Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 16 of 120
Found at i:4429364 original size:3 final size:3
Alignment explanation
Indices: 4429358--4429406 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
4429348 AAGGTGGTGA
4429358 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4429406 T
1 T
4429407 TTTAGGGGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4432576 original size:80 final size:80
Alignment explanation
Indices: 4432485--4432738 Score: 337
Period size: 80 Copynumber: 3.2 Consensus size: 80
4432475 TAGTTGGATT
* *
4432485 AACCAACAAATATCCGTCAAATCCTAGCACCCAGTGCTTAGCGGATAAACCGCAAATGTGAGCCC
1 AACCGACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAACCGCAAATGTGAGCCC
*
4432550 AACTTTAGTCAATTA
66 AACTCTAGTCAATTA
* * *
4432565 AACCGACAAATATCCGTCAAATCTTAGCATCCAATGCTTAGCGGATAAACCGCGAATGTGAGCCC
1 AACCGACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAACCGCAAATGTGAGCCC
* **
4432630 AGCTCTAGTCGGTTA
66 AACTCTAGTCAATTA
* * * * *
4432645 AACTGACAAATATCCGTCAAATCTTGGCACCCAGTGCCTAGCGGATAAACCGCAATTGTGAGCCT
1 AACCGACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAACCGCAAATGTGAGCCC
* * *
4432710 AGCTCTAATCAGTTA
66 AACTCTAGTCAATTA
*
4432725 AACTGACAACATAT
1 AACCGACAA-ATAT
4432739 ATTCATCAAA
Statistics
Matches: 154, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
80 150 0.97
81 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (80 bp):
AACCGACAAATATCCGTCAAATCTTAGCACCCAGTGCTTAGCGGATAAACCGCAAATGTGAGCCC
AACTCTAGTCAATTA
Found at i:4443362 original size:24 final size:24
Alignment explanation
Indices: 4443334--4443396 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
4443324 AGAAATAATC
4443334 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
*
4443358 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
4443382 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
4443397 TATTATTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:4447348 original size:28 final size:24
Alignment explanation
Indices: 4447291--4447341 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
4447281 AGAAATAATC
*
4447291 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
4447315 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
4447339 TTT
1 TTT
4447342 GAGTCAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:4447350 original size:24 final size:24
Alignment explanation
Indices: 4447299--4447351 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4447289 TCTTTCAGTT
*
4447299 AAACTCTATTTATTTGTTTCAATT
1 AAACTCTATTTATTTGTTTCAATC
* *
4447323 AAACTCTATTTATTTGTTTGAGTC
1 AAACTCTATTTATTTGTTTCAATC
4447347 AAACT
1 AAACT
4447352 TTTATTATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (24 bp):
AAACTCTATTTATTTGTTTCAATC
Found at i:4455254 original size:22 final size:22
Alignment explanation
Indices: 4455229--4455274 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4455219 TGCCGACAAG
*
4455229 AGGAAAGATG-AGAGGTAGGAGA
1 AGGAAA-ATGAAGAGATAGGAGA
*
4455251 AGGAAAATGAAGAGATGGGAGA
1 AGGAAAATGAAGAGATAGGAGA
4455273 AG
1 AG
4455275 AAGAAAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.48, C:0.00, G:0.43, T:0.09
Consensus pattern (22 bp):
AGGAAAATGAAGAGATAGGAGA
Found at i:4459179 original size:2 final size:2
Alignment explanation
Indices: 4459172--4459203 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4459162 CTACATGTCA
4459172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4459204 CAAATTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4462054 original size:22 final size:21
Alignment explanation
Indices: 4462019--4462069 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
4462009 GGCATGGAGG
4462019 AGGAAAGATGAGAGGCGAGAGA
1 AGGAAA-ATGAGAGGCGAGAGA
* *
4462041 AGGAAAATGAAGAGGTGGGAGA
1 AGGAAAATG-AGAGGCGAGAGA
*
4462063 AGAAAAA
1 AGGAAAA
4462070 AAAACACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.51, C:0.02, G:0.41, T:0.06
Consensus pattern (21 bp):
AGGAAAATGAGAGGCGAGAGA
Found at i:4463364 original size:35 final size:35
Alignment explanation
Indices: 4463319--4463391 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
4463309 TATATATATA
*
4463319 ACTTGAATTAAATAAATAACTATTGTTCTTTGAAT
1 ACTTAAATTAAATAAATAACTATTGTTCTTTGAAT
*
4463354 ACTTAAATTAAATAAATAATTATTGTTCTTTGAAT
1 ACTTAAATTAAATAAATAACTATTGTTCTTTGAAT
4463389 ACT
1 ACT
4463392 CAATGACAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (35 bp):
ACTTAAATTAAATAAATAACTATTGTTCTTTGAAT
Found at i:4469737 original size:3 final size:3
Alignment explanation
Indices: 4469731--4469766 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4469721 TTATTATTAT
4469731 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
4469767 GTGATATCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:4470303 original size:29 final size:31
Alignment explanation
Indices: 4470266--4470327 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
4470256 TATAATTTTT
* *
4470266 ATAACTTTTTAATGATTTTT-TA-TTTTAAAA
1 ATAACTTTTT-ATAATTTTTGGATTTTTAAAA
4470296 ATAA-TTTTTATAATTTTTGGATTTTTAAAA
1 ATAACTTTTTATAATTTTTGGATTTTTAAAA
4470326 AT
1 AT
4470328 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.29
29 6 0.21
30 14 0.50
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (31 bp):
ATAACTTTTTATAATTTTTGGATTTTTAAAA
Found at i:4474091 original size:29 final size:28
Alignment explanation
Indices: 4474030--4474134 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 28
4474020 TTTAATTAAT
* * * *
4474030 TTTTTAAATTTTAAAAATATTTTTTTATAA
1 TTTTT-AATTTTTAAAATA-ATTTTAATGA
**
4474060 TTTTTAGATTTTTCTAATAATTTTAATGA
1 TTTTTA-ATTTTTAAAATAATTTTAATGA
* * *
4474089 TTTCTAATTTTTAAAATAATTTTTATGT
1 TTTTTAATTTTTAAAATAATTTTAATGA
4474117 TTTTCTAATTTTTAAAAT
1 TTTT-TAATTTTTAAAAT
4474135 TTTGAAAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
28 21 0.34
29 26 0.43
30 14 0.23
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTTAATTTTTAAAATAATTTTAATGA
Found at i:4474098 original size:28 final size:29
Alignment explanation
Indices: 4474075--4474134 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
4474065 AGATTTTTCT
4474075 AATAATTTTAATG-ATTTCTAATTTTTAA
1 AATAATTTTAATGTATTTCTAATTTTTAA
* *
4474103 AATAATTTTTATGTTTTTCTAATTTTTAA
1 AATAATTTTAATGTATTTCTAATTTTTAA
4474132 AAT
1 AAT
4474135 TTTGAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (29 bp):
AATAATTTTAATGTATTTCTAATTTTTAA
Found at i:4474328 original size:24 final size:25
Alignment explanation
Indices: 4474287--4474334 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
4474277 TTAAATGGAG
4474287 GGCTAAAATATATTTTTTTGATAAAT
1 GGCTAAAATATATTTTTTTG-TAAAT
4474313 GGCT-AAA-ATATTTTTTTGTAAA
1 GGCTAAAATATATTTTTTTGTAAA
4474335 GTTAGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.18
24 11 0.50
25 3 0.14
26 4 0.18
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (25 bp):
GGCTAAAATATATTTTTTTGTAAAT
Found at i:4500275 original size:19 final size:19
Alignment explanation
Indices: 4500234--4500275 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4500224 CAAGTGAAAC
* *
4500234 AACTACTGATACTATTGAG
1 AACTACTGATACTATAGAA
4500253 AACTACTGATACT-TAAGAA
1 AACTACTGATACTAT-AGAA
4500272 AACT
1 AACT
4500276 TCAATCGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.29
Consensus pattern (19 bp):
AACTACTGATACTATAGAA
Found at i:4503394 original size:21 final size:21
Alignment explanation
Indices: 4503370--4503416 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4503360 GGTAAGACTA
**
4503370 GTATCGGTAGAGGAGTCACTT
1 GTATCGGTAGAACAGTCACTT
*
4503391 GTATCGGTAGAACTGTCACTT
1 GTATCGGTAGAACAGTCACTT
4503412 GTATC
1 GTATC
4503417 AGTACAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAACAGTCACTT
Found at i:4505695 original size:17 final size:18
Alignment explanation
Indices: 4505673--4505708 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4505663 TAAATGAGTT
4505673 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
4505690 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
4505708 A
1 A
4505709 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:4516649 original size:6 final size:6
Alignment explanation
Indices: 4516628--4516729 Score: 69
Period size: 6 Copynumber: 18.0 Consensus size: 6
4516618 TGAATTCATT
*
4516628 TTTAAA TTT--A TCTTAAA TTTAAA TTT--- TTTAAA -TTAAG TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
4516671 TTTAAA -ATAAA TTTAAA TTTACTTA TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA
*
4516719 CTT-AA TTTAAA
1 TTTAAA TTTAAA
4516730 ATAATTTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
3 3 0.04
4 2 0.03
5 18 0.24
6 44 0.59
7 2 0.03
8 5 0.07
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:4516713 original size:42 final size:43
Alignment explanation
Indices: 4516640--4516729 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 43
4516630 TAAATTTATC
*
4516640 TTAAATTTAAATTTTTTAAATTAAGTTTAAATTTAAAATAAAT
1 TTAAATTTAAATTATTTAAATTAAGTTTAAATTTAAAATAAAT
* * * * *
4516683 TTAAATTT-ACTTATTTAAATTTATTTTAAATTTAAACTTAAT
1 TTAAATTTAAATTATTTAAATTAAGTTTAAATTTAAAATAAAT
4516725 TTAAA
1 TTAAA
4516730 ATAATTTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 33 0.80
43 8 0.20
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (43 bp):
TTAAATTTAAATTATTTAAATTAAGTTTAAATTTAAAATAAAT
Found at i:4516727 original size:17 final size:16
Alignment explanation
Indices: 4516654--4516729 Score: 58
Period size: 17 Copynumber: 5.0 Consensus size: 16
4516644 ATTTAAATTT
4516654 TTTAAATTAAGTTTAAA
1 TTTAAATTAA-TTTAAA
*
4516671 TTTAAAATAAATTTAAA
1 TTT-AAATTAATTTAAA
*
4516688 TTT-ACTT-ATTTAAA
1 TTTAAATTAATTTAAA
4516702 TTT--A-T--TTTAAA
1 TTTAAATTAATTTAAA
4516713 TTTAAACTTAATTTAAA
1 TTTAAA-TTAATTTAAA
4516730 ATAATTTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
11 9 0.19
12 1 0.02
13 1 0.02
14 10 0.21
15 3 0.06
17 18 0.38
18 6 0.12
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (16 bp):
TTTAAATTAATTTAAA
Found at i:4516752 original size:68 final size:68
Alignment explanation
Indices: 4516628--4516760 Score: 164
Period size: 68 Copynumber: 2.0 Consensus size: 68
4516618 TGAATTCATT
* * *
4516628 TTTAAATTTATCTTAAATTTAAATTTTTTAAATTAAGTTTAAATTTAAAATAAATTTAAATTTAC
1 TTTAAATTTATCTTAAATTTAAATTATTTAAAATAAGTTTAAATTCAAAATAAATTTAAATTTAC
4516693 TTA
66 TTA
* * *
4516696 TTTAAATTTATTTTAAATTTAAACTTAATTTAAAATAA-TTT-AA-TCAAAATCCAATTTACATT
1 TTTAAATTTATCTTAAATTTAAA-TT-ATTTAAAATAAGTTTAAATTCAAAAT-AAATTTAAATT
4516758 TAC
63 TAC
4516761 AAGAAGGGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
67 6 0.11
68 36 0.64
69 5 0.09
70 9 0.16
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (68 bp):
TTTAAATTTATCTTAAATTTAAATTATTTAAAATAAGTTTAAATTCAAAATAAATTTAAATTTAC
TTA
Found at i:4516817 original size:18 final size:17
Alignment explanation
Indices: 4516780--4516845 Score: 107
Period size: 17 Copynumber: 3.9 Consensus size: 17
4516770 CCAAATTAAA
*
4516780 GGCCCAATTACAAAAA-
1 GGCCCGATTACAAAAAG
4516796 GGCCCGATTACAAAAAAG
1 GGCCCGATTAC-AAAAAG
4516814 GGCCCGATTACAAAAAG
1 GGCCCGATTACAAAAAG
4516831 GGCCCGATTACAAAA
1 GGCCCGATTACAAAA
4516846 GGCCAATTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
16 10 0.21
17 26 0.55
18 11 0.23
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.12
Consensus pattern (17 bp):
GGCCCGATTACAAAAAG
Found at i:4516941 original size:9 final size:9
Alignment explanation
Indices: 4516927--4516962 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
4516917 CTCTGCTGCT
4516927 GCTCCACCA
1 GCTCCACCA
*
4516936 GCTCCACCT
1 GCTCCACCA
*
4516945 GCTCCACCT
1 GCTCCACCA
4516954 GCTCCACCA
1 GCTCCACCA
