Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 203 of 213
Found at i:60757947 original size:20 final size:20
Alignment explanation
Indices: 60757922--60757963 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
60757912 CCAGTGTTTC
60757922 AAAAATTGT-CGTGTTTTCAA
1 AAAAATT-TCCGTGTTTTCAA
*
60757942 AAAAATTTCCTTGTTTTCAA
1 AAAAATTTCCGTGTTTTCAA
60757962 AA
1 AA
60757964 GTCCCGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAAATTTCCGTGTTTTCAA
Found at i:60757958 original size:54 final size:52
Alignment explanation
Indices: 60757887--60758068 Score: 156
Period size: 54 Copynumber: 3.4 Consensus size: 52
60757877 ATTCGTGTTT
*
60757887 AAAAAATCTTCGTGTTTTCAAAATTCCAGTGTTTCAAAAATTGTCGTGTTTTCA
1 AAAAAAT-TTC-TGTTTTCAAAATTCCAGTGTTTCAAAAATTCTCGTGTTTTCA
* * * * * * *
60757941 AAAAAATTTCCTTGTTTTCAAAAGTCCCGTATTCCGAAAATTTTCTTGTTTTCA
1 AAAAAATTT-C-TGTTTTCAAAATTCCAGTGTTTCAAAAATTCTCGTGTTTTCA
* *
60757995 AAAAAA-TTCTGTGTTTCATAAATTTCCA-TGTTTTCAAAAAATCTCGT-CTTTC-
1 AAAAAATTTCTGT-TTTCA-AAA-TTCCAGTG-TTTCAAAAATTCTCGTGTTTTCA
*
60758047 AAAAATTTTCGTGTTTTCAAAA
1 AAAAAATTTC-TGTTTTCAAAA
60758069 AAAATTGACC
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
51 3 0.03
52 14 0.14
53 20 0.19
54 66 0.64
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (52 bp):
AAAAAATTTCTGTTTTCAAAATTCCAGTGTTTCAAAAATTCTCGTGTTTTCA
Found at i:60758047 original size:35 final size:34
Alignment explanation
Indices: 60757943--60758070 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
60757933 TGTTTTCAAA
* * *
60757943 AAAATTTCCTTGTTTTC-AAAAGTCCCGTATTCC
1 AAAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
* *
60757976 GAAAATTTTCTTGTTTTCAAAAAAAT-TCTGTGTTTC
1 -AAAATTTCCTTGTTTTC-AAAAAATCTC-GTATTTC
* *
60758012 ATAAATTTCCATGTTTTCAAAAAATCTCGTCTTTC
1 A-AAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
* *
60758047 AAAAATTTTCGTGTTTTCAAAAAA
1 -AAAATTTCCTTGTTTTCAAAAAA
60758071 AATTGACCGT
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
34 16 0.21
35 35 0.45
36 27 0.35
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (34 bp):
AAAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
Found at i:60758100 original size:17 final size:17
Alignment explanation
Indices: 60757878--60758107 Score: 97
Period size: 17 Copynumber: 12.9 Consensus size: 17
60757868 TTAAAAAAAA
* *
60757878 TTCGTGTTTAAAAAATC
1 TTCGTGTTTCAAAAATT
60757895 TTCGTGTTTTC-AAAA-T
1 TTCGTG-TTTCAAAAATT
*
60757911 TCCAGTGTTTCAAAAATT
1 TTC-GTGTTTCAAAAATT
*
60757929 GTCGTGTTTTCAAAAAAATT
1 TTCGTG-TTTC--AAAAATT
* * *
60757949 TCCTTGTTTTC-AAAAGT
1 TTCGTG-TTTCAAAAATT
** * * *
60757966 CCCGTATTCCGAAAATT
1 TTCGTGTTTCAAAAATT
* **
60757983 TTCTTGTTTTCAAAAAAA
1 TTCGTG-TTTCAAAAATT
*
60758001 TTCTGTGTTTCATAAATT
1 TTC-GTGTTTCAAAAATT
* * *
60758019 TCCATGTTTTCAAAAAAT
1 TTCGTG-TTTCAAAAATT
* *
60758037 CTCGTCTTTCAAAAATT
1 TTCGTGTTTCAAAAATT
60758054 TTCGTGTTTTCAAAAAAAATT
1 TTCGTG-TTTC---AAAAATT
** *
60758075 GACCGTGTTTCATAAATT
1 -TTCGTGTTTCAAAAATT
60758093 TTCGTGTTTCAAAAA
1 TTCGTGTTTCAAAAA
60758108 ATCCTCGTGT
Statistics
Matches: 154, Mismatches: 43, Indels: 32
0.67 0.19 0.14
Matches are distributed among these distances:
16 9 0.06
17 63 0.41
18 50 0.32
19 2 0.01
20 15 0.10
21 11 0.07
22 4 0.03
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (17 bp):
TTCGTGTTTCAAAAATT
Found at i:60758109 original size:18 final size:18
Alignment explanation
Indices: 60757977--60758225 Score: 84
Period size: 18 Copynumber: 13.1 Consensus size: 18
60757967 CCGTATTCCG
*
60757977 AAAATTTTCTTGTTTTCAA
1 AAAATTTTCGTG-TTTCAA
*
60757996 AAAA-ATTCTGTGTTTC-A
1 AAAATTTTC-GTGTTTCAA
* * *
60758013 TAAATTTCCATGTTTTCAA
1 AAAATTTTCGTG-TTTCAA
* *
60758032 AAAA-TCTCGTCTTTC-A
1 AAAATTTTCGTGTTTCAA
60758048 AAAATTTTCGTGTTTTCAAAA
1 AAAATTTTCGTG-TTTC--AA
**
60758069 AAAATTGACCGTGTTTC-A
1 AAAATT-TTCGTGTTTCAA
*
60758087 TAAATTTTCGTGTTTCAA
1 AAAATTTTCGTGTTTCAA
* *
60758105 AAAATCCTCGTGTTTCGTATTTTATCA
1 AAAA------T-TTTCGTGTTTCA--A
*
60758132 AAAATTTT-ATGTTTTCAAA
1 AAAATTTTCGTG-TTTC-AA
*
60758151 AAAATTTT-GTGTTT-TA
1 AAAATTTTCGTGTTTCAA
60758167 AAAATTTTCGTGTTTCAAA
1 AAAATTTTCGTGTTTC-AA
**
60758186 AAGAAAATTCGTGTTTCCTAA
1 AA-AATTTTCGTGTTT-C-AA
*
60758207 AAAA-TCTCGTGTTTCAA
1 AAAATTTTCGTGTTTCAA
60758224 AA
1 AA
60758226 TTTTCGTTTT
Statistics
Matches: 171, Mismatches: 32, Indels: 56
0.66 0.12 0.22
Matches are distributed among these distances:
16 14 0.08
17 33 0.19
18 34 0.20
19 33 0.19
20 19 0.11
21 18 0.11
22 4 0.02
24 1 0.01
25 10 0.06
27 5 0.03
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (18 bp):
AAAATTTTCGTGTTTCAA
Found at i:60758117 original size:35 final size:36
Alignment explanation
Indices: 60757978--60758120 Score: 152
Period size: 35 Copynumber: 3.9 Consensus size: 36
60757968 CGTATTCCGA
*
60757978 AAATTTTCTTGTTTTCAAAAAAAT-TCTGTGTTTCAT
1 AAATTTTCGTGTTTTCAAAAAAATCTC-GTGTTTCAT
* * * *
60758014 AAATTTCCATGTTTTC-AAAAAATCTCGTCTTTCAA
1 AAATTTTCGTGTTTTCAAAAAAATCTCGTGTTTCAT
60758049 AAATTTTCGTGTTTTCAAAAAAAAT-TGACCGTGTTTCAT
1 AAATTTTCGTGTTTTC-AAAAAAATCT---CGTGTTTCAT
60758088 AAATTTTCGTG-TTTC-AAAAAATCCTCGTGTTTC
1 AAATTTTCGTGTTTTCAAAAAAAT-CTCGTGTTTC
60758121 GTATTTTATC
Statistics
Matches: 91, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
35 36 0.40
36 24 0.26
37 7 0.08
38 5 0.05
39 19 0.21
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (36 bp):
AAATTTTCGTGTTTTCAAAAAAATCTCGTGTTTCAT
Found at i:60758151 original size:17 final size:16
Alignment explanation
Indices: 60758129--60758187 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 16
60758119 TCGTATTTTA
60758129 TCAAAAATTTTATGTTT
1 TCAAAAATTTT-TGTTT
60758146 TCAAAAAAATTTTGTGTTT
1 TC--AAAAATTTT-TGTTT
*
60758165 T-AAAAATTTTCGTGTT
1 TCAAAAATTTTTGT-TT
60758181 TCAAAAA
1 TCAAAAA
60758188 GAAAATTCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.06
16 12 0.33
17 7 0.19
19 15 0.42
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (16 bp):
TCAAAAATTTTTGTTT
Found at i:60758153 original size:19 final size:18
Alignment explanation
Indices: 60758131--60758170 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
60758121 GTATTTTATC
60758131 AAAAATTTTATGTTTTCAA
1 AAAAATTTTATGTTTT-AA
*
60758150 AAAAATTTTGTGTTTTAA
1 AAAAATTTTATGTTTTAA
60758168 AAA
1 AAA
60758171 TTTTCGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (18 bp):
AAAAATTTTATGTTTTAA
Found at i:60758198 original size:20 final size:19
Alignment explanation
Indices: 60758173--60758225 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
60758163 TTTAAAAATT
60758173 TTCGTGTTTCAAAAAGAAAA
1 TTCGTGTTTCAAAAA-AAAA
**
60758193 TTCGTGTTTC-CTAAAAAA
1 TTCGTGTTTCAAAAAAAAA
60758211 TCTCGTGTTTCAAAA
1 T-TCGTGTTTCAAAA
60758226 TTTTCGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (19 bp):
TTCGTGTTTCAAAAAAAAA
Found at i:60758288 original size:18 final size:19
Alignment explanation
Indices: 60758267--60758303 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
60758257 TCTAAAATGC
60758267 TTGTATTTT-AAAAAAAAA
1 TTGTATTTTCAAAAAAAAA
*
60758285 TTGTGTTTTCAAAAAAAAA
1 TTGTATTTTCAAAAAAAAA
60758304 AGGAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (19 bp):
TTGTATTTTCAAAAAAAAA
Found at i:60770092 original size:69 final size:70
Alignment explanation
Indices: 60769972--60770145 Score: 203
Period size: 69 Copynumber: 2.5 Consensus size: 70
60769962 CTTTCCAAGG
**
60769972 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
60770035 T-TTTT
65 TGTTTT
* ** * *
60770040 AAAAATCAACTCAAATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
60770105 TGTTTT
65 TGTTTT
** * *
60770111 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
60770146 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
69 83 0.92
70 3 0.03
71 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:60770464 original size:149 final size:146
Alignment explanation
Indices: 60770149--60770481 Score: 413
Period size: 149 Copynumber: 2.2 Consensus size: 146
60770139 TAAGCCTTTT
* * * ** *
60770149 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTG-TTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
60770214 TAATTTTAATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
65 TAATTTTAATTTCTGTTGTT--AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
60770279 GACACGCTGAGGTAATTTC
128 GACACGCTGAGGTAATTTC
* * *
60770298 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTT-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* * **
60770363 T-ATTTTCAATTTCTGTT-TT-CAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GG
65 TAATTTT-AATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
* *
60770424 TTCACATGCTGAGGTATTTTC
129 ---ACACGCTGAGGTAATTTC
60770445 AATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGA
1 AATTTCTGTTTT--AAAAATCAACTCATATTGCGAGA
60770482 GGTGATTTGA
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
144 2 0.01
145 36 0.22
147 28 0.17
148 32 0.20
149 62 0.39
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (146 bp):
AATTTCTGTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
AATTTTAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTC
Found at i:60770518 original size:75 final size:73
Alignment explanation
Indices: 60770163--60770498 Score: 435
Period size: 72 Copynumber: 4.5 Consensus size: 73
60770153 TTTGTTTTTC
*
60770163 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
60770227 TGTTGTTAAAAAA
65 TGTT-TT---AAA
** *
60770240 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
60770305 GTTTT-CA
66 GTTTTAAA
* * ** * *
60770312 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
60770377 GTTTTCAA
66 GTTTTAAA
* *
60770385 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
60770449 TCTGTTTTAAA
63 TCTGTTTTAAA
* *
60770460 AAAATCAACTCATATTGCGAGAGGTGATTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
60770499 ATTACACACT
Statistics
Matches: 232, Mismatches: 21, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
72 67 0.29
73 35 0.15
75 64 0.28
76 7 0.03
77 59 0.25
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAA
Found at i:60770702 original size:127 final size:128
Alignment explanation
Indices: 60770385--60770747 Score: 369
Period size: 130 Copynumber: 2.8 Consensus size: 128
60770375 CTGTTTTCAA
* *
60770385 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACATGCTGAGGTATTTTCAATTT
* *
60770450 CTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGATTTG-AGCTTCAGATTACACACTGTGGT
64 CTGTTTT--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGT-GT
60770514 ATT
126 ATT
**** * * * * *
60770517 TTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTATTTTCAATTTCT
* * * * *
60770582 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTA-ATTTC-TACT-T-T-T
66 GTTT-T-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTCAGATTACACACTGTGTAT
60770642 T
128 T
* * * *
60770643 CAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATTTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTATTTTCAATTTC
* **
60770708 TGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 TGT-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
60770748 GCCTCAGGAC
Statistics
Matches: 189, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
126 30 0.16
127 56 0.30
128 2 0.01
129 1 0.01
130 58 0.31
131 7 0.04
132 35 0.19
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (128 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTATTTTCAATTTCT
GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGTGTATT
Found at i:60770909 original size:27 final size:25
Alignment explanation
Indices: 60770879--60770934 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
60770869 CTGTTTTCAT
*
60770879 TATTATGTTTTTGAAAGAATCAACTCA
1 TATTATG-TTTTCAAA-AATCAACTCA
* *
60770906 TATTCTGTTTTCAAAATTCAACTCA
1 TATTATGTTTTCAAAAATCAACTCA
60770931 TATT
1 TATT
60770935 GCGAGAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 13 0.50
26 7 0.27
27 6 0.23
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (25 bp):
TATTATGTTTTCAAAAATCAACTCA
Found at i:60771035 original size:73 final size:72
Alignment explanation
Indices: 60770908--60771104 Score: 270
Period size: 73 Copynumber: 2.7 Consensus size: 72
60770898 TCAACTCATA
* * * *
60770908 TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
1 TTCTGTTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAA
60770973 TTTCAAT
66 TTTCAAT
*
60770980 TTTTGCTTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
1 TTCTG-TTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
60771045 ATTTCAAT
65 ATTTCAAT
** * *
60771053 TTCTGTTGTAAAAAAAATCAACTCATATTGCGAA-AAGTGAGTTGAGCCTCAG
1 TTCTGTT-T-TCAAAATTCAACTCATATTGC-AAGAAATGAGTTGAGCCTCAG
60771105 TTCACATGTT
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
72 6 0.05
73 68 0.61
74 35 0.32
75 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (72 bp):
TTCTGTTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAA
TTTCAAT
Found at i:60773282 original size:17 final size:16
Alignment explanation
Indices: 60773256--60773490 Score: 103
Period size: 17 Copynumber: 13.3 Consensus size: 16
60773246 CGGTATTTAA
*
60773256 AAAAAATTCGTGTTTC
1 AAAAATTTCGTGTTTC
60773272 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTG-TTTC
*
60773290 -AAAATTCCAGTGTTTC
1 AAAAATTTC-GTGTTTC
60773306 AAAAATTGTCGTGTTTTC
1 AAAAATT-TCGTG-TTTC
*
60773324 AAAAAAATTTCCTTGTTTTC
1 --AAAAATTT-CGTG-TTTC
* ** * *
60773344 AAAAGTCCCGTATTCC
1 AAAAATTTCGTGTTTC
* *
60773360 GAAAATTTTCTTGTTTTC
1 -AAAAATTTCGTG-TTTC
*
60773378 AAAAAATTTTGTGTTTC
1 -AAAAATTTCGTGTTTC
* *
60773395 ATAAATTTCCATGTTTTC
1 AAAAATTT-CGTG-TTTC
* *
60773413 AAAAAATCTCGTCTTTC
1 -AAAAATTTCGTGTTTC
60773430 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCGTG-TTTC
*
60773448 AAAAAAAATTGACCGTGTTTC
1 ---AAAAATT--TCGTGTTTC
*
60773469 ATAAATTTTCGTGTTTC
1 A-AAAATTTCGTGTTTC
60773486 AAAAA
1 AAAAA
60773491 ATCCTCGTGT
Statistics
Matches: 164, Mismatches: 33, Indels: 44
0.68 0.14 0.18
Matches are distributed among these distances:
16 29 0.18
17 56 0.34
18 37 0.23
19 12 0.07
20 17 0.10
21 9 0.05
22 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:60773331 original size:20 final size:20
Alignment explanation
Indices: 60773306--60773347 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
60773296 CCAGTGTTTC
60773306 AAAAATTGT-CGTGTTTTCAA
1 AAAAATT-TCCGTGTTTTCAA
*
60773326 AAAAATTTCCTTGTTTTCAA
1 AAAAATTTCCGTGTTTTCAA
60773346 AA
1 AA
60773348 GTCCCGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAAATTTCCGTGTTTTCAA
Found at i:60773410 original size:35 final size:35
Alignment explanation
Indices: 60773326--60773453 Score: 123
Period size: 35 Copynumber: 3.7 Consensus size: 35
60773316 GTGTTTTCAA
* * * * * *
60773326 AAAAATTTCCTTGTTTTC-AAAAGTCCCGTATTCC
1 AAAAATTTTCATGTTTTCAAAAAATCTCGTCTTTC
* * * * *
60773360 GAAAATTTTCTTGTTTTCAAAAAATTTTGTGTTTC
1 AAAAATTTTCATGTTTTCAAAAAATCTCGTCTTTC
* *
60773395 ATAAATTTCCATGTTTTCAAAAAATCTCGTCTTTC
1 AAAAATTTTCATGTTTTCAAAAAATCTCGTCTTTC
*
60773430 AAAAATTTTCGTGTTTTCAAAAAA
1 AAAAATTTTCATGTTTTCAAAAAA
60773454 AATTGACCGT
Statistics
Matches: 75, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
34 16 0.21
35 59 0.79
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (35 bp):
AAAAATTTTCATGTTTTCAAAAAATCTCGTCTTTC
Found at i:60773492 original size:18 final size:18
Alignment explanation
Indices: 60773361--60773503 Score: 98
Period size: 18 Copynumber: 7.9 Consensus size: 18
60773351 CCGTATTCCG
*
60773361 AAAATTTTCTTGTTTTCAA
1 AAAATTTTCGTG-TTTCAA
60773380 AAAATTTT-GTGTTTC-A
1 AAAATTTTCGTGTTTCAA
* * *
60773396 TAAATTTCCATGTTTTCAA
1 AAAATTTTCGTG-TTTCAA
* *
60773415 AAAA-TCTCGTCTTTC-A
1 AAAATTTTCGTGTTTCAA
60773431 AAAATTTTCGTGTTTTCAAAA
1 AAAATTTTCGTG-TTTC--AA
**
60773452 AAAATTGACCGTGTTTC-A
1 AAAATT-TTCGTGTTTCAA
*
60773470 TAAATTTTCGTGTTTCAA
1 AAAATTTTCGTGTTTCAA
**
60773488 AAAATCCTCGTGTTTC
1 AAAATTTTCGTGTTTC
60773504 GTATTTTATC
Statistics
Matches: 95, Mismatches: 19, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
16 12 0.13
17 23 0.24
18 33 0.35
19 12 0.13
21 11 0.12
22 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (18 bp):
AAAATTTTCGTGTTTCAA
Found at i:60773500 original size:35 final size:35
Alignment explanation
Indices: 60773362--60773503 Score: 153
Period size: 35 Copynumber: 3.9 Consensus size: 35
60773352 CGTATTCCGA
* * *
60773362 AAATTTTCTTGTTTTCAAAAAATTTTGTGTTTCAT
1 AAATTTTCGTGTTTTCAAAAAATCTCGTGTTTCAT
* * * *
60773397 AAATTTCCATGTTTTCAAAAAATCTCGTCTTTCAA
1 AAATTTTCGTGTTTTCAAAAAATCTCGTGTTTCAT
60773432 AAATTTTCGTGTTTTCAAAAAAAAT-TGACCGTGTTTCAT
1 AAATTTTCGTGTTTTC--AAAAAATCT---CGTGTTTCAT
60773471 AAATTTTCGTG-TTTCAAAAAATCCTCGTGTTTC
1 AAATTTTCGTGTTTTCAAAAAAT-CTCGTGTTTC
60773504 GTATTTTATC
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
35 51 0.57
36 8 0.09
37 7 0.08
38 5 0.06
39 19 0.21
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (35 bp):
AAATTTTCGTGTTTTCAAAAAATCTCGTGTTTCAT
Found at i:60773547 original size:20 final size:19
Alignment explanation
Indices: 60773514--60773554 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
60773504 GTATTTTATC
*
60773514 AAAAATTTTATGTTTTCAAA
1 AAAAAATTTATGTTTT-AAA
*
60773534 AAAAAATTTGTGTTTTAAA
1 AAAAAATTTATGTTTTAAA
60773553 AA
1 AA
60773555 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (19 bp):
AAAAAATTTATGTTTTAAA
Found at i:60773555 original size:15 final size:17
Alignment explanation
Indices: 60773534--60773616 Score: 53
Period size: 16 Copynumber: 4.7 Consensus size: 17
60773524 TGTTTTCAAA
* *
60773534 AAAAAATTT-GTGTTTT
1 AAAAATTTTCGTGTTTC
60773550 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
**
60773567 AAAAAGAAAATTCGTGTTTCC
1 --AAA-AATTTTCGTGTTT-C
* *
60773588 TAAAAAATCTCGTGTTTC
1 -AAAAATTTTCGTGTTTC
60773606 -AAAATTTTCGT
1 AAAAATTTTCGT
60773617 TTTTTTAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
16 17 0.32
17 6 0.11
18 1 0.02
19 14 0.26
20 14 0.26
21 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:60773577 original size:37 final size:37
Alignment explanation
Indices: 60773413--60773609 Score: 118
Period size: 39 Copynumber: 5.0 Consensus size: 37
60773403 CCATGTTTTC
*
60773413 AAAAAATCTCGTCTTTC-AAAAATTTTCGTGTTTTC-AA
1 AAAAAAT-TCGTGTTTCTAAAAATTTTCGTG-TTTCAAA
*
60773450 AAAAAATTGACCGTGTTTC-ATAAATTTTCGTGTTTC-AA
1 AAAAAATT---CGTGTTTCTAAAAATTTTCGTGTTTCAAA
*** *
60773488 AAAATCCTCGTGTTTCGTATTTTATCAAAAATTTT-ATGTTTTCAAA
1 AAAAAATTCGTGTTTC--------T-AAAAATTTTCGTG-TTTCAAA
*
60773534 AAAAAATTTGTGTTT-TAAAAATTTTCGTGTTTCAAA
1 AAAAAATTCGTGTTTCTAAAAATTTTCGTGTTTCAAA
* *
60773570 AAGAAAATTCGTGTTTCCTAAAAAATCTCGTGTTTCAAA
1 AA-AAAATTCGTGTTT-CTAAAAATTTTCGTGTTTCAAA
60773609 A
1 A
60773610 TTTTCGTTTT
Statistics
Matches: 126, Mismatches: 15, Indels: 36
0.71 0.08 0.20
Matches are distributed among these distances:
35 8 0.06
36 19 0.15
37 22 0.17
38 11 0.09
39 39 0.31
44 2 0.02
45 12 0.10
46 13 0.10
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (37 bp):
AAAAAATTCGTGTTTCTAAAAATTTTCGTGTTTCAAA
Found at i:60773582 original size:20 final size:19
Alignment explanation
Indices: 60773527--60773609 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
60773517 AATTTTATGT
*
60773527 TTTCAAAAAAAAATTTGTG
1 TTTCAAAAAAAAATTCGTG
* **
60773546 TTT--TAAAAATTTTCGTG
1 TTTCAAAAAAAAATTCGTG
60773563 TTTCAAAAAGAAAATTCGTG
1 TTTCAAAAA-AAAATTCGTG
**
60773583 TTTC-CTAAAAAATCTCGTG
1 TTTCAAAAAAAAAT-TCGTG
60773602 TTTCAAAA
1 TTTCAAAA
60773610 TTTTCGTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
17 13 0.27
18 5 0.10
19 17 0.35
20 13 0.27
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (19 bp):
TTTCAAAAAAAAATTCGTG
Found at i:60773609 original size:17 final size:18
Alignment explanation
Indices: 60773534--60773605 Score: 58
Period size: 20 Copynumber: 3.9 Consensus size: 18
60773524 TGTTTTCAAA
*
60773534 AAAAAATTTGTGTTT--T
1 AAAAAATTCGTGTTTCCT
* **
60773550 AAAAATTTTCGTGTTTCAAA
1 AAAAA-ATTCGTGTTTC-CT
60773570 AAGAAAATTCGTGTTTCCT
1 AA-AAAATTCGTGTTTCCT
60773589 AAAAAATCTCGTGTTTC
1 AAAAAAT-TCGTGTTTC
60773606 AAAATTTTCG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.11
17 8 0.18
18 5 0.11
19 11 0.25
20 12 0.27
21 3 0.07
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (18 bp):
AAAAAATTCGTGTTTCCT
Found at i:60773627 original size:56 final size:55
Alignment explanation
Indices: 60773534--60773685 Score: 134
Period size: 56 Copynumber: 2.7 Consensus size: 55
60773524 TGTTTTCAAA
*
60773534 AAAAAATTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAGAA-A-ATTCGTGTTTCCT
1 AAAAAATTCGTGTTTTAAAAATTTTCGTGTTTCAAAAA-AAGAGATTCGTGTTT-CT
* * * *
60773589 AAAAAATCTCGTG-TTTCAAAATTTTCGTTTTTTTAAAAAAAGAGTTTCGTGTTTCT
1 AAAAAAT-TCGTGTTTTAAAAATTTTCG-TGTTTCAAAAAAAGAGATTCGTGTTTCT
** *
60773645 AAAATGCTT-GTATTTTAAAAAATTTT-GTGTTTTCAAAAAAA
1 AAAA-AATTCGTGTTTT-AAAAATTTTCGTG-TTTCAAAAAAA
60773686 AAGGAAAAGT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
55 25 0.32
56 35 0.45
57 18 0.23
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.43
Consensus pattern (55 bp):
AAAAAATTCGTGTTTTAAAAATTTTCGTGTTTCAAAAAAAGAGATTCGTGTTTCT
Found at i:60774252 original size:9 final size:9
Alignment explanation
Indices: 60774236--60774265 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
