Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 208 of 240
Found at i:63085117 original size:12 final size:12
Alignment explanation
Indices: 63085097--63085137 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
63085087 GCCAGAACCA
*
63085097 GAGCTGGAGCTG
1 GAGCCGGAGCTG
*
63085109 GAGCCGGAGCCG
1 GAGCCGGAGCTG
*
63085121 GATCCGGAGCTG
1 GAGCCGGAGCTG
63085133 GAGCC
1 GAGCC
63085138 ACTGCTTCAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.27, G:0.46, T:0.10
Consensus pattern (12 bp):
GAGCCGGAGCTG
Found at i:63086280 original size:11 final size:10
Alignment explanation
Indices: 63086233--63086280 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
63086223 AAAAAATTAG
*
63086233 GGAAAAAAGA
1 GGAAAGAAGA
63086243 GGGAAAGAAGA
1 -GGAAAGAAGA
*
63086254 GGAAAGATGA
1 GGAAAGAAGA
63086264 -GAAAGAAGAA
1 GGAAAGAAG-A
63086274 GGAAAGA
1 GGAAAGA
63086281 TATGCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 7 0.22
10 10 0.31
11 15 0.47
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (10 bp):
GGAAAGAAGA
Found at i:63090709 original size:228 final size:233
Alignment explanation
Indices: 63090303--63090728 Score: 544
Period size: 228 Copynumber: 1.8 Consensus size: 233
63090293 GGAGGGGCAG
* *
63090303 AGTGCTTGTGAAACACAGCCAAAAGAAAAAGGAGGAGGGGGGGAAGGGGACGAAGCATAGAAAAC
1 AGTGCTTGAGAAACACAGCCAAAAGAAAAA-GAGGAGGGAGGGAA-GGGA-G-AGCATAGAAAAC
*
63090368 ACCTACGTTGCTGGGGCTCTTCATTTTTGTTGAAGCATGTGTCCAGACACTCATATGAGACACAC
62 ACCTACGTTGCTGGGGCTCTTCAGTTTTGTTGAAGCATGTGTCCAGACACTCATATGAGACACAC
** * * * *
63090433 GTATACTAGATATGACCTCCAATGAGTCTCCAGATGCATGAAAAAACTTAAAAAAGACTAATCAT
127 AAATACAAGATATAACCTCCAATGACTCTCCAAATGCATGAAAAAACTTAAAAAAGACTAATCAT
63090498 ACCTATATTGTACACATACCCGACACTCACACCTGAGCTGTC
192 ACCTATATTGTACACATACCCGACACTCACACCTGAGCTGTC
* *
63090540 AGTGCTTGAGAAACACAGCC-AAA-AAAAA-AGGAGGGAGGGAA-GG-G-GCATAGTAATCACCT
1 AGTGCTTGAGAAACACAGCCAAAAGAAAAAGAGGAGGGAGGGAAGGGAGAGCATAGAAAACACCT
* * * * * * *
63090599 ATGTTGCTTGTGCTCTTCAGTTTTGTTGAAGTATAGGTGTCTA-ACACTCGTGTTG-GACACACA
66 ACGTTGCTGGGGCTCTTCAGTTTTGTTGAAGCAT--GTGTCCAGACACTCAT-ATGAGACACACA
* * *
63090662 AATACAAGATATAACCTTCAATTACTCTCCAAATGCATGAAAAAACTTGAAAAAGACTAATCATA
128 AATACAAGATATAACCTCCAATGACTCTCCAAATGCATGAAAAAACTTAAAAAAGACTAATCATA
63090727 CC
193 CC
63090729 CGTATCCTAC
Statistics
Matches: 165, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
227 42 0.25
228 73 0.44
229 9 0.05
231 2 0.01
233 12 0.07
235 5 0.03
236 3 0.02
237 19 0.12
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (233 bp):
AGTGCTTGAGAAACACAGCCAAAAGAAAAAGAGGAGGGAGGGAAGGGAGAGCATAGAAAACACCT
ACGTTGCTGGGGCTCTTCAGTTTTGTTGAAGCATGTGTCCAGACACTCATATGAGACACACAAAT
ACAAGATATAACCTCCAATGACTCTCCAAATGCATGAAAAAACTTAAAAAAGACTAATCATACCT
ATATTGTACACATACCCGACACTCACACCTGAGCTGTC
Found at i:63092685 original size:21 final size:21
Alignment explanation
Indices: 63092647--63092686 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
63092637 CCCCGAACCC
*
63092647 GTTTAAGGTTCGAGGTTCAGT
1 GTTTAAGGTTCGAAGTTCAGT
* *
63092668 GTTTAATGTTTGAAGTTCA
1 GTTTAAGGTTCGAAGTTCA
63092687 TGATTCAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (21 bp):
GTTTAAGGTTCGAAGTTCAGT
Found at i:63093273 original size:24 final size:26
Alignment explanation
Indices: 63093226--63093273 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
63093216 ATGATTATAA
* *
63093226 TAAAATATTTAGTATTTTATAAATCC
1 TAAAATATTTAGTATTATAAAAATCC
63093252 TAAAA-ATTTA-TATTATAAAAAT
1 TAAAATATTTAGTATTATAAAAAT
63093274 AATTTGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 5 0.25
26 5 0.25
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
TAAAATATTTAGTATTATAAAAATCC
Found at i:63094558 original size:43 final size:43
Alignment explanation
Indices: 63094497--63094584 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
63094487 TCGTAATAAG
* *
63094497 ATTACCGAAATATAAGATTATAGTGGAATGTAAGATTATCTCA
1 ATTACCGAAATATAAGATTATAATGGAATATAAGATTATCTCA
*
63094540 ATTACCTAAATATAAGATTATAATGGAATATAAGATTATCTCA
1 ATTACCGAAATATAAGATTATAATGGAATATAAGATTATCTCA
63094583 AT
1 AT
63094585 GTAAGATTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (43 bp):
ATTACCGAAATATAAGATTATAATGGAATATAAGATTATCTCA
Found at i:63103105 original size:31 final size:29
Alignment explanation
Indices: 63103038--63103106 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
63103028 ACCATATCGT
** *
63103038 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGACAAACAA
* *
63103067 GATTGACTAAAATGTAACATGAGACAAACAA
1 AAGTGACTAAAATGTAACAT--GACAAACAA
63103098 AAGTGACTA
1 AAGTGACTA
63103107 TTTTGATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
29 18 0.58
31 13 0.42
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.23
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGACAAACAA
Found at i:63107192 original size:63 final size:63
Alignment explanation
Indices: 63107099--63107219 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 63
63107089 CCTTCATGAG
* * * * *
63107099 AAGCGGTCCGGTACTCAAATCCTTAGCTTTGGCTTCAGTATGCTCAGGTTCTTCCTCCGCAAC
1 AAGCGGTCCGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTACTTCCTCCGCAAC
*
63107162 AAGCGGTCTGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTACTTCCTCC
1 AAGCGGTCCGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTACTTCCTCC
63107220 ACGGGAAGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.30
Consensus pattern (63 bp):
AAGCGGTCCGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTACTTCCTCCGCAAC
Found at i:63109884 original size:7 final size:7
Alignment explanation
Indices: 63109872--63109905 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
63109862 GGGTTAGTAG
63109872 GAGCCCC
1 GAGCCCC
63109879 GAGCCCC
1 GAGCCCC
63109886 GAGCCCC
1 GAGCCCC
63109893 GAGCCCC
1 GAGCCCC
63109900 GAGCCC
1 GAGCCC
63109906 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.56, G:0.29, T:0.00
Consensus pattern (7 bp):
GAGCCCC
Found at i:63114015 original size:20 final size:20
Alignment explanation
Indices: 63113990--63114029 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63113980 GTATCTCTAT
**
63113990 ATTTTTATAATTAAATTTAA
1 ATTTTTATAAAAAAATTTAA
*
63114010 ATTTTTTTAAAAAAATTTAA
1 ATTTTTATAAAAAAATTTAA
63114030 GTATTTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTATAAAAAAATTTAA
Found at i:63114668 original size:22 final size:22
Alignment explanation
Indices: 63114619--63114662 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
63114609 TTTTTTGAAG
*
63114619 AATATTTATATTATTTTAATTT
1 AATATTTATAATATTTTAATTT
*
63114641 AATATTTTTAATATTTT-ATTT
1 AATATTTATAATATTTTAATTT
63114662 A
1 A
63114663 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
AATATTTATAATATTTTAATTT
Found at i:63115441 original size:16 final size:16
Alignment explanation
Indices: 63115420--63115452 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63115410 CGACCCACCC
63115420 ATATTAATTTTT-TATA
1 ATATT-ATTTTTATATA
63115436 ATATTATTTTTATATA
1 ATATTATTTTTATATA
63115452 A
1 A
63115453 AAATAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTATTTTTATATA
Found at i:63116962 original size:31 final size:32
Alignment explanation
Indices: 63116927--63116986 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
63116917 AATTAATTAG
*
63116927 TTTTTAAAATTTTTAAAAT-TTTTTTATATAA
1 TTTTTAAAATTTTTAAAATACTTTTTATATAA
* *
63116958 TTTTTATACTTTTTAAAATACTTTTTATA
1 TTTTTAAAATTTTTAAAATACTTTTTATA
63116987 ATTGATGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (32 bp):
TTTTTAAAATTTTTAAAATACTTTTTATATAA
Found at i:63123907 original size:17 final size:16
Alignment explanation
Indices: 63123885--63123932 Score: 66
Period size: 13 Copynumber: 3.1 Consensus size: 16
63123875 ATAATTTTAA
63123885 AATATAATTTAAAATTG
1 AATATAATTT-AAATTG
63123902 AATATAATTT-AA-T-
1 AATATAATTTAAATTG
63123915 AATATAATTTAAATTG
1 AATATAATTTAAATTG
63123931 AA
1 AA
63123933 CGATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 10 0.36
14 3 0.11
15 3 0.11
16 2 0.07
17 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (16 bp):
AATATAATTTAAATTG
Found at i:63123939 original size:30 final size:29
Alignment explanation
Indices: 63123873--63123939 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 29
63123863 ATGAACCGAT
63123873 AGATAATTTTAAAATATAATTTAAAATTGA
1 AGATAA-TTTAAAATATAATTTAAAATTGA
*
63123903 ATATAATTTAATAATATAATTT-AAATTGA
1 AGATAATTTAA-AATATAATTTAAAATTGA
63123932 ACGATAAT
1 A-GATAAT
63123940 AATTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.40
Consensus pattern (29 bp):
AGATAATTTAAAATATAATTTAAAATTGA
Found at i:63126861 original size:22 final size:22
Alignment explanation
Indices: 63126832--63126893 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 22
63126822 GGGATGAATG
*
63126832 AAATTTTAATTTTTATAGTATAT
1 AAATTTTAATTTTTATAGGAT-T
* *
63126855 ATATTTATAATTTTTAAAGGATT
1 AAATTT-TAATTTTTATAGGATT
*
63126878 AAA-TTAAATTTTTATA
1 AAATTTTAATTTTTATA
63126894 ATTTTAAGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 9 0.28
22 2 0.06
23 8 0.25
24 13 0.41
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
AAATTTTAATTTTTATAGGATT
Found at i:63127326 original size:15 final size:16
Alignment explanation
Indices: 63127306--63127336 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63127296 ACATGTGTAA
63127306 TATTTTT-ATATAATT
1 TATTTTTAATATAATT
63127321 TATTTTTAATATAATT
1 TATTTTTAATATAATT
63127337 ATTATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTAATATAATT
Found at i:63149454 original size:14 final size:13
Alignment explanation
Indices: 63149420--63149467 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
63149410 ATCAATCAAA
63149420 TTTATTGAAAATT
1 TTTATTGAAAATT
