAAA
18811639 GTATTT
1 GTATTT
18811645 TTGTAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (27 bp):
GTATTTCGATAATTTCACAAATCAAAA
Found at i:18811651 original size:27 final size:27
Alignment explanation
Indices: 18811639--18811789 Score: 187
Period size: 27 Copynumber: 5.6 Consensus size: 27
18811629 CAAATCGAGA
* *
18811639 GTATTTTTGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
18811666 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
18811693 GTATTTTAGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
18811720 GTATTTTGGTAATTTTACTAATC-GAGG
1 GTATTTTGGTAATTTTACAAACCAG-GG
** *
18811747 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
**
18811774 GTATTTCAGTAATTTT
1 GTATTTTGGTAATTTT
18811790 GTAAATCGAG
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 106 0.99
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:18811670 original size:54 final size:54
Alignment explanation
Indices: 18811612--18811803 Score: 199
Period size: 54 Copynumber: 3.6 Consensus size: 54
18811602 CAAATCAAAA
* * * *
18811612 GTATTTCGATAATTTCACAAATCGAGAGTATTTTTGTAATTTTACAAGCCAGGG
1 GTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACCAGGG
* * * *
18811666 GTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTAGTAATTTTACAAACTAGGG
1 GTATTTCGATAATTTTACAAATCGA-GGGTATTTTAGTAATTTTACAAACCAGGG
* * * * ** *
18811720 GTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACCAGGG
**
18811774 GTATTTC-AGTAATTTTGTAAATCGAGGGTA
1 GTATTTCGA-TAATTTTACAAATCGAGGGTA
18811804 AAACGGTAAT
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.02
54 111 0.97
55 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAACCAGGG
Found at i:18811803 original size:81 final size:81
Alignment explanation
Indices: 18811582--18811803 Score: 245
Period size: 81 Copynumber: 2.8 Consensus size: 81
18811572 TCTACCCTAT
* * ** * *
18811582 AGGGGTATTTTGAT-ATTTTACAAATCAAAAGTATTTC-GATAATTTCACAAATCGAGAGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTT
*
18811645 TTGTAATTTTACAAGCC
65 TGGTAATTTTACAAGCC
* * *
18811662 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAATCGA-GGGTATTT
* *
18811726 TGGTAATTTTACTAATCG
65 TGGTAATTTTAC-AAGCC
** **
18811744 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTA
18811804 AAACGGTAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
80 15 0.13
81 96 0.81
82 7 0.06
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTT
GGTAATTTTACAAGCC
Found at i:18811812 original size:27 final size:27
Alignment explanation
Indices: 18811782--18811924 Score: 241
Period size: 27 Copynumber: 5.3 Consensus size: 27
18811772 GGGTATTTCA
* *
18811782 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
18811809 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
18811836 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
18811863 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
18811890 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
18811917 GTAATTCT
1 GTAATTCT
18811925 GGAAACGAAC
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:18811812 original size:81 final size:80
Alignment explanation
Indices: 18811664--18811911 Score: 248
Period size: 81 Copynumber: 3.1 Consensus size: 80
18811654 TACAAGCCAG
* * * * ***
18811664 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTA-TTTAGTAATTTTATAAATCGA-GGGTAAAATG
*
18811728 GTAATTTTACT-AATCGA
64 GTAATTCTA-TAAATCGA
* * *
18811745 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACGG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTT-AGTAATTTTATAAATCGAGGGTAAAATGG
18811810 TAATTCTATAAATCGA
65 TAATTCTATAAATCGA
*** * * * ** * *
18811826 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGT-ATTTAGTAATTTTATAAATCGAGGGTAAAATGG
18811891 TAATTCTATAAATCGA
65 TAATTCTATAAATCGA
18811907 GGGTA
1 GGGTA
18811912 AAACGGTAAT
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
80 4 0.03
81 131 0.94
82 4 0.03
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTAGTAATTTTATAAATCGAGGGTAAAATGGT
AATTCTATAAATCGA
Found at i:18817328 original size:21 final size:21
Alignment explanation
Indices: 18817303--18817353 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18817293 ATTTTGATAT
*
18817303 ACATGATATGACATGACATGC
1 ACATGATATGACATGACATGA
** *
18817324 ACATGATATGTTATGAGATGA
1 ACATGATATGACATGACATGA
18817345 ACATGATAT
1 ACATGATAT
18817354 ACTTATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGACATGACATGA
Found at i:18817472 original size:24 final size:25
Alignment explanation
Indices: 18817399--18817483 Score: 136
Period size: 25 Copynumber: 3.4 Consensus size: 25
18817389 GGAGGAAGTG
*
18817399 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAT
*
18817424 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAT
18817449 CAAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAT
*
18817473 TAAAAAGGGCT
1 CAAAAAGGGCT
18817484 AGACCTCCAG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
24 14 0.25
25 42 0.75
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAT
Found at i:18817493 original size:25 final size:24
Alignment explanation
Indices: 18817399--18817497 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 24
18817389 GGAGGAAGTG
* *
18817399 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTAGCCCCAG-TTAT
* *
18817424 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTAGCCCCAG-TTAT
*
18817449 CAAAAAGGGCTTTGCCCCAGTTAT
1 CAAAAAGGGCTTAGCCCCAGTTAT
*
18817473 TAAAAAGGGC-TAGACCTCCAGTTAT
1 CAAAAAGGGCTTAG-CC-CCAGTTAT
18817498 GATAAAGCAG
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 2 0.03
24 15 0.22
25 50 0.75
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (24 bp):
CAAAAAGGGCTTAGCCCCAGTTAT
Found at i:18817756 original size:30 final size:31
Alignment explanation
Indices: 18817689--18817770 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
18817679 CACTTACAAT
*
18817689 AAAGGCTTCGGCCCAGTGATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
18817720 AAAGGCTTCGGCCCAGTGTTATGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
18817750 AAAGGCTTCAGCCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
18817771 ATTGAGACTG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
29 3 0.06
30 16 0.34
31 28 0.60
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:18817797 original size:17 final size:17
Alignment explanation
Indices: 18817775--18817810 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18817765 GTATATATTG
18817775 AGACTGAATTTGGGCTT
1 AGACTGAATTTGGGCTT
18817792 AGACTGAATTTGGGCTT
1 AGACTGAATTTGGGCTT
18817809 AG
1 AG
18817811 GCCAGTATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.31, T:0.33
Consensus pattern (17 bp):
AGACTGAATTTGGGCTT
Found at i:18820183 original size:40 final size:40
Alignment explanation
Indices: 18820017--18820184 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
18820007 CATTTGAATG
* * *
18820017 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
18820057 ATGTCCAGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
18820097 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
18820137 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
18820177 GTATCCGG
1 ATATCCGG
18820185 TTAAATCCCG
Statistics
Matches: 100, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 3 0.03
40 93 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:18834120 original size:43 final size:42
Alignment explanation
Indices: 18834024--18834123 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
18834014 AATATGAGAT
* *
18834024 TTACATGTAAGACCATGTCTGGAACATCGGCATCATATTTGA
1 TTACATGTAAGACCATATCTGGAACATCGGAATCATATTTGA
*** * * *
18834066 TTTTGTATAAGACCCTATCTGGGACAGT-GGAATCGATATTTGA
1 TTACATGTAAGACCATATCTGGAACA-TCGGAATC-ATATTTGA
18834109 TTACATGTAAGACCA
1 TTACATGTAAGACCA
18834124 CATATGGGAC
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
42 24 0.56
43 19 0.44
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATATCTGGAACATCGGAATCATATTTGA
Found at i:18836802 original size:50 final size:50
Alignment explanation
Indices: 18836727--18836826 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
18836717 TGGCATAGAG
*