60774226 TTATTGAAAA
60774236 TATAATTTT
1 TATAATTTT
*
60774245 TTTAATTTT
1 TATAATTTT
60774254 TATAATTTT
1 TATAATTTT
60774263 TAT
1 TAT
60774266 GTACTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TATAATTTT
Found at i:60774252 original size:27 final size:28
Alignment explanation
Indices: 60774204--60774256 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
60774194 TTGGAATTTA
60774204 AAAATTAATTTTTTTTGAATTTTTATTG
1 AAAATTAATTTTTTTTGAATTTTTATTG
60774232 AAAATATAA-TTTTTTT-AATTTTTAT
1 AAAAT-TAATTTTTTTTGAATTTTTAT
60774257 AATTTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 9 0.38
28 12 0.50
29 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (28 bp):
AAAATTAATTTTTTTTGAATTTTTATTG
Found at i:60779998 original size:37 final size:37
Alignment explanation
Indices: 60779948--60780022 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
60779938 CCAAGTTGAA
60779948 TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
1 TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
60779985 TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
1 TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
60780022 T
1 T
60780023 GTTAAGTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (37 bp):
TACTTATTCCAAATTGTTTAGCAAAAGGATTCTTTTT
Found at i:60781194 original size:15 final size:17
Alignment explanation
Indices: 60781164--60781195 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
60781154 ATGTCGCCAA
60781164 TTTTGTACTATGTTTGT
1 TTTTGTACTATGTTTGT
60781181 TTTTG-ACT-TGTTTGT
1 TTTTGTACTATGTTTGT
60781196 GATCCTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (17 bp):
TTTTGTACTATGTTTGT
Found at i:60786457 original size:183 final size:183
Alignment explanation
Indices: 60786145--60786516 Score: 554
Period size: 183 Copynumber: 2.0 Consensus size: 183
60786135 CTGTCATACC
* * **
60786145 CTCAGTTGTAGCTGGTTTCAGAGTCAATTCTACACTCGGACTCAGTCTAGGCCCTTTTGTCTTGT
1 CTCAGTTGTAGCTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCCTTTCATCTTGT
* *
60786210 GTCTTGCTATATCTTGGGAAGTGCTGTGGTTGGTTGGTATGTGCTCCTTGGTGATGCTGGGGGTT
66 ATCTTGCTATATCTTGGGAAGTGCTGTGGTTGGTTGGTATGTGCTCCTTGGTGATGCCGGGGGTT
*
60786275 GTAGTTGCAGTGATTCGACCTAGTTCATGG-TTCAGGACATCTGCCAAATGATA
131 GTAGTTGCAGTGATTCGACCTAGTTCATGGCTT-AAGACATCTGCCAAATGATA
*
60786328 CTCAGTTGTAGTTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGG-CCTCTTCATCTTG
1 CTCAGTTGTAGCTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCCT-TTCATCTTG
60786392 TATCTTGCTATATCTTGGGAAGTGCTGTTGG-TGGTTGGTATGTGCTCCTT-GTCGATGCCGGGG
65 TATCTTGCTATATCTTGGGAAGTGCTG-TGGTTGGTTGGTATGTGCTCCTTGGT-GATGCCGGGG
* * * * * *
60786455 GTTGTAGTTGCAGTGGTTTGGCCTAGTTCATGGCTTAAGACCTCTGCCGAATGATC
128 GTTGTAGTTGCAGTGATTCGACCTAGTTCATGGCTTAAGACATCTGCCAAATGATA
60786511 CTCAGT
1 CTCAGT
60786517 CTCAGAAGGC
Statistics
Matches: 171, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
182 5 0.03
183 161 0.94
184 5 0.03
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (183 bp):
CTCAGTTGTAGCTGGTTTCAGAGTCAATTCTAAACTCGAACTCAGTCTAGGCCCTTTCATCTTGT
ATCTTGCTATATCTTGGGAAGTGCTGTGGTTGGTTGGTATGTGCTCCTTGGTGATGCCGGGGGTT
GTAGTTGCAGTGATTCGACCTAGTTCATGGCTTAAGACATCTGCCAAATGATA
Found at i:60794852 original size:147 final size:147
Alignment explanation
Indices: 60794585--60794888 Score: 601
Period size: 147 Copynumber: 2.1 Consensus size: 147
60794575 TTAAAAAACT
60794585 TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAAT
1 TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAAT
60794650 GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
66 GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
60794715 TTTTAGATGATAATAAA
131 TTTTAGATGATAATAAA
60794732 TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAAT
1 TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAAT
60794797 GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
66 GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
60794862 TTTTAGATGATAATAAA
131 TTTTAGATGATAATAAA
60794879 TTAT-TTTGAA
1 TTATGTTTGAA
60794889 ATAATTCTAA
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
146 6 0.04
147 151 0.96
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.39
Consensus pattern (147 bp):
TTATGTTTGAATTTATTTAAAATCAAGTAAAACAAAATTGATATTGCGAATTTCCTTCTTAAAAT
GATTAAGAGTGATAATCCGATTTATTAAGATGGTTTTCCCAAAATAATCATGTATTGCTAAATGC
TTTTAGATGATAATAAA
Found at i:60798868 original size:22 final size:22
Alignment explanation
Indices: 60798840--60798896 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
60798830 CGTCCAAGTT
60798840 TGGTGTCGTGACACCACATGGC
1 TGGTGTCGTGACACCACATGGC
** *
60798862 TGGTGTCGCAACATCACATGGC
1 TGGTGTCGTGACACCACATGGC
* *
60798884 TGGTATCATGACA
1 TGGTGTCGTGACA
60798897 TTGATGGTAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (22 bp):
TGGTGTCGTGACACCACATGGC
Found at i:60801366 original size:22 final size:22
Alignment explanation
Indices: 60801338--60801382 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
60801328 CGTCCAAGTT
60801338 TGGTGTCGCGACACCACATGGC
1 TGGTGTCGCGACACCACATGGC
**
60801360 TGGTGTCGCGACATTACATGGC
1 TGGTGTCGCGACACCACATGGC
60801382 T
1 T
60801383 AGTATCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (22 bp):
TGGTGTCGCGACACCACATGGC
Found at i:60803893 original size:22 final size:22
Alignment explanation
Indices: 60803839--60803894 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
60803829 TCCAAGTTTT
*
60803839 GTGTCGTGACACCACATGGCTG
1 GTGTCGTGACATCACATGGCTG
*
60803861 GTGTCGCGACATCACATGGCTG
1 GTGTCGTGACATCACATGGCTG
*
60803883 GTGTCATGACAT
1 GTGTCGTGACAT
60803895 TGATGGTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (22 bp):
GTGTCGTGACATCACATGGCTG
Found at i:60804957 original size:22 final size:22
Alignment explanation
Indices: 60804900--60804957 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
60804890 CGTCCAAGTT
*
60804900 TGGTGTCGTGACAACACATGGC
1 TGGTGTCGTGACATCACATGGC
*
60804922 TGGTGTCGCGACATCACATGGC
1 TGGTGTCGTGACATCACATGGC
*
60804944 TGGTGTCATGACAT
1 TGGTGTCGTGACAT
60804958 TGATGATAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (22 bp):
TGGTGTCGTGACATCACATGGC
Found at i:60807431 original size:22 final size:22
Alignment explanation
Indices: 60807403--60807452 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
60807393 GTCCAGGTTG
* *
60807403 GGTGTCGCGACATCATATGGCT
1 GGTGTCGCAACATCACATGGCT
*
60807425 GGTGTCGTAACATCACATGGCT
1 GGTGTCGCAACATCACATGGCT
60807447 GGTGTC
1 GGTGTC
60807453 ATCACATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (22 bp):
GGTGTCGCAACATCACATGGCT
Found at i:60807459 original size:22 final size:22
Alignment explanation
Indices: 60807412--60807459 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
60807402 GGGTGTCGCG
* *
60807412 ACATCATATGGCTGGTGTCGTA
1 ACATCACATGGCTGGTGTCATA
*
60807434 ACATCACATGGCTGGTGTCATC
1 ACATCACATGGCTGGTGTCATA
60807456 ACAT
1 ACAT
60807460 TGATGTCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (22 bp):
ACATCACATGGCTGGTGTCATA
Found at i:60809966 original size:7 final size:7
Alignment explanation
Indices: 60809956--60809981 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
60809946 TAAAAATTAA
60809956 AATATTC
1 AATATTC
60809963 AATATTC
1 AATATTC
60809970 AATATTC
1 AATATTC
60809977 AATAT
1 AATAT
60809982 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:60814019 original size:22 final size:22
Alignment explanation
Indices: 60813962--60814019 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
60813952 TGTCCAGGTT
* *
60813962 TGGTGTCGTGACACCATATGGC
1 TGGTGTCGTGACATCACATGGC
*
60813984 TGGTGTCGCGACATCACATGGC
1 TGGTGTCGTGACATCACATGGC
*
60814006 TGGTGTCATGACAT
1 TGGTGTCGTGACAT
60814020 TGATGGCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (22 bp):
TGGTGTCGTGACATCACATGGC
Found at i:60815664 original size:22 final size:22
Alignment explanation
Indices: 60815607--60815664 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
60815597 TGTCCAGGTT
* *
60815607 TGGTGTCGTGACACCATATGGC
1 TGGTGTCGTGACATCACATGGC
*
60815629 TGGTGTCGCGACATCACATGGC
1 TGGTGTCGTGACATCACATGGC
*
60815651 TGGTGTCATGACAT
1 TGGTGTCGTGACAT
60815665 TGATGGCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (22 bp):
TGGTGTCGTGACATCACATGGC
Found at i:60819831 original size:22 final size:23
Alignment explanation
Indices: 60819805--60819851 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
60819795 TTGTTTCCTT
*
60819805 TTGCTTCTCGATTCTTGTT-CTG
1 TTGCTTCTCAATTCTTGTTGCTG
* *
60819827 TTGCTTGTCAATTTTTGTTGCTG
1 TTGCTTCTCAATTCTTGTTGCTG
60819850 TT
1 TT
60819852 TTTAGAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.06, C:0.17, G:0.19, T:0.57
Consensus pattern (23 bp):
TTGCTTCTCAATTCTTGTTGCTG
Found at i:60822843 original size:26 final size:27
Alignment explanation
Indices: 60822793--60822853 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 27
60822783 AAAAATAACT
60822793 AAAATATTATAACTTTTTTTTATTTACC
1 AAAATATTATAAC-TTTTTTTATTTACC
*
60822821 AAAATATTATAA-TTTTTTTATTTATC
1 AAAATATTATAACTTTTTTTATTTACC
60822847 AAAATAT
1 AAAATAT
60822854 ACAAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 20 0.62
28 12 0.38
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (27 bp):
AAAATATTATAACTTTTTTTATTTACC
Found at i:60822922 original size:27 final size:27
Alignment explanation
Indices: 60822892--60822950 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
60822882 GCCTGATCAG
60822892 GCCAAT-TACATTGGCAGCACCAAAGGT
1 GCCAATGT-CATTGGCAGCACCAAAGGT
* ** *
60822919 GCCAATGTGATTGGTGGCACCAATGGT
1 GCCAATGTCATTGGCAGCACCAAAGGT
60822946 GCCAA
1 GCCAA
60822951 AGGACTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (27 bp):
GCCAATGTCATTGGCAGCACCAAAGGT
Found at i:60823279 original size:19 final size:19
Alignment explanation
Indices: 60823255--60823318 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
60823245 ATTAAAATAG
60823255 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
60823274 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
60823292 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
60823311 TTTAATTT
1 TTTAATTT
60823319 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:60823586 original size:18 final size:19
Alignment explanation
Indices: 60823547--60823605 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
60823537 ATTTTATATT
60823547 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
60823566 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
60823584 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
60823603 TTA
1 TTA
