Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 329 of 344
Found at i:107185221 original size:17 final size:17
Alignment explanation
Indices: 107185201--107185238 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
107185191 CATTTTTTAA
*
107185201 AAAAATTTTCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
107185217 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
107185234 AAAAA
1 AAAAA
107185239 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:107185240 original size:19 final size:19
Alignment explanation
Indices: 107185161--107185240 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 19
107185151 TTCCGTGTTT
*
107185161 AAAAATTCTCGTGTTTTAAAA
1 AAAAATTCTCGTGTCTT--AA
* * *
107185182 AAAAACTT-TCATTTTTTAA
1 AAAAA-TTCTCGTGTCTTAA
*
107185201 AAAAATTTTCGTG-CTT--
1 AAAAATTCTCGTGTCTTAA
*
107185217 CAAAATTCTCGTGTCTTAA
1 AAAAATTCTCGTGTCTTAA
107185236 AAAAA
1 AAAAA
107185241 GTTTTCATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
16 11 0.24
17 3 0.07
18 4 0.09
19 14 0.30
21 12 0.26
22 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (19 bp):
AAAAATTCTCGTGTCTTAA
Found at i:107190048 original size:16 final size:17
Alignment explanation
Indices: 107190022--107190059 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
107190012 TTATATTTAT
107190022 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
107190039 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
107190055 ATTTT
1 ATTTT
107190060 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:107190271 original size:34 final size:34
Alignment explanation
Indices: 107190200--107190366 Score: 115
Period size: 36 Copynumber: 4.8 Consensus size: 34
107190190 AAAATTGTAA
* * *
107190200 TTTCAATAATCCTCGTGCTTTTAAAAATTCTCATG
1 TTTCAAAAATCTTCGTG-TTTTCAAAATTCTCATG
107190235 TTTCAAAAATCTTCGTGTTTTCAAAATTCT-AGTG
1 TTTCAAAAATCTTCGTGTTTTCAAAATTCTCA-TG
* * * *
107190269 TTTC-AAAATTTTCTTGTTTTCAGAAAAATTTTCGTG
1 TTTCAAAAATCTTCGTGTTTTC---AAAATTCTCATG
* * * ***
107190305 TTTTATAAAT-TTCCGTATTTTCAAAAAAATCATG
1 TTTCAAAAATCTT-CGTGTTTTCAAAATTCTCATG
*
107190339 CCTTTCAAAAATTTTCGTGTTTTCAAAA
1 --TTTCAAAAATCTTCGTGTTTTCAAAA
107190367 AAATGACCGT
Statistics
Matches: 104, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
33 16 0.15
34 26 0.25
35 15 0.14
36 34 0.33
37 13 0.12
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (34 bp):
TTTCAAAAATCTTCGTGTTTTCAAAATTCTCATG
Found at i:107190287 original size:16 final size:16
Alignment explanation
Indices: 107190200--107190278 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
107190190 AAAATTGTAA
*
107190200 TTTCAATAATCCTCGTG
1 TTTCAA-AATTCTCGTG
* *
107190217 CTTTTAAAAATTCTCATG
1 --TTTCAAAATTCTCGTG
*
107190235 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TCGTG
*
107190252 TTTTCAAAATTCTAGTG
1 -TTTCAAAATTCTCGTG
107190269 TTTCAAAATT
1 TTTCAAAATT
107190279 TTCTTGTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
16 19 0.38
17 8 0.16
18 18 0.36
19 5 0.10
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (16 bp):
TTTCAAAATTCTCGTG
Found at i:107190306 original size:36 final size:36
Alignment explanation
Indices: 107190222--107190396 Score: 133
Period size: 36 Copynumber: 4.9 Consensus size: 36
107190212 TCGTGCTTTT
* * *
107190222 AAAAATTCTCATGTTTCAAAAATCTTCGTGTTTTC--
1 AAAAATTATCGTGTTTC-AAAATTTTCGTGTTTTCAA
* * * *
107190257 -AAAATTCTAGTGTTTCAAAATTTTCTTGTTTTCAG
1 AAAAATTATCGTGTTTCAAAATTTTCGTGTTTTCAA
* * * *
107190292 AAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAA
1 AAAAATTATCGTGTTTCA-AAATTTTCGTGTTTTCAA
* **
107190329 AAAAATCAT-GCCTTTCAAAAATTTTCGTGTTTTCAA
1 AAAAATTATCGTGTTTC-AAAATTTTCGTGTTTTCAA
* * *
107190365 AAAAATGACCGTGTTTCAAAAATTTCCGTGTT
1 AAAAATTATCGTGTTTC-AAAATTTTCGTGTT
107190397 AAAAAAAATC
Statistics
Matches: 111, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
33 15 0.14
34 14 0.13
36 41 0.37
37 41 0.37
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (36 bp):
AAAAATTATCGTGTTTCAAAATTTTCGTGTTTTCAA
Found at i:107190404 original size:73 final size:72
Alignment explanation
Indices: 107190269--107190404 Score: 164
Period size: 73 Copynumber: 1.9 Consensus size: 72
107190259 AATTCTAGTG
* * *** * * ***
107190269 TTTCAAAATTTTCTTGTTTTCAGAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAAAA
1 TTTCAAAATTTTCGTGTTTTCAAAAAAATGACCGTGTTTCAAAAATTTCCGTATTAAAAAAAAAA
107190334 TCATGCC
66 TCATGCC
*
107190341 TTTCAAAAATTTTCGTGTTTTCAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAA
1 TTTC-AAAATTTTCGTGTTTTCAAAAAAATGACCGTGTTTCAAAAATTTCCGTATTAAAAAAAA
107190405 TCTTGGTATT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
72 4 0.08
73 48 0.92
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (72 bp):
TTTCAAAATTTTCGTGTTTTCAAAAAAATGACCGTGTTTCAAAAATTTCCGTATTAAAAAAAAAA
TCATGCC
Found at i:107190594 original size:17 final size:17
Alignment explanation
Indices: 107190212--107190729 Score: 220
Period size: 17 Copynumber: 29.8 Consensus size: 17
107190202 TCAATAATCC
*
107190212 TCGTGCTTTTAAAAATTC
1 TCGTG-TTTTAAAAATTT
* * *
107190230 TCATGTTTCAAAAATCT
1 TCGTGTTTTAAAAATTT
* *
107190247 TCGTGTTTTCAAAATTC
1 TCGTGTTTTAAAAATTT
* *
107190264 TAGTG-TTTCAAAATTT
1 TCGTGTTTTAAAAATTT
*
107190280 TCTTGTTTTCAGAAAAATTT
1 TCGTGTTTT---AAAAATTT
*
107190300 TCGTGTTTTATAAATTT
1 TCGTGTTTTAAAAATTT
* * **
107190317 CCGTATTTTCAAAAA-AA
1 TCGTGTTTT-AAAAATTT
* *
107190334 TCATGCCTTTCAAAAATTT
1 TCGTG--TTTTAAAAATTT
**
107190353 TCGTGTTTTCAAAAAAATGA
1 TCGTGTTTT---AAAAATTT
* *
107190373 CCGTGTTTCAAAAATTT
1 TCGTGTTTTAAAAATTT
* ** *
107190390 CCGTGTTAAAAAAAATCT
1 TCGTGTT-TTAAAAATTT
* * *
107190408 TGGTATTTTCAAAAAAATT
1 TCGTGTTTT--AAAAATTT
* *
107190427 TCGTGTTTCAAAAATCT
1 TCGTGTTTTAAAAATTT
107190444 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTT-AAAAATTT
* *
107190461 TCGGTGTTTCAAAGATTT
1 TC-GTGTTTTAAAAATTT
*
107190479 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTT-AAAAATTT
* ***
107190496 CCGGTGATTTTAAAAAAAAA
1 TC-GTG-TTTT-AAAAATTT
107190516 TCGT-TTTCTAAAAAATTT
1 TCGTGTTT-T-AAAAATTT
* *
107190534 CCGTGTTTCAAAAATTT
1 TCGTGTTTTAAAAATTT
107190551 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
*
107190568 TCGTGTTTTAAAAATTC
1 TCGTGTTTTAAAAATTT
*
107190585 TCGTATTTT--AAATTT
1 TCGTGTTTTAAAAATTT
* **
107190600 T--T-TTTAAGAAAAAAAT
1 TCGTGTTT--TAAAAATTT
* * *
107190616 T-GTGTTTCAAAAAATG
1 TCGTGTTTTAAAAATTT
*
107190632 TC-T-TCTTTAAAATTTT
1 TCGTGT-TTTAAAAATTT
* * *
107190648 CTCGTGTTTCAAAAAATG
1 -TCGTGTTTTAAAAATTT
107190666 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
*
107190683 TCGTGTTTCT-GAAATTT
1 TCGTGTTT-TAAAAATTT
* *
107190700 CCGTG-TTTAAAAATTC
1 TCGTGTTTTAAAAATTT
107190716 TCGTGTTTTAAAAA
1 TCGTGTTTTAAAAA
107190730 AAACTTTCAT
Statistics
Matches: 369, Mismatches: 94, Indels: 75
0.69 0.17 0.14
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
15 8 0.02
16 44 0.12
17 182 0.49
18 68 0.18
19 34 0.09
20 29 0.08
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (17 bp):
TCGTGTTTTAAAAATTT
Found at i:107190767 original size:17 final size:17
Alignment explanation
Indices: 107190747--107190784 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
107190737 CATTTTTTAA
*
107190747 AAAAATTTTCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
107190763 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
107190780 AAAAA
1 AAAAA
107190785 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:107190786 original size:19 final size:19
Alignment explanation
Indices: 107190708--107190786 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 19
107190698 TTCCGTGTTT
*
107190708 AAAAATTCTCGTGTTTTAAA
1 AAAAATTCTCGTGTCTT-AA
* * *
107190728 AAAAACTT-TCATTTTTTAA
1 AAAAA-TTCTCGTGTCTTAA
*
107190747 AAAAATTTTCGTG-CTT--
1 AAAAATTCTCGTGTCTTAA
*
107190763 CAAAATTCTCGTGTCTTAA
1 AAAAATTCTCGTGTCTTAA
107190782 AAAAA
1 AAAAA
107190787 GTTTTCATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
16 11 0.24
17 3 0.07
18 4 0.09
19 14 0.30
20 12 0.26
21 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.39
Consensus pattern (19 bp):
AAAAATTCTCGTGTCTTAA
Found at i:107194307 original size:72 final size:71
Alignment explanation
Indices: 107194206--107194370 Score: 251
Period size: 72 Copynumber: 2.3 Consensus size: 71
107194196 GAGTTAAGCC
* ** * *
107194206 TTTT-AATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
107194270 GAGGTA
66 GAGGTA
*
107194276 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
107194341 TGAGGTA
65 TGAGGTA
*
107194348 TTTTCAATTTCTGTTTTTAATTT
1 TTTTCAATTTTTGTTTTTAATTT
107194371 ACGTTGCTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
70 4 0.05
71 18 0.21
72 64 0.74
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:107194476 original size:140 final size:140
Alignment explanation
Indices: 107194303--107194786 Score: 880
Period size: 140 Copynumber: 3.4 Consensus size: 140
107194293 TTAATTTCAA
*
107194303 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
107194368 TTTACGTTGCTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
107194433 TCAAAATCAG
131 TCAAAATCAG
*
107194443 CTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
107194508 TTTATGTTGTTCAATAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
107194573 TCAAAATCAG
131 TCAAAATCAG
*
107194583 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
107194648 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
107194713 TCAAAATCAG
131 TCAAAATCAG