4516963 TGCCCTGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.17, C:0.56, G:0.11, T:0.17
Consensus pattern (9 bp):
GCTCCACCA
Found at i:4516948 original size:18 final size:18
Alignment explanation
Indices: 4516925--4516961 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4516915 GCCTCTGCTG
4516925 CTGCTCCACCAGCTCCAC
1 CTGCTCCACCAGCTCCAC
*
4516943 CTGCTCCACCTGCTCCAC
1 CTGCTCCACCAGCTCCAC
4516961 C
1 C
4516962 ATGCCCTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.57, G:0.11, T:0.19
Consensus pattern (18 bp):
CTGCTCCACCAGCTCCAC
Found at i:4517415 original size:7 final size:7
Alignment explanation
Indices: 4517403--4517463 Score: 67
Period size: 7 Copynumber: 9.3 Consensus size: 7
4517393 TAAAAATATT
4517403 ATTAATA
1 ATTAATA
4517410 ATTAATA
1 ATTAATA
4517417 ATT-ATA
1 ATTAATA
4517423 ATTAAT-
1 ATTAATA
* *
4517429 ATTTATG
1 ATTAATA
4517436 ATT-ATA
1 ATTAATA
*
4517442 GTTAAT-
1 ATTAATA
4517448 ATTAATA
1 ATTAATA
4517455 ATTAATA
1 ATTAATA
4517462 AT
1 AT
4517464 ATTGAAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
6 20 0.43
7 26 0.57
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (7 bp):
ATTAATA
Found at i:4517425 original size:13 final size:13
Alignment explanation
Indices: 4517407--4517463 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
4517397 AATATTATTA
4517407 ATAATTAATAATT
1 ATAATTAATAATT
*
4517420 ATAATTAATATTT
1 ATAATTAATAATT
* *
4517433 ATGATT-ATAGTT
1 ATAATTAATAATT
4517445 A-ATATTAATAATT
1 ATA-ATTAATAATT
4517458 AATAAT
1 -ATAAT
4517464 ATTGAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
12 9 0.26
13 22 0.63
14 3 0.09
15 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (13 bp):
ATAATTAATAATT
Found at i:4517441 original size:19 final size:19
Alignment explanation
Indices: 4517403--4517463 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
4517393 TAAAAATATT
4517403 ATTAATAATTAATAATTATA
1 ATTAAT-ATTAATAATTATA
* *
4517423 ATTAATATTTATGATTATA
1 ATTAATATTAATAATTATA
*
4517442 GTTAATATTAATAATTAATA
1 ATTAATATTAATAATT-ATA
4517462 AT
1 AT
4517464 ATTGAAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 24 0.71
20 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (19 bp):
ATTAATATTAATAATTATA
Found at i:4518513 original size:30 final size:30
Alignment explanation
Indices: 4518477--4518744 Score: 383
Period size: 30 Copynumber: 8.9 Consensus size: 30
4518467 AATTGTCCAG
* *
4518477 AAATTACATTTTGACCCTAAAACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
* * *
4518507 AAATTACATTTAGACCCCAAGACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
* *
4518537 AAATTATATTTTAACCCCAAAACTTTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
* * *
4518567 AAATTACATTTTAACCCCAAAATTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
* *
4518597 ATATTATATTTTGACCCCAAAACTTTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
4518627 AAATTACATTTTGACCCCAAAACTTTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
* *
4518657 AAATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
*
4518687 AAATTACATTTTAACCCCAAAACTTTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
4518717 AAATTACATTTTTGACCCCAAAAACTTT
1 AAATTACA-TTTTGACCCC-AAAACTTT
4518745 CCTAAATCCC
Statistics
Matches: 212, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
30 195 0.92
31 9 0.04
32 8 0.04
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCAA
Found at i:4518758 original size:31 final size:31
Alignment explanation
Indices: 4518459--4518766 Score: 296
Period size: 30 Copynumber: 10.2 Consensus size: 31
4518449 TTGTTGTGTA
* *
4518459 AACCCCTAAA-TTGTCCAGAAATTACA-TTTT
1 AACCCCAAAACTTTTCCA-AAATTACATTTTT
* * *
4518489 GACCCTAAAACTTTTCTAAAATTACA--TTT
1 AACCCCAAAACTTTTCCAAAATTACATTTTT
* * *
4518518 AGACCCCAAGACTTTTCTAAAATTATA-TTTT
1 A-ACCCCAAAACTTTTCCAAAATTACATTTTT
*
4518549 AACCCCAAAACTTTTCAAAAATTACA-TTTT
1 AACCCCAAAACTTTTCCAAAATTACATTTTT
* * * *
4518579 AACCCCAAAATTTTTCTAATATTATA-TTTT
1 AACCCCAAAACTTTTCCAAAATTACATTTTT
* *
4518609 GACCCCAAAACTTTTCAAAAATTACA-TTTT
1 AACCCCAAAACTTTTCCAAAATTACATTTTT
* * *
4518639 GACCCCAAAACTTTTCAAAAATTATA-TTTT
1 AACCCCAAAACTTTTCCAAAATTACATTTTT
*
4518669 GACCCCAAAACTTTTCCAAAATTACA-TTTT
1 AACCCCAAAACTTTTCCAAAATTACATTTTT
*
4518699 AACCCCAAAACTTTTCAAAAATTACATTTTT
1 AACCCCAAAACTTTTCCAAAATTACATTTTT
* * **
4518730 GACCCCAAAAAC-TTTCCTAAATCCCATTTTT
1 AACCCC-AAAACTTTTCCAAAATTACATTTTT
4518761 AACCCC
1 AACCCC
4518767 GATTTCACCA
Statistics
Matches: 241, Mismatches: 32, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
29 3 0.01
30 195 0.81
31 38 0.16
32 5 0.02
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (31 bp):
AACCCCAAAACTTTTCCAAAATTACATTTTT
Found at i:4518824 original size:28 final size:27
Alignment explanation
Indices: 4518784--4518939 Score: 100
Period size: 29 Copynumber: 5.4 Consensus size: 27
4518774 CCAAAATTTA
*
4518784 CCATTTTACCCTCGAATATTTTAAAATT
1 CCATTTTAACCTCGAAT-TTTTAAAATT
*
4518812 CCATTTTAACCTCG-ATTTTACCGAAAATT
1 CCATTTTAACCTCGAATTTT---TAAAATT
* *
4518841 ACCATTTTACCCCCGAATCTTTTAAAATT
1 -CCATTTTAACCTCGAAT-TTTTAAAATT
* *
4518870 CCATTTTAACCCCG-ATTTCACCTAAAATT
1 CCATTTTAACCTCGAATTT---TTAAAATT
* * * *
4518899 ACCATTTTACCCCCGAAGCTTCTAAAATT
1 -CCATTTTAACCTCGAA-TTTTTAAAATT
4518928 CCATTTTTAACC
1 CCA-TTTTAACC
4518940 CTGATTTCAC
Statistics
Matches: 105, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
26 5 0.05
27 4 0.04
28 29 0.28
29 34 0.32
30 25 0.24
31 3 0.03
32 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (27 bp):
CCATTTTAACCTCGAATTTTTAAAATT
Found at i:4518828 original size:58 final size:58
Alignment explanation
Indices: 4518748--4519030 Score: 408
Period size: 58 Copynumber: 4.9 Consensus size: 58
4518738 AAACTTTCCT
* * * *
4518748 AAATCCCATTTTTAACCCCGATTTCACC-AAAATTTACCATTTTACCCTCGAATATTTTA
1 AAATTCCA-TTTTAACCCCGATTTCACCGAAAA-TTACCATTTTACCCCCGAATCTTCTA
* * *
4518807 AAATTCCATTTTAACCTCGATTTTACCGAAAATTACCATTTTACCCCCGAATCTTTTA
1 AAATTCCATTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCTA
* *
4518865 AAATTCCATTTTAACCCCGATTTCACCTAAAATTACCATTTTACCCCCGAAGCTTCTA
1 AAATTCCATTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCTA
* *
4518923 AAATTCCATTTTTAACCCTGATTTCACCGAAAATTACCATTTTACCCCCAAATCTTCTA
1 AAATTCCA-TTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCTA
* *
4518982 AAATTCCATTTTAACCCCGATTTTACC-AAAATTACCATTTTGCCCCCGA
1 AAATTCCATTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGA
4519031 GTATCCAAAA
Statistics
Matches: 204, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
57 20 0.10
58 119 0.58
59 65 0.32
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (58 bp):
AAATTCCATTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCTA
Found at i:4518968 original size:117 final size:115
Alignment explanation
Indices: 4518748--4519030 Score: 424
Period size: 117 Copynumber: 2.4 Consensus size: 115
4518738 AAACTTTCCT
* * * *
4518748 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCTCGAATATTTTAAAATTC
1 AAATTCCA-TTTTAACCCCGATTTCACCAAAA-TTACCATTTTACCCCCGAAGATTCTAAAATTC
* * *
4518813 CATTTTAACCTCGATTTTACCGAAAATTACCATTTTACCCCCGAATCTTTTA
64 CATTTTAACCTCGATTTCACCGAAAATTACCATTTTACCCCCAAATCTTCTA
*
4518865 AAATTCCATTTTAACCCCGATTTCACCTAAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCC
1 AAATTCCATTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCGAAGATTCTAAAATTCC
4518930 ATTTTTAACC-CTGATTTCACCGAAAATTACCATTTTACCCCCAAATCTTCTA
65 A-TTTTAACCTC-GATTTCACCGAAAATTACCATTTTACCCCCAAATCTTCTA
* *
4518982 AAATTCCATTTTAACCCCGATTTTACCAAAATTACCATTTTGCCCCCGA
1 AAATTCCATTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGA
4519031 GTATCCAAAA
Statistics
Matches: 153, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
116 71 0.46
117 82 0.54
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (115 bp):
AAATTCCATTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGAAGATTCTAAAATTCCA
TTTTAACCTCGATTTCACCGAAAATTACCATTTTACCCCCAAATCTTCTA
Found at i:4519038 original size:28 final size:28
Alignment explanation
Indices: 4518757--4519040 Score: 177
Period size: 28 Copynumber: 9.8 Consensus size: 28
4518747 TAAATCCCAT
*
4518757 TTTTAACCCCG-ATTTCACCAAAATTTACCA
1 TTTTACCCCCGAATTT--CCAAAA-TTACCA
* **
4518787 TTTTACCCTCGAATATTTTAAAATT-CCA
1 TTTTACCCCCGAAT-TTCCAAAATTACCA
* * *
4518815 TTTTAACCTCGATTTTACCGAAAATTACCA
1 TTTTACCCCCGAATTT-CC-AAAATTACCA
**
4518845 TTTTACCCCCGAATCTTTTAAAATT-CCA
1 TTTTACCCCCGAAT-TTCCAAAATTACCA
*
4518873 TTTTAACCCCG-ATTTCACCTAAAATTACCA
1 TTTTACCCCCGAATTT--CC-AAAATTACCA
* *
4518903 TTTTACCCCCGAAGCTTCTAAAATT-CCA
1 TTTTACCCCCGAA-TTTCCAAAATTACCA
* *
4518931 TTTTTAACCCTG-ATTTCACCGAAAATTACCA
1 -TTTTACCCCCGAATTT--CC-AAAATTACCA
* *
4518962 TTTTACCCCCAAATCTTCTAAAATT-CCA
1 TTTTACCCCCGAAT-TTCCAAAATTACCA
* *
4518990 TTTTAACCCCGATTTTACCAAAATTACCA
1 TTTTACCCCCGAATTT-CCAAAATTACCA
* * *
4519019 TTTTGCCCCCGAGTATCCAAAA
1 TTTTACCCCCGAATTTCCAAAA
4519041 GTCTCGTTTT
Statistics
Matches: 198, Mismatches: 35, Indels: 44
0.71 0.13 0.16
Matches are distributed among these distances:
26 2 0.01
27 8 0.04
28 59 0.30
29 57 0.29
30 56 0.28
31 10 0.05
32 6 0.03
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (28 bp):
TTTTACCCCCGAATTTCCAAAATTACCA
Found at i:4520324 original size:13 final size:13
Alignment explanation
Indices: 4520298--4520341 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
4520288 ATAACAATCA
4520298 TTTAAAAAAG-TT
1 TTTAAAAAAGTTT
4520310 TTTAAAAAAGTTTT
1 TTTAAAAAAG-TTT
* *
4520324 TTTAAAACATTTT
1 TTTAAAAAAGTTT
4520337 TTTAA
1 TTTAA
4520342 TTTTTTACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 10 0.36
13 8 0.29
14 10 0.36
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (13 bp):
TTTAAAAAAGTTT
Found at i:4520784 original size:24 final size:24
Alignment explanation
Indices: 4520752--4520804 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
4520742 TTGAAAAAAG
4520752 TTTTGAATTGATGAATATTGTTTA
1 TTTTGAATTGATGAATATTGTTTA
4520776 TTTTGAATTGATGAATATTGTTTA
1 TTTTGAATTGATGAATATTGTTTA
4520800 TTTTG
1 TTTTG
4520805 TACTATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (24 bp):
TTTTGAATTGATGAATATTGTTTA
Found at i:4521286 original size:20 final size:20
Alignment explanation
Indices: 4521259--4521297 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
4521249 TTAAAAATAT
4521259 TTTAATTAT-TATTTGAAAA
1 TTTAATTATATATTTGAAAA
4521278 TTTATATTATAATATTTGAA
1 TTTA-ATTAT-ATATTTGAA
4521298 TTAATAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
22 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTAATTATATATTTGAAAA
Found at i:4534854 original size:15 final size:16
Alignment explanation
Indices: 4534834--4534874 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
4534824 TTTTTACTAA
4534834 AATAATATTA-AAAAT
1 AATAATATTACAAAAT
4534849 AATAATATATATCAAAAT
1 AATAATAT-TA-CAAAAT
4534867 AAT-ATATT
1 AATAATATT
4534875 CTTTTCGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.35
16 3 0.13
17 4 0.17
18 8 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAATATTACAAAAT
Found at i:4535073 original size:27 final size:27
Alignment explanation
Indices: 4535031--4535118 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
4535021 GTATAAATTG
4535031 GTGGTGCCTACCTGACAGGCGGCACCA
1 GTGGTGCCTACCTGACAGGCGGCACCA
* *
4535058 GTGGTGCCTACTTGACAGGCAGCACCA
1 GTGGTGCCTACCTGACAGGCGGCACCA
*
4535085 GTGGTGCCTACCTGTCAGGCGGCACCA
1 GTGGTGCCTACCTGACAGGCGGCACCA
*
4535112 ATGGTGC
1 GTGGTGC
4535119 ATTTCTATCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (27 bp):
GTGGTGCCTACCTGACAGGCGGCACCA
Found at i:4535204 original size:15 final size:15