18836727 TTAGTACCGGGAACTACTCTGATTTTGAGAGCTCCATATAGAATGTCTCT
1 TTAGTACCGGGAACTACTCTGATTTTGAAAGCTCCATATAGAATGTCTCT
*
18836777 TTAGTACCGGGAACTACTCTGATTTTGAAAGCTCCGTATAGAATGTCTCT
1 TTAGTACCGGGAACTACTCTGATTTTGAAAGCTCCATATAGAATGTCTCT
18836827 AACCGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (50 bp):
TTAGTACCGGGAACTACTCTGATTTTGAAAGCTCCATATAGAATGTCTCT
Found at i:18839242 original size:24 final size:24
Alignment explanation
Indices: 18839210--18839341 Score: 203
Period size: 24 Copynumber: 5.5 Consensus size: 24
18839200 AATCTCAAAT
*
18839210 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
18839234 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
18839258 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
18839282 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
* ** *
18839306 GCACTATGTGTGCAACATAATA-A
1 GCACTATGTGTGCGATTTACTATA
18839329 GCACTATGTGTGC
1 GCACTATGTGTGC
18839342 AACGTTTGGT
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
23 13 0.13
24 88 0.87
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:18847130 original size:24 final size:24
Alignment explanation
Indices: 18847098--18847184 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
18847088 AATCTCAAAT
18847098 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
18847122 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
18847146 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
18847170 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
18847185 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:18847150 original size:48 final size:48
Alignment explanation
Indices: 18847098--18847206 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
18847088 AATCTCAAAT
** *
18847098 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
18847146 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
18847194 GCACTATGTGTGC
1 GCACTATGTGTGC
18847207 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:18847197 original size:24 final size:24
Alignment explanation
Indices: 18847098--18847206 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
18847088 AATCTCAAAT
*
18847098 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
18847122 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
18847146 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
18847170 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
18847194 GCACTATGTGTGC
1 GCACTATGTGTGC
18847207 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:18849705 original size:23 final size:23
Alignment explanation
Indices: 18849671--18849715 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
18849661 GATTCACTTC
* *
18849671 GAGGTTTTGGAA-GAAATTGCAA
1 GAGGTTTAGGAACAAAATTGCAA
18849693 GAGGCTTTAGGAACAAAATTGCA
1 GAGG-TTTAGGAACAAAATTGCA
18849716 CTTCAGTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (23 bp):
GAGGTTTAGGAACAAAATTGCAA
Found at i:18855891 original size:26 final size:27
Alignment explanation
Indices: 18855862--18855917 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
18855852 AGTATGGCTG
* * *
18855862 CCAGA-ACTGATATTTTGACAGAGTCA
1 CCAGATACAGATATTGTGACAGAGCCA
*
18855888 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGATACAGATATTGTGACAGAGCCA
18855915 CCA
1 CCA
18855918 AAATCAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (27 bp):
CCAGATACAGATATTGTGACAGAGCCA
Found at i:18856234 original size:27 final size:26
Alignment explanation
Indices: 18856158--18856237 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
18856148 ATCAGTCAAT
* * * *
18856158 AGATATTGTGACAAAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
18856185 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
18856211 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
18856238 GCTTCCTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.15
27 40 0.85
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:18857751 original size:19 final size:19
Alignment explanation
Indices: 18857727--18857765 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18857717 TCACGCTTAA
18857727 ATATAATCTCAAAATACAT
1 ATATAATCTCAAAATACAT
18857746 ATATAATCTCAAAATACAT
1 ATATAATCTCAAAATACAT
18857765 A
1 A
18857766 CCTGACCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ATATAATCTCAAAATACAT
Found at i:18857928 original size:37 final size:37
Alignment explanation
Indices: 18857875--18857977 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
18857865 CGAATAGTCC
*
18857875 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
18857912 CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
18857949 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
18857978 ATACATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:18858093 original size:48 final size:48
Alignment explanation
Indices: 18858022--18858874 Score: 1400
Period size: 48 Copynumber: 17.8 Consensus size: 48
18858012 TGTTACAACA
*
18858022 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
18858070 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18858118 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18858166 TTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18858214 TTCACATTCGCCATTCGGCTTTACCACATATACATATCCCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
18858262 TTCACATTAGCCATTCGGCTTTACCACATATGCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
18858310 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
18858358 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18858406 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
18858454 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18858502 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
18858550 TTCACATTAGCCATTCGGCTTTACCACATATGCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
18858598 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
18858646 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
18858694 TTCACATTCGCCATTCGCCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18858742 TTCACTTTAGCCATTCGGCTTTACCACATATTCATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
18858790 TTCACATTCGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
18858838 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
18858875 ATTTATCTTG
Statistics
Matches: 748, Mismatches: 57, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 748 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:18861982 original size:40 final size:40
Alignment explanation
Indices: 18861924--18862244 Score: 453
Period size: 40 Copynumber: 8.0 Consensus size: 40
18861914 CCGAATACAC
* * * * * *
18861924 ATCACCAGCATGATTGCTCTTTGGGACCTAGCCCTGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * * ** *
18861964 AACACCAGCATGAATGCTCTTTGGGGTTTAGCACGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
**
18862004 ATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
18862044 ATCACTAGCACGAATGCTCCTCGGAACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
18862084 ATCACTAGCACGAATGCTCTTCGGGACTCAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
18862124 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
18862164 ATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
18862204 ATCACTAGCACGAATGCTCTTCGGGACTTCGCCCGGCTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
18862244 A
1 A
18862245 CAACTCTCAA
Statistics
Matches: 255, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:18864347 original size:48 final size:48
Alignment explanation
Indices: 18864276--18864802 Score: 777
Period size: 48 Copynumber: 10.8 Consensus size: 48
18864266 TGTTACAACA
*
18864276 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
18864324 TTCACATTCGCCATTCGACTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
18864372 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACATATTTCACAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATC---T-CATA--T-ATAT
*
18864427 TTCACATTAGCCATTCGG-TGTTACCACATATATATATCTCATATATAT
1 TTCACATTAGCCATTCGGCT-TTACCACATATACATATCTCATATATAT
* *
18864475 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
18864523 TTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
