Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 65
Found at i:4733171 original size:20 final size:21
Alignment explanation
Indices: 4733120--4733173 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
4733110 GATTTATTTT
*
4733120 TTTTATTTTCTTTTTTATTCA
1 TTTTATTTTATTTTTTATTCA
* * *
4733141 -TTTAATATATTTTTTGTT-A
1 TTTTATTTTATTTTTTATTCA
4733160 TTTTATTTTATTTT
1 TTTTATTTTATTTT
4733174 ATTGCTTAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTTTTTATTCA
Found at i:4741252 original size:23 final size:23
Alignment explanation
Indices: 4741224--4741267 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4741214 TCTCATGTCA
4741224 CTTTTTGCT-TTGTTTTCTTTTCT
1 CTTTTT-CTCTTGTTTTCTTTTCT
*
4741247 CTTTTTCTCTTTTTTTCTTTT
1 CTTTTTCTCTTGTTTTCTTTT
4741268 TCAAACTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (23 bp):
CTTTTTCTCTTGTTTTCTTTTCT
Found at i:4742553 original size:16 final size:16
Alignment explanation
Indices: 4742532--4742573 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
4742522 CCGAGGACAG
*
4742532 TTGGTGGTGCGATGCT
1 TTGGTGGTGCGATACT
4742548 TTGGTGGTGCGATACT
1 TTGGTGGTGCGATACT
*
4742564 TTGTTGGTGC
1 TTGGTGGTGC
4742574 CTTGTGCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.12, G:0.40, T:0.40
Consensus pattern (16 bp):
TTGGTGGTGCGATACT
Found at i:4752829 original size:23 final size:23
Alignment explanation
Indices: 4752803--4752889 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 23
4752793 TATATGATAC
*
4752803 TATATATAATAATTTCAAAAATA
1 TATATATAATATTTTCAAAAATA
**
4752826 TATAATATATATAGTTTTTGAAAATA
1 TAT-ATATA-ATA-TTTTCAAAAATA
* * *
4752852 TATAGTATGATTTTTTGAAAACATA
1 TATA-TATAATATTTTCAAAA-ATA
4752877 TATATATATATAT
1 TATATATA-ATAT
4752890 ATATATTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
23 3 0.06
24 15 0.31
25 16 0.33
26 15 0.31
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (23 bp):
TATATATAATATTTTCAAAAATA
Found at i:4752852 original size:24 final size:23
Alignment explanation
Indices: 4752825--4752887 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
4752815 TTTCAAAAAT
4752825 ATATAATATATATAGTTTTTGAAA
1 ATATAATATATATA-TTTTTGAAA
4752849 ATAT-ATAGTATGAT-TTTTTGAAA
1 ATATAATA-TAT-ATATTTTTGAAA
*
4752872 ACATATATATATATAT
1 ATATA-ATATATATAT
4752888 ATATATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
23 17 0.52
24 11 0.33
25 5 0.15
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (23 bp):
ATATAATATATATATTTTTGAAA
Found at i:4752979 original size:21 final size:20
Alignment explanation
Indices: 4752922--4752992 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
4752912 AAAAAAGTAT
*
4752922 ATAATAT-ATATAATTTTTA
1 ATAATATAATATAGTTTTTA
* * *
4752941 A-AACATATTATAGCTTTTGA
1 ATAATATAATATAG-TTTTTA
4752961 ATAATATAATATAGTTTTT-
1 ATAATATAATATAGTTTTTA
4752980 A-AATA-AATATAGT
1 ATAATATAATATAGT
4752993 GTACGTATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 8 0.19
18 8 0.19
19 6 0.14
20 10 0.24
21 10 0.24
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (20 bp):
ATAATATAATATAGTTTTTA
Found at i:4753032 original size:22 final size:22
Alignment explanation
Indices: 4753005--4753046 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4752995 ACGTATTATT
4753005 TATTA-TATTATATTATTTATAG
1 TATTATTATTATA-TATTTATAG
*
4753027 TATTATTATTTTATATTTAT
1 TATTATTATTATATATTTAT
4753047 TTGTTTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTATTATTATATATTTATAG
Found at i:4753047 original size:17 final size:16
Alignment explanation
Indices: 4752998--4753043 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
4752988 ATAGTGTACG
*
4752998 TATTATT-TATTATAT
1 TATTATTATTTTATAT
*
4753013 TA-TATTA-TTTATAG
1 TATTATTATTTTATAT
4753027 TATTATTATTTTATAT
1 TATTATTATTTTATAT
4753043 T
1 T
4753044 TATTTGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 11 0.44
15 7 0.28
16 7 0.28
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTATTATTTTATAT
Found at i:4755478 original size:35 final size:34
Alignment explanation
Indices: 4755407--4755478 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
4755397 AATTAAGAGT
* *
4755407 TAGTTTAATAAATGAACTACTTTGATGAATGGAC
1 TAGTTTAATAAATGAACTACTTTGATCAATGAAC
* *
4755441 TAGTTTAATTAATTAACTTACTTT-ATTCAATGAAC
1 TAGTTTAATAAATGAAC-TACTTTGA-TCAATGAAC
4755476 TAG
1 TAG
4755479 ATGCATGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (34 bp):
TAGTTTAATAAATGAACTACTTTGATCAATGAAC
Found at i:4756365 original size:22 final size:22
Alignment explanation
Indices: 4756340--4756381 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4756330 TTTTTTAATT
* *
4756340 TTTAATTTTCTTTTTTTATTCA
1 TTTAATATCCTTTTTTTATTCA
4756362 TTTAATATCCTTTTTTTATT
1 TTTAATATCCTTTTTTTATT
4756382 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTAATATCCTTTTTTTATTCA
Found at i:4758165 original size:21 final size:21
Alignment explanation
Indices: 4758139--4758181 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4758129 ACACAACCTC
*
4758139 GGTTTTCCTGTAAGTAAAAAG
1 GGTTTTCCTGCAAGTAAAAAG
4758160 GGTTTTCCTGCAAGTAAAAAG
1 GGTTTTCCTGCAAGTAAAAAG
4758181 G
1 G
4758182 AAAATAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (21 bp):
GGTTTTCCTGCAAGTAAAAAG
Found at i:4764219 original size:44 final size:45
Alignment explanation
Indices: 4764170--4764270 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 45
4764160 ATGTAGTCAA
* *
4764170 TAGCGGCGTTTTACAT-TCACAAACGCCACTATAT-GCATAACATT
1 TAGCGGCGTTTT-CATGTAACAAACGCCACTATATAGCAAAACATT
* ** * *
4764214 TAGCGGTGTTTTTTTGTAACAAATGCCACTATATATCAAAACATT
1 TAGCGGCGTTTTCATGTAACAAACGCCACTATATAGCAAAACATT
4764259 TAGCGGCGTTTT
1 TAGCGGCGTTTT
4764271 TGGGACAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 27 0.57
45 19 0.40
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (45 bp):
TAGCGGCGTTTTCATGTAACAAACGCCACTATATAGCAAAACATT
Found at i:4765017 original size:14 final size:13
Alignment explanation
Indices: 4764980--4765010 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4764970 CTAAAGATGA
4764980 TTAACTCAATTTT
1 TTAACTCAATTTT
4764993 TTAACTCAATTTT
1 TTAACTCAATTTT
4765006 TTAAC
1 TTAAC
4765011 ATTAATTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAACTCAATTTT
Found at i:4765507 original size:20 final size:20
Alignment explanation
Indices: 4765482--4765524 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
4765472 AAAAATACTT
4765482 AATTTA-TAAGATCAAATCAA
1 AATTTATTAAGATCAAAT-AA
*
4765502 AATTTATTAAGCTCAAATAA
1 AATTTATTAAGATCAAATAA
4765522 AAT
1 AAT
4765525 AACATTCGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (20 bp):
AATTTATTAAGATCAAATAA
Found at i:4768387 original size:3 final size:3
Alignment explanation
Indices: 4768379--4768404 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4768369 TTTGTTCTAA
4768379 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
4768405 AACCCAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:4773815 original size:30 final size:29
Alignment explanation
Indices: 4773776--4773834 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
4773766 GAGAATTTAC
* *
4773776 ATGAACTACGTGATTACATGTATATGTGA
1 ATGAACTACGAGATTACATGAATATGTGA
* *
4773805 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTACATGAATATGTGA
4773835 TATGTTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTACATGAATATGTGA
Found at i:4774094 original size:23 final size:23
Alignment explanation
Indices: 4774064--4774132 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
4774054 ACATCTCATA
*
4774064 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTAGGTGCATTTCTACG
*
4774087 TGGCACTTAGGTGCAATTCTACG
1 TGGCACTTAGGTGCATTTCTACG
* *
4774110 TGGCACTTTGGTGCATTTATACG
1 TGGCACTTAGGTGCATTTCTACG
4774133 AGCTATGGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (23 bp):
TGGCACTTAGGTGCATTTCTACG
Found at i:4774518 original size:2 final size:2
Alignment explanation
Indices: 4774511--4774570 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
4774501 AATGCAATAA
4774511 AT AT AT 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 AT AT AT
4774553 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
4774571 GTTTGGATGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4778362 original size:16 final size:17
Alignment explanation
Indices: 4778331--4778363 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4778321 ATATAAGAAT
4778331 TTACATGAACTATGTGA
1 TTACATGAACTATGTGA
*
4778348 TTACATGTA-TATGTGA
1 TTACATGAACTATGTGA
4778364 ATGAAGCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (17 bp):
TTACATGAACTATGTGA
Found at i:4778650 original size:23 final size:23
Alignment explanation
Indices: 4778624--4778686 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
4778614 CATCTCATAT