107194723 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGTTTT
107194787 TCAAAAAAAA
Statistics
Matches: 332, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
139 2 0.01
140 305 0.92
142 25 0.08
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:107194506 original size:13 final size:13
Alignment explanation
Indices: 107194488--107194522 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
107194478 CGCTGAGGTA
*
107194488 TTTTCAATTTCTG
1 TTTTCAATTTATG
107194501 TTTTCAATTTATG
1 TTTTCAATTTATG
107194514 TTGTTCAAT
1 TT-TTCAAT
107194523 AATCAACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:107194646 original size:13 final size:13
Alignment explanation
Indices: 107194628--107194661 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
107194618 CGCTAAGGTA
*
107194628 TTTTCAATTTCTG
1 TTTTCAATTTATG
107194641 TTTTCAATTTATG
1 TTTTCAATTTATG
107194654 TTGTTCAA
1 TT-TTCAA
107194662 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:107194886 original size:72 final size:72
Alignment explanation
Indices: 107194710--107194934 Score: 292
Period size: 72 Copynumber: 3.0 Consensus size: 72
107194700 AATTTCTACT
* ** * * * *
107194710 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
107194773 TCAATTTCTG
63 TCAATTTCTG
107194783 TTTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
1 -TTTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
107194848 ATTTCAATTTCTG
60 ATTTCAATTTCTG
107194861 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
107194926 ATTTCTG
66 ATTTCTG
107194933 TT
1 TT
107194935 CAAAATGAGT
Statistics
Matches: 137, Mismatches: 7, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
72 69 0.50
74 5 0.04
77 5 0.04
78 23 0.17
79 4 0.03
80 30 0.22
81 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:107194945 original size:49 final size:49
Alignment explanation
Indices: 107194888--107194983 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
107194878 ATATTGCGAG
*
107194888 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
107194937 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
107194984 GTCAAAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:107195049 original size:123 final size:121
Alignment explanation
Indices: 107194816--107195052 Score: 402
Period size: 123 Copynumber: 1.9 Consensus size: 121
107194806 ATATTGCGAG
* * *
107194816 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATA
*
107194881 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
107194937 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTC--AAAAATCAACTCA
* *
107195002 TATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT
64 TATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
107195053 TTGTCTTTCA
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
121 48 0.44
123 60 0.56
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:107195117 original size:198 final size:198
Alignment explanation
Indices: 107194761--107195130 Score: 593
Period size: 198 Copynumber: 1.9 Consensus size: 198
107194751 CGGTTCACAT
* *
107194761 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTG
1 GCTGAGGTAATTTCAATTTCTGTTTGTC-AAAAAAAATTCAACTCATATTGCGAGAAATGAGTTG
* *
107194826 AGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAA
65 AGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAA
107194891 TGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAG
130 TGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAG
107194956 ACAC
195 ACAC
107194960 GCTGAGGTAATTTCAATTTCTG-TTGTC-AAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGA
1 GCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGA
* * *
107195022 GCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGA
66 GCCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGA
** *
107195087 GGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTCTG
128 AATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
107195131 CTTTTCAATT
Statistics
Matches: 158, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
195 59 0.37
196 11 0.07
198 67 0.42
199 21 0.13
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (198 bp):
GCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGA
GCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAAT
GAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCAAAATGAGTTGAGCCTCAAGA
CAC
Found at i:107195137 original size:75 final size:74
Alignment explanation
Indices: 107194937--107195138 Score: 314
Period size: 75 Copynumber: 2.7 Consensus size: 74
107194927 TTTCTGTTCA
*
107194937 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
107195002 TATTGCGAG
66 TATTGCGAG
* * *
107195011 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGT-TTTCAAAAAAATCAACTC
107195076 ATATTGCGAG
65 ATATTGCGAG
** * *
107195086 AGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTCTGCTTTTCAA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTCAA
107195139 TTTATATTTT
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
74 43 0.37
75 71 0.62
76 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (74 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
TATTGCGAG
Found at i:107195174 original size:91 final size:89
Alignment explanation
Indices: 107195043--107195221 Score: 288
Period size: 91 Copynumber: 2.0 Consensus size: 89
107195033 TGCTGAGGTA
* *
107195043 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-C
1 TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGAC
*
107195107 ACGTTGAGGTAATTTCAATTTCTGC
65 ACGCTGAGGTAATTTCAATTTCTGC
*
107195132 TTTTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTATATCTTTC-AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
107195197 CACGCTGAGGTAATTTCAATTTCTG
64 CACGCTGAGGTAATTTCAATTTCTG
107195222 TTGTCAAAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
89 16 0.19
90 10 0.12
91 57 0.69
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (89 bp):
TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGC
Found at i:107195243 original size:75 final size:75
Alignment explanation
Indices: 107195148--107195370 Score: 290
Period size: 75 Copynumber: 3.0 Consensus size: 75
107195138 ATTTATATTT
107195148 TTCAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TTCAAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
107195213 CAATTTCTGT-
65 CAATTTCTGTC
** * * * *
107195223 TGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTATTTT
1 T-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
107195288 CAATTTTTGTC
65 CAATTTCTGTC
* * * * *
107195299 TT-TAAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGTTAATTT
1 TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTT
107195362 CAATTTCTG
65 CAATTTCTG
107195371 CTTTTAAATT
Statistics
Matches: 126, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
74 55 0.44
75 60 0.48
76 11 0.09
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (75 bp):
TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTGTC
Found at i:107195261 original size:166 final size:165
Alignment explanation
Indices: 107194987--107195293 Score: 463
Period size: 166 Copynumber: 1.9 Consensus size: 165
107194977 TTCTGTTGTC
* *
107194987 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
* * ** * * *
107195052 TTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGT
66 TCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTAAGGT
107195117 AATTTCAATTTCTGCTTTTCAATTTATATTTTTCA
131 AATTTCAATTTCTGCTTTTCAATTTATATTTTTCA
** *
107195152 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 AAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
*
107195217 TTCTGT-TGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAG
65 TTCTGTCTGTC-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTAAG
*
107195281 GTATTTTCAATTT
129 GTAATTTCAATTT
107195294 TTGTCTTTAA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 10 0.08
166 116 0.92
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (165 bp):
AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
TCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTAAGGT
AATTTCAATTTCTGCTTTTCAATTTATATTTTTCA
Found at i:107195475 original size:240 final size:241
Alignment explanation
Indices: 107194940--107195473 Score: 984
Period size: 240 Copynumber: 2.2 Consensus size: 241
107194930 CTGTTCAAAA
*
107194940 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAAAATCAACTCATA
1 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATA
*
107195004 TTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTATTTTCAATTTTTGTCTTTCAAAAAAA
* *
107195069 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTCTGCTT
131 TCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTCTGCTT
*
107195134 TTCAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGG
196 TTAAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGG
107195180 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATA
1 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATA
107195245 TTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTATTTTCAATTTTTGTCTTT-AAAAAAA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTATTTTCAATTTTTGTCTTTCAAAAAAA
*
107195309 TCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGTTAATTTCAATTTCTGCTT
131 TCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTCTGCTT
107195374 TTAAATTTATATTTTTC-AAAAAAATTCAACTCATATTGCGAGAGG
196 TTAAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGG
*