Alignment explanation
Indices: 4535161--4535205 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4535151 ATTACAAAAC
4535161 TAATACAAAAAAAATA
1 TAATAC-AAAAAAATA
* **
4535177 TTATACACCAAAATA
1 TAATACAAAAAAATA
4535192 TAATACAAAAAAAT
1 TAATACAAAAAAAT
4535206 TAGTAACTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (15 bp):
TAATACAAAAAAATA
Found at i:4535388 original size:57 final size:55
Alignment explanation
Indices: 4535289--4535419 Score: 151
Period size: 57 Copynumber: 2.4 Consensus size: 55
4535279 AAAAATTAAA
* * *
4535289 TTAAATATTAAATAAGAATAACTCAATATTTTTAAATAAATAATATAA-AAAATAT
1 TTAAATATAAAATAATAATAACTCAAGATTTTTAAATAAATAATATAAGAAAA-AT
** *
4535344 TTATTTATCAAAATAATAATAATCTCCAGATTTTTACAAT-AATAATATAAGAAAAAT
1 TTAAATAT-AAAATAATAATAA-CTCAAGATTTTTA-AATAAATAATATAAGAAAAAT
4535401 TTAAATATAAAA-AATAATA
1 TTAAATATAAAATAATAATA
4535420 CACTTTTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
55 13 0.20
56 15 0.23
57 29 0.45
58 7 0.11
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (55 bp):
TTAAATATAAAATAATAATAACTCAAGATTTTTAAATAAATAATATAAGAAAAAT
Found at i:4535525 original size:27 final size:27
Alignment explanation
Indices: 4535489--4535549 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
4535479 ACAAGTGGTG
4535489 GGTGCCTACTAGGTAGGCGGCACTAGT
1 GGTGCCTACTAGGTAGGCGGCACTAGT
*
4535516 GGTGCCTACTGGGTAGGCGGCACTAGT
1 GGTGCCTACTAGGTAGGCGGCACTAGT
4535543 GGTGCCT
1 GGTGCCT
4535550 TTGTCAATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.15, C:0.23, G:0.39, T:0.23
Consensus pattern (27 bp):
GGTGCCTACTAGGTAGGCGGCACTAGT
Found at i:4538526 original size:26 final size:26
Alignment explanation
Indices: 4538477--4538526 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4538467 TCTATTTAAA
**
4538477 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
4538503 TTTGAATTTATTTAATTAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
4538527 GCAAATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:4541001 original size:13 final size:13
Alignment explanation
Indices: 4540985--4541012 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4540975 TAATTTTTCA
4540985 TTTTAAAAAATAT
1 TTTTAAAAAATAT
4540998 TTTTAAAAAATAT
1 TTTTAAAAAATAT
4541011 TT
1 TT
4541013 AATATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:4541033 original size:17 final size:17
Alignment explanation
Indices: 4541004--4541051 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
4540994 ATATTTTTAA
4541004 AAAATATTT-AATATAT
1 AAAATATTTAAATATAT
4541020 AAAATATTTAAATATAT
1 AAAATATTTAAATATAT
* *
4541037 CAAATGAATTAAATA
1 AAAAT-ATTTAAATA
4541052 AAATAATCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.32
17 11 0.39
18 8 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAATATTTAAATATAT
Found at i:4542276 original size:15 final size:14
Alignment explanation
Indices: 4542256--4542296 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4542246 AACGGGGAGA
4542256 ATATATTATTTTGGT
1 ATATATTATTTT-GT
*
4542271 ATATATTATTTTTT
1 ATATATTATTTTGT
*
4542285 AAATATTATTTT
1 ATATATTATTTT
4542297 AGTAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (14 bp):
ATATATTATTTTGT
Found at i:4542292 original size:14 final size:15
Alignment explanation
Indices: 4542258--4542302 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
4542248 CGGGGAGAAT
*
4542258 ATATTATTTTGGTAT
1 ATATTATTTTGGTAA
*
4542273 ATATTATTTT-TTAA
1 ATATTATTTTGGTAA
*
4542287 ATATTATTTTAGTAA
1 ATATTATTTTGGTAA
4542302 A
1 A
4542303 AAACCCCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (15 bp):
ATATTATTTTGGTAA
Found at i:4544108 original size:22 final size:21
Alignment explanation
Indices: 4544083--4544146 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
4544073 ATTGAAATAA
4544083 TAAAAATCATAATATTTTGAT-T
1 TAAAAATCATAAT-TTTT-ATAT
* *
4544105 TAAATATTATAATTTTTATAT
1 TAAAAATCATAATTTTTATAT
*
4544126 TAAAAAAATTATAATTTTTAT
1 T--AAAAATCATAATTTTTAT
4544147 CGATAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 11 0.31
23 17 0.47
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TAAAAATCATAATTTTTATAT
Found at i:4548834 original size:2 final size:2
Alignment explanation
Indices: 4548827--4548862 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4548817 TCCAAGCTAC
4548827 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4548863 GCTCTCAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4548934 original size:6 final size:6
Alignment explanation
Indices: 4548925--4548955 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4548915 AAGCTGCTAC
4548925 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT T
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT T
4548956 ACCATTGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.32, T:0.52
Consensus pattern (6 bp):
TGCTGT
Found at i:4557542 original size:39 final size:40
Alignment explanation
Indices: 4557466--4557623 Score: 139
Period size: 39 Copynumber: 4.0 Consensus size: 40
4557456 AGAGATTGCT
* * *
4557466 CTGCAATGATATACTGAACTAGCA-TTGACATTATAAACA
1 CTGCAATGATATACTGAACTAGTAGTTGACACTGTAAACA
*
4557505 CTGCAATGATATACTGAACTGGTAGTT-ACACTGTAAACA
1 CTGCAATGATATACTGAACTAGTAGTTGACACTGTAAACA
* * * * * * *
4557544 CTACAATGACATACCGAA-TTGGAGTTGAGACTGTGAACA
1 CTGCAATGATATACTGAACTAGTAGTTGACACTGTAAACA
* *
4557583 CCGCAATGCTACT-CTGAAGC-AGTAG-TGACACTGTAAACA
1 CTGCAATGATA-TACTGAA-CTAGTAGTTGACACTGTAAACA
4557622 CT
1 CT
4557624 ACTAGACTAT
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
38 6 0.06
39 81 0.87
40 6 0.06
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (40 bp):
CTGCAATGATATACTGAACTAGTAGTTGACACTGTAAACA
Found at i:4559005 original size:19 final size:18
Alignment explanation
Indices: 4558970--4559004 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4558960 CTCATTCTCA
*
4558970 TAAAATTTTTTAATTTTG
1 TAAAAGTTTTTAATTTTG
*
4558988 TAAAAGTTTTTAGTTTT
1 TAAAAGTTTTTAATTTT
4559005 TCTTAGCCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (18 bp):
TAAAAGTTTTTAATTTTG
Found at i:4560395 original size:4 final size:4
Alignment explanation
Indices: 4560386--4560457 Score: 135
Period size: 4 Copynumber: 18.0 Consensus size: 4
4560376 ATAAACAACC
*
4560386 ACAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4560434 ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT
4560458 TTCGAGAACT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 66 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:4561566 original size:20 final size:20
Alignment explanation
Indices: 4561543--4561581 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4561533 TAATTTTATG
*
4561543 ACATATATTTTATT-TTTTAA
1 ACATA-ATTATATTATTTTAA
4561563 ACATAATTATATTATTTTA
1 ACATAATTATATTATTTTA
4561582 CAATCTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
ACATAATTATATTATTTTAA
Found at i:4563914 original size:14 final size:14
Alignment explanation
Indices: 4563895--4563925 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4563885 TTAATTTATT
4563895 TTTAATTAAATAAA
1 TTTAATTAAATAAA
*
4563909 TTTAATTAATTAAA
1 TTTAATTAAATAAA
4563923 TTT
1 TTT
4563926 CTAAATTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:4566381 original size:22 final size:22
Alignment explanation
Indices: 4566341--4566390 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
4566331 ATTTGAGGGT
* ** *
4566341 TTTTTTCAATTTAGTACTTGAA
1 TTTTTTCAATTCAACACTTAAA
4566363 TTTTTTCAATTCAACACTTAAA
1 TTTTTTCAATTCAACACTTAAA
4566385 TTTTTT
1 TTTTTT
4566391 TTTCTTTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTTTCAATTCAACACTTAAA
Found at i:4566511 original size:24 final size:24
Alignment explanation
Indices: 4566484--4566559 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
4566474 CTAAGAACAC
4566484 AAATTAAACATTGAAGCTACACTT
1 AAATTAAACATTGAAGCTACACTT
* * *
4566508 AAA-TACTAA-ATTG-AGATAAGAAC-C
1 AAATTA--AACATTGAAGCT-A-CACTT
4566532 AAATTAAACATTGAAGCTACACTT
1 AAATTAAACATTGAAGCTACACTT
4566556 AAAT
1 AAAT
4566560 ACTAAATTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
23 9 0.24
24 20 0.53
25 9 0.24
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.26
Consensus pattern (24 bp):
AAATTAAACATTGAAGCTACACTT
Found at i:4566537 original size:48 final size:49
Alignment explanation
Indices: 4566475--4566574 Score: 193
Period size: 48 Copynumber: 2.1 Consensus size: 49
4566465 CCGTTTGATC
4566475 TAAGAACACAAATTAAACATTGAAGCTACACTTAAATACTAAATTGAGA
1 TAAGAACACAAATTAAACATTGAAGCTACACTTAAATACTAAATTGAGA
4566524 TAAGAAC-CAAATTAAACATTGAAGCTACACTTAAATACTAAATTGAGA
1 TAAGAACACAAATTAAACATTGAAGCTACACTTAAATACTAAATTGAGA
4566572 TAA
1 TAA
4566575 ATAAATTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 44 0.86
49 7 0.14
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.25
Consensus pattern (49 bp):
TAAGAACACAAATTAAACATTGAAGCTACACTTAAATACTAAATTGAGA
Found at i:4566568 original size:24 final size:24
Alignment explanation
Indices: 4566493--4566569 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
4566483 CAAATTAAAC
4566493 ATTGAAGCTACACTTAAATACTAA
1 ATTGAAGCTACACTTAAATACTAA
* * *
4566517 ATTG-AGATAAGAAC-CAAAT--TAAA
1 ATTGAAGCT-A-CACTTAAATACT-AA
4566540 CATTGAAGCTACACTTAAATACTAA
1 -ATTGAAGCTACACTTAAATACTAA
4566565 ATTGA
1 ATTGA
4566570 GATAAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
22 1 0.03
23 7 0.18
24 23 0.59
25 7 0.18
26 1 0.03
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (24 bp):
ATTGAAGCTACACTTAAATACTAA
Found at i:4569121 original size:58 final size:58
Alignment explanation
Indices: 4569059--4569173 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
4569049 ATCAACAAAC
* * *
4569059 TAAACCCAAATATTTTTAAACTCACATATAATTTCATTCTTCAAAAACACTCATAAAT
1 TAAACCAAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCATAAAT
4569117 TAAACCAAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCATAAA
1 TAAACCAAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCATAAA
4569174 CAACTCCTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (58 bp):
TAAACCAAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCATAAAT
Found at i:4574873 original size:17 final size:17
Alignment explanation
Indices: 4574848--4574936 Score: 106
Period size: 17 Copynumber: 5.2 Consensus size: 17
4574838 AAATCCAACT
* *
4574848 TTTAGTTTAAATTTGAA
1 TTTATTTTAAATTTAAA
4574865 TTTATTTTAAATTTAAA
1 TTTATTTTAAATTTAAA
* * *
4574882 TTCATGTTAAGTTTAAA
1 TTTATTTTAAATTTAAA
*
4574899 TTTATTTTAAATTTGAA
1 TTTATTTTAAATTTAAA
* *
4574916 TTTATTTTGAATTAAAA
1 TTTATTTTAAATTTAAA
4574933 TTTA
1 TTTA
4574937 AAAATTTGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 60 1.00
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (17 bp):
TTTATTTTAAATTTAAA
Found at i:4575639 original size:3 final size:3
Alignment explanation
Indices: 4575631--4575664 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4575621 TTAGCTGTAC
4575631 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4575665 TATTCCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4576898 original size:29 final size:29
Alignment explanation
Indices: 4576856--4577107 Score: 156
Period size: 30 Copynumber: 8.6 Consensus size: 29
4576846 TAAAGGTCCC
*
4576856 TAAACTATCCAAAAATTATATTTTAGCCCT
1 TAAACT-TTCAAAAATTATATTTTAGCCCT
* *
4576886 TAAAC-TTCTAAAAATTACATTTTTA-CCTT
1 TAAACTTTC-AAAAATTATA-TTTTAGCCCT
* * ** * *
4576915 TGAACTTCCAAAAATTCCATTTTTGACCCC
1 TAAACTTTCAAAAATTATATTTTAG-CCCT
* * *
4576945 AAAACTTTTAAAAATTATATTTTTA-CCCC
1 TAAACTTTCAAAAATTATA-TTTTAGCCCT
** *
4576974 TAAACTTTCAAAAATTCCATTTT-GACCT
1 TAAACTTTCAAAAATTATATTTTAGCCCT
**
4577002 CGAACTTTCAAAAATTATATTTTTA--CCT