* *
4778624 GGCACTTCGGTGCATTTCTATGC
1 GGCACTTAGGTGCATTTCTACGC
* *
4778647 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTAGGTGCATTTCTACGC
*
4778670 GGCACTTTGGTGCATTT
1 GGCACTTAGGTGCATTT
4778687 ATACAAGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:4782792 original size:45 final size:47
Alignment explanation
Indices: 4782719--4782824 Score: 153
Period size: 45 Copynumber: 2.3 Consensus size: 47
4782709 TTTATTTTTG
*
4782719 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGATTAGG-TTTA
1 TTTTTTGAAT-AATGCATGCGAACTAGATATCATGCGATTAGGATTTA
* *
4782766 TTTTTTGAATAA-GCATGCGAATTAGATATCATGCGGTTAGGATTTA
1 TTTTTTGAATAATGCATGCGAACTAGATATCATGCGATTAGGATTTA
4782812 TTTTTGTGAATAA
1 TTTTT-TGAATAA
4782825 CAAAGCATGG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
45 27 0.50
46 11 0.20
47 16 0.30
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (47 bp):
TTTTTTGAATAATGCATGCGAACTAGATATCATGCGATTAGGATTTA
Found at i:4786487 original size:29 final size:27
Alignment explanation
Indices: 4786440--4786519 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 27
4786430 ATCATCTTTC
*
4786440 TTCATTTTATTTATTTTTATTTTATTTA
1 TTCA-TTTATTTATCTTTATTTTATTTA
* *
4786468 TTTATTTGTTTTTATCTTTATCTTT-TTTA
1 TTCA-TT-TATTTATCTTTAT-TTTATTTA
4786497 TTCATTTATTT-TCTTTATTTTAT
1 TTCATTTATTTATCTTTATTTTAT
4786520 ATTACTTTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 4 0.09
28 8 0.18
29 18 0.41
30 3 0.07
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.75
Consensus pattern (27 bp):
TTCATTTATTTATCTTTATTTTATTTA
Found at i:4786496 original size:33 final size:33
Alignment explanation
Indices: 4786456--4786569 Score: 101
Period size: 33 Copynumber: 3.5 Consensus size: 33
4786446 TTATTTATTT
*
4786456 TTATTTTATTTATTTATTTGTTTTTATCTTTATC
1 TTATTTTATTTATTTATTTGTTTTTAT-TTTATA
* *
4786490 TT-TTTTATTCATTTATTT-TCTTTATTTTATA
1 TTATTTTATTTATTTATTTGTTTTTATTTTATA
* * * * *
4786521 TTACTTTCTTTATTTCATTCGTTTTTGTATTAT-
1 TTATTTTATTTATTT-ATTTGTTTTTATTTTATA
4786554 TTATTTTCATTT-TTTA
1 TTATTTT-ATTTATTTA
4786570 ACACATTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
31 7 0.11
32 16 0.25
33 27 0.42
34 14 0.22
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (33 bp):
TTATTTTATTTATTTATTTGTTTTTATTTTATA
Found at i:4796901 original size:17 final size:17
Alignment explanation
Indices: 4796879--4796912 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4796869 CTTAAGTCAG
*
4796879 AAAAAAAAGGAAAAAAT
1 AAAAAAAAGAAAAAAAT
*
4796896 AAAAAAGAGAAAAAAAT
1 AAAAAAAAGAAAAAAAT
4796913 GTTTAGGGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAT
Found at i:4797002 original size:21 final size:21
Alignment explanation
Indices: 4796950--4797003 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
4796940 CTAAATTGGA
4796950 AAAAAAGAAAAACGAGAAAAAG
1 AAAAAAGAAAAAC-AGAAAAAG
4796972 AACAAAAGAAAAA-AGAAAAAG
1 AA-AAAAGAAAAACAGAAAAAG
4796993 AAAAAGAGAAA
1 AAAAA-AGAAA
4797004 TAAGGTGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 2 0.07
23 10 0.33
ACGTcount: A:0.80, C:0.04, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAACAGAAAAAG
Found at i:4798293 original size:99 final size:99
Alignment explanation
Indices: 4798128--4798313 Score: 257
Period size: 99 Copynumber: 1.9 Consensus size: 99
4798118 AATTTCAAAA
* * * *
4798128 TCAATTTCAACTTCACAGCAAAGGATATTGGACCCAAGACAACACAAGTTCAACTTCACGACGAA
1 TCAATTCCAACTTCACAACAAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGACGAA
*
4798193 GGGGCAGCTGATTGTCAACAAACAACTTTCAGAG
66 GGGGCAGCTGACTGTCAACAAACAACTTTCAGAG
* * * * *
4798227 TCAATTCCAACTTCACAACGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTTTAC-AGGGA
1 TCAATTCCAACTTCACAACAAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGA-CGA
*
4798291 AGGGGCGGCTGACTGTCAACAAA
65 AGGGGCAGCTGACTGTCAACAAA
4798314 TAATTTCCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
98 1 0.01
99 74 0.99
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (99 bp):
TCAATTCCAACTTCACAACAAAGGATATTAGACCCAAGACAACACAAGCTCAACTTCACGACGAA
GGGGCAGCTGACTGTCAACAAACAACTTTCAGAG
Found at i:4799129 original size:7 final size:7
Alignment explanation
Indices: 4799086--4799130 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
4799076 ATTTTGTCCT
4799086 TATATTA
1 TATATTA
*
4799093 TATAATA
1 TATATTA
4799100 TATATT-
1 TATATTA
4799106 TATATTA
1 TATATTA
*
4799113 TA-AAT-
1 TATATTA
4799118 TATATTA
1 TATATTA
4799125 TATATT
1 TATATT
4799131 TATTCACATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
5 2 0.06
6 10 0.32
7 19 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATATTA
Found at i:4799133 original size:20 final size:20
Alignment explanation
Indices: 4799085--4799130 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4799075 AATTTTGTCC
4799085 TTATATTATATAATATATAT
1 TTATATTATATAATATATAT
4799105 TTATATTATA-AAT-TATAT
1 TTATATTATATAATATATAT
4799123 TATATATT
1 T-TATATT
4799131 TATTCACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.24
19 9 0.36
20 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATTATATAATATATAT
Found at i:4799238 original size:16 final size:16
Alignment explanation
Indices: 4799201--4799232 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4799191 ACCCAGTGAA
4799201 GCAGCCCTAATCTCTC
1 GCAGCCCTAATCTCTC
4799217 GCAGCCCTAATCTCTC
1 GCAGCCCTAATCTCTC
4799233 CAAGCCTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.44, G:0.12, T:0.25
Consensus pattern (16 bp):
GCAGCCCTAATCTCTC
Found at i:4800273 original size:2 final size:2
Alignment explanation
Indices: 4800268--4800293 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4800258 ACACACACAC
4800268 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
4800294 TTTTATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4800354 original size:2 final size:2
Alignment explanation
Indices: 4800347--4800373 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4800337 TTTATTTTGT
4800347 TA 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 TA T
4800374 GTGCATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4800477 original size:21 final size:21
Alignment explanation
Indices: 4800447--4800507 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
4800437 ATATTGTATA
4800447 TATATATATATATATTT-CCAT
1 TATAT-TATATATATTTACCAT
* *
4800468 TAATTTTATATATTTTTACCAT
1 T-ATATTATATATATTTACCAT
4800490 TATATTATATTATATTTA
1 TATATTATA-TATATTTA
4800508 TTCTCTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATTATATATATTTACCAT
Found at i:4800839 original size:19 final size:20
Alignment explanation
Indices: 4800815--4800853 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4800805 CTTTCTTCAT
4800815 TTTGTTTATTTTTAT-TTTA
1 TTTGTTTATTTTTATCTTTA
*
4800834 TTTGTTTGTTTTTATCTTTA
1 TTTGTTTATTTTTATCTTTA
4800854 CCTTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.77
Consensus pattern (20 bp):
TTTGTTTATTTTTATCTTTA
Found at i:4805291 original size:32 final size:32
Alignment explanation
Indices: 4805250--4805314 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4805240 TTCTAAATAT
4805250 ACTCAACCATTTGATAATAAATGCTGAATCAC
1 ACTCAACCATTTGATAATAAATGCTGAATCAC
4805282 ACTCAACCATTTGATAATAAATGCTGAATCAC
1 ACTCAACCATTTGATAATAAATGCTGAATCAC
4805314 A
1 A
4805315 TTGCTGCAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (32 bp):
ACTCAACCATTTGATAATAAATGCTGAATCAC
Found at i:4805417 original size:2 final size:2
Alignment explanation
Indices: 4805410--4805451 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4805400 CTCTCAACAA
4805410 AT AT AT 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 AT AT AT
4805452 GAATAATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4817155 original size:365 final size:364
Alignment explanation
Indices: 4816474--4817180 Score: 1130
Period size: 365 Copynumber: 1.9 Consensus size: 364
4816464 TTTTGCAGTA
* * * * *
4816474 TTTTATTTTCTGAATCATGGCTGGAAACATGGGCTTGACGAGGTCTGACGTAGCAGTTTCTAGAA
1 TTTTATTTTCTGAATCATGGCTAGAAACATGGGCATGACGAGATCTGACGTAACAATTTCTAGAA
* *
4816539 GGTCCAGTCAGTACTCTTTAGAAGATGGACGACCAAAGTTATTTTAGAAGGAGATGATTTAAGAA
66 GGTCCAGTCAGTACTCTCTAGAAGATAGACGACCAAAGTTATTTTAGAAGGAGATGATTTAAGAA
* *
4816604 TTTAAGTTTGAATTTGAAAACATTTTTAGATTATCTTTCGAATAATTTTATTTTGAATTTATTTG
131 TTTAAATTTGAATTTGAAAACATTTTAAGATTATCTTTCGAATAATTTTATTTTGAATTTATTTG
*
4816669 TTCTATCTTTAGGATTTTAGAACACTACAAATACCCCTTGGGTATTGCTTGAAATGTACTATATT
196 TTCTATCTTTAGGATTTTAGAACACTACAAATACCCCTTGGGTATTCCTTGAAATGTACTATATT
* * * *
4816734 TTCATTTTTCTTTTACTTTATAAAAGTTTTTTCAGTTTTGTTTTATATTTTTCTTTCAACTTTTG
261 TTCAATTTTCTTTTACTTTATAAAAGTTTTGTCAGGTTTGTTTTATATTTTTCTTTCAACTTTTA
*
4816799 TTTTAAGTTTTTTCTTTTAAAAAGTACAATTCTGTAGTG
326 TTTTAAGTTTTTACTTTTAAAAAGTACAATTCTGTAGTG
*