107195419 TGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAA
1 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAA
107195474 ATAAAAAAAA
Statistics
Matches: 286, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
239 82 0.29
240 131 0.46
241 73 0.26
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (241 bp):
TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAATCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACATGCTAAGGTATTTTCAATTTTTGTCTTTCAAAAAAA
TCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGGCACGTTGAGGTAATTTCAATTTCTGCTT
TTAAATTTATATTTTTCAAAAAAAATTCAACTCATATTGCGAGAGG
Found at i:107195509 original size:85 final size:86
Alignment explanation
Indices: 107195391--107195549 Score: 239
Period size: 85 Copynumber: 1.8 Consensus size: 86
107195381 TATATTTTTC
* ** * *
107195391 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACATGCTGAGGTAATTTCAA
1 AAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
107195455 TTTCTGTTGTCAAAAAAAAAT
66 TTTCTGTTGTCAAAAAAAAAT
* *
107195476 AAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
107195541 ATTTCTGTT
65 ATTTCTGTT
107195550 TTTCAATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 40 0.62
87 25 0.38
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (86 bp):
AAAAAAAATCAACTCATATTGCGAGAGACGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
TTTCTGTTGTCAAAAAAAAAT
Found at i:107195593 original size:91 final size:89
Alignment explanation
Indices: 107195284--107195643 Score: 329
Period size: 91 Copynumber: 4.0 Consensus size: 89
107195274 TGCTAAGGTA
* * * *
107195284 TTTTCAATTTTTGTCTTT-AAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAAGG-C
1 TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGAC
* * *
107195347 ACGTTGAGTTAATTTCAATTTCTGC
65 ACGCTGAGGTAATTTCAATTTCTGT
* *
107195372 TTTTAAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTATATCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
107195437 ATGCTGAGGTAATTTCAATTTCTG-
65 ACGCTGAGGTAATTTCAATTTCTGT
* * **** * * **
107195461 TTGTCAA---AAAAAAATAAAAAAAATCAACTCGTATTGCGAGAGACGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
* *
107195523 CACGCCGAGGTATTTTCAATTTCTGT
64 CACGCTGAGGTAATTTCAATTTCTGT
* ** * * *
107195549 TTTTCAATTTTTGCCTTTCAAAAAAATCGACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTC
1 TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* * *
107195613 ACGCGCTGAGCTATTTTCAATTTCTGT
63 ACACGCTGAGGTAATTTCAATTTCTGT
107195640 TTTT
1 TTTT
107195644 ATTGTCTATT
Statistics
Matches: 221, Mismatches: 41, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
85 33 0.15
86 10 0.05
87 23 0.10
88 20 0.09
89 15 0.07
90 55 0.25
91 65 0.29
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (89 bp):
TTTTCAATTTATATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGT
Found at i:107196332 original size:26 final size:26
Alignment explanation
Indices: 107196303--107196378 Score: 145
Period size: 26 Copynumber: 3.0 Consensus size: 26
107196293 CCTCCCCAAA
107196303 AAAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAAACCTAACCCAAAAAAAAAAG
107196329 AAAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAAACCTAACCCAAAAAAAAAAG
107196355 -AAAAAACCTAACCCAAAAAAAAAA
1 AAAAAAACCTAACCCAAAAAAAAAA
107196379 AAACCAAGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 24 0.48
26 26 0.52
ACGTcount: A:0.74, C:0.20, G:0.03, T:0.04
Consensus pattern (26 bp):
AAAAAAACCTAACCCAAAAAAAAAAG
Found at i:107196347 original size:25 final size:24
Alignment explanation
Indices: 107196300--107196381 Score: 137
Period size: 25 Copynumber: 3.3 Consensus size: 24
107196290 AGCCCTCCCC
107196300 AAAAAAAAAACCTAACCCAAAAAAA
1 AAAAAAAAAACCTAACCC-AAAAAA
107196325 AAAGAAAAAAACCTAACCCAAAAAA
1 AAA-AAAAAAACCTAACCCAAAAAA
107196350 AAAAGAAAAAACCTAACCCAAAAAA
1 AAAA-AAAAAACCTAACCCAAAAAA
107196375 AAAAAAA
1 AAAAAAA
107196382 CCAAGAAACC
Statistics
Matches: 55, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.07
25 36 0.65
26 15 0.27
ACGTcount: A:0.76, C:0.18, G:0.02, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAACCTAACCCAAAAAA
Found at i:107199353 original size:16 final size:16
Alignment explanation
Indices: 107199334--107199364 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107199324 AGGAAATAAA
*
107199334 GAAAATAAAAAGAAAT
1 GAAAACAAAAAGAAAT
107199350 GAAAACAAAAAGAAA
1 GAAAACAAAAAGAAA
107199365 AACATGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.06
Consensus pattern (16 bp):
GAAAACAAAAAGAAAT
Found at i:107199389 original size:3 final size:3
Alignment explanation
Indices: 107199381--107199430 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
107199371 AAAAGAAAGA
* * * *
107199381 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAC AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
107199429 AA
1 AA
107199431 CGTGAACCAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:107200003 original size:3 final size:3
Alignment explanation
Indices: 107199995--107200032 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
107199985 TAATTTAAAG
107199995 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
107200033 CGTGTCACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:107201113 original size:13 final size:13
Alignment explanation
Indices: 107201105--107201129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107201095 CCAAACATTA
107201105 ATTTTAAACTAAG
1 ATTTTAAACTAAG
107201118 ATTTTAAACTAA
1 ATTTTAAACTAA
107201130 TCCAAAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTTTAAACTAAG
Found at i:107201549 original size:26 final size:26
Alignment explanation
Indices: 107201513--107201622 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
107201503 TGATACAAAT
107201513 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
107201539 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
107201565 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
107201591 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
107201617 TGATAA
1 TGATAA
107201623 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:107203282 original size:27 final size:27
Alignment explanation
Indices: 107203244--107203356 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
107203234 GAGGAAGCGT
107203244 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
107203271 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
107203298 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
107203326 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
107203352 TCTGG
1 TCTGG
107203357 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 56 0.74
28 15 0.20
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:107203349 original size:54 final size:54
Alignment explanation
Indices: 107203242--107203356 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
107203232 TGGAGGAAGC
*
107203242 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * *
107203296 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
107203350 GTTCTGG
1 GTTCTGG
107203357 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
54 38 0.68
55 18 0.32
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:107206205 original size:3 final size:3
Alignment explanation
Indices: 107206197--107206240 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
107206187 TCATTCTCTA
107206197 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
107206241 CTTCAATTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:107210941 original size:3 final size:3
Alignment explanation
Indices: 107210933--107211020 Score: 95
Period size: 3 Copynumber: 29.0 Consensus size: 3
107210923 CAAGGGCTAC
* * * *
107210933 TAT TAT TAT TAT TAT TAT TAT TATT TAC TAT TAC TAT TAC TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * **
107210979 TAT TAC AAT TGC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
107211021 ACCTAAAGTT
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:107211697 original size:25 final size:26
Alignment explanation
Indices: 107211629--107211711 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
107211619 TGATACAAAT
107211629 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
107211655 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
107211681 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
107211706 TGATAA
1 TGATAA
107211712 GAATTCCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
25 23 0.41
26 33 0.59
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:107218619 original size:47 final size:47
Alignment explanation
Indices: 107218487--107218704 Score: 206
Period size: 47 Copynumber: 4.6 Consensus size: 47
107218477 ATAGTAAAAC
* * ** * *
107218487 TATGGTCTTGCACATAGTCACATATCACATACCGAAGCCATAGCCCAGC
1 TATGGTCTTACACAGAAACACATATCAC--ACCGATGCCATAGCCCAGA
* * * * * * *
107218536 CATGGTCTTACAC-GGATCACATACCACACTGATGCCATATCCCAAA
1 TATGGTCTTACACAGAAACACATATCACACCGATGCCATAGCCCAGA
*
107218582 TATGGTCTTACACAGAAACACATATCACACCGATGCCATATCCCAGA
1 TATGGTCTTACACAGAAACACATATCACACCGATGCCATAGCCCAGA
* * * * *
107218629 TATGGTCTTATACGGAAGCTCATATCACACCGATGCCATAGCCCAGC
1 TATGGTCTTACACAGAAACACATATCACACCGATGCCATAGCCCAGA
* *
107218676 TATGGTCTTATACGGAAATCACATA-CACA
1 TATGGTCTTACACAGAAA-CACATATCACA
107218705 TGTTGTCATG
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
46 26 0.18
47 90 0.63
48 15 0.11
49 11 0.08
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (47 bp):
