Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 34 of 147
Found at i:7077728 original size:19 final size:19
Alignment explanation
Indices: 7077679--7077729 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
7077669 AATTAAAAAT
* **
7077679 AAAATAAAACTTAAAATATG
1 AAAATAAAA-TGAAAATAAA
7077699 AAAAT-AAATGAAAATAAA
1 AAAATAAAATGAAAATAAA
7077717 AAAATAAAATGAA
1 AAAATAAAATGAA
7077730 TATGGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.44
19 10 0.37
20 5 0.19
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.20
Consensus pattern (19 bp):
AAAATAAAATGAAAATAAA
Found at i:7078537 original size:9 final size:9
Alignment explanation
Indices: 7078515--7078548 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7078505 TCATAAGAAA
*
7078515 AAAAGAAAG
1 AAAATAAAG
*
7078524 GAAATAAAG
1 AAAATAAAG
7078533 AAAATAAAG
1 AAAATAAAG
7078542 AAAATAA
1 AAAATAA
7078549 TAATAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (9 bp):
AAAATAAAG
Found at i:7078552 original size:3 final size:3
Alignment explanation
Indices: 7078544--7078662 Score: 104
Period size: 3 Copynumber: 41.3 Consensus size: 3
7078534 AAATAAAGAA
* * *
7078544 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
7078592 AGT AAT AGT AGT GAT AAT -AT AAA AAT -AC AAT -AT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
7078637 -AT AAT AAT AAT ACT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7078663 TACTATGGTA
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
2 9 0.09
3 88 0.91
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7078667 original size:16 final size:15
Alignment explanation
Indices: 7078606--7078667 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 15
7078596 ATAGTAGTGA
7078606 TAAT-ATAAAAATAC
1 TAATAATAAAAATAC
* *
7078620 AATATAATAAAAATAA
1 TA-ATAATAAAAATAC
*
7078636 T-ATAATAATAATAC
1 TAATAATAAAAATAC
7078650 TAATAATAAAATATAC
1 TAATAATAAAA-ATAC
7078666 TA
1 TA
7078668 TGGTATAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 13 0.34
15 10 0.26
16 15 0.39
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
TAATAATAAAAATAC
Found at i:7079274 original size:60 final size:60
Alignment explanation
Indices: 7079027--7079261 Score: 224
Period size: 60 Copynumber: 3.9 Consensus size: 60
7079017 TGATACTGCA
* * * * * * * *
7079027 AGTCTGAAAGCAACCAAGATCAATTCAAGATCATAAATGAATGACT-AGGATGATGCCGCA
1 AGTCTGAAGGCAACCAAGATCGAGTCGAGGTCATAAATGAATGACTGA-AATAATGCCGCG
* * **
7079087 AGTCTGAAGGCAACCAAGA-CTGAGTCGAGGTCGTAAATGAATGACTCAAACGATGCCGCG
1 AGTCTGAAGGCAACCAAGATC-GAGTCGAGGTCATAAATGAATGACTGAAATAATGCCGCG
** * * * * * **
7079147 AGTCTGAAGGTGACCAAGATTGAATTC-AGGTCATAAATAAATAACCGGGATAATGCCGCG
1 AGTCTGAAGGCAACCAAGATCG-AGTCGAGGTCATAAATGAATGACTGAAATAATGCCGCG
*
7079207 AGTCTGAAGGCAATCAAGATCGAGTCGAGGTCATAAATGAATGACTGAAATAATG
1 AGTCTGAAGGCAACCAAGATCGAGTCGAGGTCATAAATGAATGACTGAAATAATG
7079262 TTGTGAGTCT
Statistics
Matches: 138, Mismatches: 32, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
59 4 0.03
60 130 0.94
61 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (60 bp):
AGTCTGAAGGCAACCAAGATCGAGTCGAGGTCATAAATGAATGACTGAAATAATGCCGCG
Found at i:7079274 original size:120 final size:120
Alignment explanation
Indices: 7079039--7079261 Score: 297
Period size: 120 Copynumber: 1.9 Consensus size: 120
7079029 TCTGAAAGCA
* * * *
7079039 ACCAAGATCAATTCAAGATCATAAATGAATGACTAGGATGATGCCGCAAGTCTGAAGGCAACCAA
1 ACCAAGATCAATTCAAGATCATAAATAAATAACCAGGATAATGCCGCAAGTCTGAAGGCAACCAA
* *
7079104 GACTGAGTCGAGGTCGTAAATGAATGACTCAAACGATGCCGCGAGTCTGAAGGTG
66 GACTGAGTCGAGGTCATAAATGAATGACTCAAACAATGCCGCGAGTCTGAAGGTG
* * * * *
7079159 ACCAAGATTGAATTC-AGGTCATAAATAAATAACCGGGATAATGCCGCGAGTCTGAAGGCAATCA
1 ACCAAGA-TCAATTCAAGATCATAAATAAATAACCAGGATAATGCCGCAAGTCTGAAGGCAACCA
* *
7079223 AGA-TCGAGTCGAGGTCATAAATGAATGACTGAAATAATG
65 AGACT-GAGTCGAGGTCATAAATGAATGACTCAAACAATG
7079262 TTGTGAGTCT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 1 0.01
120 81 0.92
121 6 0.07
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (120 bp):
ACCAAGATCAATTCAAGATCATAAATAAATAACCAGGATAATGCCGCAAGTCTGAAGGCAACCAA
GACTGAGTCGAGGTCATAAATGAATGACTCAAACAATGCCGCGAGTCTGAAGGTG
Found at i:7079357 original size:114 final size:115
Alignment explanation
Indices: 7079234--7079479 Score: 302
Period size: 114 Copynumber: 2.2 Consensus size: 115
7079224 GATCGAGTCG
** ** *
7079234 AGGTCATAAATGAATGACT-GAAATAATGTTGTGAGTCTGAAAATGATCTAACCTAAGCCAAGAT
1 AGGTCATAAATGAATGACTCGAAATAATGTCATGAACCTGAAAATAATCTAACCTAAGCCAAGAT
* * * * *
7079298 CGAATGATTGGGATGATG-C-CGTGAATTTGAAGGTGACCAAGATTGAGTTA
66 CGAATGACTAGGATGATGTCACG-G-ATCTAAAGGTGACCAAGACTGAGTTA
* *
7079348 AGGTCATAAATGAATGA-TCGAAATAATGTCATGAACCTGAAAATAATCTGACCTGAGCCAAGAT
1 AGGTCATAAATGAATGACTCGAAATAATGTCATGAACCTGAAAATAATCTAACCTAAGCCAAGAT
* * * *
7079412 TGGATGACTAGGATGATGTCACGGGTCTAAAGGTGACCAAGACTGAGTTG
66 CGAATGACTAGGATGATGTCACGGATCTAAAGGTGACCAAGACTGAGTTA
7079462 AGGTCATAAATGAATGAC
1 AGGTCATAAATGAATGAC
7079480 CAGGATGATA
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
113 1 0.01
114 107 0.96
115 2 0.02
116 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (115 bp):
AGGTCATAAATGAATGACTCGAAATAATGTCATGAACCTGAAAATAATCTAACCTAAGCCAAGAT
CGAATGACTAGGATGATGTCACGGATCTAAAGGTGACCAAGACTGAGTTA
Found at i:7081347 original size:58 final size:58
Alignment explanation
Indices: 7081229--7081438 Score: 210
Period size: 58 Copynumber: 3.6 Consensus size: 58
7081219 TTTTATGCAG
* * * * **
7081229 GGAAAATTAATACTTTCAACTTTTCCCCAAAATA--TTTTTTAAAAATTTTAATTTCGA
1 GGAAAATTAATACTTTCAACTTTTTCTCAAAA-ACCTTTTTTAAAAAATTTATTTTTAA
*
7081286 GGAAAATTGATACTTTCAACTTTTTCTCAAAAACCTTTTTTAAAAAATTTATTTTTAA
1 GGAAAATTAATACTTTCAACTTTTTCTCAAAAACCTTTTTTAAAAAATTTATTTTTAA
* ** **
7081344 GGAAAATTGATACTTTCAAC-TTTTCTTCAAAGCCCCTTTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTAATACTTTCAACTTTTTC-TCAAA-AACC---TTTTTTAAAAAATTTATTTTTAA
** *
7081406 AAAAAATTAATACTTTCAACTTTTTTTCAAAAA
1 GGAAAATTAATACTTTCAACTTTTTCTCAAAAA
7081439 TATTTCTTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
56 1 0.01
57 34 0.27
58 44 0.34
59 2 0.02
62 43 0.34
63 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.44
Consensus pattern (58 bp):
GGAAAATTAATACTTTCAACTTTTTCTCAAAAACCTTTTTTAAAAAATTTATTTTTAA
Found at i:7081465 original size:62 final size:60
Alignment explanation
Indices: 7081288--7081457 Score: 184
Period size: 62 Copynumber: 2.8 Consensus size: 60
7081278 AATTTCGAGG
* ** ** **
7081288 AAAATTGATACTTTCAACTTTTTCTCAAAAA-CCTT-TTTTAAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTTTCAAAAATATTTCTTTTTGAAAATTTATTTTTAAAA
* ** *
7081346 AAAATTGATACTTTCAACTTTTCTTCAAAGCCCCT-TTTTTTTTTGAAAATTTATTTTTAAAA
1 AAAATTGATACTTTCAACTTTTTTTCAAA---AATATTTCTTTTTGAAAATTTATTTTTAAAA
*
7081408 AAAATTAATACTTTCAACTTTTTTTCAAAAATATTTCTTTTTGAAAATTT
1 AAAATTGATACTTTCAACTTTTTTTCAAAAATATTTCTTTTTGAAAATTT
7081458 TTATTTTTTT
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
58 27 0.29
59 1 0.01
60 16 0.17
61 2 0.02
62 46 0.50
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTTTTCAAAAATATTTCTTTTTGAAAATTTATTTTTAAAA
Found at i:7081481 original size:5 final size:5
Alignment explanation
Indices: 7081473--7081501 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7081463 TTTTTTACAA
7081473 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
7081502 ATAATACTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:7082931 original size:17 final size:17
Alignment explanation
Indices: 7082906--7082953 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
7082896 AAAAGAAAGA
*
7082906 AAAAGAAAATAAATCAT
1 AAAATAAAATAAATCAT
* *
7082923 AAAATAAAAAAAATGAT
1 AAAATAAAATAAATCAT
*
7082940 AAATATGAAATAAA
1 AAA-ATAAAATAAA
7082954 AAAAATCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAATAAAATAAATCAT
Found at i:7082932 original size:24 final size:23
Alignment explanation
Indices: 7082905--7082959 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
7082895 CAAAAGAAAG
*
7082905 AAAAAGAA-AATAAATCATAAAAT
1 AAAAAAAATAATAAAT-ATAAAAT
* *
7082928 AAAAAAAATGATAAATATGAAAT
1 AAAAAAAATAATAAATATAAAAT
7082951 AAAAAAAAT
1 AAAAAAAAT
7082960 CTAAAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (23 bp):
AAAAAAAATAATAAATATAAAAT
Found at i:7082959 original size:23 final size:24
Alignment explanation
Indices: 7082914--7082959 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
7082904 GAAAAAGAAA
7082914 ATAAATCATAAAATAAAAAAAATG
1 ATAAATCATAAAATAAAAAAAATG
*
7082938 ATAAAT-ATGAAATAAAAAAAAT
1 ATAAATCATAAAATAAAAAAAAT
7082960 CTAAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
ATAAATCATAAAATAAAAAAAATG
Found at i:7083256 original size:9 final size:9
Alignment explanation
Indices: 7083242--7083272 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7083232 AGAGGCAACT
7083242 TTTTTTTTG
1 TTTTTTTTG
7083251 -TTTTTTTG
1 TTTTTTTTG
7083259 TTTTTTTTG
1 TTTTTTTTG
7083268 TTTTT
1 TTTTT
7083273 GGTTTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:7083278 original size:23 final size:22
Alignment explanation
Indices: 7083241--7083288 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
7083231 TAGAGGCAAC
* *
7083241 TTTTTTTTTGTTTTTTTGTTTT
1 TTTTTTTTTGGTTTTTTATTTT
7083263 TTTTGTTTTTGGTTTTTTATTTT
1 TTTT-TTTTTGGTTTTTTATTTT
7083286 TTT
1 TTT
7083289 CAAAAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (22 bp):
TTTTTTTTTGGTTTTTTATTTT
Found at i:7083279 original size:17 final size:16
Alignment explanation
Indices: 7083241--7083280 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
7083231 TAGAGGCAAC
*
7083241 TTTTTTTTTGTTTTTT
1 TTTTTTTTTGTTTTTG
7083257 TGTTTTTTTTGTTTTTGG
1 T-TTTTTTTTGTTTTT-G
7083275 TTTTTT
1 TTTTTT
7083281 ATTTTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTG
Found at i:7083280 original size:9 final size:8
Alignment explanation
Indices: 7083243--7083288 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
7083233 GAGGCAACTT
7083243 TTTTTTTG
1 TTTTTTTG
7083251 TTTTTTTG
1 TTTTTTTG
7083259 TTTTTTT-
1 TTTTTTTG
*
7083266 TGTTTTTG
1 TTTTTTTG
* *
7083274 GTTTTTTA
1 TTTTTTTG
7083282 TTTTTTT
1 TTTTTTT