4816838 TTTTATTTTCTGGAATCATGGCTAGAAACATGGGCATGACGCGATCTGACGTAACAATTTCTAGA
1 TTTTATTTTCT-GAATCATGGCTAGAAACATGGGCATGACGAGATCTGACGTAACAATTTCTAGA
* *** * *
4816903 AGGTTCAGTCAGTACTCTCTAGAAGATAGA-GGGGAAAGTTATTTTTGAAGGAGATGATTTAGGA
65 AGGTCCAGTCAGTACTCTCTAGAAGATAGACGACCAAAGTTATTTTAGAAGGAGATGATTTAAGA
*
4816967 ATTTAAATTTGAATTTGAAAACATTTTAAGATTATCTTTGGAAT-ATTTATATTTTGAATTTATT
130 ATTTAAATTTGAATTTGAAAACATTTTAAGATTATCTTTCGAATAATTT-TATTTTGAATTTATT
*
4817031 TGTTCTATCTTTAGGATTTTAGAGCACTACAAATACCCCTTGGGGTATTCCTTGAAATGTACTAT
194 TGTTCTATCTTTAGGATTTTAGAACACTACAAATACCCCTT-GGGTATTCCTTGAAATGTACTAT
* * *
4817096 CTTTTCAATTTTCTTTTATTTTATAAAAGTTTTGTGAGGTTTGTTTTATATTTTTCTTTCAACTT
258 ATTTTCAATTTTCTTTTACTTTATAAAAGTTTTGTCAGGTTTGTTTTATATTTTTCTTTCAACTT
4817161 TTATTTTAAGTTTTTACTTT
323 TTATTTTAAGTTTTTACTTT
4817181 GTTTTCTAAA
Statistics
Matches: 313, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
363 4 0.01
364 136 0.43
365 173 0.55
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (364 bp):
TTTTATTTTCTGAATCATGGCTAGAAACATGGGCATGACGAGATCTGACGTAACAATTTCTAGAA
GGTCCAGTCAGTACTCTCTAGAAGATAGACGACCAAAGTTATTTTAGAAGGAGATGATTTAAGAA
TTTAAATTTGAATTTGAAAACATTTTAAGATTATCTTTCGAATAATTTTATTTTGAATTTATTTG
TTCTATCTTTAGGATTTTAGAACACTACAAATACCCCTTGGGTATTCCTTGAAATGTACTATATT
TTCAATTTTCTTTTACTTTATAAAAGTTTTGTCAGGTTTGTTTTATATTTTTCTTTCAACTTTTA
TTTTAAGTTTTTACTTTTAAAAAGTACAATTCTGTAGTG
Found at i:4827240 original size:21 final size:21
Alignment explanation
Indices: 4827180--4827240 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
4827170 TAGAACCCTC
*
4827180 AGGGGGTATTGATTCTCC-TAT
1 AGGGGGTATCGATTC-CCTTAT
* *
4827201 AGGGGGAATCGGTTCCCCTTCA-
1 AGGGGGTATCGATT-CCCTT-AT
4827223 AGGGGGTATCGATTCCCT
1 AGGGGGTATCGATTCCCT
4827241 CTGCACTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 17 0.53
22 14 0.44
23 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (21 bp):
AGGGGGTATCGATTCCCTTAT
Found at i:4833435 original size:16 final size:16
Alignment explanation
Indices: 4833416--4833446 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4833406 TTATAACTTT
*
4833416 TATATTTTATTATTTA
1 TATATATTATTATTTA
4833432 TATATATTATTATTT
1 TATATATTATTATTT
4833447 TATTATAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATATTATTATTTA
Found at i:4833453 original size:16 final size:16
Alignment explanation
Indices: 4833413--4833453 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4833403 TTTTTATAAC
*
4833413 TTTTA-TATTTTATTA
1 TTTTATTATATTATTA
4833428 -TTTATATATATTATTA
1 TTTTAT-TATATTATTA
4833444 TTTTATTATA
1 TTTTATTATA
4833454 GATGGAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTATATTATTA
Found at i:4834758 original size:31 final size:28
Alignment explanation
Indices: 4834738--4834793 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
4834728 TTATAATTTC
4834738 AAAAGAAAAATAATAAAATAA-ATAATA
1 AAAAGAAAAATAATAAAATAATATAATA
*
4834765 AAAAGGGAAAATAATAAAATAATA-AATA
1 AAAA-GAAAAATAATAAAATAATATAATA
4834793 A
1 A
4834794 TAGTAGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.15
28 21 0.81
29 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (28 bp):
AAAAGAAAAATAATAAAATAATATAATA
Found at i:4835580 original size:85 final size:82
Alignment explanation
Indices: 4835477--4835661 Score: 255
Period size: 85 Copynumber: 2.2 Consensus size: 82
4835467 AAGATAATTC
* * * *
4835477 CTAAAATAATAACTTAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAAT
1 CTAAAATATTATCCTAAATCCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATACCTAAAAC
4835541 AAAGATAAAATAAAATAATAT
65 AAAGATAAAAT---ATAATAT
* * *
4835562 TTAAAATATTATCCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACTTAAAACA
1 CTAAAATATTATCCTAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAACA
*
4835627 AAGATAAAATATAATGT
66 AAGATAAAATATAATAT
4835644 CTAAAATATTATCCTAAA
1 CTAAAATATTATCCTAAA
4835662 CTTTAGTTTG
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
82 23 0.26
84 5 0.06
85 62 0.69
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (82 bp):
CTAAAATATTATCCTAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAACA
AAGATAAAATATAATAT
Found at i:4839307 original size:32 final size:35
Alignment explanation
Indices: 4839263--4839327 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
4839253 GACGAAGTTG
*
4839263 AAAAG-ATAA-AATAAAATAAATAATTATAATTTC
1 AAAAGAATAATAATAAAATAAATAATAATAATTTC
*
4839296 AAAAGAAAAATAATAAAATAAATAATAATAAT
1 AAAAGAATAATAATAAAATAAATAATAATAAT
4839328 AGTAGTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.18
34 3 0.11
35 20 0.71
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (35 bp):
AAAAGAATAATAATAAAATAAATAATAATAATTTC
Found at i:4839390 original size:18 final size:18
Alignment explanation
Indices: 4839367--4839409 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
4839357 AATTGTTTTA
*
4839367 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
4839385 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
4839403 AAATAAA
1 AAATAAA
4839410 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:4844027 original size:16 final size:16
Alignment explanation
Indices: 4844008--4844038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4843998 TTATAACTTT
*
4844008 TATATTTTATTATTTA
1 TATATATTATTATTTA
4844024 TATATATTATTATTT
1 TATATATTATTATTT
4844039 TATTATAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATATTATTATTTA
Found at i:4844045 original size:16 final size:16
Alignment explanation
Indices: 4844005--4844045 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4843995 TTTTTATAAC
*
4844005 TTTTA-TATTTTATTA
1 TTTTATTATATTATTA
4844020 -TTTATATATATTATTA
1 TTTTAT-TATATTATTA
4844036 TTTTATTATA
1 TTTTATTATA
4844046 GATGGAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTATATTATTA
Found at i:4849342 original size:19 final size:19
Alignment explanation
Indices: 4849318--4849388 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
4849308 CTATTTTTAA
4849318 ATAATTAAATAATATATTT
1 ATAATTAAATAATATATTT
** *
4849337 ATAATTATTTATTATATTT
1 ATAATTAAATAATATATTT
4849356 A-AACTGTTAAATTAATATATTT
1 ATAA---TTAAA-TAATATATTT
*
4849378 -TAATAAAATAA
1 ATAATTAAATAA
4849389 AAAAATTCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
18 5 0.12
19 21 0.52
21 3 0.08
22 11 0.28
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (19 bp):
ATAATTAAATAATATATTT
Found at i:4849417 original size:2 final size:2
Alignment explanation
Indices: 4849410--4849451 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4849400 AAATATTAAT
4849410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4849452 ACCGGGTCGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4850351 original size:2 final size:2
Alignment explanation
Indices: 4850344--4850376 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4850334 TTTCAAATTC
4850344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4850377 CGGTTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4854486 original size:20 final size:20
Alignment explanation
Indices: 4854461--4854524 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
4854451 GATCTCGAAT
*
4854461 TCGCAACACAGGTTCCAAAA
1 TCGCAACACAGATTCCAAAA
* ***
4854481 TCGCAACGC-GAATTTGTAAA
1 TCGCAACACAG-ATTCCAAAA
*
4854501 TCGCAACACAGTTTCCAAAA
1 TCGCAACACAGATTCCAAAA
4854521 TCGC
1 TCGC
4854525 GTTGCGATAG
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (20 bp):
TCGCAACACAGATTCCAAAA
Found at i:4854583 original size:20 final size:21
Alignment explanation
Indices: 4854553--4854596 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
4854543 ACCTATCGGT
4854553 AATTAGCGTTGCGAATTTGAA
1 AATTAGCGTTGCGAATTTGAA
*
4854574 AATT-GCGTTGTGAATTTGAA
1 AATTAGCGTTGCGAATTTGAA
4854594 AAT
1 AAT
4854597 CTTGTTGCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (21 bp):
AATTAGCGTTGCGAATTTGAA
Found at i:4854646 original size:77 final size:77
Alignment explanation
Indices: 4854517--4854741 Score: 285
Period size: 77 Copynumber: 2.9 Consensus size: 77
4854507 CACAGTTTCC
** *
4854517 AAAATCGCGTTGCGATAGTACTATTTACC--TATCGGTAATTAGCGTTGCGAATTTGAAAATTGC
1 AAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATTGC
*
4854580 GTTGTGAATTTG
66 GTTGCGAATTTG
** *
4854592 AAAATCTTGTTGCGATAACATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCT-
1 AAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAAT-TG
*
4854656 CATTGCGAATTTG
65 CGTTGCGAATTTG
** ** * *
4854669 AAAATCGCGTTGCGATAGTACTGTTTACCTGCATCGGTAATTAGCGTTGCGATTTTGGAAAATCG
1 AAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTT-GAAAATTG
4854734 CGTTGCGA
65 CGTTGCGA
4854742 TAACACTGTT
Statistics
Matches: 127, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
75 23 0.18
77 90 0.71
78 14 0.11
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (77 bp):
AAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATTGC
GTTGCGAATTTG
Found at i:4854681 original size:20 final size:20
Alignment explanation
Indices: 4854635--4854683 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
4854625 TCGGTAATTA
4854635 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
* *
4854655 TCATTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
4854675 GCGTTGCGA
1 GCGTTGCGA
4854684 TAGTACTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:4854816 original size:57 final size:57
Alignment explanation
Indices: 4854658--4854969 Score: 507
Period size: 57 Copynumber: 5.5 Consensus size: 57
4854648 GAAAATCTCA
**
4854658 TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTGCATCGGTAATTAGCG
1 TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCG
* **
4854715 TTGCGATTTTGGAAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCG
1 TTGCGAATTT-GAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCG
* * *
4854773 TTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTATCTATATCGATAATTAGCG
1 TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCG
*
4854830 TTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCG
1 TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCG
* *
4854887 TTGCGAATTTGTAAATCGCGTTGCGATATTACTGTTTACCTATATCGGTAATTAGCG
1 TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCG
*
4854944 TTGCGAATTTGAAAATCTCGTTGCGA
1 TTGCGAATTTGAAAATCGCGTTGCGA
4854970 ATTTGAAAAT
Statistics
Matches: 238, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
57 186 0.78
58 52 0.22
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (57 bp):
TTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCG
Found at i:4854851 original size:135 final size:133
Alignment explanation
Indices: 4854517--4854856 Score: 325
Period size: 135 Copynumber: 2.5 Consensus size: 133
4854507 CACAGTTTCC
* * * * *
4854517 AAAATCGCGTTGCGATAGTACTATTTA-CCTATCGGTAATTAGCGTTGCGAATTTGAAAATTGCG
1 AAAATCGCGTTGCGATAGTACTGTTTATCATATCGATAATTAGCGTTGCGAATTTGTAAATAGCG
* * ** *
4854581 TTGTGAATTTGAAAATCTTGTTGCGATAACATTGTTTACCTATATCGGTAATTAGCGTTGCGAAT
66 TTGCGATTTTGAAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAAT
4854646 TTG
131 TTG
* * * *** * * * * **
4854649 AAAATCTCATTGCGA-A-T-TTGAAAATCGCGT-TGCGAT-AGTA-CTGTTTACCTGCATCGGTA
1 AAAATCGCGTTGCGATAGTACTGTTTAT--CATAT-CGATAATTAGC-G-TT-GC-GAATTTGTA
*
4854708 ATTAGCGTTGCGATTTTGGAAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCG
59 AATAGCGTTGCGATTTT-GAAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCG
4854773 TTGCGAATTTG
123 TTGCGAATTTG
* *
4854784 TAAATCGCGTTGCGATAGTACTGTTTATCTATATCGATAATTAGCGTTGCGAATTTGTAAATCGC
1 AAAATCGCGTTGCGATAGTACTGTTTATC-ATATCGATAATTAGCGTTGCGAATTTGTAAATAGC
4854849 GTTGCGAT
65 GTTGCGAT
4854857 AGTACTGTTT
Statistics
Matches: 155, Mismatches: 37, Indels: 29
0.70 0.17 0.13
Matches are distributed among these distances:
129 2 0.01
130 2 0.01
131 6 0.04
132 20 0.13
133 1 0.01
134 18 0.12
135 85 0.55
136 3 0.02
137 8 0.05
138 9 0.06
139 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (133 bp):
AAAATCGCGTTGCGATAGTACTGTTTATCATATCGATAATTAGCGTTGCGAATTTGTAAATAGCG
TTGCGATTTTGAAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAAT
TTG
Found at i:4854967 original size:20 final size:20
Alignment explanation
Indices: 4854941--4854986 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
4854931 TCGGTAATTA
4854941 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
*
4854961 TCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
4854981 GCGTTG
1 GCGTTG
4854987 TGATAGTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:4854980 original size:77 final size:77
Alignment explanation
Indices: 4854885--4855067 Score: 244
Period size: 77 Copynumber: 2.4 Consensus size: 77
4854875 CGGTAATTAG
* * * * *
4854885 CGTTGCGAATTTGTAAATCGCGTTGCGATATTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
1 CGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTAACTACATCGGTAATCAGCGTTGCG-
4854950 ATTTGA-AAATCT-
65 ATTT-ACAAATCTA
*
4854962 CGTTGCGAATTTGAAAATCGCGTTGTGATAGTACTGTTTAACTACATCGGTAATCAGCGTTGCGA
1 CGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTAACTACATCGGTAATCAGCGTTGCGA
* *
4855027 TTTACATATTTA
66 TTTACAAATCTA
*
4855039 CGTTACGAATTTGGAAAATCGCGTTGCGA
1 CGTTGCGAATTT-GAAAATCGCGTTGCGA
4855068 ATTTGGAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
75 1 0.01
76 8 0.09
77 69 0.74
78 15 0.16
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (77 bp):
CGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTAACTACATCGGTAATCAGCGTTGCGA
TTTACAAATCTA
Found at i:4855107 original size:21 final size:21
Alignment explanation
Indices: 4855038--4855112 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
4855028 TTACATATTT
*
4855038 ACGTTACGAATTTGGAAAATC
1 ACGTTGCGAATTTGGAAAATC
* *
4855059 GCGTTGCGAATTTGGAAAATG
1 ACGTTGCGAATTTGGAAAATC
* * *
4855080 ACATTGCGATTTTGGAAAACC
1 ACGTTGCGAATTTGGAAAATC
4855101 ACGTTGC-AATTT
1 ACGTTGCGAATTT
4855113 ACATATTATC
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 4 0.09
21 40 0.91
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (21 bp):
ACGTTGCGAATTTGGAAAATC
Found at i:4855127 original size:20 final size:20
Alignment explanation
Indices: 4855102--4855139 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4855092 TGGAAAACCA
4855102 CGTTGCAATTTACATATTAT
1 CGTTGCAATTTACATATTAT
*
4855122 CGTTGCGATTTACATATT
1 CGTTGCAATTTACATATT
4855140 CGAGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (20 bp):
CGTTGCAATTTACATATTAT
Found at i:4855146 original size:20 final size:20
Alignment explanation
Indices: 4855103--4855149 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4855093 GGAAAACCAC
* **
4855103 GTTGCAATTTACATATTATC
1 GTTGCGATTTACATATTAGA
*
4855123 GTTGCGATTTACATATTCGA
1 GTTGCGATTTACATATTAGA
4855143 GTTGCGA
1 GTTGCGA
4855150 ATTTGGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACATATTAGA
Found at i:4866437 original size:16 final size:17
Alignment explanation
Indices: 4866411--4866442 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4866401 TCTTTTGTTA
4866411 TTTATTTTTTTATCTTC
1 TTTATTTTTTTATCTTC
4866428 TTTATTTTTTT-TCTT
1 TTTATTTTTTTATCTT
4866443 TATGCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTATTTTTTTATCTTC
Found at i:4866472 original size:20 final size:19
Alignment explanation
Indices: 4866447--4866484 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4866437 TTTCTTTATG
4866447 CTTTTTTATGATTATTATTA
1 CTTTTTTATGATT-TTATTA
*
4866467 CTTTTTTATTATTTTATT
1 CTTTTTTATGATTTTATT
4866485 TTACTACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (19 bp):
CTTTTTTATGATTTTATTA
Found at i:4866596 original size:9 final size:8
Alignment explanation
Indices: 4866450--4866650 Score: 63
Period size: 9 Copynumber: 23.5 Consensus size: 8
4866440 CTTTATGCTT
*
4866450 TTTTATGA
1 TTTTATTA
4866458 TTATTATTA
1 TT-TTATTA
4866467 CTTTT-TTA
1 -TTTTATTA
4866475 TTATT-TTA
1 TT-TTATTA
*
4866483 TTTTACTACA
1 TTTTA-T-TA
*
4866493 TTTTTTTA
1 TTTTATTA
*
4866501 TCATTATT-
1 T-TTTATTA
*
4866509 TGTTATATA
1 TTTTAT-TA
4866518 TTTTATATA
1 TTTTAT-TA
*
4866527 TGTATATATA
1 T-TTTAT-TA
*
4866537 TTTAATTA
1 TTTTATTA
*
4866545 TTTAATTATA
1 TTTTA-T-TA
4866555 TTTCTATTA
1 TTT-TATTA
4866564 TTTTATTA
1 TTTTATTA
*
4866572 CTTTT-TTG
1 -TTTTATTA
*
4866580 GTTT-TTA
1 TTTTATTA
4866587 TTTTCATTA
1 TTTT-ATTA
*
4866596 TATTATTA
1 TTTTATTA
4866604 TTATTATTA
1 TT-TTATTA
* *
4866613 TTTTGTTC
1 TTTTATTA
4866621 TTATTATTA
1 TT-TTATTA
*
4866630 TTATTTTTA
1 TT-TTATTA
4866639 TATTT-TTA
1 T-TTTATTA
4866647 TTTT
1 TTTT
4866651 GGGGTTCTTA
Statistics
Matches: 151, Mismatches: 23, Indels: 39
0.71 0.11 0.18
Matches are distributed among these distances:
7 19 0.13
8 45 0.30
9 64 0.42
10 22 0.15
11 1 0.01
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (8 bp):
TTTTATTA
Found at i:4866604 original size:3 final size:3
Alignment explanation
Indices: 4866592--4866648 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
4866582 TTTTATTTTC
* * *
4866592 ATT A-T ATT ATT ATT ATT ATT ATT -TT GTT CTT ATT ATT ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
4866638 A-T ATT TTT ATT
1 ATT ATT ATT ATT
4866649 TTGGGGTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 6 0.13
3 39 0.87
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:4866613 original size:26 final size:26
Alignment explanation
Indices: 4866584--4866639 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
4866574 TTTTTGGTTT
4866584 TTATTTTCATT-ATATTATTATTATTA
1 TTATTTT-ATTCATATTATTATTATTA
* * *
4866610 TTATTTTGTTCTTATTATTATTATTT
1 TTATTTTATTCATATTATTATTATTA
4866636 TTAT
1 TTAT
