Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 14 of 362
Found at i:4529057 original size:18 final size:18
Alignment explanation
Indices: 4529034--4529069 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4529024 TTGAGGAGTA
4529034 TGATCAGAATTTATAATG
1 TGATCAGAATTTATAATG
4529052 TGATCAGAATTTATAATG
1 TGATCAGAATTTATAATG
4529070 CGACTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (18 bp):
TGATCAGAATTTATAATG
Found at i:4532969 original size:21 final size:21
Alignment explanation
Indices: 4532943--4532983 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4532933 CAGACGAGCA
* *
4532943 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4532964 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4532984 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4539381 original size:29 final size:30
Alignment explanation
Indices: 4539326--4539389 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
4539316 TAAAATTTAT
* *
4539326 TTGATTCATTTAAATAATATAGCGACTAAA
1 TTGATCCATTTAAATAATAGAGCGACTAAA
* *
4539356 TTGATCCATTT-AATAATAGAGGGACTAAT
1 TTGATCCATTTAAATAATAGAGCGACTAAA
4539385 TTGAT
1 TTGAT
4539390 TTAGTCTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (30 bp):
TTGATCCATTTAAATAATAGAGCGACTAAA
Found at i:4542509 original size:31 final size:32
Alignment explanation
Indices: 4542474--4542540 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
4542464 ATAAAATAAT
*
4542474 AAAA-TGAGATTTAGCTTCCTTAAAAGTTAG-A
1 AAAATTGAG-TTTAGCTCCCTTAAAAGTTAGTA
** *
4542505 AAAATTTTGTTTAGGTCCCTTAAAAGTTAGTA
1 AAAATTGAGTTTAGCTCCCTTAAAAGTTAGTA
4542537 AAAA
1 AAAA
4542541 CAATTTTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (32 bp):
AAAATTGAGTTTAGCTCCCTTAAAAGTTAGTA
Found at i:4546058 original size:13 final size:13
Alignment explanation
Indices: 4546040--4546081 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4546030 CTAGTGTGAG
4546040 AAATGATATTATC
1 AAATGATATTATC
* *
4546053 AAATGAATTTTACC
1 AAATG-ATATTATC
4546067 AAATGATATTATC
1 AAATGATATTATC
4546080 AA
1 AA
4546082 TCCATGTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (13 bp):
AAATGATATTATC
Found at i:4550008 original size:75 final size:75
Alignment explanation
Indices: 4549854--4550167 Score: 285
Period size: 75 Copynumber: 4.3 Consensus size: 75
4549844 ACTGAATTGC
* * * * * * *
4549854 CTACAAGTGCTAAAGAGATGGAT-AAAACTTTGGA-GA--TGAACATTGAATTGTTACCAAAGCC
1 CTACAAGTGCTAAAGAGATGGGTCATAA-TATGGAGGAGGAGAACATCGAATTGATACCAAAGCT
4549915 TATAGAAGATT
65 TATAGAAGATT
* * *
4549926 CTACAAGTCCTAAAGAGATGGGTCATAATATGGAGGAGTG-GAGCATCGAATTGATATCAAAGCT
1 CTACAAGTGCTAAAGAGATGGGTCATAATATGGAGGAG-GAGAACATCGAATTGATACCAAAGCT
*
4549990 TATGGAAGATT
65 TATAGAAGATT
* * * * *
4550001 CTCCAAGTGCTAAAGAGA----TC--AGTATGGAGGAGGAGAACATCAAACTCATACCAAAGCTT
1 CTACAAGTGCTAAAGAGATGGGTCATAATATGGAGGAGGAGAACATCGAATTGATACCAAAGCTT
4550060 ATAGAAGATT
66 ATAGAAGATT
* * * * **
4550070 CTACAAGTGCTAAAGAGATAGAT-ATGAATATGAAGGAGGAGAACGTTC-AATTGATGTCAAAGC
1 CTACAAGTGCTAAAGAGATGGGTCAT-AATATGGAGGAGGAGAAC-ATCGAATTGATACCAAAGC
4550133 TTATAGAAGATT
64 TTATAGAAGATT
* *
4550145 CTTCAAATGCTAAAGAGATGGGT
1 CTACAAGTGCTAAAGAGATGGGT
4550168 AAGGATGTGG
Statistics
Matches: 197, Mismatches: 31, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
68 1 0.01
69 57 0.29
71 2 0.01
72 26 0.13
73 6 0.03
75 103 0.52
76 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.25
Consensus pattern (75 bp):
CTACAAGTGCTAAAGAGATGGGTCATAATATGGAGGAGGAGAACATCGAATTGATACCAAAGCTT
ATAGAAGATT
Found at i:4554252 original size:13 final size:13
Alignment explanation
Indices: 4554234--4554281 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
4554224 AGTAAATTTG
4554234 ATAATATAAACCT
1 ATAATATAAACCT
* **
4554247 ATAATATGATATGT
1 ATAATAT-AAACCT
4554261 GATAATATAAACCT
1 -ATAATATAAACCT
4554275 ATAATAT
1 ATAATAT
4554282 GATATGCCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 14 0.52
14 6 0.22
15 7 0.26