60823606 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:60824220 original size:27 final size:27
Alignment explanation
Indices: 60824181--60824239 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
60824171 TTTTAGTCCT
60824181 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
*
60824208 TTGGCACCTTTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
60824235 TTGGC
1 TTGGC
60824240 CTGATCAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCACA
Found at i:60824324 original size:27 final size:27
Alignment explanation
Indices: 60824293--60824356 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
60824283 TATTTTTGGT
*
60824293 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
60824320 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
60824347 ATATTTTGGT
1 ATATTTTGGT
60824357 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:60825943 original size:21 final size:21
Alignment explanation
Indices: 60825919--60825958 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60825909 GCATATAAAT
60825919 TATAACTCATAATTATTTTTG
1 TATAACTCATAATTATTTTTG
* **
60825940 TATAATTTTTAATTATTTT
1 TATAACTCATAATTATTTT
60825959 CCAAATTCAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
TATAACTCATAATTATTTTTG
Found at i:60826510 original size:51 final size:49
Alignment explanation
Indices: 60826389--60826631 Score: 236
Period size: 51 Copynumber: 4.8 Consensus size: 49
60826379 TATTATCATT
* * *
60826389 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-TATC
* * *
60826439 CGGTTCACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTAATATC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AATATC
* *
60826490 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCAA-ATATC
* * * *** ** *
60826541 CGGTACGCATAGTAGCCTGCACATAGTACTACACATACGACC-TTTCATT
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAT-ATC
* * *
60826590 CTAGTACACGTAGTAACCTACACATAGTACTACACACGTGAC
1 CGA-TACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
60826632 TATCACTTTC
Statistics
Matches: 157, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 71 0.45
51 78 0.50
52 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAATATC
Found at i:60826530 original size:101 final size:100
Alignment explanation
Indices: 60826386--60826630 Score: 339
Period size: 101 Copynumber: 2.4 Consensus size: 100
60826376 AACTATTATC
* * * *
60826386 ATTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAACTTTCCGGTTCACGTA
1 ATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACATA
**
60826450 GTAGCCTGCACATAGTACTACACATGTGACCATTA
66 GTAGCCTGCACATAGTACTACACATACGACCATTA
* * *
60826485 ATATCCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
1 AT-T-CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACA
* *
60826550 TAGTAGCCTGCACATAGTACTACACATACGACCTTTC
64 TAGTAGCCTGCACATAGTACTACACATACGACCATTA
* *
60826587 ATTCTAGTACACGTAGTAACCTACACATAGTACTACACACGTGA
1 ATTCGA-TACACGTAGTAGCCTACACATAGTACTACACACGTGA
60826631 CTATCACTTT
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
99 2 0.02
100 3 0.02
101 77 0.60
102 47 0.36
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (100 bp):
ATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACATA
GTAGCCTGCACATAGTACTACACATACGACCATTA
Found at i:60830755 original size:25 final size:27
Alignment explanation
Indices: 60830698--60830756 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 27
60830688 TATTCAAACC
*
60830698 TTATTTCACTATCTCAATTCCATTAGA
1 TTATTTCACTATCTCAATTCCAATAGA
*
60830725 TT-TTTCAC-ATCTC-ATTCCAATAGT
1 TTATTTCACTATCTCAATTCCAATAGA
60830749 TTATTTCA
1 TTATTTCA
60830757 ATTCATATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 11 0.38
25 10 0.34
26 6 0.21
27 2 0.07
ACGTcount: A:0.27, C:0.22, G:0.03, T:0.47
Consensus pattern (27 bp):
TTATTTCACTATCTCAATTCCAATAGA
Found at i:60833218 original size:13 final size:13
Alignment explanation
Indices: 60833200--60833228 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
60833190 GTGGTTGGTG
60833200 GTAAGAAATTATA
1 GTAAGAAATTATA
60833213 GTAAGAAATTATA
1 GTAAGAAATTATA
60833226 GTA
1 GTA
60833229 GGCTTAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (13 bp):
GTAAGAAATTATA
Found at i:60839154 original size:67 final size:67
Alignment explanation
Indices: 60839042--60839234 Score: 307
Period size: 67 Copynumber: 2.9 Consensus size: 67
60839032 CAACCAATAG
60839042 AGTCCGCCAAGACATTAAACAT-GGGTTACATGTGTAAGACCATAGCTCAGCTATGACAACATGT
1 AGTCCGCCAAGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTCAGCTATGACAACATGT
60839106 GA
66 GA
* * * * *
60839108 AGTTCGCCAAGATATTAATCATGGGGTTACATGTGTAAGACCATAGCTCGGCTATGGCAACATGT
1 AGTCCGCCAAGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTCAGCTATGACAACATGT
*
60839173 GG
66 GA
* *
60839175 AGTCCGCCAGGACATTAAACATGGGGTTACATGGGTAAGACCATAGCTCAGCTATGACAA
1 AGTCCGCCAAGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTCAGCTATGACAA
60839235 TAGATAAATG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 19 0.17
67 94 0.83
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (67 bp):
AGTCCGCCAAGACATTAAACATGGGGTTACATGTGTAAGACCATAGCTCAGCTATGACAACATGT
GA
Found at i:60844711 original size:42 final size:42
Alignment explanation
Indices: 60844620--60844758 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 42
60844610 CGAAGGCTGC
* * * * *
60844620 ACAGAAG-TACATAAGTGCTAAACAAAAACCCGTAAGGGTTGA
1 ACAGAAGCT-CATAAGAGCTGAACGAAAACCCATAAGGGTTAA
* **
60844662 ACGGAAGCTCATTGGAGCTGAACGAAAACCCATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAA
* * * *
60844704 ACTGAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAA
*
60844746 ACAGAAACTCATA
1 ACAGAAGCTCATA
60844759 TGAGTTAACA
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 78 0.99
43 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTAA
Found at i:60844922 original size:23 final size:23
Alignment explanation
Indices: 60844892--60844940 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
60844882 AATGGTACTC
*
60844892 AATCCCGCGTTCCACTTTAACTG
1 AATCCCGCGTTCCACTTTAACCG
60844915 AATCCCGCGTTCCACTTTAACCG
1 AATCCCGCGTTCCACTTTAACCG
60844938 AAT
1 AAT
60844941 ATTCATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.35, G:0.12, T:0.29
Consensus pattern (23 bp):
AATCCCGCGTTCCACTTTAACCG
Found at i:60849512 original size:57 final size:57
Alignment explanation
Indices: 60849406--60849518 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
60849396 GGGTGATCCT
* *
60849406 ATCTTGATATAGCCCTCCCGAAGAATATGTGTGAAAAAGATCTAACCCGGATGGGTG
1 ATCTTGATATAGCCCTCCCGAAAAATATGTGTGAAAAAGATCTAACCCGGAAGGGTG
* * *
60849463 ATCTTGATATAGCCCTCCCGAAAAATATGTG-GAAAATGGATTTAGCCCGGAAGGGT
1 ATCTTGATATAGCCCTCCCGAAAAATATGTGTGAAAA-AGATCTAACCCGGAAGGGT
60849519 AATCCGAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
56 5 0.10
57 45 0.90
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (57 bp):
ATCTTGATATAGCCCTCCCGAAAAATATGTGTGAAAAAGATCTAACCCGGAAGGGTG
Found at i:60853367 original size:22 final size:21
Alignment explanation
Indices: 60853314--60853371 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
60853304 TCAAATATGT
60853314 GTGTATATATATATATAGAAA
1 GTGTATATATATATATAGAAA
* *
60853335 -TCATGAAATATATATATATGAAA
1 GT-GT-ATATATATATATA-GAAA
60853358 GTGTATATAT-TATA
1 GTGTATATATATATA
60853372 AGATGCAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
20 1 0.03
21 5 0.17
22 17 0.59
23 5 0.17
24 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (21 bp):
GTGTATATATATATATAGAAA
Found at i:60853828 original size:3 final size:3
Alignment explanation
Indices: 60853816--60853885 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
60853806 TGAAGAAACT
* * * *
60853816 TAA T-A TAA TAA TACA TAA TAA -AT TTA TAA TAC TGA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
60853860 TAA TAA TAA CAA TAA TAA TACA TAA T
1 TAA TAA TAA TAA TAA TAA TA-A TAA T
60853886 GAGCTTAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 3 0.06
3 44 0.83
4 6 0.11
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:60853834 original size:15 final size:16
Alignment explanation
Indices: 60853816--60853942 Score: 77
Period size: 15 Copynumber: 7.8 Consensus size: 16
60853806 TGAAGAAACT
60853816 TAAT-ATAATAATACA
1 TAATAATAATAATACA
*
60853831 TAATAAATTTATAATACTGA
1 TAAT-AA-TAATAATAC--A
60853851 TAATAATAATAATA-A
1 TAATAATAATAATACA
*
60853866 TAACAATAATAATACA
1 TAATAATAATAATACA
* *
60853882 TAATGAGCTTA-AATAC-
1 TAAT-A-ATAATAATACA
*
60853898 TAATATATAATAATAACT
1 TAATA-ATAATAAT-ACA
*
60853916 TAA-AATAATAGTACA
1 TAATAATAATAATACA
*
60853931 TATTAA-AATAAT
1 TAATAATAATAAT
60853943 GTATACATAT
Statistics
Matches: 87, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
15 30 0.34
16 20 0.23
17 10 0.11
18 20 0.23
19 2 0.02
20 5 0.06
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (16 bp):
TAATAATAATAATACA
Found at i:60853846 original size:18 final size:17
Alignment explanation
Indices: 60853820--60853962 Score: 68
Period size: 18 Copynumber: 8.5 Consensus size: 17
60853810 GAAACTTAAT
60853820 ATAATAATACATAATAA
1 ATAATAATACATAATAA
*
60853837 ATTTATAATACTGATAAT-A
1 A-TAATAATAC--ATAATAA
*
60853856 ATAATAATA-ATAA-CA
1 ATAATAATACATAATAA
*
60853871 ATAATAATACATAATGAG
1 ATAATAATACATAAT-AA
* * *
60853889 CTTA-AATAC-TAATAT
1 ATAATAATACATAATAA
*
60853904 ATAATAATA-ACTTA-AA
1 ATAATAATACA-TAATAA
* *
60853920 ATAATAGTACATATTAAA
1 ATAATAATACATAAT-AA
* *
60853938 ATAATGTATACAT-ATAT
1 ATAAT-AATACATAATAA
60853955 ATAATAAT
1 ATAATAAT
60853963 GAATAAGAAT
Statistics
Matches: 93, Mismatches: 19, Indels: 29
0.66 0.13 0.21
Matches are distributed among these distances:
15 17 0.18
16 24 0.26
17 15 0.16
18 25 0.27
19 7 0.08
20 5 0.05
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (17 bp):
ATAATAATACATAATAA
Found at i:60853880 original size:51 final size:48
Alignment explanation
Indices: 60853820--60853937 Score: 130
Period size: 51 Copynumber: 2.4 Consensus size: 48
60853810 GAAACTTAAT
* *
60853820 ATAATAATACATAATAAATTTATAATACTGATAATAATAATAATAA-TAACA
1 ATAATAATACATAATAAACTTA-AATACTAAT-AT-ATAATAATAACTAA-A
* *
60853871 ATAATAATACATAATGAGCTTAAATACTAATATATAATAATAACTTAAA
1 ATAATAATACATAATAAACTTAAATACTAATATATAATAATAAC-TAAA
* *
60853920 ATAATAGTACATATTAAA
1 ATAATAATACATAATAAA
60853938 ATAATGTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
48 10 0.18
49 17 0.30
50 11 0.19
51 19 0.33
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (48 bp):
ATAATAATACATAATAAACTTAAATACTAATATATAATAATAACTAAA
Found at i:60853962 original size:20 final size:19
Alignment explanation
Indices: 60853915--60853963 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