4866640 ATTTTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (26 bp):
TTATTTTATTCATATTATTATTATTA
Found at i:4866624 original size:20 final size:20
Alignment explanation
Indices: 4866601--4866683 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 20
4866591 CATTATATTA
4866601 TTATTATTATTATTTTGTTC
1 TTATTATTATTATTTTGTTC
4866621 TTATTATTATTA-TTT-TT-
1 TTATTATTATTATTTTGTTC
* * **
4866638 ATATTTTTATT-TTGGGGTTC
1 TTATTATTATTATT-TTGTTC
* *
4866658 TTATTATTCTTATTTTATTC
1 TTATTATTATTATTTTGTTC
4866678 TTATTA
1 TTATTA
4866684 CATCCTATTA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
17 10 0.21
18 2 0.04
19 5 0.10
20 29 0.60
21 2 0.04
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.69
Consensus pattern (20 bp):
TTATTATTATTATTTTGTTC
Found at i:4866625 original size:37 final size:39
Alignment explanation
Indices: 4866559--4866683 Score: 124
Period size: 37 Copynumber: 3.4 Consensus size: 39
4866549 ATTATATTTC
*
4866559 TATTATT-TTATTACTT-TTTTGGTTTTTATT-TTCATTA
1 TATTATTATTATTA-TTATTTTGGTTCTTATTATTCATTA
4866596 TATTATTATTATTATTATTTT-GTTCTTATTATT-ATTA
1 TATTATTATTATTATTATTTTGGTTCTTATTATTCATTA
*
4866633 T-TT-TTA-TATTTTTATTTTGGGGTTCTTATTATTC-TTA
1 TATTATTATTATTATTATTTT--GGTTCTTATTATTCATTA
* *
4866670 TTTTATTCTTATTA
1 TATTATTATTATTA
4866684 CATCCTATTA
Statistics
Matches: 74, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
34 11 0.15
35 3 0.04
36 2 0.03
37 38 0.51
38 14 0.19
39 2 0.03
40 4 0.05
ACGTcount: A:0.21, C:0.05, G:0.06, T:0.69
Consensus pattern (39 bp):
TATTATTATTATTATTATTTTGGTTCTTATTATTCATTA
Found at i:4866642 original size:17 final size:17
Alignment explanation
Indices: 4866581--4866648 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
4866571 ACTTTTTTGG
*
4866581 TTTTTATTTTCATTA-TA
1 TTTTTATATT-ATTATTA
*
4866598 TTATTATTATTATTATT-
1 TTTTTA-TATTATTATTA
4866615 TTGTTCT-TATTATTATTA
1 TT-TT-TATATTATTATTA
*
4866633 TTTTTATATTTTTATT
1 TTTTTATATTATTATT
4866649 TTGGGGTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
16 1 0.02
17 32 0.78
18 7 0.17
19 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTTTATATTATTATTA
Found at i:4866699 original size:2 final size:2
Alignment explanation
Indices: 4866692--4866718 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4866682 TACATCCTAT
4866692 TA 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 TA T
4866719 TATTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4866725 original size:4 final size:4
Alignment explanation
Indices: 4866718--4866748 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
4866708 TATATATATA
4866718 TTAT TTAT TTAT TTAT TTATT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TT
4866749 TAAATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:4866743 original size:9 final size:9
Alignment explanation
Indices: 4866721--4866935 Score: 55
Period size: 9 Copynumber: 22.4 Consensus size: 9
4866711 ATATATATTA
4866721 TTTATTTA-
1 TTTATTTAT
4866729 TTTATTTAT
1 TTTATTTAT
4866738 TTTATTTAT
1 TTTATTTAT
*
4866747 TTTA--AAT
1 TTTATTTAT
4866754 TTTATTTTTACT
1 TTTA--TTTA-T
4866766 TTGTA-TTAT
1 TT-TATTTAT
*
4866775 TTTCTTTAT
1 TTTATTTAT
4866784 TTT-TTGTAT
1 TTTATT-TAT
*
4866793 TTTCATTTCCCTT
1 TTT-ATTT---AT
4866806 GTTTCATTTAT
1 -TTT-ATTTAT
4866817 TTTATTTACT
1 TTTATTTA-T
* *
4866827 TTTCTTTACC
1 TTTATTTA-T
*
4866837 TTTACGTTAT
1 TTTA-TTTAT
** *
4866847 CCTCTTTAT
1 TTTATTTAT
* *
4866856 TCTCTTTAT
1 TTTATTTAT
**
4866865 CCT-TTTAT
1 TTTATTTAT
4866873 TTTCATATTAT
1 TTT-AT-TTAT
*
4866884 TTTCTTTAT
1 TTTATTTAT
* *
4866893 TTCATTTGTT
1 TTTATTT-AT
4866903 TTTCATTTTAT
1 TTT-A-TTTAT
* *
4866914 TTGATCTAT
1 TTTATTTAT
4866923 TTTATTTAT
1 TTTATTTAT
4866932 TTTA
1 TTTA
4866936 ATTTTTCCCT
Statistics
Matches: 156, Mismatches: 28, Indels: 45
0.68 0.12 0.20
Matches are distributed among these distances:
7 6 0.04
8 17 0.11
9 72 0.46
10 26 0.17
11 18 0.12
12 6 0.04
13 3 0.02
14 8 0.05
ACGTcount: A:0.18, C:0.11, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTATTTAT
Found at i:4866885 original size:11 final size:10
Alignment explanation
Indices: 4866868--4866939 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 10
4866858 TCTTTATCCT
4866868 TTTATTTTCA
1 TTTATTTTCA
4866878 TATTATTTTC-
1 T-TTATTTTCA
4866888 TTTA-TTTCA
1 TTTATTTTCA
*
4866897 TTTGTTTTTCA
1 TTT-ATTTTCA
*
4866908 TTT-TATTTGA
1 TTTAT-TTTCA
*
4866918 TCTATTTT-A
1 TTTATTTTCA
*
4866927 TTTATTTTAA
1 TTTATTTTCA
4866937 TTT
1 TTT
4866940 TTCCCTCTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
8 4 0.08
9 15 0.29
10 15 0.29
11 17 0.33
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTATTTTCA
Found at i:4866924 original size:30 final size:30
Alignment explanation
Indices: 4866868--4866934 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
4866858 TCTTTATCCT
** *
4866868 TTTA-TTTTCATATTATTTTCTTTATTTCA
1 TTTATTTTTCATATTATTTGATCTATTTCA
* * *
4866897 TTTGTTTTTCATTTTATTTGATCTATTTTA
1 TTTATTTTTCATATTATTTGATCTATTTCA
4866927 TTTATTTT
1 TTTATTTT
4866935 AATTTTTCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.72
Consensus pattern (30 bp):
TTTATTTTTCATATTATTTGATCTATTTCA
Found at i:4868584 original size:201 final size:201
Alignment explanation
Indices: 4868239--4868629 Score: 782
Period size: 201 Copynumber: 1.9 Consensus size: 201
4868229 TACACTTCTG
4868239 CTTCATGTCAAGACTAATGAGCCCTTAATCAGAGCCTTGGTTTAGTTATGGAACCCAGGATACAG
1 CTTCATGTCAAGACTAATGAGCCCTTAATCAGAGCCTTGGTTTAGTTATGGAACCCAGGATACAG
4868304 TTGCTTCACTTTTAAACATGATGACATGGTGCCCACCATCGAATAGTACACTATATTGATGCACT
66 TTGCTTCACTTTTAAACATGATGACATGGTGCCCACCATCGAATAGTACACTATATTGATGCACT
4868369 GTGAAAGCATCAGACTGGAGTGAGCCTACATTAAACACATCAAAAGTCAACCTATCAAGACTGGA
131 GTGAAAGCATCAGACTGGAGTGAGCCTACATTAAACACATCAAAAGTCAACCTATCAAGACTGGA
4868434 GTGAGC
196 GTGAGC
4868440 CTTCATGTCAAGACTAATGAGCCCTTAATCAGAGCCTTGGTTTAGTTATGGAACCCAGGATACAG
1 CTTCATGTCAAGACTAATGAGCCCTTAATCAGAGCCTTGGTTTAGTTATGGAACCCAGGATACAG
4868505 TTGCTTCACTTTTAAACATGATGACATGGTGCCCACCATCGAATAGTACACTATATTGATGCACT
66 TTGCTTCACTTTTAAACATGATGACATGGTGCCCACCATCGAATAGTACACTATATTGATGCACT
4868570 GTGAAAGCATCAGACTGGAGTGAGCCTACATTAAACACATCAAAAGTCAACCTATCAAGA
131 GTGAAAGCATCAGACTGGAGTGAGCCTACATTAAACACATCAAAAGTCAACCTATCAAGA
4868630 ATGCACTGGC
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 190 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (201 bp):
CTTCATGTCAAGACTAATGAGCCCTTAATCAGAGCCTTGGTTTAGTTATGGAACCCAGGATACAG
TTGCTTCACTTTTAAACATGATGACATGGTGCCCACCATCGAATAGTACACTATATTGATGCACT
GTGAAAGCATCAGACTGGAGTGAGCCTACATTAAACACATCAAAAGTCAACCTATCAAGACTGGA
GTGAGC
Found at i:4872236 original size:19 final size:19
Alignment explanation
Indices: 4872212--4872248 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4872202 GAACGCTAGA
*
4872212 GGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCAG
*
4872231 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
4872249 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (19 bp):
GGGGAACCGATACCCCCAG
Found at i:4873058 original size:103 final size:103
Alignment explanation
Indices: 4872730--4873050 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
4872720 GTAGAGGGTC
4872730 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
4872795 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
4872833 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
4872898 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
4872936 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCCGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
4873001 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
4873039 TATGTGGTCCTT
1 TATGTGGTCCTT
4873051 ATGGACATTA
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:4873100 original size:23 final size:23
Alignment explanation
Indices: 4873067--4873129 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
4873057 ATTATTATAT
4873067 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
4873090 GGCACTCCGGTGCAATTTTACGT
1 GGCACTACGGTGCAATTCTACGC
4873113 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
4873130 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:4880063 original size:103 final size:103
Alignment explanation
Indices: 4879735--4880055 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
4879725 GTAGAGGGTC
4879735 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
4879800 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
4879838 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
4879903 TTGATCCTTGGTATATGTATAAGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
4879941 TGTGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
4880006 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
4880044 TATGTGGTCCTT
1 TATGTGGTCCTT
4880056 ATGGACATTA