1 TAAACTTTCAAAAATTATA-TTTTAGCCCT
** * * *
4577030 CCGAACTTTCAAAAATTCTATTTTTGACCT
1 -TAAACTTTCAAAAATTATATTTTAGCCCT
* *
4577060 TGAAACTTTCAAAAATTATATTTTTGACCCC
1 T-AAACTTTCAAAAATTATATTTTAG-CCCT
*
4577091 AAAACTTTCAAAAATTA
1 TAAACTTTCAAAAATTA
4577108 CCATTTTACC
Statistics
Matches: 174, Mismatches: 34, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
28 34 0.20
29 66 0.38
30 68 0.39
31 6 0.03
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (29 bp):
TAAACTTTCAAAAATTATATTTTAGCCCT
Found at i:4576961 original size:59 final size:58
Alignment explanation
Indices: 4576887--4577114 Score: 271
Period size: 59 Copynumber: 3.9 Consensus size: 58
4576877 TTTAGCCCTT
* * * *
4576887 AAAC-TTCTAAAAATTACATTTTTACCTTTGAACTTCCAAAAATTCCATTTTTGACCCC
1 AAACTTTC-AAAAATTATATTTTTACCTCTGAACTTTCAAAAATTCCATTTTTGACCTC
* * *
4576945 AAAACTTTTAAAAATTATATTTTTACCCCTAAACTTTCAAAAATTCCA-TTTTGACCTC
1 -AAACTTTCAAAAATTATATTTTTACCTCTGAACTTTCAAAAATTCCATTTTTGACCTC
* * * *
4577003 GAACTTTCAAAAATTATATTTTTACCTCCGAACTTTCAAAAATTCTATTTTTGACCTTG
1 AAACTTTCAAAAATTATATTTTTACCTCTGAACTTTCAAAAATTCCATTTTTGACC-TC
* **
4577062 AAACTTTCAAAAATTATATTTTTGACCCCAAAACTTTCAAAAATTACCATTTT
1 AAACTTTCAAAAATTATATTTTT-ACCTCTGAACTTTCAAAAATT-CCATTTT
4577115 ACCCCCGAAT
Statistics
Matches: 145, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
57 41 0.28
58 17 0.12
59 61 0.42
60 20 0.14
61 6 0.04
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (58 bp):
AAACTTTCAAAAATTATATTTTTACCTCTGAACTTTCAAAAATTCCATTTTTGACCTC
Found at i:4577084 original size:30 final size:30
Alignment explanation
Indices: 4576865--4577107 Score: 225
Period size: 29 Copynumber: 8.3 Consensus size: 30
4576855 CTAAACTATC
* * *
4576865 CAAAAATTATATTTTAGCCCT-TAAAC-TT
1 CAAAAATTATATTTTTGACCTCGAAACTTT
* * *
4576893 CTAAAAATTACATTTTT-ACCTTTG-AACTTC
1 C-AAAAATTATATTTTTGACC-TCGAAACTTT
** * *
4576923 CAAAAATTCCATTTTTGACCCCAAAACTTT
1 CAAAAATTATATTTTTGACCTCGAAACTTT
* * *
4576953 TAAAAATTATATTTTT-ACCCCTAAACTTT
1 CAAAAATTATATTTTTGACCTCGAAACTTT
**
4576982 CAAAAATTCCA-TTTTGACCTCG-AACTTT
1 CAAAAATTATATTTTTGACCTCGAAACTTT
4577010 CAAAAATTATATTTTT-ACCTCCG-AACTTT
1 CAAAAATTATATTTTTGACCT-CGAAACTTT
* *
4577039 CAAAAATTCTATTTTTGACCTTGAAACTTT
1 CAAAAATTATATTTTTGACCTCGAAACTTT
* *
4577069 CAAAAATTATATTTTTGACCCCAAAACTTT
1 CAAAAATTATATTTTTGACCTCGAAACTTT
4577099 CAAAAATTA
1 CAAAAATTA
4577108 CCATTTTACC
Statistics
Matches: 177, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
28 26 0.15
29 83 0.47
30 68 0.38
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (30 bp):
CAAAAATTATATTTTTGACCTCGAAACTTT
Found at i:4577119 original size:29 final size:30
Alignment explanation
Indices: 4576917--4577114 Score: 198
Period size: 30 Copynumber: 6.7 Consensus size: 30
4576907 TTTACCTTTG
* *
4576917 AACTTCCAAAAATT-CCATTTTTGACCCCAA
1 AACTTTCAAAAATTACTATTTTTGACCCC-A
*
4576947 AACTTTTAAAAATTA-TATTTTT-ACCCCTA
1 AACTTTCAAAAATTACTATTTTTGACCCC-A
* * *
4576976 AACTTTCAAAAATT-CCA-TTTTGACCTCG
1 AACTTTCAAAAATTACTATTTTTGACCCCA
*
4577004 AACTTTCAAAAATTA-TATTTTT-ACCTCCG
1 AACTTTCAAAAATTACTATTTTTGACC-CCA
**
4577033 AACTTTCAAAAATT-CTATTTTTGACCTTGA
1 AACTTTCAAAAATTACTATTTTTGACC-CCA
4577063 AACTTTCAAAAATTA-TATTTTTGACCCCAA
1 AACTTTCAAAAATTACTATTTTTGACCCC-A
*
4577093 AACTTTCAAAAATTACCATTTT
1 AACTTTCAAAAATTACTATTTT
4577115 ACCCCCGAAT
Statistics
Matches: 141, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
28 22 0.16
29 51 0.36
30 63 0.45
31 5 0.04
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (30 bp):
AACTTTCAAAAATTACTATTTTTGACCCCA
Found at i:4578220 original size:17 final size:19
Alignment explanation
Indices: 4578190--4578230 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
4578180 CTCCATGCTA
*
4578190 ATTTTTTGAGTTTTTATAT
1 ATTTTTTGAGTTTTGATAT
*
4578209 ATTTTTT-A-TTTTGATTT
1 ATTTTTTGAGTTTTGATAT
4578226 ATTTT
1 ATTTT
4578231 ACTTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 12 0.60
18 1 0.05
19 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (19 bp):
ATTTTTTGAGTTTTGATAT
Found at i:4578251 original size:22 final size:23
Alignment explanation
Indices: 4578210--4578253 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4578200 TTTTTATATA
**
4578210 TTTTTTATTTTGATTTATTTTAC
1 TTTTTTATTTTGATAAATTTTAC
4578233 TTTTTTATTTT-ATAAATTTTA
1 TTTTTTATTTTGATAAATTTTA
4578254 AATTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTTATTTTGATAAATTTTAC
Found at i:4578724 original size:16 final size:16
Alignment explanation
Indices: 4578705--4578747 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
4578695 AAAAATGATT
4578705 AAAAAATAAAAAATAG
1 AAAAAATAAAAAATAG
* *
4578721 AAAAAATATAAAATAT
1 AAAAAATAAAAAATAG
*
4578737 AAAATATAAAA
1 AAAAAATAAAA
4578748 TATTATAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAAAATAAAAAATAG
Found at i:4578750 original size:7 final size:7
Alignment explanation
Indices: 4578723--4578750 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4578713 AAAAATAGAA
4578723 AAAATAT
1 AAAATAT
4578730 AAAATAT
1 AAAATAT
4578737 AAAATAT
1 AAAATAT
4578744 AAAATAT
1 AAAATAT
4578751 TATAAACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:4578756 original size:10 final size:9
Alignment explanation
Indices: 4578693--4578805 Score: 60
Period size: 9 Copynumber: 12.8 Consensus size: 9
4578683 TATTTTTCAC
*
4578693 ATAAAAATG
1 ATAAAAATT
4578702 ATTAAAAA--
1 A-TAAAAATT
*
4578710 ATAAAAAAT
1 ATAAAAATT
* *
4578719 AGAAAAAAT
1 ATAAAAATT
4578728 AT-AAAA-T
1 ATAAAAATT
4578735 AT-AAAA-T
1 ATAAAAATT
4578742 ATAAAATATT
1 ATAAAA-ATT
*
4578752 ATAAACTATT
1 ATAAA-AATT
*
4578762 A-AAAAAAT
1 ATAAAAATT
4578770 ATAAAAATTT
1 ATAAAAA-TT
* *
4578780 ATATGAAGTT
1 ATA-AAAATT
4578790 ATAAAAATT
1 ATAAAAATT
4578799 ATAAAAA
1 ATAAAAA
4578806 AAATAAAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 20
0.74 0.09 0.18
Matches are distributed among these distances:
7 16 0.19
8 11 0.13
9 30 0.36
10 25 0.30
11 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4578806 original size:10 final size:10
Alignment explanation
Indices: 4578710--4578817 Score: 55
Period size: 9 Copynumber: 11.0 Consensus size: 10
4578700 TGATTAAAAA
4578710 ATAAAAAA-T
1 ATAAAAAATT
*
4578719 AGAAAAAATAT
1 ATAAAAAAT-T
* *
4578730 AAAATATAAAAT
1 ATAA-A-AAATT
*
4578742 ATAAAATATT
1 ATAAAAAATT
**
4578752 ATAAACTATT
1 ATAAAAAATT
4578762 A-AAAAAA-T
1 ATAAAAAATT
*
4578770 ATAAAAATTT
1 ATAAAAAATT
** *
4578780 ATATGAAGTT
1 ATAAAAAATT
4578790 AT-AAAAATT
1 ATAAAAAATT
*
4578799 ATAAAAAA-A
1 ATAAAAAATT
4578808 ATAAAAAATT
1 ATAAAAAATT
4578818 TTAATGAGTT
Statistics
Matches: 73, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
8 2 0.03
9 30 0.41
10 28 0.38
11 5 0.07
12 5 0.07
13 3 0.04
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.29
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:4578815 original size:39 final size:40
Alignment explanation
Indices: 4578752--4578843 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 40
4578742 ATAAAATATT
* *
4578752 ATAAACTATTAAAAAAATATAAAAA-TTTATATGAAGTTATA
1 ATAAATTATAAAAAAAATATAAAAATTTTA-ATG-AGTTATA
*
4578793 A-AAATTATAAAAAAAATA-AAAAATTTTAATGAGTTCTA
1 ATAAATTATAAAAAAAATATAAAAATTTTAATGAGTTATA
4578831 ATAAATTATAAAA
1 ATAAATTATAAAA
4578844 GAGTGTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 7 0.15
39 19 0.41
40 19 0.41
41 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (40 bp):
ATAAATTATAAAAAAAATATAAAAATTTTAATGAGTTATA
Found at i:4579022 original size:90 final size:88
Alignment explanation
Indices: 4578850--4579094 Score: 257
Period size: 90 Copynumber: 2.8 Consensus size: 88
4578840 AAAAGAGTGT
* * * * * * *
4578850 AAAAAATCCTTAAACTTTTTCAAAAAAGTAATTAAACCCTTACTTTTTTTTTCACTCACTTGGGT
1 AAAAAATCCTCAAACTTTTTCAAAAAAGCAATTAAGCCCCTACTTTTTTTTGCACTCAATTGAGT
* * *
4578915 ACTTGAACTTTTAAAATGTATCA
66 ACTTCAACTTTCAAAATGCATCA
* * *
4578938 AAAAAATTCTCAAATTTTTTCAAAAAGAGCAATTAAGCCCCTGCTTTTATTTTGCACTCAATTGA
1 AAAAAATCCTCAAACTTTTTCAAAAA-AGCAATTAAGCCCCTACTTTT-TTTTGCACTCAATTGA
*
4579003 GTAGTTCAACTTTCAAAATGCATCA
64 GTACTTCAACTTTCAAAATGCATCA
* *
4579028 AAAAAA-CCATCAAGCTTTTTCAAAAAAAGCAATTAAGCTCCCGA---TTTTTT-CACTCAATTG
1 AAAAAATCC-TCAAACTTTTTC-AAAAAAGCAATTAAGC-CCCTACTTTTTTTTGCACTCAATTG
*
4579088 GGTACTT
63 AGTACTT
4579095 GTACTATTAA
Statistics
Matches: 131, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
86 15 0.11
87 4 0.03
88 25 0.19
89 18 0.14
90 61 0.47
91 8 0.06
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (88 bp):
AAAAAATCCTCAAACTTTTTCAAAAAAGCAATTAAGCCCCTACTTTTTTTTGCACTCAATTGAGT
ACTTCAACTTTCAAAATGCATCA
Found at i:4580012 original size:5 final size:6
Alignment explanation
Indices: 4579969--4580011 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
4579959 TTTTTGTTTG
4579969 ATAAAA ATATTAAA AT-AAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATA--AAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
4580012 TCGATTCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.15
6 24 0.71
8 5 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:4580371 original size:8 final size:8
Alignment explanation
Indices: 4580354--4580382 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4580344 ACTTATTATT
4580354 TATT-TAA
1 TATTATAA
4580361 TATTATAA
1 TATTATAA
4580369 TATTATAA
1 TATTATAA
4580377 TATTAT
1 TATTAT
4580383 TTTTACTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TATTATAA
Found at i:4581527 original size:11 final size:11
Alignment explanation
Indices: 4581511--4581536 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4581501 AAATAAACTT
4581511 GTTTCTCCAAA
1 GTTTCTCCAAA
4581522 GTTTCTCCAAA
1 GTTTCTCCAAA
4581533 GTTT
1 GTTT
4581537 TTAATTTTCA
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:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (11 bp):
GTTTCTCCAAA
Found at i:4581563 original size:14 final size:14
Alignment explanation
Indices: 4581536--4581593 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
4581526 CTCCAAAGTT
*
4581536 TTTAA-TTTTCAAA
1 TTTAAGTTTTAAAA
4581549 TTTAAGTTTTAAAA
1 TTTAAGTTTTAAAA
* ** *
4581563 TTCAAAATTCAAAA
1 TTTAAGTTTTAAAA
*
4581577 TTTAAGTTTTCAAA
1 TTTAAGTTTTAAAA
4581591 TTT
1 TTT
4581594 TAATTACATT
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
13 5 0.15
14 29 0.85
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (14 bp):
TTTAAGTTTTAAAA
Found at i:4600819 original size:20 final size:21
Alignment explanation
Indices: 4600789--4600827 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4600779 TTATTAAAAA
*
4600789 TAAATTTTGTTAATAATAAGC
1 TAAATTTTGTTAAAAATAAGC
4600810 TAAA-TTTGTTAAAAATAA
1 TAAATTTTGTTAAAAATAA
4600828 ATATCATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (21 bp):
TAAATTTTGTTAAAAATAAGC
Found at i:4603438 original size:18 final size:19
Alignment explanation
Indices: 4603411--4603453 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4603401 ATATATGTCA
* *
4603411 ATAAATAATTTTAA-AAAT
1 ATAAAAAATTTCAAGAAAT
4603429 ATAAAAAATTTCAAGAAAT
1 ATAAAAAATTTCAAGAAAT
*
4603448 AGAAAA
1 ATAAAA
4603454 TTCAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAAAAAATTTCAAGAAAT
Found at i:4603498 original size:2 final size:2
Alignment explanation
Indices: 4603491--4603515 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4603481 TCATAAAAAT
4603491 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4603516 CATGAAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4604378 original size:29 final size:31
Alignment explanation
Indices: 4604331--4604407 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 31
4604321 TTGATTTAAT
* *