7083289 CAAAAATTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:7083298 original size:130 final size:131
Alignment explanation
Indices: 7083162--7083401 Score: 410
Period size: 130 Copynumber: 1.8 Consensus size: 131
7083152 TTTTTTTTTT
* *
7083162 AAATTTGATCAAAGCTCCTCTAAGCAGAGACTCAATGATTTTGAGAAACATAAACAAAACTCCTC
1 AAATTTGATCAAAGCTCCTCTAAGCAGAGACTCAATGACTTTGAGAAACATAAACAAAACTCATC
*
7083227 TAAATAGAGGCAACTTTTTTTTTGTTTTTTTGTT-TTTTTTGTTTTTGGTTTTTTATTTTTTTCA
66 TAAATAGAGGCAACTTTTTTTTGGTTTTTTTGTTGTTTTTTGTTTTTGGTTTTTTATTTTTTTCA
7083291 A
131 A
* * *
7083292 AAATTTGATCAAAGCTCCTCTAAGTAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTCATC
1 AAATTTGATCAAAGCTCCTCTAAGCAGAGACTCAATGACTTTGAGAAACATAAACAAAACTCATC
*
7083357 TAAATAGAGGCAACTTTTTTTTGGTTTTTTTTTTGTTTTTTGTTT
66 TAAATAGAGGCAACTTTTTTTTGGTTTTTTTGTTGTTTTTTGTTT
7083402 GGTTGTTGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
130 92 0.90
131 10 0.10
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (131 bp):
AAATTTGATCAAAGCTCCTCTAAGCAGAGACTCAATGACTTTGAGAAACATAAACAAAACTCATC
TAAATAGAGGCAACTTTTTTTTGGTTTTTTTGTTGTTTTTTGTTTTTGGTTTTTTATTTTTTTCA
A
Found at i:7083387 original size:11 final size:11
Alignment explanation
Indices: 7083371--7083427 Score: 60
Period size: 11 Copynumber: 4.7 Consensus size: 11
7083361 TAGAGGCAAC
7083371 TTTTTTTTGGT
1 TTTTTTTTGGT
*
7083382 TTTTTTTTTGT
1 TTTTTTTTGGT
7083393 TTTTTGTTTGGTTGT
1 TTTTT-TTT-G--GT
7083408 TGTTTTTTTGGT
1 T-TTTTTTTGGT
7083420 TTTTTTTT
1 TTTTTTTT
7083428 CAAAGCTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 22 0.56
12 6 0.15
14 1 0.03
15 6 0.15
16 4 0.10
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (11 bp):
TTTTTTTTGGT
Found at i:7083407 original size:15 final size:14
Alignment explanation
Indices: 7083381--7083427 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
7083371 TTTTTTTTGG
7083381 TTTTTTTT--TTGT
1 TTTTTTTTGGTTGT
7083393 TTTTTGTTTGGTTGT
1 TTTTT-TTTGGTTGT
7083408 TGTTTTTTTGGTT-T
1 T-TTTTTTTGGTTGT
7083422 TTTTTT
1 TTTTTT
7083428 CAAAGCTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.16
13 8 0.26
14 2 0.06
15 12 0.39
16 4 0.13
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTTTTTTGGTTGT
Found at i:7083477 original size:41 final size:42
Alignment explanation
Indices: 7083432--7083522 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 42
7083422 TTTTTTCAAA
* *
7083432 GCTCCTCTAAACAGAGGCTCAACGAC-TTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTTGAAAAGTAAATT
*
7083473 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTTGAAAAGTAAATT
7083515 GCTCCTCT
1 GCTCCTCT
7083523 GTTACTTTGC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 24 0.52
42 22 0.48
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTTGAAAAGTAAATT
Found at i:7083567 original size:58 final size:58
Alignment explanation
Indices: 7083471--7083580 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
7083461 GGAAAGTAAA
*
7083471 TTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTGTTACT
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTACTCCTCTGTTACT
7083529 TTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAGAAAGTAAATTACTCCTCT
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTTGA-AAAGTAAATTACTCCTCT
7083581 AAACAGAGGC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
57 5 0.10
58 45 0.90
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (58 bp):
TTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTACTCCTCTGTTACT
Found at i:7083614 original size:99 final size:99
Alignment explanation
Indices: 7083432--7083621 Score: 328
Period size: 99 Copynumber: 1.9 Consensus size: 99
7083422 TTTTTTCAAA
* *
7083432 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAGTAAATTACTCCTCTAAACAGAGGCACCACG
7083497 ACTTTTGAAAAGTAAATTGCTCCTCTGTTACTTT
66 ACTTTTGAAAAGTAAATTGCTCCTCTGTTACTTT
*
7083531 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATTACTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-GAAAGTAAATTACTCCTCTAAACAGAGGCACCAC
*
7083596 GAC-TTTGGAAAGTAAATTGCTCCTCT
65 GACTTTTGAAAAGTAAATTGCTCCTCT
7083622 AAACAGAGGC
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
99 50 0.58
100 36 0.42
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (99 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAGTAAATTACTCCTCTAAACAGAGGCACCACG
ACTTTTGAAAAGTAAATTGCTCCTCTGTTACTTT
Found at i:7083619 original size:41 final size:41
Alignment explanation
Indices: 7083529--7084066 Score: 813
Period size: 41 Copynumber: 13.2 Consensus size: 41
7083519 CTCTGTTACT
7083529 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAA
* *
7083571 TTACTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
7083612 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
* *
7083653 TTGCTCCTCTCAACAGAGGCACCACGACTTTTGAAAAATAAA
1 TTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAA
7083695 TTGCTCCTCTAAACAGAGGCACCACGA-----AAAA-TAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
*
7083730 TTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
7083771 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
* * * **
7083812 TTGCTCCTCTAAACAGAAGCACCATGACTTTTAAAAGTAGG
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
*
7083853 TTGCTCCTCTAAACAGAGGCACCACGACTTTAAAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
* *
7083894 TTGCTCTTCTAAACAAAGGCACCACGACTTTGAAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
* *
7083935 TTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAA
* *
7083977 TTGCTCCTCTGAACAGAGGCACCACAACTTTGAAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
7084018 TTGCTCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAGTAAA
1 TTGCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAA
*
7084059 TGGCTCCT
1 TTGCTCCT
7084067 TGACAATCAT
Statistics
Matches: 453, Mismatches: 33, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
35 31 0.07
36 4 0.01
39 2 0.00
40 3 0.01
41 307 0.68
42 106 0.23
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.23
Consensus pattern (41 bp):
TTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAA
Found at i:7084419 original size:43 final size:42
Alignment explanation
Indices: 7084361--7084441 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
7084351 TTTGGCAAAC
* *
7084361 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTCTCATTTGAATT
7084403 TTGGAGATTCACATCCAAAAATTCAAAGCTTCTCATTTG
1 TTGGA-ATTCACATCCAAAAATTCAAAGCTTCTCATTTG
7084442 TGTTCAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 5 0.14
43 28 0.80
44 2 0.06
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTCTCATTTGAATT
Found at i:7085833 original size:11 final size:10
Alignment explanation
Indices: 7085791--7085835 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
7085781 CATTTTCTCA
*
7085791 TTTTTTCCTT
1 TTTTTTTCTT
* *
7085801 CTTTCTTCTT
1 TTTTTTTCTT
7085811 TTTTTTTCTT
1 TTTTTTTCTT
*
7085821 TTTTTTTATT
1 TTTTTTTCTT
7085831 TTTTT
1 TTTTT
7085836 CATCATCTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:7090626 original size:60 final size:58
Alignment explanation
Indices: 7090500--7090666 Score: 183
Period size: 60 Copynumber: 2.8 Consensus size: 58
7090490 TTGTGCAGGA
* * * * * *
7090500 AAAATTGATACTTTCAACTTTTCCCCCAAA-TATTTTTTAGAAATTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTTGAAAATTTAATTTCAAGG
* * *
7090557 AAAATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTTTTTAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA--TTTTTTTTTTGAAAATTTAATTTCAAGG
* * *
7090617 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTCTTTTTGAAAATTT
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAT-TTTTTTTTTGAAAATTT
7090667 TTATTTTTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
57 28 0.30
59 1 0.01
60 53 0.58
61 10 0.11
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.48
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTTGAAAATTTAATTTCAAGG
Found at i:7090689 original size:6 final size:6
Alignment explanation
Indices: 7090680--7090721 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
7090670 TTTTTTTGCA
7090680 AAAAAT AAAAAT -AAAA- AAAAAT -AAAAT AAAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AA
7090722 TACTCCTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 13 0.41
6 14 0.44
7 5 0.16
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:7090700 original size:16 final size:15
Alignment explanation
Indices: 7090679--7090712 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
7090669 ATTTTTTTGC
7090679 AAAAAATAAAAATAAA
1 AAAAAAT-AAAATAAA
7090695 AAAAAATAAAATAAA
1 AAAAAATAAAATAAA
7090710 AAA
1 AAA
7090713 TAAAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAATAAAATAAA
Found at i:7090723 original size:16 final size:16
Alignment explanation
Indices: 7090679--7090723 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
7090669 ATTTTTTTGC
7090679 AAAAAATAAAAAT-A-
1 AAAAAATAAAAATAAT
*
7090693 AAAAAA-AATAA-AAT
1 AAAAAATAAAAATAAT
7090707 AAAAAATAAAAATAAT
1 AAAAAATAAAAATAAT
7090723 A
1 A
7090724 CTCCTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 4 0.16
16 4 0.16
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAATAAAAATAAT
Found at i:7092101 original size:22 final size:21
Alignment explanation
Indices: 7092075--7092126 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
7092065 CAAAATAAAG
*
7092075 AAAAAGAAAATAAATCATAAAAT
1 AAAAA-AAGATAAAT-ATAAAAT
*
7092098 AAAAAAATGATAAATATGAAAT
1 AAAAAAA-GATAAATATAAAAT
7092120 AAAAAAA
1 AAAAAAA
7092127 TCTAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAAAAAGATAAATATAAAAT
Found at i:7092127 original size:22 final size:23
Alignment explanation
Indices: 7092084--7092127 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
7092074 GAAAAAGAAA
7092084 ATAAATCATAAAATAAAAAAATG
1 ATAAATCATAAAATAAAAAAATG
*
7092107 ATAAAT-ATGAAATAAAAAAAT
1 ATAAATCATAAAATAAAAAAAT
7092128 CTAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (23 bp):
ATAAATCATAAAATAAAAAAATG
Found at i:7099842 original size:22 final size:22
Alignment explanation
Indices: 7099789--7099843 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
7099779 TAAAAGTCAT
* *