TATGGTCTTACACAGAAACACATATCACACCGATGCCATAGCCCAGA
Found at i:107218644 original size:93 final size:94
Alignment explanation
Indices: 107218487--107218704 Score: 233
Period size: 94 Copynumber: 2.3 Consensus size: 94
107218477 ATAGTAAAAC
* * ** *
107218487 TATGGTCTTGCACATAGTCACATATCACATACCGAAGCCATAGCCCAGCCATGGTCTTACACGG-
1 TATGGTCTTACACAGAAACACATATCAC--ACCGAAGCCATAGCCCAGACATGGTCTTACACGGA
* * *
107218551 ATCACATACCACACTGATGCCATATCCCAAA
64 AGCACATACCACACCGATGCCATAGCCCAAA
* * * *
107218582 TATGGTCTTACACAGAAACACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 TATGGTCTTACACAGAAACACATATCACACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAG
* * **
107218647 CTCATATCACACCGATGCCATAGCCCAGC
66 CACATACCACACCGATGCCATAGCCCAAA
* *
107218676 TATGGTCTTATACGGAAATCACATA-CACA
1 TATGGTCTTACACAGAAA-CACATATCACA
107218705 TGTTGTCATG
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
93 29 0.28
94 44 0.43
95 30 0.29
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (94 bp):
TATGGTCTTACACAGAAACACATATCACACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAG
CACATACCACACCGATGCCATAGCCCAAA
Found at i:107219638 original size:23 final size:22
Alignment explanation
Indices: 107219608--107219655 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
107219598 ATGTCATATT
* *
107219608 TTATGTTTCTTTTAAT-TTGTGA
1 TTATGTTT-TTATAATGTTGTCA
107219630 TTATCGTTTTTATAATGTTGTCA
1 TTAT-GTTTTTATAATGTTGTCA
107219653 TTA
1 TTA
107219656 AAATTCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.60
Consensus pattern (22 bp):
TTATGTTTTTATAATGTTGTCA
Found at i:107223585 original size:26 final size:26
Alignment explanation
Indices: 107223550--107223605 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
107223540 TGAAATGCCC
*
107223550 ATCATGGAACATTTACCTAAACCATT
1 ATCATAGAACATTTACCTAAACCATT
*
107223576 ATCATAGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATT
107223602 ATCA
1 ATCA
107223606 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAAACCATT
Found at i:107225004 original size:70 final size:70
Alignment explanation
Indices: 107224884--107225090 Score: 315
Period size: 70 Copynumber: 3.0 Consensus size: 70
107224874 GGAAAATCAT
* * * *
107224884 ATACTTCGATGCTCACCCAAAGCTACGGTAGTCCACAACATATGCGGAATTACTACCAATCACTA
1 ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
*
107224949 TGCTA
66 TACTA
* *
107224954 ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTAGAATTACTACCAATCACCA
1 ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
* *
107225019 CACTT
66 TACTA
* *
107225024 ATACCTCGATGCTCACATAGAGCTACAGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
1 ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
107225089 TA
66 TA
107225091 TTCGTAAAAC
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 123 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (70 bp):
ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
TACTA
Found at i:107228280 original size:10 final size:10
Alignment explanation
Indices: 107228265--107228314 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
107228255 AAATTTTAGG
107228265 ATTTAT-TTT
1 ATTTATCTTT
107228274 CATTTATCTTT
1 -ATTTATCTTT
*
107228285 AATTATCTTT
1 ATTTATCTTT
107228295 ATTTAT-TTGT
1 ATTTATCTT-T
107228305 ATTTATCTTT
1 ATTTATCTTT
107228315 TAAAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:107229226 original size:12 final size:12
Alignment explanation
Indices: 107229209--107229241 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
107229199 CTACTTCCCC
107229209 TTTACTATTATT
1 TTTACTATTATT
107229221 TTTACTATTATT
1 TTTACTATTATT
107229233 TTTACTATT
1 TTTACTATT
107229242 TACAGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTACTATTATT
Found at i:107229823 original size:19 final size:18
Alignment explanation
Indices: 107229795--107229831 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
107229785 TTTTGGTGGA
*
107229795 TTTTAATTTTTATATTTT
1 TTTTAATTTTTAAATTTT
107229813 TTTTGAATTTTTAAATTTT
1 TTTT-AATTTTTAAATTTT
107229832 AATCTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTAATTTTTAAATTTT
Found at i:107230440 original size:42 final size:42
Alignment explanation
Indices: 107230394--107230477 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
107230384 ACCAGAGAGT
107230394 ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
1 ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
107230436 ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
1 ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
107230478 TTAGAATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (42 bp):
ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
Found at i:107230794 original size:5 final size:5
Alignment explanation
Indices: 107230784--107230816 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
107230774 TTGTGTGTTC
107230784 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
107230817 TACAAATTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:107232854 original size:21 final size:21
Alignment explanation
Indices: 107232803--107232854 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
107232793 GGAGTGTTAA
*
107232803 TAAGTTAATATTAAAGTTTTG
1 TAAGTTAATTTTAAAGTTTTG
*
107232824 TCAAG-AAATTTTAAAGTTTTG
1 T-AAGTTAATTTTAAAGTTTTG
107232845 -ATAGTTAATT
1 TA-AGTTAATT
107232855 GAACAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 19 0.76
22 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.46
Consensus pattern (21 bp):
TAAGTTAATTTTAAAGTTTTG
Found at i:107234706 original size:67 final size:64
Alignment explanation
Indices: 107234632--107234838 Score: 161
Period size: 67 Copynumber: 3.2 Consensus size: 64
107234622 CATCATGTGT
*
107234632 ACAAGAGAGCTACGAGACATTATGATTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
1 ACAAGAGAGCTACGAGA-A-TATGA-TAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
107234697 AG
63 AG
** * *** * * * *
107234699 ACAAGAGATATACGGGATATATG-TAGCTAGGTCGCATACATGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGA-ATATGATAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATG
107234763 TAG
62 TAG
* * * * *
107234766 ACAAGAGAGCTACGAG-ATA-AACTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGAATATGA-TAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
107234828 TACAAGAGAGC
1 -ACAAGAGAGC
107234839 CGAACTATAT
Statistics
Matches: 107, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.18
64 20 0.19
65 3 0.03
66 24 0.22
67 40 0.37
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGAATATGATAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:107237853 original size:29 final size:29
Alignment explanation
Indices: 107237811--107237886 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
107237801 GGAAGAAGTG
107237811 AGAACTTGTTCGTTGAGAGTTTGCGATGA
1 AGAACTTGTTCGTTGAGAGTTTGCGATGA
107237840 AGAACTTGTTCGTTGAGAGTTTGCGATGA
1 AGAACTTGTTCGTTGAGAGTTTGCGATGA
* *
107237869 AGAGCTTGTTCATTGAGA
1 AGAACTTGTTCGTTGAGA
107237887 ATTCGTGTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.25, C:0.11, G:0.30, T:0.34
Consensus pattern (29 bp):
AGAACTTGTTCGTTGAGAGTTTGCGATGA
Found at i:107238230 original size:5 final size:5
Alignment explanation
Indices: 107238220--107238247 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
107238210 TTGTGTGTTC
107238220 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
107238248 CACAATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:107245499 original size:18 final size:17
Alignment explanation
Indices: 107245476--107245509 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
107245466 TTTGCACCAG
107245476 ACTAACAACTCATAACAA
1 ACTAACAACTC-TAACAA
*
107245494 ACTAACTACTCTAACA
1 ACTAACAACTCTAACA
107245510 TGCATCCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (17 bp):
ACTAACAACTCTAACAA
Found at i:107250389 original size:18 final size:17
Alignment explanation
Indices: 107250366--107250399 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
107250356 TTTGCACTAG
107250366 ACTAACAACTCATAACAA
1 ACTAACAACTC-TAACAA
*
107250384 ACTAACTACTCTAACA
1 ACTAACAACTCTAACA
107250400 CACCTTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (17 bp):
ACTAACAACTCTAACAA
Found at i:107250906 original size:26 final size:25
Alignment explanation
Indices: 107250866--107250914 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
107250856 AAAAAGAATT
*
107250866 TAAAATTTGAAATTTTGAGATAAAAA
1 TAAAATATGAAA-TTTGAGATAAAAA
* *
107250892 TAAAATATGAGATTTGTGATAAA
1 TAAAATATGAAATTTGAGATAAA
107250915 CCATAAAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (25 bp):
TAAAATATGAAATTTGAGATAAAAA
Found at i:107251381 original size:14 final size:15
Alignment explanation
Indices: 107251362--107251398 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
107251352 ATAATTAAAA
107251362 ATATAATAATAAT-G
1 ATATAATAATAATAG
107251376 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
107251390 TTATAATAA
1 ATATAATAA
107251399 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:107258751 original size:45 final size:45
Alignment explanation
Indices: 107258684--107258792 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
107258674 AATAAAACAT
*
107258684 AAAG-AAAAGGGAAAAAGAAGGGCACGAACAGAATAGGGAAAAAAAG
1 AAAGAAAAAGGG--AAAGAAGGGCACGAACAGAACAGGGAAAAAAAG
* *
107258730 AAAGAAAAAGGGAAAGAAGGGCAGGAACAGAACAGGGAAAGAAAG
1 AAAGAAAAAGGGAAAGAAGGGCACGAACAGAACAGGGAAAAAAAG
**
107258775 AAAGAAAAAATGAAAGAA