*
63149433 TTTGTTGAAAATT
1 TTTATTGAAAATT
63149446 TTTATTTG-AAA--
1 TTTA-TTGAAAATT
63149457 TTTATTGAAAA
1 TTTATTGAAAA
63149468 AAATAACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 18 0.58
14 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (13 bp):
TTTATTGAAAATT
Found at i:63150399 original size:23 final size:23
Alignment explanation
Indices: 63150373--63150428 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
63150363 CTTGTATCAG
63150373 TTTAGTTTAAATTCATTTTATCT
1 TTTAGTTTAAATTCATTTTATCT
*
63150396 TTTAGTTTAAATTTATTTTATCT
1 TTTAGTTTAAATTCATTTTATCT
63150419 TTATA-TTTAA
1 TT-TAGTTTAA
63150429 TTTTTTGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTAGTTTAAATTCATTTTATCT
Found at i:63154265 original size:9 final size:9
Alignment explanation
Indices: 63154251--63154287 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
63154241 TATAGTTTGA
63154251 TATTCGAAT
1 TATTCGAAT
63154260 TATTCGAAT
1 TATTCGAAT
*
63154269 TATTCGAGT
1 TATTCGAAT
63154278 TATTCGAAT
1 TATTCGAAT
63154287 T
1 T
63154288 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:63154358 original size:9 final size:9
Alignment explanation
Indices: 63154341--63154371 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
63154331 TCGAGTTGAT
63154341 TCGAATAAC
1 TCGAATAAC
*
63154350 TCGATTAAC
1 TCGAATAAC
63154359 TCGAATAAC
1 TCGAATAAC
63154368 TCGA
1 TCGA
63154372 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:63166199 original size:5 final size:5
Alignment explanation
Indices: 63166186--63166218 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
63166176 AACATTAACC
*
63166186 TATAC TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
63166219 GCTTCCTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:63167237 original size:27 final size:23
Alignment explanation
Indices: 63167185--63167230 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
63167175 AACTTTAACA
63167185 TTACCTTGTTTAGAAGGACTGAT
1 TTACCTTGTTTAGAAGGACTGAT
63167208 TTACCTTGTTTAGAAGGACTGAT
1 TTACCTTGTTTAGAAGGACTGAT
63167231 GGTTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (23 bp):
TTACCTTGTTTAGAAGGACTGAT
Found at i:63170409 original size:10 final size:10
Alignment explanation
Indices: 63170395--63170428 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
63170385 AGGTATGGTT
*
63170395 TGTATTGTAT
1 TGTATTGTAG
63170405 TGTATTGTAG
1 TGTATTGTAG
*
63170415 TCTATTGTAG
1 TGTATTGTAG
63170425 TGTA
1 TGTA
63170429 ATCTATACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.03, G:0.24, T:0.53
Consensus pattern (10 bp):
TGTATTGTAG
Found at i:63177526 original size:3 final size:3
Alignment explanation
Indices: 63177518--63177548 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
63177508 ACAATTAGAG
*
63177518 AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
63177549 AATGAATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:63187018 original size:15 final size:16
Alignment explanation
Indices: 63187000--63187034 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
63186990 TGGGTTCCAA
63187000 AATTTGGTTTT-AAAG
1 AATTTGGTTTTCAAAG
63187015 AA-TTGGTTTTCAAAG
1 AATTTGGTTTTCAAAG
63187030 AATTT
1 AATTT
63187035 TAAACATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.44
15 8 0.44
16 2 0.11
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (16 bp):
AATTTGGTTTTCAAAG
Found at i:63187282 original size:16 final size:17
Alignment explanation
Indices: 63187263--63187300 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
63187253 AATATTAAAA
63187263 CTAATG-CATAAAACTT
1 CTAATGACATAAAACTT
*
63187279 CTAATGTAGATAAAACTT
1 CTAATG-ACATAAAACTT
63187297 CTAA
1 CTAA
63187301 GTCACAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
18 13 0.68
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (17 bp):
CTAATGACATAAAACTT
Found at i:63187954 original size:21 final size:21
Alignment explanation
Indices: 63187923--63187977 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
63187913 GGTGGTGTCG
* * *
63187923 AAGTATAAGAGATATGTATCG
1 AAGTATGAGAGATATATATCA
* *
63187944 GAGTATGAGAGATGTATATCA
1 AAGTATGAGAGATATATATCA
63187965 AAGTATGAGAGAT
1 AAGTATGAGAGAT
63187978 GTGTTAGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (21 bp):
AAGTATGAGAGATATATATCA
Found at i:63193722 original size:26 final size:26
Alignment explanation
Indices: 63193692--63193745 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
63193682 TCACTTTCAT
*
63193692 GTGACATCGTCAAATAGGACCATAAA
1 GTGACATCGTCAAATACGACCATAAA
63193718 GTGACATCGTCAAATACGACCATAAA
1 GTGACATCGTCAAATACGACCATAAA
63193744 GT
1 GT
63193746 CTAGGCCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (26 bp):
GTGACATCGTCAAATACGACCATAAA
Found at i:63196334 original size:17 final size:18
Alignment explanation
Indices: 63196304--63196349 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
63196294 ATTTAAATTG
63196304 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
63196322 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
63196338 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
63196350 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:63199600 original size:24 final size:23
Alignment explanation
Indices: 63199555--63199601 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
63199545 AAGCAATACT
*
63199555 ACATGCATAAGTAAGACTAAAAA
1 ACATGCATAAGAAAGACTAAAAA
63199578 ACATGCCATAAGAAGAGAC-AAAAA
1 ACATG-CATAAGAA-AGACTAAAAA
63199602 CGTCTAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.13
Consensus pattern (23 bp):
ACATGCATAAGAAAGACTAAAAA
Found at i:63200015 original size:21 final size:21
Alignment explanation
Indices: 63199955--63200017 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
63199945 TTCTTCTCTG
*
63199955 CTCTGCTTCCCTCACTGCAGC
1 CTCTGCTTCCCTCACTGCTGC
* * *
63199976 CTCTGCTGCTCTCATTGCTGC
1 CTCTGCTTCCCTCACTGCTGC
*
63199997 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCACTGCTGC
63200018 ATCAGCTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.05, C:0.44, G:0.17, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCTGC
Found at i:63200092 original size:87 final size:87
Alignment explanation
Indices: 63199991--63200178 Score: 313
Period size: 87 Copynumber: 2.2 Consensus size: 87
63199981 CTGCTCTCAT
* * * *
63199991 TGCTGCCTCTGCTTCCCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGTTCTTTATATTTTC
1 TGCTGCCTCTGCTTCCCTCACCGCTGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTTC
63200056 TTTGAACCTCAGCTTCTCTCGA
66 TTTGAACCTCAGCTTCTCTCGA
**
63200078 TGCTGCCTCTGCTTCCCTCACCGCTGCATTTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTTC
1 TGCTGCCTCTGCTTCCCTCACCGCTGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTTC
*
63200143 TTTGAACCTTAGCTTCTCTCGA
66 TTTGAACCTCAGCTTCTCTCGA
63200165 TGCTGCCTCTGCTT
1 TGCTGCCTCTGCTT
63200179 TAAGTTGAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 94 1.00
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (87 bp):
TGCTGCCTCTGCTTCCCTCACCGCTGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTTC
TTTGAACCTCAGCTTCTCTCGA
Found at i:63202068 original size:41 final size:40
Alignment explanation
Indices: 63201909--63202067 Score: 151
Period size: 41 Copynumber: 3.9 Consensus size: 40
63201899 GCACTTTCAC
** * *
63201909 AAAAACGCAGCTAAAACCCCGAGCTTTAGCGGCGCCTTTCT
1 AAAAACGCCTCTAAAACCCCGAGCATTAGCGGCG-CTTTTT
* * * * *
63201950 AAAAATGCCGCTAAAACCCCGAACATTAGCGGCGCTTAATA
1 AAAAACGCCTCTAAAACCCCGAGCATTAGCGGCGCTT-TTT
* *
63201991 AAAAACG-CTGCTAAAACCCTGAGCATTGGCGGCGCTATTTT
1 AAAAACGCCT-CTAAAACCCCGAGCATTAGCGGCGCT-TTTT
*
63202032 AAAAACGCCTTTAAAACCCAC-AGCATTAGCGGCGCT
1 AAAAACGCCTCTAAAACCC-CGAGCATTAGCGGCGCT
63202068 ACTCCAGAAA
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
40 4 0.04
41 89 0.93
42 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (40 bp):
AAAAACGCCTCTAAAACCCCGAGCATTAGCGGCGCTTTTT
Found at i:63202079 original size:41 final size:41
Alignment explanation
Indices: 63202002--63202081 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
63201992 AAAACGCTGC
** * * **
63202002 TAAAACCCTGAGCATTGGCGGCGCTATTTTAAAAACGCCTT
1 TAAAACCCACAGCATTAGCGGCGCTACTCCAAAAACGCCTT
*
63202043 TAAAACCCACAGCATTAGCGGCGCTACTCCAGAAACGCC
1 TAAAACCCACAGCATTAGCGGCGCTACTCCAAAAACGCC
63202082 ACTAAAGCCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (41 bp):
TAAAACCCACAGCATTAGCGGCGCTACTCCAAAAACGCCTT
Found at i:63202080 original size:82 final size:82
Alignment explanation
Indices: 63201909--63202067 Score: 205
Period size: 82 Copynumber: 1.9 Consensus size: 82
63201899 GCACTTTCAC
* *
63201909 AAAAACGCAGCTAAAACCCCGAGCTTTAGCGGCGCCTTTCTAAAAATGCCGCTAAAACCCCGAAC
1 AAAAACGCAGCTAAAACCCCGAGCATTAGCGGCGCCTTTCTAAAAACGCCGCTAAAACCCCGAAC
63201974 ATTAGCGGCGCTTAATA
66 ATTAGCGGCGCTTAATA
* * * * **
63201991 AAAAACGCTGCTAAAACCCTGAGCATTGGCGGCG-CTATTTTAAAAACGCCTTTAAAACCCAC-A
1 AAAAACGCAGCTAAAACCCCGAGCATTAGCGGCGCCT-TTCTAAAAACGCCGCTAAAACCC-CGA
*
63202054 GCATTAGCGGCGCT
64 ACATTAGCGGCGCT
63202068 ACTCCAGAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 2 0.03
82 63 0.95
83 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (82 bp):
AAAAACGCAGCTAAAACCCCGAGCATTAGCGGCGCCTTTCTAAAAACGCCGCTAAAACCCCGAAC
ATTAGCGGCGCTTAATA
Found at i:63202366 original size:37 final size:37
Alignment explanation
Indices: 63202322--63202396 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
63202312 AGTTAGGGGG
63202322 TTTAGAAGATGATGAAAAGGATGCAAAAAGTGGGGTT
1 TTTAGAAGATGATGAAAAGGATGCAAAAAGTGGGGTT
*
63202359 TTTAGAAGATGATGAACAGGATGCAAAAAGTGGGGTT
1 TTTAGAAGATGATGAAAAGGATGCAAAAAGTGGGGTT
63202396 T
1 T
63202397 CTTATTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.39, C:0.04, G:0.32, T:0.25