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:4880105 original size:23 final size:23
Alignment explanation
Indices: 4880072--4880134 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
4880062 ATTATTATAT
4880072 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * * *
4880095 GGCACTCCGGTGTAATTTTACGT
1 GGCACTACGGTGCAATTCTACGC
4880118 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
4880135 ATATGAGCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:4886012 original size:13 final size:13
Alignment explanation
Indices: 4885989--4886038 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
4885979 ATTGAAAAAA
4885989 AAAAGGAAAAAGAAC
1 AAAA-GAAAAAG-AC
*
4886004 AAAAGAAAAAGAG
1 AAAAGAAAAAGAC
4886017 AAAAG-AAAA-A-
1 AAAAGAAAAAGAC
4886027 AAAAGAAAAAGA
1 AAAAGAAAAAGA
4886039 AAATTAAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.16
11 5 0.16
12 5 0.16
13 6 0.19
14 7 0.22
15 4 0.12
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAC
Found at i:4886012 original size:21 final size:22
Alignment explanation
Indices: 4885983--4886041 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
4885973 TCCTAAATTG
*
4885983 AAAAA-AAAAAGGAAAA-AGAA
1 AAAAAGAAAAAGGAAAAGAAAA
*
4886003 CAAAAGAAAAAGAGAAAAGAAAA
1 AAAAAGAAAAAG-GAAAAGAAAA
4886026 AAAAAGAAAAA-GAAAA
1 AAAAAGAAAAAGGAAAA
4886042 TTAAGGTGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 4 0.12
21 11 0.33
22 5 0.15
23 13 0.39
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAGGAAAAGAAAA
Found at i:4886013 original size:6 final size:6
Alignment explanation
Indices: 4885982--4886041 Score: 63
Period size: 6 Copynumber: 9.8 Consensus size: 6
4885972 ATCCTAAATT
4885982 GAAAAA -AAAAA GGAAAAA GAACAAAA GAAAAA GAGAAAA G-AAAA -AAAAA
1 GAAAAA GAAAAA -GAAAAA G-A-AAAA GAAAAA GA-AAAA GAAAAA GAAAAA
4886031 GAAAAA GAAAA
1 GAAAAA GAAAA
4886042 TTAAGGTGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
5 13 0.28
6 17 0.36
7 12 0.26
8 5 0.11
ACGTcount: A:0.82, C:0.02, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:4886013 original size:14 final size:13
Alignment explanation
Indices: 4885982--4886041 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
4885972 ATCCTAAATT
*
4885982 GAAAAA-AAAAAG
1 GAAAAAGAAAAAA
4885994 GAAAAAGAACAAAA
1 GAAAAAGAA-AAAA
*
4886008 GAAAAAGAGAAAA
1 GAAAAAGAAAAAA
4886021 G--AAA-AAAAAA
1 GAAAAAGAAAAAA
4886031 GAAAAAGAAAA
1 GAAAAAGAAAA
4886042 TTAAGGTGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.15
11 3 0.08
12 9 0.22
13 11 0.28
14 11 0.28
ACGTcount: A:0.82, C:0.02, G:0.17, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:4887130 original size:120 final size:120
Alignment explanation
Indices: 4886913--4887560 Score: 818
Period size: 120 Copynumber: 5.5 Consensus size: 120
4886903 AAACCAAACA
* * **
4886913 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAATAGGT
1 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGT
* * *
4886978 CATCCACGATTCCAACTTCACGATGAATGATATCATGCCAGCAACATTCATCTTT
66 CATCCACGATTTCAACTTCACGACGAATGATATCGTGCCAGCAACATTCATCTTT
* * *
4887033 AGATTGGATTTCAACTTCACGAGGAAGGATACCCAATTCAAGACTCAACTTCACAATGAAGGGGT
1 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGT
* * * ** *
4887098 TATCCACGATTTTAACTTCACGACGAAGGATATCGTGCCAAAAATATTCATCTTT
66 CATCCACGATTTCAACTTCACGACGAATGATATCGTGCCAGCAACATTCATCTTT
* * * *
4887153 AGATAGTATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCACAATGAAGAGGT
1 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGT
* * *
4887218 TATCCATGATTTCAACTTCACGACGAATGATATCATGCCAGC-A-A--CA----T
66 CATCCACGATTTCAACTTCACGACGAATGATATCGTGCCAGCAACATTCATCTTT
*
4887265 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCAGAACGAAGGGGT
1 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGT
** *
4887330 CATCCACGATTTCAACTTCACGAAAAATGATATCGTGCCAGCAACATTCATCATT
66 CATCCACGATTTCAACTTCACGACGAATGATATCGTGCCAGCAACATTCATCTTT
* *
4887385 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCATAACGAAGGGGT
1 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGT
* * * * *
4887450 CATCCATGATTTCAACTTCACGACGAAGGATATCGTGCCCA-CAAGCA-ACA-ATGT
66 CATCCACGATTTCAACTTCACGACGAATGATATCGTG-CCAGCAA-CATTCATCTTT
* * *
4887504 A-ACTCTTGAATTTCAACTTCACAACGAAGGATATCCAATTCAA-AGCTCAACTTCACA
1 AGA---TTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGA-CTCAACTTCACA
4887561 GTGGACTGTT
Statistics
Matches: 462, Mismatches: 52, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
112 98 0.21
113 1 0.00
114 1 0.00
116 4 0.01
118 2 0.00
119 3 0.01
120 302 0.65
121 51 0.11
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (120 bp):
AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGT
CATCCACGATTTCAACTTCACGACGAATGATATCGTGCCAGCAACATTCATCTTT
Found at i:4887350 original size:232 final size:232
Alignment explanation
Indices: 4886913--4887560 Score: 832
Period size: 232 Copynumber: 2.7 Consensus size: 232
4886903 AAACCAAACA
* * *
4886913 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCGAGGCTCAACTTCACAACGAATAGGT
1 AGATAGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGT
* * *
4886978 CATCCACGATTCCAACTTCACGATGAATGATATCATGCCAGCAACATTCATCTTTAGATTGGATT
66 CATCCATGATTTCAACTTCACGACGAATGATATCATGCCAGC-A-A--CA----TAGATTGGATT
* * * *
4887043 TCAACTTCACGAGGAAGGATACCCAATTCAAGACTCAACTTCACAATGAAGGGGTTATCCACGAT
123 TCAACTTCACGACGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGTCATCCACGAT
* ** * *
4887108 TTTAACTTCACGACGAAGGATATCGTGCCAAAAATATTCATCTTT
188 TTCAACTTCACGAAAAAGGATATCGTGCCAAAAACATTCATCATT
* * *
4887153 AGATAGTATTTCAACTTCACGATGAAGGATATCCAATTCAAGACTCAACTTCACAATGAAGAGGT
1 AGATAGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGT
*
4887218 TATCCATGATTTCAACTTCACGACGAATGATATCATGCCAGCAACATAGATTGGATTTCAACTTC
66 CATCCATGATTTCAACTTCACGACGAATGATATCATGCCAGCAACATAGATTGGATTTCAACTTC
* *
4887283 ACGATGAAGGATATCCAATTCAAGACTCAACTTCAGAACGAAGGGGTCATCCACGATTTCAACTT
131 ACGACGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGTCATCCACGATTTCAACTT
* **
4887348 CACGAAAAATGATATCGTGCCAGCAACATTCATCATT
196 CACGAAAAAGGATATCGTGCCAAAAACATTCATCATT
* * *
4887385 AGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCATAACGAAGGGGT
1 AGATAGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGT
* * *
4887450 CATCCATGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACA-ATGTAACTCTTGAA
66 CATCCATGATTTCAACTTCACGACGAATGATATCATG--C-C-AGCAACATA-G--A---TTGGA
*
4887514 TTTCAACTTCACAACGAAGGATATCCAATTCAA-AGCTCAACTTCACA
121 TTTCAACTTCACGACGAAGGATATCCAATTCAAGA-CTCAACTTCACA
4887561 GTGGACTGTT
Statistics
Matches: 361, Mismatches: 36, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
232 201 0.56
234 1 0.00
235 2 0.01
236 10 0.03
238 2 0.01
239 1 0.00
240 98 0.27
241 46 0.13
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (232 bp):
AGATAGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGT
CATCCATGATTTCAACTTCACGACGAATGATATCATGCCAGCAACATAGATTGGATTTCAACTTC
ACGACGAAGGATATCCAATTCAAGACTCAACTTCACAACGAAGGGGTCATCCACGATTTCAACTT
CACGAAAAAGGATATCGTGCCAAAAACATTCATCATT
Found at i:4889563 original size:37 final size:37
Alignment explanation
Indices: 4889470--4889594 Score: 112
Period size: 37 Copynumber: 3.2 Consensus size: 37
4889460 ATTATTTTTC
* *
4889470 TATTATTTTTTCTATTTTTTTGGTTTTTATT-TTCATTA-
1 TATTATATTTT-TATTTTTTT-GTTCTTATTATT-ATTAT
4889508 TATTATACTGTTTATTATTTTTTTGTTCTTATTATTATTAT
1 TATTATA---TTT-TTATTTTTTTGTTCTTATTATTATTAT
***
4889549 TATTATATTTTTATTTTGGGGTTCTTATTATTATTAT
1 TATTATATTTTTATTTTTTTGTTCTTATTATTATTAT
4889586 T-TTAATATT
1 TATT-ATATT
4889595 ATTACATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
36 2 0.03
37 30 0.40
38 9 0.12
40 12 0.16
41 21 0.28
42 1 0.01
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (37 bp):
TATTATATTTTTATTTTTTTGTTCTTATTATTATTAT
Found at i:4889636 original size:12 final size:12
Alignment explanation
Indices: 4889619--4889655 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
4889609 TATATATATA
4889619 TTAATTATTTAT
1 TTAATTATTTAT
4889631 TTAATTATTTAT
1 TTAATTATTTAT
4889643 TT--TTATTTAT
1 TTAATTATTTAT
4889653 TTA
1 TTA
4889656 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
12 14 0.58
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTATTTAT
Found at i:4889649 original size:6 final size:6
Alignment explanation
Indices: 4889638--4889707 Score: 70
Period size: 6 Copynumber: 11.2 Consensus size: 6
4889628 TATTTAATTA
* * *
4889638 TTTATT TTTATTT ATTTATT TTTAAT TTTATT TTTACTT TGTATT ATTT-TC
1 TTTATT TTTA-TT -TTTATT TTTATT TTTATT TTTA-TT TTTATT -TTTATT
4889689 TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT T
4889708 CTTTTATTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 3 0.06
6 35 0.66
7 11 0.21
8 4 0.08