7099789 ATAATGGCTAAGATTTTGATTG
1 ATAATGGCTCAGATGTTGATTG
*
7099811 ATAATGGCTCAGGTGTTGATTG
1 ATAATGGCTCAGATGTTGATTG
7099833 ATAATGGCTCA
1 ATAATGGCTCA
7099844 TCCATCAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.36
Consensus pattern (22 bp):
ATAATGGCTCAGATGTTGATTG
Found at i:7105288 original size:49 final size:49
Alignment explanation
Indices: 7105191--7105588 Score: 530
Period size: 49 Copynumber: 8.3 Consensus size: 49
7105181 AACTCAGTTT
*
7105191 TGAGAGGAGCCTTTT-CAAGAT-AAAATTTTAAAGTTATTGAGCCTCTGC
1 TGAGAGGAG-CTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
*
7105239 TGAGAGGAGCTTTTCCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGC
1 TGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
* * *
7105288 TGAGAGGAGCTTTTTC-A-A-GAAATTTTTAAAGTTGTTGAGTCTCTGC
1 TGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
*
7105334 TAAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
1 TGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
* * * *
7105383 TGAGAGGAGCTTTTCCAAAATGAGATTTTTAAAGTTGTTGAGCCTCTGT
1 TGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
*
7105432 TGAGATGAGCCTTTT-CAAGAT-AAAATTTTAAAGTTGTTGAGCCTCTGC
1 TGAGAGGAG-CTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
* * * *
7105480 TGAAAGGAGCTTTTCCAAGAT-AAGATTTTAAAGTTGTTGAGCCTTTGT
1 TGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
* * *
7105528 TGAGAGCAGCTTTTTCAAGA-G--AATTTTAAAGTTGTTAAGCCTCTGC
1 TGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
7105574 TGAGAGGAGCCTTTT
1 TGAGAGGAG-CTTTT
7105589 AAACTTTCAA
Statistics
Matches: 310, Mismatches: 31, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
46 70 0.23
47 17 0.05
48 95 0.31
49 123 0.40
50 5 0.02
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (49 bp):
TGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
Found at i:7105356 original size:95 final size:95
Alignment explanation
Indices: 7105191--7105588 Score: 520
Period size: 95 Copynumber: 4.2 Consensus size: 95
7105181 AACTCAGTTT
* *
7105191 TGAGAGGAGCCTTTTCAAGATAAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTCCA
1 TGAGAGGAGCTTTTTCAAG--AAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
*
7105256 AGATGAAATTTTTAAAGTTGTTGAGCCTCTGC
64 AGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
* * *
7105288 TGAGAGGAGCTTTTTCAAGAAATTTTTAAAGTTGTTGAGTCTCTGCTAAGAGGAGCTTTTCCAAG
1 TGAGAGGAGCTTTTTCAAGAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAG
7105353 ATGAAAATTTTAAAGTTGTTGAGCCTCTGC
66 ATGAAAATTTTAAAGTTGTTGAGCCTCTGC
* * *
7105383 TGAGAGGAGCTTTTCCAA-AATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGATGAGCCTTTT
1 TGAGAGGAGCTTTTTCAAGAA--A-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTT
7105447 -CAAGAT-AAAATTTTAAAGTTGTTGAGCCTCTGC
61 CCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
* * * * * *
7105480 TGAAAGGAGCTTTTCCAAGATAAGATTTTAAAGTTGTTGAGCCTTTGTTGAGAGCAGCTTTTTCA
1 TGAGAGGAGCTTTTTCAAGA-AA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
*
7105545 AGA-G--AATTTTAAAGTTGTTAAGCCTCTGC
64 AGATGAAAATTTTAAAGTTGTTGAGCCTCTGC
*
7105574 TGAGAGGAGCCTTTT
1 TGAGAGGAGCTTTTT
7105589 AAACTTTCAA
Statistics
Matches: 272, Mismatches: 20, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
94 38 0.14
95 93 0.34
96 35 0.13
97 65 0.24
98 35 0.13
99 6 0.02
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (95 bp):
TGAGAGGAGCTTTTTCAAGAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAG
ATGAAAATTTTAAAGTTGTTGAGCCTCTGC
Found at i:7106840 original size:9 final size:10
Alignment explanation
Indices: 7106823--7106849 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
7106813 GGTAAAAAAA
7106823 AATTTTTTTG
1 AATTTTTTTG
7106833 AATTTTTTTG
1 AATTTTTTTG
7106843 AATTTTT
1 AATTTTT
7106850 ATATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (10 bp):
AATTTTTTTG
Found at i:7107413 original size:12 final size:12
Alignment explanation
Indices: 7107398--7107430 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7107388 AATTTTAATT
7107398 TTAATTAAAA-AA
1 TTAA-TAAAACAA
7107410 TTAATAAAACAA
1 TTAATAAAACAA
7107422 TTAATAAAA
1 TTAATAAAA
7107431 TTTTTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
TTAATAAAACAA
Found at i:7107738 original size:190 final size:189
Alignment explanation
Indices: 7107488--7107862 Score: 646
Period size: 190 Copynumber: 2.0 Consensus size: 189
7107478 ACATGACATA
* * *
7107488 ATTTTTTACGAAAAGTAAATTTAGACCTCCCAAAGATGAGATTCTAAAAGTATTCCGAGTAGAGA
1 ATTTTTTACGAAAAATAAATTGAGACCTCCCAAAGATGAGATGCTAAAAGTATTCCGAGTAGAGA
*
7107553 TGCCTTAAGAAATCTCTAGGTGAGAAATAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTA
66 TGCCTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTA
7107618 AAAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAAATTTTTTTTTAAC
131 AAAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAAT-AATTTTTTTTTAAC
7107678 ATTTTCTTACGAAAAATAAATTCGAG-CCT-CCAAAGATGAGATGCTAAAAGTATTCCGAGTAGA
1 ATTTT-TTACGAAAAATAAATT-GAGACCTCCCAAAGATGAGATGCTAAAAGTATTCCGAGTAGA
*
7107741 GATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTT
64 GATGCCTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTT
* *
7107806 TAAGAATTATTTCAATAAAAAGGTTTTGATTTATTTTTCTCGAGAATAATTTTTTTT
129 TAAAAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTT
7107863 AATAAATAAA
Statistics
Matches: 176, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
189 10 0.06
190 146 0.83
191 18 0.10
192 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (189 bp):
ATTTTTTACGAAAAATAAATTGAGACCTCCCAAAGATGAGATGCTAAAAGTATTCCGAGTAGAGA
TGCCTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGAACATTTTA
AAAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTTTAAC
Found at i:7111012 original size:16 final size:16
Alignment explanation
Indices: 7110978--7111010 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
7110968 AAGGACTGAC
7110978 TTTGTATTTTTGTTTT
1 TTTGTATTTTTGTTTT
7110994 TTTGT-TTTTT-TTTT
1 TTTGTATTTTTGTTTT
7111008 TTT
1 TTT
7111011 TTTTGGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 5 0.29
16 5 0.29
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (16 bp):
TTTGTATTTTTGTTTT
Found at i:7111014 original size:8 final size:8
Alignment explanation
Indices: 7110978--7111011 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
7110968 AAGGACTGAC
*
7110978 TTTGTATT
1 TTTGTTTT
7110986 TTTGTTTT
1 TTTGTTTT
7110994 TTTGTTTT
1 TTTGTTTT
7111002 TTT-TTTT
1 TTTGTTTT
7111009 TTT
1 TTT
7111012 TTTGGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (8 bp):
TTTGTTTT
Found at i:7112281 original size:22 final size:22
Alignment explanation
Indices: 7112252--7112299 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
7112242 TCTATAAATT
7112252 TAATTTTTTTAATCCTTAAA-AAA
1 TAATTTTTTTAAT--TTAAACAAA
7112275 TAATTTTTTTAATTTAAACAAA
1 TAATTTTTTTAATTTAAACAAA
7112297 TAA
1 TAA
7112300 AAAAATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.21
22 6 0.25
23 13 0.54
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATTTTTTTAATTTAAACAAA
Found at i:7113253 original size:18 final size:17
Alignment explanation
Indices: 7113231--7113276 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
7113221 AATGTAAAAA
7113231 TAAAAATAAATAAAGATAG
1 TAAAAATAAATAAA-AT-G
7113250 -AAAAATAGAATAAAATG
1 TAAAAATA-AATAAAATG
7113267 TAAAAATAAA
1 TAAAAATAAA
7113277 AAGATAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 6 0.24
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.20
Consensus pattern (17 bp):
TAAAAATAAATAAAATG
Found at i:7113302 original size:2 final size:2
Alignment explanation
Indices: 7113295--7113330 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
7113285 GACACATCTA
7113295 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7113331 ACAATATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7113418 original size:20 final size:22
Alignment explanation
Indices: 7113393--7113450 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 22
7113383 TAAATGATAC
7113393 ATAAGATAATTTTTTAA-A-AA
1 ATAAGATAATTTTTTAATACAA
7113413 ATAAGATAATATCTTTTAATTACAA
1 ATAAGATAAT-T-TTTTAA-TACAA
*
7113438 ATTAGATAATTTT
1 ATAAGATAATTTT
7113451 AAATTTATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.31
21 1 0.03
22 6 0.19
23 2 0.06
24 2 0.06
25 11 0.34
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (22 bp):
ATAAGATAATTTTTTAATACAA
Found at i:7114590 original size:17 final size:18
Alignment explanation
Indices: 7114551--7114594 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
7114541 AGACACATAA
*
7114551 ATAAAATAAAGTGTAAAG
1 ATAAAATAAAGTATAAAG
*
7114569 CTAAAATAAAG-ATAAAG
1 ATAAAATAAAGTATAAAG
7114586 AT-AAATAAA
1 ATAAAATAAA
7114595 TAAATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 7 0.30
17 6 0.26
18 10 0.43
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.20
Consensus pattern (18 bp):
ATAAAATAAAGTATAAAG
Found at i:7114630 original size:17 final size:17
Alignment explanation
Indices: 7114571--7114632 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
7114561 GTGTAAAGCT
7114571 AAAATA-AAGATAAAGATA
1 AAAATATAA-ATAAA-ATA
7114589 AATAA-ATAAAT-AAATA
1 AA-AATATAAATAAAATA
*
7114605 AAATGTATAAATAAAATA
1 AAA-ATATAAATAAAATA
7114623 AAAATATAAA
1 AAAATATAAA
7114633 GAAAGGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 14 0.38
18 13 0.35
19 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAATATAAATAAAATA
Found at i:7115095 original size:17 final size:17
Alignment explanation
Indices: 7115075--7115121 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
7115065 TTATAAACAC
7115075 ACTTTATTTTTCTTTCA
1 ACTTTATTTTTCTTTCA
*
7115092 ACTTTTATATTTTTTTTCA
1 AC-TTTAT-TTTTCTTTCA
7115111 A-TTTAGTTTTT
1 ACTTTA-TTTTT
7115122 ATCTTGTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
19 10 0.38
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (17 bp):
ACTTTATTTTTCTTTCA
Found at i:7120866 original size:12 final size:12
Alignment explanation
Indices: 7120850--7120879 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7120840 TTTTAAAATG
7120850 ATTTAATAAAAA
1 ATTTAATAAAAA
*
7120862 TTTTAATAAAAA
1 ATTTAATAAAAA