Consensus pattern (37 bp):
TTTAGAAGATGATGAAAAGGATGCAAAAAGTGGGGTT
Found at i:63204995 original size:36 final size:36
Alignment explanation
Indices: 63204948--63205019 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
63204938 GCTAGATGTA
63204948 TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
1 TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
63204984 TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
1 TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
63205020 GCTTGAGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (36 bp):
TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
Found at i:63205615 original size:23 final size:23
Alignment explanation
Indices: 63205589--63205642 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
63205579 AAAATTGAAT
* *
63205589 TTCGAGTT-AATTGAATCGAGTTA
1 TTCGAGTTAAATTGAAT-AAGTAA
63205612 TTCGA-TTCAAATTGAATAAGTAA
1 TTCGAGTT-AAATTGAATAAGTAA
63205635 TTCGAGTT
1 TTCGAGTT
63205643 TCGAATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.08
23 14 0.54
24 10 0.38
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (23 bp):
TTCGAGTTAAATTGAATAAGTAA
Found at i:63207761 original size:21 final size:21
Alignment explanation
Indices: 63207731--63207770 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
63207721 CCTCAATGCA
*
63207731 ATTGGGTCATTGCGAGATGAC
1 ATTGGGTCATTACGAGATGAC
*
63207752 ATTGGTTCATTACGAGATG
1 ATTGGGTCATTACGAGATG
63207771 TAGTTAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGGGTCATTACGAGATGAC
Found at i:63212150 original size:26 final size:26
Alignment explanation
Indices: 63212067--63212160 Score: 77
Period size: 26 Copynumber: 3.6 Consensus size: 26
63212057 CGTAAAAATC
* *
63212067 TAAAATAAATAATATACGTAAAACAGTT
1 TAAAATAAATAATATA--TGAAACAATT
*
63212095 TAAGAT-AA-AATA-ATAGAAAGCAATT
1 TAAAATAAATAATATAT-GAAA-CAATT
*
63212120 CAAAATAAATAATATATGAAACAATT
1 TAAAATAAATAATATATGAAACAATT
**
63212146 TAAAATTGATAATAT
1 TAAAATAAATAATAT
63212161 CAAACAGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 3 0.06
25 9 0.17
26 23 0.43
27 10 0.19
28 7 0.13
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (26 bp):
TAAAATAAATAATATATGAAACAATT
Found at i:63213013 original size:14 final size:15
Alignment explanation
Indices: 63212994--63213024 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
63212984 ATTATTTAGT
63212994 ATAAAAG-GAAAAAA
1 ATAAAAGAGAAAAAA
63213008 ATAAAAGAGAAAAAA
1 ATAAAAGAGAAAAAA
63213023 AT
1 AT
63213025 CGAACAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (15 bp):
ATAAAAGAGAAAAAA
Found at i:63232632 original size:13 final size:14
Alignment explanation
Indices: 63232594--63232639 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
63232584 ACCACCTATA
63232594 AAAAATAA-AAATTT
1 AAAAATAATAAA-TT
63232608 AATAAA-AATAAA-T
1 AA-AAATAATAAATT
63232621 AAAAATAATAAATT
1 AAAAATAATAAATT
63232635 AAAAA
1 AAAAA
63232640 ACAATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.11
13 9 0.32
14 10 0.36
15 6 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATAATAAATT
Found at i:63236430 original size:69 final size:69
Alignment explanation
Indices: 63236350--63236788 Score: 295
Period size: 69 Copynumber: 6.6 Consensus size: 69
63236340 CTTGCAACTT
* * *
63236350 CAAAATAGCTCGTGGACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
1 CAAAACAGCTCGCGAACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
*
63236415 CCTT
66 CCTC
* * ** * * *
63236419 CAAAACAGCTCGCAAACTTACATTCCCAACTGATATTATAAAGGTTCACCAGTTTAAGATCACAG
1 CAAAACAGCTCGCGAACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
63236484 CCTC
66 CCTC
* * * * * * * * *
63236488 CAAAACAGTTCACGGACCTATGCTCCCAGCTAATATTATAAAAGCTCACTGGTTTAAGATCGCAA
1 CAAAACAGCTCGCGAACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
63236553 CCTC
66 CCTC
* ** * * *
63236557 C-AAA-A-----C-AA-C-A--CTCCTAGTTGATATTATAAAGACTCGCCGGTCTAAGATCGCAG
1 CAAAACAGCTCGCGAACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
63236610 CCTC
66 CCTC
* * ***
63236614 CAAAACAGCTCGCGAACCTACGTTCCCAATTGATATTATAAAGGCTCGTTGGTTT---A----AG
1 CAAAACAGCTCGCGAACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
63236672 CCTC
66 CCTC
* * ** * * * * * *
63236676 CAAAACAGCTCACGGACCTACATTCCTAGCTAATATTATAAAGGCTAACCGGTTTAAGATCGTAA
1 CAAAACAGCTCGCGAACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
63236741 CCTC
66 CCTC
* ** * * * ** *
63236745 TAAAGTAGCTCGCAAACCTGCGTTCTTAGCTGATATTATAAAGG
1 CAAAACAGCTCGCGAACCTACGCTCCCAACTGATATTATAAAGG
63236789 TTTAGTTGAT
Statistics
Matches: 285, Mismatches: 66, Indels: 38
0.73 0.17 0.10
Matches are distributed among these distances:
57 39 0.14
58 3 0.01
59 2 0.01
60 1 0.00
61 1 0.00
62 51 0.18
64 1 0.00
65 3 0.01
66 2 0.01
67 2 0.01
68 3 0.01
69 177 0.62
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (69 bp):
CAAAACAGCTCGCGAACCTACGCTCCCAACTGATATTATAAAGGCTCACCGGTTTAAGATCGCAG
CCTC
Found at i:63236730 original size:62 final size:62
Alignment explanation
Indices: 63236608--63236733 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 62
63236598 CTAAGATCGC
* * * * ****
63236608 AGCCTCCAAAACAGCTCGCGAACCTACGTTCCCAATTGATATTATAAAGGCTCGTTGGTTTA
1 AGCCTCCAAAACAGCTCACGAACCTACATTCCCAACTAATATTATAAAGGCTAACCGGTTTA
* * *
63236670 AGCCTCCAAAACAGCTCACGGACCTACATTCCTAGCTAATATTATAAAGGCTAACCGGTTTA
1 AGCCTCCAAAACAGCTCACGAACCTACATTCCCAACTAATATTATAAAGGCTAACCGGTTTA
63236732 AG
1 AG
63236734 ATCGTAACCT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (62 bp):
AGCCTCCAAAACAGCTCACGAACCTACATTCCCAACTAATATTATAAAGGCTAACCGGTTTA
Found at i:63239070 original size:22 final size:22
Alignment explanation
Indices: 63239028--63239072 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
63239018 TATAATAAGA
**
63239028 TTTTAATTTAACATGCTTAATT
1 TTTTAATTTAACATGAATAATT
*
63239050 TTTTAATTTAACTTGAATAATT
1 TTTTAATTTAACATGAATAATT
63239072 T
1 T
63239073 CACTCGATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAATTTAACATGAATAATT
Found at i:63245131 original size:33 final size:33
Alignment explanation
Indices: 63245051--63245137 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
63245041 AATTCAATTA
* * *
63245051 TTTGATTGAATGAAATGGAATAATATTCTTACG
1 TTTGGTTGAATGGAATGAAATAATATTCTTACG
* **
63245084 TTAGGTT-AATTGGAATGAAATAATATTCTTGTG
1 TTTGGTTGAA-TGGAATGAAATAATATTCTTACG
63245117 TTTGGTTGAATGGAAT-AAATA
1 TTTGGTTGAATGGAATGAAATA
63245138 TTGTAATAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 7 0.16
33 36 0.80
34 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (33 bp):
TTTGGTTGAATGGAATGAAATAATATTCTTACG
Found at i:63245768 original size:14 final size:13
Alignment explanation
Indices: 63245746--63245779 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
63245736 AAAGTATTTT
*
63245746 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
63245760 AAAAATAAAAATA
1 AAAAATAAAAATA
63245773 AAAAATA
1 AAAAATA
63245780 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:63247284 original size:17 final size:17
Alignment explanation
Indices: 63247249--63247293 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
63247239 CACACCCCCT
**
63247249 ATAAAATATAATATTTTA
1 ATAAAATA-AATAAATTA
63247267 ATAAAATAAATAAATTA
1 ATAAAATAAATAAATTA
*
63247284 ATAAATTAAA
1 ATAAAATAAA
63247294 AACAATACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAATAAATAAATTA
Found at i:63247677 original size:13 final size:14
Alignment explanation
Indices: 63247654--63247697 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
63247644 TTTTAGATTA
63247654 AAATATTATTTTTT
1 AAATATTATTTTTT
63247668 AAAT-TTATTTTTATT
1 AAATATTA-TTTT-TT
63247683 GAAATATTATTTTTT
1 -AAATATTATTTTTT
63247698 TTATAAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.12
14 8 0.31
15 4 0.15
16 8 0.31
17 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
AAATATTATTTTTT
Found at i:63258245 original size:10 final size:10
Alignment explanation
Indices: 63258226--63258261 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
63258216 GGATTCGTTA
63258226 ATTCGACTCG
1 ATTCGACTCG
*
63258236 ATTTGACTCG
1 ATTCGACTCG
*
63258246 ATTCGATTCG
1 ATTCGACTCG
63258256 ATTCGA
1 ATTCGA
63258262 AAAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (10 bp):
ATTCGACTCG
Found at i:63258809 original size:18 final size:18
Alignment explanation
Indices: 63258783--63258817 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63258773 AGTTAGTTTT
63258783 ATGAGGTGGAATTAATTA
1 ATGAGGTGGAATTAATTA
* *
63258801 ATGATGTGGTATTAATT
1 ATGAGGTGGAATTAATT
63258818 TAAGATATGA
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:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
ATGAGGTGGAATTAATTA
Found at i:63260846 original size:33 final size:33
Alignment explanation
Indices: 63260764--63260852 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
63260754 GTAATTCAAT
* *
63260764 TGTTTGGTTGAATGAAATGGAATAAAATTCTTG
1 TGTTTGGTTGAATGGAATGAAATAAAATTCTTG
* * **
63260797 CGTTAGGTT-AATTGGAATGAAATAGTATTCTTG
1 TGTTTGGTTGAA-TGGAATGAAATAAAATTCTTG
63260830 TGTTTGGTTGAATGGAAT-AAATA
1 TGTTTGGTTGAATGGAATGAAATA
63260853 TTGTAATAGC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 7 0.15
33 37 0.80
34 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (33 bp):
TGTTTGGTTGAATGGAATGAAATAAAATTCTTG
Found at i:63261062 original size:19 final size:19
Alignment explanation
Indices: 63261038--63261110 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
63261028 AATTTTTGAG
63261038 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
63261057 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
63261076 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
