Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 315 of 345
Found at i:94548770 original size:9 final size:9
Alignment explanation
Indices: 94548756--94548805 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
94548746 TTTATACAAA
*
94548756 TAATTCGGT
1 TAATTCGGG
94548765 TAATTCGGG
1 TAATTCGGG
*
94548774 CAATTCGGG
1 TAATTCGGG
94548783 TAATTCGGG
1 TAATTCGGG
*
94548792 TAATTCGGT
1 TAATTCGGG
94548801 TAATT
1 TAATT
94548806 TTCGGTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:94550402 original size:46 final size:48
Alignment explanation
Indices: 94550348--94550571 Score: 238
Period size: 47 Copynumber: 4.8 Consensus size: 48
94550338 ATATTTGGGC
94550348 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
94550395 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
* * *
94550440 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
94550487 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC--G
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* *
94550535 -CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94550572 GCGGGTTACA
Statistics
Matches: 160, Mismatches: 8, Indels: 19
0.86 0.04 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 3 0.02
46 64 0.40
47 76 0.47
48 3 0.02
50 4 0.03
51 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:94550464 original size:47 final size:47
Alignment explanation
Indices: 94550345--94550517 Score: 248
Period size: 47 Copynumber: 3.7 Consensus size: 47
94550335 GGGATATTTG
* * *
94550345 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTA
94550394 -G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
94550438 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
94550485 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
94550518 ACTTATGGAT
Statistics
Matches: 116, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 29 0.25
47 76 0.66
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:94553556 original size:15 final size:15
Alignment explanation
Indices: 94553517--94553596 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
94553507 GTATCTTGGG
*
94553517 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
94553532 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
94553547 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
94553562 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
94553577 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
94553591 TTTCTT
1 TTTCTT
94553597 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:94553586 original size:30 final size:30
Alignment explanation
Indices: 94553508--94553595 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
94553498 CATAGTATCG
* * *
94553508 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
94553538 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
94553568 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
94553596 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:94556091 original size:47 final size:46
Alignment explanation
Indices: 94555973--94556146 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
94555963 TGGATATTTG
*
94555973 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
94556020 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
94556065 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
94556113 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
94556147 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 32 0.30
46 30 0.28
47 31 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:94556142 original size:46 final size:46
Alignment explanation
Indices: 94555978--94556151 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
94555968 ATTTGGGCAT
* *
94555978 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
94556023 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
94556068 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
94556116 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94556152 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:94557686 original size:18 final size:18
Alignment explanation
Indices: 94557663--94557705 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
94557653 ATAATTTAAA
94557663 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
94557681 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
94557699 ATGTAAA
1 ATATAAA
94557706 AATAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:94558643 original size:2 final size:2
Alignment explanation
Indices: 94558638--94558668 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
94558628 TTTTTTTTAA
94558638 AT AT AT AT AT AT -T 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
94558669 TAAGATTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:94559214 original size:19 final size:18
Alignment explanation
Indices: 94559186--94559231 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
94559176 CTTAGTTTGT
*
94559186 TTTTAAATTTTAATTTTA
1 TTTTAAATTTTAATGTTA
*
94559204 GTTTTACATTTTAATGTTA
1 -TTTTAAATTTTAATGTTA
94559223 TTTTAAATT
1 TTTTAAATT
94559232 ATATATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
TTTTAAATTTTAATGTTA
Found at i:94560818 original size:12 final size:12
Alignment explanation
Indices: 94560787--94560811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94560777 CGAGAATGCG
94560787 ATTATTGATAAA
1 ATTATTGATAAA
94560799 ATTATTGATAAA
1 ATTATTGATAAA
94560811 A
1 A
94560812 GTTTTGACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTATTGATAAA
Found at i:94561177 original size:63 final size:64
Alignment explanation
Indices: 94561098--94561267 Score: 175
Period size: 63 Copynumber: 2.7 Consensus size: 64
94561088 GTTAGTGTAG
* * *
94561098 GATCACACGGGTCAAGGACATGAATGTGTGTCTAGGACATGTAACTCACTAATAACAAAATAA-
1 GATCACATGGGCCAAGGACATGAACGTGTGTCTAGGACATGTAACTCACTAATAACAAAATAAT
* ** * * * * *
94561161 GATCACATGGGCCAAGGACACGGGCGTATGTCCA-GACCATGTAACTCTCTGATTACAAAATAAT
1 GATCACATGGGCCAAGGACATGAACGTGTGTCTAGGA-CATGTAACTCACTAATAACAAAATAAT
** * *
94561225 GATCACATGGGCGGAGGACATGACCGTGTGT-TAGGCCATGTAA
1 GATCACATGGGCCAAGGACATGAACGTGTGTCTAGGACATGTAA
94561268 GACACACGAG
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
62 2 0.02
63 57 0.67
64 26 0.31
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (64 bp):
GATCACATGGGCCAAGGACATGAACGTGTGTCTAGGACATGTAACTCACTAATAACAAAATAAT
Found at i:94566684 original size:45 final size:45
Alignment explanation
Indices: 94566624--94566801 Score: 302
Period size: 45 Copynumber: 4.0 Consensus size: 45
94566614 TGATATCATT
* * *
94566624 TCACCGACATTATAGCTTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
94566669 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
94566714 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
94566759 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
94566802 CTGTACGATA
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 125 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:94566921 original size:25 final size:27
Alignment explanation
Indices: 94566856--94566913 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
94566846 CCAAATTAGG
94566856 TACAAGCATCATTCGAATATATCATCC
1 TACAAGCATCATTCGAATATATCATCC
*
94566883 TACAAGCATCATTCGAATATATCATCT
1 TACAAGCATCATTCGAATATATCATCC
94566910 TACA
1 TACA
94566914 TTTTATTCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (27 bp):
TACAAGCATCATTCGAATATATCATCC
Found at i:94571121 original size:93 final size:93
Alignment explanation
Indices: 94570962--94571147 Score: 318
Period size: 93 Copynumber: 2.0 Consensus size: 93
94570952 GCTAAAGTTA
* *
94570962 TACTACTGTTCGATAGGTACACTTGCCTTTATCGTGATAATAGTTAGTTTCAAGAATGATTCATT
1 TACTACTGTTCGATAGGTACACTTGCCTTCATCGTGATAATAGTTAGTTTCAAGAACGATTCATT
*
94571027 ATAAATATTTAAAACCTGTCACGAATAT
66 ATAAATATTTAAAACCTATCACGAATAT
* * *
94571055 TACTATTGTTTGATAGGTACACTTGCCTTCATCGTGATAATTGTTAGTTTCAAGAACGATTCATT
1 TACTACTGTTCGATAGGTACACTTGCCTTCATCGTGATAATAGTTAGTTTCAAGAACGATTCATT
94571120 ATAAATATTTAAAACCTATCACGAATAT
66 ATAAATATTTAAAACCTATCACGAATAT
94571148 CACGTATCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (93 bp):
TACTACTGTTCGATAGGTACACTTGCCTTCATCGTGATAATAGTTAGTTTCAAGAACGATTCATT
ATAAATATTTAAAACCTATCACGAATAT
Found at i:94574347 original size:20 final size:20
Alignment explanation
Indices: 94574319--94574362 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
94574309 TGTCAATTTA
*
94574319 ACACGGGCGTGCGCCTGCAT
1 ACACAGGCGTGCGCCTGCAT
94574339 ACACAGGCGTGCGCCTGCAT
1 ACACAGGCGTGCGCCTGCAT
94574359 ACAC
1 ACAC
94574363 GGGCATGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.36, G:0.30, T:0.14
Consensus pattern (20 bp):
ACACAGGCGTGCGCCTGCAT
Found at i:94585613 original size:21 final size:22
Alignment explanation
Indices: 94585575--94585622 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
94585565 ATAATTTTCA
* *
94585575 TTTTT-TTTCATGTTCAAGTTT
1 TTTTTATTTCATGTACAAGATT
94585596 TTTTTATTTCAT-TACAAGATT
1 TTTTTATTTCATGTACAAGATT
*
94585617 TCTTTA
1 TTTTTA
94585623 CTCCATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.21, C:0.10, G:0.06, T:0.62
Consensus pattern (22 bp):
