Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 198 of 208
Found at i:60255372 original size:47 final size:46
Alignment explanation
Indices: 60255306--60255473 Score: 148
Period size: 47 Copynumber: 3.7 Consensus size: 46
60255296 TTAATTAAAA
*
60255306 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
60255353 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * * *
60255398 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTATCT
60255444 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
60255474 ATATTAAAAG
Statistics
Matches: 93, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
43 3 0.03
44 15 0.16
45 14 0.15
46 13 0.14
47 41 0.44
48 7 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:60255394 original size:26 final size:28
Alignment explanation
Indices: 60255365--60255425 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
60255355 TATGAATTTG
*
60255365 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
60255391 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
60255419 TAAAATT
1 TATAATT
60255426 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:60261199 original size:18 final size:19
Alignment explanation
Indices: 60261165--60261202 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
60261155 ATCACAAAAA
60261165 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
60261184 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
60261202 A
1 A
60261203 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:60261368 original size:20 final size:20
Alignment explanation
Indices: 60261329--60261379 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
60261319 TATTCTTTAG
*
60261329 AATTTTTAAAAATATATATA
1 AATTTTTGAAAATATATATA
*
60261349 TAATTTTTGAAAAT-TTTATA
1 -AATTTTTGAAAATATATATA
60261369 AATATTTTGAA
1 AAT-TTTTGAA
60261380 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 12 0.44
21 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
AATTTTTGAAAATATATATA
Found at i:60261368 original size:22 final size:21
Alignment explanation
Indices: 60261329--60261376 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
60261319 TATTCTTTAG
*
60261329 AATTTTTAAAAATATATATAT
1 AATTTTTAAAAATATATAAAT
* *
60261350 AATTTTTGAAAATTTTATAAAT
1 AATTTTT-AAAAATATATAAAT
60261372 -ATTTT
1 AATTTT
60261377 GAATTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATTTTTAAAAATATATAAAT
Found at i:60261381 original size:18 final size:19
Alignment explanation
Indices: 60261360--60261395 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
60261350 AATTTTTGAA
*
60261360 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
60261378 AATTTTAAAAATTATTTT
1 AATTTTAAAAATTATTTT
60261396 ATAATTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:60262495 original size:9 final size:9
Alignment explanation
Indices: 60262481--60262556 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
60262471 GTAGTGATTC
60262481 AATTCGGTT
1 AATTCGGTT
*
60262490 AATTCGGGT
1 AATTCGGTT
60262499 AATTCGGTT
1 AATTCGGTT
*
60262508 AATTCGGGT
1 AATTCGGTT
*
60262517 AATCCGGTT
1 AATTCGGTT
*
60262526 AATTCGGGT
1 AATTCGGTT
*
60262535 AATCCGGTT
1 AATTCGGTT
60262544 AATTCGGTT
1 AATTCGGTT
60262553 AATT
1 AATT
60262557 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:60262504 original size:18 final size:18
Alignment explanation
Indices: 60262481--60262556 Score: 125
Period size: 18 Copynumber: 4.2 Consensus size: 18
60262471 GTAGTGATTC
60262481 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
60262499 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
*
60262517 AATCCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* *
60262535 AATCCGGTTAATTCGGTT
1 AATTCGGTTAATTCGGGT
60262553 AATT
1 AATT
60262557 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:60277182 original size:6 final size:6
Alignment explanation
Indices: 60277173--60277198 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
60277163 ACATACACAG
60277173 TCAGAT TCAGAT TCAGAT TCAGAT TC
1 TCAGAT TCAGAT TCAGAT TCAGAT TC
60277199 GAGCTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (6 bp):
TCAGAT
Found at i:60278301 original size:19 final size:19
Alignment explanation
Indices: 60278260--60278302 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
60278250 CTTTTTCTAT
*
60278260 TTTTTTTTCTTTCTTTGCG
1 TTTTTTTTCTTTCTTTGCA
60278279 TTTTTTTTCTGTTCTTT-CA
1 TTTTTTTTCT-TTCTTTGCA
60278298 TTTTT
1 TTTTT
60278303 CGTATACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTTTTTCTTTCTTTGCA
Found at i:60278302 original size:20 final size:19
Alignment explanation
Indices: 60278253--60278302 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
60278243 GGTGGTTCTT
60278253 TTTCTATTTTTTTTTCTTTC
1 TTTC-ATTTTTTTTTCTTTC
*
60278273 TTTGC-GTTTTTTTTCTGTTC
1 TTT-CATTTTTTTTTCT-TTC
60278293 TTTCATTTTT
1 TTTCATTTTT
60278303 CGTATACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 11 0.44
20 13 0.52
21 1 0.04
ACGTcount: A:0.04, C:0.14, G:0.06, T:0.76
Consensus pattern (19 bp):
TTTCATTTTTTTTTCTTTC
Found at i:60292450 original size:4 final size:4
Alignment explanation
Indices: 60292441--60292467 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
60292431 CTAGCAGTTA
60292441 CCTC CCTC CCTC CCTC CCTC CCTC CCT
1 CCTC CCTC CCTC CCTC CCTC CCTC CCT
60292468 TTTACCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (4 bp):
CCTC
Found at i:60296437 original size:25 final size:25
Alignment explanation
Indices: 60296409--60296458 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
60296399 AAATATGTAA
60296409 GACAATTATCATGTAAGATTACAGT
1 GACAATTATCATGTAAGATTACAGT
60296434 GACAATTATCATGTAAGATTACAGT
1 GACAATTATCATGTAAGATTACAGT
60296459 TTCTCTCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (25 bp):
GACAATTATCATGTAAGATTACAGT
Found at i:60297960 original size:2 final size:2
Alignment explanation
Indices: 60297953--60297983 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
60297943 TCCAAAGTAA
60297953 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60297984 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60297988 original size:2 final size:2
Alignment explanation
Indices: 60297983--60298020 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
60297973 ATATATATAT
60297983 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
60298021 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:60306038 original size:24 final size:26
Alignment explanation
Indices: 60305997--60306054 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
60305987 TTACCAAAAT
60305997 ATAATAACTTTTTTTTATTTATC-AAA
1 ATAATAACTTTTTTTTATTTA-CGAAA
60306023 ATAA-AAC-TTTTTTTATTTACGAAA
1 ATAATAACTTTTTTTTATTTACGAAA
60306047 ATATATAA
1 ATA-ATAA
60306055 AAAAAAACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 1 0.03
24 18 0.62
25 4 0.14
26 6 0.21
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (26 bp):
ATAATAACTTTTTTTTATTTACGAAA
Found at i:60306138 original size:27 final size:27
Alignment explanation
Indices: 60306100--60306152 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
60306090 AGCGGGTCAG
60306100 GCCAATGCCATTGGCGGCACCAATGGC
1 GCCAATGCCATTGGCGGCACCAATGGC
60306127 GCCAATGCCATTGGCGGCACCAATGG
1 GCCAATGCCATTGGCGGCACCAATGG
60306153 TGCAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.32, G:0.30, T:0.15
Consensus pattern (27 bp):
GCCAATGCCATTGGCGGCACCAATGGC
Found at i:60308272 original size:22 final size:22
Alignment explanation
Indices: 60308210--60308295 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
60308200 ATTGTTCAAA
* **
60308210 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
60308232 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
60308254 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * *
60308276 CATGAGGGTTTAGTTCGTTA
1 CATGAGAGCTTAGTACGTTA
60308296 ATCAAGGAGC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:60309273 original size:22 final size:23
Alignment explanation
Indices: 60309227--60309277 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
60309217 ATGATAACTT
60309227 TTTTTTAGTTATCAAAATATAAA
1 TTTTTTAGTTATCAAAATATAAA
*
60309250 TTTTTTATTTATCAAAATAT-AA
1 TTTTTTAGTTATCAAAATATAAA
60309272 TTTTTT
1 TTTTTT
60309278 GGTAAATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTTAGTTATCAAAATATAAA
Found at i:60309286 original size:23 final size:23
Alignment explanation
Indices: 60309237--60309289 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
60309227 TTTTTTAGTT
**
60309237 ATCAAAATATAAATTTTTTATTT
1 ATCAAAATATAAATTTTTTATAA
*
60309260 ATCAAAATAT-AATTTTTTGGTAA
1 ATCAAAATATAAATTTTTT-ATAA