18864571 TTCACATTAGCCATTCGGCTTTACCACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTT---ACCACATATACATATCTCATATATAT
* * *
18864622 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
18864670 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
18864718 TTCACATTCGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
18864766 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
18864803 ATTTATCTTG
Statistics
Matches: 435, Mismatches: 32, Indels: 24
0.89 0.07 0.05
Matches are distributed among these distances:
48 338 0.78
49 2 0.00
51 50 0.11
52 5 0.01
54 2 0.00
55 38 0.09
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:18864718 original size:195 final size:198
Alignment explanation
Indices: 18864276--18864804 Score: 822
Period size: 195 Copynumber: 2.7 Consensus size: 198
18864266 TGTTACAACA
*
18864276 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCG
*
18864341 ACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTT---ACCACATAT
66 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACCACATAT
* * *
18864403 ACATATCTTATACATATTTCACATTTCACATTAGCCATTCGGTGTTACCACATATATATATCTCA
131 ACATATCTCATACATATTTCACATTT-AC---AGCCATTCGGTGTTACCACATATACATATCACA
*
18864468 TATATAT
192 CATATAT
* * *
18864475 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCG
*
18864540 GCTTTACCACATATATATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACCACATAT
66 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACCACATAT
18864605 ACATATCTCATACATATTTCACA-TT-C-GCCATTCGGCT-TTACCACATATACATATCACACAT
131 ACATATCTCATACATATTTCACATTTACAGCCATTCGG-TGTTACCACATATACATATCACACAT
18864666 ATAT
195 ATAT
18864670 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCG
* * * *
18864735 GCTTTACCACATACACATATCACACATATATTTCACATTAGCCATTCGGCTTCACCA-CACATAT
66 GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACCACATAT
*
18864799 ATATAT
131 ACATAT
18864805 TTATCTTGTA
Statistics
Matches: 307, Mismatches: 19, Indels: 13
0.91 0.06 0.04
Matches are distributed among these distances:
194 12 0.04
195 148 0.48
196 1 0.00
199 113 0.37
201 2 0.01
202 31 0.10
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (198 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTCGCCATTCG
GCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACCACATAT
ACATATCTCATACATATTTCACATTTACAGCCATTCGGTGTTACCACATATACATATCACACATA
TAT
Found at i:18867187 original size:27 final size:27
Alignment explanation
Indices: 18867157--18867720 Score: 774
Period size: 27 Copynumber: 21.0 Consensus size: 27
18867147 AGGGTAAAAT
* * *
18867157 GGTAATTTTACCCTAC-GAGGGTATCTA
1 GGTAATTCTACCCTACAG-GGGTATTTC
18867184 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
18867211 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18867238 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
18867265 AATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18867292 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18867319 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18867346 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
18867373 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18867400 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18867427 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
18867454 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
18867481 GGTAATTCTATCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18867508 AGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18867535 GGTATTTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
18867561 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18867588 GGTAATTCTACCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
18867614 AGTAATTCTACTGTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18867641 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18867668 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18867695 AGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
18867721 TAGTAATTTT
Statistics
Matches: 468, Mismatches: 66, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
26 43 0.09
27 424 0.91
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:18867743 original size:27 final size:27
Alignment explanation
Indices: 18867713--18867836 Score: 94
Period size: 27 Copynumber: 4.7 Consensus size: 27
18867703 TACCCTACAG
18867713 GGGTATTTTAGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
*
18867740 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
** ** * * *
18867766 CAGT-GCTTCGATAATTTTATAAA-CCA
1 GGGTATTTTAG-TAATTTTACAAATCGA
* * *
18867792 GGGGTA-CTTGGTAATTTTACAAGTCGA
1 -GGGTATTTTAGTAATTTTACAAATCGA
*
18867819 GGGTATTTCAGTAATTTT
1 GGGTATTTTAGTAATTTT
18867837 GTAAACTAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
25 2 0.03
26 33 0.45
27 38 0.52
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCGA
Found at i:18867822 original size:26 final size:26
Alignment explanation
Indices: 18867723--18867836 Score: 95
Period size: 26 Copynumber: 4.3 Consensus size: 26
18867713 GGGTATTTTA
* *
18867723 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAGGGTACTTCG
** *
18867750 GTAATTTTACAATCGACAGTGCTTCG
1 GTAATTTTACAATCGAGGGTACTTCG
* * * *
18867776 ATAATTTTATAAACCAGGGGTACTT-G
1 GTAATTTTACAATCGA-GGGTACTTCG
* *
18867802 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAA-TCGAGGGTACTTCG
18867829 GTAATTTT
1 GTAATTTT
18867837 GTAAACTAAA
Statistics
Matches: 66, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
26 41 0.62
27 25 0.38
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (26 bp):
GTAATTTTACAATCGAGGGTACTTCG
Found at i:18872018 original size:83 final size:83
Alignment explanation
Indices: 18871887--18872053 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 83
18871877 TACTCTAGTT
*
18871887 TTTACTTTCATTAGTGTTAGGGTATACACATTTTATAACTACAGTTTTATTTTTACTTAGATTCT
1 TTTACTTTCATTAGTGTTAGGGTATACACATTTTAGAACTACAGTTTTATTTTTACTTAGATTCT
18871952 ATTTTTTCCTTTGTCTTG
66 ATTTTTTCCTTTGTCTTG
* *
18871970 TTTACTTTCATTAGTGTTAGGGTATACACTTTTTAGAACTATAGTTTTATTTTTACTTAGATTCT
1 TTTACTTTCATTAGTGTTAGGGTATACACATTTTAGAACTACAGTTTTATTTTTACTTAGATTCT
18872035 ATTTTTTCCTTTGTCTTG
66 ATTTTTTCCTTTGTCTTG
18872053 T
1 T
18872054 GGTTAAATAC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (83 bp):
TTTACTTTCATTAGTGTTAGGGTATACACATTTTAGAACTACAGTTTTATTTTTACTTAGATTCT
ATTTTTTCCTTTGTCTTG
Found at i:18881944 original size:32 final size:32
Alignment explanation
Indices: 18881908--18881972 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
18881898 CATATAATTA
18881908 TAACATTTATCAATAACAAAATGTCATACTCT
1 TAACATTTATCAATAACAAAATGTCATACTCT
18881940 TAACATTTATCAATAACAAAATGTCATACTCT
1 TAACATTTATCAATAACAAAATGTCATACTCT
18881972 T
1 T
18881973 TGATCCATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.35
Consensus pattern (32 bp):
TAACATTTATCAATAACAAAATGTCATACTCT
Found at i:18882779 original size:17 final size:19
Alignment explanation
Indices: 18882749--18882784 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18882739 CAACCCATAT
18882749 TGTAACACCCCT-AACCCG
1 TGTAACACCCCTAAACCCG
18882767 TGTAACA-CCCTAAACCCG
1 TGTAACACCCCTAAACCCG
18882785 ACCTGGACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.31, C:0.42, G:0.11, T:0.17
Consensus pattern (19 bp):
TGTAACACCCCTAAACCCG
Found at i:18894122 original size:18 final size:18
Alignment explanation
Indices: 18894099--18894150 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
18894089 CTTGGCCCAT
18894099 TGCAGTAACAGTAAACAA
1 TGCAGTAACAGTAAACAA
* *
18894117 TGCAGTAATAGT-AACAG
1 TGCAGTAACAGTAAACAA
18894134 TGCAGTAACAGTAAACA
1 TGCAGTAACAGTAAACA
18894151 GTATGCAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAA
Found at i:18894152 original size:18 final size:18
Alignment explanation
Indices: 18894099--18894152 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
18894089 CTTGGCCCAT
*
18894099 TGCAGTAACAGTAAACAA
1 TGCAGTAACAGTAAACAG
*
18894117 TGCAGTAATAGT-AACAG
1 TGCAGTAACAGTAAACAG
18894134 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
18894152 T
1 T
18894153 ATGCAAGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:18894539 original size:27 final size:28