60853905 TAATAATAAC
60853915 TTAAAATAA--TAGTACATA
1 TTAAAATAATGTA-TACATA
60853933 TTAAAATAATGTATACATA
1 TTAAAATAATGTATACATA
*
60853952 TATATAATAATG
1 T-TAAAATAATG
60853964 AATAAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 9 0.33
19 7 0.26
20 11 0.41
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (19 bp):
TTAAAATAATGTATACATA
Found at i:60856007 original size:10 final size:10
Alignment explanation
Indices: 60855991--60856024 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60855981 TAAAAAATAC
60855991 ATAAATATTT
1 ATAAATATTT
* *
60856001 TTAAATATAT
1 ATAAATATTT
60856011 ATAAATATTT
1 ATAAATATTT
60856021 ATAA
1 ATAA
60856025 TTAGGATTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAATATTT
Found at i:60857010 original size:12 final size:12
Alignment explanation
Indices: 60856988--60857014 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60856978 TTTAAAAAAC
60856988 AATATAAAAATT
1 AATATAAAAATT
60857000 AATATAAAAATT
1 AATATAAAAATT
60857012 AAT
1 AAT
60857015 TCGGAAGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATATAAAAATT
Found at i:60869733 original size:41 final size:41
Alignment explanation
Indices: 60869672--60869753 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
60869662 TGTCTAGTTA
*
60869672 TTGGGATGAAAATAGATTTTTAATTAAATAAATTTCATTTG
1 TTGGGATGAAAATAGATTTTTAATTAAATAAATTTAATTTG
* *
60869713 TTGGGATGAACATAGGTTTTTAATTAAATAAATTTAATTTG
1 TTGGGATGAAAATAGATTTTTAATTAAATAAATTTAATTTG
60869754 GACTACCACG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (41 bp):
TTGGGATGAAAATAGATTTTTAATTAAATAAATTTAATTTG
Found at i:60872082 original size:21 final size:20
Alignment explanation
Indices: 60872044--60872082 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60872034 ATTTTTTTCG
*
60872044 AATTTAGTCAAGTGAAATGA
1 AATTTAGTCAAGTCAAATGA
*
60872064 AATTTAAGTCGAGTCAAAT
1 AATTT-AGTCAAGTCAAAT
60872083 CAAGTGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (20 bp):
AATTTAGTCAAGTCAAATGA
Found at i:60872362 original size:19 final size:19
Alignment explanation
Indices: 60872333--60872395 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
60872323 TTAGATTTTT
*
60872333 TTTTGAAATTTTTATAAATA
1 TTTT-AAATTTTTAAAAATA
60872353 TTTTAAA-TTTTAAAAATTA
1 TTTTAAATTTTTAAAAA-TA
* *
60872372 ATTTGAATTTTTGAAAAATA
1 TTTTAAATTTTT-AAAAATA
60872392 TTTT
1 TTTT
60872396 TTTTTGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 8 0.22
19 10 0.28
20 13 0.36
21 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAAATTTTTAAAAATA
Found at i:60874907 original size:20 final size:20
Alignment explanation
Indices: 60874879--60874937 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 20
60874869 CCCTCTTTAA
*
60874879 TATTATATTGATAAAAAAGT
1 TATTTTATTGATAAAAAAGT
*
60874899 TATTTTATTG-TAATAAAG-
1 TATTTTATTGATAAAAAAGT
* * *
60874917 AATTTT-TTTAAAAAAAAGT
1 TATTTTATTGATAAAAAAGT
60874936 TA
1 TA
60874938 ATGCTAATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
17 2 0.07
18 11 0.37
19 8 0.27
20 9 0.30
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
TATTTTATTGATAAAAAAGT
Found at i:60877081 original size:3 final size:3
Alignment explanation
Indices: 60877073--60877098 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60877063 TCTGAAGTCT
60877073 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
60877099 TTCAATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:60877477 original size:10 final size:9
Alignment explanation
Indices: 60877443--60877477 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
60877433 TTTTTAAAAA
60877443 TAAAAATAT
1 TAAAAATAT
60877452 TAAAAATAT
1 TAAAAATAT
60877461 TAAAAATAT
1 TAAAAATAT
60877470 ATAAAAAT
1 -TAAAAAT
60877478 TTTAGTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAATAT
Found at i:60888040 original size:13 final size:13
Alignment explanation
Indices: 60888002--60888042 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
60887992 AAATAAATAG
*
60888002 TTAATAAAATTAG
1 TTAATAAAATTAA
*
60888015 TTAATTAAATTAA
1 TTAATAAAATTAA
60888028 TTAATAAAATTAA
1 TTAATAAAATTAA
60888041 TT
1 TT
60888043 GGCCAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
TTAATAAAATTAA
Found at i:60888378 original size:17 final size:17
Alignment explanation
Indices: 60888343--60888389 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
60888333 GTGATGTGTG
*
60888343 ATAAATTTT-CTTTTAA
1 ATAAATTTTATTTTTAA
*
60888359 AT-AATCTTTATTTTTCA
1 ATAAAT-TTTATTTTTAA
60888376 ATAAATTTTATTTT
1 ATAAATTTTATTTT
60888390 AATTTAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 5 0.19
17 15 0.58
18 3 0.12
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAAATTTTATTTTTAA
Found at i:60892756 original size:29 final size:28
Alignment explanation
Indices: 60892720--60892797 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
60892710 TCATGAGATT
60892720 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
60892750 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
60892777 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
60892798 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:60893015 original size:174 final size:174
Alignment explanation
Indices: 60892750--60893111 Score: 706
Period size: 174 Copynumber: 2.1 Consensus size: 174
60892740 AAATTGTACA
60892750 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
60892815 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
60892880 TTTTGGACAACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
60892924 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
60892989 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
*
60893054 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
60893098 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
60893112 CGGTTGATTA
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 185 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
TTTTGGACAACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:60893195 original size:145 final size:145
Alignment explanation
Indices: 60892949--60893222 Score: 503
Period size: 145 Copynumber: 1.9 Consensus size: 145
60892939 GTTTAAAGTA
*
60892949 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* * *
60893014 ATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
60893079 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
60893094 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
60893159 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
60893223 ACCTTGAGTT
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 124 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:60901034 original size:29 final size:28
Alignment explanation
Indices: 60900998--60901074 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 28
60900988 TCATGAGATT
60900998 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
60901028 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
60901055 TGGCACTAAGTGTGCGGGTT
1 -GGCACTAAGTGTGCGGGTT
60901075 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
29 38 0.88
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:60901295 original size:174 final size:170
Alignment explanation
Indices: 60901028--60901385 Score: 662
Period size: 174 Copynumber: 2.1 Consensus size: 170
60901018 AAATTGTACA
60901028 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGGGTTGATTATTAAGCACTATGT
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGGGTTGATTATTAAGCACTATGT
60901093 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
66 GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGAC-TTA-CGAGTCGAT
60901158 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
129 TTTGGACA-CGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
60901201 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCG-GGTTGATTATTAAGCACTATG
60901266 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTACGAGTCGATT
65 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTACGAGTCGATT
60901331 TTGGACACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 TTGGACACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
60901372 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
60901386 CGGTTGATTA
Statistics
Matches: 181, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
171 47 0.26
172 17 0.09
173 44 0.24
174 73 0.40
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (170 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGGGTTGATTATTAAGCACTATGT
GTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTACGAGTCGATTT
TGGACACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:60901461 original size:142 final size:145
Alignment explanation
Indices: 60901224--60901496 Score: 507
Period size: 142 Copynumber: 1.9 Consensus size: 145
60901214 GAGTTTAAAG
60901224 TGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTT
1 TGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTT
* *
60901289 CTATAAATTATTTACATTAAGGGTGCGAC-TTA-CGAGTCGATTTTGGACA-CGGAAAAGGTAAG
66 CTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAG
60901351 TGTGCGAACTTGAAA
131 TGTGCGAACTTGAAA
60901366 TGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTT
1 TGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTT
60901431 CTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAG
66 CTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAG
60901496 T
131 T
60901497 ACCTTGAGTT
Statistics
Matches: 126, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
142 93 0.74
143 3 0.02
144 16 0.13
145 14 0.11
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
TGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTT
CTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAG
TGTGCGAACTTGAAA
Found at i:60922011 original size:46 final size:45
Alignment explanation
Indices: 60921944--60922633 Score: 639
Period size: 46 Copynumber: 16.6 Consensus size: 45
60921934 TTTGAGTACT
* *
60921944 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
60921990 TCTGATCAAGTGAAAAAGTGATAA-----A---T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
60922026 TCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGT-GAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
60922072 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
60922108 TCTGATCAAGAGACAAAGTGATAAGTGGTTGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
60922154 TCTGATCGAGTGAAAAAGTGATAAGT-G-A---TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
60922190 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
60922226 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