TTTTTATTTCATGTACAAGATT
Found at i:94603662 original size:14 final size:14
Alignment explanation
Indices: 94603643--94603673 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
94603633 ACATACAATT
94603643 AATCAAATCATATA
1 AATCAAATCATATA
94603657 AATCAAATCATATA
1 AATCAAATCATATA
94603671 AAT
1 AAT
94603674 TTCATTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (14 bp):
AATCAAATCATATA
Found at i:94623466 original size:41 final size:41
Alignment explanation
Indices: 94623421--94623538 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94623411 TGAAAGATAA
94623421 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94623462 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94623492 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94623533 ATGTAG
1 ATGTAG
94623539 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94623477 original size:71 final size:71
Alignment explanation
Indices: 94623389--94623552 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94623379 GAGATGTATC
94623389 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94623454 AGGACA
66 AGGACA
94623460 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94623525 AGGACA
66 AGGACA
94623531 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94623553 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94631047 original size:41 final size:41
Alignment explanation
Indices: 94631002--94631119 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94630992 TGAAAGATAA
94631002 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94631043 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94631073 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94631114 ATGTAG
1 ATGTAG
94631120 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94631058 original size:71 final size:71
Alignment explanation
Indices: 94630970--94631133 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94630960 GAGATGTATC
94630970 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94631035 AGGACA
66 AGGACA
94631041 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94631106 AGGACA
66 AGGACA
94631112 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94631134 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94636840 original size:25 final size:25
Alignment explanation
Indices: 94636811--94636858 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94636801 TTATAATATG
** *
94636811 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
94636836 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
94636859 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:94637042 original size:26 final size:25
Alignment explanation
Indices: 94636973--94637068 Score: 122
Period size: 26 Copynumber: 3.8 Consensus size: 25
94636963 GAGGAAGTGC
*
94636973 AAAAGGGCTATGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
94636997 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
94637022 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCG
*
94637048 AAAAGGGCTTTTGTCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
94637069 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 16 0.25
25 14 0.22
26 34 0.53
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:94637081 original size:25 final size:26
Alignment explanation
Indices: 94636983--94637081 Score: 84
Period size: 25 Copynumber: 3.9 Consensus size: 26
94636973 AAAAGGGCTA
*
94636983 TGCCCCAG-TTACCGAAAAG-GGC-TT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
* *
94637007 TGCCCTAGTTTACCGAAAAG-GGCTTT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
94637033 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
* *
94637059 TGTCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
94637082 AAGCCTCCAG
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
24 7 0.11
25 30 0.46
26 28 0.43
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:94637323 original size:31 final size:31
Alignment explanation
Indices: 94637288--94637371 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
94637278 CATTTATAGT
94637288 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTTGGCCCAGTGATATGAATAATGA
* * *
94637319 AAAGGCTTCT-GCCTAGTGACATGAATAATGT
1 AAAGGCTT-TGGCCCAGTGATATGAATAATGA
*
94637350 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTTGGCCCAGTGATATG
94637372 CTGAGATTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 4 0.09
31 40 0.89
32 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGAATAATGA
Found at i:94644414 original size:7 final size:6
Alignment explanation
Indices: 94644394--94644483 Score: 96
Period size: 6 Copynumber: 15.3 Consensus size: 6
94644384 AAGAAATTTG
* * * * *
94644394 AAATGA AAATAA AAATCA AAAGAA AAATAA GAAT-A AAATAA ATAAAAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATAA
*
94644442 AAATAA AAATAA AAATAA GAAT-- AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AA
94644484 TAGGAGGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
4 3 0.04
5 4 0.06
6 57 0.83
7 5 0.07
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:94644437 original size:9 final size:9
Alignment explanation
Indices: 94644425--94644476 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
94644415 GAAAAATAAG
94644425 AATAAAATA
1 AATAAAATA
*
94644434 AATAAAAAA
1 AATAAAATA
94644443 AATAAAAATAAA
1 AAT-AAAAT--A
94644455 AATAAGAATA
1 AATAA-AATA
94644465 AATAAAAATA
1 AAT-AAAATA
94644475 AA
1 AA
94644477 AATAAAATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 11 0.31
10 14 0.39
11 4 0.11
12 7 0.19
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (9 bp):
AATAAAATA
Found at i:94644456 original size:36 final size:34
Alignment explanation
Indices: 94644394--94644483 Score: 117
Period size: 36 Copynumber: 2.6 Consensus size: 34
94644384 AAGAAATTTG
* * *
94644394 AAATGAAAATAAAAATCAAAAGAAAAATAAGAAT
1 AAATAAAAAAAAAAATAAAAAGAAAAATAAGAAT
*
94644428 AAAATAAATAAAAAAAATAAAAATAAAAATAAGAAT
1 -AAATAAA-AAAAAAAATAAAAAGAAAAATAAGAAT
*
94644464 AAATAAAAATAAAAATAAAA
1 AAATAAAAAAAAAAATAAAA
94644484 TAGGAGGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 12 0.24
35 13 0.27
36 24 0.49
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (34 bp):
AAATAAAAAAAAAAATAAAAAGAAAAATAAGAAT
Found at i:94649016 original size:28 final size:28
Alignment explanation
Indices: 94648981--94649035 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
94648971 GGGTATATTG
94648981 GTAATTTTGCTCTTTAGGGGTAATTTCA
1 GTAATTTTGCTCTTTAGGGGTAATTTCA
94649009 GTAATTTTGCTCTTTAGGGGTAATTTC
1 GTAATTTTGCTCTTTAGGGGTAATTTC
94649036 GTGTTCTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.47
Consensus pattern (28 bp):
GTAATTTTGCTCTTTAGGGGTAATTTCA
Found at i:94650706 original size:46 final size:46
Alignment explanation
Indices: 94650617--94650706 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
94650607 ATATCTAATA
* *
94650617 ATAAAAATTTCAAATATCAATAATACAGTAAATAATAATAATTTTC
1 ATAAAAATTTAAAATATCAATAATACAGTAAATAATAAGAATTTTC
**
94650663 ATAAAAATTTAAAATATCCGTAATA-A-TAAATATAGTAAGAATTT
1 ATAAAAATTTAAAATATCAATAATACAGTAAATA-A-TAAGAATTT
94650707 CCTAGTAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 6 0.16
45 2 0.05
46 30 0.79
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (46 bp):
ATAAAAATTTAAAATATCAATAATACAGTAAATAATAAGAATTTTC
Found at i:94653066 original size:28 final size:28
Alignment explanation
Indices: 94653019--94653087 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
94653009 ATTTAAACCC
94653019 TAGGGGT-ATATT-GGTAATTTTGCTCTT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
94653046 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
94653074 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
94653088 TGTTCCACGT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 9 0.22
28 31 0.77
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:94654760 original size:46 final size:46
Alignment explanation
Indices: 94654671--94654760 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
94654661 ATATCTAATA
* *
94654671 ATAAAAATTTCAAATATCAATAATACAGTAAATAATAATAATTTTC
1 ATAAAAATTTAAAATATCAATAATACAGTAAATAATAAGAATTTTC
**
94654717 ATAAAAATTTAAAATATCCGTAATA-A-TAAATATAGTAAGAATTT
1 ATAAAAATTTAAAATATCAATAATACAGTAAATA-A-TAAGAATTT
94654761 CCTAGTAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 6 0.16
45 2 0.05
46 30 0.79
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (46 bp):
ATAAAAATTTAAAATATCAATAATACAGTAAATAATAAGAATTTTC
Found at i:94670648 original size:26 final size:27
Alignment explanation
Indices: 94670619--94670678 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
94670609 ACATATATAT
*
94670619 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
94670645 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
94670672 ATATCTG
1 ATATCTG
94670679 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:94675553 original size:20 final size:19
Alignment explanation
Indices: 94675524--94675581 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
94675514 TTCATTCAAG
*
94675524 TTTCACATCTCATTTCATCA
1 TTTCATATCTCATTTC-TCA
94675544 TTTCATATCTCATTTCTCA