Alignment explanation
Indices: 18894495--18894571 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
18894485 CTTACTATAA
* *
18894495 AAGGGCAAAACAA-CCATTTTACCCT-AT
1 AAGGGCAAAA-AAGTCATTTTACCCTCAG
18894522 AAGGGCAAAAAAGTCATTTTA-CCTCAG
1 AAGGGCAAAAAAGTCATTTTACCCTCAG
* * *
18894549 AAGCGTAAAATAGTCATTTTACC
1 AAGGGCAAAAAAGTCATTTTACC
18894572 AATTAGGGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (28 bp):
AAGGGCAAAAAAGTCATTTTACCCTCAG
Found at i:18898556 original size:40 final size:40
Alignment explanation
Indices: 18898469--18898619 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
18898459 AATTGATTGA
* * * **
18898469 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGA-TAC
* * * *
18898509 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATAC
*
18898550 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATAC
*
18898589 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
18898620 AAATCGTGAT
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
39 6 0.07
40 82 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATAC
Found at i:18898633 original size:40 final size:39
Alignment explanation
Indices: 18898468--18898651 Score: 131
Period size: 40 Copynumber: 4.6 Consensus size: 39
18898458 AAATTGATTG
* * *
18898468 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATGAT
* * * * * *
18898508 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-GAT
* * * *
18898548 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATGA-T
*
18898588 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-GAT
* * *
18898627 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
18898652 CTTGGTGCGG
Statistics
Matches: 114, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 4 0.04
40 103 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATGAT
Found at i:18898676 original size:80 final size:81
Alignment explanation
Indices: 18898508--18898696 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
18898498 GCTGGAAATT
* * * *
18898508 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
18898573 TTCGTGCGAGTGATTC
66 TTCGTGCGAGTGATCC
* * * * * *
18898589 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
18898652 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTGATCC
* * *
18898668 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
18898697 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTGATCC
Found at i:18905089 original size:14 final size:14
Alignment explanation
Indices: 18905070--18905098 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18905060 CGCTGAGGTA
18905070 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
18905084 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
18905098 T
1 T
18905099 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:18905253 original size:72 final size:72
Alignment explanation
Indices: 18905085--18905354 Score: 429
Period size: 72 Copynumber: 3.8 Consensus size: 72
18905075 AATTTCTGTT
* *
18905085 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-ACACGT
1 TTTCAATTTCTATT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
18905147 TGAGGTAA
65 TGAGGTAA
18905155 TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
18905220 GAGGTAA
66 GAGGTAA
* **
18905227 TTTCAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
18905292 GAGGTAT
66 GAGGTAA
* *
18905299 TTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTCAATTTCTATTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
18905355 GGTTCACATG
Statistics
Matches: 185, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
69 2 0.01
70 50 0.27
71 1 0.01
72 98 0.53
73 34 0.18
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
GAGGTAA
Found at i:18905831 original size:44 final size:45
Alignment explanation
Indices: 18905748--18905846 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
18905738 TGAAGCTGTT
* *
18905748 AATCTTATAT-TTCTGAAGTCACAGTAAAGCAGATCGAAGCTACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* * ** *
18905792 AATCTTATATCCT-TGAAGTTACATTAAAGTGGATTGAAGCCACA
1 AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
* *
18905836 AAGCATATATC
1 AATCTTATATC
18905847 AGAAGATGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (45 bp):
AATCTTATATCCTCTGAAGTCACAGTAAAGCAGATCGAAGCCACA
Found at i:18906597 original size:12 final size:11
Alignment explanation
Indices: 18906577--18906614 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
18906567 TAAAACATAA
18906577 AAAAAATATAC
1 AAAAAATATAC
18906588 AAAAAGATATAC
1 AAAAA-ATATAC
18906600 AAAAAATATAC
1 AAAAAATATAC
18906611 AAAA
1 AAAA
18906615 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAAAATATAC
Found at i:18907224 original size:3 final size:3
Alignment explanation
Indices: 18907216--18907261 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
18907206 TGCATTTCAA
18907216 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18907262 GAAATACATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18907371 original size:3 final size:3
Alignment explanation
Indices: 18907363--18907407 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
18907353 TGTGTTTCAA
18907363 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18907408 ATATCCTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18907680 original size:33 final size:30
Alignment explanation
Indices: 18907622--18907694 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
18907612 TAATATTATG
*
18907622 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
18907652 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
18907685 TATATATTTT
1 TATATATTTT
18907695 CTTAGTACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:18912997 original size:20 final size:20
Alignment explanation
Indices: 18912972--18913010 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18912962 ACAAATTTAA
18912972 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
18912992 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
18913011 AATAGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:18918743 original size:47 final size:47
Alignment explanation
Indices: 18918621--18918960 Score: 374
Period size: 47 Copynumber: 7.6 Consensus size: 47
18918611 TGAAAAAAAA
* * * *
18918621 GTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
*
18918669 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
18918716 GTGGTGTTAAGTGGATATACCAGGGTTA-A-ACA-TG------TAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
18918754 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTACC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
18918801 GTGGTGCTAAGTGGATATGCCAAGGTTACATTTATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
18918848 GTGATGCTAAGTGGATATACCACGGTTA-A-ACA-TG------TAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* *
18918886 GTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
18918933 GTGGTGCTAAGTGGATATACCACGGTTA
1 GTGGTGCTAAGTGGATATACCACGGTTA
18918961 AACATGTAAC
Statistics
Matches: 242, Mismatches: 32, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
38 56 0.23
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 3 0.01
46 2 0.01
47 129 0.53
48 38 0.16
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
Found at i:18918804 original size:85 final size:85
Alignment explanation
Indices: 18918660--18918828 Score: 293
Period size: 85 Copynumber: 2.0 Consensus size: 85
18918650 ACATATTGAT
* *
18918660 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
*
18918725 AGTGGATATACCAGGGTTAA
66 AGTGGATATACCAAGGTTAA
*
18918745 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTACCGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
*
18918810 AGTGGATATGCCAAGGTTA
66 AGTGGATATACCAAGGTTA
18918829 CATTTATTGA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCAAGGTTAA
Found at i:18918837 original size:132 final size:132
Alignment explanation
Indices: 18918621--18918960 Score: 529
Period size: 132 Copynumber: 2.6 Consensus size: 132
18918611 TGAAAAAAAA
* * * *
18918621 GTGGTGCTAAGTGGATATACCA-TGATTACACATATTGATACATGTAACGTGGTGCTAAGTGGAT