63261095 GATATATAATCTTAGA
1 GATATGCAATCTTAGA
63261111 ATATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:63262292 original size:98 final size:98
Alignment explanation
Indices: 63262172--63262366 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
63262162 AAAAATCATG
*
63262172 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
63262237 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
*
63262270 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
63262335 AAGTCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
63262367 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:63265903 original size:19 final size:19
Alignment explanation
Indices: 63265879--63265915 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
63265869 AGTTCAGATT
63265879 CAAAAA-AAAAACCAAAAAC
1 CAAAAACAAAAA-CAAAAAC
63265898 CAAAAACAAAAACAAAAA
1 CAAAAACAAAAACAAAAA
63265916 ATGAAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (19 bp):
CAAAAACAAAAACAAAAAC
Found at i:63265916 original size:13 final size:13
Alignment explanation
Indices: 63265879--63265916 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
63265869 AGTTCAGATT
*
63265879 CAAAAA-AAAAAC
1 CAAAAACAAAAAA
*
63265891 CAAAAACCAAAAA
1 CAAAAACAAAAAA
63265904 CAAAAACAAAAAA
1 CAAAAACAAAAAA
63265917 TGAAAGTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAACAAAAAA
Found at i:63267405 original size:132 final size:132
Alignment explanation
Indices: 63267165--63268081 Score: 1430
Period size: 132 Copynumber: 6.9 Consensus size: 132
63267155 TTCCTCGTTT
* *
63267165 GTAGTCGAGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
63267230 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
63267295 CA
131 CA
*
63267297 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* ** * ** *
63267362 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAGCAGATTTTGCCTTCCT--G
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
63267425 CA
131 CA
* * *
63267427 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
1 --G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* *
63267492 AGCCAATAATTCTACTTCCCTGGGCAGCAGTGAAATAGATTGAAGATTTCAGATCTTATCTCCCT
63 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
63267557 AAGCA
128 AAGCA
63267562 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
63267627 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
63267692 CA
131 CA
*
63267694 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
63267759 CAGTAATTCTACTTCCCTGGGTAGCAGT-GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
63267823 CA
131 CA
* * * *
63267825 GTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * **
63267890 TAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
63267955 CA
131 CA
* * * * * *
63267957 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCACTGTGGTTACAGTGGAGTATATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * *
63268022 CAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCC
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCC
63268082 TTACAGTTGC
Statistics
Matches: 721, Mismatches: 56, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
130 3 0.00
131 122 0.17
132 476 0.66
133 117 0.16
135 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (132 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CA
Found at i:63267599 original size:44 final size:44
Alignment explanation
Indices: 63267551--63267730 Score: 103
Period size: 44 Copynumber: 4.1 Consensus size: 44
63267541 CAGATCTTAT
63267551 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
** * * * * *** ** *
63267595 CTCCCTGTGGTTA-TAGTGGAGTACATTGAAGCCAG-TAATTCTAC
1 CTCCCT-AAG-CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
* ** ** ** * ** * * *
63267639 TTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTAT
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
63267683 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
63267727 CTCC
1 CTCC
63267731 ATGTGGTTAT
Statistics
Matches: 92, Mismatches: 40, Indels: 8
0.66 0.29 0.06
Matches are distributed among these distances:
42 1 0.01
43 17 0.18
44 56 0.61
45 17 0.18
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (44 bp):
CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
Found at i:63267645 original size:265 final size:263
Alignment explanation
Indices: 63267165--63268081 Score: 1428
Period size: 265 Copynumber: 3.5 Consensus size: 263
63267155 TTCCTCGTTT
* *
63267165 GTAGTCGAGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
63267230 CAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
*
63267295 CAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
131 CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
* * ** * ** *
63267360 GCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTAAAGATAGCAGATTTTGCCTTCCT-
196 GCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
63267424 GCA
261 GCA
* * *
63267427 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
1 --G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* *
63267492 AGCCAATAATTCTACTTCCCTGGGCAGCAGTGAAATAGATTGAAGATTTCAGATCTTATCTCCCT
63 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
63267557 AAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATT
128 AAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATT
63267622 GAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCC
193 GAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCC
63267687 CTAAGCA
258 CT-AGCA
*
63267694 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
63267759 CAGTAATTCTACTTCCCTGGGTAGCAGT-GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
* * *
63267823 CAGTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
131 CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
** * *
63267888 GTTAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
196 GCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-
63267953 AGCA
260 AGCA
* * * * * *
63267957 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCACTGTGGTTACAGTGGAGTATATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * *
63268022 CAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCC
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCC
63268082 TTACAGTTGC
Statistics
Matches: 605, Mismatches: 42, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
262 1 0.00
263 244 0.40
264 112 0.19
265 245 0.40
267 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (263 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
GCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
GCA
Found at i:63267841 original size:44 final size:44
Alignment explanation
Indices: 63267790--63267977 Score: 156
Period size: 44 Copynumber: 4.3 Consensus size: 44
63267780 TAGCAGTGAA
63267790 TAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* * * * * **
63267834 CAGATTGAAGATTGCGGATTTTACCTCCCT--GTGGTTACAGTGGAG
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG-T--AGTGGAG
* * * *
63267879 TACATTGAAG--TT-AGTAAT-TCTA-CTTCCCTAGGCAATAGTGGAA
1 TAGATTGAAGATTTCAG--ATCT-TATC-TCCCTAAGCAGTAGTGGAG
63267922 TAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
63267966 TAGATCGAAGAT
1 TAGATTGAAGAT
63267978 GGTGGATTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 28
0.70 0.13 0.18
Matches are distributed among these distances:
42 3 0.03
43 19 0.17
44 65 0.59
45 20 0.18
46 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (44 bp):
TAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAG
Found at i:63268336 original size:19 final size:19
Alignment explanation
Indices: 63268312--63268384 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
63268302 AATTTTTGAG
*
63268312 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
63268331 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
63268350 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
63268369 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
63268385 ATATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:63269578 original size:98 final size:98
Alignment explanation
Indices: 63269455--63269649 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
63269445 AAAAATCATG
*
63269455 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
63269520 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
63269553 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
63269618 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
63269650 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:63271193 original size:13 final size:14
Alignment explanation
Indices: 63271169--63271198 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
63271159 GTGAATTGAC
63271169 TTTCTCTTTTCTTT
1 TTTCTCTTTTCTTT
63271183 TTTCT-TTTTCTTT
1 TTTCTCTTTTCTTT
63271196 TTT
1 TTT
63271199 GCAGTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTCTTTTCTTT
Found at i:63272061 original size:18 final size:15
Alignment explanation
Indices: 63272012--63272058 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
63272002 CTTTTTTTAG
*
63272012 ATTAAA-TTATTAATT
1 ATTAAATTTATT-TTT
63272027 ATTAAATTTATTTTT
1 ATTAAATTTATTTTT
63272042 ATTGAAATATTATTTTT
1 ATT-AAAT-TTATTTTT
63272059 TATAAGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 11 0.39
16 9 0.32
17 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
ATTAAATTTATTTTT
Found at i:63283381 original size:42 final size:43
Alignment explanation
Indices: 63283334--63283455 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 43
63283324 TGATAAATCC
*
63283334 GAGCATTAGCGGCGCTTTTTCAAAAAACGCCGCTAAAGCCCT-
1 GAGCATTAGCGGCGCTTCTTCAAAAAACGCCGCTAAAGCCCTA
* **
63283376 GAGCATTAGCGGCGCTTCTTC-ATAAACGCCGCTAAA--AATA