60309283 ATCAAAA
1 ATCAAAA
60309290 AAAAAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (23 bp):
ATCAAAATATAAATTTTTTATAA
Found at i:60310008 original size:3 final size:3
Alignment explanation
Indices: 60310000--60310089 Score: 53
Period size: 3 Copynumber: 29.3 Consensus size: 3
60309990 TTTCCTCCCC
* *
60310000 TCT TCT TCT TCT TCT TCT T-T TTT TC- TCT TCT CCTT TCTT TCTT TCTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TC-T TC-T TC-T
* * *
60310047 TCT TTT TCTT TCT T-T T-T TCT TCT CCTT TCC TCT TCT TCT TCT T
1 TCT TCT TC-T TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT T
60310090 TCTTTTTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
2 8 0.11
3 45 0.62
4 19 0.26
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:60310028 original size:22 final size:22
Alignment explanation
Indices: 60310003--60310064 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 22
60309993 CCTCCCCTCT
60310003 TCTTCTTCTTCTTCTTTTTTTC
1 TCTTCTTCTTCTTCTTTTTTTC
* *
60310025 TCTTC-TCCT-TTCTTTCTTTC
1 TCTTCTTCTTCTTCTTTTTTTC
*
60310045 T-TTCTTTTTCTTTCTTTTTT
1 TCTTCTTCTTC-TTCTTTTTT
60310065 CTTCTCCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 3 0.09
22 13 0.41
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTCTTCTTCTTCTTTTTTTC
Found at i:60310041 original size:4 final size:4
Alignment explanation
Indices: 60310014--60310199 Score: 113
Period size: 4 Copynumber: 45.8 Consensus size: 4
60310004 CTTCTTCTTC
* *
60310014 TTCT TTTT TTCT CTTC- TCCT TTCT TTCT TTCT TTC- TT-T TTCT TTCT
1 TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
60310060 TT-T TTCT TCTCCT TTCCT CTTC- TTC- TTCT TTCT TT-T TT-T TCTCCT
1 TTCT TTCT T-T-CT TT-CT -TTCT TTCT TTCT TTCT TTCT TTCT T-T-CT
* * * *
60310105 TTCC TT-T TTCT TTCT TTCCT CTCCT TCCTT TTCT TTCC TT-T TTCT TTCT
1 TTCT TTCT TTCT TTCT TT-CT -TTCT TTC-T TTCT TTCT TTCT TTCT TTCT
* *
60310154 TTCCT CTCCT TCCTT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
1 TT-CT -TTCT TTC-T TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
60310200 CCTCTCCTTC
Statistics
Matches: 150, Mismatches: 12, Indels: 40
0.74 0.06 0.20
Matches are distributed among these distances:
3 24 0.16
4 93 0.62
5 24 0.16
6 9 0.06
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:60310059 original size:34 final size:35
Alignment explanation
Indices: 60310011--60310196 Score: 124
Period size: 34 Copynumber: 5.4 Consensus size: 35
60310001 CTTCTTCTTC
*
60310011 TTCTTCTTTTTTTCTCTTCTCCTTTCTTTCTTTCT
1 TTCTTCTTTCTTTCTCTTCTCCTTTCTTTCTTTCT
* *
60310046 TTCTT-TTTCTTTCT-TTTTTCTTCTCCTTTCCTCTTC-
1 TTCTTCTTTCTTTCTCTTCTCCTT-T-CTTT-CT-TTCT
* * *
60310082 TTCTTCTTTCTTTTTTTTCTCCTTTCCTT-TTTCT
1 TTCTTCTTTCTTTCTCTTCTCCTTTCTTTCTTTCT
* * * *
60310116 TTC-T-TTCCTCTC-CTTC-CTTTTCTTTCCTT-T
1 TTCTTCTTTCTTTCTCTTCTCCTTTCTTTCTTTCT
* *
60310146 TTCTTTCTTTC-CTCTCCTTC-CTTTTCTTTCTTTCT
1 TTC-TTCTTTCTTTCT-CTTCTCCTTTCTTTCTTTCT
60310181 TTCTTTCTTTCTTTCT
1 TTC-TTCTTTCTTTCT
60310197 TTCCCTCTCC
Statistics
Matches: 119, Mismatches: 17, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
30 11 0.09
31 5 0.04
32 9 0.08
33 13 0.11
34 29 0.24
35 21 0.18
36 13 0.11
37 12 0.10
38 6 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (35 bp):
TTCTTCTTTCTTTCTCTTCTCCTTTCTTTCTTTCT
Found at i:60310099 original size:77 final size:75
Alignment explanation
Indices: 60309998--60310208 Score: 209
Period size: 77 Copynumber: 2.7 Consensus size: 75
60309988 TCTTTCCTCC
* *
60309998 CCTCTTCTTCTTC-TTCTTCTTTTTTTCTCTTCTCCTTTCTTTCTTTCT-TTCTTTTTCTTTCTT
1 CCTCTTCTTCTTCTTTCTT-TTTTTTTCTCTT-TCCTTTCTTTCTTTCTCTTCCTTTTCTTTCCT
60310061 TTTTCTTCTCCTTT
64 TTTTCTT-T-CTTT
60310075 CCTCTTCTTCTTCTTTC-TTTTTTTTCTCCTTTCCTTTTTCTTTCTTTCCTCTCCTTCCTTTTCT
1 CCTCTTCTTCTTCTTTCTTTTTTTTTCT-CTTTCC--TTTCTTTC-TT--TCT-CTTCCTTTTCT
60310139 TTCCTTTTTCTTTCTTT
59 TTCCTTTTTCTTTCTTT
* * * *
60310156 CCTCTCCTTCCT-TTTCTTTCTTTCTT-TCTTT-CTTTCTTTCTTTCCCTCTCCTT
1 CCTCTTCTTCTTCTTTCTTT-TTTTTTCTCTTTCCTTTCTTTCTTTCTCT-TCCTT
60310209 CTCCCCCCAG
Statistics
Matches: 116, Mismatches: 6, Indels: 27
0.78 0.04 0.18
Matches are distributed among these distances:
73 2 0.02
74 7 0.06
76 14 0.12
77 25 0.22
78 11 0.09
79 3 0.03
80 8 0.07
81 20 0.17
82 6 0.05
83 20 0.17
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (75 bp):
CCTCTTCTTCTTCTTTCTTTTTTTTTCTCTTTCCTTTCTTTCTTTCTCTTCCTTTTCTTTCCTTT
TTCTTTCTTT
Found at i:60310136 original size:74 final size:76
Alignment explanation
Indices: 60310003--60310209 Score: 203
Period size: 74 Copynumber: 2.7 Consensus size: 76
60309993 CCTCCCCTCT
* * * *
60310003 TCTTCTTCTTC-TTC-TTTTTTTCTCTTCTCCTTTCTTTCTTTCTTTCTTTTTCTTTC-TTT-TT
1 TCTTCTTCTTCTTTCTTTTTTTTCTCTT-TCC-TTCTTTCTTTCTTTCCTCTCCTTCCTTTTCTT
60310064 T-CTTCTCCTTTCC
64 TCCTTCTCCTTT-C
60310077 TCTTCTTCTTCTTTCTTTTTTTTCTCCTTTCCTT-TTTCTTTCTTTCCTCTCCTTCCTTTTCTTT
1 TCTTCTTCTTCTTTCTTTTTTTTCT-CTTTCCTTCTTTCTTTCTTTCCTCTCCTTCCTTTTCTTT
* *
60310141 CCTTTTTCTTTC
65 CCTTCTCCTTTC
* * * * *
60310153 T-TTCCTCTCCTTCCTTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCCCTCTCCTTC
1 TCTTCTTCTTCTTTCTTTT-TTT-TCTCTTTCCTTCTTTCTTTCTTT-CCTCTCCTTC
60310210 TCCCCCCAGC
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
74 29 0.26
75 22 0.20
76 27 0.24
77 24 0.21
78 10 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (76 bp):
TCTTCTTCTTCTTTCTTTTTTTTCTCTTTCCTTCTTTCTTTCTTTCCTCTCCTTCCTTTTCTTTC
CTTCTCCTTTC
Found at i:60310171 original size:57 final size:57
Alignment explanation
Indices: 60310025--60310179 Score: 151
Period size: 57 Copynumber: 2.8 Consensus size: 57
60310015 TCTTTTTTTC
* ** * *
60310025 TCTTCTCCTTTCTTTCTTT-CTTTCTT-TTTCTTTCTTT-TTTCTTCTCCTTTCCTCT
1 TCTTCTTCTTTCTTTCTTTCCTCCCTTCCTT-TTTCTTTCTTTCCTCTCCTTTCCTCT
* * * *
60310080 TCTTCTTCTTTCTTTTTTTTCTCCTTTCCTTTTTCTTTCTTTCCTCTCC-TTCCTTT
1 TCTTCTTCTTTCTTTCTTTCCTCCCTTCCTTTTTCTTTCTTTCCTCTCCTTTCCTCT
60310136 TCTTTCCTT-TTTCTTTCTTTCCTCTCCTTCC-TTTTCTTTCTTTC
1 TC-TT-CTTCTTTCTTTCTTTCCTC-CCTTCCTTTTTCTTTCTTTC
60310180 TTTCTTTCTT
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
55 17 0.20
56 19 0.23
57 39 0.47
58 8 0.10
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (57 bp):
TCTTCTTCTTTCTTTCTTTCCTCCCTTCCTTTTTCTTTCTTTCCTCTCCTTTCCTCT
Found at i:60310398 original size:26 final size:27
Alignment explanation
Indices: 60310345--60310410 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
60310335 TTTTTTTGAT
* * *
60310345 ATATTTTCGTAATTAAAAAAATATATA
1 ATATTTTGGTAAATAAAAAAATAGATA
*
60310372 ATATTTTGGTAAATAAAAAAA-GGATA
1 ATATTTTGGTAAATAAAAAAATAGATA
60310398 ATATTTTGGTAAA
1 ATATTTTGGTAAA
60310411 ATTTTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 16 0.46
27 19 0.54
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATAGATA
Found at i:60313035 original size:18 final size:17
Alignment explanation
Indices: 60312999--60313037 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
60312989 ATATTCATTA
* *
60312999 AAAAAACAAAAAGATTG
1 AAAAAACAAAAAAAGTG
60313016 AAAAAACAAAACAAAGTG
1 AAAAAACAAAA-AAAGTG
60313034 AAAA
1 AAAA
60313038 TAACTCTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.74, C:0.08, G:0.10, T:0.08
Consensus pattern (17 bp):
AAAAAACAAAAAAAGTG
Found at i:60316214 original size:45 final size:45
Alignment explanation
Indices: 60316150--60316239 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
60316140 CGCTTAAAAG
*
60316150 AAAGTGGTAGGTACCTTTTCACATTCCTTTTACTTTTCAGTAGAT
1 AAAGTGGTAGATACCTTTTCACATTCCTTTTACTTTTCAGTAGAT
* * *
60316195 AAAGTGGTAGATACCTTTTCATATTTCTTTTGCTTTTCAGTAGAT
1 AAAGTGGTAGATACCTTTTCACATTCCTTTTACTTTTCAGTAGAT
60316240 TGTTAATAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (45 bp):
AAAGTGGTAGATACCTTTTCACATTCCTTTTACTTTTCAGTAGAT
Found at i:60337549 original size:83 final size:82
Alignment explanation
Indices: 60337410--60337575 Score: 246
Period size: 83 Copynumber: 2.0 Consensus size: 82
60337400 GACCATTTGG
*
60337410 TGTCATTAGTCAAAAATAAAAATTTATTAAATATTATTATTAACCGACCAACTAAATAAAAATTA
1 TGTCATTAGTCAAAAATAAAAATTTATTAAATATTATTATCAACCGACCAACTAAAT-AAAATTA
60337475 AAAGTCAACACAATTGTA
65 AAAGTCAACACAATTGTA
* *
60337493 TGTCATTAGTCAAAATTAAAACTTTATTAAA-ATTTATTATCAATCC-ACCAACTAAATAAAATT
1 TGTCATTAGTCAAAAATAAAAATTTATTAAATA-TTATTATCAA-CCGACCAACTAAATAAAATT
* *
60337556 AGAATTCAACACAATTGTA
64 AAAAGTCAACACAATTGTA
60337575 T
1 T
60337576 TTAGGGTAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
82 25 0.33
83 49 0.64
84 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (82 bp):
TGTCATTAGTCAAAAATAAAAATTTATTAAATATTATTATCAACCGACCAACTAAATAAAATTAA
AAGTCAACACAATTGTA
Found at i:60339353 original size:12 final size:13