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:4889807 original size:11 final size:10
Alignment explanation
Indices: 4889790--4889861 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 10
4889780 TCTTTATGCT
4889790 TTTATTTTCA
1 TTTATTTTCA
4889800 TATTATTTTC-
1 T-TTATTTTCA
4889810 TTTA-TTTCA
1 TTTATTTTCA
*
4889819 TTTGTTTTTCA
1 TTT-ATTTTCA
4889830 TTTTATTTGT--
1 -TTTATTT-TCA
*
4889840 TCTATTTT-A
1 TTTATTTTCA
4889849 TTTATTTTCA
1 TTTATTTTCA
4889859 TTT
1 TTT
4889862 TTCCCTCTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
8 5 0.10
9 19 0.38
10 6 0.12
11 16 0.32
12 4 0.08
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTATTTTCA
Found at i:4889846 original size:30 final size:29
Alignment explanation
Indices: 4889790--4889862 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
4889780 TCTTTATGCT
* *
4889790 TTTATTTTCATATTATTTTCTTTATTTCA
1 TTTATTTTCATTTTATTTTCTCTATTTCA
* *
4889819 TTTGTTTTTCATTTTATTTGT-TCTATTTTA
1 TTT-ATTTTCATTTTATTT-TCTCTATTTCA
4889849 TTTATTTTCATTTT
1 TTTATTTTCATTTT
4889863 TCCCTCTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 13 0.35
30 23 0.62
31 1 0.03
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (29 bp):
TTTATTTTCATTTTATTTTCTCTATTTCA
Found at i:4890535 original size:63 final size:63
Alignment explanation
Indices: 4890456--4890577 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
4890446 AAGTATTTAT
* * *
4890456 TATCTATTTAACTTTGAATA-TTAAAGATAA-TTATATACTTTTGAATATTTCAAATTAAAATAA
1 TATCTATTTAACTTTGAATAGTAAAAGA-AATTTATAT-CTTTTCAATATTCCAAATTAAAATAA
* * *
4890519 TATCTATTTAAGTTTGAATAGTAAAAGAAGTTTATATTTTTTCAATATTCCAAATTAAA
1 TATCTATTTAACTTTGAATAGTAAAAGAAATTTATATCTTTTCAATATTCCAAATTAAA
4890578 TGATATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
63 39 0.76
64 12 0.24
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (63 bp):
TATCTATTTAACTTTGAATAGTAAAAGAAATTTATATCTTTTCAATATTCCAAATTAAAATAA
Found at i:4892622 original size:21 final size:20
Alignment explanation
Indices: 4892581--4892617 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4892571 TTCCTTTATG
4892581 TTTTTTATGATTATTATTAC
1 TTTTTTATGATTATTATTAC
*
4892601 TTTTTTATTATT-TTATT
1 TTTTTTATGATTATTATT
4892618 CTACTACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTTTTATGATTATTATTAC
Found at i:4892657 original size:9 final size:9
Alignment explanation
Indices: 4892643--4892671 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4892633 TCATTATTTG
4892643 TTATATATT
1 TTATATATT
4892652 TTATATATT
1 TTATATATT
4892661 TTAT-TATT
1 TTATATATT
4892669 TTA
1 TTA
4892672 AAATTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATATATT
Found at i:4892670 original size:8 final size:8
Alignment explanation
Indices: 4892643--4892748 Score: 54
Period size: 8 Copynumber: 13.0 Consensus size: 8
4892633 TCATTATTTG
4892643 TTATATATT
1 TTAT-TATT
4892652 TTATATATT
1 TTAT-TATT
4892661 TTATTATT
1 TTATTATT
**
4892669 TTAAAATT
1 TTATTATT
4892677 TT-TCTATT
1 TTAT-TATT
*
4892685 TTTTTATT
1 TTATTATT
* *
4892693 ATATTATA
1 TTATTATT
* * *
4892701 CTGTT-TA
1 TTATTATT
4892708 TTATTATT
1 TTATTATT
* * *
4892716 TTTTTGTG
1 TTATTATT
*
4892724 TTCTTATT
1 TTATTATT
4892732 ATTATTATT
1 -TTATTATT
4892741 TTATTATT
1 TTATTATT
4892749 ATTACATCCT
Statistics
Matches: 74, Mismatches: 19, Indels: 9
0.73 0.19 0.09
Matches are distributed among these distances:
7 5 0.07
8 48 0.65
9 21 0.28
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (8 bp):
TTATTATT
Found at i:4892770 original size:2 final size:2
Alignment explanation
Indices: 4892763--4892809 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4892753 CATCCTATTT
4892763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4892805 TA TA T
1 TA TA T
4892810 TCTTTATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4892819 original size:4 final size:4
Alignment explanation
Indices: 4892812--4892868 Score: 62
Period size: 4 Copynumber: 13.8 Consensus size: 4
4892802 ATATATATTC
* *
4892812 TTTA TTTA TTTG TTTG TTT- TTTA TTTTA TTTTA TTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA -TTTA TTTA TTTA TTTA
4892862 TTTA TTT
1 TTTA TTT
4892869 TTATTTTTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
3 3 0.06
4 33 0.66
5 14 0.28
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:4892840 original size:5 final size:5
Alignment explanation
Indices: 4892830--4892915 Score: 56
Period size: 5 Copynumber: 17.6 Consensus size: 5
4892820 TTTGTTTGTT
4892830 TTTTA TTTTA TTTTA TTTTA -TTTA -TTTA -TTTA -TTTA TTTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
* * * * * *
4892878 CTTTG TATTA TTTT- CTTTA TTTTC TTTATT TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTT
4892916 CTTTTATTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
4 19 0.29
5 33 0.50
6 14 0.21
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:4892855 original size:9 final size:9
Alignment explanation
Indices: 4892831--4893069 Score: 78
Period size: 9 Copynumber: 25.3 Consensus size: 9
4892821 TTGTTTGTTT
4892831 TTTATTTTA
1 TTTATTTTA
4892840 TTTTATTTTA
1 -TTTATTTTA
4892850 TTTA-TTTA
1 TTTATTTTA
4892858 TTTA-TTTA
1 TTTATTTTA
4892866 TTT-TTATT-
1 TTTATT-TTA
4892874 TTTACTTTGTA
1 TTTA-TTT-TA
*
4892885 -TTATTTTC
1 TTTATTTTA
*
4892893 TTTATTTTC
1 TTTATTTTA
4892902 TTTATTTTTTA
1 TTTA--TTTTA
*
4892913 TTTCTTTTA
1 TTTATTTTA
* *
4892922 TTATCTTTTCC
1 TT-TATTTT-A
* * *
4892933 CTTGTTTCA
1 TTTATTTTA
4892942 TTTATTTTA
1 TTTATTTTA
*
4892951 TTTACTTTTT
1 TTTA-TTTTA
*
4892961 TTTACGTTTA
1 TTTA-TTTTA
* ** *
4892971 CGTTATCCTC
1 -TTTATTTTA
* *
4892981 TTTATTCTC
1 TTTATTTTA
**
4892990 TTTATCCT-
1 TTTATTTTA
4892998 TTTATTTTCA
1 TTTATTTT-A
*
4893008 TATTATTTTC
1 T-TTATTTTA
*
4893018 TTTATTTCA
1 TTTATTTTA
*
4893027 TTTGTTTTTCA
1 TTT-ATTTT-A
4893038 TTT-TATTTA
1 TTTAT-TTTA
4893047 TTCTATTTTA
1 TT-TATTTTA
4893057 TTTATTTTCA
1 TTTATTTT-A
4893067 TTT
1 TTT
4893070 TTCCCTCTAA
Statistics
Matches: 178, Mismatches: 29, Indels: 44
0.71 0.12 0.18
Matches are distributed among these distances:
8 26 0.15
9 72 0.40
10 57 0.32
11 23 0.13
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTATTTTA
Found at i:4892860 original size:38 final size:36
Alignment explanation
Indices: 4892812--4892925 Score: 104
Period size: 38 Copynumber: 3.0 Consensus size: 36
4892802 ATATATATTC
* *
4892812 TTTATTTATTTGTTTGTTTTTTATTTTATTTTATTTT
1 TTTATTTATTTATTT-TTTTTTATTTTATTTTATTAT
*
4892849 ATTTATTTATTTATTTATTTTTATTTTTACTTTGTATTAT
1 -TTTATTTATTTATTTTTTTTTA-TTTTA-TTT-TATTAT
* * *
4892889 TTTCTTTATTTTCTTTATTTTTTA-TTTCTTTTATTAT
1 TTTATTTA-TTTATTT-TTTTTTATTTTATTTTATTAT
4892926 CTTTTCCCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
37 12 0.19
38 22 0.34
39 13 0.20
40 11 0.17
41 6 0.09
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.77
Consensus pattern (36 bp):
TTTATTTATTTATTTTTTTTTATTTTATTTTATTAT
Found at i:4892923 original size:34 final size:33
Alignment explanation
Indices: 4892831--4892929 Score: 89
Period size: 34 Copynumber: 3.0 Consensus size: 33
4892821 TTGTTTGTTT
*
4892831 TTTAT-TTTA-TTTTATTTTATTTA-TTTATTTA
1 TTTATCTTTATTTTTATTTT-TTTATTTTCTTTA
* *
4892862 TTTATTTTTATTTTTACTTTGTATTATTTTCTTTA
1 TTTATCTTTATTTTTA-TTT-TTTTATTTTCTTTA
*
4892897 TTT-TCTTTATTTTTTATTTCTTTTATTATCTTT
1 TTTATCTTTA-TTTTTATTT-TTTTATTTTCTTT
4892930 TCCCTTGTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
31 5 0.09
32 4 0.07
33 5 0.09
34 25 0.45
35 17 0.30
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (33 bp):
TTTATCTTTATTTTTATTTTTTTATTTTCTTTA
Found at i:4893015 original size:11 final size:10
Alignment explanation
Indices: 4892998--4893069 Score: 64
Period size: 11 Copynumber: 7.3 Consensus size: 10
4892988 TCTTTATCCT
4892998 TTTATTTTCA
1 TTTATTTTCA
4893008 TATTATTTTC-
1 T-TTATTTTCA
4893018 TTTA-TTTCA
1 TTTATTTTCA
*
4893027 TTTGTTTTTCA
1 TTT-ATTTTCA
4893038 TTT-TATTT-A
1 TTTAT-TTTCA
4893047 TTCTATTTT-A
1 TT-TATTTTCA
4893057 TTTATTTTCA
1 TTTATTTTCA
4893067 TTT
1 TTT
4893070 TTCCCTCTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
8 4 0.08
9 16 0.30
10 16 0.30
11 17 0.32
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.72
Consensus pattern (10 bp):
TTTATTTTCA
Found at i:4893054 original size:30 final size:29
Alignment explanation
Indices: 4892998--4893070 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
4892988 TCTTTATCCT
* *
4892998 TTTATTTTCATATTATTTTCTTTATTTCA
1 TTTATTTTCATTTTATTTTCTCTATTTCA
* *
4893027 TTTGTTTTTCATTTTATTTAT-TCTATTTTA
1 TTT-ATTTTCATTTTATTT-TCTCTATTTCA
4893057 TTTATTTTCATTTT
1 TTTATTTTCATTTT
4893071 TCCCTCTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 13 0.35
30 23 0.62
31 1 0.03
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (29 bp):
TTTATTTTCATTTTATTTTCTCTATTTCA
Found at i:4893746 original size:63 final size:63