1 GAGCATTAGCGGCGCTTCTTCAAAAAACGCCGCTAAAGCCCTA
63283416 GAGCATTAGCGGCGCTTCTT-AAAAAACGCCGCTAAAGCCC
1 GAGCATTAGCGGCGCTTCTTCAAAAAACGCCGCTAAAGCCC
63283456 CAAAAACCTC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.01
40 34 0.49
41 14 0.20
42 20 0.29
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (43 bp):
GAGCATTAGCGGCGCTTCTTCAAAAAACGCCGCTAAAGCCCTA
Found at i:63283573 original size:40 final size:38
Alignment explanation
Indices: 63283511--63283602 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 38
63283501 TGCTTTTTGG
* *
63283511 AAAACGCCGCTAATGCTCATTTTTAGTGGCGTTTTTTT
1 AAAACGCCGCTAATGCTAATTTTTAGCGGCGTTTTTTT
*
63283549 AAAAGCGCCGCTAATGCTTAATTTTTAGCGGCGTTTTTATC
1 AAAA-CGCCGCTAATGC-TAATTTTTAGCGGCGTTTTT-TT
*
63283590 CAAACGCCGCTAA
1 AAAACGCCGCTAA
63283603 AAGCCTGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 4 0.09
39 12 0.26
40 27 0.57
41 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (38 bp):
AAAACGCCGCTAATGCTAATTTTTAGCGGCGTTTTTTT
Found at i:63286054 original size:69 final size:68
Alignment explanation
Indices: 63285970--63286186 Score: 294
Period size: 69 Copynumber: 3.1 Consensus size: 68
63285960 AAGCTTGCAA
* *
63285970 CTTCAAAATAGCTCGCGGACCTACACTCCCAACTAATATTATAAAGGCTCGCCGGTTTAAGATCG
1 CTTCAAAACAGCTCGCAGACCTACACTCCCAACTAATATTATAAAGGCTCGCC-GTTTAAGATCG
63286035 CAGC
65 CAGC
* * * *
63286039 CTTCAAAACAGCTCGCTA-ACCTACATTCCCAACTGATATTATTAAGGCTCACCAGTTTAAGATC
1 CTTCAAAACAGCTCGC-AGACCTACACTCCCAACTAATATTATAAAGGCTCGCC-GTTTAAGATC
63286103 GCAGC
64 GCAGC
* * *
63286108 CTCCAAAACAGCTCACAGACCTACACTCCCAGCTAATATTATAAAGGCTCGCTCGTTTAAGATCG
1 CTTCAAAACAGCTCGCAGACCTACACTCCCAACTAATATTATAAAGGCTCGC-CGTTTAAGATCG
63286173 CAG-
65 CAGC
63286176 CTTCCAAAACA
1 CTT-CAAAACA
63286187 ACGCTCCCAA
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
68 3 0.02
69 125 0.97
70 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (68 bp):
CTTCAAAACAGCTCGCAGACCTACACTCCCAACTAATATTATAAAGGCTCGCCGTTTAAGATCGC
AGC
Found at i:63286273 original size:126 final size:126
Alignment explanation
Indices: 63286065--63286294 Score: 298
Period size: 126 Copynumber: 1.8 Consensus size: 126
63286055 TAACCTACAT
* * * *
63286065 TCCCAACTGATATTATTAAGGCTCACCAGTTTAAGATCGCAGCCTCCAAAACAGCTCACAGACCT
1 TCCCAACTGATATTATAAAGACTCACCAGTTTAAGATCCCAGCCTCCAAAACAGCTCACAGACAT
* *
63286130 ACACTCCCAGCTAATATTATAAAGGCTCGCTCGTTTAAGATCGCAGCTTCCAAAACAACGC
66 ACACTCCCAACTAATATTATAAAAGCTCGCTCGTTTAAGATCGCAGCTTCCAAAACAACGC
* ** * * *
63286191 TCCCAACTGGTATTATAAAGACTTGCCGGTTTAAGATCCCAGCCTCCAAAACAGCTCGCGGACAT
1 TCCCAACTGATATTATAAAGACTCACCAGTTTAAGATCCCAGCCTCCAAAACAGCTCACAGACAT
** * * * *
63286256 ACGTTCTCAATTGATATTATAAAAGCTCGCTGGTTTAAG
66 ACACTCCCAACTAATATTATAAAAGCTCGCTCGTTTAAG
63286295 CCTCTAAAAC
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
126 86 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (126 bp):
TCCCAACTGATATTATAAAGACTCACCAGTTTAAGATCCCAGCCTCCAAAACAGCTCACAGACAT
ACACTCCCAACTAATATTATAAAAGCTCGCTCGTTTAAGATCGCAGCTTCCAAAACAACGC
Found at i:63292272 original size:30 final size:30
Alignment explanation
Indices: 63292236--63292292 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
63292226 ATAGAATTCG
*
63292236 TTAACTCGACTCGATTTGACTCGAAAATTT
1 TTAACTCGACTCGATTCGACTCGAAAATTT
* *
63292266 TTAACTCGATTCGATTCGATTCGAAAA
1 TTAACTCGACTCGATTCGACTCGAAAA
63292293 AAATTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (30 bp):
TTAACTCGACTCGATTCGACTCGAAAATTT
Found at i:63307691 original size:42 final size:43
Alignment explanation
Indices: 63307644--63307765 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 43
63307634 TGATAAATCC
*
63307644 GAGCATTAGCGGCGCTTTTTCAAAAAACGCCGCTAAAGCCCT-
1 GAGCATTAGCGGCGCTTCTTCAAAAAACGCCGCTAAAGCCCTA
* **
63307686 GAGCATTAGCGGCGCTTCTTC-ATAAACGCCGCTAAA--AATA
1 GAGCATTAGCGGCGCTTCTTCAAAAAACGCCGCTAAAGCCCTA
63307726 GAGCATTAGCGGCGCTTCTT-AAAAAACGCCGCTAAAGCCC
1 GAGCATTAGCGGCGCTTCTTCAAAAAACGCCGCTAAAGCCC
63307766 CAAAAACCTC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.01
40 34 0.49
41 14 0.20
42 20 0.29
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (43 bp):
GAGCATTAGCGGCGCTTCTTCAAAAAACGCCGCTAAAGCCCTA
Found at i:63307884 original size:40 final size:38
Alignment explanation
Indices: 63307822--63307913 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 38
63307812 TGCTTTTTGG
* *
63307822 AAAACGCCGCTAATGCTCATTTTTAGTGGCGTTTTTTT
1 AAAACGCCGCTAATGCTAATTTTTAGCGGCGTTTTTTT
*
63307860 AAAAGCGCCGCTAATGCTTAATTTTTAGCGGCGTTTTTATC
1 AAAA-CGCCGCTAATGC-TAATTTTTAGCGGCGTTTTT-TT
*
63307901 CAAACGCCGCTAA
1 AAAACGCCGCTAA
63307914 AAGCCTGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 4 0.09
39 12 0.26
40 27 0.57
41 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (38 bp):
AAAACGCCGCTAATGCTAATTTTTAGCGGCGTTTTTTT
Found at i:63310366 original size:69 final size:68
Alignment explanation
Indices: 63310282--63310498 Score: 294
Period size: 69 Copynumber: 3.1 Consensus size: 68
63310272 AAGCTTGCAA
* *
63310282 CTTCAAAATAGCTCGCGGACCTACACTCCCAACTAATATTATAAAGGCTCGCCGGTTTAAGATCG
1 CTTCAAAACAGCTCGCAGACCTACACTCCCAACTAATATTATAAAGGCTCGCC-GTTTAAGATCG
63310347 CAGC
65 CAGC
* * * *
63310351 CTTCAAAACAGCTCGCTA-ACCTACATTCCCAACTGATATTATTAAGGCTCACCAGTTTAAGATC
1 CTTCAAAACAGCTCGC-AGACCTACACTCCCAACTAATATTATAAAGGCTCGCC-GTTTAAGATC
63310415 GCAGC
64 GCAGC
* * *
63310420 CTCCAAAACAGCTCACAGACCTACACTCCCAGCTAATATTATAAAGGCTCGCTCGTTTAAGATCG
1 CTTCAAAACAGCTCGCAGACCTACACTCCCAACTAATATTATAAAGGCTCGC-CGTTTAAGATCG
63310485 CAG-
65 CAGC
63310488 CTTCCAAAACA
1 CTT-CAAAACA
63310499 ACGCTCCCAA
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
68 3 0.02
69 125 0.97
70 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (68 bp):
CTTCAAAACAGCTCGCAGACCTACACTCCCAACTAATATTATAAAGGCTCGCCGTTTAAGATCGC
AGC
Found at i:63310585 original size:126 final size:126
Alignment explanation
Indices: 63310377--63310606 Score: 298
Period size: 126 Copynumber: 1.8 Consensus size: 126
63310367 TAACCTACAT
* * * *
63310377 TCCCAACTGATATTATTAAGGCTCACCAGTTTAAGATCGCAGCCTCCAAAACAGCTCACAGACCT
1 TCCCAACTGATATTATAAAGACTCACCAGTTTAAGATCCCAGCCTCCAAAACAGCTCACAGACAT
* *
63310442 ACACTCCCAGCTAATATTATAAAGGCTCGCTCGTTTAAGATCGCAGCTTCCAAAACAACGC
66 ACACTCCCAACTAATATTATAAAAGCTCGCTCGTTTAAGATCGCAGCTTCCAAAACAACGC
* ** * * *
63310503 TCCCAACTGGTATTATAAAGACTTGCCGGTTTAAGATCCCAGCCTCCAAAACAGCTCGCGGACAT
1 TCCCAACTGATATTATAAAGACTCACCAGTTTAAGATCCCAGCCTCCAAAACAGCTCACAGACAT
** * * * *
63310568 ACGTTCTCAATTGATATTATAAAAGCTCGCTGGTTTAAG
66 ACACTCCCAACTAATATTATAAAAGCTCGCTCGTTTAAG
63310607 CCTCTAAAAC
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
126 86 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (126 bp):
TCCCAACTGATATTATAAAGACTCACCAGTTTAAGATCCCAGCCTCCAAAACAGCTCACAGACAT
ACACTCCCAACTAATATTATAAAAGCTCGCTCGTTTAAGATCGCAGCTTCCAAAACAACGC
Found at i:63316589 original size:30 final size:30
Alignment explanation
Indices: 63316553--63316609 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
63316543 ATAGAATTCG
*
63316553 TTAACTCGACTCGATTTGACTCGAAAATTT
1 TTAACTCGACTCGATTCGACTCGAAAATTT
* *
63316583 TTAACTCGATTCGATTCGATTCGAAAA
1 TTAACTCGACTCGATTCGACTCGAAAA
63316610 AAAATTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (30 bp):
TTAACTCGACTCGATTCGACTCGAAAATTT
Found at i:63329221 original size:5 final size:5
Alignment explanation
Indices: 63329205--63329235 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
63329195 AAAAGAGTAA
63329205 GCCCG AGCCCG GCCCG GCCCG GCCCG GCCCG
1 GCCCG -GCCCG GCCCG GCCCG GCCCG GCCCG
63329236 ATTTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.03, C:0.58, G:0.39, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:63329321 original size:13 final size:13
Alignment explanation
Indices: 63329303--63329330 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63329293 TAAAGTATTT
63329303 TAAAAATAAAAAA
1 TAAAAATAAAAAA
63329316 TAAAAATAAAAAA
1 TAAAAATAAAAAA
63329329 TA
1 TA
63329331 TATATTTATT
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:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:63329400 original size:26 final size:26
Alignment explanation
Indices: 63329371--63329425 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
63329361 CGGGCCCAGG
63329371 CCAAAAAAGTTGAGCCCGAGCCCGGC
1 CCAAAAAAGTTGAGCCCGAGCCCGGC
63329397 CCAAAAAAGTTGAGCCCGAGCCCGGC
1 CCAAAAAAGTTGAGCCCGAGCCCGGC
63329423 CCA
1 CCA
63329426 GTTTTAAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.36, G:0.25, T:0.07
Consensus pattern (26 bp):
CCAAAAAAGTTGAGCCCGAGCCCGGC
Found at i:63330138 original size:20 final size:21
Alignment explanation
Indices: 63330098--63330150 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
63330088 AAATACAAAT
*
63330098 ATAATCATAATATATATTCAA
1 ATAATCATAATATATAATCAA
*
63330119 ATAATTATAA-ATATAATCAA
1 ATAATCATAATATATAATCAA
63330139 ATCAAT-ATAATA
1 AT-AATCATAATA
63330151 CACAATTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATCATAATATATAATCAA
Found at i:63353773 original size:42 final size:42
Alignment explanation
Indices: 63353626--63353781 Score: 120
Period size: 42 Copynumber: 3.7 Consensus size: 42
63353616 CGTGTTTACT
* * * * * *
63353626 TTTC-GTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGG
* * * * ** *
63353667 TTTCCGTTCAGCT-TTATTGAACTTCTATTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTCA-CGAGCTTCCGTTCAACCCTTATGGG
* *
63353709 TTTTTGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGG
* *
63353751 TTTCTGTTTAGCTCTCATGAGC-TCCTGTTCA
1 TTTCTGTTCAGCTCTCACGAGCTTCC-GTTCA
63353782 GCCTTCGGGC
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
41 9 0.10
42 80 0.87
43 3 0.03
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGG
Found at i:63362059 original size:19 final size:19
Alignment explanation
Indices: 63362037--63362074 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
63362027 AGAACATTCA
63362037 TTTTAACAATATTCATTTTT
1 TTTTAA-AATATTCATTTTT
*
63362057 TTTTAAAATTTTCATTTT
1 TTTTAAAATATTCATTTT
63362075 AGATTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAAAATATTCATTTTT
Found at i:63362283 original size:34 final size:34
Alignment explanation
Indices: 63362239--63362307 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
63362229 AAATATCTAA
63362239 TACAAATTTTCTTTTGGTAAGAATGGAAATTTAG
1 TACAAATTTTCTTTTGGTAAGAATGGAAATTTAG
*
63362273 TACAATTTTTCTTTTGGTAAGAATGGAAATTTAG
1 TACAAATTTTCTTTTGGTAAGAATGGAAATTTAG
63362307 T
1 T
63362308 TCAAGACTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (34 bp):
TACAAATTTTCTTTTGGTAAGAATGGAAATTTAG
Found at i:63367316 original size:27 final size:28
Alignment explanation
Indices: 63367279--63367335 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
63367269 TTGACTGGAT
* *
63367279 TTTAATAATTTTTATTTTTAATATTTCA
1 TTTAATAATTTTTAGTATTAATATTTCA
*
63367307 TTTAAT-ATTTTTGGTATTAATATTTCA
1 TTTAATAATTTTTAGTATTAATATTTCA
63367334 TT
1 TT
63367336 AAAGTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTAATAATTTTTAGTATTAATATTTCA
Found at i:63367888 original size:18 final size:16
Alignment explanation
Indices: 63367865--63367902 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
63367855 TTATATATAT
63367865 TTAAAAATTATACAAAAA
1 TTAAAAATTA-A-AAAAA
63367883 TTAAAAATTAAAAAAA
1 TTAAAAATTAAAAAAA
63367899 TTAA
1 TTAA
63367903 TACGGCGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAAATTAAAAAAA
Found at i:63368285 original size:29 final size:30
Alignment explanation
Indices: 63368227--63368288 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
63368217 ATCTTAAAAT
* *
63368227 TATACATGAATTTTAATTTAATGTACAATTA
1 TATACATGAATTTTAATTT-AGGTAAAATTA
63368258 TATACATGAATTTTAATTT-GGTAAAATTA
1 TATACATGAATTTTAATTTAGGTAAAATTA
63368287 TA
1 TA
63368289 CACGTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.34
31 19 0.66
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (30 bp):
TATACATGAATTTTAATTTAGGTAAAATTA
Found at i:63368296 original size:29 final size:29
Alignment explanation
Indices: 63368221--63368296 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
63368211 AGATAAATCT
*
63368221 TAAAATTATACA-TGAATTTTAATTTAATG
1 TAAAATTATACACTGAATTTTAATTT-AGG
* *
63368250 TACAATTATATACATGAATTTTAATTT-GG
1 TAAAATTATACAC-TGAATTTTAATTTAGG
63368279 TAAAATTATACACGTGAA
1 TAAAATTATACAC-TGAA
63368297 ACTCTAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 26 0.67
31 13 0.33
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (29 bp):
TAAAATTATACACTGAATTTTAATTTAGG
Found at i:63369435 original size:124 final size:125
Alignment explanation
Indices: 63369130--63369696 Score: 728
Period size: 125 Copynumber: 4.5 Consensus size: 125
63369120 GATAAAATCA
* * * * * * * *
63369130 AAGCAGGACGATTTATCAGAAGGATTTTTGCAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
63369195 CGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
63369255 AAGCAGGATGCTATATGCGAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
63369320 -TGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTGTGCAAATAGTAT-AAAATCGCTTC
66 AGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
63369379 TACCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
63369444 AGGTCCTGAAAAAATTATTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTC
* * * *
63369505 AAGTAGGATGCTATT-TGAGAAGAATTTCTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * * * *
63369569 TTGGTCCTGGTAGAATTAATTTCGAGTTGACATTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
63369630 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
63369695 AG
66 AG
63369697 CATGTATGGG
Statistics
Matches: 380, Mismatches: 55, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
124 110 0.29
125 163 0.43
126 70 0.18
127 37 0.10
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:63369674 original size:251 final size:249
Alignment explanation
Indices: 63369131--63369696 Score: 862
Period size: 251 Copynumber: 2.3 Consensus size: 249
63369121 ATAAAATCAA
* * * * * * * * *
63369131 AGCAGGACGATTTATCAGAAGGATTTTTGCAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTC
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
**
63369196 GGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAG
66 GGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAG
* * *
63369261 GATGCTATATGCGAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGTCCT
131 GATGCTATATGAGAAGAATTTCTGAAATCACGCCCTCCTGGACGCGCTTTTGCTACAGTTGTCCT
* * *
63369326 GGAAGAAATAATTTTGAGTTGACGTTTCTGTGCAAATAGTATAAAATCGCTTCT
196 GGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCT
* * *
63369380 ACCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
* *
63369445 GGTCCTGAAAAAATTATTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAGTA
66 GGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAGCA
* *
63369510 GGATGCTATTTGAGAAGAATTTCTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTC
130 GGATGCTATATGAGAAGAATTTCTGAAATCACGCCCTCCTGGACGCGCTTTTGCTACAGTT-GTC
* *
63369575 CTGGTAGAATTAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCT
194 CTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCT
* *
63369631 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTATAGTA
1 AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
63369696 G
66 G
63369697 CATGTATGGG
Statistics
Matches: 284, Mismatches: 31, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
249 97 0.34
250 72 0.25
251 115 0.40
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (249 bp):
AGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
GGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAG
GATGCTATATGAGAAGAATTTCTGAAATCACGCCCTCCTGGACGCGCTTTTGCTACAGTTGTCCT
GGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCT
Found at i:63372886 original size:22 final size:22
Alignment explanation
Indices: 63372857--63373006 Score: 69
Period size: 22 Copynumber: 6.7 Consensus size: 22
63372847 TTTAGGGTAT
63372857 AAGG-TTAGGGTTTTTAAGTTA
1 AAGGTTTAGGGTTTTTAAGTTA
63372878 AAGGTTTAGGGTTTGGGGTTTTAAG-TA
1 AAGGTTTAGGG--T----TTTTAAGTTA
* *
63372905 AAGGGTTTAAGGTTTTTAGGTT-
1 AA-GGTTTAGGGTTTTTAAGTTA
* *
63372927 TAGAGTTT-GGGGTTTTAAGTTA
1 AAG-GTTTAGGGTTTTTAAGTTA
* *
63372949 AAGGTTATA--GTTTTTAGGTTT
1 AAGGTT-TAGGGTTTTTAAGTTA
* * ** * *
63372970 AGGGTTAATAGTTTTTAATTTT
1 AAGGTTTAGGGTTTTTAAGTTA
63372992 AAGGTTTAGGGTTTT
1 AAGGTTTAGGGTTTT
63373007 AGGGTTTTAA
Statistics
Matches: 96, Mismatches: 18, Indels: 29
0.67 0.13 0.20
Matches are distributed among these distances:
20 1 0.01
21 32 0.33
22 41 0.43
23 1 0.01
24 1 0.01
26 1 0.01
27 4 0.04
28 15 0.16
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (22 bp):
AAGGTTTAGGGTTTTTAAGTTA
Found at i:63372899 original size:28 final size:28
Alignment explanation
Indices: 63372850--63372919 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
63372840 TTAAAGGTTT
* * *
63372850 AGGGTATAAGGTTAGGGTTTTTAAGTTAA
1 AGGGTTTAAGGTTTGGGGTTTTAAG-TAA
*
63372879 A-GGTTTAGGGTTTGGGGTTTTAAGTAA
1 AGGGTTTAAGGTTTGGGGTTTTAAGTAA
63372906 AGGGTTTAAGGTTT
1 AGGGTTTAAGGTTT
63372920 TTAGGTTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 4 0.11
28 30 0.86
29 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (28 bp):
AGGGTTTAAGGTTTGGGGTTTTAAGTAA
Found at i:63373016 original size:29 final size:29
Alignment explanation
Indices: 63372945--63373004 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
63372935 GGGGTTTTAA
* * *
63372945 GTTAA-AGGTTATAGTTTTTAGGTTTAGG
1 GTTAATAGGTTTTAATTTTAAGGTTTAGG
*
63372973 GTTAATAGTTTTTAATTTTAAGGTTTAGG
1 GTTAATAGGTTTTAATTTTAAGGTTTAGG
63373002 GTT
1 GTT
63373005 TTAGGGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (29 bp):
GTTAATAGGTTTTAATTTTAAGGTTTAGG
Found at i:63373073 original size:21 final size:20
Alignment explanation
Indices: 63373036--63373079 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
63373026 TTTTAAAGTT
* *
63373036 TTTAGGTTTAGAGTTTAGTG
1 TTTAGGTTTAAAGTTTAGGG
*
63373056 TTTAGGGTTTAAATTTTAGGG
1 TTTA-GGTTTAAAGTTTAGGG
63373077 TTT
1 TTT
63373080 TTAAGTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (20 bp):
TTTAGGTTTAAAGTTTAGGG
Found at i:63373186 original size:8 final size:7
Alignment explanation
Indices: 63373140--63373265 Score: 72
Period size: 7 Copynumber: 17.6 Consensus size: 7
63373130 GGGGTTTAAT
63373140 GTTTAGG
1 GTTTAGG
*
63373147 GCTTAGG
1 GTTTAGG
*
63373154 GCTTAGG
1 GTTTAGG
*
63373161 GTTTAGT
1 GTTTAGG
63373168 GTTTAGG
1 GTTTAGG
63373175 GTTTAGGG
1 GTTTA-GG
**
63373183 GTTTAAA
1 GTTTAGG
**
63373190 GTTTAAAA
1 GTTT-AGG
63373198 GTTTAGG
1 GTTTAGG
*
63373205 ATTTAGG
1 GTTTAGG
**
63373212 GTTTAAT
1 GTTTAGG
*
63373219 GCTTAGTG
1 GTTTAG-G
* *
63373227 TTTTAGA
1 GTTTAGG
*
63373234 GTTTAGT
1 GTTTAGG
*
63373241 GTTTAGA
1 GTTTAGG
*
63373248 GTTTAAG
1 GTTTAGG
*
63373255 GTTTAAG
1 GTTTAGG
63373262 GTTT
1 GTTT
63373266 TTAAGTTAAG
Statistics
Matches: 93, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
7 75 0.81
8 18 0.19
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:63373301 original size:33 final size:34
Alignment explanation
Indices: 63373250--63373346 Score: 135
Period size: 33 Copynumber: 2.9 Consensus size: 34
63373240 TGTTTAGAGT
* *
63373250 TTAAGGTTTAAGGTTTTTAAGTTAAGGGTTAGGA
1 TTAAGGATTAGGGTTTTTAAGTTAAGGGTTAGGA
*
63373284 TTAAGG-TTAGGGTTTTTAAGTTAATGGTTAGGA
1 TTAAGGATTAGGGTTTTTAAGTTAAGGGTTAGGA
**
63373317 TT-AGGATTAGATTTTTTAAGTTAAGGGTTA