Alignment explanation
Indices: 60339331--60339359 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
60339321 TTGAAATTTT
60339331 TAAACAAAAACTA
1 TAAACAAAAACTA
60339344 TAAA-AAAAACTA
1 TAAACAAAAACTA
60339356 TAAA
1 TAAA
60339360 TTTAATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAACAAAAACTA
Found at i:60355669 original size:8 final size:8
Alignment explanation
Indices: 60355656--60355680 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
60355646 TATAACTTAC
60355656 ATATTTTG
1 ATATTTTG
60355664 ATATTTTG
1 ATATTTTG
60355672 ATATTTTG
1 ATATTTTG
60355680 A
1 A
60355681 AAACATTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATATTTTG
Found at i:60357660 original size:13 final size:13
Alignment explanation
Indices: 60357638--60357671 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
60357628 GTATTCAATT
60357638 CAATCCAATTACC
1 CAATCCAATTACC
*
60357651 CAATCTAATTACC
1 CAATCCAATTACC
*
60357664 CAACCCAA
1 CAATCCAA
60357672 CCTAATCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (13 bp):
CAATCCAATTACC
Found at i:60357727 original size:6 final size:6
Alignment explanation
Indices: 60357718--60357752 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
60357708 AAATAAAATT
60357718 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
60357753 GTATAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:60357805 original size:9 final size:9
Alignment explanation
Indices: 60357791--60357902 Score: 134
Period size: 9 Copynumber: 12.4 Consensus size: 9
60357781 TGTATGATTC
*
60357791 AATTAGGTT
1 AATTCGGTT
*
60357800 AATTAGGTT
1 AATTCGGTT
*
60357809 AATTCGGGT
1 AATTCGGTT
*
60357818 AATTCGGGT
1 AATTCGGTT
60357827 AATTCGGTT
1 AATTCGGTT
**
60357836 AATTCAATT
1 AATTCGGTT
*
60357845 AATTCGGGT
1 AATTCGGTT
*
60357854 AATTTGGTT
1 AATTCGGTT
*
60357863 AATTCGGGT
1 AATTCGGTT
60357872 AATTCGGTT
1 AATTCGGTT
*
60357881 AATTTGGTT
1 AATTCGGTT
60357890 AATTCGGTT
1 AATTCGGTT
60357899 AATT
1 AATT
60357903 TTTAACCAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 88 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:60358079 original size:12 final size:12
Alignment explanation
Indices: 60358062--60358086 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60358052 TACTATTTCG
60358062 GGTCGGTTAACC
1 GGTCGGTTAACC
60358074 GGTCGGTTAACC
1 GGTCGGTTAACC
60358086 G
1 G
60358087 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:60361466 original size:25 final size:25
Alignment explanation
Indices: 60361432--60361483 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
60361422 TCATTAATAA
60361432 GAGGATAATGCGCTTTATCGCATTC
1 GAGGATAATGCGCTTTATCGCATTC
60361457 GAGGATAATGCGCTTTATCGCATTC
1 GAGGATAATGCGCTTTATCGCATTC
60361482 GA
1 GA
60361484 ACACACGTCC
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:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (25 bp):
GAGGATAATGCGCTTTATCGCATTC
Found at i:60370115 original size:31 final size:31
Alignment explanation
Indices: 60370077--60370140 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
60370067 CCTCTGGGCA
60370077 TCCCAATTAAGTGACCATTCACAGAAAATAT
1 TCCCAATTAAGTGACCATTCACAGAAAATAT
60370108 TCCCAATTAAGTGACCATTCACAGAAAATAT
1 TCCCAATTAAGTGACCATTCACAGAAAATAT
60370139 TC
1 TC
60370141 ATAATTCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (31 bp):
TCCCAATTAAGTGACCATTCACAGAAAATAT
Found at i:60376474 original size:22 final size:22
Alignment explanation
Indices: 60376446--60376498 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
60376436 TATTTTGAAA
60376446 TTAGTACGTGAAACATGAGAGC
1 TTAGTACGTGAAACATGAGAGC
* **
60376468 TTAGTACGTTAGCCATGAGAGC
1 TTAGTACGTGAAACATGAGAGC
60376490 TTAGTACGT
1 TTAGTACGT
60376499 TAGCCATGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (22 bp):
TTAGTACGTGAAACATGAGAGC
Found at i:60376499 original size:22 final size:22
Alignment explanation
Indices: 60376459--60376522 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
60376449 GTACGTGAAA
60376459 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
60376481 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * *
60376503 CATGAGGGTTTAGTTCGTTA
1 CATGAGAGCTTAGTACGTTA
60376523 AACATTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:60381271 original size:24 final size:24
Alignment explanation
Indices: 60381244--60381295 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
60381234 GTATATACAT
60381244 AAACATATGATGAGAACAACTAGG
1 AAACATATGATGAGAACAACTAGG
60381268 AAACATATGATGAGAACAACTAGG
1 AAACATATGATGAGAACAACTAGG
60381292 AAAC
1 AAAC
60381296 TGATATATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.15
Consensus pattern (24 bp):
AAACATATGATGAGAACAACTAGG
Found at i:60386807 original size:41 final size:41
Alignment explanation
Indices: 60386761--60386854 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
60386751 AAAAAAAACA
* *
60386761 CCGCTAATGCTCAGATATTTAGCGGCATTTTTTAAGAAGTG
1 CCGCTAATGCTCAGATATTTAGCGGCATTTTTCAAGAAGCG
* *
60386802 CCGCTAATGCTCAGATCTTTAGCGGCGTTTTTCAAGAAGCG
1 CCGCTAATGCTCAGATATTTAGCGGCATTTTTCAAGAAGCG
60386843 CCGCTAATGCTC
1 CCGCTAATGCTC
60386855 GGGGCTTTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (41 bp):
CCGCTAATGCTCAGATATTTAGCGGCATTTTTCAAGAAGCG
Found at i:60386863 original size:41 final size:41
Alignment explanation
Indices: 60386761--60386887 Score: 146
Period size: 41 Copynumber: 3.1 Consensus size: 41
60386751 AAAAAAAACA
** * * *
60386761 CCGCTAATGCTCAGATATTTAGCGGCATTTTTTAAGAAGTG
1 CCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTCAAGAAGCG
*
60386802 CCGCTAATGCTCAGATCTTTAGCGGCGTTTTTCAAGAAGCG
1 CCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTCAAGAAGCG
* * * * * *
60386843 CCGCTAATGCTCGGGGCTTTAGTGCCGTTTTTGAAAAAGCG
1 CCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTCAAGAAGCG
60386884 CCGC
1 CCGC
60386888 AAAAACATTT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (41 bp):
CCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTCAAGAAGCG
Found at i:60387556 original size:88 final size:89
Alignment explanation
Indices: 60387409--60387571 Score: 265
Period size: 88 Copynumber: 1.8 Consensus size: 89
60387399 TTCAGTTCAA
*
60387409 GTTAAGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAACAATGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAACAAGGTTTAGGGGT
60387474 TAGGGGTTAGGGATTCGAGGTTGG
66 TAGGGGTTAGGGATTCGAGGTTGG
* * * *
60387498 GTTAGGGTTTATGGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAACAAGGTTTAGGGGT
*
60387562 TAGTGGTTAG
66 TAGGGGTTAG
60387572 AGGTTTGGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 40 0.59
89 28 0.41
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (89 bp):
GTTAAGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAACAAGGTTTAGGGGT
TAGGGGTTAGGGATTCGAGGTTGG
Found at i:60387591 original size:21 final size:22
Alignment explanation
Indices: 60387550--60387607 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
60387540 ATATTAAATA
*
60387550 AGGTTTAGGGGTTAGTGGTTAG
1 AGGTTTAGGGGTTAGTAGTTAG
60387572 AGGTTT-GGGGTTAAG-AGTTAG
1 AGGTTTAGGGGTT-AGTAGTTAG
* * *
60387593 TGATTTAGGGTTTAG
1 AGGTTTAGGGGTTAG
60387608 AGATTTAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (22 bp):
AGGTTTAGGGGTTAGTAGTTAG
Found at i:60387607 original size:15 final size:15
Alignment explanation
Indices: 60387589--60387618 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60387579 GGGTTAAGAG
*
60387589 TTAGTGATTTAGGGT
1 TTAGAGATTTAGGGT
60387604 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
60387619 CAGGTTAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:60388738 original size:21 final size:22
Alignment explanation
Indices: 60388712--60388756 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
60388702 ATAAAATCCC
60388712 TTCCCCCCTCAAA-CCCCAACT
1 TTCCCCCCTCAAACCCCCAACT
* *
60388733 TTCCCCCTTGAAACCCCCAACT
1 TTCCCCCCTCAAACCCCCAACT
60388755 TT
1 TT
60388757 ACAAACATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.22, C:0.51, G:0.02, T:0.24
Consensus pattern (22 bp):
TTCCCCCCTCAAACCCCCAACT
Found at i:60389379 original size:25 final size:24
Alignment explanation
Indices: 60389350--60389397 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
60389340 ATCATGGGAA
60389350 AAATGTG-AAGACATTGAAATGTATT
1 AAATGTGAAAGA-ATTGAAA-GTATT
60389375 AAATGTGAAAGAATTGAAAGTAT
1 AAATGTGAAAGAATTGAAAGTAT
60389398 AATATATGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (24 bp):
AAATGTGAAAGAATTGAAAGTATT
Found at i:60394458 original size:16 final size:16
Alignment explanation
Indices: 60394437--60394467 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60394427 TCAATCAGCG