1 TTTCATATCTCATTTCTCA
* *
94675563 TCTCATA-ATCATTTCTCA
1 TTTCATATCTCATTTCTCA
94675581 T
1 T
94675582 ATTTTCCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
18 11 0.31
19 9 0.26
20 15 0.43
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTCATATCTCATTTCTCA
Found at i:94675605 original size:43 final size:43
Alignment explanation
Indices: 94675556--94675641 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
94675546 TCATATCTCA
* *
94675556 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
*
94675599 TTTCTCATCTCATACTCATTTATCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
94675642 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.01, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:94676793 original size:15 final size:15
Alignment explanation
Indices: 94676761--94676803 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
94676751 TGCCATGAAC
94676761 TTCTTCTCTTTT-TCT
1 TTCTT-TCTTTTCTCT
*
94676776 TTCTTTCTTTTCTTT
1 TTCTTTCTTTTCTCT
*
94676791 TTCTTTGTTTTCT
1 TTCTTTCTTTTCT
94676804 AATTTGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (15 bp):
TTCTTTCTTTTCTCT
Found at i:94679072 original size:59 final size:59
Alignment explanation
Indices: 94678980--94679097 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
94678970 TGGTAGTAAC
*
94678980 ATGCTCACCTATGAGCAAGGTAAGTGTTGTAAATTTCATTTGAACATACAAAGCATTAA
1 ATGCTCACCTATGAGCAAGGTAAGTGTTGTAAATTCCATTTGAACATACAAAGCATTAA
* *
94679039 ATGCTTACCTATGAGCAAGGTAAGTGTTGTAAATTCCATTTGAACATACTAAGCATTAA
1 ATGCTCACCTATGAGCAAGGTAAGTGTTGTAAATTCCATTTGAACATACAAAGCATTAA
94679098 TCTGCAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (59 bp):
ATGCTCACCTATGAGCAAGGTAAGTGTTGTAAATTCCATTTGAACATACAAAGCATTAA
Found at i:94682526 original size:20 final size:21
Alignment explanation
Indices: 94682498--94682543 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
94682488 CTATAATTAA
*
94682498 ATTTAAATTTA-AATTTTTAT
1 ATTTTAATTTATAATTTTTAT
* *
94682518 ATTTTAATTTATGATTTTTCT
1 ATTTTAATTTATAATTTTTAT
94682539 ATTTT
1 ATTTT
94682544 TATAATACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTTTAATTTATAATTTTTAT
Found at i:94684227 original size:11 final size:11
Alignment explanation
Indices: 94684211--94684235 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94684201 TACAATATCA
94684211 TATTTAATTTT
1 TATTTAATTTT
94684222 TATTTAATTTT
1 TATTTAATTTT
94684233 TAT
1 TAT
94684236 ATACAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTAATTTT
Found at i:94685242 original size:32 final size:32
Alignment explanation
Indices: 94685193--94685255 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
94685183 ATTACCATAA
*
94685193 ACATATATCTGAACAGAAGGTCATATTTTCAG
1 ACATATATCTGAACAGAAGATCATATTTTCAG
* *
94685225 ACATATTTC-GAATCAGAATATCATATTTTCA
1 ACATATATCTGAA-CAGAAGATCATATTTTCA
94685256 TAAACATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
ACATATATCTGAACAGAAGATCATATTTTCAG
Found at i:94688964 original size:40 final size:40
Alignment explanation
Indices: 94688919--94689085 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
94688909 CGGAATATAA
94688919 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
94688959 CCGGATAGAATAACTCGCACGAATGCTTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
94688999 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
94689039 CCGGATATAATTTCTAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
94689078 CCGGATAT
1 CCGGATAT
94689086 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 92 0.87
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:94691092 original size:15 final size:16
Alignment explanation
Indices: 94691061--94691101 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
94691051 TTACTAAAGT
94691061 ACTAAAGTA-AGAATA
1 ACTAAAGTATAGAATA
*
94691076 ACTAAAGTATAG-TTA
1 ACTAAAGTATAGAATA
*
94691091 ACTGAAGTATA
1 ACTAAAGTATA
94691102 CATACTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (16 bp):
ACTAAAGTATAGAATA
Found at i:94693294 original size:25 final size:25
Alignment explanation
Indices: 94693260--94693309 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
94693250 GCTTCGGATG
*
94693260 ATAGTGTGATCGATGCCTCTGACGT
1 ATAGTGTGATCGATGCCTCCGACGT
94693285 ATAGTGTGATCGATGCCTCCGACGT
1 ATAGTGTGATCGATGCCTCCGACGT
94693310 TTGATGATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (25 bp):
ATAGTGTGATCGATGCCTCCGACGT
Found at i:94693884 original size:94 final size:93
Alignment explanation
Indices: 94693772--94693985 Score: 254
Period size: 94 Copynumber: 2.3 Consensus size: 93
94693762 AAGCTGACGC
* * *
94693772 CATGTCCCAGACAGGTCTTACACTAGCTT-GTTTCTAGCGAGGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTAATATCTAG-G-GGCTGATGCATGTCCCAGACATGT
*
94693836 ATTACACTAGCTCTC-GCCTTAAT-GCCGATG
64 ATTACACTAGCTCTCAGAC-T-ATGGCCGATG
* * * * * *
94693866 CATGTCCTAGACATGTCTTACACTGGCTTAAATATCTTGGGGTTGATGCATGTCCCAGACGTGTC
1 CATGTCCCAGACATGTCTTACACTAGCTT-AATATCTAGGGGCTGATGCATGTCCCAGACATGTA
* *
94693931 TTACACTAGCTCTCATACTATGGCTGATG
65 TTACACTAGCTCTCAGACTATGGCCGATG
94693960 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
94693986 TACACAAATG
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
93 2 0.02
94 93 0.91
95 2 0.02
96 5 0.05
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAATATCTAGGGGCTGATGCATGTCCCAGACATGTAT
TACACTAGCTCTCAGACTATGGCCGATG
Found at i:94693968 original size:46 final size:46
Alignment explanation
Indices: 94693772--94693985 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 46
94693762 AAGCTGACGC
* * *
94693772 CATGTCCCAGACAGGTCTTACACTAGCTTGTTTC-TAGCGA-GGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC---TCTCATA-CTATGGCTGATG
* ** *
94693820 CATGTCCCAGACATGTATTACACTAGCTCTC-GCCTTAAT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAC-T-ATGGCTGATG
* * * *
94693866 CATGTCCTAGACATGTCTTACACTGGCT-TAAATATCT-TGGGGTTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-CTAT--GGCTGATG
*
94693914 CATGTCCCAGACGTGTCTTACACTAGCTCTCATACTATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATACTATGGCTGATG
94693960 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
94693986 TACACAAATG
Statistics
Matches: 134, Mismatches: 21, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 5 0.04
46 64 0.48
47 3 0.02
48 60 0.45
49 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATACTATGGCTGATG
Found at i:94696433 original size:27 final size:26
Alignment explanation
Indices: 94696381--94696440 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
94696371 ACATATATAT
*
94696381 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
94696407 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
94696434 ATATCTG
1 ATATCTG
94696441 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:94714124 original size:3 final size:3
Alignment explanation
Indices: 94714118--94714166 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
94714108 TTTTTTTAGT
94714118 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94714166 T
1 T
94714167 CATCATCTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:94717306 original size:16 final size:15
Alignment explanation
Indices: 94717282--94717311 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
94717272 AACTGTTTTA
94717282 TTACAAATTTCACTC
1 TTACAAATTTCACTC
94717297 TTACATAATTTCACT
1 TTACA-AATTTCACT
94717312 TACTCCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:94717698 original size:99 final size:100
Alignment explanation
Indices: 94717521--94717750 Score: 236
Period size: 99 Copynumber: 2.3 Consensus size: 100
94717511 ATCTGTTACG
* * *
94717521 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCAGGTACACGTAGTAGCCTACAGT
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCAAAAATCAGGTACACATAGTAGCCTACACT
* *
94717586 TAGTGCTACACACA-TGACCT-AACCATC-TGATACA
66 TAGTACTA-ACACAGTGACCTAAACCATCAT-AAACA
* * * ** * * *
94717620 -AGTAGTAGTCTGCACTTAGTACTACACACGTGATCAAAGTTGTCGGGTACGCATAGTAGCCTGC
1 CA-TAGTAGCCTGCACTTAGTACTACACACGCGACCAAA--AATCAGGTACACATAGTAGCCTAC
94717684 ACTTAGTACT-ACACATGTGACCTACAACCATCATAAACA
63 ACTTAGTACTAACACA-GTGACCTA-AACCATCATAAACA
*
94717723 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
94717751 TGTGTTCTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
98 1 0.01
99 37 0.35
101 32 0.30
103 35 0.33
104 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCAAAAATCAGGTACACATAGTAGCCTACACT
TAGTACTAACACAGTGACCTAAACCATCATAAACA
Found at i:94717749 original size:26 final size:26
Alignment explanation
Indices: 94717671--94717751 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
94717661 GTCGGGTACG
*
94717671 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACATAGTACTACA
* *
94717697 CAT-GT-GACCTACAACCATCA-TA-AACA
1 CATAGTAG-CCTGC-A-CAT-AGTACTACA
94717723 CATAGTAGCCTGCACATAGTACTACA
1 CATAGTAGCCTGCACATAGTACTACA
94717749 CAT
1 CAT
94717752 GTGTTCTCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
24 2 0.05
25 11 0.26
26 17 0.40
27 10 0.24
28 2 0.05
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.23
Consensus pattern (26 bp):
CATAGTAGCCTGCACATAGTACTACA