1 TTAAGGATTAGGGTTTTTAAGTTAAGGGTTA
63373347 TGGTTTTTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
32 3 0.05
33 48 0.84
34 6 0.11
ACGTcount: A:0.29, C:0.00, G:0.28, T:0.43
Consensus pattern (34 bp):
TTAAGGATTAGGGTTTTTAAGTTAAGGGTTAGGA
Found at i:63373380 original size:21 final size:21
Alignment explanation
Indices: 63373330--63373381 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
63373320 GGATTAGATT
*
63373330 TTTTAA-GTTAAGGGTTATGG
1 TTTTAAGGTTTAGGGTTATGG
**
63373350 TTTTTTGGTTTAGGGTTTATGG
1 TTTTAAGGTTTAGGG-TTATGG
63373372 -TTTAAGGTTT
1 TTTTAAGGTTT
63373382 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.16
21 15 0.60
22 6 0.24
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (21 bp):
TTTTAAGGTTTAGGGTTATGG
Found at i:63373431 original size:7 final size:7
Alignment explanation
Indices: 63373421--63373489 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
63373411 TAGATTTTTT
63373421 AGGTTTA
1 AGGTTTA
63373428 AGGTTTA
1 AGGTTTA
63373435 AGGTTTTA
1 AGG-TTTA
** *
63373443 AAATTCAA
1 AGGTT-TA
*
63373451 ATGTTTA
1 AGGTTTA
* *
63373458 AGATTTT
1 AGGTTTA
63373465 AGGTTTA
1 AGGTTTA
63373472 AGGTTTA
1 AGGTTTA
63373479 AGG-TTA
1 AGGTTTA
63373485 AGGTT
1 AGGTT
63373490 AGGGTTACAG
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
6 6 0.12
7 33 0.69
8 9 0.19
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.43
Consensus pattern (7 bp):
AGGTTTA
Found at i:63373578 original size:22 final size:22
Alignment explanation
Indices: 63373553--63373637 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
63373543 AGGGTTATAG
63373553 TTTTTAGGTTTAAGGTTTTTAA
1 TTTTTAGGTTTAAGGTTTTTAA
*
63373575 -TTTTATGGTTTATGGTTTTTAA
1 TTTTTA-GGTTTAAGGTTTTTAA
* *
63373597 TGTTTAGTGTTTAAAG--TTTAA
1 TTTTTAG-GTTTAAGGTTTTTAA
*
63373618 GGTTTTTAGGTTTAGGGTTT
1 --TTTTTAGGTTTAAGGTTT
63373638 AGTATTTAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
21 10 0.20
22 22 0.45
23 16 0.33
24 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.58
Consensus pattern (22 bp):
TTTTTAGGTTTAAGGTTTTTAA
Found at i:63373636 original size:7 final size:7
Alignment explanation
Indices: 63373622--63373950 Score: 63
Period size: 7 Copynumber: 46.4 Consensus size: 7
63373612 GTTTAAGGTT
63373622 TTTA-GG
1 TTTAGGG
63373628 TTTAGGG
1 TTTAGGG
**
63373635 TTTAGTA
1 TTTAGGG
*
63373642 TTTAGAG
1 TTTAGGG
*
63373649 TTTAGTG
1 TTTAGGG
*
63373656 TTTATGGTT
1 TTTA-GG-G
*
63373665 TTTA-AG
1 TTTAGGG
63373671 -TTAGGG
1 TTTAGGG
63373677 TTTAGGG
1 TTTAGGG
*
63373684 TTTAGTAG
1 TTTAG-GG
**
63373692 TTATA-TT
1 TT-TAGGG
63373699 TTTA-GG
1 TTTAGGG
63373705 TTTAGGG
1 TTTAGGG
*
63373712 TTTAGGAT
1 TTTAGG-G
**
63373720 TTTAAAG
1 TTTAGGG
*
63373727 TTTAATGG
1 TTT-AGGG
* *
63373735 TTTAAGA
1 TTTAGGG
63373742 TTTAGGG
1 TTTAGGG
* *
63373749 TTTAAGA
1 TTTAGGG
*
63373756 TTTATGGT
1 TTTA-GGG
*
63373764 TTTAAGG
1 TTTAGGG
*
63373771 TTTAGAG
1 TTTAGGG
*
63373778 TTTAGAG
1 TTTAGGG
*
63373785 TTTAAGG
1 TTTAGGG
*
63373792 TTTAGTGTT
1 TTTAG-G-G
*
63373801 TTTA-AG
1 TTTAGGG
*
63373807 TTAAGGG
1 TTTAGGG
63373814 -TTAGGG
1 TTTAGGG
63373820 -TTAGGG
1 TTTAGGG
*
63373826 -TTAGTGTT
1 TTTAG-G-G
*
63373834 TTTA-AG
1 TTTAGGG
*
63373840 TTAAGGG
1 TTTAGGG
*
63373847 -TTATGGTT
1 TTTA-GG-G
63373855 TTTA-GG
1 TTTAGGG
63373861 TTTAGGG
1 TTTAGGG
*
63373868 TTTATGGTT
1 TTTA-GG-G
***
63373877 TTTAATA
1 TTTAGGG
*
63373884 TTTAAGG
1 TTTAGGG
63373891 TTTAGGG
1 TTTAGGG
*
63373898 TTTATGGTT
1 TTTA-GG-G
63373907 TTTA-GG
1 TTTAGGG
*
63373913 TTTAGTG
1 TTTAGGG
*
63373920 TTTAGTG
1 TTTAGGG
*
63373927 TTTAGTG
1 TTTAGGG
*
63373934 TTTAGTG
1 TTTAGGG
63373941 TTTAGGG
1 TTTAGGG
63373948 TTT
1 TTT
63373951 TTAAGTTATG
Statistics
Matches: 235, Mismatches: 61, Indels: 53
0.67 0.17 0.15
Matches are distributed among these distances:
5 3 0.01
6 42 0.18
7 143 0.61
8 23 0.10
9 24 0.10
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.50
Consensus pattern (7 bp):
TTTAGGG
Found at i:63373652 original size:43 final size:42
Alignment explanation
Indices: 63373599--63373681 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
63373589 GTTTTTAATG
* *
63373599 TTTAGTGTTTAAAGTTTAAGGTTTTTAGGTTTAGGGTTTAGTA
1 TTTAGAGTTTAAAGTTTAAGGTTTTTAAG-TTAGGGTTTAGTA
** *
63373642 TTTAGAGTTTAGTGTTTATGGTTTTTAAGTTAGGGTTTAG
1 TTTAGAGTTTAAAGTTTAAGGTTTTTAAGTTAGGGTTTAG
63373682 GGTTTAGTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 11 0.31
43 24 0.69
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.52
Consensus pattern (42 bp):
TTTAGAGTTTAAAGTTTAAGGTTTTTAAGTTAGGGTTTAGTA
Found at i:63373767 original size:29 final size:29
Alignment explanation
Indices: 63373720--63373794 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
63373710 GGTTTAGGAT
* *
63373720 TTTAAAGTTTAATGG-TTTAAGATTTAGGG
1 TTTAGAGTTT-ATGGTTTTAAGATTTAGAG
*
63373749 TTTA-AGATTTATGGTTTTAAGGTTTAGAG
1 TTTAGAG-TTTATGGTTTTAAGATTTAGAG
*
63373778 TTTAGAGTTTAAGGTTT
1 TTTAGAGTTTATGGTTT
63373795 AGTGTTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 6 0.15
29 32 0.80
30 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (29 bp):
TTTAGAGTTTATGGTTTTAAGATTTAGAG
Found at i:63373782 original size:36 final size:36
Alignment explanation
Indices: 63373699--63373806 Score: 105
Period size: 36 Copynumber: 3.0 Consensus size: 36
63373689 TAGTTATATT
* **
63373699 TTTAG-GTTTAGGGTTTAGGATTTTAAAG-TTTAATGG
1 TTTAGAGTTTAGGGTTTAAGA-TTTATGGTTTTAA-GG
63373735 TTTA-AGATTTAGGGTTTAAGATTTATGGTTTTAAGG
1 TTTAGAG-TTTAGGGTTTAAGATTTATGGTTTTAAGG
* * *
63373771 TTTAGAGTTTAGAGTTTAAGGTTTAGTGTTTTTAAG
1 TTTAGAGTTTAGGGTTTAAGATTTA-TGGTTTTAAG
63373807 TTAAGGGTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
36 32 0.52
37 29 0.48
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (36 bp):
TTTAGAGTTTAGGGTTTAAGATTTATGGTTTTAAGG
Found at i:63373812 original size:21 final size:21
Alignment explanation
Indices: 63373592--63373801 Score: 87
Period size: 21 Copynumber: 9.8 Consensus size: 21
63373582 GTTTATGGTT
* * *
63373592 TTTAATGTTTAGTGTTTAAAG
1 TTTAAGGTTTAGAGTTTAGAG
*
63373613 TTTAAGGTTTTTAG-GTTTAGGG
1 TTTAAGG--TTTAGAGTTTAGAG
* *
63373635 TTT-AGTATTTAGAGTTTAGTG
1 TTTAAG-GTTTAGAGTTTAGAG
* *
63373656 TTTATGGTTTTTA-AG-TTAGGG
1 TTTAAGG--TTTAGAGTTTAGAG
* * *
63373677 TTTAGGGTTTAGTAG-TTATAT
1 TTTAAGGTTTAG-AGTTTAGAG
* * *
63373698 TTTTAGGTTTAGGGTTTAGGAT
1 TTTAAGGTTTAGAGTTTA-GAG
*
63373720 TTTAAAGTTTA-ATGGTTTA-AG
1 TTTAAGGTTTAGA--GTTTAGAG
*
63373741 ATTTAGGGTTTA-AGATTTATG-G
1 -TTTAAGGTTTAGAG-TTTA-GAG
63373763 TTTTAAGGTTTAGAGTTTAGAG
1 -TTTAAGGTTTAGAGTTTAGAG
*
63373785 TTTAAGGTTTAGTGTTT
1 TTTAAGGTTTAGAGTTT
63373802 TTAAGTTAAG
Statistics
Matches: 145, Mismatches: 25, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
19 4 0.03
20 7 0.05
21 69 0.48
22 49 0.34
23 16 0.11
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTAGAGTTTAGAG
Found at i:63373872 original size:22 final size:21
Alignment explanation
Indices: 63373814--63373880 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
63373804 AAGTTAAGGG
*
63373814 TTAGGGTTAGGGTTA-GTGTTT
1 TTAGGTTTAGGGTTATG-GTTT
* *
63373835 TTAAGTTAAGGGTTATGGTTT
1 TTAGGTTTAGGGTTATGGTTT
63373856 TTAGGTTTAGGGTTTATGGTTT
1 TTAGGTTTAGGG-TTATGGTTT
63373878 TTA
1 TTA
63373881 ATATTTAAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 26 0.67
22 13 0.33
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (21 bp):
TTAGGTTTAGGGTTATGGTTT
Found at i:63373916 original size:22 final size:21
Alignment explanation
Indices: 63373888--63374061 Score: 106
Period size: 22 Copynumber: 8.0 Consensus size: 21
63373878 TTAATATTTA
63373888 AGGTTTAGGGTTTATGGTTTTT
1 AGGTTTAGGGTTTA-GGTTTTT
* *
63373910 AGGTTTAGTGTTTA-GTGTTT
1 AGGTTTAGGGTTTAGGTTTTT
*
63373930 AGTGTTTAGTGTTTAGGGTTTTT
1 AG-GTTTAGGGTTTA-GGTTTTT
* * * *
63373953 AAG-TTATGAG-TTATG-ATTT
1 AGGTTTA-GGGTTTAGGTTTTT
63373972 ATGGTTTAGGGTTTAGGTTTTTT
1 A-GGTTTAGGGTTTAGG-TTTTT
* *
63373995 AGGTTTAAGGTTTGTGGTTTTT
1 AGGTTTAGGGTTT-AGGTTTTT
* **
63374017 AAGTTTAAAGTTTAGAGTTTTAT
1 AGGTTTAGGGTTTAG-GTTTT-T
*
63374040 A-TTTTAGGGTTTAAGGTTTTT
1 AGGTTTAGGGTTT-AGGTTTTT
63374061 A
1 A
63374062 AGTTAAAGGT
Statistics
Matches: 120, Mismatches: 19, Indels: 27
0.72 0.11 0.16
Matches are distributed among these distances:
19 4 0.03
20 11 0.09
21 28 0.23
22 61 0.51
23 16 0.13
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (21 bp):
AGGTTTAGGGTTTAGGTTTTT
Found at i:63373938 original size:21 final size:20
Alignment explanation
Indices: 63373888--63373950 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
63373878 TTAATATTTA
* *
63373888 AGGTTTAGGGTTTATGGTTTTT
1 AGGTTTAGTGTTTA-GG-GTTT
*
63373910 AGGTTTAGTGTTTAGTGTTT
1 AGGTTTAGTGTTTAGGGTTT
63373930 AGTGTTTAGTGTTTAGGGTTT
1 AG-GTTTAGTGTTTAGGGTTT
63373951 TTAAGTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 5 0.14
21 18 0.50
22 13 0.36
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (20 bp):
AGGTTTAGTGTTTAGGGTTT
Found at i:63373987 original size:42 final size:43
Alignment explanation
Indices: 63373883--63374001 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 43
63373873 GGTTTTTAAT
* * *
63373883 ATTTAAGGTTTAGGGTTTATGGTTTTTAGGTTTAGTGTTTAGTG
1 ATTT-AGGTTTAGGGTTTAGGGTTTTTAAGTTTAGTGGTTAGTG
*
63373927 -TTTAGTGTTTAGTGTTTAGGGTTTTTAAG-TTA-TGAGTTA-TG
1 ATTTAG-GTTTAGGGTTTAGGGTTTTTAAGTTTAGTG-GTTAGTG
* *
63373968 ATTTATGGTTTAGGGTTTAGGTTTTTTAGGTTTA
1 ATTTA-GGTTTAGGGTTTAGGGTTTTTAAGTTTA
63374002 AGGTTTGTGG
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
41 4 0.06
42 32 0.51
43 27 0.43
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (43 bp):
ATTTAGGTTTAGGGTTTAGGGTTTTTAAGTTTAGTGGTTAGTG
Found at i:63374072 original size:22 final size:21
Alignment explanation