60394437 ATATATATATACATAC
1 ATATATATATACATAC
*
60394453 ATATATGTATACATA
1 ATATATATATACATA
60394468 TATAATGTTG
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:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATATATATACATAC
Found at i:60399629 original size:29 final size:30
Alignment explanation
Indices: 60399582--60399639 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
60399572 TTAATTTAAC
** *
60399582 GTGCAATTATGTACATGAA-CTGTAATTTG
1 GTGCAATTATACACATGAAGCTCTAATTTG
*
60399611 GTGCAATTATACACGTGAAGCTCTAATTT
1 GTGCAATTATACACATGAAGCTCTAATTT
60399640 TGGTTCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (30 bp):
GTGCAATTATACACATGAAGCTCTAATTTG
Found at i:60407138 original size:3 final size:3
Alignment explanation
Indices: 60407130--60407166 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
60407120 GGAAAGAGTA
60407130 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
60407167 GTAAGTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60410431 original size:3 final size:3
Alignment explanation
Indices: 60410416--60410450 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
60410406 ATAAATTTCA
* *
60410416 TAT TAT TAC TAT TAT TAT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
60410451 GTTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:60410431 original size:12 final size:12
Alignment explanation
Indices: 60410416--60410447 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
60410406 ATAAATTTCA
60410416 TATTATTACTAT
1 TATTATTACTAT
60410428 TATTATTACTAT
1 TATTATTACTAT
60410440 TATTATTA
1 TATTATTA
60410448 TTAGTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:60410820 original size:17 final size:14
Alignment explanation
Indices: 60410805--60410858 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
60410795 TCCTTTATTG
60410805 TTATTATTATTTTAT
1 TTATT-TTATTTTAT
60410820 TTATTTTATTTTACT
1 TTATTTTATTTTA-T
*
60410835 TTATGTTCA-TTTAT
1 TTAT-TTTATTTTAT
60410849 TTA-TTTATTT
1 TTATTTTATTT
60410859 ATATATCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 3 0.09
13 2 0.06
14 12 0.35
15 14 0.41
16 3 0.09
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:60410824 original size:4 final size:4
Alignment explanation
Indices: 60410815--60410902 Score: 70
Period size: 4 Copynumber: 20.8 Consensus size: 4
60410805 TTATTATTAT
*
60410815 TTTA TTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA TTTA TATA
1 TTTA TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA TTTA TTTA
** * *
60410864 TCCA TTTT TTTA TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
60410903 GTTGTTGTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
3 2 0.03
4 44 0.64
5 21 0.30
6 2 0.03
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:60411241 original size:106 final size:106
Alignment explanation
Indices: 60411040--60411354 Score: 450
Period size: 106 Copynumber: 2.9 Consensus size: 106
60411030 AAAGAAAATT
* * * * * * * * *
60411040 TTTCTAAATGAGGCAATATTTAGCTTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGAGTAT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTT
*
60411105 CGATTTTTCTCGTTCAACCAAATAGTTAAATATCCTTTCAAAAA
65 CGA--TTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAA
60411149 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTC
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTC
*
60411214 GATTTCTCGCTCAACCAAATAGCTAAATATCCTTTCAAAAA
66 GATTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAA
* * *
60411255 TTACAAAATAACGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGATGGGTTTC
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTC
* * *
60411320 GATTTCTCGTTTAACCAAATTGCCAAATATCCTTT
66 GATTTCTCGTTCAACCAAATAGCTAAATATCCTTT
60411355 TTAATTTTAA
Statistics
Matches: 188, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
106 130 0.69
108 24 0.13
109 34 0.18
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (106 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTC
GATTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAAAAA
Found at i:60420738 original size:3 final size:3
Alignment explanation
Indices: 60420712--60420765 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
60420702 AATATAGTGG
* * * *
60420712 TTA TAA TTA TTA TAA TTA TAA TTA TTA TTA TTA TCA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60420759 TTA TTA T
1 TTA TTA T
60420766 ACTTACATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:60423315 original size:18 final size:19
Alignment explanation
Indices: 60423289--60423331 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
60423279 AAAAATTACA
*
60423289 AAAAAAATTTCAAAAATC-
1 AAAATAATTTCAAAAATCT
**
60423307 AAAATAATTTTTAAAATCT
1 AAAATAATTTCAAAAATCT
60423326 AAAATA
1 AAAATA
60423332 TTTATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATAATTTCAAAAATCT
Found at i:60423334 original size:18 final size:18
Alignment explanation
Indices: 60423301--60423340 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
60423291 AAAAATTTCA
*
60423301 AAAATCAAAATAATTTTT
1 AAAATCAAAATAATTTAT
60423319 AAAATCTAAAAT-ATTTAT
1 AAAATC-AAAATAATTTAT
60423337 AAAA
1 AAAA
60423341 AATTCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATCAAAATAATTTAT
Found at i:60423614 original size:25 final size:26
Alignment explanation
Indices: 60423584--60423632 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
60423574 TAACTCGAAT
60423584 AATTTCAC-TCAATTCGACT-GATTCG
1 AATTTCACTTC-ATTCGACTCGATTCG
60423609 AATTTCACTTCATTCGACTCGATT
1 AATTTCACTTCATTCGACTCGATT
60423633 TGAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (26 bp):
AATTTCACTTCATTCGACTCGATTCG
Found at i:60428300 original size:18 final size:18
Alignment explanation
Indices: 60428279--60428313 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
60428269 CCAAAGTGAT
60428279 ATTTTAATATTT-TTAAAC
1 ATTTTAAT-TTTATTAAAC
60428297 ATTTTAATTTTATTAAA
1 ATTTTAATTTTATTAAA
60428314 TAAATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTTTATTAAAC
Found at i:60428907 original size:22 final size:22
Alignment explanation
Indices: 60428869--60428910 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
60428859 CACCATTAAA
60428869 ATAATAGAAAATAATATAATAT
1 ATAATAGAAAATAATATAATAT
60428891 ATAATA-AAAATATATATAAT
1 ATAATAGAAAATA-ATATAAT
60428911 TTACTATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
ATAATAGAAAATAATATAATAT
Found at i:60429201 original size:15 final size:16
Alignment explanation
Indices: 60429181--60429211 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60429171 AAGCCAGCCT
60429181 AATTCT-AAAAAAAAA
1 AATTCTCAAAAAAAAA
60429196 AATTCTCAAAAAAAAA
1 AATTCTCAAAAAAAAA
60429212 TATTACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (16 bp):
AATTCTCAAAAAAAAA
Found at i:60430272 original size:54 final size:55
Alignment explanation
Indices: 60430186--60430299 Score: 196
Period size: 54 Copynumber: 2.1 Consensus size: 55
60430176 TCTTTTTTTC
* *
60430186 TCTT-AATTCACGAAAATGACCAAATGAGTGAT-AAAGGGGGATGAATCAAAAGT
1 TCTTCAATTCACGAAAATGACCAAATGAGTGATAAAAGGGGAATAAATCAAAAGT
60430239 TCTTCAATTCACGAAAATGACCAAATGAGTGATAAAAGGGGAATAAATCAAAAGT
1 TCTTCAATTCACGAAAATGACCAAATGAGTGATAAAAGGGGAATAAATCAAAAGT
60430294 TCTTCA
1 TCTTCA
60430300 CTGATAATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
53 4 0.07
54 28 0.49
55 25 0.44
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (55 bp):
TCTTCAATTCACGAAAATGACCAAATGAGTGATAAAAGGGGAATAAATCAAAAGT
Found at i:60431236 original size:18 final size:18
Alignment explanation
Indices: 60431213--60431249 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60431203 TTAGTATTAC
60431213 ATAGACACTAATACAATT
1 ATAGACACTAATACAATT
60431231 ATAGACACTAATACAATT
1 ATAGACACTAATACAATT
60431249 A
1 A
60431250 GATAGGTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.27
Consensus pattern (18 bp):
ATAGACACTAATACAATT
Found at i:60439466 original size:73 final size:73
Alignment explanation
Indices: 60439321--60439479 Score: 182
Period size: 73 Copynumber: 2.2 Consensus size: 73
60439311 TGTTCAGTAC
* *
60439321 TTTAGCGGCGTTTGTATGGAAGCGCCGCAAATAAACATAAGCCGAACGACATCGTTCTCTGAGTA
1 TTTAGCGGCGTTTGTATGGAAGCGCCGCAAATAAACATAAGCCCAACGACATCGTTCTCTGAGCA
60439386 TTCGGGGA
66 TTCGGGGA
* * * * *
60439394 TTTAGCGGCGTTT-T-TGGTAAGCGCCGCCAATAAAC-TAAGCCCAACG-CGGTTGTTTTACTTA
1 TTTAGCGGCGTTTGTATGG-AAGCGCCGCAAATAAACATAAGCCCAACGAC-ATCGTTCT-CTGA
*
60439455 GCATTTGGGGGA
63 GCA-TTCGGGGA
60439467 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
60439480 ATTGACAAGC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
70 1 0.01