4604331 GTGCAATTATATACATGAA-TTTTAATT-TG
1 GTGCAATTATACATATGAATTTTTAATTGTG
*
4604360 GTGCAATTATACATGTGAATTTTTAATTGTG
1 GTGCAATTATACATATGAATTTTTAATTGTG
*
4604391 GTTCACATGTATACATA
1 GTGCA-AT-TATACATA
4604408 AAACTTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 16 0.41
30 8 0.21
31 6 0.15
32 2 0.05
33 7 0.18
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (31 bp):
GTGCAATTATACATATGAATTTTTAATTGTG
Found at i:4613794 original size:81 final size:85
Alignment explanation
Indices: 4613700--4613868 Score: 247
Period size: 86 Copynumber: 2.0 Consensus size: 85
4613690 TAATCTCGTG
* * *
4613700 AACTCGAATTCAGTGAAGAAGTACTTCAC-CT-AAAAAA-AG-GGAGAGGTCGAGATGAAAACCC
1 AACTCGAATTCAGTGAAGAAATACTTCACAATAAAAAAATAGAGAAGAGGTCGAGATGAAAACCC
*
4613761 ACAAAGGGCATGTTGAAACC
66 ACAAAGGGCATCTTGAAACC
* *
4613781 AACTCGAATTCAGTGAAGAAATACTTCACATATAAAAAAATAGAGAAGAGGTCGTGATGAAAATC
1 AACTCGAATTCAGTGAAGAAATACTTCACA-ATAAAAAAATAGAGAAGAGGTCGAGATGAAAACC
4613846 CACAAAGGGCATCTTGAAACC
65 CACAAAGGGCATCTTGAAACC
4613867 AA
1 AA
4613869 AGGAGGTTTG
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
81 28 0.36
83 1 0.01
84 6 0.08
85 2 0.03
86 40 0.52
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (85 bp):
AACTCGAATTCAGTGAAGAAATACTTCACAATAAAAAAATAGAGAAGAGGTCGAGATGAAAACCC
ACAAAGGGCATCTTGAAACC
Found at i:4614776 original size:50 final size:49
Alignment explanation
Indices: 4614722--4614874 Score: 143
Period size: 50 Copynumber: 3.1 Consensus size: 49
4614712 TAAAGTTATA
4614722 GTGGAGCAAGATGAAACTACAACACCAAATCCTATATCCATGAAGTTGCG
1 GTGGAGCAAGATGAAACTA-AACACCAAATCCTATATCCATGAAGTTGCG
* * *** *
4614772 GTGGATC-AGATTAAAACTATTGA--AAAT-CTTTATCTCATTGAAGTTGCG
1 GTGGAGCAAGA-TGAAACTAAACACCAAATCCTATATC-CA-TGAAGTTGCG
* * * *
4614820 GTGGAGTAAGATGAAGCTATAACACCAAATCCTATATCCTTGAAGTTGCA
1 GTGGAGCAAGATGAAACTA-AACACCAAATCCTATATCCATGAAGTTGCG
4614870 GTGGA
1 GTGGA
4614875 TCGGATTAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
46 6 0.08
47 6 0.08
48 21 0.27
49 8 0.10
50 27 0.34
51 5 0.06
52 6 0.08
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (49 bp):
GTGGAGCAAGATGAAACTAAACACCAAATCCTATATCCATGAAGTTGCG
Found at i:4615053 original size:51 final size:51
Alignment explanation
Indices: 4614998--4615171 Score: 135
Period size: 50 Copynumber: 3.5 Consensus size: 51
4614988 ATCATAGTCG
* * *
4614998 CAAATCTTTATCTCCCTAAAGTTACAGAGAAGCAAGATGAAGCTATAACAC
1 CAAATCTCTATATCCCTAAAGTTACAGAGGAGCAAGATGAAGCTATAACAC
* * * * *
4615049 CAAATC-CTATATCCCTGAAGTTACA-AGGATC-AGATTAA--AACTAACAGTGG
1 CAAATCTCTATATCCCTAAAGTTACAGAGGAGCAAGATGAAGCTA-TAACA---C
* * ** * * *
4615099 CAAATCTTTATCTCTTTGAAGTTACAGCGGAGCAAGATGAAGCTACAACAC
1 CAAATCTCTATATCCCTAAAGTTACAGAGGAGCAAGATGAAGCTATAACAC
4615150 CAAAT-TCTATATCCCTAAAGTT
1 CAAATCTCTATATCCCTAAAGTT
4615172 GTAAGGATCA
Statistics
Matches: 91, Mismatches: 23, Indels: 19
0.68 0.17 0.14
Matches are distributed among these distances:
46 1 0.01
47 5 0.05
48 6 0.07
49 4 0.04
50 34 0.37
51 26 0.29
52 4 0.04
53 6 0.07
54 4 0.04
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (51 bp):
CAAATCTCTATATCCCTAAAGTTACAGAGGAGCAAGATGAAGCTATAACAC
Found at i:4615135 original size:101 final size:101
Alignment explanation
Indices: 4614644--4615457 Score: 897
Period size: 101 Copynumber: 8.1 Consensus size: 101
4614634 TCAATAAGCT
* * * ** ***
4614644 ACCAAATCCTATTTTCTTGAAGTTGCAAGGATTGGATTAAAACTAACAGTAAAAAATCTTTATCT
1 ACCAAATCCTATATCCCTGAAGTTGCAAGGATCAGATTAAAACTAACAGTGGCAAATCTTTATCT
* * ** *
4614709 CCCTAAAGTTATAGTGGAGCAAGATGAAACTACAAC
66 CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
* ** * *
4614745 ACCAAATCCTATATCCATGAAGTTGCGGTGGATCAGATTAAAACT---A-TTGAAAATCTTTATC
1 ACCAAATCCTATATCCCTGAAGTTGC-AAGGATCAGATTAAAACTAACAGTGGCAAATCTTTATC
* * * *
4614806 TCATTGAAGTTGCGGTGGAGTAAGATGAAGCTATAAC
65 TCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
* * *
4614843 ACCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTGGCAAATCTTTATC
1 ACCAAATCCTATATCCCTGAAGTTGCA-AGGATCAGATTAAAACTAACAGTGGCAAATCTTTATC
* * * *
4614908 TTCTTGAAGTTGCAGTGCAGTAAGATGAAGATACAAC
65 TCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
* * * * * * *
4614945 ACGAAATCCTATATCCCCGAAGTTGC-AGTAGATCAGATAAAAAATCATAGTCGCAAATCTTTAT
1 ACCAAATCCTATATCCCTGAAGTTGCAAG--GATCAGATTAAAACTAACAGTGGCAAATCTTTAT
* * * * * *
4615009 CTCCCTAAAGTTACAGAGAAGCAAGATGAAGCTATAAC
64 CTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
*
4615047 ACCAAATCCTATATCCCTGAAGTTACAAGGATCAGATTAAAACTAACAGTGGCAAATCTTTATCT
1 ACCAAATCCTATATCCCTGAAGTTGCAAGGATCAGATTAAAACTAACAGTGGCAAATCTTTATCT
* * *
4615112 CTTTGAAGTTACAGCGGAGCAAGATGAAGCTACAAC
66 CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
* * * * * *
4615148 ACCAAATTCTATATCCCTAAAGTTGTAAGGATCAAATTAAAACTAACGGTGGTAAATCTTTATCT
1 ACCAAATCCTATATCCCTGAAGTTGCAAGGATCAGATTAAAACTAACAGTGGCAAATCTTTATCT
* *
4615213 CCCTGAAGCTGCAGTGGAGCAAGATGAAGCTACAAC
66 CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
* * * *
4615249 ACCAAATCCTATATCTCTGAAGTT--ATAGGATTTA-TTTAAAACTAACAGTGACAAATCTTTAT
1 ACCAAATCCTATATCCCTGAAGTTGCA-AGGA-TCAGATTAAAACTAACAGTGGCAAATCTTTAT
* * *
4615311 CTCATTGAAGTTTCAGTAGAGCAAGATGAAGCTACAAC
64 CTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
* * * *
4615349 ACCAAATCCTATATCCTTGAAGTTGCAAGGATTAGATTTAAACTAATAGTGGCAAATCTTTATCT
1 ACCAAATCCTATATCCCTGAAGTTGCAAGGATCAGATTAAAACTAACAGTGGCAAATCTTTATCT
* * *
4615414 CCTTGAAGTTGTAATAGAGCAAGATGAAGCTACAAC
66 CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
*
4615450 ACGAAATC
1 ACCAAATC
4615458 TTGTGTCTCT
Statistics
Matches: 601, Mismatches: 98, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
98 82 0.14
99 2 0.00
100 87 0.14
101 266 0.44
102 162 0.27
103 2 0.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (101 bp):
ACCAAATCCTATATCCCTGAAGTTGCAAGGATCAGATTAAAACTAACAGTGGCAAATCTTTATCT
CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
Found at i:4615349 original size:201 final size:199
Alignment explanation
Indices: 4614644--4615473 Score: 845
Period size: 201 Copynumber: 4.1 Consensus size: 199
4614634 TCAATAAGCT
* * * * * *
4614644 ACCAAATCCTAT-TTTCTTGAAGTTGCAAGGATTGGATTAAAACTAACAGTAAAAAATCTTTATC
1 ACCAAATCCTATATCTC-TGAAGTTACTAGGATT-CATTAAAACTAACAGTGACAAATCTTTATC
* * * *
4614708 TCCCTAAAGTTAT-AGTGGAGCAAGATGAAACTACAACACCAAATCCTATATCCATGAAGTTGCG
64 T-CTTGAAGTT-TCAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCCTGAAGTT--G
** * ** * *
4614772 GTGGATCAGATTAAAACT-AT--T-GAAAATCTTTATCTCATTGAAGTTGCGGTGGAGTAAGATG
125 AAGGATCAGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATG
*
4614833 AAGCTATAAC
190 AAGCTACAAC
* *
4614843 ACCAAATCCTATATC-CTTGAAGTTGC-AGTGGA-TCGGATTAAAACTAACAGTGGCAAATCTTT
1 ACCAAATCCTATATCTC-TGAAGTTACTA--GGATTC--ATTAAAACTAACAGTGACAAATCTTT
* * * * * *
4614905 ATCTTCTTGAAGTTGCAGTGCAGTAAGATGAAGATACAACACGAAATCCTATATCCCCGAAGTTG
61 ATC-TCTTGAAGTTTCAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCCTGAAGTTG
* * * * * * * * *
4614970 CAGTAGATCAGATAAAAAATCATAGTCGCAAATCTTTATCTCCCTAAAGTTACAGAGAAGCAAGA
125 AAG--GATCAGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
*
4615035 TGAAGCTATAAC
188 TGAAGCTACAAC
* * *
4615047 ACCAAATCCTATATCCCTGAAGTTACAAGGA-TCAGATTAAAACTAACAGTGGCAAATCTTTATC
1 ACCAAATCCTATATCTCTGAAGTTACTAGGATTC--ATTAAAACTAACAGTGACAAATCTTTATC
* * * *
4615111 TCTTTGAAGTTACAGCGGAGCAAGATGAAGCTACAACACCAAATTCTATATCCCTAAAGTTGTAA
64 TC-TTGAAGTTTCAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCCTGAAGTTG-AA
* ** * *
4615176 GGATCAAATTAAAACTAACGGTGGTAAATCTTTATCTCCCTGAAGCTGCAGTGGAGCAAGATGAA
127 GGATCAGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
4615241 GCTACAAC
192 GCTACAAC
*
4615249 ACCAAATCCTATATCTCTGAAGTTA-TAGGATTTATTTAAAACTAACAGTGACAAATCTTTATCT
1 ACCAAATCCTATATCTCTGAAGTTACTAGGATTCA-TTAAAACTAACAGTGACAAATCTTTATCT
* *
4615313 CATTGAAGTTTCAGTAGAGCAAGATGAAGCTACAACACCAAATCCTATATCCTTGAAGTTGCAAG
65 C-TTGAAGTTTCAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCCTGAAGTTG-AAG
* * * * * *
4615378 GATTAGATTTAAACTAATAGTGGCAAATCTTTATCTCCTTGAAGTTGTAATAGAGCAAGATGAAG
128 GATCAGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAG
4615443 CTACAAC
193 CTACAAC
* * * *
4615450 ACGAAATCTTGTGTCTCTGAAGTT
1 ACCAAATCCTATATCTCTGAAGTT
4615474 GTAGTGGATC
Statistics
Matches: 531, Mismatches: 81, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
198 3 0.01
199 24 0.05
200 92 0.17
201 173 0.33
202 85 0.16
203 86 0.16
204 66 0.12
205 2 0.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (199 bp):
ACCAAATCCTATATCTCTGAAGTTACTAGGATTCATTAAAACTAACAGTGACAAATCTTTATCTC
TTGAAGTTTCAGTGGAGCAAGATGAAGCTACAACACCAAATCCTATATCCCTGAAGTTGAAGGAT
CAGATTAAAACTAATAGTGGCAAATCTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTA
CAAC
Found at i:4615406 original size:403 final size:401
Alignment explanation
Indices: 4614644--4615457 Score: 982
Period size: 403 Copynumber: 2.0 Consensus size: 401
4614634 TCAATAAGCT
* * * * **
4614644 ACCAAATCCTATTTTCTTGAAGTTGCAAGGATTGGATTAAAACTAACAGTAAAAAATCTTTATCT
1 ACCAAATCCTATATCCCTGAAGTTACAAGGATCAGATTAAAACTAACAGTAAAAAATCTTTATCT
* * * **
4614709 CCCTAAAGTTATAGTGGAGCAAGATGAAACTACAACACCAAATCCTATATCCATGAAGTTGCGGT
66 CCCTAAAGTTACAGCGGAGCAAGATGAAACTACAACACCAAATCCTATATCCATAAAGTTGCGAA
* * * * * *
4614774 GGATCAGATTAAAACTATTGAAAATCTTTATCTCATTGAAGTTGCGGTGGAGTAAGATGAAGCTA
131 GGATCAAATTAAAACTATGGAAAATCTTTATCTCACTGAAGCTGCAGTGGAGCAAGATGAAGCTA
* *
4614839 TAACACCAAATCCTATATCCTTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTGGCAAATCTT
196 CAACACCAAATCCTATATCCTTGAAGTT-CAGTGGATCGGATTAAAACTAACAGTGACAAATCTT
* *
4614904 TATCTTCTTGAAGTTGCAGTGCAGTAAGATGAAGATACAACACGAAATCCTATATCCCCGAAGTT
260 TATCTTCTTGAAGTTGCAGTGCAGCAAGATGAAGATACAACACCAAATCCTATATCCCCGAAGTT
*
4614969 GCAGTAGATCAGATAAAAAATCATAGTCGCAAATCTTTATCTCCCTAAAG-T-TACAGAGAAGCA
325 GCAG-AGATCAGATAAAAAATAATAGTCGCAAATCTTTATCTCCCTAAAGTTGTA-AGAG-AGCA
*
4615032 AGATGAAGCTATAAC
387 AGATGAAGCTACAAC
***
4615047 ACCAAATCCTATATCCCTGAAGTTACAAGGATCAGATTAAAACTAACAGTGGCAAATCTTTATCT
1 ACCAAATCCTATATCCCTGAAGTTACAAGGATCAGATTAAAACTAACAGTAAAAAATCTTTATCT
** * * * * *
4615112 CTTTGAAGTTACAGCGGAGCAAGATGAAGCTACAACACCAAATTCTATATCCCTAAAGTTG-TAA
66 CCCTAAAGTTACAGCGGAGCAAGATGAAACTACAACACCAAATCCTATATCCATAAAGTTGCGAA
* *
4615176 GGATCAAATTAAAACTAACGGTGGTAAATCTTTATCTCCCTGAAGCTGCAGTGGAGCAAGATGAA
131 GGATCAAATTAAAACT-A---TGGAAAATCTTTATCTCACTGAAGCTGCAGTGGAGCAAGATGAA
**
4615241 GCTACAACACCAAATCCTATAT-CTCTGAAGTT-A-TAGGAT-TTATTTAAAACTAACAGTGACA
192 GCTACAACACCAAATCCTATATCCT-TGAAGTTCAGT-GGATCGGA-TTAAAACTAACAGTGACA
* *
4615302 AATCTTTATC-TCATTGAAGTTTCAGTAG-AGCAAGATGAAGCTACAACACCAAATCCTATATCC
254 AATCTTTATCTTC-TTGAAGTTGCAGT-GCAGCAAGATGAAGATACAACACCAAATCCTATATCC
** * ** * * * * *
4615365 TTGAAGTTGCA-AGGATTAGATTTAAACTAATAGTGGCAAATCTTTATCTCCTTGAAGTTGTAAT
317 CCGAAGTTGCAGA-GATCAGATAAAAAATAATAGTCGCAAATCTTTATCTCCCTAAAGTTGTAAG
4615429 AGAGCAAGATGAAGCTACAAC
381 AGAGCAAGATGAAGCTACAAC
*
4615450 ACGAAATC
1 ACCAAATC
4615458 TTGTGTCTCT
Statistics
Matches: 349, Mismatches: 50, Indels: 24
0.83 0.12 0.06
Matches are distributed among these distances:
402 16 0.05
403 174 0.50
404 89 0.26
405 5 0.01
406 65 0.19
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (401 bp):
ACCAAATCCTATATCCCTGAAGTTACAAGGATCAGATTAAAACTAACAGTAAAAAATCTTTATCT
CCCTAAAGTTACAGCGGAGCAAGATGAAACTACAACACCAAATCCTATATCCATAAAGTTGCGAA
GGATCAAATTAAAACTATGGAAAATCTTTATCTCACTGAAGCTGCAGTGGAGCAAGATGAAGCTA
CAACACCAAATCCTATATCCTTGAAGTTCAGTGGATCGGATTAAAACTAACAGTGACAAATCTTT
ATCTTCTTGAAGTTGCAGTGCAGCAAGATGAAGATACAACACCAAATCCTATATCCCCGAAGTTG
CAGAGATCAGATAAAAAATAATAGTCGCAAATCTTTATCTCCCTAAAGTTGTAAGAGAGCAAGAT
GAAGCTACAAC
Found at i:4615457 original size:51 final size:51