7120874 ATTTAA
1 ATTTAA
7120880 ATTAATAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:7126365 original size:3 final size:3
Alignment explanation
Indices: 7126357--7126384 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7126347 TAGCCATTGT
7126357 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7126385 ACCTAGTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7128905 original size:518 final size:516
Alignment explanation
Indices: 7128218--7129279 Score: 1797
Period size: 518 Copynumber: 2.1 Consensus size: 516
7128208 TTCAATGGGT
7128218 TCATTCCAAGAAA-TATTGGAAATTTAACACAACTCAAAGGAGTATATTTGGGTAAAAATAACTT
1 TCATTCCAA-AAAGTATTGGAAATTTAACACAACTCAAAGGAGTATATTTGGGTAAAAATAACTT
7128282 AGAAGGTAAGCTTTAATTTGATTTCTTTAGTCTAAACACATTTTCATTCCTTTTTCATTTTTTCA
65 AGAAGGTAAGCTTTAATTTGATTTCTTTAGTCTAAACACATTTTCATTCCTTTTTCATTTTTTCA
* *
7128347 ATGCAAAATTTTTAATTTTCTAAACTAATATACTGAAATAATTAAACAAAAATAGGTAGTCGAGC
130 ATGCAAAATTTTTAATTTTCTAAACTAATATACTGAAATAATTAAACAAAAATAGGCAGTCAAGC
* *
7128412 TAGCACTTTGATTATTTACCTTGTTTGCAGGTGAAATTCCTAAGGAAATTGGTAATCTTTATAGT
195 TAACACTTTGATTATTTACCTTGTTTACAGGTGAAATTCCTAAGGAAATTGGTAATCTTTATAGT
* * * *
7128477 TTAGAGATATTAAGTGCATCAACTATGGGCCTTACTGGTAAGATTCCAGCTTCCATCTTCAACAT
260 TTAGAGATATTAAGAGCAGCAACGATGAGCCTTACTGGTAAGATTCCAGCTTCCATCTTCAACAT
* * *
7128542 TTCTTCTCTGACCATTGTTTCTCTA-ACAAATAATAGTTTATCAGGTAGATTGCCTGATTATATG
325 TTCTTCTCTGACCATTGTTGCTCTACA-AAACAATAGTTTATCAGGTAAATTGCCTGATTATATG
* *
7128606 TGTCATCATCTTCCTAAGCTTAAGGGGCTTTACTTAGCTGAGAATCAATTATCTGGTAATATTCC
389 TATCATCATCTTCCTAAGCTTAAGGGGCTTTACTTAGCTAAGAATCAATTATCTGGTAATATTCC
** * * * *
7128671 ATCAAGTATAGGCAAATGCTGTAATTTGCAGATTTTGGA-ATTATCTATAAATCAATTCACAGGG
454 ATC-A-TATAGGCAAATGCTACAATCTGCAAAGTTT-GATATTATCTATAAATCAATTCACAGGA
7128735 C
516 C
* *
7128736 TCATTCCAAAAAGTATTGGAAATTTAACGCAACTCAAAGGAGTATATTTGGGTAAAAATAGCTTA
1 TCATTCCAAAAAGTATTGGAAATTTAACACAACTCAAAGGAGTATATTTGGGTAAAAATAACTTA
7128801 GAAGGTAAGCTTTAATTTGATTTCTTTAGTCTAAACACATTTTCATTCCTTTTTCATTTTTTCAA
66 GAAGGTAAGCTTTAATTTGATTTCTTTAGTCTAAACACATTTTCATTCCTTTTTCATTTTTTCAA
*
7128866 TGCAAAATTTTTAATTTTCTAAACTAATATACTGAAATAATTAAACAAAAATATGCAGTCAAGCT
131 TGCAAAATTTTTAATTTTCTAAACTAATATACTGAAATAATTAAACAAAAATAGGCAGTCAAGCT
* *
7128931 AACACTTTGATTATTTACCTTGTTTACAGGTGAAATTCCTGAGGAAATTGGTAATCTTTTTAGTT
196 AACACTTTGATTATTTACCTTGTTTACAGGTGAAATTCCTAAGGAAATTGGTAATCTTTATAGTT
*
7128996 TAGAGATATTAAGAGCAGCAAGGATGAGCCTTACTGGTAAGATTCCAGCTTCCATCTTCAACATT
261 TAGAGATATTAAGAGCAGCAACGATGAGCCTTACTGGTAAGATTCCAGCTTCCATCTTCAACATT
* *
7129061 TCTTTTCTGACCATTGTTGCTCTACAAAACAATAGTTTATCAGGTAAATTGTCTGATTATATGTA
326 TCTTCTCTGACCATTGTTGCTCTACAAAACAATAGTTTATCAGGTAAATTGCCTGATTATATGTA
*
7129126 TCATCATCTTCCTAAGCTTAAGGGGCTTTGCTTAGCTAAGAATCAATTATCTGGTAATATTCCAT
391 TCATCATCTTCCTAAGCTTAAGGGGCTTTACTTAGCTAAGAATCAATTATCTGGTAATATTCCAT
7129191 CATATAGGCAAATGCTACAATCTGCAAAGTTTGATATTATCTATAAATCAATTCACAGGAC
456 CATATAGGCAAATGCTACAATCTGCAAAGTTTGATATTATCTATAAATCAATTCACAGGAC
*
7129252 TCATTCCAAAAAGTATTGGGAATTTAAC
1 TCATTCCAAAAAGTATTGGAAATTTAAC
7129280 CGTGCTCAAA
Statistics
Matches: 512, Mismatches: 29, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
515 2 0.00
516 77 0.15
517 4 0.01
518 428 0.84
519 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (516 bp):
TCATTCCAAAAAGTATTGGAAATTTAACACAACTCAAAGGAGTATATTTGGGTAAAAATAACTTA
GAAGGTAAGCTTTAATTTGATTTCTTTAGTCTAAACACATTTTCATTCCTTTTTCATTTTTTCAA
TGCAAAATTTTTAATTTTCTAAACTAATATACTGAAATAATTAAACAAAAATAGGCAGTCAAGCT
AACACTTTGATTATTTACCTTGTTTACAGGTGAAATTCCTAAGGAAATTGGTAATCTTTATAGTT
TAGAGATATTAAGAGCAGCAACGATGAGCCTTACTGGTAAGATTCCAGCTTCCATCTTCAACATT
TCTTCTCTGACCATTGTTGCTCTACAAAACAATAGTTTATCAGGTAAATTGCCTGATTATATGTA
TCATCATCTTCCTAAGCTTAAGGGGCTTTACTTAGCTAAGAATCAATTATCTGGTAATATTCCAT
CATATAGGCAAATGCTACAATCTGCAAAGTTTGATATTATCTATAAATCAATTCACAGGAC
Found at i:7129490 original size:180 final size:179
Alignment explanation
Indices: 7129180--7129526 Score: 595
Period size: 180 Copynumber: 1.9 Consensus size: 179
7129170 AATTATCTGG
*
7129180 TAATATTCCATCATATAGGCAAATGCTACAATCTGCAAAGTTTGATATTATCTATAAATCAATTC
1 TAATATTCCATCATATAAGCAAATGCTACAATCTGCAAAGTTTGATATTATCTATAAATCAATTC
*
7129245 ACAGGACTCATTCCAAAAAGTATTGGGAATTTAACCGTGCTCAAAGAACTATCTCTAGATGAAAA
66 ACAGGACTCATTCCAAAAAGTATTGGGAATTTAACCGTGCTCAAAGAACTATATCTAGATGAAAA
* *
7129310 CAGATTGGGAGGTATGCTTTTGCCTTTGATTTTATTTTTTCTATCATCTA
131 CAAATTGGAAGGTATGCTTTTGCCTTTGATTTT-TTTTTTCTATCATCTA
** *
7129360 TAATATTCTGTCATATAAGCAAATGCTGCAATCTGCAAAGTTTGATATTATCTATAAATCAATTC
1 TAATATTCCATCATATAAGCAAATGCTACAATCTGCAAAGTTTGATATTATCTATAAATCAATTC
* * *
7129425 ACAGGGCTCATTCCAAAAAGTATTGGGAATTTAACCGTGCTCAAAGAAGTATATCTAGGTGAAAA
66 ACAGGACTCATTCCAAAAAGTATTGGGAATTTAACCGTGCTCAAAGAACTATATCTAGATGAAAA
7129490 CAAATTGGAAGGTATGCTTTTGCCTTTGATTTTTTTT
131 CAAATTGGAAGGTATGCTTTTGCCTTTGATTTTTTTT
7129527 CTATGTTAAA
Statistics
Matches: 157, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
179 4 0.03
180 153 0.97
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (179 bp):
TAATATTCCATCATATAAGCAAATGCTACAATCTGCAAAGTTTGATATTATCTATAAATCAATTC
ACAGGACTCATTCCAAAAAGTATTGGGAATTTAACCGTGCTCAAAGAACTATATCTAGATGAAAA
CAAATTGGAAGGTATGCTTTTGCCTTTGATTTTTTTTTTCTATCATCTA
Found at i:7134226 original size:33 final size:34
Alignment explanation
Indices: 7134189--7134254 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
7134179 ATTGAAAACA
7134189 ATAAATAAAGA-AAA-TGTAAAAAAAAAAAGATAG
1 ATAAATAAA-ATAAATTGTAAAAAAAAAAAGATAG
*
7134222 ATAAATAAAATAAATTGTAAAAATAAAAAGATA
1 ATAAATAAAATAAATTGTAAAAAAAAAAAGATA
7134255 AAGACAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 1 0.03
33 12 0.40
34 17 0.57
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (34 bp):
ATAAATAAAATAAATTGTAAAAAAAAAAAGATAG
Found at i:7134264 original size:40 final size:38
Alignment explanation
Indices: 7134208--7134335 Score: 141
Period size: 40 Copynumber: 3.3 Consensus size: 38
7134198 GAAAATGTAA
* *
7134208 AAAAAAAAAGATAGATAAATAAAATAAATTGTAAAAAT
1 AAAAAAAAAGAAAGATAAATAAAATAAAATGTAAAAAT
* * *
7134246 AAAAAGATAAAGACAGATAAATAAAATAAAGTGTAATAAT
1 AAAAA-A-AAAGAAAGATAAATAAAATAAAATGTAAAAAT
* *
7134286 AAAATAAAAATAAAGATAAAT-AAATAAAATATAAAAAT
1 AAAA-AAAAAGAAAGATAAATAAAATAAAATGTAAAAAT
*
7134324 AGAATAAAAAGA
1 A-AAAAAAAAGA
7134336 TAAAGAAAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
38 26 0.34
39 15 0.20
40 34 0.45
41 1 0.01
ACGTcount: A:0.71, C:0.01, G:0.09, T:0.20
Consensus pattern (38 bp):
AAAAAAAAAGAAAGATAAATAAAATAAAATGTAAAAAT
Found at i:7134307 original size:24 final size:25
Alignment explanation
Indices: 7134264--7134321 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
7134254 AAAGACAGAT
*
7134264 AAAT-AAAATAAAGTGTAAT-AATA
1 AAATAAAAATAAAGTGAAATAAATA
7134287 AAATAAAAATAAAGAT-AAATAAATA
1 AAATAAAAATAAAG-TGAAATAAATA
7134312 AAATATAAAA
1 AAATA-AAAA
7134322 ATAGAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.13
24 12 0.40
25 10 0.33
26 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.22
Consensus pattern (25 bp):
AAATAAAAATAAAGTGAAATAAATA
Found at i:7138596 original size:26 final size:26
Alignment explanation
Indices: 7138567--7138618 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
7138557 GGAATGTTTT
7138567 CCTTATCATTTGTATTGTGATTCATA
1 CCTTATCATTTGTATTGTGATTCATA
7138593 CCTTATCATTTGTATTGTGATTCATA
1 CCTTATCATTTGTATTGTGATTCATA
7138619 ACCTATGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (26 bp):
CCTTATCATTTGTATTGTGATTCATA
Found at i:7145894 original size:42 final size:43
Alignment explanation
Indices: 7145837--7145919 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
7145827 AATGGTGAAG
* *
7145837 ATAAATGTGTATCGAAAAGTACTAATAAAGATATTATTAGATA
1 ATAAATGTGTATCGAAAAGTACTAATAAAGAAATTAGTAGATA
* *
7145880 ATAAGTGTG-ATCGAAAAGTATTAATAAAGAAATTAGTAGA
1 ATAAATGTGTATCGAAAAGTACTAATAAAGAAATTAGTAGA
7145920 AGAGATTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (43 bp):
ATAAATGTGTATCGAAAAGTACTAATAAAGAAATTAGTAGATA
Found at i:7146178 original size:10 final size:10
Alignment explanation
Indices: 7146163--7146197 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
7146153 ATGGCGACGT
7146163 CAACAAACAA
1 CAACAAACAA
* *
7146173 CAACAAGCAG
1 CAACAAACAA
7146183 CAACAAACAA
1 CAACAAACAA
7146193 CAACA
1 CAACA
7146198 GTAGCATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.63, C:0.31, G:0.06, T:0.00
Consensus pattern (10 bp):
CAACAAACAA
Found at i:7148347 original size:22 final size:22
Alignment explanation
Indices: 7148321--7148364 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7148311 TTCCCTCCCA
7148321 ATATAACATCATATGTTAGGAT
1 ATATAACATCATATGTTAGGAT
*
7148343 ATATAATATCATATGTTAGGAT
1 ATATAACATCATATGTTAGGAT
7148365 TAAAGCCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (22 bp):
ATATAACATCATATGTTAGGAT
Found at i:7149577 original size:16 final size:17
Alignment explanation
Indices: 7149542--7149579 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7149532 ATTCTAAAAA
*
7149542 TTTTTATATTTTTATGT
1 TTTTTATATTTTAATGT
7149559 TTTTTATATTTTAAT-T
1 TTTTTATATTTTAATGT
7149575 TTTTT
1 TTTTT
7149580 GGTTTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATATTTTAATGT
Found at i:7157567 original size:11 final size:11
Alignment explanation
Indices: 7157551--7157581 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7157541 TTAAAACTGG
7157551 TTCGTTTATTA
1 TTCGTTTATTA
7157562 TTCGTTTATTA
1 TTCGTTTATTA
*
7157573 TTTGTTTAT
1 TTCGTTTAT
7157582 AATAATACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (11 bp):
TTCGTTTATTA
Found at i:7167908 original size:22 final size:24
Alignment explanation
Indices: 7167863--7167913 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
7167853 ATATTTTTTA
* *
7167863 TTTATATCTGTCAACATATCATTT
1 TTTATATCTATCAACATATAATTT
7167887 TTTATAT-TATCAA-ATATAATTT
1 TTTATATCTATCAACATATAATTT
*
7167909 ATTAT
1 TTTAT
7167914 TTTTACCAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.50
23 5 0.21
24 7 0.29
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTATATCTATCAACATATAATTT
Found at i:7170391 original size:22 final size:22
Alignment explanation