71 18 0.24
72 22 0.30
73 33 0.45
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTGTATGGAAGCGCCGCAAATAAACATAAGCCCAACGACATCGTTCTCTGAGCA
TTCGGGGA
Found at i:60439823 original size:15 final size:16
Alignment explanation
Indices: 60439803--60439840 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
60439793 TTTAAGAGGC
60439803 TTAAGGGG-CTATAGT
1 TTAAGGGGTCTATAGT
*
60439818 TTAAGGGGTTTTATAGT
1 TTAAGGGG-TCTATAGT
60439835 TTAAGG
1 TTAAGG
60439841 TTTAATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
17 12 0.60
ACGTcount: A:0.26, C:0.03, G:0.32, T:0.39
Consensus pattern (16 bp):
TTAAGGGGTCTATAGT
Found at i:60441123 original size:147 final size:145
Alignment explanation
Indices: 60440871--60441207 Score: 354
Period size: 147 Copynumber: 2.3 Consensus size: 145
60440861 TTGCTATTAC
* ** * * * * *
60440871 TGGCGCTTTACATAAAACGCCGCAAAATTGTATTTATGTTTATCGAAATGTTGTCGTTTTGTCAA
1 TGGCGCTTTAC-TAAAACGCCGCAAAATTGT-TTAACATTTATAGAAACGCTGCCGTTTTGTAAA
* * * *
60440936 TGGTATTAGTGGCGTTTTTTTGGAAACGCCACAAGCTTGAGTTAAATGTTGGGGAAACGACTTCG
64 TGGTATTAGTGGCGTTTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCGGAAACGACTGCG
*
60441001 -TTTGATCTTATATTTAG
129 TTTTGAT-TTATAGTTAG
* * *
60441018 TGGCGGTTTACTTAAAACGCCGCAACATTGTTCTAACATTTATAGAAACGCTGCCGTTTTTTAAA
1 TGGCGCTTTAC-TAAAACGCCGCAAAATTGTT-TAACATTTATAGAAACGCTGCCGTTTTGTAAA
* ** * * * *
60441083 TGTTATTAGTGGCGATTTTTTT-AAAACGCCACGGGTTTGAGGTAAGTGTTGCTGAAGCGACTGC
64 TGGTATTAGTGGCG-TTTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCGGAAACGACTGC
60441147 GTTTTGATTTATAGTTAG
128 GTTTTGATTTATAGTTAG
* * *
60441165 TGGCGCTTGAACTAAAACGCCGCAAAAATGTTTTAACTTTTAT
1 TGGCGCTT-TACTAAAACGCCGCAAAATTG-TTTAACATTTAT
60441208 CTATACGAGG
Statistics
Matches: 156, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
146 1 0.01
147 138 0.88
148 17 0.11
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (145 bp):
TGGCGCTTTACTAAAACGCCGCAAAATTGTTTAACATTTATAGAAACGCTGCCGTTTTGTAAATG
GTATTAGTGGCGTTTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCGGAAACGACTGCGTT
TTGATTTATAGTTAG
Found at i:60441221 original size:147 final size:147
Alignment explanation
Indices: 60440925--60441336 Score: 345
Period size: 147 Copynumber: 2.8 Consensus size: 147
60440915 GAAATGTTGT
* * * *
60440925 CGTTTTGTCAATGGTATTAGTGGCGTTTTTTTGGAAACGCCACAAGCTTGAGTTAAATGTTGGGG
1 CGTTTTGTAAATGGTATTAGTGGCGTTTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCGG
* * * * * *
60440990 AAACGACTTCGTTTGATCTTATATTTAGTGGCGGTTTACTTAAAACGCCGCAACATTGTTCTAAC
66 AAACGACTGCGTTTGATCTTATAGTTAGTGGCGCTTAACTTAAAACGCCGCAAAAATGTTCTAAC
**
60441055 ATTTATAGAAACGCTGC
131 ATTTATAGAAACGAGGC
* * ** * * *
60441072 CGTTTTTTAAATGTTATTAGTGGCGATTTTTTT-AAAACGCCACGGGTTTGAGGTAAGTGTTGCT
1 CGTTTTGTAAATGGTATTAGTGGCG-TTTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCG
* *
60441136 GAAGCGACTGCGTTTTGAT-TTATAGTTAGTGGCGCTTGAAC-TAAAACGCCGCAAAAATGTTTT
65 GAAACGACTGCG-TTTGATCTTATAGTTAGTGGCGCTT-AACTTAAAACGCCGCAAAAATGTTCT
* ** *
60441199 AACTTTTATCTATACGAGGC
128 AACATTTATAGAAACGAGGC
** * ** * * * ** *
60441219 CGTTTTGCTGTAT--TATTAGTGGCGTTTATTCAAAAACGCCAC-AGGTGTGCGCTATTTGTTGA
1 CGTTTTG-TAAATGGTATTAGTGGCGTTTTTTTGAAAACGCCACAAGCT-TGAGGTAAATGTTGC
* * * *
60441281 TGAAACGGCTGCGTTTCGA-CTTATAATTAGTGGCGCTT-ATTTATAAACGCCGCAAA
64 GGAAACGACTGCGTTT-GATCTTATAGTTAGTGGCGCTTAACTTA-AAACGCCGCAAA
60441337 TGGTTAATTT
Statistics
Matches: 214, Mismatches: 41, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
144 1 0.00
145 12 0.06
146 73 0.34
147 110 0.51
148 18 0.08
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (147 bp):
CGTTTTGTAAATGGTATTAGTGGCGTTTTTTTGAAAACGCCACAAGCTTGAGGTAAATGTTGCGG
AAACGACTGCGTTTGATCTTATAGTTAGTGGCGCTTAACTTAAAACGCCGCAAAAATGTTCTAAC
ATTTATAGAAACGAGGC
Found at i:60443778 original size:13 final size:13
Alignment explanation
Indices: 60443750--60443801 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
60443740 ACTTATTACT
60443750 AATATATATA-TTA
1 AATATAT-TACTTA
*
60443763 AATTTATTACTTA
1 AATATATTACTTA
*
60443776 AATATGTTACTTA
1 AATATATTACTTA
*
60443789 AATACATTACTTA
1 AATATATTACTTA
60443802 CTAAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 2 0.06
13 31 0.94
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:60443836 original size:27 final size:27
Alignment explanation
Indices: 60443803--60443914 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 27
60443793 CATTACTTAC
60443803 TAAAATTTAAGTAAGTTTACTTATATG
1 TAAAATTTAAGTAAGTTTACTTATATG
* *
60443830 TAAAATTTAAGTATGTTGCGGGAATACATTACT-TAC
1 TAAAATTTAAGTAAGTT-------TAC-TTA-TAT-G
60443866 TAAAATTTAAGTAAGTTTACTTATATG
1 TAAAATTTAAGTAAGTTTACTTATATG
*
60443893 TAAAATTTAAGTATG-TTACTTA
1 TAAAATTTAAGTAAGTTTACTTA
60443915 AATACATTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
26 7 0.10
27 31 0.45
28 4 0.06
29 3 0.04
34 3 0.04
35 4 0.06
36 17 0.25
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (27 bp):
TAAAATTTAAGTAAGTTTACTTATATG
Found at i:60443861 original size:63 final size:63
Alignment explanation
Indices: 60443773--60444211 Score: 797
Period size: 63 Copynumber: 7.0 Consensus size: 63
60443763 AATTTATTAC
*
60443773 TTAAATATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
* ***
60443836 TTAAGTATGTTGCGGGAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
60443899 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
* ***
60443962 TTAAGTATGTTGCGGGAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
60444025 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
60444088 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
60444151 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAA
1 TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAA
60444212 CTTACATAAT
Statistics
Matches: 359, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 359 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (63 bp):
TTAAGTATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAAT
Found at i:60443872 original size:36 final size:32
Alignment explanation
Indices: 60443830--60444193 Score: 167
Period size: 36 Copynumber: 11.4 Consensus size: 32
60443820 TACTTATATG
60443830 TAAAATTTAAGTATGTTGCGGGAATACATTACTTAC
1 TAAAATTTAAGTATGTT-C---AATACATTACTTAC
* *
60443866 TAAAATTTAAGTAAGTT---TAC-TTA--TATG
1 TAAAATTTAAGTATGTTCAATACATTACTTA-C
60443893 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTT-C---AATACATTACTTAC
* *
60443929 TAAAATTTAAGTAAGTT---TAC-TTA--TATG
1 TAAAATTTAAGTATGTTCAATACATTACTTA-C
60443956 TAAAATTTAAGTATGTTGCGGGAATACATTACTTAC
1 TAAAATTTAAGTATGTT-C---AATACATTACTTAC
* *
60443992 TAAAATTTAAGTAAGTT---TAC-TTA--TATG
1 TAAAATTTAAGTATGTTCAATACATTACTTA-C
60444019 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTT-C---AATACATTACTTAC
* *
60444055 TAAAATTTAAGTAAGTT---TAC-TTA--TATG
1 TAAAATTTAAGTATGTTCAATACATTACTTA-C
60444082 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTT-C---AATACATTACTTAC
* *
60444118 TAAAATTTAAGTAAGTT---TAC-TTA--TATG
1 TAAAATTTAAGTATGTTCAATACATTACTTA-C
60444145 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAGTATGTT-C---AATACATTACTTAC
60444181 TAAAATTTAAGTA
1 TAAAATTTAAGTA
60444194 AGTTTACTTA
Statistics
Matches: 253, Mismatches: 20, Indels: 110
0.66 0.05 0.29
Matches are distributed among these distances:
26 10 0.04
27 80 0.32
28 15 0.06
29 15 0.06
34 15 0.06
35 15 0.06
36 93 0.37
37 10 0.04
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (32 bp):
TAAAATTTAAGTATGTTCAATACATTACTTAC
Found at i:60443962 original size:27 final size:27
Alignment explanation
Indices: 60443929--60444040 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 27
60443919 CATTACTTAC
60443929 TAAAATTTAAGTAAGTTTACTTATATG
1 TAAAATTTAAGTAAGTTTACTTATATG
* *
60443956 TAAAATTTAAGTATGTTGCGGGAATACATTACT-TAC
1 TAAAATTTAAGTAAGTT-------TAC-TTA-TAT-G
60443992 TAAAATTTAAGTAAGTTTACTTATATG
1 TAAAATTTAAGTAAGTTTACTTATATG
*
60444019 TAAAATTTAAGTATG-TTACTTA
1 TAAAATTTAAGTAAGTTTACTTA
60444041 AATACATTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
26 7 0.10
27 31 0.45
28 4 0.06
29 3 0.04
34 3 0.04
35 4 0.06
36 17 0.25
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (27 bp):
TAAAATTTAAGTAAGTTTACTTATATG
Found at i:60444240 original size:23 final size:23
Alignment explanation
Indices: 60444210--60444257 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
60444200 CTTATATGTA
*
60444210 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
60444233 AACTTACATAATACATAACTTTT
1 AACTTACATAATACATAACTTTT
60444256 AA
1 AA
60444258 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.40
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:60444310 original size:38 final size:39