Alignment explanation
Indices: 4615301--4615476 Score: 123
Period size: 51 Copynumber: 3.5 Consensus size: 51
4615291 TAACAGTGAC
* * *
4615301 AAATCTTTATCTCATTGAAGTT-TCAGTAGAGCAAGATGAAGCTACAACACC
1 AAATCTTTATCTCCTTGAAGTTGT-AATAGAGCAAGATGAAGCTACAACACG
* * * * ** * * ***
4615352 AAATC-CTATATCCTTGAAGTTGCAA-GGA-TTAGATTTAAACTA-ATAGTGG
1 AAATCTTTATCTCCTTGAAGTTGTAATAGAGCAAGA-TGAAGCTACA-ACACG
4615401 CAAATCTTTATCTCCTTGAAGTTGTAATAGAGCAAGATGAAGCTACAACACG
1 -AAATCTTTATCTCCTTGAAGTTGTAATAGAGCAAGATGAAGCTACAACACG
*
4615453 AAATCTTGTGTCT-C-TGAAGTTGTA
1 AAATCTT-TATCTCCTTGAAGTTGTA
4615477 GTGGATCGGA
Statistics
Matches: 90, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
48 4 0.04
49 9 0.10
50 29 0.32
51 30 0.33
52 14 0.16
53 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (51 bp):
AAATCTTTATCTCCTTGAAGTTGTAATAGAGCAAGATGAAGCTACAACACG
Found at i:4615475 original size:302 final size:303
Alignment explanation
Indices: 4614678--4615483 Score: 934
Period size: 302 Copynumber: 2.7 Consensus size: 303
4614668 GCAAGGATTG
* * * *
4614678 GATTAAAACTAACAGTAAAAAATCTTTATCTCCCTAAAGTTAT-AGTGGAGCAAGATGAAACTAC
1 GATTAAAACTAACAGTGACAAATCTTTATCTCCCTAAAGTT-TCAGTAGAGCAAGATGAAGCTAC
** *
4614742 AACACCAAATCCTATATCCATGAAGTTGCGGTGGATCAGATTAAAACT-AT--T-GAAAATCTTT
65 AACACCAAATCCTATATCCATGAAGTTGC-AAGGATCAGATTAAAACTAATAGTGGCAAATCTTT
* * * *
4614803 ATCTCATTGAAGTTGCGGTGGAGTAAGATGAAGCTATAACACCAAATCCTATATCCTTGAAGTTG
129 ATCTCATTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACACCAAATCTTATATCC-TGAAGTTG
* * ** * * * *
4614868 CAGTGGATCGGATTAAAACTAACAGTGGCAAATCTTTATCTTCTTGAAGTTGCAGTGCAGTAAGA
193 TAGAGGATCAAATTAAAACTAACAGTGGCAAATCTTTATCTCCCTGAAGCTGCAGTGCAGCAAGA
*
4614933 TGAAGATACAACACGAAATCCTATATCCCCGAAGTTGCAGTAGATCA
258 TGAAGATACAACACCAAATCCTATATCCCCGAAGTT-CAGTAGATCA
* * * * *
4614980 GATAAAAAATCATAGTCG-CAAATCTTTATCTCCCTAAAGTTACAG-AGAAGCAAGATGAAGCTA
1 GATTAAAACTAACAGT-GACAAATCTTTATCTCCCTAAAGTTTCAGTAG-AGCAAGATGAAGCTA
* * * *
4615043 TAACACCAAATCCTATATCCCTGAAGTTACAAGGATCAGATTAAAACTAACAGTGGCAAATCTTT
64 CAACACCAAATCCTATATCCATGAAGTTGCAAGGATCAGATTAAAACTAATAGTGGCAAATCTTT
* * * *
4615108 ATCTCTTTGAAGTTACAGCGGAGCAAGATGAAGCTACAACACCAAAT-TCTATATCCCTAAAGTT
129 ATCTCATTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACACCAAATCT-TATAT-CCTGAAGTT
* * *
4615172 GTA-AGGATCAAATTAAAACTAACGGTGGTAAATCTTTATCTCCCTGAAGCTGCAGTGGAGCAAG
192 GTAGAGGATCAAATTAAAACTAACAGTGGCAAATCTTTATCTCCCTGAAGCTGCAGTGCAGCAAG
* * * *
4615236 ATGAAGCTACAACACCAAATCCTATATCTCTGAAGTT-A-TAGGATTTA
257 ATGAAGATACAACACCAAATCCTATATCCCCGAAGTTCAGTA-GA-TCA
* ** *
4615283 -TTTAAAACTAACAGTGACAAATCTTTATCTCATTGAAGTTTCAGTAGAGCAAGATGAAGCTACA
1 GATTAAAACTAACAGTGACAAATCTTTATCTCCCTAAAGTTTCAGTAGAGCAAGATGAAGCTACA
* * *
4615347 ACACCAAATCCTATATCCTTGAAGTTGCAAGGATTAGATTTAAACTAATAGTGGCAAATCTTTAT
66 ACACCAAATCCTATATCCATGAAGTTGCAAGGATCAGATTAAAACTAATAGTGGCAAATCTTTAT
* * * * * * *
4615412 CTCCTTGAAGTTGTAATAGAGCAAGATGAAGCTACAACACGAAATCTTGTGTCTCTGAAGTTGTA
131 CTCATTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACACCAAATCTTATATC-CTGAAGTTGTA
*
4615477 GTGGATC
195 GAGGATC
4615484 GGATTGAAGC
Statistics
Matches: 422, Mismatches: 66, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
301 21 0.05
302 241 0.57
303 10 0.02
304 85 0.20
305 63 0.15
306 2 0.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (303 bp):
GATTAAAACTAACAGTGACAAATCTTTATCTCCCTAAAGTTTCAGTAGAGCAAGATGAAGCTACA
ACACCAAATCCTATATCCATGAAGTTGCAAGGATCAGATTAAAACTAATAGTGGCAAATCTTTAT
CTCATTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACACCAAATCTTATATCCTGAAGTTGTAG
AGGATCAAATTAAAACTAACAGTGGCAAATCTTTATCTCCCTGAAGCTGCAGTGCAGCAAGATGA
AGATACAACACCAAATCCTATATCCCCGAAGTTCAGTAGATCA
Found at i:4616764 original size:40 final size:42
Alignment explanation
Indices: 4616653--4616776 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 42
4616643 GAGATGACAA
*
4616653 CTTCAATTTGCCCTTCTTGATTTAAGGGTAAAAGATTGGATGGTGG
1 CTTCAATTTG-CC-TCATGA-TT-AGGGTAAAAGATTGGATGGTGG
* * ** **
4616699 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGG-T-GTTT
1 CTTCAATTTGCCTCATGATTAGGGTAAAAGATTGGATGGTGG
*
4616739 CTTCAATTTGACCTC-TGATTAGGGTAAAAGATTAGATG
1 CTTCAATTTG-CCTCATGATTAGGGTAAAAGATTGGATG
4616777 CTTTAATCTG
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
40 28 0.44
41 5 0.08
42 14 0.22
43 1 0.02
44 4 0.06
45 2 0.03
46 9 0.14
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
CTTCAATTTGCCTCATGATTAGGGTAAAAGATTGGATGGTGG
Found at i:4616889 original size:39 final size:39
Alignment explanation
Indices: 4616699--4617367 Score: 311
Period size: 39 Copynumber: 16.9 Consensus size: 39
4616689 TGGATGGTGG
* * *
4616699 CTTCAATCTGCCCCATGATCGGGGTAAAAGATTG-GTGTTT
1 CTTCAATCTGCCCCATGATCGGAGTAAGAGATTGAATG--T
* * * *
4616739 CTTCAATTTGACCTC-TGATTAGG-GTAAAAGATT-AGATG-
1 CTTCAATCTG-CCCCATGA-TCGGAGTAAGAGATTGA-ATGT
* * * **
4616777 CTTTAATCTGCCCTATGATCGGGGTAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCGGAGTAAGAGATT-GAATGT
* * * *
4616817 CCTAAATTTGCCCCTTGATC-GAGGTAAGAGATTGAACTG-
1 CTTCAATCTGCCCCATGATCGGA-GTAAGAGATTGAA-TGT
*
4616856 CTACAATCTGCCCCATGATCGGAGTAA-AGGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGAGTAAGA-GATT-GA--ATGT
** * * * *
4616898 CTTCAATCTGCTGCATGATCGGGGCAAAAGA-TCAGATG-
1 CTTCAATCTGCCCCATGATCGGAGTAAGAGATTGA-ATGT
* * **
4616936 CTTCAATTTGCCCCATGATCGGGGGTAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATC-GGAGTAAGAGATT-GAATGT
* * * * *
4616977 CTTCAATCTG-CCCTTTAGTC-GAGGTAAAAGATTGGATGG
1 CTTCAATCTGCCCCATGA-TCGGA-GTAAGAGATTGAATGT
* * * * **
4617016 CTACAATCTGCCCCATGATTGGGGTAAGAGGTTGGTGTGT
1 CTTCAATCTGCCCCATGATCGGAGTAAGAGATT-GAATGT
* * *
4617056 CTTCAATCTGTCCCTTGATC-GAGGTAAGAGATTGGACTG-
1 CTTCAATCTGCCCCATGATCGGA-GTAAGAGATT-GAATGT
* *
4617095 CTACAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGAGTAAGAGATT-GA--ATGT
* *
4617137 CTTCAATCTGCCCCATGATC-GAGATAAAAGA-TCAGATG-
1 CTTCAATCTGCCCCATGATCGGAG-TAAGAGATTGA-ATGT
* * * * *
4617175 CTTCAATTTGCTCCATGATC-AAGGTAATAGATTGATGTGT
1 CTTCAATCTGCCCCATGATCGGA-GTAAGAGATTGA-ATGT
* * * * *
4617215 CTTCAATCTGCCCTC-TGGTTGG-GTAAGAGATTGGACGG
1 CTTCAATCTGCCC-CATGATCGGAGTAAGAGATTGAATGT
* *
4617253 CTACAATCTACCCCATGATCAGG-GTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATC-GGAGTAAGAGATT-GA--ATGT
* * * *
4617295 CTTTAATCTGTCCCATGATCAGG-GTAAGAGATTGGATGG
1 CTTCAATCTGCCCCATGATC-GGAGTAAGAGATTGAATGT
* * *
4617334 CTACAATCTGCCCCATGATGGGGGTAAGAGATTG
1 CTTCAATCTGCCCCATGATCGGAGTAAGAGATTG
4617368 GATGATGGCT
Statistics
Matches: 477, Mismatches: 108, Indels: 89
0.71 0.16 0.13
Matches are distributed among these distances:
37 6 0.01
38 80 0.17
39 154 0.32
40 126 0.26
41 29 0.06
42 81 0.17
43 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (39 bp):
CTTCAATCTGCCCCATGATCGGAGTAAGAGATTGAATGT
Found at i:4616987 original size:79 final size:78
Alignment explanation
Indices: 4616679--4617368 Score: 626
Period size: 79 Copynumber: 8.7 Consensus size: 78
4616669 TTGATTTAAG
* * *
4616679 GGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGTGTTTCTTCA
1 GGTAAAAGATTGGA---T-GCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCA
* *
4616744 ATTTGAC-CTC-TGAT-TA
62 ATCTG-CTC-CATGATCGA
* ** * * * *
4616760 GGGTAAAAGATTAGATGCTTTAATCTGCCCTATGATCGGGGTAAGAGATTGGTGTGTCCTAAATT
1 -GGTAAAAGATTGGATGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATC
* *
4616825 TGCCCCTTGATCGA
65 TGCTCCATGATCGA
* * *
4616839 GGTAAGAGATTGAACTGCTACAATCTGCCCCATGATCGGAGTAA-AGGATTGGATGATGTCTTCA
1 GGTAAAAGATTGGA-TGCTACAATCTGCCCCATGATCGGGGTAAGA-GATTGG-TG-TGTCTTCA
* *
4616903 ATCTGCTGCATGATCGG
62 ATCTGCTCCATGATCGA
* ** * *
4616920 GGCAAAAGATCAGATGCTTCAATTTGCCCCATGATCGGGGGTAAGAGATTGGTGTGTCTTCAATC
1 GGTAAAAGATTGGATGCTACAATCTGCCCCATGATC-GGGGTAAGAGATTGGTGTGTCTTCAATC
* *
4616985 TGC-CCTTTAGTCGA
65 TGCTCCATGA-TCGA
* *
4616999 GGTAAAAGATTGGATGGCTACAATCTGCCCCATGATTGGGGTAAGAGGTTGGTGTGTCTTCAATC
1 GGTAAAAGATTGGAT-GCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATC
*
4617064 TG-TCCCTTGATCGA
65 TGCT-CCATGATCGA
*
4617078 GGTAAGAGATTGGACTGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAA
1 GGTAAAAGATTGGA-TGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAA
*
4617143 TCTGCCCCATGATCGA
63 TCTGCTCCATGATCGA
* ** * * * ** * *
4617159 GATAAAAGATCAGATGCTTCAATTTGCTCCATGATCAAGGTAATAGATTGATGTGTCTTCAATCT
1 GGTAAAAGATTGGATGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCT
* * *
4617224 GC-CCTCTGGTTG-
66 GCTCC-ATGATCGA
* * * * *
4617236 GGTAAGAGATTGGACGGCTACAATCTACCCCATGATCAGGGTAAGAGATTGGATGATGTCTTTAA
1 GGTAAAAGATTGGA-TGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAA
4617301 TCTG-TCCCATGATC-A
63 TCTGCT-CCATGATCGA
* *
4617316 GGGTAAGAGATTGGATGGCTACAATCTGCCCCATGATGGGGGTAAGAGATTGG
1 -GGTAAAAGATTGGAT-GCTACAATCTGCCCCATGATCGGGGTAAGAGATTGG
4617369 ATGATGGCTT
Statistics
Matches: 501, Mismatches: 81, Indels: 53
0.79 0.13 0.08
Matches are distributed among these distances:
77 14 0.03
78 112 0.22
79 146 0.29
80 95 0.19
81 120 0.24
82 14 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (78 bp):
GGTAAAAGATTGGATGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCT
GCTCCATGATCGA
Found at i:4617137 original size:239 final size:237
Alignment explanation
Indices: 4616698--4617379 Score: 895
Period size: 239 Copynumber: 2.9 Consensus size: 237
4616688 TTGGATGGTG
* * * * * *
4616698 GCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGTGTTTCTTCAATTTGACCTCTGATTAGGG
1 GCTTCAATTTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAATCTGCCCT-TTAGTAGGG
* ** * * *
4616763 TAAAAGATTAGAT-GCTTTAATCTGCCCTATGATCGGGGTAAGAGATTGGTGTGTCCTAAATTTG
65 TAAAAGATTGGATGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTAAATCTG
* * *
4616827 CCCCTTGATCGAGGTAAGAGATTGAACTGCTACAATCTGCCCCATGATCGGAGTAA-AGGATTGG
130 TCCCTTGATCGAGGTAAGAGATTGGACTGCTACAATCTGCCCCATGATCGGGGTAAGA-GATTGG
** * *
4616891 ATGATGTCTTCAATCTGCTGCATGATCGGGGCAAAAGATCAGAT
194 ATGATGTCTTCAATCTGCCCCATGATCGAGACAAAAGATCAGAT
* *
4616935 GCTTCAATTTGCCCCATGATCGGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTTTAGTCGAG
1 GCTTCAATTTGCCCCATGATC-GGGGTAAAAGATTGGTGTGTCTTCAATCTGCCCTTTAGTAG-G
* * *
4617000 GTAAAAGATTGGATGGCTACAATCTGCCCCATGATTGGGGTAAGAGGTTGGTGTGTCTTCAATCT
64 GTAAAAGATTGGATGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTAAATCT
4617065 GTCCCTTGATCGAGGTAAGAGATTGGACTGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGG
129 GTCCCTTGATCGAGGTAAGAGATTGGACTGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGG
*
4617130 ATGATGTCTTCAATCTGCCCCATGATCGAGATAAAAGATCAGAT
194 ATGATGTCTTCAATCTGCCCCATGATCGAGACAAAAGATCAGAT
* ** * * * * *
4617174 GCTTCAATTTGCTCCATGATCAAGGTAATAGATTGATGTGTCTTCAATCTGCCCTCTGGTTGGGT
1 GCTTCAATTTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAATCTGCCCTTTAGTAGGGT
* * * * *
4617239 AAGAGATTGGACGGCTACAATCTACCCCATGATCAGGGTAAGAGATTGGATGATGTCTTTAATCT
66 AAAAGATTGGATGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTAAATCT
* *
4617304 GTCCCATGATC-AGGGTAAGAGATTGGA-TGGCTACAATCTGCCCCATGATGGGGGTAAGAGATT
129 GTCCCTTGATCGA-GGTAAGAGATTGGACT-GCTACAATCTGCCCCATGATCGGGGTAAGAGATT
*
4617367 GGATGATGGCTTC
192 GGATGATGTCTTC
4617380 GCTTTGCTCT
Statistics
Matches: 394, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
237 70 0.18
238 82 0.21
239 241 0.61
240 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (237 bp):
GCTTCAATTTGCCCCATGATCGGGGTAAAAGATTGGTGTGTCTTCAATCTGCCCTTTAGTAGGGT
AAAAGATTGGATGGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTAAATCTGT
CCCTTGATCGAGGTAAGAGATTGGACTGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGAT
GATGTCTTCAATCTGCCCCATGATCGAGACAAAAGATCAGAT