1 GTGGTGCTAAGTGGATATGCCACAG-TTACATATATTGATTCAT-TAACGTGGTGCTAAGTGGAT
* * *
18918685 ATGCCACGGTTACATATATTGATTCATTAACGTGGTGTTAAGTGGATATACCAGGGTTAAACATG
64 ATGCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATG
18918750 TAAC
129 TAAC
*
18918754 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTACCGTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
* *
18918819 GCCAAGGTTACATTTATTGATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
66 GCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
*
18918884 AT
131 AC
* *
18918886 GTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
*
18918951 ACCACGGTTA
66 GCCACGGTTA
18918961 AACATGTAAC
Statistics
Matches: 190, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
132 152 0.80
133 37 0.19
134 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (132 bp):
GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
GCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
AC
Found at i:18918890 original size:85 final size:85
Alignment explanation
Indices: 18918800--18918998 Score: 353
Period size: 85 Copynumber: 2.3 Consensus size: 85
18918790 GATTCATTAC
* *
18918800 CGTGGTGCTAAGTGGATATGCCAAGGTTACATTTATTGATTCATTAACGTGATGCTAAGTGGATA
1 CGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATA
18918865 TACCACGGTTAAACATGTAA
66 TACCACGGTTAAACATGTAA
* * *
18918885 TGTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAACGTGGTGCTAAGTGGATA
1 CGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATA
18918950 TACCACGGTTAAACATGTAA
66 TACCACGGTTAAACATGTAA
18918970 CGTGGTGCTAAGTGGATATGCCACGGTTA
1 CGTGGTGCTAAGTGGATATGCCACGGTTA
18918999 TACATGTTAA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 107 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (85 bp):
CGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATA
TACCACGGTTAAACATGTAA
Found at i:18919008 original size:132 final size:126
Alignment explanation
Indices: 18918621--18919005 Score: 429
Period size: 132 Copynumber: 3.0 Consensus size: 126
18918611 TGAAAAAAAA
* * * * *
18918621 GTGGTGCTAAGTGGATATACCA-TGATTACACATATTGATACATGTAACGTGGTGCTAAGTGGAT
1 GTGGTGCTAAGTGGATATGCCACAG-CTACATATATTGATTCAT-TAACGTGGTGCTAAGTGGAT
* * * * *
18918685 ATGCCACGGTTACATATATTGATTCATTAACGTGGTGTTAAGTGGATATACCAGGGTTAAACATG
64 ATACCAAGGTT--A-ATA-T-A-TCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATG
18918750 TAAC
123 TAAC
* *
18918754 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTACCGTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATGCCACAGCTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
*
18918819 GCCAAGGTTACATTTATTGATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
66 ACCAAGGTTA-A--TA-T-A-TCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
*
18918884 AT
125 AC
*
18918886 GTGGTGCTAAGTGGATATGCCACGGCTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATGCCACAGCTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
* * * *
18918951 ACCACGGTT-A-A-A-CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
66 ACCAAGGTTAATATATCAT-TAACGTGATGCTAAGTGGATATACCACGGTTAAACATGT
18919006 TAATTTGAAA
Statistics
Matches: 229, Mismatches: 19, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
122 3 0.01
123 36 0.16
124 1 0.00
127 1 0.00
130 3 0.01
132 147 0.64
133 37 0.16
134 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (126 bp):
GTGGTGCTAAGTGGATATGCCACAGCTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
ACCAAGGTTAATATATCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTAAC
Found at i:18925596 original size:21 final size:21
Alignment explanation
Indices: 18925572--18925611 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18925562 GGACTAAACC
*
18925572 GAAAACTTTGAAAAGTTTCAG
1 GAAAACTTAGAAAAGTTTCAG
*
18925593 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
18925612 CCATGACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAG
Found at i:18927596 original size:48 final size:47
Alignment explanation
Indices: 18927536--18927755 Score: 162
Period size: 49 Copynumber: 4.7 Consensus size: 47
18927526 TGATGCCGAC
* *
18927536 GCCATGTTCCAAATATGGTCTTACACTGGCTCACATATCTAAGTCGAT
1 GCCATGTCCCAAACA-GGTCTTACACTGGCTCACATATCTAAGTCGAT
** * * * * *
18927584 GCCATGTCCCAAACAGGTCTTACGTTGACTTTCATATATCGAGGTTGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGC--TCACATATCTAAGTCGAT
* * * *
18927633 GCCATGTCCCAGACAGGTCTTACACT-G-ACACTTGTC-AAG-CTGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGCTCACATATCTAAGTC-GAT
* * ** * *
18927677 GCCATGTCTCAAACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGCTCACATATCT--AAGTCGAT
* *
18927726 G-CATGTCCCAGACATGTCTTACACTGGCTC
1 GCCATGTCCCAAACAGGTCTTACACTGGCTC
18927756 TCGTCTCAAT
Statistics
Matches: 131, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
44 29 0.22
45 6 0.05
46 4 0.03
47 11 0.08
48 37 0.28
49 43 0.33
50 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCATGTCCCAAACAGGTCTTACACTGGCTCACATATCTAAGTCGAT
Found at i:18927719 original size:93 final size:92
Alignment explanation
Indices: 18927581--18927751 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 92
18927571 TATCTAAGTC
* * * **
18927581 GATGCCATGTCCCAAACAGGTCTTACGTTGACTTTCATATATCGAGGTTGATGCCATGTCCCAGA
1 GATGCCATGTCCCAAACAGGTCTTACCTAGACTTGCATATATCGAGGCCGATG-CATGTCCCAGA
18927646 CAGGTCTTACACTGACACTTGTCAAGCT
65 CAGGTCTTACACTGACACTTGTCAAGCT
* *
18927674 GATGCCATGTCTCAAACAGGTCTTACACTAG-CTTGCATATCTCGAGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAAACAGGTCTTAC-CTAGACTTGCATATATCGAGGCCGATGCATGTCCCAGA
*
18927738 CATGTCTTACACTG
65 CAGGTCTTACACTG
18927752 GCTCTCGTCT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 24 0.35
93 43 0.62
94 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (92 bp):
GATGCCATGTCCCAAACAGGTCTTACCTAGACTTGCATATATCGAGGCCGATGCATGTCCCAGAC
AGGTCTTACACTGACACTTGTCAAGCT
Found at i:18928470 original size:20 final size:19
Alignment explanation
Indices: 18928433--18928483 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
18928423 CTATAAAAAC
18928433 TCACA-ATTT-CAATTATT
1 TCACACATTTACAATTATT
18928450 TCACACATTTACAACTTATT
1 TCACACATTTACAA-TTATT
*
18928470 TTACAACA-TTACAA
1 TCAC-ACATTTACAA
18928484 AATGACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 14 0.48
21 3 0.10
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (19 bp):
TCACACATTTACAATTATT
Found at i:18935562 original size:21 final size:21
Alignment explanation
Indices: 18935538--18935579 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18935528 ATGCATAGCC
18935538 AAACACAATCAAAGATCGAAA
1 AAACACAATCAAAGATCGAAA
18935559 AAACACAATCAAAGATCGAAA
1 AAACACAATCAAAGATCGAAA
18935580 TTCAGACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.10, T:0.10
Consensus pattern (21 bp):
AAACACAATCAAAGATCGAAA
Found at i:18936363 original size:45 final size:45
Alignment explanation
Indices: 18936302--18936418 Score: 189
Period size: 45 Copynumber: 2.6 Consensus size: 45
18936292 ACATTATAGT
*
18936302 CTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCAGCATCATAAC
1 CTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATCATAAC
* * *
18936347 CTGCTAGGCTCAAAGGCCTGAATAGTATCTCACCGGCATCATAGC
1 CTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATCATAAC
*
18936392 CTGCTAGGCTCAAAGGCCCAAATAGTA
1 CTGCTAGGCTCAAAGGCCCGAATAGTA
18936419 CCGTACAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATCATAAC
Found at i:18945394 original size:67 final size:67
Alignment explanation
Indices: 18945251--18945403 Score: 170
Period size: 67 Copynumber: 2.3 Consensus size: 67
18945241 CTAGCCAGTT
* * *
18945251 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACACATGCGACCTAGATACA
1 TGTCTCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATGCGACCTAGATACA
18945316 TATA
64 TATA
* * * * *
18945320 --TCCCGTAGCTCTCTTGTCTACGTGGTG-TACACATAGTATCAC-CATGCGACCTAGCTACATC
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCGACCTAGATACAT-
18945381 ATAA
65 AT-A
18945385 TGTCTCGTAGCTCTCTTGT
1 TGTCTCGTAGCTCTCTTGT
18945404 ACACATGATG
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
63 17 0.24
64 12 0.17
65 1 0.01
67 41 0.58
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.32