Alignment explanation
Indices: 60444233--60444325 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 39
60444223 CATTACTTTT
*
60444233 AACTTACATAATACATAACTTTTAAAATTTTTTTATATA
1 AACTTACATAATACATAACTTATAAAATTTTTTTATATA
* *
60444272 AACTTACATGATACATAACTTAT-ATATTTTTTTATATA
1 AACTTACATAATACATAACTTATAAAATTTTTTTATATA
60444310 AACTTACATAATACAT
1 AACTTACATAATACAT
60444326 TTAACTTACA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 29 0.58
39 21 0.42
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (39 bp):
AACTTACATAATACATAACTTATAAAATTTTTTTATATA
Found at i:60444341 original size:9 final size:9
Alignment explanation
Indices: 60444310--60444717 Score: 271
Period size: 9 Copynumber: 46.0 Consensus size: 9
60444300 TTTTTATATA
60444310 AACTTACAT
1 AACTTACAT
60444319 AA--TACATTT
1 AACTTACA--T
60444328 AACTTACAT
1 AACTTACAT
*
60444337 AACTTACAC
1 AACTTACAT
60444346 AACTTACAT
1 AACTTACAT
60444355 AACCTT-CAT
1 AA-CTTACAT
60444364 AA--TACATTT
1 AACTTACA--T
60444373 AACTTACAT
1 AACTTACAT
60444382 AACTTACAT
1 AACTTACAT
* *
60444391 AA--TGCAA
1 AACTTACAT
60444398 AACTTACAT
1 AACTTACAT
*
60444407 AAC-AAC-T
1 AACTTACAT
*
60444414 TACTTACAT
1 AACTTACAT
*
60444423 AACATACAT
1 AACTTACAT
* *
60444432 TACTTA-AA
1 AACTTACAT
*
60444440 ATATTTACAT
1 A-ACTTACAT
60444450 AA--TACAT
1 AACTTACAT
60444457 AACTTAGTACAT
1 AAC-T--TACAT
**
60444469 AGTTTACAT
1 AACTTACAT
60444478 AA--TACAT
1 AACTTACAT
60444485 AACTTAGTACAT
1 AAC-T--TACAT
60444497 AACTTACAT
1 AACTTACAT
* **
60444506 AAATT-TTT
1 AACTTACAT
** *
60444514 TTC-TAAAT
1 AACTTACAT
** *
60444522 TGCTTACAA
1 AACTTACAT
* *
60444531 AAATTATAT
1 AACTTACAT
60444540 AACTTACAT
1 AACTTACAT
60444549 AACTTACATT
1 AACTTACA-T
*
60444559 AA-TTAAAT
1 AACTTACAT
60444567 AACTTACAT
1 AACTTACAT
60444576 AACTTACAT
1 AACTTACAT
60444585 AACTTACAT
1 AACTTACAT
*
60444594 AACTTAAAT
1 AACTTACAT
60444603 AACTTACAT
1 AACTTACAT
60444612 AACTTACAT
1 AACTTACAT
*
60444621 ATCTTACAT
1 AACTTACAT
*
60444630 AACTTATAT
1 AACTTACAT
* *
60444639 AAATTAAAT
1 AACTTACAT
*
60444648 AACTTAAAT
1 AACTTACAT
60444657 AACTTACAT
1 AACTTACAT
*
60444666 AATTTACAT
1 AACTTACAT
60444675 AACTTACAT
1 AACTTACAT
60444684 AACTTACAT
1 AACTTACAT
60444693 -A-TTACAT
1 AACTTACAT
*
60444700 AACCTT-CCT
1 AA-CTTACAT
60444709 AACTTACAT
1 AACTTACAT
60444718 TATTGTTTAA
Statistics
Matches: 312, Mismatches: 53, Indels: 68
0.72 0.12 0.16
Matches are distributed among these distances:
6 1 0.00
7 35 0.11
8 17 0.05
9 225 0.72
10 10 0.03
11 10 0.03
12 14 0.04
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:60444418 original size:16 final size:18
Alignment explanation
Indices: 60444399--60444437 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
60444389 ATAATGCAAA
60444399 ACTTACATAACA-AC-TT
1 ACTTACATAACATACATT
60444415 ACTTACATAACATACATT
1 ACTTACATAACATACATT
60444433 ACTTA
1 ACTTA
60444438 AAATATTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
17 2 0.10
18 7 0.33
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (18 bp):
ACTTACATAACATACATT
Found at i:60444481 original size:28 final size:28
Alignment explanation
Indices: 60444442--60444507 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
60444432 TACTTAAAAT
60444442 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
*
60444470 GTTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
*
60444498 ACTTACATAA
1 ATTTACATAA
60444508 ATTTTTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (28 bp):
ATTTACATAATACATAACTTAGTACATA
Found at i:60450336 original size:21 final size:21
Alignment explanation
Indices: 60450310--60450377 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
60450300 CAACAACTTA
* *
60450310 AAGCAGATGCGGCAGCGAGGG
1 AAGCAGATGCGACAGCGAGAG
*
60450331 AAGCAGATGCTACAGCGAGAG
1 AAGCAGATGCGACAGCGAGAG
* * *
60450352 AAGCAGAGGCCACAGTGAGAG
1 AAGCAGATGCGACAGCGAGAG
60450373 AAGCA
1 AAGCA
60450378 ACAAGAGAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.38, T:0.06
Consensus pattern (21 bp):
AAGCAGATGCGACAGCGAGAG
Found at i:60450402 original size:12 final size:12
Alignment explanation
Indices: 60450368--60450414 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
60450358 AGGCCACAGT
*
60450368 GAGAGAAGCAAC
1 GAGAGAAGCAGC
*
60450380 AAGAGAAGCAGC
1 GAGAGAAGCAGC
60450392 GAGAGAAGCAGC
1 GAGAGAAGCAGC
*
60450404 GATAGAAGCAG
1 GAGAGAAGCAG
60450415 ATGTTCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.47, C:0.15, G:0.36, T:0.02
Consensus pattern (12 bp):
GAGAGAAGCAGC
Found at i:60451049 original size:85 final size:85
Alignment explanation
Indices: 60450868--60451062 Score: 252
Period size: 85 Copynumber: 2.3 Consensus size: 85
60450858 ACTATTATTC
** * * *
60450868 GCGGCGTTTTTGAACAAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCTTCCAAAGCGCC
1 GCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCCAAAGCGCC
60450933 GCTAAAGAACATGATCTTTA
66 GCTAAAGAACATGATCTTTA
* **
60450953 GCGACGTTTTTTCATAAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTAT-TAT-CTTAGC
1 GCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTT-TCT-TCCAAAGC
60451015 GCCGCTAAAGAACATGATCTTTA
63 GCCGCTAAAGAACATGATCTTTA
*
60451038 GCGGCGTTTTTTCTGTAAGCGCCGC
1 GCGGCGTTTTTTC-ATAAGCGCCGC
60451063 AAAAAGTTAG
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
84 1 0.01
85 83 0.86
86 12 0.12
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (85 bp):
GCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTCTTCCAAAGCGCC
GCTAAAGAACATGATCTTTA
Found at i:60451059 original size:43 final size:41
Alignment explanation
Indices: 60450883--60451062 Score: 236
Period size: 43 Copynumber: 4.2 Consensus size: 41
60450873 GTTTTTGAAC
* * *
60450883 AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TT-CT
*
60450926 AAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTCAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC-T
60450968 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTATCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TT-TCT
*
60451011 TAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC--T
60451054 AAGCGCCGC
1 AAGCGCCGC
60451063 AAAAAGTTAG
Statistics
Matches: 124, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
41 3 0.02
42 39 0.31
43 79 0.64
44 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCT
Found at i:60451421 original size:16 final size:16
Alignment explanation
Indices: 60451396--60451438 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
60451386 TAAAAGTATA
60451396 AAAAATATATATTTAAT
1 AAAAA-ATATATTTAAT
*
60451413 AAAAAATATATTTGAT
1 AAAAAATATATTTAAT
*
60451429 TAAAAATATA
1 AAAAAATATA
60451439 AATATATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAAAATATATTTAAT
Found at i:60451466 original size:40 final size:39
Alignment explanation
Indices: 60451339--60451467 Score: 125
Period size: 42 Copynumber: 3.2 Consensus size: 39
60451329 CCCGACCCAT
*
60451339 ATTTGATTAAAAATA-AAAAAGATATATATTTAATATATA
1 ATTTGATTAAAAATATAAAAATATATAT-TTTAATATATA
* * * *
60451378 ATTCGGATTAAAAGTATAAAAAATATATATTTAATAAAAAATA
1 ATT-TGATTAAAAATAT-AAAAATATATATTT--TAATATATA
* *
60451421 TATTTGATTAAAAATATAAATATATACATGTTTAATATATA
1 -ATTTGATTAAAAATATAAAAATATATAT-TTTAATATATA
60451462 ATTTGA
1 ATTTGA
60451468 GCTGGGGGCC
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
39 3 0.04
40 16 0.22
41 9 0.12
42 21 0.29
43 20 0.28
44 3 0.04
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (39 bp):
ATTTGATTAAAAATATAAAAATATATATTTTAATATATA
Found at i:60452362 original size:10 final size:11
Alignment explanation
Indices: 60452339--60452363 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60452329 CTCTCTTAAC
60452339 AAAAATTTCAA
1 AAAAATTTCAA
60452350 AAAAATTTCAA
1 AAAAATTTCAA
60452361 AAA
1 AAA
60452364 TCAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTTCAA
Found at i:60452381 original size:18 final size:18
Alignment explanation
Indices: 60452346--60452399 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
60452336 AACAAAAATT
*
60452346 TCAAAAAAATTTCA-AAAA
1 TCAAAATAATTT-ATAAAA
*
60452364 TCAAAATAATTTTTAAAA
1 TCAAAATAATTTATAAAA
60452382 TCTAAAAT-ATTTATAAAA
1 TC-AAAATAATTTATAAAA
60452400 AATTCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
TCAAAATAATTTATAAAA
Found at i:60459328 original size:55 final size:55
Alignment explanation
Indices: 60459262--60459429 Score: 291
Period size: 55 Copynumber: 3.0 Consensus size: 55
60459252 TTTTTCCCTT
60459262 AATTCACGGAAATGACCAAATGAGTGATAAAAGGGGAATGAATCAAAAGTTCTTC
1 AATTCACGGAAATGACCAAATGAGTGATAAAAGGGGAATGAATCAAAAGTTCTTC
*
60459317 AATTCACGGAAAAGACCAAATGAGTGATAAAAGGGGAATGAATCAAAAGTTCTTC