Indices: 7170356--7170416 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
7170346 CAAAAGACAC
*
7170356 AAATGAAAACAATAAATAAAGA-
1 AAAT-AAAAAAATAAATAAAGAT
7170378 AAATATAAAAAATAAATAAAGAT
1 AAATA-AAAAAATAAATAAAGAT
*
7170401 AGATAAATAAAATAAA
1 AAATAAA-AAAATAAA
7170417 ATGTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 1 0.03
22 21 0.62
23 12 0.35
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.18
Consensus pattern (22 bp):
AAATAAAAAAATAAATAAAGAT
Found at i:7170415 original size:41 final size:40
Alignment explanation
Indices: 7170369--7170498 Score: 120
Period size: 41 Copynumber: 3.1 Consensus size: 40
7170359 TGAAAACAAT
*
7170369 AAATAAA-GAAAATATAAAAAATAAATAAAGATAGATAAATA
1 AAATAAATGAAAA-ATAAAAAA-AAATAAAGATAAATAAATA
** * *
7170410 AAATAAAATGTAAAAAT-AAAAAGGATAAAGACACATAAATA
1 AAAT-AAATG-AAAAATAAAAAAAAATAAAGATAAATAAATA
*
7170451 AAATAAAGTGTAAAGATAAAATAAAAAATAAAGATAAATAAATA
1 AAATAAA-TG-AAAAAT-AAA-AAAAAATAAAGATAAATAAATA
7170495 AAAT
1 AAAT
7170499 GTAAAAATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.04
41 31 0.42
42 8 0.11
43 5 0.07
44 26 0.36
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (40 bp):
AAATAAATGAAAAATAAAAAAAAATAAAGATAAATAAATA
Found at i:7170426 original size:18 final size:18
Alignment explanation
Indices: 7170405--7170515 Score: 71
Period size: 18 Copynumber: 5.7 Consensus size: 18
7170395 AAAGATAGAT
7170405 AAATAAAATAAAATGTAA
1 AAATAAAATAAAATGTAA
* *
7170423 AAATAAAA-AGGATAAAGACACA
1 AAATAAAATA--A-AATG-TA-A
*
7170445 TAAATAAAATAAAGTGTAA
1 -AAATAAAATAAAATGTAA
* **
7170464 AGATAAAATAAAAAATAA
1 AAATAAAATAAAATGTAA
*
7170482 AGATAAATAAATAAAATGTAA
1 A-A-ATA-AAATAAAATGTAA
7170503 AAATAAAATAAAA
1 AAATAAAATAAAA
7170516 AGATAAAGAA
Statistics
Matches: 69, Mismatches: 14, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
17 1 0.01
18 31 0.45
19 4 0.06
20 7 0.10
21 15 0.22
22 2 0.03
23 8 0.12
24 1 0.01
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (18 bp):
AAATAAAATAAAATGTAA
Found at i:7170427 original size:13 final size:13
Alignment explanation
Indices: 7170409--7170522 Score: 63
Period size: 13 Copynumber: 8.6 Consensus size: 13
7170399 ATAGATAAAT
*
7170409 AAAATAAAATGTA
1 AAAATAAAATGAA
* *
7170422 AAAATAAAAAGGA
1 AAAATAAAATGAA
* * * *
7170435 TAAAGACACATAAA
1 AAAATA-AAATGAA
* *
7170449 TAAAATAAAGTGTA
1 -AAAATAAAATGAA
*
7170463 AAGATAAAAT-AA
1 AAAATAAAATGAA
7170475 AAAATAAAGAT-AA
1 AAAATAAA-ATGAA
*
7170488 ATAAATAAAATGTA
1 A-AAATAAAATGAA
7170502 AAAATAAAAT-AA
1 AAAATAAAATGAA
7170514 AAAGATAAA
1 AAA-ATAAA
7170523 GAAAGGAAAT
Statistics
Matches: 75, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
12 12 0.16
13 44 0.59
14 15 0.20
15 4 0.05
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (13 bp):
AAAATAAAATGAA
Found at i:7170504 original size:26 final size:26
Alignment explanation
Indices: 7170444--7170522 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
7170434 ATAAAGACAC
* **
7170444 ATAAATAAAATAAAGTGTAAAGATAAA
1 ATAAA-AAAATAAAATAAAAAGATAAA
7170471 AT-AAAAAATAAAGATAAATAA-ATAAA
1 ATAAAAAAATAAA-ATAAA-AAGATAAA
**
7170497 ATGTAAAAATAAAATAAAAAGATAAA
1 ATAAAAAAATAAAATAAAAAGATAAA
7170523 GAAAGGAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
25 10 0.23
26 21 0.48
27 13 0.30
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (26 bp):
ATAAAAAAATAAAATAAAAAGATAAA
Found at i:7170514 original size:44 final size:45
Alignment explanation
Indices: 7170422--7170524 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 45
7170412 ATAAAATGTA
* **
7170422 AAAATAAAAAGGATAAAGACACATAAATAAAATAAAGTGTAAAGAT
1 AAAATAAAAA-GATAAAGACAAATAAATAAAATAAAGAATAAAGAT
* *
7170468 AAAATAAAAA-ATAAAGATAAATAAATAAAAT---G--TAAAAAT
1 AAAATAAAAAGATAAAGACAAATAAATAAAATAAAGAATAAAGAT
7170507 AAAATAAAAAGATAAAGA
1 AAAATAAAAAGATAAAGA
7170525 AAGGAAATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
39 16 0.30
40 7 0.13
41 1 0.02
44 19 0.36
46 10 0.19
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (45 bp):
AAAATAAAAAGATAAAGACAAATAAATAAAATAAAGAATAAAGAT
Found at i:7170538 original size:34 final size:34
Alignment explanation
Indices: 7170468--7170538 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
7170458 GTGTAAAGAT
* *
7170468 AAAATAAAAAATAAAGATAAATAAATAAAATGTA
1 AAAATAAAAAATAAAGATAAAGAAAGAAAATGTA
* *
7170502 AAAATAAAATAA-AAAGATAAAGAAAGGAAATTTA
1 AAAATAAAA-AATAAAGATAAAGAAAGAAAATGTA
7170536 AAA
1 AAA
7170539 TTTTTTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 30 0.94
35 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.18
Consensus pattern (34 bp):
AAAATAAAAAATAAAGATAAAGAAAGAAAATGTA
Found at i:7170573 original size:5 final size:5
Alignment explanation
Indices: 7170563--7170589 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7170553 TTAATTTTTG
7170563 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
7170590 GAAAGTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:7179664 original size:245 final size:246
Alignment explanation
Indices: 7179228--7179720 Score: 916
Period size: 245 Copynumber: 2.0 Consensus size: 246
7179218 CCTTTATTGG
* *
7179228 TAATTGTATGTGTAGTATAGAATATCATAGCTTTCTATTTTGAATTATGTTCGACAAAATTCAAT
1 TAATTATATGTGTAGTATAGAATATCATAGCTTTCTATTTTGAAATATGTTCGACAAAATTCAAT
7179293 GTTAGAGCATATGACGCCAAAAAGGTTGGCTCTTGGATATTGATATACTAGTGAGTGATCAGATA
66 GTTAGAGCATATGACGCCAAAAAGGTTGGCTCTTGGATATTGATATACTAGTGAGTGATCAGATA
* *
7179358 TGACTAAATTGATGTAGGTATGAGCCACTATTCTATCTACTAGGCAAGGAGTACTTTCTTCATGC
131 TGACTAAATTGATGTAGGTATGAGCCACTATCCTATATACTAGGCAAGGAGTACTTTCTTCATGC
7179423 CTATGGTCCTACATATACACTTTCAACTGATGTTGTTGCAAG-TTGGTTGC
196 CTATGGTCCTACATATACACTTTCAACTGATGTTGTTGCAAGTTTGGTTGC
7179473 TAATTATATGTGTAGTATAGAATATCATAGCTTTCTATTTTGAAATATGTTCGACAAAATTCAAT
1 TAATTATATGTGTAGTATAGAATATCATAGCTTTCTATTTTGAAATATGTTCGACAAAATTCAAT
* *
7179538 GTTAGAGCATATGACGCCAAAAAGGTTGGCTTTTGGGTATTGATATACTAGTGAGTGATCAGATA
66 GTTAGAGCATATGACGCCAAAAAGGTTGGCTCTTGGATATTGATATACTAGTGAGTGATCAGATA
7179603 TGACTAAATTGATGTAGGTATGAGCCACTATCCTATATACTAGGCAAGGAGTACTTTCTTCATGC
131 TGACTAAATTGATGTAGGTATGAGCCACTATCCTATATACTAGGCAAGGAGTACTTTCTTCATGC
*
7179668 CTATGGTCCTACATATACTCTTTCAACTGATGTTGTTGCAAGTTTGGTTGC
196 CTATGGTCCTACATATACACTTTCAACTGATGTTGTTGCAAGTTTGGTTGC
7179719 TA
1 TA
7179721 TCAGAAACAA
Statistics
Matches: 240, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
245 230 0.96
246 10 0.04
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (246 bp):
TAATTATATGTGTAGTATAGAATATCATAGCTTTCTATTTTGAAATATGTTCGACAAAATTCAAT
GTTAGAGCATATGACGCCAAAAAGGTTGGCTCTTGGATATTGATATACTAGTGAGTGATCAGATA
TGACTAAATTGATGTAGGTATGAGCCACTATCCTATATACTAGGCAAGGAGTACTTTCTTCATGC
CTATGGTCCTACATATACACTTTCAACTGATGTTGTTGCAAGTTTGGTTGC
Found at i:7183230 original size:22 final size:22
Alignment explanation
Indices: 7183204--7183269 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
7183194 TTCCCTCCCA
*
7183204 ATATAATATCATATGTTAGGAT
1 ATATAATATCACATGTTAGGAT
7183226 ATATAATATCACATGTTAGGAT
1 ATATAATATCACATGTTAGGAT
*
7183248 GTATAATATCACATGTTAGGAT
1 ATATAATATCACATGTTAGGAT
7183270 TAAAACCTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (22 bp):
ATATAATATCACATGTTAGGAT
Found at i:7189208 original size:18 final size:18
Alignment explanation
Indices: 7189169--7189211 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
7189159 ACATACATTA
*
7189169 TTTTTCTTTCAAGTTTTAT
1 TTTTTATTTCAAG-TTTAT
*
7189188 TTTTTATTTCAA-TTTAG
1 TTTTTATTTCAAGTTTAT
7189205 TTTTTAT
1 TTTTTAT
7189212 CTTGTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
19 11 0.50
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTATTTCAAGTTTAT
Found at i:7195132 original size:3 final size:3
Alignment explanation
Indices: 7195126--7195200 Score: 82
Period size: 3 Copynumber: 25.3 Consensus size: 3
7195116 TAAATCTTGT
* *
7195126 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ACA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
7195173 ATA TATA A-A ATG ATT ATA AAA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
7195201 AATTTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.07
3 53 0.88
4 3 0.05
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7195307 original size:3 final size:3
Alignment explanation
Indices: 7195301--7195338 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7195291 AATTAACAAC
7195301 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 AA
7195339 ATTTCCTAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7195562 original size:14 final size:14
Alignment explanation
Indices: 7195466--7195569 Score: 61
Period size: 14 Copynumber: 7.3 Consensus size: 14
7195456 TAAAAATTAA
*
7195466 AAAATCTAAACCCT
1 AAAATCCAAACCCT
* *
7195480 CAAATCGAAACCGCT
1 AAAATCCAAACC-CT
*
7195495 -AAA-CCAAAAACCT
1 AAAATCC-AAACCCT
* *
7195508 AAAATCAAAACTC-
1 AAAATCCAAACCCT
7195521 AAAACTTCCAAACCCT
1 AAAA--TCCAAACCCT
* *
7195537 TAAATCAAAAACCCT
1 AAAATC-CAAACCCT
*
7195552 AAAATCCAAACCCC
1 AAAATCCAAACCCT
7195566 AAAA
1 AAAA
7195570 ACCCAAACTT
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
13 7 0.10
14 36 0.53
15 22 0.32
16 3 0.04
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.14
Consensus pattern (14 bp):
AAAATCCAAACCCT
Found at i:7195602 original size:22 final size:22
Alignment explanation
Indices: 7195577--7195622 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
7195567 AAAACCCAAA
* *
7195577 CTTTAAACCCTAAAATCAAACC
1 CTTTAAACCCAAAAATAAAACC
7195599 CTTTAAACCCAAAAATAAAACC
1 CTTTAAACCCAAAAATAAAACC
7195621 CT
1 CT
7195623 AAACTCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (22 bp):
CTTTAAACCCAAAAATAAAACC
Found at i:7195607 original size:35 final size:36
Alignment explanation
Indices: 7195544--7195625 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
7195534 CCTTAAATCA
**
7195544 AAAACCCTAAAATCCAAACCCCAAAAACCCAAACTT
1 AAAACCCTAAAATCCAAACCCCAAAAACCCAAAAAT
* ***
7195580 TAAACCCTAAAAT-CAAACCCTTTAAACCCAAAAAT
1 AAAACCCTAAAATCCAAACCCCAAAAACCCAAAAAT
7195615 AAAACCCTAAA
1 AAAACCCTAAA
7195626 CTCTTTAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 27 0.69
36 12 0.31
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.15
Consensus pattern (36 bp):