Indices: 63373981--63374072 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 21
63373971 TATGGTTTAG
* *
63373981 GGTTTAGGTTTTTTAGGTTTAA
1 GGTTTAGG-TTTTTAAGTTAAA
*
63374003 GGTTTGTGGTTTTTAAGTTTAAA
1 GGTTT-AGGTTTTTAAG-TTAAA
* * *
63374026 -GTTTAGAG-TTTTATATTTTAG
1 GGTTTAG-GTTTTTA-AGTTAAA
63374047 GGTTTAAGGTTTTTAAGTTAAA
1 GGTTT-AGGTTTTTAAGTTAAA
63374069 GGTT
1 GGTT
63374073 ATGATTAGGG
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
21 9 0.17
22 31 0.58
23 13 0.25
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (21 bp):
GGTTTAGGTTTTTAAGTTAAA
Found at i:63374096 original size:33 final size:34
Alignment explanation
Indices: 63374043--63374119 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
63374033 GTTTTATATT
63374043 TTAGGGTTTAAGGTTTTTAAGTTAAAGGTTATGA
1 TTAGGGTTTAAGGTTTTTAAGTTAAAGGTTATGA
*
63374077 TTAGGG-TT-AGGATTTTTAAGTTAAGGGTTA-GAA
1 TTAGGGTTTAAGG-TTTTTAAGTTAAAGGTTATG-A
*
63374110 TTATGGTTTA
1 TTAGGGTTTA
63374120 GTGTTTAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
32 4 0.11
33 25 0.68
34 8 0.22
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (34 bp):
TTAGGGTTTAAGGTTTTTAAGTTAAAGGTTATGA
Found at i:63374125 original size:7 final size:7
Alignment explanation
Indices: 63374114--63374266 Score: 67
Period size: 7 Copynumber: 21.1 Consensus size: 7
63374104 TTAGAATTAT
63374114 GGTTTAG
1 GGTTTAG
*
63374121 TGTTTAG
1 GGTTTAG
63374128 GGTTTAG
1 GGTTTAG
63374135 GGTTTTTA-
1 GG--TTTAG
*
63374143 GGTTTAA
1 GGTTTAG
63374150 GGTTTATG
1 GGTTTA-G
* *
63374158 GTTTTAA
1 GGTTTAG
* *
63374165 AGTTTAAA
1 GGTTT-AG
*
63374173 GATTTAG
1 GGTTTAG
*
63374180 TGTTTA-
1 GGTTTAG
63374186 GGTTTATG
1 GGTTTA-G
* *
63374194 GTTTTAA
1 GGTTTAG
*
63374201 AGTTTAG
1 GGTTTAG
63374208 GGTTTAG
1 GGTTTAG
*
63374215 GGTTTTAA
1 GG-TTTAG
*
63374223 AGTTTAG
1 GGTTTAG
*
63374230 GATTTTAG
1 G-GTTTAG
63374238 GGTTTAG
1 GGTTTAG
* *
63374245 GATTTAA
1 GGTTTAG
* *
63374252 AGTTTAA
1 GGTTTAG
63374259 GGTTTAG
1 GGTTTAG
63374266 G
1 G
63374267 ATTTTTAAGT
Statistics
Matches: 106, Mismatches: 31, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
6 9 0.08
7 65 0.61
8 28 0.26
9 4 0.04
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:63374148 original size:22 final size:23
Alignment explanation
Indices: 63374116--63374162 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
63374106 AGAATTATGG
*
63374116 TTTAGTGTTTAGGGTTTAGGGTT
1 TTTAGTGTTTAAGGTTTAGGGTT
*
63374139 TTTAG-GTTTAAGGTTTATGGTT
1 TTTAGTGTTTAAGGTTTAGGGTT
63374161 TT
1 TT
63374163 AAAGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (23 bp):
TTTAGTGTTTAAGGTTTAGGGTT
Found at i:63374169 original size:22 final size:22
Alignment explanation
Indices: 63374122--63374284 Score: 76
Period size: 22 Copynumber: 7.5 Consensus size: 22
63374112 ATGGTTTAGT
* * *
63374122 GTTTAGGGTTTAGGGTTTTTAG
1 GTTTAAGGTTTAGGGTTTTAAA
*
63374144 GTTTAAGGTTTATGGTTTTAAA
1 GTTTAAGGTTTAGGGTTTTAAA
* * *
63374166 GTTTAAAGATTTAGTG-TTT-AG
1 GTTT-AAGGTTTAGGGTTTTAAA
63374187 GTTT-A----T--GGTTTTAAA
1 GTTTAAGGTTTAGGGTTTTAAA
*
63374202 GTTTAGGGTTTAGGGTTTTAAA
1 GTTTAAGGTTTAGGGTTTTAAA
63374224 GTTT-AGGATTTTAGGGTTTAGGATTTAAA
1 GTTTAAGG--TTTAGGG--T----TTTAAA
* *
63374253 GTTTAAGGTTTAGGATTTTTAA
1 GTTTAAGGTTTAGGGTTTTAAA
*
63374275 GTTAAAGGTT
1 GTTTAAGGTT
63374285 AGGATTAAGG
Statistics
Matches: 107, Mismatches: 15, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
13 1 0.01
14 3 0.03
15 6 0.06
19 1 0.01
20 1 0.01
21 7 0.07
22 52 0.49
23 15 0.14
25 1 0.01
26 1 0.01
28 6 0.06
29 10 0.09
30 3 0.03
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (22 bp):
GTTTAAGGTTTAGGGTTTTAAA
Found at i:63374211 original size:15 final size:15
Alignment explanation
Indices: 63374209--63374263 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
63374199 AAAGTTTAGG
63374209 GTTTAGGGTTTTAAA
1 GTTTAGGGTTTTAAA
* **
63374224 GTTTAGGATTTTAGG
1 GTTTAGGGTTTTAAA
*
63374239 GTTTA-GGATTTAAA
1 GTTTAGGGTTTTAAA
*
63374253 GTTTAAGGTTT
1 GTTTAGGGTTT
63374264 AGGATTTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
14 10 0.32
15 21 0.68
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (15 bp):
GTTTAGGGTTTTAAA
Found at i:63374267 original size:21 final size:21
Alignment explanation
Indices: 63374233--63374290 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
63374223 AGTTTAGGAT
*
63374233 TTTAGGGTTTAGGATTTAAAG
1 TTTAAGGTTTAGGATTTAAAG
*
63374254 TTTAAGGTTTAGGATTTTTAAG
1 TTTAAGGTTTAGGA-TTTAAAG
*
63374276 TTAAAGG-TTAGGATT
1 TTTAAGGTTTAGGATT
63374291 AAGGTTAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 19 0.58
22 12 0.36
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (21 bp):
TTTAAGGTTTAGGATTTAAAG
Found at i:63374317 original size:21 final size:22
Alignment explanation
Indices: 63374293--63374360 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
63374283 TTAGGATTAA
*
63374293 GGTTAGGGTTTTTAAGTTAT-G
1 GGTTAAGGTTTTTAAGTTATAG
* *
63374314 GGTTATGGTTTTTTAGTT-TAG
1 GGTTAAGGTTTTTAAGTTATAG
63374335 GGTTTAAGGTTTTTAA-TTATAG
1 GG-TTAAGGTTTTTAAGTTATAG
63374357 GGTT
1 GGTT
63374361 TAGTGTTTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.03
21 23 0.57
22 16 0.40
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.51
Consensus pattern (22 bp):
GGTTAAGGTTTTTAAGTTATAG
Found at i:63374318 original size:33 final size:34
Alignment explanation
Indices: 63374047--63374311 Score: 100
Period size: 36 Copynumber: 7.6 Consensus size: 34
63374037 TATATTTTAG
*
63374047 GGTTTAAGG-TTTTTAAGTTAAAGGTTATGATT-A
1 GGTTT-AGGATTTTTAAGTTAAAGGTTAGGATTAA
* * * *
63374080 GGGTTAGGATTTTTAAGTTAAGGGTTAGAATTAT
1 GGTTTAGGATTTTTAAGTTAAAGGTTAGGATTAA
* * * * *
63374114 GGTTTA-G-TGTTTAGGGTTTAGGGTTTTTAGGTTTAA
1 GGTTTAGGATTTTTA-AGTTAAAGG---TTAGGATTAA
* * *
63374150 GGTTTATGG-TTTTAAAGTTTAAAGATTTAGTG-TTTA
1 GGTTTA-GGATTTTTAAG-TTAAAG-GTTAG-GATTAA
* * * *
63374186 GGTTTATGG-TTTTAAAGTTTAGGGTTTAGGGTTTTAA
1 GGTTTA-GGATTTTTAAGTTAAAGG-TTA-GG-ATTAA
* * * * *
63374223 AGTTTAGGA-TTTTAGGGTT-TAGGATTTAAAGTTTAA
1 GGTTTAGGATTTTTA-AGTTAAAGG--TT-AGGATTAA
63374259 GGTTTAGGATTTTTAAGTTAAAGGTTAGGATTAA
1 GGTTTAGGATTTTTAAGTTAAAGGTTAGGATTAA
*
63374293 GG-TTAGGGTTTTTAAGTTA
1 GGTTTAGGATTTTTAAGTTA
63374312 TGGGTTATGG
Statistics
Matches: 176, Mismatches: 35, Indels: 42
0.70 0.14 0.17
Matches are distributed among these distances:
32 8 0.05
33 48 0.27
34 13 0.07
35 10 0.06
36 62 0.35
37 25 0.14
38 10 0.06
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (34 bp):
GGTTTAGGATTTTTAAGTTAAAGGTTAGGATTAA
Found at i:63374362 original size:29 final size:27
Alignment explanation
Indices: 63374329--63374432 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 27
63374319 TGGTTTTTTA
*
63374329 GTTTAGGGTTTAAGGTTTTTAATTATAGG
1 GTTTAGGGTTT-AGGTTTTAAATTATA-G
* *
63374358 GTTTAGTGTTTA-GTGTTTAAATTTTTTAG
1 GTTTAGGGTTTAGGT-TTTAAA--TTATAG
* *
63374387 GTTTAGGGTTTATGTTTTAAAATCTAAAG
1 GTTTAGGGTTTAGGTTTT-AAAT-TATAG
63374416 GTTTAGGGTTTAAGGTT
1 GTTTAGGGTTT-AGGTT
63374433 CAAAGTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
27 2 0.03
28 7 0.11
29 39 0.64
30 13 0.21
ACGTcount: A:0.24, C:0.01, G:0.25, T:0.50
Consensus pattern (27 bp):
GTTTAGGGTTTAGGTTTTAAATTATAG
Found at i:63374368 original size:22 final size:22
Alignment explanation
Indices: 63374295--63374368 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
63374285 AGGATTAAGG
*
63374295 TTAGGGTTTTTAAGTTAT-GGGT
1 TTAGTGTTTTTAA-TTATAGGGT
* *
63374317 TATGGT-TTTTTAGTT-TAGGGT
1 T-TAGTGTTTTTAATTATAGGGT
63374338 TTAAG-GTTTTTAATTATAGGGT
1 TT-AGTGTTTTTAATTATAGGGT
63374360 TTAGTGTTT
1 TTAGTGTTT
63374369 AGTGTTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
20 2 0.05
21 18 0.44
22 19 0.46
23 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (22 bp):
TTAGTGTTTTTAATTATAGGGT
Found at i:63374369 original size:36 final size:35
Alignment explanation
Indices: 63374325--63374403 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 35
63374315 GTTATGGTTT
*
63374325 TTTA-GTTTAGGGTTTAAGGTTTTTA-ATTATAGGG
1 TTTATGTTTAGGGTTTAAAGTTTTTAGATT-TAGGG
* * *
63374359 TTTAGTGTTTAGTGTTTAAATTTTTTAGGTTTAGGG
1 TTTA-TGTTTAGGGTTTAAAGTTTTTAGATTTAGGG
63374395 TTTATGTTT
1 TTTATGTTT
63374404 TAAAATCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
34 4 0.11
35 5 0.13
36 27 0.71
37 2 0.05
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (35 bp):
TTTATGTTTAGGGTTTAAAGTTTTTAGATTTAGGG
Found at i:63374419 original size:58 final size:57
Alignment explanation
Indices: 63374322--63374476 Score: 154
Period size: 58 Copynumber: 2.7 Consensus size: 57
63374312 TGGGTTATGG
* * * * *
63374322 TTTTTTA-GTTTAGGGTTTAAGGTTTTTAATTATAGGGTTTAGTGTTT-AGTGTTTAAA
1 TTTTTTAGGTTTAGGGTTTAATGTTTTAAATTA-AAGGTTTAGGGTTTAAG-GTTCAAA
63374379 TTTTTTAGGTTTAGGGTTT-ATGTTTTAAAATCTAAAGGTTTAGGGTTTAAGGTTCAAA
1 TTTTTTAGGTTTAGGGTTTAATGTTTT-AAAT-TAAAGGTTTAGGGTTTAAGGTTCAAA
* ** * *
63374437 GTTTAAAGTTTTAGGGTTTAATGTTTTTAAAGTAAAGGTT
1 TTTTTTAGGTTTAGGGTTTAATG-TTTTAAATTAAAGGTT
63374477 AGGATTAGGG
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
57 13 0.16
58 55 0.67
59 10 0.12
60 4 0.05
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (57 bp):
TTTTTTAGGTTTAGGGTTTAATGTTTTAAATTAAAGGTTTAGGGTTTAAGGTTCAAA
Found at i:63374443 original size:29 final size:29
Alignment explanation
Indices: 63374385--63374457 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
63374375 TAAATTTTTT
* * *
63374385 AGGTTTAGGGTTTATGTTTTAAAATCTAA
1 AGGTTTAGGGTTTAAGGTTCAAAATCTAA
* *
63374414 AGGTTTAGGGTTTAAGGTTCAAAGTTTAA
1 AGGTTTAGGGTTTAAGGTTCAAAATCTAA
*
63374443 AGTTTTAGGGTTTAA
1 AGGTTTAGGGTTTAA
63374458 TGTTTTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (29 bp):
AGGTTTAGGGTTTAAGGTTCAAAATCTAA
Done.