1 AATTCACGGAAATGACCAAATGAGTGATAAAAGGGGAATGAATCAAAAGTTCTTC
*
60459372 AATTCACGAAAATCATGACCAAATGAGTGATAAAAGGGGAATGAATCAAAAGTTCTTC
1 AATTCACG-GAA--ATGACCAAATGAGTGATAAAAGGGGAATGAATCAAAAGTTCTTC
60459430 GCTGATAATA
Statistics
Matches: 107, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
55 62 0.58
56 2 0.02
58 43 0.40
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (55 bp):
AATTCACGGAAATGACCAAATGAGTGATAAAAGGGGAATGAATCAAAAGTTCTTC
Found at i:60461495 original size:2 final size:2
Alignment explanation
Indices: 60461488--60461522 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
60461478 AATTATCATA
60461488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60461523 AGTAAGCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60461578 original size:44 final size:45
Alignment explanation
Indices: 60461530--60461635 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 45
60461520 ATAAGTAAGC
* * *
60461530 ATATACAAATATATGTATATAACTATCATAAAATATAAA-AGTAT
1 ATATACAAATATATATATATAACAATCATAAAATATAAAGAATAT
* * ** * **
60461574 ATATATATAGGTACATATATAGGAATCATAAAATATAAAGAATAT
1 ATATACAAATATATATATATAACAATCATAAAATATAAAGAATAT
60461619 ATATACAAA-ATATATAT
1 ATATACAAATATATATAT
60461636 TTTAGTAGTA
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
44 36 0.77
45 11 0.23
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.33
Consensus pattern (45 bp):
ATATACAAATATATATATATAACAATCATAAAATATAAAGAATAT
Found at i:60461853 original size:3 final size:3
Alignment explanation
Indices: 60461847--60461889 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
60461837 AGTAGTAGTG
60461847 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
60461890 AGTTGCTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60462651 original size:11 final size:11
Alignment explanation
Indices: 60462635--60462660 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60462625 AGACAAACCA
60462635 AAAAATAAAAT
1 AAAAATAAAAT
60462646 AAAAATAAAAT
1 AAAAATAAAAT
60462657 AAAA
1 AAAA
60462661 TGAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:60462657 original size:16 final size:17
Alignment explanation
Indices: 60462636--60462671 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
60462626 GACAAACCAA
60462636 AAAATAAAAT-AAAAAT
1 AAAATAAAATGAAAAAT
*
60462652 AAAATAAAATGAATAAT
1 AAAATAAAATGAAAAAT
60462669 AAA
1 AAA
60462672 GGGAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAATAAAATGAAAAAT
Found at i:60463691 original size:175 final size:176
Alignment explanation
Indices: 60463394--60463740 Score: 563
Period size: 175 Copynumber: 2.0 Consensus size: 176
60463384 AATCTGAGGT
* **
60463394 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTTTTTTTAATCCACTCCACTGTAACTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTCTTAGTTTTAATCCACTCCACTGTAACTT
*
60463459 CAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAAATAAGATCTGAAAT
* *
60463524 TCTTTGGTCTGTTCCATTGTAATCTCAGGGAAATAAGACCTGGTGC
131 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGC
* *
60463570 GATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTAGTTTTAATCCGCTCTACTGTAA-TC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTCTTAGTTTTAATCCACTCCACTGTAACT-
* * *
60463633 TCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAAATAAGATCTGAAA
65 TCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAAATAAGATCTGAAA
*
60463698 TTCTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
130 TTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG
60463741 TATAATGAAC
Statistics
Matches: 158, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
174 1 0.01
175 122 0.77
176 35 0.22
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (176 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTCTTAGTTTTAATCCACTCCACTGTAACTT
CAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAAATAAGATCTGAAAT
TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGC
Found at i:60463722 original size:46 final size:45
Alignment explanation
Indices: 60463479--60463736 Score: 174
Period size: 46 Copynumber: 5.8 Consensus size: 45
60463469 GGATTACTAG
* * *
60463479 CTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATT
* * * * * *
60463525 CTTTGGTCTGTTCCATTGTAATCTCAGGGAAATAAGACCTG----
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATT
* * * * * * *
60463566 GTGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTAGTT
1 CTTCGATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAATT
* * * * *
60463612 -TT-AATCCGCTCTACTGTAATCTCAGGGAGATAGGAT-T-ACTAT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-T
* * *
60463654 CTTCAATCTGCTCCGCTGTAATCTCAGGGAAATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATT
* *
60463700 CTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
60463737 CCTGTATAAT
Statistics
Matches: 160, Mismatches: 39, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
40 1 0.01
41 27 0.17
42 4 0.03
43 2 0.01
44 56 0.35
45 3 0.02
46 65 0.41
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
CTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATT
Found at i:60476166 original size:3 final size:3
Alignment explanation
Indices: 60476160--60476205 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
60476150 AGTAGTAGTG
60476160 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
60476206 AGTTGCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60476971 original size:11 final size:11
Alignment explanation
Indices: 60476955--60476980 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60476945 AAACAAACCA
60476955 AAAAATAAAAT
1 AAAAATAAAAT
60476966 AAAAATAAAAT
1 AAAAATAAAAT
60476977 AAAA
1 AAAA
60476981 TGAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:60476977 original size:16 final size:17
Alignment explanation
Indices: 60476956--60476991 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
60476946 AACAAACCAA
60476956 AAAATAAAAT-AAAAAT
1 AAAATAAAATGAAAAAT
*
60476972 AAAATAAAATGAATAAT
1 AAAATAAAATGAAAAAT
60476989 AAA
1 AAA
60476992 GGGAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAATAAAATGAAAAAT
Found at i:60477617 original size:46 final size:46
Alignment explanation
Indices: 60477525--60477724 Score: 292
Period size: 46 Copynumber: 4.3 Consensus size: 46
60477515 GAACAGCAGT
* * * **
60477525 AACAATATTCGGACAGCATTGATTTGCTCAAAAATGGACAATATTTA
1 AACAACATTCGGACAGCA-TAATATGCTCAAAAATGGACAGCATTTA
*
60477572 AACAACATTCGGACAGCATAATATGCTCAAAAACGGACAGCATTTA
1 AACAACATTCGGACAGCATAATATGCTCAAAAATGGACAGCATTTA
* *
60477618 AACAACATTCGGACATCATAATATGCTCAAAAATGGACATCATTTA
1 AACAACATTCGGACAGCATAATATGCTCAAAAATGGACAGCATTTA
* * *
60477664 AACAACATTCGAACAACATAATATGCTCAAAAATGGACAGCATTTC
1 AACAACATTCGGACAGCATAATATGCTCAAAAATGGACAGCATTTA
60477710 AACAACATTCGGACA
1 AACAACATTCGGACA
60477725 ACATTTTATC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 122 0.88
47 17 0.12
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (46 bp):
AACAACATTCGGACAGCATAATATGCTCAAAAATGGACAGCATTTA
Found at i:60479430 original size:33 final size:33
Alignment explanation
Indices: 60479371--60479434 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
60479361 ATAGATTATA
*
60479371 AAAAATAATTATATATATAAATAAAAATAAAAT
1 AAAAATAATTACATATATAAATAAAAATAAAAT
* *
60479404 AAAAATAATTACCTCATATTAA-AAAAATAAA
1 AAAAATAATTACAT-ATATAAATAAAAATAAA
60479435 TATGCGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (33 bp):
AAAAATAATTACATATATAAATAAAAATAAAAT
Found at i:60480128 original size:23 final size:22
Alignment explanation
Indices: 60480085--60480142 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
60480075 AAAGGGTATC
* *
60480085 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
60480106 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
60480129 TACATATCATATCT
1 TACAAATCATATCT
60480143 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:60480145 original size:19 final size:19
Alignment explanation
Indices: 60480098--60480214 Score: 117
Period size: 19 Copynumber: 5.8 Consensus size: 19
60480088 AAATTAAATC
*
60480098 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
60480118 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
60480140 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
* *
60480161 TCTAAGATTGCATATAATA
1 TCTAAGATTACATATCATA
* *
60480180 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
60480199 TCTAAGATTTCATATC
1 TCTAAGATTACATATC
60480215 CTCAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
19 47 0.57
21 18 0.22
22 7 0.08
23 11 0.13
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:60480158 original size:21 final size:21