Consensus pattern (67 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCGACCTAGATACATA
TA
Found at i:18948659 original size:18 final size:18
Alignment explanation
Indices: 18948636--18948677 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
18948626 AACTCATTTA
18948636 TTCATCAAATCATTCAAT
1 TTCATCAAATCATTCAAT
18948654 TTCATCAAATCATTCAAT
1 TTCATCAAATCATTCAAT
18948672 TTCATC
1 TTCATC
18948678 CAAAATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (18 bp):
TTCATCAAATCATTCAAT
Found at i:18956423 original size:12 final size:14
Alignment explanation
Indices: 18956408--18956439 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18956398 GTGAGAACAC
18956408 ATGTGT-AG-TACT
1 ATGTGTAAGCTACT
18956420 ATGTGTAAGCTACT
1 ATGTGTAAGCTACT
18956434 ATGTGT
1 ATGTGT
18956440 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 2 0.11
14 10 0.56
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (14 bp):
ATGTGTAAGCTACT
Found at i:18956582 original size:51 final size:50
Alignment explanation
Indices: 18956405--18956593 Score: 171
Period size: 50 Copynumber: 3.7 Consensus size: 50
18956395 ATTGTGAGAA
* * * *** * * *
18956405 CACATGTGTAGTACTATGTGTAAGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-G-CTTAGAT
* * ** * *
18956457 CACGTGTGTAGTAGTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGCTTAGAT
* * *
18956507 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GCTTAGAT
* *
18956558 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
18956594 AGAGATGGTT
Statistics
Matches: 112, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 42 0.38
51 39 0.35
52 31 0.28
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGCTTAGAT
Found at i:18956633 original size:50 final size:50
Alignment explanation
Indices: 18956563--18956686 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
18956553 TCGATCACAT
* *
18956563 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATG-GTTTTGA-TCA-AA
1 GTGTGGTACTATGTGCAGGCCACTATGTG-AAGA-ATGAGCTTTGACT-ATAA
* *
18956613 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAATGTAGCTTTGACTATAA
1 GTGTGGTACTATGTGCAGGCCACTATGTGAAGAATG-AGCTTTGACTATAA
*
18956664 GGGTGGTACTATGTGCAGGCCAC
1 GTGTGGTACTATGTGCAGGCCAC
18956687 CGGGCATCTG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
48 3 0.05
49 4 0.06
50 33 0.52
51 24 0.38
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (50 bp):
GTGTGGTACTATGTGCAGGCCACTATGTGAAGAATGAGCTTTGACTATAA
Found at i:18956678 original size:51 final size:50
Alignment explanation
Indices: 18956517--18956686 Score: 148
Period size: 51 Copynumber: 3.4 Consensus size: 50
18956507 CGCATGTGTA
* * *** * * * *
18956517 GTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCGATCACATGTGTG
1 GTACTATGTGCAGGCCACTATGTGTAAGAGATGGCTTTGATCA-AAGGGTG
* * *
18956568 GTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTTGATCAAAGTGTG
1 GTACTATGTGCAGGCCACTATGTGTAAGAGATGGCTTTGATCAAAGGGTG
* *
18956618 GTACTATGTGAAGGCCACTTTGTG-AAGA-ATGTAGCTTTGA-CTATAAGGGTG
1 GTACTATGTGCAGGCCACTATGTGTAAGAGATG--GCTTTGATC-A-AAGGGTG
18956669 GTACTATGTGCAGGCCAC
1 GTACTATGTGCAGGCCAC
18956687 CGGGCATCTG
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.03
49 5 0.05
50 34 0.34
51 59 0.58
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (50 bp):
GTACTATGTGCAGGCCACTATGTGTAAGAGATGGCTTTGATCAAAGGGTG
Found at i:18961059 original size:43 final size:42
Alignment explanation
Indices: 18960909--18961077 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 42
18960899 AGCTCGTACA
* * * *
18960909 ATGCCAACGTCCTAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATA-CG
* *
18960952 ATGCC-GCTGTCCCAAACAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATACG
* * *
18960994 ATGCCAACGTCCTAGCCGTGGTCTTACACTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCA-AA-TACG
* * *
18961037 ATGCCAATGTCCCAGACTTGGTCTTACATGAGAA-CAAATAC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA-AATCAAATAC
18961078 TAAGTCCTAT
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 33 0.33
43 62 0.61
44 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATACG
Found at i:18961060 original size:85 final size:85
Alignment explanation
Indices: 18960909--18961077 Score: 200
Period size: 85 Copynumber: 2.0 Consensus size: 85
18960899 AGCTCGTACA
* * **
18960909 ATGCCAACGTCCTAGACGTGGTCTTATATGTAATCAAATATCGATGCCGCTGTCCCAAACAGGGT
1 ATGCCAACGTCCTAGACGTGGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAAACAGGGT
18960974 CTTACACGA-AATCAAATACG
66 CTTACACGAGAA-CAAATACG
* * * **
18960994 ATGCCAACGTCCTAGCCGTGGTCTTACACT-AAATCATAA-GTCGATGCCAATGTCCCAGACTTG
1 ATGCCAACGTCCTAGACGTGGTCTTACA-TGAAATCA-AATATCGATGCCAATGTCCCAAACAGG
*
18961057 GTCTTACATGAGAACAAATAC
64 GTCTTACACGAGAACAAATAC
18961078 TAAGTCCTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 66 0.93
86 5 0.07
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCTAGACGTGGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAAACAGGGT
CTTACACGAGAACAAATACG
Found at i:18968668 original size:43 final size:43
Alignment explanation
Indices: 18968584--18968669 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
18968574 AGCTTGTACA
* * *
18968584 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAGCAAATATCG
*
18968627 ATGCCAACGTCCCAGACGTGGTCTTACACG-AGAGCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTA-AGCAAATATCG
18968670 GATCCTATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAGCAAATATCG
Found at i:18979496 original size:13 final size:13
Alignment explanation
Indices: 18979478--18979504 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18979468 TTAGTTTAGA
18979478 TAAAACAAACCCC
1 TAAAACAAACCCC
18979491 TAAAACAAACCCC
1 TAAAACAAACCCC
18979504 T
1 T
18979505 TTTATTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.37, G:0.00, T:0.11
Consensus pattern (13 bp):
TAAAACAAACCCC
Found at i:18982600 original size:29 final size:29
Alignment explanation
Indices: 18982542--18982643 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
18982532 TACCTGTATC
* **
18982542 TGGCCCATTAAGCCC-AATCGTAT-TCATA
1 TGGCCCATTAGGCCCAAATCACATCT-ATA
* * *
18982570 TGGCCCACTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATCTATA
*
18982599 TGACCCATTAGGCCCAAATCACATCTATA
1 TGGCCCATTAGGCCCAAATCACATCTATA
*
18982628 TGGCCCATTCGGCCCA
1 TGGCCCATTAGGCCCA
18982644 GTCATATTCA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 13 0.21
29 47 0.77
30 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATCTATA
Found at i:18982886 original size:8 final size:8
Alignment explanation
Indices: 18982875--18982910 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
18982865 ACTTTCGGCT
18982875 TTTCAGCA
1 TTTCAGCA
*
18982883 TTTCGGCA
1 TTTCAGCA
*
18982891 TTTCAGTA
1 TTTCAGCA
18982899 TTTCAGCA
1 TTTCAGCA
18982907 TTTC
1 TTTC
18982911 GGCTTTTGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (8 bp):
TTTCAGCA
Found at i:18982888 original size:16 final size:16
Alignment explanation
Indices: 18982867--18982910 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
18982857 GTAGCCAAAC
*
18982867 TTTCGGCTTTTCAGCA
1 TTTCGGCATTTCAGCA
*
18982883 TTTCGGCATTTCAGTA
1 TTTCGGCATTTCAGCA
*
18982899 TTTCAGCATTTC
1 TTTCGGCATTTC
18982911 GGCTTTTGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (16 bp):
TTTCGGCATTTCAGCA
Found at i:18984265 original size:16 final size:16
Alignment explanation
Indices: 18984244--18984281 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18984234 TCGGCAAATC
*
18984244 CCGAAATA-CTAACAAG
1 CCGAAATACCGAA-AAG
18984260 CCGAAATACCGAAAAG
1 CCGAAATACCGAAAAG
18984276 CCGAAA
1 CCGAAA
18984282 GTTTGGCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.50, C:0.26, G:0.16, T:0.08
Consensus pattern (16 bp):
CCGAAATACCGAAAAG
Found at i:18984538 original size:29 final size:29
Alignment explanation
Indices: 18984496--18984636 Score: 189
Period size: 28 Copynumber: 5.0 Consensus size: 29
18984486 GCATGAATAT
*
18984496 GAATGTGATTTGGGCCTAATGGGTCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
18984525 GAATGTGATTTGGGCCTAATGAGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