60922272 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
60922308 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
60922344 TCTAATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
60922390 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
60922436 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
60922472 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
60922518 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
60922564 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
60922609 TCTAATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
60922634 ATCATACGTA
Statistics
Matches: 550, Mismatches: 32, Indels: 127
0.78 0.05 0.18
Matches are distributed among these distances:
32 1 0.00
33 2 0.00
34 3 0.01
35 3 0.01
36 191 0.35
37 5 0.01
38 3 0.01
39 1 0.00
40 9 0.02
41 3 0.01
42 11 0.02
43 17 0.03
44 3 0.01
45 25 0.05
46 272 0.49
47 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:60922021 original size:36 final size:36
Alignment explanation
Indices: 60921980--60922498 Score: 419
Period size: 36 Copynumber: 13.0 Consensus size: 36
60921970 GGTAGCTTTA
*
60921980 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAAT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
60922016 GCTACACTTATCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGT-GAAAAAGTGAT-A-----AG---T
60922061 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
60922098 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTTGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA------G---T
*
60922143 AGCTACACTTATCTGATCGAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
60922180 GATATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
60922216 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
60922261 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
60922298 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
60922334 GCTACACTTATCTAATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
* *
60922379 AGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
60922425 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
60922462 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
60922498 G
1 G
60922499 TTAGCCTTAG
Statistics
Matches: 414, Mismatches: 27, Indels: 84
0.79 0.05 0.16
Matches are distributed among these distances:
35 1 0.00
36 220 0.53
37 7 0.02
40 7 0.02
42 6 0.01
45 7 0.02
46 165 0.40
47 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:60922081 original size:82 final size:82
Alignment explanation
Indices: 60921944--60922587 Score: 585
Period size: 82 Copynumber: 7.9 Consensus size: 82
60921934 TTTGAGTACT
* *
60921944 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
60922009 GATAAATGCTACACTTA
66 GATAAATGCTACACTTA
*
60922026 TCTGATCAA-TAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAG
1 TCTGATCAAGT-GAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAG
*
60922090 TGATAAGTGCTACACTTA
65 TGATAAATGCTACACTTA
* * * *
60922108 TCTGATCAAGAGACAAAGTGATAAGTGGTTGCTTTAGCTACACTTATCTGATCGAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* * *
60922173 GATAAGTGATATACTTA
66 GATAAATGCTACACTTA
* *
60922190 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
60922245 GATAAGTGGTAGCTTTAGCTACACTTA
66 GATAA-----A----T-GCTACACTTA
60922272 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
60922327 GATAAGTGCTACACTTA
66 GATAAATGCTACACTTA
* * * * *
60922344 TCTAATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
60922409 GATAAGTGGTAGCTTTAGCTACACTTA
66 GATAA-----A----T-GCTACACTTA
*
60922436 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
60922491 GATAAGTGTTAGCCTTAGCTACACTTA
66 GATAA-----A----T-GCTACACTTA
* * *
60922518 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
60922583 GATAA
66 GATAA
60922588 GTGGTAGCCT
Statistics
Matches: 482, Mismatches: 33, Indels: 84
0.80 0.06 0.14
Matches are distributed among these distances:
72 62 0.13
73 2 0.00
75 2 0.00
76 3 0.01
78 2 0.00
80 1 0.00
81 2 0.00
82 329 0.68
83 1 0.00
84 3 0.01
85 3 0.01
86 4 0.01
88 4 0.01
89 2 0.00
90 1 0.00
91 1 0.00
92 60 0.12
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAATGCTACACTTA
Found at i:60922189 original size:118 final size:118
Alignment explanation
Indices: 60922067--60922544 Score: 767
Period size: 118 Copynumber: 4.0 Consensus size: 118
60922057 CTTTAGCTAC
60922067 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
* *
60922132 GTGGTTGCTTTAGCTACACTTATCTGATCGAGTGAAAAAGTGATAAGTGATAT
66 GTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
60922185 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
*
60922250 GTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTAT
66 GTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
*
60922303 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTAATCAAGAGACAAAGTGATAA
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
* *
60922368 GTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCT
66 GTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT-G-A----TA--T
* *
60922429 ACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGAT
1 --ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGAT
* * *
60922494 AAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTG
64 AAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
60922545 GTAGCCTTAG
Statistics
Matches: 336, Mismatches: 14, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
118 225 0.67
119 1 0.00
124 2 0.01
126 1 0.00
127 1 0.00
128 106 0.32
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (118 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAA
GTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGATAT
Found at i:60922572 original size:92 final size:89
Alignment explanation
Indices: 60922334--60922633 Score: 361
Period size: 82 Copynumber: 3.4 Consensus size: 89
60922324 AGTGATAAGT
* *
60922334 GCTACACTTATCTAATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTAATC-AGGGAC-AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
* *
60922399 GAGACAAAGTGATAAGTGGTAGCTTTA
64 GTGACAAAGTGATAAGTGGTAGC-CTA
* * *
60922426 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G-C-TA--T--ACTTATCTGATCAA
1 GCTACACTTATCTAATC-AG-GGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
*
60922481 GTGACAAAGTGATAAGTGTTAGCCTTA
64 GTGACAAAGTGATAAGTGGTAGCC-TA
*
60922508 GCTACACTTATCTGATCAAGTGAGA-AAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
1 GCTACACTTATCTAATC-AG-G-GACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCA
60922572 AGTGACAAAGTGATAAGTGGTAGCCTA
63 AGTGACAAAGTGATAAGTGGTAGCCTA
60922599 GCTACACTTATCTAATCAGGGACAAGTGATAAGTG
1 GCTACACTTATCTAATCAGGGACAAGTGATAAGTG
60922634 ATCATACGTA
Statistics
Matches: 183, Mismatches: 11, Indels: 31
0.81 0.05 0.14
Matches are distributed among these distances:
82 68 0.37
83 1 0.01
84 1 0.01
85 2 0.01
86 3 0.02
87 1 0.01
88 5 0.03
89 15 0.08
90 3 0.02
91 18 0.10
92 65 0.36
93 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (89 bp):
GCTACACTTATCTAATCAGGGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGT
GACAAAGTGATAAGTGGTAGCCTA
Found at i:60922626 original size:128 final size:128
Alignment explanation
Indices: 60922016--60922590 Score: 623
Period size: 118 Copynumber: 4.6 Consensus size: 128
60922006 AGTGATAAAT
* *
60922016 GCTACACTTATCTGATCAATAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
* * * ** * * * *
60922081 GTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTTGCTTTA
66 GTGAAAAAGTGATAAGTGCTATACCTAGCTGATCAACTGACAAAGGGACAAGTGGTAGCCTTA
* * *
60922144 GCTACACTTATCTGATCGAGTGAAAAAGTGATAAGT-G-A----TA--T--ACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
* * * ** * * *
60922199 GTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
66 GTGAAAAAGTGATAAGTGCTATACCTAGCTGATCAACTGACAAAGGGACAAGTGGTAGCCTTA
* *
60922262 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G-C-TA--T--ACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
* * * * ** * * *
60922317 GTGAAAAAGTGATAAGTGCTACACTTATCTAATCAAGAGACAAAGTGATAAGTGGTAGCTTTA
66 GTGAAAAAGTGATAAGTGCTATACCTAGCTGATCAACTGACAAAGGGACAAGTGGTAGCCTTA
*
60922380 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
* * * * * *
60922445 GTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTA
66 GTGAAAAAGTGATAAGTGCTATACCTAGCTGATCAACTGACAAAGGGACAAGTGGTAGCCTTA
* *
60922508 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
*
60922573 GTGACAAAGTGATAAGTG
66 GTGAAAAAGTGATAAGTG
60922591 GTAGCCTAGC
Statistics
Matches: 415, Mismatches: 19, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
116 1 0.00
118 220 0.53
120 1 0.00
121 2 0.00
122 3 0.01
124 2 0.00
126 2 0.00
127 1 0.00
128 183 0.44
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (128 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
GTGAAAAAGTGATAAGTGCTATACCTAGCTGATCAACTGACAAAGGGACAAGTGGTAGCCTTA
Found at i:60923418 original size:12 final size:12
Alignment explanation
Indices: 60923401--60923431 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60923391 GGATTTTATT
*
60923401 TTTTTCTTTTCG
1 TTTTTCTTTTCA
60923413 TTTTTCTTTTCA
1 TTTTTCTTTTCA
60923425 TTTTTCT
1 TTTTTCT
60923432 GTAAAAGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTCA
Found at i:60926081 original size:48 final size:47
Alignment explanation
Indices: 60926022--60926174 Score: 180
Period size: 48 Copynumber: 3.2 Consensus size: 47
60926012 AACAACATTC
*
60926022 GGACAGTATTAATTTGTACAAAAATGGACAGCATTTAAGCACCAATTT
1 GGACAGCATTAATTTGT-CAAAAATGGACAGCATTTAAGCACCAATTT
* ** * * * *
60926070 AGACAGCATTAATATACTCAAAAATAGACAGCAATTAATCATCAATTT
1 GGACAGCATTAAT-TTGTCAAAAATGGACAGCATTTAAGCACCAATTT
* * *
60926118 GGACAGCATTAATATGCTCAAAAATGGATAGCATTTAAGCACTAATTT
1 GGACAGCATTAATTTG-TCAAAAATGGACAGCATTTAAGCACCAATTT
60926166 GGACAGCAT
1 GGACAGCAT
60926175 CTTATCATCA
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
48 83 0.98
49 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (47 bp):
GGACAGCATTAATTTGTCAAAAATGGACAGCATTTAAGCACCAATTT
Found at i:60926102 original size:25 final size:25
Alignment explanation
Indices: 60926069--60926152 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
60926059 AGCACCAATT
60926069 TAGACAGCATTAATATACTCAAAAA
1 TAGACAGCATTAATATACTCAAAAA
* **
60926094 TAGACAGCAATTAAT-CA-TC-AATT
1 TAGACAGC-ATTAATATACTCAAAAA
* *
60926117 TGGACAGCATTAATATGCTCAAAAA
1 TAGACAGCATTAATATACTCAAAAA
* *
60926142 TGGATAGCATT
1 TAGACAGCATT
60926153 TAAGCACTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
22 6 0.13
23 9 0.20
24 4 0.09
25 21 0.46
26 6 0.13
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (25 bp):