AAAACCCTAAAATCCAAACCCCAAAAACCCAAAAAT
Found at i:7195649 original size:30 final size:29
Alignment explanation
Indices: 7195598--7195745 Score: 183
Period size: 30 Copynumber: 5.1 Consensus size: 29
7195588 AAAATCAAAC
*
7195598 CCTTTAAACCC-AAAAATAAAACCCTAAA
1 CCTTTAAACCCTAAAATTAAAACCCTAAA
**
7195626 CTCTTTAAACCCTAAAAACAAAACCCTAAA
1 C-CTTTAAACCCTAAAATTAAAACCCTAAA
* *
7195656 TCTTCTAAACCCTAAAATTAAAACTCTAAA
1 CCTT-TAAACCCTAAAATTAAAACCCTAAA
* *
7195686 CCTTTCAAATCCTAAAATCAAAACCCTAAA
1 CCTTT-AAACCCTAAAATTAAAACCCTAAA
*
7195716 CC-TTAAACCCTAAAATTAGAACCCTAAA
1 CCTTTAAACCCTAAAATTAAAACCCTAAA
7195744 CC
1 CC
7195746 CTCAAAATCC
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
28 24 0.23
29 16 0.15
30 64 0.62
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (29 bp):
CCTTTAAACCCTAAAATTAAAACCCTAAA
Found at i:7195754 original size:58 final size:58
Alignment explanation
Indices: 7195601--7195762 Score: 193
Period size: 60 Copynumber: 2.8 Consensus size: 58
7195591 ATCAAACCCT
* * * * * *
7195601 TTAAACCC-AAAAATAAAACCCTAAACTCTTTAAACCCTAAAAACAAAACCCTAAATCT
1 TTAAACCCTAAAATTAAAACCCTAAAC-CCTCAAATCCTAAAATCAAAACCCTAAATCC
* *
7195659 TCTAAACCCTAAAATTAAAACTCTAAACCTTTCAAATCCTAAAATCAAAACCCTAAA-CC
1 T-TAAACCCTAAAATTAAAACCCTAAACC-CTCAAATCCTAAAATCAAAACCCTAAATCC
*
7195718 TTAAACCCTAAAATTAGAACCCTAAACCCTCAAAATCCTAAAATC
1 TTAAACCCTAAAATTAAAACCCTAAACCCTC-AAATCCTAAAATC
7195763 CATGCCTTAA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
57 2 0.02
58 39 0.43
59 10 0.11
60 40 0.44
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (58 bp):
TTAAACCCTAAAATTAAAACCCTAAACCCTCAAATCCTAAAATCAAAACCCTAAATCC
Found at i:7195760 original size:30 final size:30
Alignment explanation
Indices: 7195594--7195761 Score: 164
Period size: 30 Copynumber: 5.7 Consensus size: 30
7195584 CCCTAAAATC
* *
7195594 AAACCCTTTAAACCC-AAAAATAAAACCCT
1 AAACCCTCTAAACCCTAAAATTAAAACCCT
* * **
7195623 AAACTCTTTAAACCCTAAAAACAAAACCCT
1 AAACCCTCTAAACCCTAAAATTAAAACCCT
* * *
7195653 AAATCTTCTAAACCCTAAAATTAAAACTCT
1 AAACCCTCTAAACCCTAAAATTAAAACCCT
* * *
7195683 AAA-CCTTTCAAATCCTAAAATCAAAACCCT
1 AAACCCTCT-AAACCCTAAAATTAAAACCCT
*
7195713 AAA-CCT-TAAACCCTAAAATTAGAACCCT
1 AAACCCTCTAAACCCTAAAATTAAAACCCT
* *
7195741 AAACCCTCAAAATCCTAAAAT
1 AAACCCTCTAAACCCTAAAAT
7195762 CCATGCCTTA
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
28 21 0.18
29 21 0.18
30 74 0.64
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.22
Consensus pattern (30 bp):
AAACCCTCTAAACCCTAAAATTAAAACCCT
Found at i:7199092 original size:11 final size:11
Alignment explanation
Indices: 7199076--7199106 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
7199066 CATTTTTGTC
7199076 ATTTTTATTTT
1 ATTTTTATTTT
7199087 ATTTTTATTTT
1 ATTTTTATTTT
7199098 ATATTTTAT
1 AT-TTTTAT
7199107 GTATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:7199117 original size:25 final size:25
Alignment explanation
Indices: 7199089--7199140 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
7199079 TTTATTTTAT
* **
7199089 TTTTATTTTATATTTTATGTATATA
1 TTTTACTTTATATCCTATGTATATA
* *
7199114 TTTTCCTTTATATCCTATGTATTTA
1 TTTTACTTTATATCCTATGTATATA
7199139 TT
1 TT
7199141 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTACTTTATATCCTATGTATATA
Found at i:7199278 original size:21 final size:20
Alignment explanation
Indices: 7199226--7199313 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 20
7199216 ATTTTATATG
*
7199226 TATT-TTTATTTATC-TAAT
1 TATTATTTATTTATCTTTAT
7199244 TATATATTTATTTATCTGTTAT
1 TAT-TATTTATTTATCT-TTAT
* *
7199266 TATTATTTTTTTATCTTATAA
1 TATTATTTATTTATCTT-TAT
* *
7199287 TATTGTTGATTTATC-TTAT
1 TATTATTTATTTATCTTTAT
7199306 TATTATTT
1 TATTATTT
7199314 TTCTAATTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
18 3 0.05
19 9 0.16
20 12 0.21
21 26 0.46
22 6 0.11
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TATTATTTATTTATCTTTAT
Found at i:7199529 original size:12 final size:12
Alignment explanation
Indices: 7199512--7199538 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7199502 AATAGGTACT
7199512 AGAACAGAAGGA
1 AGAACAGAAGGA
7199524 AGAACAGAAGGA
1 AGAACAGAAGGA
7199536 AGA
1 AGA
7199539 TTATTTAATG
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:0.59, C:0.07, G:0.33, T:0.00
Consensus pattern (12 bp):
AGAACAGAAGGA
Found at i:7199571 original size:17 final size:16
Alignment explanation
Indices: 7199551--7199612 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
7199541 ATTTAATGTT
7199551 CTTTTATCTTTATTTTA
1 CTTTTAT-TTTATTTTA
7199568 CTTTTATTTT-TTGTT-
1 CTTTTATTTTATT-TTA
*
7199583 -TTATTTTTTTATTTTCA
1 CTT-TTATTTTATTTT-A
7199600 CTTTTATTTTATT
1 CTTTTATTTTATT
7199613 ATTTTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
14 2 0.05
15 10 0.27
16 7 0.19
17 16 0.43
18 2 0.05
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.76
Consensus pattern (16 bp):
CTTTTATTTTATTTTA
Found at i:7199577 original size:5 final size:5
Alignment explanation
Indices: 7199552--7199622 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
7199542 TTTAATGTTC
*
7199552 TTTTA TCTTTA TTTTA CTTTTA TTTT- TTGTT- TTATTT TTTTA TTTTCA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA TT-TTA TT-TTA TTTTA TTTT-A
7199600 CTTTTA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTTA TTTTA TTTTA TTTT
7199623 CTTTAAATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
3 3 0.05
4 2 0.04
5 33 0.59
6 14 0.25
7 4 0.07
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:7199597 original size:25 final size:25
Alignment explanation
Indices: 7199576--7199623 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7199566 TACTTTTATT
* *
7199576 TTTTGTTTTATTTTTTTATTTTCAC
1 TTTTATTTTATTATTTTATTTTCAC
7199601 TTTTATTTTATTATTTTATTTTC
1 TTTTATTTTATTATTTTATTTTC
7199624 TTTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTATTTTATTATTTTATTTTCAC
Found at i:7199648 original size:16 final size:17
Alignment explanation
Indices: 7199627--7199664 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7199617 TATTTTCTTT
7199627 AAATAAA-ATCCAAAAA
1 AAATAAATATCCAAAAA
* *
7199643 AAATAAATTTTCAAAAA
1 AAATAAATATCCAAAAA
7199660 AAATA
1 AAATA
7199665 TTTTTGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAATATCCAAAAA
Found at i:7199705 original size:59 final size:59
Alignment explanation
Indices: 7199641--7199996 Score: 480
Period size: 60 Copynumber: 6.0 Consensus size: 59
7199631 AAAATCCAAA
7199641 AAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* ** *
7199700 AAAAATAAAATTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
7199760 GAAAATCAAAGTTTC-CAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
7199819 GAAAATCAAAGTTTCCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
7199879 AAAAATAAATTTTCAAAAAAAAAAGTTTTTGGGGGAAATTTGAAAGTATCAATTTTCCTC
1 AAAAATAAATTTTCAAAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
7199939 GAAATTAAATTTTCAAAAAAATTAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAATAAATTTTCAAAAAAAAT-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
7199997 CTGCACAAAA
Statistics
Matches: 265, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
59 84 0.32
60 173 0.65
61 8 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (59 bp):
AAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:7199785 original size:119 final size:118
Alignment explanation
Indices: 7199641--7199996 Score: 482
Period size: 119 Copynumber: 3.0 Consensus size: 118
7199631 AAAATCCAAA
* *
7199641 AAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAAAATAAAGTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
**
7199706 AAAATTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
66 AAAATTTCAAAAAAAA-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
7199760 GAAAATCAAAGTTTC-CAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
1 AAAAAT-AAAGTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
* * *
7199824 TCAAAGTTTCCAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTT
65 T-AAAATTTCAAAAAAAAAATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT
* * * * * *
7199879 AAAAATAAATTTTCAAAAAAAAAAGTTTTTGGGGGAAATTTGAAAGTATCAATTTTCCTCGAAAT
1 AAAAATAAAGTTTCAAAAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
* *
7199944 TAAATTTTCAAAAAAATTAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
65 TAAAATTTCAAAAAAA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
7199997 CTGCACAAAA
Statistics
Matches: 208, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
118 9 0.04
119 109 0.52
120 88 0.42
121 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (118 bp):
AAAAATAAAGTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
AAAATTTCAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:7202431 original size:21 final size:21
Alignment explanation
Indices: 7202407--7202454 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
7202397 AGACACCATT
7202407 AGAATTAGAGCTGGCAATAAA
1 AGAATTAGAGCTGGCAATAAA
7202428 AGAATTAGAGCTGGCAATAAA
1 AGAATTAGAGCTGGCAATAAA
*
7202449 ATAATT
1 AGAATT
7202455 TGAGTCTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.08, G:0.21, T:0.23
Consensus pattern (21 bp):
AGAATTAGAGCTGGCAATAAA
Found at i:7211543 original size:9 final size:9
Alignment explanation
Indices: 7211531--7211580 Score: 84
Period size: 9 Copynumber: 5.7 Consensus size: 9
7211521 AAAAAGAATT
7211531 AAAAAATGG
1 AAAAAATGG
7211540 AAAAAATGG
1 AAAAAATGG
*
7211549 AAAAAATGA
1 AAAAAATGG
7211558 AAAAAATGG
1 AAAAAATGG
7211567 AAAAAAT-G
1 AAAAAATGG
7211575 AAAAAA
1 AAAAAA
7211581 GTGAATGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
8 7 0.18
9 32 0.82
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (9 bp):
AAAAAATGG
Found at i:7212666 original size:41 final size:40
Alignment explanation
Indices: 7212592--7212766 Score: 251
Period size: 41 Copynumber: 4.3 Consensus size: 40
7212582 ATGATTGTCA
7212592 AGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTTAG
7212632 AGGAGCAATTTACTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
7212673 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