18984554 GAATGAGA-TTGGGCCTAGTAGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
18984582 GAATGT-ATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
18984610 GAATGAGA-TTGGGCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
18984637 TGCATATATG
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
27 1 0.01
28 62 0.63
29 35 0.36
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:18984608 original size:56 final size:57
Alignment explanation
Indices: 18984496--18984636 Score: 212
Period size: 56 Copynumber: 2.5 Consensus size: 57
18984486 GCATGAATAT
* * *
18984496 GAATGTGATTTGGGCCTAATGGGTCATACGAATGTGATTTGGGCCTAATGAGCCATAC
1 GAATGAGA-TTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGAGCCATAC
* * *
18984554 GAATGAGATTGGGCCTAGTAGGCCATACGAATGT-ATTTGGGCCTAATGGGCCATAT
1 GAATGAGATTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGAGCCATAC
18984610 GAATGAGATTGGGCCTAGTGGGCCATA
1 GAATGAGATTGGGCCTAGTGGGCCATA
18984637 TGCATATATG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
56 46 0.61
57 23 0.30
58 7 0.09
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (57 bp):
GAATGAGATTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGAGCCATAC
Found at i:18985345 original size:11 final size:11
Alignment explanation
Indices: 18985315--18985345 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18985305 TGCATGTATT
*
18985315 ATATTATTATG
1 ATATTATTGTG
18985326 ATATTATTGTG
1 ATATTATTGTG
18985337 ATATTATTG
1 ATATTATTG
18985346 CGATGTGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (11 bp):
ATATTATTGTG
Found at i:18987651 original size:40 final size:39
Alignment explanation
Indices: 18987598--18987726 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 39
18987588 GTTATTAGTA
* *
18987598 GCGTTTTTAGAAAAGCGCCGCTATAGATCGACCATTAGCG
1 GCGTTTTT-GAAAAACGCCGCTATAGATCGAGCATTAGCG
* * * *
18987638 GCGCTTTTTGAAAAATGCTGCTATAGATCGAGCTTTAGTG
1 GCG-TTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCG
*
18987678 GCGTTTTT-AAGGAAACGCCGCTATAGGTCGAGCATTAGCG
1 GCGTTTTTGAA--AAACGCCGCTATAGATCGAGCATTAGCG
*
18987718 ACGATTTTT
1 GCG-TTTTT
18987727 TAGAAGCGCC
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.03
39 5 0.07
40 56 0.77
41 10 0.14
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (39 bp):
GCGTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCG
Found at i:18988250 original size:15 final size:15
Alignment explanation
Indices: 18988230--18988282 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
18988220 AATATTTTAA
*
18988230 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
18988245 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
* * *
18988260 GGCTTAGGGTTTA-A
1 GGTTTAGGGATTATG
18988274 GGTTTAGGG
1 GGTTTAGGG
18988283 GTTTAGGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 8 0.24
15 25 0.76
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.40
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:18988250 original size:22 final size:22
Alignment explanation
Indices: 18988225--18988294 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
18988215 GAATTAATAT
18988225 TTTAAGGTTTAT-GGATTATGGG
1 TTTAAGGTTTATGGGATTA-GGG
* * *
18988247 TTTAGGGATTATGGGCTTAGGG
1 TTTAAGGTTTATGGGATTAGGG
* *
18988269 TTTAAGGTTTAGGGGTTTAGGG
1 TTTAAGGTTTATGGGATTAGGG
18988291 TTTA
1 TTTA
18988295 TGAGTTAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 35 0.88
23 5 0.12
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.43
Consensus pattern (22 bp):
TTTAAGGTTTATGGGATTAGGG
Found at i:18988279 original size:7 final size:7
Alignment explanation
Indices: 18988225--18988294 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
18988215 GAATTAATAT
*
18988225 TTTAAGG
1 TTTAGGG
*
18988232 TTTATGG
1 TTTAGGG
*
18988239 ATTATGGG
1 TTTA-GGG
18988247 TTTAGGG
1 TTTAGGG
*
18988254 ATTATGGG
1 TTTA-GGG
*
18988262 CTTAGGG
1 TTTAGGG
*
18988269 TTTAAGG
1 TTTAGGG
18988276 TTTAGGGG
1 TTTA-GGG
18988284 TTTAGGG
1 TTTAGGG
18988291 TTTA
1 TTTA
18988295 TGAGTTAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
7 34 0.67
8 17 0.33
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:18988331 original size:7 final size:7
Alignment explanation
Indices: 18988317--18988369 Score: 79
Period size: 7 Copynumber: 7.4 Consensus size: 7
18988307 TTAAGGTTTG
18988317 TGGATTA
1 TGGATTA
*
18988324 TAGATTA
1 TGGATTA
18988331 TGGATTA
1 TGGATTA
18988338 TGGATTA
1 TGGATTA
18988345 TGGATTA
1 TGGATTA
18988352 TGGATCTA
1 TGGAT-TA
*
18988360 GGGATTA
1 TGGATTA
18988367 TGG
1 TGG
18988370 TTTACGGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
7 35 0.85
8 6 0.15
ACGTcount: A:0.28, C:0.02, G:0.30, T:0.40
Consensus pattern (7 bp):
TGGATTA
Found at i:18988472 original size:8 final size:8
Alignment explanation
Indices: 18988459--18988518 Score: 51
Period size: 7 Copynumber: 8.2 Consensus size: 8
18988449 TTGGGGACAA
18988459 GGTTTATG
1 GGTTTATG
18988467 GGTTTAT-
1 GGTTTATG
*
18988474 GGTTTAAG
1 GGTTTATG
18988482 GGTTT-TG
1 GGTTTATG
*
18988489 GG-ATAT-
1 GGTTTATG
18988495 GGTTTAT-
1 GGTTTATG
*
18988502 GGTTTAAG
1 GGTTTATG
18988510 GGTTT-TG
1 GGTTTATG
18988517 GG
1 GG
18988519 GATATGGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
6 3 0.07
7 22 0.52
8 17 0.40
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (8 bp):
GGTTTATG
Found at i:18988504 original size:28 final size:29
Alignment explanation
Indices: 18988467--18988529 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 29
18988457 AAGGTTTATG
18988467 GGTTTATGGTTTAAGGGTTTT-GGGATAT
1 GGTTTATGGTTTAAGGGTTTTGGGGATAT
18988495 GGTTTATGGTTTAAGGGTTTTGGGGATAT
1 GGTTTATGGTTTAAGGGTTTTGGGGATAT
18988524 GGTTTA
1 GGTTTA
18988530 GGGGTTAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (29 bp):
GGTTTATGGTTTAAGGGTTTTGGGGATAT
Found at i:18988514 original size:36 final size:37
Alignment explanation
Indices: 18988433--18988514 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 37
18988423 ATGATAAGGG
*
18988433 TTAAGGATTTAGGGTTTTGGGGACAAGGTTTATGGGT
1 TTAAGGGTTTAGGGTTTTGGGGACAAGGTTTATGGGT
* * *
18988470 TT-ATGGTTTAAGGGTTTT-GGGATATGGTTTAT-GGT
1 TTAAGGGTTT-AGGGTTTTGGGGACAAGGTTTATGGGT
18988505 TTAAGGGTTT
1 TTAAGGGTTT
18988515 TGGGGATATG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
35 5 0.13
36 23 0.61
37 10 0.26
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (37 bp):
TTAAGGGTTTAGGGTTTTGGGGACAAGGTTTATGGGT
Found at i:18988552 original size:7 final size:7
Alignment explanation
Indices: 18988542--18988574 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18988532 GGTTAGAGGT
18988542 AGGGGGA
1 AGGGGGA
18988549 AGGGGGA
1 AGGGGGA
18988556 AGGGGGA
1 AGGGGGA
18988563 AGGGGGA
1 AGGGGGA
18988570 AGGGG
1 AGGGG
18988575 TTTAAGAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (7 bp):
AGGGGGA
Found at i:18990211 original size:2 final size:2
Alignment explanation
Indices: 18990206--18990243 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18990196 ACACACATAC
18990206 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18990244 TCATTCTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18991532 original size:9 final size:9
Alignment explanation
Indices: 18991514--18991779 Score: 127
Period size: 9 Copynumber: 30.7 Consensus size: 9
18991504 TTAAATTAAT
*
18991514 CATAACTTA
1 CATAATTTA
18991523 CATAATTTA
1 CATAATTTA
*
18991532 CATAACTTA
1 CATAATTTA
18991541 CATAATTT-
1 CATAATTTA
*
18991549 -A-AAGTT-
1 CATAATTTA
18991555 CA-AATTT-
1 CATAATTTA
*
18991562 CATAACTTA
1 CATAATTTA
*
18991571 AATAATTTA
1 CATAATTTA
* * *
18991580 AAAAACTTA
1 CATAATTTA
18991589 CATAA--TA
1 CATAATTTA
* *
18991596 CATAACTAA
1 CATAATTTA
18991605 CATAATTT-
1 CATAATTTA
*
18991613 -A-AAGTT-
1 CATAATTTA
18991619 CA-AATTT-
1 CATAATTTA
*
18991626 CATAACTTA
1 CATAATTTA
*
18991635 CATAATTAA
1 CATAATTTA
*
18991644 CATAGTTTAAA
1 CATAATTT--A
*
18991655 GATCAAATTT-
1 CAT--AATTTA
* *
18991665 CACAACTTA
1 CATAATTTA
18991674 CATAATTTA
1 CATAATTTA
*
18991683 CATAACTTA
1 CATAATTTA
18991692 CATAATTTAAA
1 CATAATTT--A
*
18991703 GATTAAATTT-
1 CA-T-AATTTA
*
18991713 CATAACTTA
1 CATAATTTA
18991722 CATAATTTA
1 CATAATTTA
*
18991731 CATAACTTA
1 CATAATTTA