1 AAAGAAAAAGGGAAAGAA
107258793 AAAAAAGGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
45 46 0.81
46 4 0.07
47 7 0.12
ACGTcount: A:0.62, C:0.06, G:0.30, T:0.02
Consensus pattern (45 bp):
AAAGAAAAAGGGAAAGAAGGGCACGAACAGAACAGGGAAAAAAAG
Found at i:107259667 original size:18 final size:18
Alignment explanation
Indices: 107259640--107259677 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
107259630 TTTGTACCTG
*
107259640 ACTATGACTGTTATTGTT
1 ACTATGACTGTTACTGTT
*
107259658 ACTATTACTGTTACTGTT
1 ACTATGACTGTTACTGTT
107259676 AC
1 AC
107259678 CCTATGGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (18 bp):
ACTATGACTGTTACTGTT
Found at i:107260928 original size:31 final size:31
Alignment explanation
Indices: 107260857--107260931 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
107260847 TGTAACACAT
* *
107260857 AAACTTTAA-TTTGGTGCAATTATATACGTG
1 AAACTTTAATTTTGGTGCAAATATATACGTA
* * * *
107260887 ATACTCTAATTTTGGTTCAAATATATACTTA
1 AAACTTTAATTTTGGTGCAAATATATACGTA
107260918 AAACTTTAATTTTG
1 AAACTTTAATTTTG
107260932 ATTTAATCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 7 0.19
31 29 0.81
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
AAACTTTAATTTTGGTGCAAATATATACGTA
Found at i:107263749 original size:3 final size:3
Alignment explanation
Indices: 107263741--107263775 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
107263731 AGAAGGAAAG
107263741 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
107263776 GAGAATTGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:107264043 original size:18 final size:17
Alignment explanation
Indices: 107264016--107264051 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
107264006 TTTTGGTGGA
*
107264016 TTTTAATTTTTATATTT
1 TTTTAATTTTTAAATTT
107264033 TTTTAAATTTTTAAATTT
1 TTTT-AATTTTTAAATTT
107264051 T
1 T
107264052 AATCTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTAATTTTTAAATTT
Found at i:107264062 original size:25 final size:25
Alignment explanation
Indices: 107264016--107264064 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
107264006 TTTTGGTGGA
* *
107264016 TTTTAATTTTTATATTTTTTTAAAT
1 TTTTAAATTTTATATTTATTTAAAT
107264041 TTTTAAATTTTA-ATCTTATTTAAA
1 TTTTAAATTTTATAT-TTATTTAAA
107264065 CTATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTAAATTTTATATTTATTTAAAT
Found at i:107264126 original size:38 final size:34
Alignment explanation
Indices: 107264085--107264154 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
107264075 AAATATGCAT
107264085 TATA-TATATAAT-TAATTATATACTTATACTTAA
1 TATATTATAT-ATCTAATTATATACTTATACTTAA
107264118 TATATTATATATCTAATTATATACTTATACTTAA
1 TATATTATATATCTAATTATATACTTATACTTAA
107264152 TAT
1 TAT
107264155 TCTCGCCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (34 bp):
TATATTATATATCTAATTATATACTTATACTTAA
Found at i:107265537 original size:22 final size:23
Alignment explanation
Indices: 107265520--107265574 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
107265510 GGTATACACG
107265520 TACATAATAA-AATATATACTAA
1 TACATAATAATAATATATACTAA
**
107265542 TACATAATAATAATA-ATGGTAA
1 TACATAATAATAATATATACTAA
107265564 TAC-TAATAATA
1 TACATAATAATA
107265575 CTAATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 8 0.27
22 18 0.60
23 4 0.13
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
TACATAATAATAATATATACTAA
Found at i:107265553 original size:3 final size:3
Alignment explanation
Indices: 107265523--107265592 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
107265513 ATACACGTAC
* * * *
107265523 ATA ATA A-A ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
107265569 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
107265593 CAAGGATATT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:107266040 original size:18 final size:18
Alignment explanation
Indices: 107266017--107266054 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
107266007 AAAGAAAAAA
*
107266017 AGAAGAGAGAGGGAAGAG
1 AGAAGAGAGAGAGAAGAG
107266035 AGAAGAGAGAGAGAAGAG
1 AGAAGAGAGAGAGAAGAG
107266053 AG
1 AG
107266055 GGGAATCCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (18 bp):
AGAAGAGAGAGAGAAGAG
Found at i:107288998 original size:25 final size:25
Alignment explanation
Indices: 107288964--107289015 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
107288954 AAAAAATGAG
107288964 TAGAAAATATTAATAATTTAGTGAA
1 TAGAAAATATTAATAATTTAGTGAA
107288989 TAGAAAATATTAATAATTTAGTGAA
1 TAGAAAATATTAATAATTTAGTGAA
107289014 TA
1 TA
107289016 TAAGTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (25 bp):
TAGAAAATATTAATAATTTAGTGAA
Found at i:107290920 original size:54 final size:54
Alignment explanation
Indices: 107290843--107290945 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
107290833 ATCAGTGACA
*
107290843 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAATT
1 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAATT
* *
107290897 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGA
107290946 TAAATGTGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (54 bp):
AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAATT
Found at i:107298606 original size:17 final size:18
Alignment explanation
Indices: 107298566--107298607 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
107298556 CCAGTTCGAT
*
107298566 TAAAAAATTATTAAAAAT
1 TAAAAAATTATTAAAAAA
*
107298584 TTAAAAA-TATTAAAAAA
1 TAAAAAATTATTAAAAAA
107298601 TAAAAAA
1 TAAAAAA
107298608 AATTGAACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAATTATTAAAAAA
Found at i:107303593 original size:28 final size:28
Alignment explanation
Indices: 107303559--107303622 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
107303549 ATACAAGTTT
*
107303559 TTTTATTTTGATTTTTA-AAAATTTATAA
1 TTTTATTTTGA-TATTAGAAAATTTATAA
107303587 TTTTATTTTGATATTAGAAAATTTATAA
1 TTTTATTTTGATATTAGAAAATTTATAA
*
107303615 TTGTATTT
1 TTTTATTT
107303623 ATAATTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (28 bp):
TTTTATTTTGATATTAGAAAATTTATAA
Found at i:107305934 original size:5 final size:5
Alignment explanation
Indices: 107305920--107305999 Score: 54
Period size: 5 Copynumber: 15.0 Consensus size: 5
107305910 CAATCTTTCT
* * * *
107305920 TTTTA TTTTTA TTTTTA TTTATTA TTTTC CTTTC TTTTC TTTTA TTATT-
1 TTTTA -TTTTA -TTTTA -TT-TTA TTTTA TTTTA TTTTA TTTTA TT-TTA
*
107305969 TATTA TTTTA TTTTA TTATTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA
107306000 GTTAAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
4 2 0.03
5 36 0.56
6 23 0.36
7 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:107305944 original size:13 final size:12
Alignment explanation
Indices: 107305919--107305998 Score: 56
Period size: 13 Copynumber: 6.3 Consensus size: 12
107305909 CCAATCTTTC
107305919 TTTTTATTTTTA
1 TTTTTATTTTTA
107305931 TTTTTATTTATTA
1 TTTTTATTT-TTA
** *
107305944 TTTTCCTTTCTTT
1 TTTTTATTT-TTA
107305957 TCTTTTATTATTTA
1 T-TTTTATT-TTTA
107305971 TTATTT-TATTTTA
1 TT-TTTAT-TTTTA
*
107305984 TTATTA-TTTTA
1 TTTTTATTTTTA
107305995 TTTT
1 TTTT
107305999 AGTTAAATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.15
12 11 0.21
13 21 0.40
14 12 0.23
15 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:107305977 original size:20 final size:21
Alignment explanation
Indices: 107305954--107305999 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
107305944 TTTTCCTTTC
*
107305954 TTTTCTTTTATTATT-TATTA
1 TTTTATTTTATTATTATATTA
*
107305974 TTTTATTTTATTATTATTTTA
1 TTTTATTTTATTATTATATTA
107305995 TTTTA
1 TTTTA
107306000 GTTAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTATTATATTA
Found at i:107305980 original size:8 final size:8
Alignment explanation
Indices: 107305959--107305996 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
107305949 CTTTCTTTTC
107305959 TTTTATTA
1 TTTTATTA
107305967 -TTTATTA
1 TTTTATTA
107305974 TTTTATT-
1 TTTTATTA
107305981 TTATTATTA
1 TT-TTATTA
107305990 TTTTATT
1 TTTTATT
107305997 TTAGTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 9 0.33
8 16 0.59
9 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTA
Found at i:107307153 original size:118 final size:118
Alignment explanation
Indices: 107306945--107307175 Score: 363
Period size: 118 Copynumber: 2.0 Consensus size: 118
107306935 TGTTTTCCAT
* * *
107306945 GGTTATGAGTACAGCTTAGATCGTGGCTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
107307010 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
66 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
** *
107307063 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
* ****
107307128 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTA
107307176 ACCAGAAATA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 102 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
Found at i:107309644 original size:22 final size:22
Alignment explanation
Indices: 107309586--107309644 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
107309576 CACGCAGTTG
*
107309586 TGTGACCTATC-CACATGGCCA
1 TGTGACCTATCTCACACGGCCA
*
107309607 TGTGACCCA-CTCACACGGCCA
1 TGTGACCTATCTCACACGGCCA
107309628 TGT-AGCCTATCTCACAC
1 TGTGA-CCTATCTCACAC
107309645 AGGCATGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 2 0.06
21 23 0.72
22 7 0.22
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (22 bp):
TGTGACCTATCTCACACGGCCA
Found at i:107310628 original size:17 final size:18
Alignment explanation