Found at i:4617267 original size:158 final size:153
Alignment explanation
Indices: 4616702--4617367 Score: 631
Period size: 159 Copynumber: 4.2 Consensus size: 153
4616692 ATGGTGGCTT
* * * *
4616702 CAATCTGCCCCATGATCGGGGTAAAAGATTGGTGTTTCTTCAATTTGACCTCTGATTAGGGTAAA
1 CAATCTGCCCCATGATCGGGGT-AAAGATTGATGTGTCTTCAATCTGCCCTCTGATT-GGGTAAA
** * * * * *
4616767 AGATTAGATGCTTTAATCTGCCCTATGATCGGGGTAAGAGATTGGTGTGTCCTAAATTTGCCCCT
64 AGATTAGATGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCCA
* *
4616832 TGATCGAGGTAAGAGATTGAACTGCTA
129 TGATCGAGGTAAAAGATAG-A-TGCTA
* *
4616859 CAATCTGCCCCATGATCGGAGTAAAGGATTGGATGATGTCTTCAATCTG--CTGCATGATCGGGG
1 CAATCTGCCCCATGATCGGGGTAAA-GATT-GATG-TGTCTTCAATCTGCCCT-C-TGAT-TGGG
* * * *
4616922 CAAAAGATCAGATGCTTCAATTTGCCCCATGATCGGGGGTAAGAGATTGGTGTGTCTTCAATCTG
60 TAAAAGATTAGATGCTACAATCTGCCCCATGATC-GGGGTAAGAGATTGGTGTGTCTTCAATCTG
* * *
4616987 -CCCTTTAGTCGAGGTAAAAGATTGGATGGCTA
124 CCCCATGA-TCGAGGTAAAAGA-TAGAT-GCTA
* * * *
4617019 CAATCTGCCCCATGATTGGGGTAAGAGGTTGGTGTGTCTTCAATCTGTCCCT-TGATCGAGGTAA
1 CAATCTGCCCCATGATCGGGGTAA-AGATTGATGTGTCTTCAATCTG-CCCTCTGATTG-GGTAA
* *
4617083 GAGATTGGACTGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGC
63 AAGATTAGA-TGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGC
* *
4617148 CCCATGATCGAGATAAAAGATCAGATGCTT
125 CCCATGATCGAGGTAAAAGAT-AGATGCTA
* * ** * *
4617178 CAATTTGCTCCATGATCAAGGTAATAGATTGATGTGTCTTCAATCTGCCCTCTGGTTGGGTAAGA
1 CAATCTGCCCCATGATCGGGGTAA-AGATTGATGTGTCTTCAATCTGCCCTCTGATTGGGTAAAA
* * * * * *
4617243 GATTGGACGGCTACAATCTACCCCATGATCAGGGTAAGAGATTGGATGATGTCTTTAATCTGTCC
65 GATTAGA-TGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCCC
* *
4617308 CATGATC-AGGGTAAGAGATTGGATGGCTA
127 CATGATCGA-GGTAAAAGA-TAGAT-GCTA
*
4617337 CAATCTGCCCCATGATGGGGGTAAGAGATTG
1 CAATCTGCCCCATGATCGGGGTAA-AGATTG
4617368 GATGATGGCT
Statistics
Matches: 428, Mismatches: 57, Indels: 46
0.81 0.11 0.09
Matches are distributed among these distances:
156 3 0.01
157 29 0.07
158 134 0.31
159 155 0.36
160 97 0.23
161 10 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (153 bp):
CAATCTGCCCCATGATCGGGGTAAAGATTGATGTGTCTTCAATCTGCCCTCTGATTGGGTAAAAG
ATTAGATGCTACAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCCATG
ATCGAGGTAAAAGATAGATGCTA
Found at i:4617653 original size:99 final size:98
Alignment explanation
Indices: 4617516--4617710 Score: 250
Period size: 99 Copynumber: 2.0 Consensus size: 98
4617506 ATTAGATCCA
** * *
4617516 CCATTGCAGCCTTGATCTTTCCCATCACGTCTCTAAGGTACCA-GGTTAGCCGTTACGACCTCAA
1 CCATTGCAGCCTCAATCCTTCCCATCACATCTCTAAGGT-CCAGGGTTAGCCGTTACGACCTCAA
* *
4617580 CCTTTCCCTT-CATATCTTCATGGTACCAGATTTG
65 CCTTT-CCTTCCATATCTCCATGGTACAAGATTTG
* * * * *
4617614 CCATTGCGGCCTCAATCCTTCCTATCACATCTTCTAAGGTGCAGGGTTCGCCGTTGCGACCTCAA
1 CCATTGCAGCCTCAATCCTTCCCATCACATC-TCTAAGGTCCAGGGTTAGCCGTTACGACCTCAA
4617679 CCTTTCCTTCCATATCTCCATGGTACAAGATT
65 CCTTTCCTTCCATATCTCCATGGTACAAGATT
4617711 CATCGTTCCG
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
98 31 0.37
99 52 0.63
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (98 bp):
CCATTGCAGCCTCAATCCTTCCCATCACATCTCTAAGGTCCAGGGTTAGCCGTTACGACCTCAAC
CTTTCCTTCCATATCTCCATGGTACAAGATTTG
Found at i:4617686 original size:50 final size:50
Alignment explanation
Indices: 4617532--4617686 Score: 149
Period size: 49 Copynumber: 3.1 Consensus size: 50
4617522 CAGCCTTGAT
* * *
4617532 CTTTCCCATCACGTC-TCTAAGGTACCAGGTTAGCCGTTACGACCTCAAC
1 CTTTCCTATCACATCTTCTAAGGTACCAGGTTAGCCGTTGCGACCTCAAC
* * * * * *
4617581 CTTTCCCT-TCATATCTTC-ATGGTACCAGATTTGCCATTGCGGCCTCAATC
1 CTTT-CCTATCACATCTTCTAAGGTACCAGGTTAGCCGTTGCGACCTCAA-C
* *
4617631 C-TTCCTATCACATCTTCTAAGGT-GCAGGGTTCGCCGTTGCGACCTCAAC
1 CTTTCCTATCACATCTTCTAAGGTACCA-GGTTAGCCGTTGCGACCTCAAC
4617680 CTTTCCT
1 CTTTCCT
4617687 TCCATATCTC
Statistics
Matches: 83, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
48 3 0.04
49 48 0.58
50 32 0.39
ACGTcount: A:0.19, C:0.34, G:0.16, T:0.32
Consensus pattern (50 bp):
CTTTCCTATCACATCTTCTAAGGTACCAGGTTAGCCGTTGCGACCTCAAC
Found at i:4617728 original size:99 final size:98
Alignment explanation
Indices: 4617534--4617737 Score: 241
Period size: 99 Copynumber: 2.1 Consensus size: 98
4617524 GCCTTGATCT
* *
4617534 TTCCCATCACGTCTCTAAGGTACCAGGTTAGCCGTTACGACCTCAACCTTTCCCTTCATATCTTC
1 TTCCCATCACATCTCTAAGGTACCAGGTTAGCCGTTACGACCTCAACCTTTCCCTTCATATCTCC
* ** *
4617599 ATGGTACCAGATTTGCCATTGCGGCCTCAATCC
66 ATGGTACAAGATTCACCATTCCGGCCTCAATCC
* * * *
4617632 TTCCTATCACATCTTCTAAGGT-GCAGGGTTCGCCGTTGCGACCTCAACCTTT-CCTTCCATATC
1 TTCCCATCACATC-TCTAAGGTACCA-GGTTAGCCGTTACGACCTCAACCTTTCCCTT-CATATC
* * * *
4617695 TCCATGGTACAAGATTCATCGTTCCGGCTTCAATCT
63 TCCATGGTACAAGATTCACCATTCCGGCCTCAATCC
4617731 TTCCCAT
1 TTCCCAT
4617738 TTATATCTTT
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
98 17 0.19
99 71 0.81
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.32
Consensus pattern (98 bp):
TTCCCATCACATCTCTAAGGTACCAGGTTAGCCGTTACGACCTCAACCTTTCCCTTCATATCTCC
ATGGTACAAGATTCACCATTCCGGCCTCAATCC
Found at i:4617803 original size:99 final size:98
Alignment explanation
Indices: 4617700--4618002 Score: 292
Period size: 99 Copynumber: 3.1 Consensus size: 98
4617690 ATATCTCCAT
* * * *
4617700 GGTACAAGATTCATCGTTCCGGCTTCAATCTTTCCCATTTATATCTTTATGGTACTAGATCCGCC
1 GGTACAAG-TTCATCGTTGCGGCCTCAACCTTTCCC-TTTATATCTTCATGGTACTAGATCCGCC
* * *
4617765 GTTACGGCCTCGATCTTTTCCATCACGTC-TCT-A
64 GTTGCGGCCTCGATCTTTCCCATCACATCTTCTGA
* * * * *
4617798 GGGTACCAAGTTCACCGTTGCAGCCTCAACCTTTTCCTTCATATCTTCATGGTA-TCAGATTCGC
1 -GGTA-CAAGTTCATCGTTGCGGCCTCAACCTTTCCCTTTATATCTTCATGGTACT-AGATCCGC
* * *
4617862 CGTTGCAGCCTCAATCCTTCCCATCACATCTTCTGA
63 CGTTGCGGCCTCGATCTTTCCCATCACATCTTCTGA
* ** * * * *
4617898 GGTACAGGGTTTGTCATTGCGGCCTCAACCTTTCCCTTTAT-T-TCCATGGTGCTAGATCCGTCG
1 GGTACA-AGTTCATCGTTGCGGCCTCAACCTTTCCCTTTATATCTTCATGGTACTAGATCCGCCG
* * *
4617961 TTGCGGCCTCGATCTTTCCTATCATATCTTCTAA
65 TTGCGGCCTCGATCTTTCCCATCACATCTTCTGA
4617995 GGTACAAG
1 GGTACAAG
4618003 GCTTGCTGTT
Statistics
Matches: 164, Mismatches: 34, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
96 1 0.01
97 50 0.30
98 50 0.30
99 58 0.35
100 5 0.03
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (98 bp):
GGTACAAGTTCATCGTTGCGGCCTCAACCTTTCCCTTTATATCTTCATGGTACTAGATCCGCCGT
TGCGGCCTCGATCTTTCCCATCACATCTTCTGA
Found at i:4617850 original size:98 final size:98
Alignment explanation
Indices: 4617724--4618000 Score: 260
Period size: 97 Copynumber: 2.8 Consensus size: 98
4617714 CGTTCCGGCT
* * * *
4617724 TCAATCTTTCCCATTTATATCTTTATGGTACTAGATCCGCCGTTACGGCCTCGATCTTTTCCATC
1 TCAACCTTTCCC--TTATATCTTCATGGTACTAGATCCGCCGTTGCGGCCTCGATCTTTCCCATC
* *
4617789 ACGTC-TCT-AGGGTACCA-AGTTCACCGTTGCAGCC
64 ACATCTTCTGA-GGTA-CAGAGTTCACCATTGCAGCC
* * * * *
4617823 TCAACCTTTTCCTTCATATCTTCATGGTA-TCAGATTCGCCGTTGCAGCCTCAATCCTTCCCATC
1 TCAACCTTTCCCTT-ATATCTTCATGGTACT-AGATCCGCCGTTGCGGCCTCGATCTTTCCCATC
* *** *
4617887 ACATCTTCTGAGGTACAGGGTTTGTCATTGCGGCC
64 ACATCTTCTGAGGTACAGAGTTCACCATTGCAGCC
* * *
4617922 TCAACCTTTCCCTT-TAT-TTCCATGGTGCTAGATCCGTCGTTGCGGCCTCGATCTTTCCTATCA
1 TCAACCTTTCCCTTATATCTT-CATGGTACTAGATCCGCCGTTGCGGCCTCGATCTTTCCCATCA
* *
4617985 TATCTTCTAAGGTACA
65 CATCTTCTGAGGTACA
4618001 AGGCTTGCTG
Statistics
Matches: 145, Mismatches: 26, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
96 2 0.01
97 54 0.37
98 47 0.32
99 41 0.28
100 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.35
Consensus pattern (98 bp):
TCAACCTTTCCCTTATATCTTCATGGTACTAGATCCGCCGTTGCGGCCTCGATCTTTCCCATCAC
ATCTTCTGAGGTACAGAGTTCACCATTGCAGCC
Found at i:4617865 original size:49 final size:48
Alignment explanation
Indices: 4617564--4618000 Score: 212
Period size: 49 Copynumber: 8.9 Consensus size: 48
4617554 TACCAGGTTA
* * * *
4617564 GCCGTTACGACCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTT
1 GCCGTTGCGGCCTCAACCTTTTCCTTCATATCTTCATGGTA-CAGATTC
* * * * *
4617613 GCCATTGCGGCCTCAATCC--TTCCTATCACATCTTCTAAGGTGCAGGGTTC
1 GCCGTTGCGGCCTCAA-CCTTTTCCT-TCATATCTTC-ATGGTACA-GATTC
* *
4617663 GCCGTTGCGACCTCAACC-TTTCCTTCCATATCTCCATGGTACAAGATTC
1 GCCGTTGCGGCCTCAACCTTTTCCTT-CATATCTTCATGGTAC-AGATTC
** * * * * * * *
4617712 ATCGTTCCGGCTTCAATCTTTCCCATTTATATCTTTATGGTACTAGATCC
1 GCCGTTGCGGCCTCAACCTTTTCC-TTCATATCTTCATGGTAC-AGATTC
* * * * ** *
4617762 GCCGTTACGGCCTCGATCTTTTCCATCACGTC-TCTAGGGTACCA-AGTTC
1 GCCGTTGCGGCCTCAACCTTTTCCTTCATATCTTC-ATGGTA-CAGA-TTC
* *
4617811 ACCGTTGCAGCCTCAACCTTTTCCTTCATATCTTCATGGTATCAGATTC
1 GCCGTTGCGGCCTCAACCTTTTCCTTCATATCTTCATGGTA-CAGATTC
* * * * * *
4617860 GCCGTTGCAGCCTCAATCC-TTCCCATCACATCTTC-TGAGGTACAGGGTTT
1 GCCGTTGCGGCCTCAA-CCTTTTCCTTCATATCTTCAT--GGTACA-GATTC
* * * * *
4617910 GTCATTGCGGCCTCAACCTTTCCCTT--TAT-TTCCATGGTGCTAGATCC
1 GCCGTTGCGGCCTCAACCTTTTCCTTCATATCTT-CATGGTAC-AGATTC
* * * *
4617957 GTCGTTGCGGCCTCGATC-TTTCCTATCATATCTTCTAAGGTACA
1 GCCGTTGCGGCCTCAACCTTTTCCT-TCATATCTTC-ATGGTACA
4618001 AGGCTTGCTG
Statistics
Matches: 289, Mismatches: 72, Indels: 54
0.70 0.17 0.13
Matches are distributed among these distances:
46 5 0.02
47 24 0.08
48 11 0.04
49 132 0.46
50 115 0.40
51 2 0.01
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (48 bp):
GCCGTTGCGGCCTCAACCTTTTCCTTCATATCTTCATGGTACAGATTC
Found at i:4617908 original size:247 final size:247
Alignment explanation
Indices: 4617453--4617932 Score: 685
Period size: 247 Copynumber: 1.9 Consensus size: 247
4617443 GTAACTTCGA
* * * * *
4617453 GGTAGAAGATTTATCGTTGCGGCTTCAATCTTTCCCATTTATGTCTCTATGGTATTAGATCCACC
1 GGTACAAGATTCATCGTTCCGGCTTCAATCTTTCCCATTTATATCTCTATGGTACTAGATCCACC
* * *
4617518 ATTGCAGCCTTGATCTTTCCCATCACGTCTCTAAGGTACCAGGTTAGCCGTTACGACCTCAACCT
66 ATTACAGCCTCGATCTTTCCCATCACGTCTCTAAGGTACCAAGTTAGCCGTTACGACCTCAACCT
* * *
4617583 TTCCCTTCATATCTTCATGGTACCAGATTTGCCATTGCGGCCTCAATCCTTCCTATCACATCTTC
131 TTCCCTTCATATCTTCATGGTACCAGATTCGCCATTGCAGCCTCAATCCTTCCCATCACATCTTC
* *
4617648 TAAGGTGCAGGGTTCGCCGTTGCGACCTCAACCTTTCCTTCCATATCTCCAT
196 TAAGGTACAGGGTTCGCCATTGCGACCTCAACCTTTCCTTCCATATCTCCAT
* *
4617700 GGTACAAGATTCATCGTTCCGGCTTCAATCTTTCCCATTTATATCTTTATGGTACTAGATCCGCC
1 GGTACAAGATTCATCGTTCCGGCTTCAATCTTTCCCATTTATATCTCTATGGTACTAGATCCACC
* * * * *
4617765 GTTACGGCCTCGATCTTTTCCATCACGTCTCTAGGGTACCAAGTTCA-CCGTTGC-AGCCTCAAC
66 ATTACAGCCTCGATCTTTCCCATCACGTCTCTAAGGTACCAAGTT-AGCCGTTACGA-CCTCAAC
* * *
4617828 CTTTTCCTTCATATCTTCATGGTATCAGATTCGCCGTTGCAGCCTCAATCCTTCCCATCACATCT
129 CTTTCCCTTCATATCTTCATGGTACCAGATTCGCCATTGCAGCCTCAATCCTTCCCATCACATCT
* * * *
4617893 TCTGAGGTACAGGGTTTGTCATTGCGGCCTCAACCTTTCC
194 TCTAAGGTACAGGGTTCGCCATTGCGACCTCAACCTTTCC
4617933 CTTTATTTCC
Statistics
Matches: 204, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
246 1 0.00
247 202 0.99
248 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.34
Consensus pattern (247 bp):
GGTACAAGATTCATCGTTCCGGCTTCAATCTTTCCCATTTATATCTCTATGGTACTAGATCCACC
ATTACAGCCTCGATCTTTCCCATCACGTCTCTAAGGTACCAAGTTAGCCGTTACGACCTCAACCT
TTCCCTTCATATCTTCATGGTACCAGATTCGCCATTGCAGCCTCAATCCTTCCCATCACATCTTC
TAAGGTACAGGGTTCGCCATTGCGACCTCAACCTTTCCTTCCATATCTCCAT
Found at i:4619021 original size:7 final size:7
Alignment explanation
Indices: 4619009--4619068 Score: 75
Period size: 7 Copynumber: 8.3 Consensus size: 7
4618999 CGACCTCTCC
4619009 TTTTTCT
1 TTTTTCT
4619016 TTTTTCT
1 TTTTTCT
4619023 TTTTTCT
1 TTTTTCT
*
4619030 TTCTTCT
1 TTTTTCT
*
4619037 CTTTTCT
1 TTTTTCT
*
4619044 CTTTTCT
1 TTTTTCT
4619051 TTTTCTCTT
1 TTTT-TC-T
4619060 TTTTTCT
1 TTTTTCT
4619067 TT
1 TT
4619069 CCCTTTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 38 0.81
8 4 0.09
9 5 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:4619042 original size:28 final size:27