18991740 CATAA--TA
1 CATAATTTA
*
18991747 CATAACTTA
1 CATAATTTA
18991756 CATAATTTA
1 CATAATTTA
*
18991765 CATAACTTA
1 CATAATTTA
18991774 CATAAT
1 CATAAT
18991780 ACATAAATAT
Statistics
Matches: 198, Mismatches: 39, Indels: 40
0.71 0.14 0.14
Matches are distributed among these distances:
6 8 0.04
7 30 0.15
8 16 0.08
9 127 0.64
10 2 0.01
11 5 0.03
12 1 0.01
13 9 0.05
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAATTTA
Found at i:18991565 original size:48 final size:48
Alignment explanation
Indices: 18991513--18991779 Score: 250
Period size: 48 Copynumber: 5.3 Consensus size: 48
18991503 ATTAAATTAA
18991513 TCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT
* * * ** * *
18991561 TCATAACTTAAATAATTTAAAAAACTTACATAATACATAACTAACATAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTA-AAGT-TCA-AATT
* * * * * *
18991612 TAAAGTTCAAATTTCATAACTTACATAA-TTAACATAGTTTAAAGATCAAATT
1 T-CA--T-AACTTACATAATTTACATAACTT-ACATAATTTAAAGTTCAAATT
*
18991664 TCACAACTTACATAATTTACATAACTTACATAATTTAAAGATT-AAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTAAAG-TTCAAATT
** *
18991712 TCATAACTTACATAATTTACATAACTTACATAATACATAACTTACATAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTA-AAGTT-CA-AATT
18991763 TACATAACTTACATAAT
1 T-CATAACTTACATAAT
18991780 ACATAAATAT
Statistics
Matches: 173, Mismatches: 31, Indels: 26
0.75 0.13 0.11
Matches are distributed among these distances:
48 102 0.59
49 8 0.05
50 3 0.02
51 11 0.06
52 21 0.12
53 2 0.01
54 5 0.03
55 21 0.12
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.37
Consensus pattern (48 bp):
TCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT
Found at i:18991566 original size:30 final size:30
Alignment explanation
Indices: 18991526--18991641 Score: 135
Period size: 30 Copynumber: 3.7 Consensus size: 30
18991516 TAACTTACAT
18991526 AATTTACATAACTTACATAATTTAAAGTTCA
1 AATTT-CATAACTTACATAATTTAAAGTTCA
* *
18991557 AATTTCATAACTTAAATAATTTAAAAAACTTACA
1 AATTTCATAACTTACATAATTT---AAAGTT-CA
* *
18991591 TAA-TACATAACTAACATAATTTAAAGTTCA
1 -AATTTCATAACTTACATAATTTAAAGTTCA
18991621 AATTTCATAACTTACATAATT
1 AATTTCATAACTTACATAATT
18991642 AACATAGTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
29 2 0.03
30 34 0.48
31 10 0.14
33 5 0.07
34 18 0.25
35 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (30 bp):
AATTTCATAACTTACATAATTTAAAGTTCA
Found at i:18991599 original size:64 final size:65
Alignment explanation
Indices: 18991517--18991641 Score: 216
Period size: 64 Copynumber: 1.9 Consensus size: 65
18991507 AATTAATCAT
*
18991517 AACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTAAATAATTTAAA
1 AACTTACATAA-TTACATAACTAACATAATTTAAAGTTCAAATTTCATAACTTAAATAATTTAAA
18991582 A
65 A
*
18991583 AACTTACATAA-TACATAACTAACATAATTTAAAGTTCAAATTTCATAACTTACATAATT
1 AACTTACATAATTACATAACTAACATAATTTAAAGTTCAAATTTCATAACTTAAATAATT
18991642 AACATAGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
64 46 0.81
66 11 0.19
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.37
Consensus pattern (65 bp):
AACTTACATAATTACATAACTAACATAATTTAAAGTTCAAATTTCATAACTTAAATAATTTAAAA
Found at i:18991645 original size:39 final size:39
Alignment explanation
Indices: 18991594--18991687 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
18991584 ACTTACATAA
* * *
18991594 TACATAACTAACATAATTTAAAGTTCAAATTTCATAACT
1 TACATAATTAACATAATTTAAAGATCAAATTTCACAACT
*
18991633 TACATAATTAACATAGTTTAAAGATCAAATTTCACAACT
1 TACATAATTAACATAATTTAAAGATCAAATTTCACAACT
*
18991672 TACATAATTTACATAA
1 TACATAATTAACATAA
18991688 CTTACATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (39 bp):
TACATAATTAACATAATTTAAAGATCAAATTTCACAACT
Found at i:18993937 original size:40 final size:39
Alignment explanation
Indices: 18993892--18994099 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
18993882 CGGAATACAA
*
18993892 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
18993932 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
18993972 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
18994012 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
18994052 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
18994092 CCGGATAT
1 CCGGATAT
18994100 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:18994032 original size:80 final size:80
Alignment explanation
Indices: 18993892--18994098 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
18993882 CGGAATACAA
* * *
18993892 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
18993956 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
18993972 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
18994036 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
18994052 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
18994099 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:19001991 original size:40 final size:39
Alignment explanation
Indices: 19001946--19002153 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
19001936 CGGAATACAA
*
19001946 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19001986 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19002026 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
19002066 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
19002106 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
19002146 CCGGATAT
1 CCGGATAT
19002154 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:19002086 original size:80 final size:80
Alignment explanation
Indices: 19001946--19002152 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
19001936 CGGAATACAA
* * *
19001946 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
19002010 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
19002026 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
19002090 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
19002106 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
19002153 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:19008972 original size:31 final size:31
Alignment explanation
Indices: 19008935--19008993 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
19008925 TTTATGCTAC
19008935 ATTTGCTATTTTTGGTTGGATTTAATGTTAT
1 ATTTGCTATTTTTGGTTGGATTTAATGTTAT
*
19008966 ATTTGCTGTTTTTGGTTGGATTTAATGT
1 ATTTGCTATTTTTGGTTGGATTTAATGT
19008994 AGGAAGGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.17, C:0.03, G:0.22, T:0.58
Consensus pattern (31 bp):
ATTTGCTATTTTTGGTTGGATTTAATGTTAT
Found at i:19009157 original size:42 final size:41
Alignment explanation
Indices: 19009065--19009202 Score: 134
Period size: 42 Copynumber: 3.3 Consensus size: 41
19009055 GTGAAAAAAG
* * ** *
19009065 CGCCGTTAAAAGTCATGGCTTTAGCGGTGCTTCCCAACAAA
1 CGCCGCTAAAAGCCATGGCTTTAGCGGCACTCCCCAACAAA
* * *
19009106 CACCACTAAAAGCCATGGCTTTAATCGGCACTCCCCAACAAA
1 CGCCGCTAAAAGCCATGGCTTT-AGCGGCACTCCCCAACAAA
* *
19009148 CGCCGCTAAAAGCCATGGCTTTTAGCAGCACTTTTCCC-ACAAA
1 CGCCGCTAAAAGCCATGGC-TTTAGCGGCAC--TCCCCAACAAA
*
19009191 CGTCGCTAAAAG
1 CGCCGCTAAAAG
19009203 TCTTGATCTT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 18 0.23
42 38 0.48
43 19 0.24
44 4 0.05
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (41 bp):
CGCCGCTAAAAGCCATGGCTTTAGCGGCACTCCCCAACAAA
Found at i:19011196 original size:29 final size:29
Alignment explanation
Indices: 19011154--19011352 Score: 235
Period size: 29 Copynumber: 7.0 Consensus size: 29
19011144 GCATGAATAT
**
19011154 GAATGTGATTTGGGCCTAATGGGTTATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
19011183 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
19011212 GAAT-TAGA-TTGGGCCTAGTGGGCCATAC
1 GAATGT-GATTTGGGCCTAATGGGCCATAC
*
19011240 GATTGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
19011269 GAATGAGA-TTAGGCCTAGTGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
19011297 GAATGTGATTTGGGCCTAGTGGACCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* **
19011326 GAATGAGA-TTGGGCCTGGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
19011353 TGCATGTATG
Statistics
Matches: 148, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
28 66 0.45
29 82 0.55
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Done.