7212714 AGGAGTAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-CTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
7212755 ATGAGCCATTTA
1 AGGAGCAATTTA
7212767 TGTTTCTCAA
Statistics
Matches: 122, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
40 17 0.14
41 101 0.83
42 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (40 bp):
AGGAGCAATTTACTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:7212798 original size:43 final size:41
Alignment explanation
Indices: 7212669--7212803 Score: 108
Period size: 41 Copynumber: 3.2 Consensus size: 41
7212659 GTGCCTCTGT
* * ** * ** * *
7212669 TTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGT
1 TTAGAGGAGCCATTTATTTTTCAAAGTCATTGAACCTCAGA
** * * *
7212710 TTAGAGGAGTAATTTATTTTTCAAAGTCGTTGAGCCTCTGA
1 TTAGAGGAGCCATTTATTTTTCAAAGTCATTGAACCTCAGA
* *
7212751 TTAGATGAGCCATTTATGTTTCTCAAAGTCATTGAACCTCAGC
1 TTAGAGGAGCCATTTAT-TTT-TCAAAGTCATTGAACCTCAGA
7212794 TTAGAGGAGC
1 TTAGAGGAGC
7212804 TTTGGTAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 49 0.63
42 3 0.04
43 26 0.33
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (41 bp):
TTAGAGGAGCCATTTATTTTTCAAAGTCATTGAACCTCAGA
Found at i:7213192 original size:21 final size:20
Alignment explanation
Indices: 7213140--7213227 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 20
7213130 ATTTTATATG
*
7213140 TATT-TTTATTTATC-TAAT
1 TATTATTTATTTATCTTTAT
7213158 TATATATTTATTTATCTGTTAT
1 TAT-TATTTATTTATCT-TTAT
* *
7213180 TATTATTTTTTTATCTTATAA
1 TATTATTTATTTATCTT-TAT
* *
7213201 TATTGTTGATTTATC-TTAT
1 TATTATTTATTTATCTTTAT
7213220 TATTATTT
1 TATTATTT
7213228 TTCTAATTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
18 3 0.05
19 9 0.16
20 12 0.21
21 26 0.46
22 6 0.11
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TATTATTTATTTATCTTTAT
Found at i:7214168 original size:12 final size:13
Alignment explanation
Indices: 7214136--7214168 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
7214126 TTTTTTTTTA
7214136 TATTTATT-TATT
1 TATTTATTATATT
7214148 TATTTATTAT-TT
1 TATTTATTATATT
7214160 TATTTATTA
1 TATTTATTA
7214169 AATTAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTATTATATT
Found at i:7214209 original size:17 final size:16
Alignment explanation
Indices: 7214189--7214250 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
7214179 ATTTAATGTT
7214189 CTTTTATCTTTATTTTA
1 CTTTTAT-TTTATTTTA
7214206 CTTTTATTTT-TTGTT-
1 CTTTTATTTTATT-TTA
*
7214221 -TTATTTTTTTATTTTCA
1 CTT-TTATTTTATTTT-A
7214238 CTTTTATTTTATT
1 CTTTTATTTTATT
7214251 ATTTTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
14 2 0.05
15 10 0.27
16 7 0.19
17 16 0.43
18 2 0.05
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.76
Consensus pattern (16 bp):
CTTTTATTTTATTTTA
Found at i:7214215 original size:5 final size:5
Alignment explanation
Indices: 7214190--7214260 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
7214180 TTTAATGTTC
*
7214190 TTTTA TCTTTA TTTTA CTTTTA TTTT- TTGTT- TTATTT TTTTA TTTTCA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA TT-TTA TT-TTA TTTTA TTTT-A
7214238 CTTTTA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTTA TTTTA TTTTA TTTT
7214261 CTTTAAATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
3 3 0.05
4 2 0.04
5 33 0.59
6 14 0.25
7 4 0.07
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:7214235 original size:25 final size:25
Alignment explanation
Indices: 7214214--7214261 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7214204 TACTTTTATT
* *
7214214 TTTTGTTTTATTTTTTTATTTTCAC
1 TTTTATTTTATTATTTTATTTTCAC
7214239 TTTTATTTTATTATTTTATTTTC
1 TTTTATTTTATTATTTTATTTTC
7214262 TTTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTATTTTATTATTTTATTTTCAC
Found at i:7214356 original size:59 final size:58
Alignment explanation
Indices: 7214280--7214695 Score: 510
Period size: 59 Copynumber: 7.0 Consensus size: 58
7214270 AAATCCAAAA
*
7214280 AAAAATAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
7214339 AAAAATAAAATTTCAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTCAAAAAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * * * *
7214400 AAAAATTAAAGTTTCCAAAAAACATTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTT
1 AAAAA-TAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
7214459 GAAAATCAAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
7214518 AAAAATAAATTTTCAAAAAAAAAAGTTTTTGGGGAAAAATTTGAAAGTATCAATTTTCCTC
1 AAAAATAAATTTTC-AAAAAAATA-TTTTTGGGG-AAAAGTTGAAAGTATCAATTTTCCTT
* * * *
7214579 GAAATTAAATTTTCAAAAAAATCAATTTTTGAGGAAAAGTT-AAAGTATCAATTTTCCTC
1 AAAAATAAATTTTCAAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
7214638 GAAATTAAAGTTTCAAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
7214696 GCACAAAAAC
Statistics
Matches: 316, Mismatches: 30, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
57 16 0.05
58 33 0.10
59 147 0.47
60 22 0.07
61 82 0.26
62 16 0.05
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (58 bp):
AAAAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:7214420 original size:120 final size:117
Alignment explanation
Indices: 7214296--7214696 Score: 522
Period size: 120 Copynumber: 3.4 Consensus size: 117
7214286 AAATTTTCAA
* *
7214296 AAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAA
7214361 AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCC
66 A---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCC
* * * * *
7214416 AAAAAACATTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTTGAAAATCAAAATTTCCAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAATTTCAAAAAAA
* * * *
7214481 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-TAAATTTTCAA
65 AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTC-C
* * * * *
7214534 AAAAAAAAGTTTTTGGGGAAAAATTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTCAAAAAA
1 AAAAAATA-TTTTTGGGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAA
**
7214599 ATCAATTTTTGAGGAAAAGTT-AAAGTATCAATTTTCC-TCGAAATTAAAGTTT-C
64 A--AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCC
7214652 AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
7214697 CACAAAAACA
Statistics
Matches: 244, Mismatches: 29, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
117 33 0.14
118 59 0.24
119 27 0.11
120 94 0.39
121 31 0.13
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (117 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCAAAAAAAA
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCC
Found at i:7214626 original size:179 final size:177
Alignment explanation
Indices: 7214296--7214695 Score: 599
Period size: 179 Copynumber: 2.2 Consensus size: 177
7214286 AAATTTTCAA
*
7214296 AAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAA
* *
7214361 AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCCAAAAAACATT
66 AGAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCAAAAAAACATT
*
7214426 TTTGAGAAAAAGTTGAAAGTATCAAATTTCCTTGAAAATCAAAATTTCC
131 TTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCG-AAATCAAAATTT-C
*
7214475 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAA
* * ** *
7214540 A-AGTTTTTGGGGAAAAATTTGAAAGTATCAATTTTCC-TCGAAATTAAATTTTCAAAAAAATCA
66 AGAGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCAAAAAAA-C-
* * * *
7214603 ATTTTTGAGGAAAAGTT-AAAGTATCAATTTTCCTCGAAATTAAAGTTTC
128 ATTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATCAAAATTTC
7214652 AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
7214696 GCACAAAAAC
Statistics
Matches: 203, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
177 5 0.02
178 77 0.38
179 105 0.52
180 16 0.08
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.34
Consensus pattern (177 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAA
AGAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATTAAAGTTTCAAAAAAACATT
TTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATCAAAATTTC
Found at i:7215825 original size:316 final size:313
Alignment explanation
Indices: 7215250--7215849 Score: 1092
Period size: 316 Copynumber: 1.9 Consensus size: 313
7215240 TAGTTGTTGG
7215250 AAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
7215315 TATGCAAGAAGAACTACTGTTTCACTTGCAGAGGCTCCATCGTCGGATTATTTAAAGAAAAATCA
66 TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCATCGTCGGATTAATTAAAGAAAAATCA
7215380 AGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAA
131 AGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAA
*
7215445 TTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCTACTTGTAGAGGCTCC
196 TTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCTACTTGTAAAGGCTCC
*
7215510 GTCGTCGGATTATTTAAAGAAAAATCAAGATCAACCAATTAATTAATTATCGA
261 GTCGTCGGATTAATTAAAGAAAAATCAAGATCAACCAATTAATTAATTATCGA
*
7215563 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* * *
7215628 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
66 TATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCATCGTCGGATTAATTAAAG--AAAAA
7215693 TCAAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGA
128 TCAAGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGA
*
7215758 AAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAAAGGC
193 AAATTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCTACTTGTAAAGGC
7215823 TCCGTCGTCGGATTAATTAAAGAAAAA
258 TCCGTCGTCGGATTAATTAAAGAAAAA
7215850 AAAAATCAAG
Statistics
Matches: 275, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
313 82 0.30
314 34 0.12
316 159 0.58
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (313 bp):
AAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCATCGTCGGATTAATTAAAGAAAAATCA
AGATCAACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAA
TTGAGAAAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCTACTTGTAAAGGCTCC
GTCGTCGGATTAATTAAAGAAAAATCAAGATCAACCAATTAATTAATTATCGA
Found at i:7215851 original size:159 final size:157
Alignment explanation
Indices: 7215250--7215849 Score: 1094
Period size: 157 Copynumber: 3.8 Consensus size: 157
7215240 TAGTTGTTGG
*
7215250 AAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* * * * *
7215315 TATGCAAGAAGAACTACTG-TTTCACTTGCAGAGGCTCCATCGTCGGATTATTTAAAGAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATC
7215379 AAGATCAACCAATTAATTAATTATCGA
131 AAGATCAACCAATTAATTAATTATCGA
7215406 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
* *
7215471 TATGCAAGAAAAACTACTGTTTCTACTTGTAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAATC
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATC
7215536 AAGATCAACCAATTAATTAATTATCGA
131 AAGATCAACCAATTAATTAATTATCGA
7215563 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
7215628 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAAA
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAG--AAAAA
7215693 TCAAGATCAACCAATTAATTAATTATCGA
129 TCAAGATCAACCAATTAATTAATTATCGA
7215722 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
1 AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
*
7215787 TATGCAAGAAAAACTACTGTTTTTACTTGTAAAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
7215850 AAAAATCAAG
Statistics
Matches: 432, Mismatches: 9, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
156 82 0.19
157 194 0.45
159 156 0.36
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (157 bp):
AAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGGAG
TATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAATC
AAGATCAACCAATTAATTAATTATCGA
Found at i:7215903 original size:16 final size:16
Alignment explanation
Indices: 7215873--7215903 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7215863 AAAATCAAAG
*
7215873 TCAAATAAAAAAAAAT
1 TCAAAAAAAAAAAAAT
7215889 TCAAAAAAAAAAAAA
1 TCAAAAAAAAAAAAA
7215904 AAAAAAAACC
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:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (16 bp):
TCAAAAAAAAAAAAAT
Found at i:7216035 original size:12 final size:12
Alignment explanation
Indices: 7216018--7216047 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
7216008 GCTTGGAGGA
7216018 GGGTCGACGCTC
1 GGGTCGACGCTC
7216030 GGGTCGACGCTC
1 GGGTCGACGCTC
7216042 GGGTCG
1 GGGTCG
7216048 GGTCGGGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.30, G:0.47, T:0.17
Consensus pattern (12 bp):
GGGTCGACGCTC
Found at i:7216318 original size:20 final size:20
Alignment explanation
Indices: 7216293--7216336 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
7216283 CGGAAATTCA
7216293 CCGGTTTCTGGGATTCTTCG
1 CCGGTTTCTGGGATTCTTCG
7216313 CCGGTTTCTGGGATTCTTCG
1 CCGGTTTCTGGGATTCTTCG
7216333 CCGG
1 CCGG
7216337 AAACTGGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.05, C:0.27, G:0.32, T:0.36
Consensus pattern (20 bp):
CCGGTTTCTGGGATTCTTCG
Found at i:7216343 original size:20 final size:20
Alignment explanation
Indices: 7216300--7216344 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7216290 TCACCGGTTT
***
7216300 CTGGGATTCTTCGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
7216320 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
7216340 CTGGG
1 CTGGG
7216345 CAGGTCGCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.31
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:7216387 original size:31 final size:31
Alignment explanation
Indices: 7216349--7216407 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
7216339 ACTGGGCAGG
*
7216349 TCGCCGGAAACTTCAATGTTGGCCGGAATTT
1 TCGCCGGAAACTTCAAGGTTGGCCGGAATTT
7216380 TCGCCGGAAACTTCAAGGTTGGCCGGAA
1 TCGCCGGAAACTTCAAGGTTGGCCGGAA
7216408 AATCCAACCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (31 bp):
TCGCCGGAAACTTCAAGGTTGGCCGGAATTT
Found at i:7216837 original size:34 final size:33
Alignment explanation
Indices: 7216789--7216855 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
7216779 ACAGATAAAT
*
7216789 AAAAAAACAGATATATTA-TAGGATAAATAAAAA
1 AAAAAAACAGATATATAATTA-GATAAATAAAAA
7216822 AAAAATAACAGATATATAATTAGATAAATAAAAA
1 AAAAA-AACAGATATATAATTAGATAAATAAAAA
7216856 TACAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 5 0.16
34 24 0.77
35 2 0.06
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.22
Consensus pattern (33 bp):
AAAAAAACAGATATATAATTAGATAAATAAAAA
Found at i:7216855 original size:29 final size:28
Alignment explanation
Indices: 7216755--7216857 Score: 82
Period size: 34 Copynumber: 3.4 Consensus size: 28
7216745 AAAAAAAATC
* * *
7216755 AAATAAAAATAATAGATAATTAGAACAGAT
1 AAATAAAAATAACAGAT-A-TATAATAGAT
*
7216785 AAATAAAAA-AACAGATATATTATAGGAT
1 AAATAAAAATAACAGATATATAATA-GAT
7216813 AAATAAAAAAAAAATAACAGATATATAATTAGAT
1 AAAT-----AAAAATAACAGATATATAA-TAGAT
7216847 AAATAAAAATA
1 AAATAAAAATA
7216858 CAAAAATAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
27 4 0.07
28 8 0.13
29 13 0.22
30 9 0.15
33 5 0.08
34 19 0.32
35 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.23
Consensus pattern (28 bp):
AAATAAAAATAACAGATATATAATAGAT
Found at i:7216868 original size:12 final size:12
Alignment explanation
Indices: 7216847--7216904 Score: 61
Period size: 12 Copynumber: 5.0 Consensus size: 12
7216837 ATAATTAGAT
7216847 AAATAA-AAATA
1 AAATAATAAATA
7216858 CAAA-AATAAATA
1 -AAATAATAAATA
7216870 AAATAA-AAATAA
1 AAATAATAAAT-A
7216882 AAATAAT-AATA
1 AAATAATAAATA
*
7216893 TAATAATAAATA
1 AAATAATAAATA
7216905 TATAACTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 16 0.40
12 24 0.60
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:7216880 original size:6 final size:6
Alignment explanation
Indices: 7216847--7216902 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
7216837 ATAATTAGAT
*
7216847 AAATAA AAATACA AAA-AT AAAT-A AAATAA AAATAA AAATAA TAATATAA
1 AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA -AA-ATAA
*
7216896 TAATAA A
1 AAATAA A
7216903 TATATAACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 7 0.17
6 23 0.56
7 7 0.17
8 4 0.10
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:7217131 original size:20 final size:20
Alignment explanation
Indices: 7217077--7217134 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
7217067 CCATTTGGGC
* *
7217077 CAGGCCCAAATGATCTGGGT
1 CAGGCCCAATTGATCCGGGT
7217097 CAGG-CCAATTGATCCGGGT
1 CAGGCCCAATTGATCCGGGT
7217116 CAGGCCCAATTGATCCGGG
1 CAGGCCCAATTGATCCGGG
7217135 CCCGGACCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (20 bp):
CAGGCCCAATTGATCCGGGT
Found at i:7217244 original size:1 final size:1
Alignment explanation
Indices: 7217238--7217329 Score: 121
Period size: 1 Copynumber: 92.0 Consensus size: 1
7217228 GACATTTTCA
* * * * * *
7217238 TTTTTTTTGTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTGTTTTTGTTTTTTGTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
7217303 TTTTTTATTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
7217330 AGCGTGCTCT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.01, C:0.00, G:0.07, T:0.92
Consensus pattern (1 bp):
T
Found at i:7217420 original size:42 final size:39
Alignment explanation
Indices: 7217353--7217706 Score: 389
Period size: 40 Copynumber: 8.7 Consensus size: 39
7217343 CAGAAGGTCT
*
7217353 ACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA
1 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
7217392 CACGACTTTGGAAAAGTACAATTGCTCCTCCTAAACAGAGGC-
1 -ACGACTTT-GAAAAGTA-AATTGCTCCT-CTAAACAGAGGCA
* *
7217434 ACGAACTTTGGGAATAAGT-AATTGCTACCTCTCAACAGAGGTACCG
1 ACG-ACTTT--GAA-AAGTAAATTGCT-CCTCTAAACAGAGG---CA
7217480 ACGACTTTGGAAAAGT--ATTGCTCGCTCGTAAACAGAGGCA
1 ACGACTTT-GAAAAGTAAATTGCTC-CTC-TAAACAGAGGCA
* *
7217520 ACGAAACTTTGAAAGGTAAAATGCT-CTCTAAACAG-GGCA
1 ACG--ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
*
7217559 ACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 ACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
7217599 ACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 ACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
*
7217639 CACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 -ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
7217679 ACGAGACTTTTG-AAAGTAAATTGCTCCT
1 AC--GAC-TTTGAAAAGTAAATTGCTCCT
7217707 TGACAATCAT
Statistics
Matches: 279, Mismatches: 12, Indels: 45
0.83 0.04 0.13
Matches are distributed among these distances:
38 18 0.06
39 19 0.07
40 98 0.35
41 40 0.14
42 50 0.18
43 37 0.13
44 8 0.03
45 6 0.02
46 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (39 bp):
ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
Found at i:7218896 original size:26 final size:24
Alignment explanation
Indices: 7218867--7218939 Score: 87
Period size: 23 Copynumber: 3.0 Consensus size: 24
7218857 TTTGAATATC
7218867 TTTTTTTTCATTTCTCATTTTTTTCT
1 TTTTTTTTCATTT-TC-TTTTTTTCT
*
7218893 TTTTTTTTCCTTTT-TTTTTCTT-T
1 TTTTTTTTCATTTTCTTTTT-TTCT
*
7218916 TTTTTTTTCATCTTCTTTTTTTCT
1 TTTTTTTTCATTTTCTTTTTTTCT
7218940 GATTTTTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
23 20 0.49
24 8 0.20
25 1 0.02
26 12 0.29
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTTCATTTTCTTTTTTTCT
Found at i:7218901 original size:21 final size:21
Alignment explanation
Indices: 7218877--7218926 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7218867 TTTTTTTTCA
7218877 TTTCTCATTTTTTTCTTTTTT
1 TTTCTCATTTTTTTCTTTTTT
*
7218898 TTTC-CTTTTTTTTTCTTTTTT
1 TTTCTC-ATTTTTTTCTTTTTT
*
7218919 TTTTTCAT
1 TTTCTCAT
7218927 CTTCTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTCTCATTTTTTTCTTTTTT
Found at i:7218922 original size:11 final size:10
Alignment explanation
Indices: 7218884--7218921 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
7218874 TCATTTCTCA
7218884 TTTTTTTCTT
1 TTTTTTTCTT
7218894 TTTTTTTCCTT
1 TTTTTTT-CTT
7218905 TTTTTTTCTT
1 TTTTTTTCTT
7218915 TTTTTTT
1 TTTTTTT
7218922 TTCATCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:7218946 original size:26 final size:24
Alignment explanation
Indices: 7218867--7218939 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 24
7218857 TTTGAATATC
*
7218867 TTTTTTTTCATTTCTCATTTTTTTCT
1 TTTTTTTTCATCT-TC-TTTTTTTCT
7218893 TTTTTTTTC--CTT-TTTTTTTCTTT
1 TTTTTTTTCATCTTCTTTTTTTC--T
7218916 TTTTTTTTCATCTTCTTTTTTTCT
1 TTTTTTTTCATCTTCTTTTTTTCT
7218940 GATTTTTCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
21 8 0.20
23 11 0.27
24 2 0.05
25 3 0.07
26 17 0.41
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTTCATCTTCTTTTTTTCT
Done.