TAGACAGCATTAATATACTCAAAAA
Found at i:60934724 original size:22 final size:23
Alignment explanation
Indices: 60934685--60934732 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
60934675 GTTTGACTTC
60934685 TTTTATATTTAAAGTTTA-CCTT
1 TTTTATATTTAAAGTTTATCCTT
*
60934707 TTTTATATTTGGAA-TTTATCCTT
1 TTTTATATTT-AAAGTTTATCCTT
60934730 TTT
1 TTT
60934733 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTTATATTTAAAGTTTATCCTT
Found at i:60941643 original size:21 final size:22
Alignment explanation
Indices: 60941614--60941656 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
60941604 TGATTTCTGA
*
60941614 TATATATAATAATGAAA-ATTT
1 TATAAATAATAATGAAATATTT
60941635 TATAAATAATAATGAAATATTT
1 TATAAATAATAATGAAATATTT
60941657 CTGTGTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
TATAAATAATAATGAAATATTT
Found at i:60946265 original size:9 final size:10
Alignment explanation
Indices: 60946238--60946266 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
60946228 AATCATATCA
60946238 TTTAGAAAAT
1 TTTAGAAAAT
60946248 TTTAGAAAAT
1 TTTAGAAAAT
60946258 TTTA-AAAAT
1 TTTAGAAAAT
60946267 AATTTAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTTAGAAAAT
Found at i:60957465 original size:105 final size:104
Alignment explanation
Indices: 60957202--60957466 Score: 318
Period size: 105 Copynumber: 2.5 Consensus size: 104
60957192 ATTTCGAGTA
* * * * * * *
60957202 TTGGTCTATCAATGGCCGGCACCAGAATACAAAAAAAG-TAAGAAATTTTTTTTGTGGTGGCCTG
1 TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAGTTAA-AAAATTTTTTGGTGGTGACCTA
* *
60957266 CCAATGGCCGGCACCACCTTTATGAATTTTTTTTTACTTT
65 CCAATGGCCGGCAACACCTTTATCAATTTTTTTTTACTTT
** * * * ***
60957306 TTTTTCGTGTCAATGGCAGGCACTAATATACGAAAAAAGTTAAAAAAAAATTTGGTGGTGACCTA
1 TTGGTC-TGTCAATGGCCGGCACCAGTATACGAAAAAAGTTAAAAAATTTTTTGGTGGTGACCTA
*
60957371 CCAATGGCCGGCAACACCTTTTTCCAATTTTTTTTTAC-TT
65 CCAATGGCCGGCAACACCTTTAT-CAATTTTTTTTTACTTT
60957411 TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAGTTTAAAAAATTTTTTGGT
1 TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAG-TTAAAAAATTTTTTGGT
60957467 AACAACCTCC
Statistics
Matches: 131, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
104 33 0.25
105 82 0.63
106 16 0.12
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (104 bp):
TTGGTCTGTCAATGGCCGGCACCAGTATACGAAAAAAGTTAAAAAATTTTTTGGTGGTGACCTAC
CAATGGCCGGCAACACCTTTATCAATTTTTTTTTACTTT
Found at i:60957815 original size:29 final size:30
Alignment explanation
Indices: 60957773--60957838 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
60957763 ATCGCGACAA
* * *
60957773 TTTTAATTTTTTCTATTAAT-TTTTTATT-T
1 TTTTAAATTATTCTATAAATATTTTT-TTAT
*
60957802 TTTTAAATTATTCTGTAAATATTTTTTTAT
1 TTTTAAATTATTCTATAAATATTTTTTTAT
60957832 TTTTAAA
1 TTTTAAA
60957839 GTTTACTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (30 bp):
TTTTAAATTATTCTATAAATATTTTTTTAT
Found at i:60959054 original size:104 final size:104
Alignment explanation
Indices: 60958873--60959205 Score: 395
Period size: 104 Copynumber: 3.2 Consensus size: 104
60958863 AATTTATTGT
* * * * *
60958873 AAAGGTGGTGCCAGCCATTGGTAAGCCACCACCAAAAAAATTTTTTTTATTTTTTTCGTATACTG
1 AAAGGTGGTGCCGGCCATTGGCAGGCCACCACC-AAAAATTTTTTTTTACTTTTTTCGTATACTG
* * *
60958938 GTGCCAACCATTGACAGACCAAAAGTAAAAAAAAATTGGAA
65 GTGCCGACCATTGACA-AACAAAAGTAAAAAAAAATTGAAA
* *
60958979 AAAGGTAGTGCCGGCCATTGGCAGGCCACCACC-AAATTTTTTTTTTACTTTTTTCGTATACTGG
1 AAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAATTTTTTTTTACTTTTTTCGTATACTGG
* *
60959043 TGCCGACCATTGACAAATCAAAGGTAAAAAAAATTTGAAA
66 TGCCGACCATTGACAAA-CAAAAGTAAAAAAAAATTGAAA
* * ** *
60959083 AAAGGTGGTGCCGACCATTGGCAGGGCACCACCAAAAATTTTTTTAAACTTTTTTTGTATACTGG
1 AAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAATTTTTTTTTACTTTTTTCGTATACTGG
* ** *
60959148 TGTCTG-CCATTGACACAA-AAAAGT-AAAAAAAATTCCCAT
66 TG-CCGACCATTGACA-AACAAAAGTAAAAAAAAATT-GAAA
60959187 AAAGGTGGTGCCGGCCATT
1 AAAGGTGGTGCCGGCCATT
60959206 AGGGGTGTGC
Statistics
Matches: 196, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
103 10 0.05
104 115 0.59
105 38 0.19
106 33 0.17
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (104 bp):
AAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAATTTTTTTTTACTTTTTTCGTATACTGG
TGCCGACCATTGACAAACAAAAGTAAAAAAAAATTGAAA
Found at i:60959472 original size:13 final size:13
Alignment explanation
Indices: 60959454--60959480 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60959444 CCTCCAGGCT
60959454 CTAAGCCCAAGAA
1 CTAAGCCCAAGAA
60959467 CTAAGCCCAAGAA
1 CTAAGCCCAAGAA
60959480 C
1 C
60959481 AATTCATGTT
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:0.44, C:0.33, G:0.15, T:0.07
Consensus pattern (13 bp):
CTAAGCCCAAGAA
Found at i:60959495 original size:7 final size:7
Alignment explanation
Indices: 60959483--60959541 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
60959473 CCAAGAACAA
60959483 TTCATGT
1 TTCATGT
60959490 TTCATGT
1 TTCATGT
60959497 TTCATGT
1 TTCATGT
*
60959504 TTCACGAT
1 TTCATG-T
60959512 TTCATGT
1 TTCATGT
**
60959519 TTCATAC
1 TTCATGT
*
60959526 TGCATGT
1 TTCATGT
60959533 TTCATGT
1 TTCATGT
60959540 TT
1 TT
60959542 TCTTCTGTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.53
Consensus pattern (7 bp):
TTCATGT
Found at i:60959889 original size:36 final size:37
Alignment explanation
Indices: 60959784--60959892 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
60959774 ATTATGTGTT
*
60959784 AAAGACTTATGTAATGTTTTTAATTATTTAGTGATTC
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
* * * *
60959821 AAAAATTTATGTAATGTTTTTAGTTATGTAGTGATTC
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
60959858 AAAGACTTATGTAAT-TTTTTAATTATATAGTGATT
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATT
60959893 TAAATCGGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 18 0.28
37 46 0.72
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.49
Consensus pattern (37 bp):
AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
Found at i:60959911 original size:9 final size:9
Alignment explanation
Indices: 60959892--60959984 Score: 143
Period size: 9 Copynumber: 10.4 Consensus size: 9
60959882 ATATAGTGAT
60959892 TTAAATCGG
1 TTAAATCGG
* *
60959901 TTAAGTTGG
1 TTAAATCGG
60959910 TTAAATCGG
1 TTAAATCGG
60959919 TTAAATCGG
1 TTAAATCGG
60959928 TTAAATCGG
1 TTAAATCGG
60959937 TTAAATCGG
1 TTAAATCGG
*
60959946 TTAAGTCGG
1 TTAAATCGG
60959955 TT-AATCGG
1 TTAAATCGG
*
60959963 TTAAATAGG
1 TTAAATCGG
60959972 TTAAATCGG
1 TTAAATCGG
60959981 TTAA
1 TTAA
60959985 TTTTTAACCA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
8 7 0.09
9 68 0.91
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (9 bp):
TTAAATCGG
Found at i:60960392 original size:107 final size:103
Alignment explanation
Indices: 60960172--60960453 Score: 325
Period size: 104 Copynumber: 2.7 Consensus size: 103
60960162 ACCCCTACCG
* * * *
60960172 GCCATTGGCAGGCCACCACAAAAAAAAAATTAAACTTTTTTCGTATACTAGTGCTTGTCATTGAC
1 GCCATTGGCAGGCCACCAC-AAAAAAAAATTTAACTTTTTTCGTATACTGGTGCCTGCCATTGAC
* *
60960237 ACGA-AAAAAGTAAAAAAAATTCCCATAAAAGTGGTGCCG
65 A-GACCAAAAGTAAAAAAAATTCCCATAAAAGTGGTGCCA
* * ** * *
60960276 GCTATTGGCAGGCTACCACCAAAAAAATTTTTTTAACTTTTTTTGTATACTGGTGCCGGCCATTG
1 GCCATTGGCAGGCCACCA-CAAAAAAA--AATTTAACTTTTTTCGTATACTGGTGCCTGCCATTG
* ***
60960341 ATAGACCAAAAGTAAAAAAAAATTTGGA-AAAAGGTGGTGCCA
63 ACAGACCAAAAGT-AAAAAAAATTCCCATAAAA-GTGGTGCCA
* *
60960383 GCCATTGGCAAGCCACCACAAAAAAAAATTTAACTTTTTTCGTATACTGGTGCCTGCTATTGACA
1 GCCATTGGCAGGCCACCACAAAAAAAAATTTAACTTTTTTCGTATACTGGTGCCTGCCATTGACA
60960448 GACCAA
66 GACCAA
60960454 TACCTGAAAT
Statistics
Matches: 147, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
104 62 0.42
105 3 0.02
106 48 0.33
107 34 0.23
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (103 bp):
GCCATTGGCAGGCCACCACAAAAAAAAATTTAACTTTTTTCGTATACTGGTGCCTGCCATTGACA
GACCAAAAGTAAAAAAAATTCCCATAAAAGTGGTGCCA
Found at i:60977423 original size:61 final size:61
Alignment explanation
Indices: 60977353--60977471 Score: 238
Period size: 61 Copynumber: 2.0 Consensus size: 61
60977343 AAATTATTAT
60977353 TTATGAGATAGTATGGTTAAGAGAGATGATATACATCTATTTATTTATTAAATTTTTATCA
1 TTATGAGATAGTATGGTTAAGAGAGATGATATACATCTATTTATTTATTAAATTTTTATCA
60977414 TTATGAGATAGTATGGTTAAGAGAGATGATATACATCTATTTATTTATTAAATTTTTA
1 TTATGAGATAGTATGGTTAAGAGAGATGATATACATCTATTTATTTATTAAATTTTTA
60977472 AATATGTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (61 bp):
TTATGAGATAGTATGGTTAAGAGAGATGATATACATCTATTTATTTATTAAATTTTTATCA
Found at i:60977724 original size:8 final size:8
Alignment explanation
Indices: 60977713--60977739 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
60977703 AAAATTTAGT
60977713 TTAAAATA
1 TTAAAATA
60977721 TTAAAATA
1 TTAAAATA
60977729 TTAAAATA
1 TTAAAATA
60977737 TTA
1 TTA
60977740 TATAAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAAATA
Found at i:60978611 original size:41 final size:40
Alignment explanation
Indices: 60978566--60978652 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 40
60978556 ATAAATTCAA
* * **
60978566 AGAAATATTGATAAATTCGTATAAATTTTAGTAGAATTA-TT
1 AGAAATATCGATAAAGTCACATAAATTTTAGTA-AA-TAGTT
*
60978607 AGAAATATCGGTAAAGTCACATAAATTTTAGTAAATAGTT
1 AGAAATATCGATAAAGTCACATAAATTTTAGTAAATAGTT
60978647 AGAAAT
1 AGAAAT
60978653 TTTTGAAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 2 0.05
40 10 0.25
41 28 0.70
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.36
Consensus pattern (40 bp):
AGAAATATCGATAAAGTCACATAAATTTTAGTAAATAGTT
Found at i:60978778 original size:20 final size:20
Alignment explanation
Indices: 60978755--60978829 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
60978745 AAAGTCCCAT
60978755 AAATATTTGTAAATCTATAG
1 AAATATTTGTAAATCTATAG
60978775 AAAT-TTTGGTAAATC-ATCAG
1 AAATATTT-GTAAATCTAT-AG
* ** *
60978795 ATATATTAATAAGTCCT-TAG
1 AAATATTTGTAAAT-CTATAG
*
60978815 AAATATTGGTAAATC
1 AAATATTTGTAAATC
60978830 GTCGAATGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
19 6 0.14
20 32 0.76
21 4 0.10
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (20 bp):
AAATATTTGTAAATCTATAG
Found at i:60978801 original size:40 final size:39
Alignment explanation
Indices: 60978713--60978829 Score: 103
Period size: 40 Copynumber: 2.9 Consensus size: 39
60978703 TAGAAATTTT
* *
60978713 AGAAATATTGATAAAAT-TTTAGAAATTTTGGTAAAGTCCC
1 AGAAATATTAAT-AAATCCTTAGAAATTTTGGTAAA-TCCC
* ** *
60978753 ATAAATATTTGTAAAT-CTATAGAAATTTTGGTAAATCATC
1 AGAAATATTAATAAATCCT-TAGAAATTTTGGTAAATC-CC
* * *
60978793 AGATATATTAATAAGTCCTTAGAAATATTGGTAAATC
1 AGAAATATTAATAAATCCTTAGAAATTTTGGTAAATC