Found at i:94719401 original size:802 final size:801
Alignment explanation
Indices: 94717857--94719460 Score: 3103
Period size: 802 Copynumber: 2.0 Consensus size: 801
94717847 TATTTCGATT
94717857 CGTAATTTACATCAAATGATCATTCTGTAGGTAACCACATCTCATATAATAACAAAATATAATAA
1 CGTAATTTACATCAAATGATCATTCTGTAGGTAACCACATCTCATATAATAACAAAATATAATAA
94717922 CATAAAAAGAATTGATATATTATTTACATACAAACTTACCTCGAATGTGAGCAGGGCTATATATT
66 CATAAAAAGAATTGATATATTATTTACATACAAACTTACCTCGAATGTGAGCAGGGCTATATATT
94717987 CTGATTTAGTCCATAATCTCATTCATTTTCAATCTATGCTCGAATCTCATTTTCCTTGATAATTG
131 CTGATTTAGTCCATAATCTCATTCATTTTCAATCTATGCTCGAATCTCATTTTCCTTGATAATTG
94718052 AGCTTGGAAGCTTGAAAAACCCTAGCTATGTCTTCTCCATGCAAGTTCCATCCATAGGGTAGAAG
196 AGCTTGGAAGCTTGAAAAACCCTAGCTATGTCTTCTCCATGCAAGTTCCATCCATAGGGTAGAAG
94718117 ATGGACAAAAATTGGCTTTTAATTTTGTTTTTAATTCATTTTAATTACTAGATTACAAAAATACC
261 ATGGACAAAAATTGGCTTTTAATTTTGTTTTTAATTCATTTTAATTACTAGATTACAAAAATACC
94718182 CCTAACTTAAAAATATTCTATTTCACCCATTTCATGTCCATTTTTGTCCAAAAAATTATCCAATG
326 CCTAACTTAAAAATATTCTATTTCACCCATTTCATGTCCATTTTTGTCCAAAAAATTATCCAATG
94718247 GTCTAATTACCATCTAACAGCCTCCAATTTAAAATTTCATAACAATTAGACACCTCTAACATGTA
391 GTCTAATTACCATCTAACAGCCTCCAATTTAAAATTTCATAACAATTAGACACCTCTAACATGTA
94718312 GAACTCAACTTTTTCACTTTTTACAATTTAGTCCTTTTGACCAAATTGAGTGCCCAAACGTCAAA
456 GAACTCAACTTTTTCACTTTTTACAATTTAGTCCTTTTGACCAAATTGAGTGCCCAAACGTCAAA
94718377 ATTTTCGAATGAAATTTTCATGAAATCACCCCCTAAAATTGTAGACCATAAAAATATAATAAAAA
521 ATTTTCGAATGAAATTTTCATGAAATCACCCCCTAAAATTGTAGACCATAAAAATATAATAAAAA
94718442 AAATTTACTGTGTCGAATTTATGGTACCGAAACCACTGTTCTGACTAGGCCCTAATTTGGGATGT
586 AAATTTACTGTGTCGAATTTATGGTACCGAAACCACTGTTCTGACTAGGCCCTAATTTGGGATGT
94718507 TACAGTCAGGCCTAGCCAGAGGTCGAAACACACAGGAACATGGAATAGTCACAATCTGACTCGAA
651 TACAGTCAGGCCTAGCCAGAGGTCGAAACACACAGGAACATGGAATAGTCACAATCTGACTCGAA
94718572 ACAAAAATTTGCGAAGTAGGGCATGGCTGTATGGAAATGCCTAGGCTGTGTAGAAGCCTATACAC
716 ACAAAAATTTGCGAAGTAGGGCATGGCTGTATGGAAATGCCTAGGCTGTGTAGAAGCCTATACAC
94718637 CCATGTGAAAGCTACACACGC
781 CCATGTGAAAGCTACACACGC
94718658 CGTAATTTACATCAAATGATCATTCTGTAGGTAACCACATCCATCATATAAATAACAAAATATAA
1 CGTAATTTACATCAAATGATCATTCTGTAGGTAACCACAT-C-TCATAT-AATAACAAAATATAA
94718723 TAACATAAAAAGAATTGATATATTATTTACATACAAACTTACCTCGAATGTGAGCAGGGCTATAT
63 TAACATAAAAAGAATTGATATATTATTTACATACAAACTTACCTCGAATGTGAGCAGGGCTATAT
94718788 ATTCTGATTTAGTCCATAATCTCATTCATTTTCAATCTATGCTCGAATCTCATTTTCCTTGATAA
128 ATTCTGATTTAGTCCATAATCTCATTCATTTTCAATCTATGCTCGAATCTCATTTTCCTTGATAA
94718853 TTGAGCTTGGAAGCTTGAAAAACCCTAGCTATGTCTTCT-CATGCAAGTTCCATCCATAGGGTAG
193 TTGAGCTTGGAAGCTTGAAAAACCCTAGCTATGTCTTCTCCATGCAAGTTCCATCCATAGGGTAG
94718917 AAGATGGAC-AAAATTGGCTTTTAATTTTGTTTTTAATTCATTTTAATTACTAGATTAACAAAAA
258 AAGATGGACAAAAATTGGCTTTTAATTTTGTTTTTAATTCATTTTAATTACTAGATT-ACAAAAA
94718981 TA-CCCTAACTTAAAAATATTCTATTTCACCCATTTCATGTCCATTTTTGTCCAAAAAATTATCC
322 TACCCCTAACTTAAAAATATTCTATTTCACCCATTTCATGTCCATTTTTGTCCAAAAAATTATCC
94719045 AATGGTCTAATTACCATCTAACAGCCTCCAATTTAAAATTTCATAACAATTAGACACCTCTAACA
387 AATGGTCTAATTACCATCTAACAGCCTCCAATTTAAAATTTCATAACAATTAGACACCTCTAACA
94719110 TGTAGAACTCAAC-TTTTCACTTTTTACAATTTAGTCCTTTTGACCAAATTGAGTGCCCAAACGT
452 TGTAGAACTCAACTTTTTCACTTTTTACAATTTAGTCCTTTTGACCAAATTGAGTGCCCAAACGT
94719174 CAAAATTTTCGAATGAAATTTTCATGAAAT-A-CCCCTAAAATTGTAGACCATAAAAATATAATA
517 CAAAATTTTCGAATGAAATTTTCATGAAATCACCCCCTAAAATTGTAGACCATAAAAATATAATA
94719237 AAAAAAATTTACTGTGTCGAATTTATGGTACCGAAACCACTGTTCTGACTAGGCCCTAATTTGGG
582 AAAAAAATTTACTGTGTCGAATTTATGGTACCGAAACCACTGTTCTGACTAGGCCCTAATTTGGG
94719302 ATGTTACAGTCAGGCCTAGCCAGAGGTCGAAACACACAGGAACATGGAATAGTCACAATCTGACT
647 ATGTTACAGTCAGGCCTAGCCAGAGGTCGAAACACACAGGAACATGGAATAGTCACAATCTGACT
94719367 CGAAACAAAAATTTGCGAAGTAGGGCCACATGGCTGTATGGAAATGCCTAGGCTGTGTAGAAGCC
712 CGAAACAAAAATTTGCGAAGTAGGG---CATGGCTGTATGGAAATGCCTAGGCTGTGTAGAAGCC
94719432 TATACACCCATGTGAAAGCTACACACGC
774 TATACACCCATGTGAAAGCTACACACGC
94719460 C
1 C
94719461 CATGTAGAGG
Statistics
Matches: 796, Mismatches: 0, Indels: 13
0.98 0.00 0.02
Matches are distributed among these distances:
799 187 0.23
800 1 0.00
801 121 0.15
802 254 0.32
803 49 0.06
804 184 0.23
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (801 bp):
CGTAATTTACATCAAATGATCATTCTGTAGGTAACCACATCTCATATAATAACAAAATATAATAA
CATAAAAAGAATTGATATATTATTTACATACAAACTTACCTCGAATGTGAGCAGGGCTATATATT
CTGATTTAGTCCATAATCTCATTCATTTTCAATCTATGCTCGAATCTCATTTTCCTTGATAATTG
AGCTTGGAAGCTTGAAAAACCCTAGCTATGTCTTCTCCATGCAAGTTCCATCCATAGGGTAGAAG
ATGGACAAAAATTGGCTTTTAATTTTGTTTTTAATTCATTTTAATTACTAGATTACAAAAATACC
CCTAACTTAAAAATATTCTATTTCACCCATTTCATGTCCATTTTTGTCCAAAAAATTATCCAATG
GTCTAATTACCATCTAACAGCCTCCAATTTAAAATTTCATAACAATTAGACACCTCTAACATGTA
GAACTCAACTTTTTCACTTTTTACAATTTAGTCCTTTTGACCAAATTGAGTGCCCAAACGTCAAA
ATTTTCGAATGAAATTTTCATGAAATCACCCCCTAAAATTGTAGACCATAAAAATATAATAAAAA
AAATTTACTGTGTCGAATTTATGGTACCGAAACCACTGTTCTGACTAGGCCCTAATTTGGGATGT
TACAGTCAGGCCTAGCCAGAGGTCGAAACACACAGGAACATGGAATAGTCACAATCTGACTCGAA
ACAAAAATTTGCGAAGTAGGGCATGGCTGTATGGAAATGCCTAGGCTGTGTAGAAGCCTATACAC
CCATGTGAAAGCTACACACGC
Found at i:94721567 original size:30 final size:30
Alignment explanation
Indices: 94721531--94721590 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
94721521 TACGTAAAAA
94721531 CATAGGCCGAGTTTTTGCAAACTTGACTTT
1 CATAGGCCGAGTTTTTGCAAACTTGACTTT
94721561 CATAGGCCGAGTTTTTGCAAACTTGACTTT
1 CATAGGCCGAGTTTTTGCAAACTTGACTTT
94721591 GATACCACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (30 bp):
CATAGGCCGAGTTTTTGCAAACTTGACTTT
Found at i:94724536 original size:21 final size:21
Alignment explanation
Indices: 94724512--94724557 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
94724502 GTAGACACAA
*
94724512 CCGTGTGGAAATCTCACATGC
1 CCGTGTGGAAATCTCACAAGC
94724533 CCGTGTGGAAATCTCACAAGC
1 CCGTGTGGAAATCTCACAAGC
94724554 CCGT
1 CCGT
94724558 AAAGCTAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (21 bp):
CCGTGTGGAAATCTCACAAGC
Found at i:94724964 original size:17 final size:18
Alignment explanation
Indices: 94724931--94724964 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94724921 TTTTTTCCTT
94724931 TTTAATTTCTACAATTTA
1 TTTAATTTCTACAATTTA
94724949 TTTAATTTCT-CAATTT
1 TTTAATTTCTACAATTT
94724965 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATTTCTACAATTTA
Found at i:94726049 original size:14 final size:15
Alignment explanation
Indices: 94726030--94726060 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
94726020 CTTGTTCTTG
94726030 TTCTTAATTA-TGTT
1 TTCTTAATTATTGTT
94726044 TTCTTAATTATTGTT
1 TTCTTAATTATTGTT
94726059 TT
1 TT
94726061 AATATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (15 bp):
TTCTTAATTATTGTT
Found at i:94726795 original size:24 final size:22
Alignment explanation
Indices: 94726740--94726799 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
94726730 CTTTAGCCAT
*
94726740 TTTTATTTTTATTTCAATTTAA
1 TTTTGTTTTTATTTCAATTTAA
*
94726762 TTTTGTTTTTATTTTAATTACTAA
1 TTTTGTTTTTATTTCAATT--TAA
94726786 TTTT-TCTTTTATTT
1 TTTTGT-TTTTATTT
94726800 GCTTCTGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 17 0.52
23 1 0.03
24 15 0.45
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTGTTTTTATTTCAATTTAA
Found at i:94733316 original size:3 final size:3
Alignment explanation
Indices: 94733303--94733365 Score: 101
Period size: 3 Copynumber: 21.0 Consensus size: 3
94733293 AATTTTTAGT
94733303 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
94733350 TTA TCA TTCA TTA TTA
1 TTA TTA TT-A TTA TTA
94733366 ATTAGTGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:94734923 original size:6 final size:6
Alignment explanation
Indices: 94734912--94734954 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
94734902 TCCACTTATG
* *
94734912 TTATTT TTATTTT TTATTT CTATTTT TTACTT TTATTT TTATT
1 TTATTT TTA-TTT TTATTT TTA-TTT TTATTT TTATTT TTATT
94734955 ATGTTGCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:94734930 original size:13 final size:13
Alignment explanation
Indices: 94734912--94734951 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
94734902 TCCACTTATG
94734912 TTATTTTTATTTT
1 TTATTTTTATTTT
*
94734925 TTATTTCTATTTT
1 TTATTTTTATTTT
*
94734938 TTACTTTTATTTT
1 TTATTTTTATTTT
94734951 T
1 T
94734952 ATTATGTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:94753633 original size:22 final size:22
Alignment explanation
Indices: 94753605--94753652 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
94753595 GATGATGATG
* *
94753605 ACTTTCTAATTTTTA-TGTTTTA
1 ACTTTCT-ATTATTATTATTTTA
94753627 ACTTTCTATTATTATTATTTTA
1 ACTTTCTATTATTATTATTTTA
94753649 ACTT
1 ACTT
94753653 AATTTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (22 bp):
ACTTTCTATTATTATTATTTTA
Found at i:94760430 original size:20 final size:19
Alignment explanation
Indices: 94760401--94760458 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
94760391 TTCATTCAAG
*
94760401 TTTCACATCTCATTTCATCA
1 TTTCATATCTCATTTC-TCA
94760421 TTTCATATCTCATTTCTCA
1 TTTCATATCTCATTTCTCA
* *
94760440 TCTCATA-ATCATTTCTCA
1 TTTCATATCTCATTTCTCA
94760458 T
1 T
94760459 ATTTTCCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
18 11 0.31
19 9 0.26
20 15 0.43