Alignment explanation
Indices: 4619010--4619083 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
4619000 GACCTCTCCT
4619010 TTTTCTTTTTTCTTTTTTCTTTCTTCTC
1 TTTTCTTTTTTCTTTTTTCTTT-TTCTC
* *
4619038 TTTTCTCTTTTCTTTTTCTCTTTTTTTC
1 TTTTCTTTTTTCTTTTT-TCTTTTTCTC
* * *
4619066 TTTCCCTTTTTATTTTTT
1 TTTTCTTTTTTCTTTTTT
4619084 AGGTGAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 1 0.03
28 33 0.85
29 5 0.13
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTCTTTTTTCTTTTTTCTTTTTCTC
Found at i:4619069 original size:14 final size:15
Alignment explanation
Indices: 4619015--4619068 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 15
4619005 CTCCTTTTTC
*
4619015 TTTTTTCTTTTTTCT
1 TTTTTTCTTTTCTCT
*
4619030 TTCTTCTCTTTTCTC-
1 TT-TTTTCTTTTCTCT
*
4619045 TTTTCT-TTTTCTCT
1 TTTTTTCTTTTCTCT
4619059 TTTTTTCTTT
1 TTTTTTCTTT
4619069 CCCTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.21
14 9 0.27
15 7 0.21
16 10 0.30
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCTTTTCTCT
Found at i:4619074 original size:14 final size:13
Alignment explanation
Indices: 4619009--4619082 Score: 62
Period size: 13 Copynumber: 5.4 Consensus size: 13
4618999 CGACCTCTCC
4619009 TTTTTCT-TTTTT
1 TTTTTCTCTTTTT
4619021 CTTTTT-TCTTTCTT
1 -TTTTTCTCTTT-TT
*
4619035 CTCTTTTCTCTTTTC
1 -T-TTTTCTCTTTTT
4619050 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
*
4619063 TTCTTTCCCTTTTT
1 TT-TTTCTCTTTTT
4619077 ATTTTT
1 -TTTTT
4619083 TAGGTGAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
12 1 0.02
13 21 0.40
14 18 0.35
15 7 0.13
16 5 0.10
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTCTTTTT
Found at i:4620058 original size:20 final size:20
Alignment explanation
Indices: 4620021--4620064 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4620011 TTCATTTTGA
*
4620021 CTTTTTCTTTCTTTTCTTTT
1 CTTTTTCTTTCTTCTCTTTT
4620041 CTTTTTC-TTCTCTCTCTTTT
1 CTTTTTCTTTCT-TCTCTTTT
4620061 -TTTT
1 CTTTT
4620065 GATCTCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
CTTTTTCTTTCTTCTCTTTT
Found at i:4624211 original size:30 final size:30
Alignment explanation
Indices: 4624177--4624284 Score: 125
Period size: 30 Copynumber: 3.6 Consensus size: 30
4624167 AAGAAAAAAT
*
4624177 GGGGTCAAAAT-ATAATTTTTAGAAAGTTCA
1 GGGGTCAAAATCA-AATTTTTGGAAAGTTCA
*
4624207 GGGGTC-AAATCAATTTTTTGGAAAGTTCA
1 GGGGTCAAAATCAAATTTTTGGAAAGTTCA
* *
4624236 AGGGTCAAAATCAAATTTTTGGAAAGCTC-
1 GGGGTCAAAATCAAATTTTTGGAAAGTTCA
4624265 GGGGTTCAAAA-CTAAATTTT
1 GGGG-TCAAAATC-AAATTTT
4624285 CAAGAAGTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
29 28 0.41
30 40 0.59
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (30 bp):
GGGGTCAAAATCAAATTTTTGGAAAGTTCA
Found at i:4624216 original size:29 final size:29
Alignment explanation
Indices: 4624177--4624348 Score: 102
Period size: 30 Copynumber: 5.8 Consensus size: 29
4624167 AAGAAAAAAT
*
4624177 GGGGTCAAAATATAATTTTTAGAAAGTTCA
1 GGGGTC-AAATATAATTTTTGGAAAGTTCA
*
4624207 GGGGTCAAATCA-ATTTTTTGGAAAGTTCA
1 GGGGTCAAAT-ATAATTTTTGGAAAGTTCA
* *
4624236 AGGGTCAAA-ATCAAATTTTTGGAAAGCTC-
1 GGGGTCAAATAT--AATTTTTGGAAAGTTCA
* ** *
4624265 GGGGTTCAAA-ACTAAATTTTCAAGAAGTT-T
1 GGGG-TCAAATA-TAATTTTTGGA-AAGTTCA
* * *
4624295 GGTGGTCAATTTTGAATTTTTGGGAAGTTCA
1 GG-GGTCAAATAT-AATTTTTGGAAAGTTCA
* *
4624326 AGGGTCAAATTTAAATTTTTGGA
1 GGGGTCAAATAT-AATTTTTGGA
4624349 TAAAATAGGG
Statistics
Matches: 109, Mismatches: 21, Indels: 24
0.71 0.14 0.16
Matches are distributed among these distances:
27 1 0.01
29 37 0.34
30 61 0.56
31 10 0.09
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.35
Consensus pattern (29 bp):
GGGGTCAAATATAATTTTTGGAAAGTTCA
Found at i:4625011 original size:16 final size:17
Alignment explanation
Indices: 4624979--4625011 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4624969 TTTCTAATCA
*
4624979 TTTTGTTAATTTATTAT
1 TTTTCTTAATTTATTAT
4624996 TTTTCTTAATTT-TTAT
1 TTTTCTTAATTTATTAT
4625012 ACAATAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTCTTAATTTATTAT
Found at i:4628839 original size:43 final size:41
Alignment explanation
Indices: 4628712--4628888 Score: 201
Period size: 41 Copynumber: 4.3 Consensus size: 41
4628702 CACACGGGTT
* * * *
4628712 GGCACATGGGCGTATGTTAGGGTGTGTGTATACTGTTTAGA
1 GGCACACGGGCGTGTGTTAGGGTGTGTGTATACTATTTTGA
* * * * *
4628753 GGCACACGGGCGTGTGTTAGGATATGTGTATATTGTTTGGA
1 GGCACACGGGCGTGTGTTAGGGTGTGTGTATACTATTTTGA
*
4628794 GGCACACGGGCGTGTGTCAGGATGTGTGTGTATACTATTTTGA
1 GGCACACGGGCGTGTGTTAGG--GTGTGTGTATACTATTTTGA
* ** *
4628837 GGCATATAGGCATGTGTTAGGGTGTGTGTATACTATTTTGA
1 GGCACACGGGCGTGTGTTAGGGTGTGTGTATACTATTTTGA
*
4628878 GGCACAAGGGC
1 GGCACACGGGC
4628889 TGTCACACGG
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 83 0.73
43 31 0.27
ACGTcount: A:0.20, C:0.11, G:0.36, T:0.33
Consensus pattern (41 bp):
GGCACACGGGCGTGTGTTAGGGTGTGTGTATACTATTTTGA
Found at i:4628853 original size:84 final size:82
Alignment explanation
Indices: 4628712--4628888 Score: 201
Period size: 84 Copynumber: 2.1 Consensus size: 82
4628702 CACACGGGTT
* * * * *
4628712 GGCACATGGGCGTATGTTAGGGTGTGTGTATACTGTTTAGAGGCACACGGGCGTGTGTTAGGATA
1 GGCACAAGGGCGTATGTCAGGGTGTGTGTATACTATTTAGAGGCACACAGGCATGTGTTAGGATA
* *
4628777 TGTGTATATTGTTTGGA
66 TGTGTATACTATTTGGA
* * * * * *
4628794 GGCACACGGGCGTGTGTCAGGATGTGTGTGTATACTATTTTGAGGCATATAGGCATGTGTTAGGG
1 GGCACAAGGGCGTATGTCAGG--GTGTGTGTATACTATTTAGAGGCACACAGGCATGTGTTAGGA
* *
4628859 TGTGTGTATACTATTTTGA
64 TATGTGTATACTATTTGGA
4628878 GGCACAAGGGC
1 GGCACAAGGGC
4628889 TGTCACACGG
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
82 18 0.23
84 60 0.77
ACGTcount: A:0.20, C:0.11, G:0.36, T:0.33
Consensus pattern (82 bp):
GGCACAAGGGCGTATGTCAGGGTGTGTGTATACTATTTAGAGGCACACAGGCATGTGTTAGGATA
TGTGTATACTATTTGGA
Found at i:4628905 original size:43 final size:41
Alignment explanation
Indices: 4628817--4628906 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
4628807 GTGTCAGGAT
* ***
4628817 GTGTGTGTATACTATTTTGAGGCATATAGGCATGTGTTAGG
1 GTGTGTGTATACTATTTTGAGGCACATAGGCATGTCACAGG
4628858 GTGTGTGTATACTATTTTGAGGCACA-AGGGC-TGTCACACGG
1 GTGTGTGTATACTATTTTGAGGCACATA-GGCATGTCACA-GG
*
4628899 GCGTGTGT
1 GTGTGTGT
4628907 CAAGATGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 5 0.12
41 37 0.88
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.34
Consensus pattern (41 bp):
GTGTGTGTATACTATTTTGAGGCACATAGGCATGTCACAGG
Found at i:4628905 original size:84 final size:84
Alignment explanation
Indices: 4628733--4628906 Score: 188
Period size: 84 Copynumber: 2.1 Consensus size: 84
4628723 GTATGTTAGG
* * * * *
4628733 GTGTGTGTATACTGTTTAGAGGCACACGGGCGTGTGTTAGGATATGTGTATATTGTTTGGAGGCA
1 GTGTGTGTATACTATTTAGAGGCACACAGGCATGTGTTAGGATATGTGTATACTATTTGGAGGCA
* ** *
4628798 CACGGGCGTGTGTCAGGAT
66 CAAGGGCGTGTCACAGGAC
* * * * * *
4628817 GTGTGTGTATACTATTTTGAGGCATATAGGCATGTGTTAGGGTGTGTGTATACTATTTTGAGGCA
1 GTGTGTGTATACTATTTAGAGGCACACAGGCATGTGTTAGGATATGTGTATACTATTTGGAGGCA
*
4628882 CAAGGGC-TGTCACACGGGC
66 CAAGGGCGTGTCACA-GGAC
4628901 GTGTGT
1 GTGTGT
4628907 CAAGATGTGT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 5 0.07
84 68 0.93
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.33
Consensus pattern (84 bp):
GTGTGTGTATACTATTTAGAGGCACACAGGCATGTGTTAGGATATGTGTATACTATTTGGAGGCA
CAAGGGCGTGTCACAGGAC
Found at i:4628906 original size:53 final size:53
Alignment explanation
Indices: 4628859--4628959 Score: 148
Period size: 53 Copynumber: 1.9 Consensus size: 53
4628849 TGTGTTAGGG
* *
4628859 TGTGTGTATACTATTTTGAGGCACAAGGGCTGTCACACGGGCGTGTGTCAAGA
1 TGTGTGTATACTATTCTGAGGCACAAGGGCTGACACACGGGCGTGTGTCAAGA
* * * *
4628912 TGTGTGTATATTGTTCTGGGGCACATGGGCTGACACACGGGCGTGTGT
1 TGTGTGTATACTATTCTGAGGCACAAGGGCTGACACACGGGCGTGTGT
4628960 ATACTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.30
Consensus pattern (53 bp):
TGTGTGTATACTATTCTGAGGCACAAGGGCTGACACACGGGCGTGTGTCAAGA
Found at i:4630612 original size:26 final size:26
Alignment explanation
Indices: 4630580--4630646 Score: 134
Period size: 26 Copynumber: 2.6 Consensus size: 26
4630570 CCAAAGGGTA
4630580 AAATGGTAATTTTGGACTCTTGGGGG
1 AAATGGTAATTTTGGACTCTTGGGGG
4630606 AAATGGTAATTTTGGACTCTTGGGGG
1 AAATGGTAATTTTGGACTCTTGGGGG
4630632 AAATGGTAATTTTGG
1 AAATGGTAATTTTGG
4630647 GAACATTTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.25, C:0.06, G:0.33, T:0.36
Consensus pattern (26 bp):
AAATGGTAATTTTGGACTCTTGGGGG
Found at i:4630789 original size:119 final size:117
Alignment explanation
Indices: 4630632--4630855 Score: 288
Period size: 119 Copynumber: 1.9 Consensus size: 117
4630622 CTCTTGGGGG
* * * * *** * *
4630632 AAATGGTAATTTTGGGAACATTTAGGGTTAGAAATGACATTTTAGATGTTCAAGGGTAAAACGGT
1 AAATGGTAATTTTGGAAAAATTTAGGGTTAAAAATGACATTTTAAACAATCAAGGATAAAACAGT
* *
4630697 AATTT-TCGAAAGAATTGGGATAAAAAATGAGACTTTTTGGATGTATGGGGGCA
66 AATTTCTAGAAA-AATCGGGATAAAAAATGAGA-TTTTTGGATGTATGGGGGCA
* *
4630750 AAATGGTAATTTTGATAAAAATTTAGGGTTAAAAATGACATTTTAAACAATCAAGGATAAAATAG
1 AAATGGTAATTTTG-GAAAAATTTAGGGTTAAAAATGACATTTTAAACAATCAAGGATAAAACAG
*
4630815 TAATTTCTAGAAAAATCGGGATAAAAAATGGGATTTTTGGA
65 TAATTTCTAGAAAAATCGGGATAAAAAATGAGATTTTTGGA
4630856 CATCCGGGGG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
118 22 0.24
119 63 0.70
120 5 0.06
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (117 bp):
AAATGGTAATTTTGGAAAAATTTAGGGTTAAAAATGACATTTTAAACAATCAAGGATAAAACAGT
AATTTCTAGAAAAATCGGGATAAAAAATGAGATTTTTGGATGTATGGGGGCA
Found at i:4630918 original size:30 final size:30
Alignment explanation
Indices: 4630884--4630984 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
4630874 TAATTTCGGG
*
4630884 AGTTTCGAGGGCAAAAATGTAAGTTTTTGA
1 AGTTTCGAGGGCAAAAATGTAATTTTTTGA
*
4630914 AGTTTTG-GGGTCAAAAATGT-ATTTTTTGAA
1 AGTTTCGAGGG-CAAAAATGTAATTTTTTG-A
* * ** *
4630944 AGTTTTGATGTAAAAAATGTAATTTTTTAA
1 AGTTTCGAGGGCAAAAATGTAATTTTTTGA
4630974 AGTTTCGAGGG
1 AGTTTCGAGGG
4630985 TTGAAATACA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
29 10 0.17
30 40 0.69
31 8 0.14
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.40
Consensus pattern (30 bp):
AGTTTCGAGGGCAAAAATGTAATTTTTTGA
Found at i:4632951 original size:29 final size:27
Alignment explanation
Indices: 4632919--4632972 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
4632909 TGTATTTGGA
*
4632919 CATTTTAAATTTAATCTTAAGTTTAAAAC
1 CATTTTAAATTT-A-CTTAAATTTAAAAC
4632948 CATTTTAAATTTACTTAAATTTAAA
1 CATTTTAAATTTACTTAAATTTAAA
4632973 TTCAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 11 0.46
28 1 0.04
29 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (27 bp):
CATTTTAAATTTACTTAAATTTAAAAC
Found at i:4633000 original size:17 final size:17
Alignment explanation
Indices: 4632980--4633017 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4632970 AAATTCAAAA
*
4632980 CAAATTTAAAATAAATT
1 CAAACTTAAAATAAATT
*
4632997 CAAACTTAATATAAATT
1 CAAACTTAAAATAAATT
4633014 CAAA
1 CAAA
4633018 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
CAAACTTAAAATAAATT
Found at i:4633197 original size:29 final size:29
Alignment explanation
Indices: 4633068--4633190 Score: 174
Period size: 29 Copynumber: 4.2 Consensus size: 29
4633058 GGGCTTCAAC
* * *
4633068 AACTATATATGTATCATGTCTCCATCTAT
1 AACTGTATCTGTATCATGTCTGCATCTAT
* *
4633097 AACTGTATCTGTATCATGTTTGCATCTGT
1 AACTGTATCTGTATCATGTCTGCATCTAT
*
4633126 AACTATATCTGTATCATGTCTGCATCTAT
1 AACTGTATCTGTATCATGTCTGCATCTAT
* *
4633155 AACTGTATCTGTATCATGTTTGCATCTGT
1 AACTGTATCTGTATCATGTCTGCATCTAT
4633184 AACTGTA
1 AACTGTA
4633191 CTTGTATTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (29 bp):
AACTGTATCTGTATCATGTCTGCATCTAT
Done.