60978830 GTCGAATGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
39 7 0.11
40 54 0.86
41 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.37
Consensus pattern (39 bp):
AGAAATATTAATAAATCCTTAGAAATTTTGGTAAATCCC
Found at i:60978903 original size:187 final size:186
Alignment explanation
Indices: 60978673--60979015 Score: 492
Period size: 187 Copynumber: 1.8 Consensus size: 186
60978663 TTACAAAAGT
* * * * *
60978673 TTTGGTAATTGTTAAGATTTGGTGTAGGGTTAGAAATTTTAGAAATATTGATAAAATTTTAGAAA
1 TTTGGTAATTGTTAAGACTTCGTATAGGGTTAGAAAATTTAGAAATATTGATAAAATATTAGAAA
* * *
60978738 TTTTGGTAAAGTCCCATAAATATTTG-T-AAATCTATAGAAATTTTGGTAAATCATCAGATATAT
66 TTTTGGTAAAGTCCAATAAATA-TTGATAAAAT-GATAGAAATTTTGGTAAATCATCAGAAATAT
*
60978801 TAATAAGTCCTTAGAAATATTGGTAAATCGTCGAATGTTTTGGTAAATCCTTTGAAAA
129 TAATAAATCCTTAGAAATATTGGTAAATCGTCGAATGTTTTGGTAAATCCTTTGAAAA
*
60978859 TTTGGTAATTGTTAAGACTTCGTATAGGGTTTAGAAAATTTAGAAATATTGGTAAAATATTAGAA
1 TTTGGTAATTGTTAAGACTTCGTATAGGG-TTAGAAAATTTAGAAATATTGATAAAATATTAGAA
* * * *
60978924 ATTTTGGTAAATTCCAATAAATATTGATAAAATGATAGAAATTTTGGTAAATCCTTAGAAATGTT
65 ATTTTGGTAAAGTCCAATAAATATTGATAAAATGATAGAAATTTTGGTAAATCATCAGAAATATT
* * *
60978989 GATAAATCGTTAGATATATTGGTAAAT
130 AATAAATCCTTAGAAATATTGGTAAAT
60979016 TCTTAGATAT
Statistics
Matches: 137, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
186 29 0.21
187 104 0.76
188 4 0.03
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (186 bp):
TTTGGTAATTGTTAAGACTTCGTATAGGGTTAGAAAATTTAGAAATATTGATAAAATATTAGAAA
TTTTGGTAAAGTCCAATAAATATTGATAAAATGATAGAAATTTTGGTAAATCATCAGAAATATTA
ATAAATCCTTAGAAATATTGGTAAATCGTCGAATGTTTTGGTAAATCCTTTGAAAA
Found at i:60978991 original size:40 final size:40
Alignment explanation
Indices: 60978898--60979033 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
60978888 TTTAGAAAAT
*
60978898 TTAGAAATATTGGTAAAAT-ATTAGAAATTTTGGTAAATTCC
1 TTAGAAATATTGATAAAATGA-TAGAAATTTTGGTAAA-TCC
* *
60978939 -AATAAATATTGATAAAATGATAGAAATTTTGGTAAATCC
1 TTAGAAATATTGATAAAATGATAGAAATTTTGGTAAATCC
* * * * *
60978978 TTAGAAATGTTGAT-AAATCGTTAGATATATTGGTAAATTC
1 TTAGAAATATTGATAAAAT-GATAGAAATTTTGGTAAATCC
* *
60979018 TTAGATATTTTGATAA
1 TTAGAAATATTGATAA
60979034 GGCCTTTAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
39 7 0.09
40 70 0.89
41 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.39
Consensus pattern (40 bp):
TTAGAAATATTGATAAAATGATAGAAATTTTGGTAAATCC
Found at i:60979025 original size:20 final size:20
Alignment explanation
Indices: 60978898--60979022 Score: 99
Period size: 20 Copynumber: 6.2 Consensus size: 20
60978888 TTTAGAAAAT
* *
60978898 TTAGAAATATTGGTAAAATA
1 TTAGAAATATTGGTAAATTC
*
60978918 TTAGAAATTTTGGTAAATTC
1 TTAGAAATATTGGTAAATTC
** * * * *
60978938 CAATAAATATTGATAAAATG
1 TTAGAAATATTGGTAAATTC
* * *
60978958 ATAGAAATTTTGGTAAATCC
1 TTAGAAATATTGGTAAATTC
* *
60978978 TTAGAAATGTTGATAAA-TC
1 TTAGAAATATTGGTAAATTC
*
60978997 GTTAGATATATTGGTAAATTC
1 -TTAGAAATATTGGTAAATTC
60979018 TTAGA
1 TTAGA
60979023 TATTTTGATA
Statistics
Matches: 78, Mismatches: 25, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
19 1 0.01
20 75 0.96
21 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
TTAGAAATATTGGTAAATTC
Found at i:60979164 original size:150 final size:150
Alignment explanation
Indices: 60978888--60979165 Score: 357
Period size: 150 Copynumber: 1.9 Consensus size: 150
60978878 TCGTATAGGG
* *
60978888 TTTAGAAAATTTAGAAATATTGGTAAAATATTAGAAATTTTGGTAAATTCCAATAAATATTGATA
1 TTTAGAAAATTTAGAAATATTGGTAAAATATTAAAAATTATGGTAAATTCCAATAAATATTGATA
* * *
60978953 AAATGATAGAAATTTTGGTAAATCCTTAGAAATGTTGATAAATCGTTAGATATATTGGTAAATTC
66 AAATGATAGAAATTTTGGTAAATCATTAGAAATGTTGATAAATCCTTAGATATATTAGTAAATTC
60979018 TTAGATATTTTGATAAGGCC
131 TTAGATATTTTGATAAGGCC
* * * * *
60979038 TTTAGAAAATTT-GAAAATATTGGTAAAATCTTAAAAATTATGGTGAAGTTTC-TTAAATATTGG
1 TTTAGAAAATTTAG-AAATATTGGTAAAATATTAAAAATTATGGT-AAATTCCAATAAATATTGA
* * * * *
60979101 TAAAATTATATAAATTTTGGTAACTCATTA-AATATTTTGATAAATCCTTAG-TAATTTTAGTAA
64 TAAAATGATAGAAATTTTGGTAAATCATTAGAA-ATGTTGATAAATCCTTAGAT-ATATTAGTAA
60979164 AT
127 AT
60979166 CGTTGAATAT
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
149 4 0.04
150 100 0.92
151 5 0.05
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (150 bp):
TTTAGAAAATTTAGAAATATTGGTAAAATATTAAAAATTATGGTAAATTCCAATAAATATTGATA
AAATGATAGAAATTTTGGTAAATCATTAGAAATGTTGATAAATCCTTAGATATATTAGTAAATTC
TTAGATATTTTGATAAGGCC
Found at i:60979197 original size:40 final size:40
Alignment explanation
Indices: 60979094--60979203 Score: 103
Period size: 40 Copynumber: 2.8 Consensus size: 40
60979084 AGTTTCTTAA
* ** * *
60979094 ATATTGGTAAAATTATATAAATTTTGGTAACTCATTAAAT
1 ATATTGATAAAACAATAGAAATTTTGGTAAATCATTAAAT
* * ** * * * *
60979134 ATTTTGATAAATCCTTAGTAATTTTAGTAAATCGTTGAAT
1 ATATTGATAAAACAATAGAAATTTTGGTAAATCATTAAAT
60979174 ATATTGATAAAACAATAGAAATTTTGGTAA
1 ATATTGATAAAACAATAGAAATTTTGGTAA
60979204 TTGTTAAGAC
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (40 bp):
ATATTGATAAAACAATAGAAATTTTGGTAAATCATTAAAT
Found at i:60979292 original size:20 final size:20
Alignment explanation
Indices: 60979249--60979292 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
60979239 AAATATTGAT
* * *
60979249 AAAATCTTATAAATTTTGGT
1 AAAATCTTATAAATATCGGC
*
60979269 AAAATCTTGTAAATATCGGC
1 AAAATCTTATAAATATCGGC
60979289 AAAA
1 AAAA
60979293 CCGATATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAATCTTATAAATATCGGC
Found at i:60980976 original size:25 final size:25
Alignment explanation
Indices: 60980942--60980989 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
60980932 GACATTTTCA
*
60980942 TAATTCCCTAATCAAGTTGGTACAT
1 TAATTCCCTAACCAAGTTGGTACAT
* *
60980967 TAATTTCCTAACCGAGTTGGTAC
1 TAATTCCCTAACCAAGTTGGTAC
60980990 CCGGTTAATC
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:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (25 bp):
TAATTCCCTAACCAAGTTGGTACAT
Found at i:60995376 original size:10 final size:10
Alignment explanation
Indices: 60995332--60995377 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
60995322 AATTTAATTC
*
60995332 TTTTCTTTTA
1 TTTTCTTTAA
*
60995342 TGTTCTTTTAA
1 TTTTC-TTTAA
60995353 TTTTCTTTAA
1 TTTTCTTTAA
*
60995363 TTTTCTTTAT
1 TTTTCTTTAA
60995373 TTTTC
1 TTTTC
60995378 CATTCTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTCTTTAA
Found at i:61001881 original size:23 final size:23
Alignment explanation
Indices: 61001855--61001992 Score: 73
Period size: 23 Copynumber: 5.7 Consensus size: 23
61001845 TAGTGTGTGA
61001855 AAATTTAAAATAATATTAATAAT
1 AAATTTAAAATAATATTAATAAT
* *
61001878 AAATTTAGAATAAT-TATGATAAT
1 AAATTTAAAATAATAT-TAATAAT
* * *
61001901 AAACTAAAAATAATAATACATGAA-
1 AAATTTAAAATAATATTA-AT-AAT
** * *
61001925 AAACCTAAAATAATACATATATAAAA
1 AAATTTAAAATAATA-TTA-AT-AAT
*
61001951 AAACTTTTAAAATAATAATACAATAAT
1 AAA--TTTAAAATAAT-AT-TAATAAT
*
61001978 AAATTTATAATAATA
1 AAATTTAAAATAATA
61001993 AGTTTAATTA
Statistics
Matches: 88, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
22 1 0.01
23 31 0.35
24 16 0.18
25 19 0.22
26 3 0.03
27 5 0.06
28 11 0.12
29 2 0.02
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATTTAAAATAATATTAATAAT
Found at i:61001934 original size:24 final size:26
Alignment explanation
Indices: 61001907--61001972 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
61001897 TAATAAACTA
*
61001907 AAAATAATAATACAT-GAAAAAC-CT
1 AAAATAATAATACATAAAAAAACTCT
* *
61001931 AAAATAATACATATATAAAAAAACTTTT
1 AAAATAATA-ATACATAAAAAAAC-TCT
61001959 AAAATAATAATACA
1 AAAATAATAATACA
61001973 ATAATAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.26
25 5 0.15
26 6 0.18
27 4 0.12
28 10 0.29
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAATAATAATACATAAAAAAACTCT
Found at i:61004237 original size:23 final size:23
Alignment explanation
Indices: 61004207--61004253 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
61004197 TGAAAAACCT
*
61004207 TGTAATATTTGTATGTATATATA
1 TGTAATATTTATATGTATATATA
61004230 TGTAATATTTATATGTATATATA
1 TGTAATATTTATATGTATATATA
61004253 T
1 T
61004254 ACTATCTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (23 bp):
TGTAATATTTATATGTATATATA
Found at i:61004263 original size:21 final size:22
Alignment explanation
Indices: 61004208--61004263 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
61004198 GAAAAACCTT
* *
61004208 GTAATATTTGTATGTATATATA
1 GTAATATCTATATGTATATATA
*
61004230 TGTAATATTTATATGTATATATA
1 -GTAATATCTATATGTATATATA
*
61004253 -TACTATCTATA
1 GTAATATCTATA
61004264 CACTATACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 9 0.30
23 21 0.70
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (22 bp):
GTAATATCTATATGTATATATA
Found at i:61006878 original size:68 final size:69
Alignment explanation
Indices: 61006747--61006884 Score: 176
Period size: 68 Copynumber: 2.0 Consensus size: 69
61006737 TTCCACCTTT
* *
61006747 TCTTTTAAATGGCATCAAAACATTTCCAAGATACCAATCAAGTCCAAAAAATATCAACCAATAAG
1 TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAAATATCAACCAATAAG
61006812 CCAA
66 CCAA
* * *
61006816 TCTTTCAAATGGCATCAAAAC-TAGT-CAATATACTAGTCAAGTCCAACAGAAA-A-CAACCAAT
1 TCTTTCAAATGGCATCAAAACAT-GTCCAAGATACCAATCAAGTCCAA-A-AAATATCAACCAAT
61006877 AAGCCAA
63 AAGCCAA
61006884 T
1 T
61006885 AGTCTGTTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
68 35 0.57
69 23 0.38
70 3 0.05
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.22
Consensus pattern (69 bp):
TCTTTCAAATGGCATCAAAACATGTCCAAGATACCAATCAAGTCCAAAAAATATCAACCAATAAG
CCAA
Found at i:61011190 original size:21 final size:21
Alignment explanation
Indices: 61011154--61011198 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
61011144 TTTAACCCCC
61011154 TAAAATTATAAAAATTCAAATT
1 TAAAATTATAAAAATTC-AATT
61011176 TAAAATTAT-AAAATTCAATT
1 TAAAATTATAAAAATTCAATT
61011196 TAA
1 TAA
61011199 TCCTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATTATAAAAATTCAATT
Found at i:61012391 original size:57 final size:55
Alignment explanation
Indices: 61012279--61012392 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 55
61012269 CCTGCAGAGA
** *
61012279 AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTTTCCACCATTTGGTTTATTCTT
1 AGTTGAACACCTTTTAGTTTGCTTATGTA--TTTTTTCCACCATTACGTTCATTCTT
* *
61012336 AGTTGAACTCCTTTTAGTAGTCTGCTTATGTA-TTTTTCCTCCATTACGTTCATTCTT
1 AGTTGAACACCTTTTAGT--T-TGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
61012393 GGTCAAACAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 38 0.78
59 1 0.02
60 10 0.20
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (55 bp):
AGTTGAACACCTTTTAGTTTGCTTATGTATTTTTTCCACCATTACGTTCATTCTT
Done.