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTCATATCTCATTTCTCA
Found at i:94760482 original size:43 final size:43
Alignment explanation
Indices: 94760433--94760518 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
94760423 TCATATCTCA
* *
94760433 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
*
94760476 TTTCTCATCTCATACTCATTTATCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
94760519 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.01, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:94761672 original size:15 final size:15
Alignment explanation
Indices: 94761640--94761682 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
94761630 TGCCATGAAC
94761640 TTCTTCTCTTTT-TCT
1 TTCTT-TCTTTTCTCT
*
94761655 TTCTTTCTTTTCTTT
1 TTCTTTCTTTTCTCT
*
94761670 TTCTTTGTTTTCT
1 TTCTTTCTTTTCT
94761683 AATTTGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (15 bp):
TTCTTTCTTTTCTCT
Found at i:94763954 original size:59 final size:59
Alignment explanation
Indices: 94763862--94763979 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
94763852 TGGTAGTAAC
*
94763862 ATGCTCACCTATGAGCAAGGTAAGTGTTGTAAATTTCATTTGAACATACAAAGCATTAA
1 ATGCTCACCTATGAGCAAGGTAAGTGTTGTAAATTCCATTTGAACATACAAAGCATTAA
* *
94763921 ATGCTTACCTATGAGCAAGGTAAGTGTTGTAAATTCCATTTGAACATACTAAGCATTAA
1 ATGCTCACCTATGAGCAAGGTAAGTGTTGTAAATTCCATTTGAACATACAAAGCATTAA
94763980 TCTGCAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (59 bp):
ATGCTCACCTATGAGCAAGGTAAGTGTTGTAAATTCCATTTGAACATACAAAGCATTAA
Found at i:94767416 original size:20 final size:21
Alignment explanation
Indices: 94767388--94767433 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
94767378 CTATAATTAA
*
94767388 ATTTAAATTTA-AATTTTTAT
1 ATTTTAATTTATAATTTTTAT
* *
94767408 ATTTTAATTTATGATTTTTCT
1 ATTTTAATTTATAATTTTTAT
94767429 ATTTT
1 ATTTT
94767434 TATAATACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTTTAATTTATAATTTTTAT
Found at i:94769125 original size:11 final size:11
Alignment explanation
Indices: 94769109--94769133 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94769099 TACAATATCA
94769109 TATTTAATTTT
1 TATTTAATTTT
94769120 TATTTAATTTT
1 TATTTAATTTT
94769131 TAT
1 TAT
94769134 ATACAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTAATTTT
Found at i:94770140 original size:32 final size:32
Alignment explanation
Indices: 94770091--94770153 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
94770081 ATTACCATAA
*
94770091 ACATATATCTGAACAGAAGGTCATATTTTCAG
1 ACATATATCTGAACAGAAGATCATATTTTCAG
* *
94770123 ACATATTTC-GAATCAGAATATCATATTTTCA
1 ACATATATCTGAA-CAGAAGATCATATTTTCA
94770154 TAAACATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
ACATATATCTGAACAGAAGATCATATTTTCAG
Found at i:94772776 original size:15 final size:16
Alignment explanation
Indices: 94772745--94772785 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
94772735 TTACTAAAGT
94772745 ACTAAAGTA-AGAATA
1 ACTAAAGTATAGAATA
*
94772760 ACTAAAGTATAG-TTA
1 ACTAAAGTATAGAATA
*
94772775 ACTGAAGTATA
1 ACTAAAGTATA
94772786 CATACTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (16 bp):
ACTAAAGTATAGAATA
Found at i:94774978 original size:25 final size:25
Alignment explanation
Indices: 94774944--94774993 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
94774934 GCTTCGGATG
*
94774944 ATAGTGTGATCGATGCCTCTGACGT
1 ATAGTGTGATCGATGCCTCCGACGT
94774969 ATAGTGTGATCGATGCCTCCGACGT
1 ATAGTGTGATCGATGCCTCCGACGT
94774994 TTGATGATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (25 bp):
ATAGTGTGATCGATGCCTCCGACGT
Found at i:94775568 original size:94 final size:93
Alignment explanation
Indices: 94775456--94775669 Score: 254
Period size: 94 Copynumber: 2.3 Consensus size: 93
94775446 AAGCTGACGC
* * *
94775456 CATGTCCCAGACAGGTCTTACACTAGCTT-GTTTCTAGCGAGGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTAATATCTAG-G-GGCTGATGCATGTCCCAGACATGT
*
94775520 ATTACACTAGCTCTC-GCCTTAAT-GCCGATG
64 ATTACACTAGCTCTCAGAC-T-ATGGCCGATG
* * * * * *
94775550 CATGTCCTAGACATGTCTTACACTGGCTTAAATATCTTGGGGTTGATGCATGTCCCAGACGTGTC
1 CATGTCCCAGACATGTCTTACACTAGCTT-AATATCTAGGGGCTGATGCATGTCCCAGACATGTA
* *
94775615 TTACACTAGCTCTCATACTATGGCTGATG
65 TTACACTAGCTCTCAGACTATGGCCGATG
94775644 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
94775670 TACACAAATG
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
93 2 0.02
94 93 0.91
95 2 0.02
96 5 0.05
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAATATCTAGGGGCTGATGCATGTCCCAGACATGTAT
TACACTAGCTCTCAGACTATGGCCGATG
Found at i:94775652 original size:46 final size:46
Alignment explanation
Indices: 94775456--94775669 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 46
94775446 AAGCTGACGC
* * *
94775456 CATGTCCCAGACAGGTCTTACACTAGCTTGTTTC-TAGCGA-GGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC---TCTCATA-CTATGGCTGATG
* ** *
94775504 CATGTCCCAGACATGTATTACACTAGCTCTC-GCCTTAAT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAC-T-ATGGCTGATG
* * * *
94775550 CATGTCCTAGACATGTCTTACACTGGCT-TAAATATCT-TGGGGTTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-CTAT--GGCTGATG
*
94775598 CATGTCCCAGACGTGTCTTACACTAGCTCTCATACTATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATACTATGGCTGATG
94775644 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
94775670 TACACAAATG
Statistics
Matches: 134, Mismatches: 21, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 5 0.04
46 64 0.48
47 3 0.02
48 60 0.45
49 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATACTATGGCTGATG
Found at i:94782894 original size:19 final size:19
Alignment explanation
Indices: 94782870--94782909 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
94782860 AAAATATCAT
*
94782870 ATTAATTTTAATTGATTTG
1 ATTAATTTAAATTGATTTG
*
94782889 ATTAATTTAAATTTATTTG
1 ATTAATTTAAATTGATTTG
94782908 AT
1 AT
94782910 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
ATTAATTTAAATTGATTTG
Found at i:94786315 original size:40 final size:40
Alignment explanation
Indices: 94786221--94786445 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
94786211 TATTCGAATG
* * * *
94786221 ATATCTGGGCTAAGTCCTGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
94786262 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
** *
94786302 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
94786342 ATATCCGGGCTAAAACCCAAATGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
94786382 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
94786422 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
94786446 CTTGTGCAAG
Statistics
Matches: 151, Mismatches: 31, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
40 124 0.82
41 27 0.18
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:94793631 original size:20 final size:18
Alignment explanation
Indices: 94793584--94793690 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
94793574 CAAGATAAAC
94793584 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
94793601 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
94793621 ATTAAATTAATAAAGTACT
1 ATTAAATTAAT-ATTTAAT
*
94793640 ATTAAGA-TAAGTATTAAAT
1 ATTAA-ATTAA-TATTTAAT
* *
94793659 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
94793677 ATTAAAATAATATT
1 ATTAAATTAATATT
94793691 ATTTTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
17 15 0.22
18 9 0.13
19 27 0.39
20 18 0.26
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:94797317 original size:46 final size:47
Alignment explanation
Indices: 94797247--94797469 Score: 212
Period size: 46 Copynumber: 4.8 Consensus size: 47
94797237 TTATTTGTGT
94797247 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGATGT-A
* * *
94797293 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCG-GCTACAAGATGT-
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCT-CGAGATGTA
* * * * * *
94797337 GTCAGTGTAAGACCATGTCTAGGACATGGCTTCAACAC-GGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGAGATGT---A
* *
94797387 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGATGGATG-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGA--GATGTA
94797434 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
94797470 ATTATACCCT
Statistics
Matches: 146, Mismatches: 18, Indels: 24
0.78 0.10 0.13
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 47 0.32
47 35 0.24
48 2 0.01
49 2 0.01
50 30 0.21
51 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAGATGTA
Found at i:94797449 original size:97 final size:92
Alignment explanation
Indices: 94797247--94797466 Score: 248
Period size: 97 Copynumber: 2.4 Consensus size: 92
94797237 TTATTTGTGT
*
94797247 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTAAGCCAGTGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGAGATGTAAGCCAGTGTAAGACATGT
* *
94797310 CTAGGACATGCATCGGCTACAAGATGT
66 CTAGGACATGCATCGACTACAAGATGA
* * * * * *
94797337 GTCAGTGTAAGACCATGTCTAGGACATGGCTTCAACAC-GGATATGTGAGAGCTAGTGTAAGACC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-CTCGAGATGT-A-AGCCAGTGTAAGA-C
* ** *
94797401 ATGTCTGGGACATGGCATCGACTTGATGGATGA
62 ATGTCTAGGACAT-GCATCGACTACA-AGATGA