Indices: 107310601--107310642 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
107310591 TATAAATTAA
107310601 AAAATATATAAATT-TTTT
1 AAAA-ATATAAATTATTTT
107310619 AAAAATATAAATTAATTTT
1 AAAAATATAAATT-ATTTT
107310638 AAAAA
1 AAAAA
107310643 GTATGATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 4 0.18
19 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATATAAATTATTTT
Found at i:107310635 original size:21 final size:20
Alignment explanation
Indices: 107310597--107310637 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
107310587 CGGATATAAA
*
107310597 TTAAAAAATATATAAATTTT
1 TTAAAAAATAAATAAATTTT
*
107310617 TTAAAAATATAAATTAATTTT
1 TTAAAAA-ATAAATAAATTTT
107310638 AAAAAGTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAAAATAAATAAATTTT
Found at i:107311800 original size:56 final size:57
Alignment explanation
Indices: 107311734--107311848 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 57
107311724 CTCTAAAAAA
* * *
107311734 TTCATTATCTAAATTTACC-TTACCATGAATTAAACCTGCAGAAAAAAATCA-TAAAT
1 TTCATAATCTAAATTTACCTTTACCATAAATTAAACATGCAG-AAAAAATCATTAAAT
* * *
107311790 TTCATAATCTAATTTTGCCTTTTACCATAAATTACACATGCAGAAAAAATCATTAAAT
1 TTCATAATCTAAATTTACC-TTTACCATAAATTAAACATGCAGAAAAAATCATTAAAT
107311848 T
1 T
107311849 ATTATGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
56 16 0.32
57 9 0.18
58 25 0.50
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (57 bp):
TTCATAATCTAAATTTACCTTTACCATAAATTAAACATGCAGAAAAAATCATTAAAT
Found at i:107313477 original size:3 final size:3
Alignment explanation
Indices: 107313469--107313509 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
107313459 GGAAAACATA
107313469 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
107313510 AGAGGGAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:107314458 original size:28 final size:27
Alignment explanation
Indices: 107314426--107314515 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 27
107314416 CTTTATGCAT
107314426 ACATTTTTAAATTTTTTATTTGAAAGTA
1 ACATTTTT-AATTTTTTATTTGAAAGTA
* * *
107314454 ACATTTTT--TTTTTCATATCTT-TATGCA
1 ACATTTTTAATTTTT--TAT-TTGAAAGTA
107314481 TACATTTTTAATTTTTTTATTTGAAAGTA
1 -ACATTTTTAA-TTTTTTATTTGAAAGTA
107314510 ACATTT
1 ACATTT
107314516 CTTTGCTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
25 5 0.10
27 6 0.12
28 26 0.54
29 6 0.12
31 5 0.10
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.57
Consensus pattern (27 bp):
ACATTTTTAATTTTTTATTTGAAAGTA
Found at i:107316066 original size:17 final size:16
Alignment explanation
Indices: 107316017--107316053 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
107316007 AAGCTAAGTC
107316017 AAAAAAGAAAACGAAA
1 AAAAAAGAAAACGAAA
107316033 AAAAAAGAAAACGAAA
1 AAAAAAGAAAACGAAA
107316049 AAAAA
1 AAAAA
107316054 GGTAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAACGAAA
Found at i:107317171 original size:26 final size:25
Alignment explanation
Indices: 107317119--107317172 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
107317109 TACTTTTATA
**
107317119 AAATAATTAATAAAATTAATTGGTC
1 AAATAATTAATAAAATTAATTAATC
* *
107317144 AAATCAATTAATAGAATTAGTTAATC
1 AAAT-AATTAATAAAATTAATTAATC
107317170 AAA
1 AAA
107317173 CTAGTCACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (25 bp):
AAATAATTAATAAAATTAATTAATC
Found at i:107320987 original size:10 final size:10
Alignment explanation
Indices: 107320972--107321008 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
107320962 AAATTAAAAT
107320972 TAAAATAATA
1 TAAAATAATA
*
107320982 TAAAATGATA
1 TAAAATAATA
*
107320992 TAAAAAAATA
1 TAAAATAATA
107321002 TAAAATA
1 TAAAATA
107321009 CAAAATTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
TAAAATAATA
Found at i:107321860 original size:28 final size:29
Alignment explanation
Indices: 107321813--107321868 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
107321803 AATCAATGAC
107321813 CAAAATTTGAATAAGTAAATATAAGTATA
1 CAAAATTTGAATAAGTAAATATAAGTATA
107321842 CAAAATTTG-ATAAGTAAATATAAGTAT
1 CAAAATTTGAATAAGTAAATATAAGTAT
107321869 GCAACTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (29 bp):
CAAAATTTGAATAAGTAAATATAAGTATA
Found at i:107322969 original size:14 final size:14
Alignment explanation
Indices: 107322950--107322981 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
107322940 TCCAATCACC
107322950 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
107322964 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
107322978 GGGC
1 GGGC
107322982 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:107328094 original size:14 final size:14
Alignment explanation
Indices: 107328075--107328106 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
107328065 TCCAATCACC
107328075 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
107328089 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
107328103 GGGC
1 GGGC
107328107 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:107329145 original size:35 final size:37
Alignment explanation
Indices: 107329097--107329182 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 37
107329087 AGATGAGTTC
* *
107329097 AAAAATATAAAAAAATTAATAATTATTTA-AAAATT-T
1 AAAATTAT-AAAAAATTAATAATAATTTATAAAATTAT
*
107329133 AAAATTATAAAAAATTATTAATAATTTATAAAATTAT
1 AAAATTATAAAAAATTAATAATAATTTATAAAATTAT
107329170 AAAATTAATAAAA
1 AAAATT-ATAAAA
107329183 TGCACATATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 18 0.41
36 13 0.30
37 7 0.16
38 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (37 bp):
AAAATTATAAAAAATTAATAATAATTTATAAAATTAT
Found at i:107329173 original size:27 final size:28
Alignment explanation
Indices: 107329108--107329176 Score: 58
Period size: 27 Copynumber: 2.5 Consensus size: 28
107329098 AAAATATAAA
*
107329108 AAAATTA-ATAATTATTT-AAAAA-TTT
1 AAAATTATAAAATTATTTAAAAAATTTT
*
107329133 AAAATTATAAAAAATTA-TT-AATAATTTAT
1 AAAATTAT--AAAATTATTTAAAAAATTT-T
107329162 AAAATTATAAAATTA
1 AAAATTATAAAATTA
107329177 ATAAAATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 7 0.19
27 13 0.35
28 8 0.22
29 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAATTATAAAATTATTTAAAAAATTTT
Found at i:107329174 original size:8 final size:8
Alignment explanation
Indices: 107329126--107329183 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 8
107329116 TAATTATTTA
107329126 AAAATT-T
1 AAAATTAT
107329133 AAAATTAT
1 AAAATTAT
107329141 AAAAAATTATT
1 --AAAATTA-T
107329152 AATAATTTAT
1 AA-AA-TTAT
107329162 AAAATTAT
1 AAAATTAT
107329170 AAAATTAAT
1 AAAATT-AT
107329179 AAAAT
1 AAAAT
107329184 GCACATATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 6 0.14
8 11 0.25
9 11 0.25
10 12 0.27
11 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAATTAT
Found at i:107329183 original size:17 final size:17
Alignment explanation
Indices: 107329126--107329183 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
107329116 TAATTATTTA
*
107329126 AAAATT-TAAAATTATAA
1 AAAATTATAAAATTA-AT
*
107329143 AAAATTATTAATAATTTAT
1 AAAATTA-TAA-AATTAAT
107329162 AAAATTATAAAATTAAT
1 AAAATTATAAAATTAAT
107329179 AAAAT
1 AAAAT
107329184 GCACATATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 17 0.49
18 3 0.09
19 11 0.31
20 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATAAAATTAAT
Found at i:107329924 original size:10 final size:10
Alignment explanation
Indices: 107329909--107329958 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
107329899 TAATTTTAGG
107329909 ATTTAT-TTT
1 ATTTATCTTT
107329918 CATTTATCTTT
1 -ATTTATCTTT
*
107329929 AATTATCTTT
1 ATTTATCTTT
*
107329939 ATTTAT-TGGT
1 ATTTATCT-TT
107329949 ATTTATCTTT
1 ATTTATCTTT
107329959 TAGAATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 1 0.03
10 28 0.85
11 4 0.12
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:107330700 original size:18 final size:18
Alignment explanation
Indices: 107330671--107330710 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
107330661 TTTATTTTTT
107330671 ATTTATTTTAATTTCTGCA
1 ATTTATTTTAATTTC-GCA
107330690 ATTTA-TTTAATTTCGCA
1 ATTTATTTTAATTTCGCA
107330707 ATTT
1 ATTT
107330711 CAATTCACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 9 0.43
19 5 0.24
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTATTTTAATTTCGCA
Found at i:107331756 original size:25 final size:25
Alignment explanation
Indices: 107331710--107331757 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
107331700 ATTTAAAATT
*
107331710 ATATTTTTAATTTTTAATTTTTTTC
1 ATATTTTTAATTTTTAAATTTTTTC
107331735 ATATTTTT-ATTTTTAGAATTTTT
1 ATATTTTTAATTTTTA-AATTTTT
107331758 AAATAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (25 bp):
ATATTTTTAATTTTTAAATTTTTTC
Found at i:107334747 original size:16 final size:16
Alignment explanation
Indices: 107334726--107334761 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
107334716 TAAAAAATTT
*
107334726 AAACTTAAAATGATTA
1 AAACTTAAAATGACTA
*
107334742 AAACTTAAATTGACTA
1 AAACTTAAAATGACTA
107334758 AAAC
1 AAAC
107334762 ATGTAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (16 bp):
AAACTTAAAATGACTA
Found at i:107337006 original size:17 final size:18
Alignment explanation
Indices: 107336971--107337009 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
107336961 ATACGACCCT
*
107336971 TCAAATAACATACCCATG
1 TCAAATAACATACCAATG
*
107336989 TCAAAT-ACGTACCAATG
1 TCAAATAACATACCAATG
107337006 TCAA
1 TCAA
107337010 CACACCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.23