Alignment explanation
Indices: 4893667--4893788 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
4893657 AAGTATTTAT
* * *
4893667 TATCTATTTAACTTTGAATA-TTAAAGATAA-TTATATACTTTTGAATATTTCAAATTAAAATAA
1 TATCTATTTAACTTTGAATAGTAAAAGA-AATTTATAT-CTTTTCAATATTCCAAATTAAAATAA
* * *
4893730 TATCTATTTAAGTTTGAATAGTAAAAGAAGTTTATATTTTTTCAATATTCCAAATTAAA
1 TATCTATTTAACTTTGAATAGTAAAAGAAATTTATATCTTTTCAATATTCCAAATTAAA
4893789 TGGTATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
63 39 0.76
64 12 0.24
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (63 bp):
TATCTATTTAACTTTGAATAGTAAAAGAAATTTATATCTTTTCAATATTCCAAATTAAAATAA
Found at i:4897972 original size:18 final size:19
Alignment explanation
Indices: 4897951--4897986 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4897941 CTTCATTATC
*
4897951 ACCACCATGA-TCATCATA
1 ACCACCATCATTCATCATA
4897969 ACCACCATCATTCATCAT
1 ACCACCATCATTCATCAT
4897987 CATCATAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.36, G:0.03, T:0.25
Consensus pattern (19 bp):
ACCACCATCATTCATCATA
Found at i:4899097 original size:16 final size:16
Alignment explanation
Indices: 4899069--4899109 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4899059 GATATGAGAA
4899069 AAATTATATTTAAGTTT
1 AAATTA-ATTTAAGTTT
*
4899086 AAATTAATTTAATTTT
1 AAATTAATTTAAGTTT
*
4899102 AAAATAAT
1 AAATTAAT
4899110 GTATTACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AAATTAATTTAAGTTT
Found at i:4899106 original size:17 final size:18
Alignment explanation
Indices: 4899068--4899106 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
4899058 AGATATGAGA
4899068 AAAATTATATTTAAGTTT
1 AAAATTATATTTAAGTTT
*
4899086 -AAATTA-ATTTAATTTT
1 AAAATTATATTTAAGTTT
4899102 AAAAT
1 AAAAT
4899107 AATGTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAAATTATATTTAAGTTT
Found at i:4905020 original size:18 final size:18
Alignment explanation
Indices: 4904997--4905035 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4904987 GGTCATTCCC
4904997 TATAATTTTAAAT-TTTTA
1 TATAA-TTTAAATATTTTA
*
4905015 TATAATTTAGATATTTTA
1 TATAATTTAAATATTTTA
4905033 TAT
1 TAT
4905036 TAATAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TATAATTTAAATATTTTA
Found at i:4912633 original size:32 final size:32
Alignment explanation
Indices: 4912588--4912714 Score: 146
Period size: 32 Copynumber: 4.0 Consensus size: 32
4912578 AATAAGATAA
* * * **
4912588 TGACTTTATTATGCATTATATGAATGCCATGC
1 TGACTCTACTATGCATTATATGAATGCAATAT
*
4912620 TAACTCTACTATGCATTATATGAATGCAATAT
1 TGACTCTACTATGCATTATATGAATGCAATAT
** *
4912652 TGGTTCTACTGTGCATTATATGAATGCAATAT
1 TGACTCTACTATGCATTATATGAATGCAATAT
* * *
4912684 TGACTCTACTATGTATTATCTGAATGGAATA
1 TGACTCTACTATGCATTATATGAATGCAATA
4912715 CTTAATCTGT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 79 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (32 bp):
TGACTCTACTATGCATTATATGAATGCAATAT
Found at i:4912833 original size:22 final size:22
Alignment explanation
Indices: 4912805--4912848 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4912795 ACCCCTCTAT
4912805 CCTACTAGATACTAATGTATGA
1 CCTACTAGATACTAATGTATGA
*
4912827 CCTACTATATACTAATGTATGA
1 CCTACTAGATACTAATGTATGA
4912849 TACATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (22 bp):
CCTACTAGATACTAATGTATGA
Found at i:4930704 original size:11 final size:12
Alignment explanation
Indices: 4930687--4930719 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4930677 ATTAATTTTT
4930687 AAAATTAAAAT-
1 AAAATTAAAATA
*
4930698 CAAATTAAAATA
1 AAAATTAAAATA
4930710 AAAATTAAAA
1 AAAATTAAAA
4930720 ATTATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATTAAAATA
Found at i:4934484 original size:14 final size:14
Alignment explanation
Indices: 4934465--4934492 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4934455 TTTTTTCGAG
4934465 TTTCTTTCTTTGCA
1 TTTCTTTCTTTGCA
4934479 TTTCTTTCTTTGCA
1 TTTCTTTCTTTGCA
4934493 GATAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.64
Consensus pattern (14 bp):
TTTCTTTCTTTGCA
Found at i:4942039 original size:18 final size:18
Alignment explanation
Indices: 4942016--4942052 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4942006 CCTTTGAGTC
4942016 TCTCTCTCTC-TACGTTTT
1 TCTCTCTCTCAT-CGTTTT
4942034 TCTCTCTCTCATCGTTTT
1 TCTCTCTCTCATCGTTTT
4942052 T
1 T
4942053 ACGTAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.05, C:0.32, G:0.05, T:0.57
Consensus pattern (18 bp):
TCTCTCTCTCATCGTTTT
Found at i:4953359 original size:17 final size:18
Alignment explanation
Indices: 4953337--4953370 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4953327 AACATCTGTA
4953337 TTAATATCA-AAATAATT
1 TTAATATCATAAATAATT
*
4953354 TTAATATTATAAATAAT
1 TTAATATCATAAATAAT
4953371 GTGTGGCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATATCATAAATAATT
Found at i:4953927 original size:3 final size:3
Alignment explanation
Indices: 4953921--4953966 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4953911 ATATTAAATA
4953921 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4953967 TGTTTTTACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4956458 original size:63 final size:63
Alignment explanation
Indices: 4956376--4956507 Score: 167
Period size: 63 Copynumber: 2.1 Consensus size: 63
4956366 CGTCCCTTGT
* * * * **
4956376 TGCATTACATTTCATAGGATCATCAATTTTGCATTTGTATTTGCATCTTCGTATTCTGCATGA
1 TGCATTACATTTCAGAGGATCATCAATTTTGCATCTGCATTTGCAACTTCACATTCTGCATGA
* * * *
4956439 TGCATTGCATTTTAGAGGATTATCACTTTTGCATCTGCATTTGCAACTTCACATTCTGCATGA
1 TGCATTACATTTCAGAGGATCATCAATTTTGCATCTGCATTTGCAACTTCACATTCTGCATGA
4956502 T-CATTA
1 TGCATTA
4956508 TAAATAAAAG
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
62 4 0.07
63 54 0.93
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.42
Consensus pattern (63 bp):
TGCATTACATTTCAGAGGATCATCAATTTTGCATCTGCATTTGCAACTTCACATTCTGCATGA
Found at i:4958977 original size:31 final size:31
Alignment explanation
Indices: 4958941--4959012 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
4958931 GGATTTAGTC
* *
4958941 AGTGACCAAATTATAAGA-TTTTGTAAAGTTT
1 AGTGACCAAATTATAA-ACTTTAGAAAAGTTT
*
4958972 AGTGACGAAATTATAAACTTTAGAAAAGTTT
1 AGTGACCAAATTATAAACTTTAGAAAAGTTT
4959003 ACG-GACCAAA
1 A-GTGACCAAA
4959013 ATGGTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (31 bp):
AGTGACCAAATTATAAACTTTAGAAAAGTTT
Found at i:4959613 original size:21 final size:21
Alignment explanation
Indices: 4959589--4959636 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
4959579 GTTTATGTTC
4959589 ATGATAGAATTCATGAAATTG
1 ATGATAGAATTCATGAAATTG
* *
4959610 ATGATAGGATTTATGAAATTG
1 ATGATAGAATTCATGAAATTG
4959631 ATGATA
1 ATGATA
4959637 AATCTTGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (21 bp):
ATGATAGAATTCATGAAATTG
Found at i:4959838 original size:30 final size:30
Alignment explanation
Indices: 4959779--4959843 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
4959769 ACAAGCCTTA
* **
4959779 GAAAATTTGGGGATCATTCTGTAACTTTT-
1 GAAAATTGGGGGATCATTCAATAACTTTTG
4959808 GAAAAGTTGGGGGATCAATTCAATAA-TTTTG
1 GAAAA-TTGGGGGATC-ATTCAATAACTTTTG
4959839 GAAAA
1 GAAAA
4959844 ATTGTGATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 5 0.17
30 13 0.43
31 12 0.40
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (30 bp):
GAAAATTGGGGGATCATTCAATAACTTTTG
Found at i:4961307 original size:31 final size:31
Alignment explanation
Indices: 4961272--4961360 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 31
4961262 GAGTCGAGGG
* *
4961272 TTACCTATGTTCTTCGGGATATATGGGTTGT
1 TTACCTATGTTCTTCGGGACATATGGATTGT
* **
4961303 TTACCTATATTCTTCAAGACATATGGATTGT
1 TTACCTATGTTCTTCGGGACATATGGATTGT
* *
4961334 TTACCTAGGTTCTTCGGGACCTATGGA
1 TTACCTATGTTCTTCGGGACATATGGA
4961361 CTGGTCCTTC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGATTGT
Found at i:4961667 original size:6 final size:6
Alignment explanation
Indices: 4961656--4961702 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
4961646 AATGTATTAC
* * *
4961656 ATGATA ATGATA TTGATA TTGATA ATGATA GA-GATC ATGATA ATGAT
1 ATGATA ATGATA ATGATA ATGATA ATGATA -ATGATA ATGATA ATGAT
4961703 GATATATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 1 0.03
6 33 0.94
7 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.36
Consensus pattern (6 bp):
ATGATA
Found at i:4961696 original size:18 final size:18
Alignment explanation
Indices: 4961655--4961702 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4961645 AAATGTATTA
**
4961655 CATGATAATGATATTGAT
1 CATGATAATGATAGAGAT
4961673 -ATTGATAATGATAGAGAT
1 CA-TGATAATGATAGAGAT
4961691 CATGATAATGAT
1 CATGATAATGAT
4961703 GATATATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (18 bp):
CATGATAATGATAGAGAT
Done.