94797434 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
94797467 GACATTATAC
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
90 11 0.10
91 13 0.12
92 12 0.11
93 2 0.02
94 12 0.11
95 13 0.12
96 9 0.08
97 34 0.32
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGAGATGTAAGCCAGTGTAAGACATGT
CTAGGACATGCATCGACTACAAGATGA
Found at i:94809959 original size:47 final size:47
Alignment explanation
Indices: 94809898--94810154 Score: 163
Period size: 47 Copynumber: 5.4 Consensus size: 47
94809888 ATAGCCCGTA
* *
94809898 TAAGACCACGTCTGGGACATGGCATCGGCGTAGAGGTGAGTGCCAGTG
1 TAAGACCATGTCTGGGACAT-GCATCGGCCTAGAGGTGAGTGCCAGTG
*
94809946 TAAGA-CATGTCTGGGACATGCATCGGCCTCGA--TGATGTTAGCCAGTG
1 TAAGACCATGTCTGGGACATGCATCGGCCTAGAGGTGA-G-T-GCCAGTG
* * * * * *
94809993 TAA-AACGTGTCTGGGACATGCATCAG-CTA-AGTTTCA-TGCTAGTG
1 TAAGACCATGTCTGGGACATGCATCGGCCTAGAG-GTGAGTGCCAGTG
* * * * *** * *
94810037 TAAGA-CATGTCTGGGATATGCACCAGCACGTATACACGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGCATCGGC-C-TAGAGGTGAGTGCCAGTG
* * * *
94810085 TAAGACCATGTCTGGGACATGGGATCGGCCTCGATG-GAGATAGCCAGCG
1 TAAGACCATGTCTGGGACAT-GCATCGGCCTAGAGGTGAG-T-GCCAGTG
94810134 TAAGACCATGTCTGGGACATG
1 TAAGACCATGTCTGGGACATG
94810155 GCAGTGGCAA
Statistics
Matches: 165, Mismatches: 27, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
44 30 0.18
45 4 0.02
46 16 0.10
47 48 0.29
48 23 0.14
49 39 0.24
50 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGCATCGGCCTAGAGGTGAGTGCCAGTG
Found at i:94809967 original size:94 final size:93
Alignment explanation
Indices: 94809796--94810154 Score: 278
Period size: 94 Copynumber: 3.8 Consensus size: 93
94809786 GTTATGTGAG
* * * * * * * **
94809796 AGCCAGTATAAGACCATGTCTGGGGCATGGCATCGACATTGAGGCGAGGGCTAGTCTAAGATGTG
1 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTGCCAGTGTAAGACATG
* *
94809861 TTTGGGATATGCATCAGCCGCATCATGAT
65 TCTGGGACATGCATCAGCCGCATCATGAT
* *
94809890 AGCCCGTATAAGACCACGTCTGGGACATGGCATCGGCGTAGAGGTGAGTGCCAGTGTAAGACATG
1 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGC-TAGAGGTGAGTGCCAGTGTAAGACATG
* * * *
94809955 TCTGGGACATGCATCGGCCTCGATGATGTT
65 TCTGGGACATGCATCAGCCGC-ATCATGAT
* * * * * * *
94809985 AGCCAGTGTAA-AACGTGTCTGGGACAT-GCATCAGCTA-AGTTTCA-TGCTAGTGTAAGACATG
1 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCTAGAG-GTGAGTGCCAGTGTAAGACATG
* * * * *
94810046 TCTGGGATATGCACCAGCACGTATACACGAG
65 TCTGGGACATGCATCAGC-CGCAT-CATGAT
* * * * * *
94810077 AGCTAGTGTAAGACCATGTCTGGGACATGGGATCGGCCTCGATG-GAGATAGCCAGCGTAAGACC
1 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGG-CTAGAGGTGAG-T-GCCAGTGTAAGA-C
94810141 ATGTCTGGGACATG
62 ATGTCTGGGACATG
94810155 GCAGTGGCAA
Statistics
Matches: 205, Mismatches: 48, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
91 35 0.17
92 17 0.08
93 21 0.10
94 89 0.43
95 17 0.08
96 2 0.01
97 10 0.05
98 14 0.07
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (93 bp):
AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCTAGAGGTGAGTGCCAGTGTAAGACATGT
CTGGGACATGCATCAGCCGCATCATGAT
Found at i:94810052 original size:44 final size:45
Alignment explanation
Indices: 94809939--94810063 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 45
94809929 AGAGGTGAGT
* *
94809939 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTC-AAGATGTTA
* *
94809986 GCCAGTGTAAAACGTGTCTGGGACATGCATCAGCT-AAG-T-TTCA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATGTT-A
* * *
94810029 TGCTAGTGTAAGACATGTCTGGGATATGCACCAGC
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
94810064 ACGTATACAC
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 31 0.46
46 2 0.03
47 30 0.45
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATGTTA
Found at i:94811020 original size:55 final size:54
Alignment explanation
Indices: 94810905--94811021 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 54
94810895 CTTAAACTTT
* * * *
94810905 TAAA-TCAGTATTGTCCACGGTTAGGCCACACGGGCGTGTGCCATAGCCGTGTC
1 TAAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCC
* * *
94810958 TATAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGCTATGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATG-CC
94811014 TAAAGTCA
1 TAAAGTCA
94811022 ATGTCGCACA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 47 0.87
56 3 0.06
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (54 bp):
TAAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCC
Found at i:94814493 original size:13 final size:13
Alignment explanation
Indices: 94814475--94814522 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
94814465 TTTTACTATA
94814475 ATATTTAATTTTT
1 ATATTTAATTTTT
*
94814488 ATATTTTAATTTGAT
1 ATA-TTTAATTT-TT
*
94814503 ATGATTTAGTTTTT
1 AT-ATTTAATTTTT
94814517 ATATTT
1 ATATTT
94814523 TTATAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 7 0.24
14 11 0.38
15 10 0.34
16 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (13 bp):
ATATTTAATTTTT
Found at i:94817895 original size:18 final size:19
Alignment explanation
Indices: 94817858--94817896 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
94817848 TTTTGGTAAA
*
94817858 TGAATAATGTGATTATTATG
1 TGAAGAATGTGA-TATTATG
94817878 TGAAGAATGTGA-ATTATG
1 TGAAGAATGTGATATTATG
94817896 T
1 T
94817897 AAATTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (19 bp):
TGAAGAATGTGATATTATG
Found at i:94819206 original size:21 final size:21
Alignment explanation
Indices: 94819181--94819222 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
94819171 TGTAAAGTGG
94819181 GGGATTTATGTGTAGCGGTGT
1 GGGATTTATGTGTAGCGGTGT
94819202 GGGATTTATGTGTAGCGGTGT
1 GGGATTTATGTGTAGCGGTGT
94819223 TTCATATCTT
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:0.14, C:0.05, G:0.43, T:0.38
Consensus pattern (21 bp):
GGGATTTATGTGTAGCGGTGT
Found at i:94823110 original size:21 final size:22
Alignment explanation
Indices: 94823070--94823110 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
94823060 TTCCAAATAA
* *
94823070 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
94823092 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
94823111 CAGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:94827650 original size:2 final size:2
Alignment explanation
Indices: 94827643--94827672 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
94827633 GCTATATGTC
94827643 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
94827673 GTGTGTGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94827758 original size:17 final size:17
Alignment explanation
Indices: 94827738--94827780 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
94827728 GAGTTGCGTT
*
94827738 TATATGCGAGCTGTCTC
1 TATATGCGAGCTATCTC
* * *
94827755 TATATGTGAGCTATGTT
1 TATATGCGAGCTATCTC
94827772 TATATGCGA
1 TATATGCGA
94827781 TTTATGTCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (17 bp):
TATATGCGAGCTATCTC
Found at i:94827971 original size:26 final size:26
Alignment explanation
Indices: 94827942--94827994 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
94827932 TTGTATGGTG
*
94827942 TCTATGTGCGAGCT-CTCTATAAAGTA
1 TCTAAGTGCGAGCTAC-CTATAAAGTA
*
94827968 TCTAAGTGTGAGCTAGCCTATAAAGTA
1 TCTAAGTGCGAGCTA-CCTATAAAGTA
94827995 ATAATATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 10 0.43
28 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (26 bp):
TCTAAGTGCGAGCTACCTATAAAGTA
Found at i:94829319 original size:21 final size:21
Alignment explanation
Indices: 94829295--94829360 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
94829285 CATAACATAG
94829295 TGGTCGATACCATATTGATAA
1 TGGTCGATACCATATTGATAA
* ** *
94829316 TGGTTGAGTA-CATA-ACATAG
1 TGGTCGA-TACCATATTGATAA
94829336 TGGTCGATACCATATTGATAA
1 TGGTCGATACCATATTGATAA
94829357 TGGT
1 TGGT
94829361 AAGAACAACT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.38
21 17 0.50
22 2 0.06
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (21 bp):
TGGTCGATACCATATTGATAA
Found at i:94829340 original size:41 final size:41
Alignment explanation
Indices: 94829283--94829360 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
94829273 TATTGTTTAC
94829283 TACATAACATAGTGGTCGATACCATATTGATAATGGTTGAG
1 TACATAACATAGTGGTCGATACCATATTGATAATGGTTGAG
94829324 TACATAACATAGTGGTCGATACCATATTGATAATGGT
1 TACATAACATAGTGGTCGATACCATATTGATAATGGT
94829361 AAGAACAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (41 bp):
TACATAACATAGTGGTCGATACCATATTGATAATGGTTGAG
Found at i:94829349 original size:20 final size:20
Alignment explanation
Indices: 94829285--94829349 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
94829275 TTGTTTACTA
94829285 CATAACATAGTGGTCGATAC
1 CATAACATAGTGGTCGATAC
** * *
94829305 CATATTGATAATGGTTGAGTA-
1 CATA-ACATAGTGGTCGA-TAC
94829326 CATAACATAGTGGTCGATAC
1 CATAACATAGTGGTCGATAC
94829346 CATA
1 CATA
94829350 TTGATAATGG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 2 0.06
20 17 0.50
21 13 0.38
22 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (20 bp):
CATAACATAGTGGTCGATAC
Found at i:94835214 original size:29 final size:29
Alignment explanation
Indices: 94835172--94835227 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