Consensus pattern (18 bp):
TCAAATAACATACCAATG
Found at i:107340145 original size:33 final size:33
Alignment explanation
Indices: 107340108--107340175 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
107340098 CATAATTATA
107340108 ATTATATTAATTTTTTATCAATAATAAATTTAC
1 ATTATATTAATTTTTTATCAATAATAAATTTAC
*
107340141 ATTATATTAATTTTTTATCGATAATAAATTTAC
1 ATTATATTAATTTTTTATCAATAATAAATTTAC
107340174 AT
1 AT
107340176 GAGTTATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (33 bp):
ATTATATTAATTTTTTATCAATAATAAATTTAC
Found at i:107344287 original size:12 final size:12
Alignment explanation
Indices: 107344270--107344295 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
107344260 TTCAAGCTTC
107344270 TTCATTTTCTTT
1 TTCATTTTCTTT
107344282 TTCATTTTCTTT
1 TTCATTTTCTTT
107344294 TT
1 TT
107344296 TTTTTGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCATTTTCTTT
Found at i:107346070 original size:28 final size:30
Alignment explanation
Indices: 107346037--107346093 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
107346027 TCTAGAATTT
*
107346037 TTATAA-TTTTTAATAA-TTTTTTAAAAAA
1 TTATAACTTTTAAATAACTTTTTTAAAAAA
*
107346065 TTATAACTTTTAAATAACTTTTTTTAAAA
1 TTATAACTTTTAAATAACTTTTTTAAAAA
107346094 CCCACGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 9 0.36
30 10 0.40
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
TTATAACTTTTAAATAACTTTTTTAAAAAA
Found at i:107350023 original size:34 final size:35
Alignment explanation
Indices: 107349963--107350032 Score: 81
Period size: 34 Copynumber: 2.0 Consensus size: 35
107349953 TTAAATTAGT
* *
107349963 ATGTTATTAATACATAAAATAATAATATAT-TATA
1 ATGTTACTAATACATAAAATAATAATACATATATA
* *
107349997 ATGTTACTATTAC-TAAAACTATTAATACATATATA
1 ATGTTACTAATACATAAAA-TAATAATACATATATA
107350032 A
1 A
107350033 CTATTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (35 bp):
ATGTTACTAATACATAAAATAATAATACATATATA
Found at i:107350460 original size:223 final size:229
Alignment explanation
Indices: 107350032--107350460 Score: 567
Period size: 223 Copynumber: 1.9 Consensus size: 229
107350022 TACATATATA
* *
107350032 ACTATTATTATAAGATAGATTATAATAAAAAAATATAATATTGCATGATATTAATTATAATGTTT
1 ACTATTATTATAAGATAGATTATAATAAAAAAATATAATATTACATGA-ATTAATTATAACGTTT
*
107350097 AATCATTGATGCATATATATAAACTATTAATATATCATATGATATGATATAGCATTATATAATAT
65 AATCATTGATGCATATATATAAACTATT-ATATATCATATGATATGATATAACATTATATAATAT
* * * * * *
107350162 AGTAAGAGGGTTAACTTTTAAATGTATATATGAAAAGCATACTGACTTAGAGTATATTTCAACTA
129 AGTAAGAGGGATAAATTTCAAATG-ATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTA
107350227 GTATAATAAT-ATATAATAAGTAATAAATAATATACT
193 GTATAATAATAATATAATAAGTAATAAATAATATACT
* * * *
107350263 ACTATTGTTATAATATAGATTATAAT-AAAAGATATAGTATTACATG-A-T-ATTATAACGTTTA
1 ACTATTATTATAAGATAGATTATAATAAAAAAATATAATATTACATGAATTAATTATAACGTTTA
*
107350324 ATCATTTATGCGTATATATATAAACTA-T-TA-AT-ATATGATATGATATAACATTATATAATAT
66 ATCATTGATGC--ATATATATAAACTATTATATATCATATGATATGATATAACATTATATAATAT
* * *
107350385 AGTAGGAGGGATAAATTTCAAATG-TA-A-GAAAAGTACAGGGACTTAGAGCATATTTCAACTAG
129 AGTAAGAGGGATAAATTTCAAATGATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTAG
107350447 TATAATAAATAATA
194 TATAAT-AATAATA
107350461 ATATATGATA
Statistics
Matches: 177, Mismatches: 17, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
219 36 0.20
220 4 0.02
221 5 0.03
223 48 0.27
224 2 0.01
225 2 0.01
226 22 0.12
227 2 0.01
228 15 0.08
230 17 0.10
231 24 0.14
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (229 bp):
ACTATTATTATAAGATAGATTATAATAAAAAAATATAATATTACATGAATTAATTATAACGTTTA
ATCATTGATGCATATATATAAACTATTATATATCATATGATATGATATAACATTATATAATATAG
TAAGAGGGATAAATTTCAAATGATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTAGTA
TAATAATAATATAATAAGTAATAAATAATATACT
Found at i:107351000 original size:9 final size:9
Alignment explanation
Indices: 107350980--107351029 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
107350970 TCACTCTCTC
107350980 AATATA-AT
1 AATATATAT
107350988 AATATATAT
1 AATATATAT
*
107350997 AATAGATAT
1 AATATATAT
*
107351006 TATA-ATGAT
1 AATATAT-AT
*
107351015 AAAATATAT
1 AATATATAT
107351024 AATATA
1 AATATA
107351030 AACAAAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
8 8 0.24
9 24 0.71
10 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (9 bp):
AATATATAT
Found at i:107352755 original size:26 final size:26
Alignment explanation
Indices: 107352718--107352801 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
107352708 TGATACAAAT
* *
107352718 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107352744 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107352770 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107352796 TGATAA
1 TGATAA
107352802 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:107358487 original size:26 final size:26
Alignment explanation
Indices: 107358450--107358533 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
107358440 TGATACAAAT
* *
107358450 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107358476 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107358502 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
107358528 TGATAA
1 TGATAA
107358534 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:107362871 original size:22 final size:21
Alignment explanation
Indices: 107362846--107362887 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
107362836 ATATTAAGAT
107362846 AAAACAATAAGTGATAATAATG
1 AAAACAATAAGT-ATAATAATG
* *
107362868 AAAAGAATAGGTATAATAAT
1 AAAACAATAAGTATAATAAT
107362888 AAATAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAACAATAAGTATAATAATG
Found at i:107362936 original size:33 final size:34
Alignment explanation
Indices: 107362882--107362964 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 34
107362872 GAATAGGTAT
* * *
107362882 AATA-ATAAATAAAATGATATACGAA-AATAATAC
1 AATATATATATAATATGATATAC-AAGAATAATAA
*
107362915 CATATATATATAATATG-TATACAAGAATAATAA
1 AATATATATATAATATGATATACAAGAATAATAA
*
107362948 AATATATGTACTAATAT
1 AATATATATA-TAATAT
107362965 TAATAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
32 2 0.05
33 23 0.56
34 16 0.39
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (34 bp):
AATATATATATAATATGATATACAAGAATAATAA
Found at i:107362992 original size:23 final size:26
Alignment explanation
Indices: 107362940--107362993 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
107362930 TGTATACAAG
* *
107362940 AATAATAAAATATATGTACTAATATT
1 AATAATAAAATATATGTACGAATATA
107362966 AATAAT-AAATATA-GTACGAATA-A
1 AATAATAAAATATATGTACGAATATA
107362989 AATAA
1 AATAA
107362994 ATGTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 8 0.31
25 7 0.27
26 6 0.23
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAATAAAATATATGTACGAATATA
Found at i:107363111 original size:26 final size:25
Alignment explanation
Indices: 107363036--107363162 Score: 81
Period size: 24 Copynumber: 5.2 Consensus size: 25
107363026 AAAAATATAC
* *
107363036 ATATACATATAATAGTATTTAAGAAT
1 ATATACATA-AATAGTATATAAAAAT
**
107363062 ATATACATAAGAT-G-ATATGGAAAT
1 ATATACATAA-ATAGTATATAAAAAT
*
107363086 ATGTACATAGAATAGTATATAAAAAT
1 ATATACATA-AATAGTATATAAAAAT
*
107363112 ATA-AC-T-AATAATAT-TGAAAATAT
1 ATATACATAAATAGTATAT-AAAA-AT
*
107363135 AGATACAT-AATA-TATATAAAACAT
1 ATATACATAAATAGTATATAAAA-AT
107363159 ATAT
1 ATAT
107363163 GATATATACA
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
21 1 0.01
22 11 0.14
23 4 0.05
24 31 0.39
25 12 0.15
26 21 0.26
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.33
Consensus pattern (25 bp):
ATATACATAAATAGTATATAAAAAT
Found at i:107363182 original size:21 final size:20
Alignment explanation
Indices: 107363144--107363191 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
107363134 TAGATACATA
* *
107363144 ATATATATAAAACATATATG
1 ATATATACAAAACATATACG
*
107363164 ATATATACATAAACGTATACG
1 ATATATACA-AAACATATACG
*
107363185 ACATATA
1 ATATATA
107363192 TATATTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
ATATATACAAAACATATACG
Found at i:107363588 original size:3 final size:3
Alignment explanation
Indices: 107363574--107363615 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
107363564 AAGTAAACAC
107363574 TAA TACA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
107363616 TTGAGATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 29 0.81
4 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:107363606 original size:133 final size:133
Alignment explanation
Indices: 107363457--107363748 Score: 568
Period size: 133 Copynumber: 2.2 Consensus size: 133
107363447 AAAAAAAAAG
107363457 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
1 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
107363522 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
66 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
107363587 TAA
131 TAA
107363590 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
1 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
107363655 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
66 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
107363720 TAA
131 TAA
107363723 TAATAATAATAATA-ATAATAATAATA
1 TAATAATAATAATATA-AATAATAATA
107363749 ATAATAATAA
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
132 1 0.01
133 157 0.99
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (133 bp):
TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACATAATAA
TAA
Found at i:107363721 original size:3 final size:3
Alignment explanation
Indices: 107363707--107363759 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
107363697 AAGTAAACAC
107363707 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
107363753 TAA TAA T
1 TAA TAA T
107363760 TAAAGTAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:107365265 original size:17 final size:17
Alignment explanation
Indices: 107365243--107365276 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
107365233 ACCTTAGAAA
107365243 GGCAAGATCTAATATCC
1 GGCAAGATCTAATATCC
107365260 GGCAAGATCTAATATCC
1 GGCAAGATCTAATATCC
107365277 TCGATCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
GGCAAGATCTAATATCC
Found at i:107365669 original size:54 final size:54
Alignment explanation
Indices: 107365585--107365948 Score: 557
Period size: 54 Copynumber: 6.7 Consensus size: 54
107365575 ATGTGACCCG
* * * * *
107365585 AGGCTCAACTCACCTATTGCAATATAAGTTGATTTTTGAAAAGTATAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
**
107365639 ATACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
* * *
107365693 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-TAGAAATTAAA
107365748 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
* * *
107365802 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAATAGAAATTAAA
*
107365858 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
* *
107365912 AGGCTCAACTCACCTTTCGCGATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
107365949 TTCAACTCAC
Statistics
Matches: 285, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
54 182 0.64
55 53 0.19
56 50 0.18
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
Found at i:107365950 original size:110 final size:108
Alignment explanation
Indices: 107365585--107365948 Score: 584
Period size: 110 Copynumber: 3.3 Consensus size: 108
107365575 ATGTGACCCG
* * * ** * **
107365585 AGGCTCAACTCACCTATTGCAATATAAGTTGATTTTTGAAAAGTATAAATTAAAATACTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTC
107365650 ACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
66 ACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
*
107365693 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-AAAAATTAAAAGGCTCAACT
107365758 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
65 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
*
107365802 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAAAAATTAAAAGGCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAAAAATTAAAAGGCTCAAC
*
107365867 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
64 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
* *
107365912 AGGCTCAACTCACCTTTCGCGATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
107365949 TTCAACTCAC
Statistics
Matches: 238, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
108 43 0.18
109 91 0.38
110 92 0.39
111 12 0.05
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (108 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
Found at i:107365959 original size:34 final size:34
Alignment explanation
Indices: 107365916--107365983 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
107365906 ATTAAAAGGC
* *
107365916 TCAACTCACCTTTCGCGATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
107365950 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
107365984 GAAAAATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (34 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
Found at i:107365999 original size:253 final size:254
Alignment explanation
Indices: 107365697--107366207 Score: 839
Period size: 253 Copynumber: 2.0 Consensus size: 254
107365687 ATTAAAAGGC
107365697 TCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACC
* * *
107365762 TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
66 TCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
*
107365827 GAGTTGGTTTTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTT-G-A
131 GAGTT-GATTTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGGTA
* *
107365890 TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTTTCGCGATATGAGTTGATTTTTT
195 TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
107365950 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-TAGAAATTAAAAGGCTCAACTCAC
1 TCAACTCACCTCTCACAATATGAGTTGA-TTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCAC
107366014 CTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
65 CTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
* *
107366079 TGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTTACCTCTCGCAATATGAGTTGGTT
130 TGAGTTGATTTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGG--
* *
107366144 TTTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTT
193 -TATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
107366207 T
1 T
107366208 GAAAAACAGA
Statistics
Matches: 239, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
252 52 0.22
253 118 0.49
254 11 0.05
257 58 0.24
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (254 bp):
TCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACTCACC
TCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGGTAT
TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
Found at i:107366034 original size:55 final size:55
Alignment explanation
Indices: 107365950--107366275 Score: 521
Period size: 55 Copynumber: 5.9 Consensus size: 55
107365940 TTGATTTTTT
*
107365950 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
* *
107366005 TCAACTCACCTCTCACAATATGAGTTGA-TTTTTGAAAAACAAAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
107366059 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
* *
107366114 TCAACTTACCTCTCGCAATATGAGTTGGTTTTTTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTT-G---ATTTTTTGAAAAACAGAAATTAAAAGGC
*
107366173 TCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTT-GATTTTTTGAAAAACAGAAATTAAAAGGC
* *
107366229 TCAACTCACCTCTCGCAATATGAATTGA-TTTTTGACAAACAGAAATT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
107366276 GAAATTACCT
Statistics
Matches: 255, Mismatches: 11, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
54 69 0.27
55 78 0.31
56 54 0.21
59 54 0.21
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (55 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
Found at i:107366037 original size:88 final size:88
Alignment explanation
Indices: 107365862--107366037 Score: 307
Period size: 89 Copynumber: 2.0 Consensus size: 88
107365852 ATTAAAAGGC
107365862 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
* * *
107365927 TTCGCGATATGAGTTGATTTTTT
66 CTCACAATATGAGTTGATTTTTT
*
107365950 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
107366015 TCTCACAATATGAGTTGATTTTT
65 TCTCACAATATGAGTTGATTTTT
107366038 GAAAAACAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
88 28 0.34
89 55 0.66
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (88 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
CTCACAATATGAGTTGATTTTTT
Found at i:107366065 original size:143 final size:144
Alignment explanation
Indices: 107365806--107366092 Score: 504
Period size: 143 Copynumber: 2.0 Consensus size: 144
107365796 ATTAAAAGGC
*
107365806 TCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAAAAATTAAAAGGCTCAACTCAC
1 TCAACTCACCTCTCGCAATATGAGTTGGATTTTTTGAAAAACAAAAATTAAAAGGCTCAACTCAC
* * * *
107365871 CTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTTTCGCGATA
66 CTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
107365936 TGAGTTGATTTTTT
131 TGAGTTGATTTTTT
* *
107365950 TCAACTCACCTCTCGCAATATGAGTT-GATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCAC
1 TCAACTCACCTCTCGCAATATGAGTTGGATTTTTTGAAAAACAAAAATTAAAAGGCTCAACTCAC
107366014 CTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
66 CTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
107366079 TGAGTTGATTTTTT
131 TGAGTTGATTTTTT
107366093 GAAAAACAGA
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
143 110 0.81
144 26 0.19
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (144 bp):
TCAACTCACCTCTCGCAATATGAGTTGGATTTTTTGAAAAACAAAAATTAAAAGGCTCAACTCAC
CTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTT
Found at i:107366146 original size:109 final size:109
Alignment explanation
Indices: 107365950--107366275 Score: 526
Period size: 109 Copynumber: 2.9 Consensus size: 109
107365940 TTGATTTTTT
*
107365950 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
* *
107366015 TCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGC
66 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
*
107366059 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTTACC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
*
107366124 TCTCGCAATATGAGTTGGTTTTTTTTTTGAAAAACAGAAATTAAAAGGC
66 TCTCGCAATATGAGTT-G----ATTTTTGAAAAACAGAAATTAAAAGGC
*
107366173 TCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCAC
1 TCAACTCACCTCTCGCAATATGAGTT-GATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCAC
* *
107366238 CTCTCGCAATATGAATTGATTTTTGACAAACAGAAATT
65 CTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
107366276 GAAATTACCT
Statistics
Matches: 201, Mismatches: 10, Indels: 11
0.91 0.05 0.05
Matches are distributed among these distances:
109 78 0.39
110 19 0.09
114 52 0.26
115 52 0.26
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (109 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
Done.