Alignment explanation
Indices: 60480132--60480213 Score: 118
Period size: 21 Copynumber: 4.1 Consensus size: 21
60480122 CTAAGATTAC
60480132 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
60480153 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
60480174 ATA--ATATCTAGGATTGC--
1 ATATCATATCTAAGATTGCAT
*
60480191 ATATCATATCTAAGATTTCAT
1 ATATCATATCTAAGATTGCAT
60480212 AT
1 AT
60480214 CCTCAAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
17 3 0.06
19 25 0.46
21 26 0.48
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:60480169 original size:40 final size:38
Alignment explanation
Indices: 60480114--60480214 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
60480104 ATTACAAAAT
60480114 CATATC-T-TCTAAGATTACATATCATATCTAAGATTG
1 CATATCATATCTAAGATTACATATCATATCTAAGATTG
* * *
60480150 CATATATCATATCTAAGATTGCATATAATATCTAGGATTG
1 C--ATATCATATCTAAGATTACATATCATATCTAAGATTG
*
60480190 CATATCATATCTAAGATTTCATATC
1 CATATCATATCTAAGATTACATATC
60480215 CTCAAAAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
36 1 0.02
38 27 0.48
39 1 0.02
40 27 0.48
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (38 bp):
CATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:60484757 original size:37 final size:37
Alignment explanation
Indices: 60484716--60484818 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
60484706 TTTGAGTACT
*
60484716 TCTGATCAATAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAATAGACAAAGTGATAAGTGGTTACACTTA
* *
60484753 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAATAGACAAAGTGATAAGTGGTTACACTTA
*
60484790 TCTGATCAAGT-GATAAAGTGATAAGTGGT
1 TCTGATCAA-TAGACAAAGTGATAAGTGGT
60484819 AGCTTCAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (37 bp):
TCTGATCAATAGACAAAGTGATAAGTGGTTACACTTA
Found at i:60484889 original size:45 final size:46
Alignment explanation
Indices: 60484780--60484903 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
60484770 GTGATAAGTG
* *
60484780 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
60484826 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
60484871 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
60484904 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:60487320 original size:86 final size:84
Alignment explanation
Indices: 60487174--60487330 Score: 194
Period size: 86 Copynumber: 1.8 Consensus size: 84
60487164 CAATGCCAAC
* * *
60487174 GTCCCAGACGTGGTCTTACATGTAATCAAATACCGATGCCACTGTCCCAAACAGGGTCTTACACA
1 GTCCCAGACATGGTCTTACACGTAATCAAATA-CGATGCCACTGTCCCAAACAGGATCTTACACA
60487239 AAATCATACACGATGTCAAT
65 AAATCATACACGATGTCAAT
*
60487259 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAC-GTCCCAGAC-GTGATCTTA
1 GTCCCAGACATGGTCTTACACGT-AA--TCAAATACGATGCC-ACTGTCCCAAACAG-GATCTTA
*
60487321 CACGAAATCA
61 CACAAAATCA
60487331 CATATCGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
85 22 0.35
86 32 0.52
87 2 0.03
88 6 0.10
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (84 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATACGATGCCACTGTCCCAAACAGGATCTTACACAA
AATCATACACGATGTCAAT
Found at i:60488610 original size:13 final size:13
Alignment explanation
Indices: 60488592--60488617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60488582 TCATATGCTC
60488592 AAAATGATTGAGT
1 AAAATGATTGAGT
60488605 AAAATGATTGAGT
1 AAAATGATTGAGT
60488618 GATGGATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AAAATGATTGAGT
Found at i:60493099 original size:17 final size:17
Alignment explanation
Indices: 60493077--60493111 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60493067 AGTCACACAC
60493077 TTAAATAATAGG-ATAGA
1 TTAAATAAT-GGTATAGA
60493094 TTAAATAATGGTATAGA
1 TTAAATAATGGTATAGA
60493111 T
1 T
60493112 ATACACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
TTAAATAATGGTATAGA
Found at i:60496609 original size:30 final size:30
Alignment explanation
Indices: 60496575--60496642 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
60496565 TACCAATAAA
60496575 GGCCGTTTTTTTTCAA-AATTTACCGAAATG
1 GGCCGTTTTTTTT-AATAATTTACCGAAATG
* * *
60496605 GGCCG-ATTTTTTAATTATTTACCGGAATG
1 GGCCGTTTTTTTTAATAATTTACCGAAATG
*
60496634 GGCCATTTT
1 GGCCGTTTT
60496643 CCGCGAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 2 0.06
29 22 0.71
30 7 0.23
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (30 bp):
GGCCGTTTTTTTTAATAATTTACCGAAATG
Found at i:60499954 original size:8 final size:8
Alignment explanation
Indices: 60499925--60499973 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
60499915 TATATTAAAA
60499925 AAATAAGT
1 AAATAAGT
60499933 -AATAA-T
1 AAATAAGT
*
60499939 AGATAAGT
1 AAATAAGT
60499947 AAATAAGT
1 AAATAAGT
*
60499955 AAATAAAT
1 AAATAAGT
*
60499963 AAATAAAT
1 AAATAAGT
60499971 AAA
1 AAA
60499974 AGAATTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 1 0.03
7 9 0.25
8 26 0.72
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (8 bp):
AAATAAGT
Found at i:60499961 original size:12 final size:12
Alignment explanation
Indices: 60499920--60499973 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
60499910 AATTATATAT
*
60499920 TAAAAAAATAAG
1 TAAATAAATAAG
60499932 T-AAT-AAT-AG
1 TAAATAAATAAG
*
60499941 ATAAGTAAATAAG
1 -TAAATAAATAAG
*
60499954 TAAATAAATAAA
1 TAAATAAATAAG
60499966 TAAATAAA
1 TAAATAAA
60499974 AGAATTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 2 0.06
10 4 0.12
11 4 0.12
12 22 0.65
13 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (12 bp):
TAAATAAATAAG
Found at i:60508314 original size:9 final size:9
Alignment explanation
Indices: 60508300--60508330 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
60508290 TTTGGTTAAA
60508300 AATTAACCG
1 AATTAACCG
60508309 AATTAACCG
1 AATTAACCG
60508318 AATTAACCG
1 AATTAACCG
60508327 AATT
1 AATT
60508331 GAATCACTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:60508381 original size:6 final size:6
Alignment explanation
Indices: 60508370--60508411 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
60508360 ACTTTTAGAC
*
60508370 TTTAGT TTTAGT TTTAGT TAATTAGT TTTAGT TTTATT TTTA
1 TTTAGT TTTAGT TTTAGT T--TTAGT TTTAGT TTTAGT TTTA
60508412 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (6 bp):
TTTAGT
Found at i:60511427 original size:20 final size:20
Alignment explanation
Indices: 60511402--60511441 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60511392 AATATTTTTC
*
60511402 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
60511422 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
60511442 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:60511443 original size:34 final size:35
Alignment explanation
Indices: 60511390--60511456 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
60511380 CAAACACTAG
* *
60511390 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
60511425 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
60511457 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:60513597 original size:32 final size:32
Alignment explanation
Indices: 60513557--60513622 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
60513547 TTAAGGATCC
* * *
60513557 AAAAATTTTT-TACTAACTTTTATGGGACCTAA
1 AAAAATTTTTCT-CCAACTTTTAAGGAACCTAA
60513589 AAAAATTTTTCTCCAACTTTTAAGGAACCTAA
1 AAAAATTTTTCTCCAACTTTTAAGGAACCTAA
60513621 AA
1 AA
60513623 CCCCATTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (32 bp):
AAAAATTTTTCTCCAACTTTTAAGGAACCTAA
Found at i:60513598 original size:31 final size:31
Alignment explanation
Indices: 60513545--60513622 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
60513535 AAAAACTTTT
* *
60513545 TTTTAAGGATCC--AAAAATTTTTTACT-AAC
1 TTTTAAGGAACCTAAAAAAATTTTT-CTCAAC
* *
60513574 TTTTATGGGACCTAAAAAAATTTTTCTCCAAC
1 TTTTAAGGAACCTAAAAAAATTTTTCT-CAAC
60513606 TTTTAAGGAACCTAAAA
1 TTTTAAGGAACCTAAAA
60513623 CCCCATTGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 9 0.23
30 2 0.05
31 10 0.26
32 18 0.46
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.37
Consensus pattern (31 bp):
TTTTAAGGAACCTAAAAAAATTTTTCTCAAC
Found at i:60514517 original size:22 final size:22
Alignment explanation
Indices: 60514490--60514550 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
60514480 CAACTAAATC
60514490 ATTTCTCTCAATTTCTCTCT-A
1 ATTTCTCTCAATTTCTCTCTCA
* *
60514511 ATATTCTCTTAAATTC-CTCTCA
1 AT-TTCTCTCAATTTCTCTCTCA
60514533 ATTTCCTCTCAAATTTCT
1 ATTT-CTCTC-AATTTCT
60514551 ATTTAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 8 0.26
22 18 0.58
23 5 0.16
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTCTCTCAATTTCTCTCTCA
Done.