94835162 CCTGTACCTA
* * *
94835172 AAGGTTTAAGTCAGTGTTGTACACGGGAT
1 AAGGTTAAAGTCAGGGTTGCACACGGGAT
94835201 AAGGTTAAAGTCAGGGTTGCACACGGG
1 AAGGTTAAAGTCAGGGTTGCACACGGG
94835228 TTGAGGGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.34, T:0.25
Consensus pattern (29 bp):
AAGGTTAAAGTCAGGGTTGCACACGGGAT
Found at i:94835676 original size:52 final size:52
Alignment explanation
Indices: 94835598--94835698 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
94835588 ATACCAAAAG
94835598 TTAGTTTGCTTTATATACCGAAAAGTCTAAGGGATAGTGTGATATGACTCAT
1 TTAGTTTGCTTTATATACCGAAAAGTCTAAGGGATAGTGTGATATGACTCAT
*
94835650 TTAGTTTGCTTTATATACCGAAAAGTCTAAGGGATAGTGTGATGTGACT
1 TTAGTTTGCTTTATATACCGAAAAGTCTAAGGGATAGTGTGATATGACT
94835699 TCGACCAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (52 bp):
TTAGTTTGCTTTATATACCGAAAAGTCTAAGGGATAGTGTGATATGACTCAT
Found at i:94836284 original size:24 final size:24
Alignment explanation
Indices: 94836257--94836428 Score: 67
Period size: 26 Copynumber: 6.9 Consensus size: 24
94836247 TGCAAGTCAA
* *
94836257 TAACAGGTAGCTCCGAAGAGCCAT
1 TAACAGGAAGCTCCAAAGAGCCAT
* *
94836281 TAACAGGAAGCTCCAAATAGCCACA
1 TAACAGGAAGCTCCAAAGAGCCA-T
* * * * *
94836306 TATCGGGAAG-TTCAAGTGAGTCAT
1 TAACAGGAAGCTCCAA-AGAGCCAT
*** ***
94836330 TATTGGGAAGCTCTGGAGAGCCAT
1 TAACAGGAAGCTCCAAAGAGCCAT
* *
94836354 TAATTAGGAAGCTCACAAAGAGCCTT
1 TAA-CAGGAAGCTC-CAAAGAGCCAT
* * *
94836380 TAATTAGGAAGTTCACGAAGAGCCAT
1 TAA-CAGGAAGCTC-CAAAGAGCCAT
* *
94836406 ATAACGGGACGCTCACAAAGAGC
1 -TAACAGGAAGCTC-CAAAGAGC
94836429 TACGGTATAT
Statistics
Matches: 110, Mismatches: 32, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
24 41 0.37
25 22 0.20
26 44 0.40
27 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (24 bp):
TAACAGGAAGCTCCAAAGAGCCAT
Found at i:94836382 original size:26 final size:26
Alignment explanation
Indices: 94836346--94836428 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
94836336 GAAGCTCTGG
94836346 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCATTAATTAGGAAGCTCACAA
* * *
94836372 AGAGCCTTTAATTAGGAAGTTCACGA
1 AGAGCCATTAATTAGGAAGCTCACAA
** *
94836398 AGAGCCATATAA-CGGGACGCTCACAA
1 AGAGCCAT-TAATTAGGAAGCTCACAA
94836424 AGAGC
1 AGAGC
94836429 TACGGTATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 44 0.94
27 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATTAGGAAGCTCACAA
Found at i:94840554 original size:4 final size:4
Alignment explanation
Indices: 94840545--94840586 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
94840535 TACTCCAATT
*
94840545 TTTA TTTA TTTA TTTA TTTA -TTA TTTA -TTA TTATT TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTT
94840587 TTTTTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 6 0.18
4 24 0.73
5 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:94840570 original size:19 final size:16
Alignment explanation
Indices: 94840542--94840586 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 16
94840532 AAGTACTCCA
94840542 ATTTTTATTTATTTATTT
1 ATTTTTATTTA-TTA-TT
94840560 ATTTATTATTTATTATT
1 ATTT-TTATTTATTATT
94840577 ATTTTTATTT
1 ATTTTTATTT
94840587 TTTTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.23
17 6 0.23
18 7 0.27
19 7 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTATTTATTATT
Found at i:94841586 original size:18 final size:18
Alignment explanation
Indices: 94841563--94841597 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94841553 AATCAGTAAT
* *
94841563 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
94841581 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
94841598 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:94841682 original size:12 final size:12
Alignment explanation
Indices: 94841665--94841689 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94841655 AGTGACGAAT
94841665 CGGTAACAGTAA
1 CGGTAACAGTAA
94841677 CGGTAACAGTAA
1 CGGTAACAGTAA
94841689 C
1 C
94841690 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:94841683 original size:45 final size:45
Alignment explanation
Indices: 94841581--94841684 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
94841571 GTAGCAGTAG
* *
94841581 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCGGTAA
* ** *
94841626 TAGTAATTGTAACAATATTCGACACACAAAGTGAC-GAATCGGTAA
1 CAGTAACAGTAACAATATTCAACACACAAAGTG-CTGAATCGGTAA
*
94841671 CAGTAACGGTAACA
1 CAGTAACAGTAACA
94841685 GTAACAGTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCGGTAA
Found at i:94842778 original size:5 final size:5
Alignment explanation
Indices: 94842768--94842828 Score: 106
Period size: 5 Copynumber: 12.2 Consensus size: 5
94842758 TTTATATATA
94842768 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
94842818 AATAA- ATAAT A
1 -ATAAT ATAAT A
94842829 ATACTTAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.07
5 46 0.85
6 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:94847048 original size:25 final size:25
Alignment explanation
Indices: 94846895--94847075 Score: 99
Period size: 24 Copynumber: 7.4 Consensus size: 25
94846885 GGCTGTATAA
94846895 CAGGAAGCT-CATAAGAGCCA-TAAT
1 CAGGAAGCTCCA-AAGAGCCATTAAT
** * * *
94846919 CAAAAAGCT-CATATGAGCTAATAA-
1 CAGGAAGCTCCA-AAGAGCCATTAAT
* * *
94846943 CAGGTAGCTTCGAAGAGCCATTAA-
1 CAGGAAGCTCCAAAGAGCCATTAAT
* * *
94846967 CGGGAAGCTCCAGATAGCCA-TATAT
1 CAGGAAGCTCCAAAGAGCCATTA-AT
* *
94846992 CGGGAAG-TTCAAACGAGCCATT-AT
1 CAGGAAGCTCCAAA-GAGCCATTAAT
* * *
94847016 CAGAAAGCTCTAGAGAGCCATTAAT
1 CAGGAAGCTCCAAAGAGCCATTAAT
*
94847041 CAGGAAGCTCACAAAGAGCCTTTAAT
1 CAGGAAGCTC-CAAAGAGCCATTAAT
*
94847067 CAAGAAGCT
1 CAGGAAGCT
94847076 TATGAAGAGC
Statistics
Matches: 118, Mismatches: 30, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
23 2 0.02
24 65 0.55
25 30 0.25
26 21 0.18
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (25 bp):
CAGGAAGCTCCAAAGAGCCATTAAT
Found at i:94848354 original size:11 final size:11
Alignment explanation
Indices: 94848338--94848368 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
94848328 CAGACCATAC
94848338 AATAATTTTAA
1 AATAATTTTAA
94848349 AATAATTTTAA
1 AATAATTTTAA
94848360 AATAATTTT
1 AATAATTTT
94848369 TCTTTCTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATAATTTTAA
Found at i:94848606 original size:19 final size:20
Alignment explanation
Indices: 94848569--94848608 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
94848559 CAAAAGCCCT
* *
94848569 CAAAACTTTTTATTTTCTCC
1 CAAAACTTTTTACTCTCTCC
94848589 CAAAA-TTTTTACTCTCTCC
1 CAAAACTTTTTACTCTCTCC
94848608 C
1 C
94848609 GCTTTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (20 bp):
CAAAACTTTTTACTCTCTCC
Found at i:94852830 original size:43 final size:43
Alignment explanation
Indices: 94852723--94853025 Score: 355
Period size: 43 Copynumber: 7.2 Consensus size: 43
94852713 ATATGCAACA
* * * * ** *
94852723 CCGCTAAAAACCAGGACTTTTAGCGGCGC-TGTTAAAAAAATG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAAACG
* *
94852765 CTGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGAAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAAACG
** * * *
94852808 CCGCTAAAGACCGGGACTTTTAGCGGCGC--TTTTAAAAAAAG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAAACG
*
94852849 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGAAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAAACG
* * * * *
94852892 CCGCTATAGACCAGGACTTTTAGCGGCGC--TTTTAAAAAAAG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAAACG
* **
94852933 CCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTTCGCAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAAACG
*
94852976 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAAACG
94853019 CCGCTAA
1 CCGCTAA
94853026 TTAAAAAATT
Statistics
Matches: 218, Mismatches: 38, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
41 69 0.32
42 25 0.11
43 124 0.57
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAAACG
Found at i:94852878 original size:84 final size:84
Alignment explanation
Indices: 94852723--94853008 Score: 482
Period size: 84 Copynumber: 3.4 Consensus size: 84
94852713 ATATGCAACA
* * *
94852723 CCGCTAAAAACCAGGACTTTTAGCGGCGCTGTTAAAAAAATGCTGCTAAAGACCATGACCTTTAG
1 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAA-GCCGCTAAAGACCATGACCTTTAG
94852788 CGGCGCTTTTTTCGAAAACG
65 CGGCGCTTTTTTCGAAAACG
*
94852808 CCGCTAAAGACCGGGACTTTTAGCGGCGCTTTTAAAAAAAGCCGCTAAAGACCATGACCTTTAGC
1 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAAGCCGCTAAAGACCATGACCTTTAGC
94852873 GGCGCTTTTTTCGAAAACG
66 GGCGCTTTTTTCGAAAACG
*
94852892 CCGCTATAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAAGCCGCTAAAGACCATGACCTTTAGC
1 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAAGCCGCTAAAGACCATGACCTTTAGC
* *
94852957 AGCGCTTTTTTCGCAAACG
66 GGCGCTTTTTTCGAAAACG
* *
94852976 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTT
1 CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTT
94853009 TTCACAAACG
Statistics
Matches: 190, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
84 153 0.81
85 37 0.19
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (84 bp):
CCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAAAAAAAGCCGCTAAAGACCATGACCTTTAGC
GGCGCTTTTTTCGAAAACG
Found at i:94852918 original size:127 final size:125
Alignment explanation
Indices: 94852723--94853025 Score: 347
Period size: 127 Copynumber: 2.4 Consensus size: 125
94852713 ATATGCAACA
* * * * *** * * *
94852723 CCGCTAAAAACCAGGACTTTTAGCGGCGCTGTTAAAAAAATGCTGCTAAAGACCATGACCTTTAG
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAACGCCGCTAAAGACCAGGACCTTTAG
** * * * *
94852788 CGGCGCTTTTTTCGAAAACGCCGCTAAAGACCGGGACTTTTAGCGGCGC-TTTTAAAAAAAG
66 CGGCGC--TTTTAAAAAAAGCCGCTAAAGACCAGGACCTTTAGCAGCGCTTTTTAAAAAAAG
* *
94852849 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGAAAACGCCGCTATAGACCAGGACTTTTA
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTC-AAAACGCCGCTAAAGACCAGGACCTTTA
* *** *
94852914 GCGGCGCTTTTAAAAAAAGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTTCGCAAACG
65 GCGGCGCTTTTAAAAAAAGCCGCTAAAGACCAGGACCTTTAGCAGCGC-TTTTTAAAAAAAG
94852976 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAA
1 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCA-AAACGCCGCTAA
94853026 TTAAAAAATT
Statistics
Matches: 149, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
125 34 0.23
126 30 0.20
127 85 0.57
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (125 bp):
CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAAAACGCCGCTAAAGACCAGGACCTTTAG
CGGCGCTTTTAAAAAAAGCCGCTAAAGACCAGGACCTTTAGCAGCGCTTTTTAAAAAAAG
Found at i:94853051 original size:22 final size:20
Alignment explanation
Indices: 94853023--94853064 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
94853013 CAAACGCCGC
94853023 TAATTAAAAAATTATTTTATTT
1 TAATTAAAAAA-TA-TTTATTT
*
94853045 TAATTAAATAATATTTATTT
1 TAATTAAAAAATATTTATTT
94853065 CTATGTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTAAAAAATATTTATTT
Found at i:94854881 original size:17 final size:16
Alignment explanation
Indices: 94854841--94854888 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
94854831 AGATGATATG
*
94854841 ATATTTTTTTTATTTT
1 ATATTTTATTTATTTT
94854857 ATAGTTTTATTTATTTAT
1 ATA-TTTTATTTATTT-T
*
94854875 TTATTTTA-TTATTT
1 ATATTTTATTTATTT
94854889 GAAAATAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.32
17 16 0.57
18 3 0.11
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
ATATTTTATTTATTTT
Found at i:94857267 original size:8 final size:8
Alignment explanation
Indices: 94857256--94857326 Score: 60
Period size: 8 Copynumber: 9.4 Consensus size: 8
94857246 ATATTAAATA
94857256 TTAAATTT
1 TTAAATTT
*
94857264 TTAAGTTT
1 TTAAATTT
*
94857272 TT-TATTT
1 TTAAATTT
**
94857279 TTTTATTT
1 TTAAATTT
*
94857287 TT-TATTT
1 TTAAATTT
*
94857294 CTAAA-TT
1 TTAAATTT
94857301 TTAAA-TT
1 TTAAATTT
94857308 TTAAATTT
1 TTAAATTT
94857316 TTAAATTT
1 TTAAATTT
94857324 TTA
1 TTA
94857327 GTTTATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
7 24 0.44
8 30 0.56
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (8 bp):
TTAAATTT
Found at i:94857305 original size:7 final size:7
Alignment explanation
Indices: 94857290--94857324 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
94857280 TTTATTTTTT
94857290 ATTTCTAA
1 ATTT-TAA
94857298 ATTTTAA
1 ATTTTAA
94857305 ATTTTAA
1 ATTTTAA
94857312 ATTTTTAA
1 A-TTTTAA
94857320 ATTTT
1 ATTTT
94857325 TAGTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 15 0.58
8 11 0.42
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:94857319 original size:15 final size:15
Alignment explanation
Indices: 94857249--94857326 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 15
94857239 GACTAAAATA
*
94857249 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
94857264 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
** **
94857279 TTTTATTTTTTATTT
1 TTAAATTTTAAATTT
*
94857294 CTAAATTTTAAA-TT
1 TTAAATTTTAAATTT
94857308 TTAAATTTTTAAATTT
1 TTAAA-TTTTAAATTT
94857324 TTA
1 TTA
94857327 GTTTATTTTT
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
14 6 0.12
15 37 0.77
16 5 0.10
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:94857927 original size:7 final size:7
Alignment explanation
Indices: 94857915--94857978 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
94857905 CCCATGGCCA
94857915 TTAAACC
1 TTAAACC
94857922 TTAAACC
1 TTAAACC
*
94857929 ATAAAACC
1 -TTAAACC
*
94857937 CTAAACC
1 TTAAACC
*
94857944 ATAAACC
1 TTAAACC
94857951 TTAAACC
1 TTAAACC
**
94857958 TTAAATA
1 TTAAACC
94857965 TTAAACC
1 TTAAACC
*
94857972 GTAAACC
1 TTAAACC
94857979 AAAAAATAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:94857935 original size:15 final size:15
Alignment explanation
Indices: 94857912--94857962 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
94857902 ATACCCATGG
*
94857912 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
94857927 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
94857942 CCAT-AAACCTTAAA
1 CCATAAAACCTTAAA
*
94857956 CCTTAAA
1 CCATAAA
94857963 TATTAAACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:94858054 original size:2 final size:2
Alignment explanation
Indices: 94858047--94858073 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94858037 TTTTACATTA
94858047 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
94858074 CATCAACATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94858187 original size:36 final size:35
Alignment explanation
Indices: 94858088--94858204 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 35
94858078 AACATCCATG
* *
94858088 TGACGTTTTTTGGGGTTTAGGGTTTTAGAAGTTATGGT
1 TGAC-TTTTTTGGGGTTTAGGGTTTTAGGAGTTAT--A
* * * * **
94858126 TTAGTGTTTAGGGGTTTAGTATTTTAGGAGTTATCA
1 TGACTTTTTTGGGGTTTAGGGTTTTAGGAGTTAT-A
* *
94858162 TGATTTTTTTGGGGTTTAGGGTTTTAGGGGTTATA
1 TGACTTTTTTGGGGTTTAGGGTTTTAGGAGTTATA
94858197 TGACTTTT
1 TGACTTTT
94858205 AGCGGCGTTT
Statistics
Matches: 62, Mismatches: 17, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
35 8 0.13
36 27 0.44
37 25 0.40
38 2 0.03
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.50
Consensus pattern (35 bp):
TGACTTTTTTGGGGTTTAGGGTTTTAGGAGTTATA
Found at i:94858255 original size:41 final size:41
Alignment explanation
Indices: 94858198--94858400 Score: 302
Period size: 41 Copynumber: 5.0 Consensus size: 41
94858188 GGGGTTATAT
*
94858198 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
94858239 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGC-CC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
94858279 TGACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCCCC
1 -GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
*
94858321 GACTTTTAGCGGCGTTTTATCAAAAGCGCCGCTATTGCT-C
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
* * ** * *
94858361 TATTTTTAGCGGCGTTTTAAAAAAAACGCCACTATTGCTC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
94858401 TATGTTTTAC
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
40 36 0.24
41 112 0.75
42 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCC
Found at i:94863450 original size:45 final size:43
Alignment explanation
Indices: 94863382--94863469 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 43
94863372 ACAAGTTCTA
*
94863382 GAACATCTGTGCTGATGCCATGTCCCAGACATGGTCTTACACT
1 GAACATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACT
94863425 GACACATCTTGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GA-ACATC-TGT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
94863469 G
1 G
94863470 GCTTATGTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
43 2 0.05
44 16 0.39
45 17 0.41
46 6 0.15
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (43 bp):
GAACATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACT
Found at i:94863526 original size:46 final size:46
Alignment explanation
Indices: 94863395--94863611 Score: 178
Period size: 46 Copynumber: 4.7 Consensus size: 46
94863385 CATCTGTGCT
*
94863395 GATGCCATGTCCCAGACATGGTCTTACACT-GACAC-A-TCTTGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CACTAGTCTCG-AGGCC
* * *
94863441 GATGCATGTCCCAGACATGTCTTACACTGGC-TTATGTCTCGAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTA-GTCTCGAGGCC
* * *
94863487 GAAGCATGTCCCAGACATGTCTTACACTAGCACTAGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTAGTCTCGAGGCC
* * * *** *
94863533 GATGCCATGTCCCAAACATGGTCTTATA-TAGGCTCTCACAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTA-GCACT-AGTCTCGAGGCC
94863581 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
94863612 TCACACAAGT
Statistics
Matches: 139, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.09
45 16 0.12
46 59 0.42
47 32 0.23
48 18 0.13
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTAGTCTCGAGGCC
Found at i:94871918 original size:23 final size:22
Alignment explanation
Indices: 94871869--94871932 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
94871859 CCTGATCAGT
*
94871869 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
94871891 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
94871913 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
94871933 GATCGATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Done.