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (13 bp):
ATAATATAAACCT
Found at i:4554272 original size:28 final size:28
Alignment explanation
Indices: 4554232--4554287 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
4554222 GCAGTAAATT
4554232 TGATAATATAAACCTATAATATGATATG
1 TGATAATATAAACCTATAATATGATATG
4554260 TGATAATATAAACCTATAATATGATATG
1 TGATAATATAAACCTATAATATGATATG
4554288 CCTTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (28 bp):
TGATAATATAAACCTATAATATGATATG
Found at i:4560638 original size:20 final size:20
Alignment explanation
Indices: 4560613--4560667 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
4560603 TAGTGATTTA
4560613 ATATAAATATAATTATAA-AT
1 ATATAAATATAATT-TAACAT
* *
4560633 ATATAATTATTATTTAACAT
1 ATATAAATATAATTTAACAT
4560653 ATAT-AAT-TAATTTAA
1 ATATAAATATAATTTAA
4560668 TATTTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 7 0.23
19 5 0.17
20 18 0.60
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATAAATATAATTTAACAT
Found at i:4560665 original size:18 final size:17
Alignment explanation
Indices: 4560608--4560667 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
4560598 TGGGTTAGTG
4560608 ATTT-AATATA-AATATA
1 ATTTAAATATATAAT-TA
4560624 ATTATAAATATATAATTA
1 ATT-TAAATATATAATTA
4560642 TTATTTAACATATATAATTA
1 --ATTTAA-ATATATAATTA
4560662 ATTTAA
1 ATTTAA
4560668 TATTTTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 14 0.37
19 6 0.16
20 14 0.37
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTAAATATATAATTA
Found at i:4563152 original size:6 final size:6
Alignment explanation
Indices: 4563127--4563169 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
4563117 AAATGATTAA
*
4563127 CACAAT CATCAAT CAAAAT CACAAT CACAAT CACAAT CACAAT
1 CACAAT CA-CAAT CACAAT CACAAT CACAAT CACAAT CACAAT
4563170 AAACTTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (6 bp):
CACAAT
Found at i:4564034 original size:14 final size:14
Alignment explanation
Indices: 4564012--4564060 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
4564002 GTTTATTTAT
*
4564012 ATTATATTAAGTTA
1 ATTAAATTAAGTTA
*
4564026 ATTAAATTATGTTA
1 ATTAAATTAAGTTA
*
4564040 ATGATAATTAAGTTA
1 ATTA-AATTAAGTTA
4564055 AGTTAA
1 A-TTAA
4564061 TTAGGTCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 15 0.54
15 11 0.39
16 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (14 bp):
ATTAAATTAAGTTA
Found at i:4564049 original size:20 final size:20
Alignment explanation
Indices: 4564024--4564061 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4564014 TATATTAAGT
*
4564024 TAATTAAATTATGTTAATGA
1 TAATTAAATTAAGTTAATGA
*
4564044 TAATTAAGTTAAGTTAAT
1 TAATTAAATTAAGTTAAT
4564062 TAGGTCTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
TAATTAAATTAAGTTAATGA
Found at i:4567803 original size:24 final size:24
Alignment explanation
Indices: 4567774--4567824 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4567764 GTTGTTTTAT
*
4567774 TTTTATAATTTTAATTTATTAATA
1 TTTTATAATTATAATTTATTAATA
* *
4567798 TTTTATAATTATATTTTTTTAATA
1 TTTTATAATTATAATTTATTAATA
4567822 TTT
1 TTT
4567825 AGAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTATAATTATAATTTATTAATA
Found at i:4568169 original size:22 final size:24
Alignment explanation
Indices: 4568117--4568176 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
4568107 CTATTTTTAT
4568117 TAAATAAAATA-AAATTATAACAAC
1 TAAA-AAAATATAAATTATAACAAC
*
4568141 T-ATAAAATATAAA-TATAA-AAC
1 TAAAAAAATATAAATTATAACAAC
4568162 TAAAAAAATTATAAA
1 TAAAAAAA-TATAAA
4568177 AAGGGTGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 4 0.13
22 16 0.52
23 10 0.32
24 1 0.03
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAAAAAATATAAATTATAACAAC
Found at i:4572458 original size:25 final size:26
Alignment explanation
Indices: 4572409--4572458 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
4572399 CTTTTTCTTT
* *
4572409 TCTTTTCATTTTTAGATTAGGTTTTC
1 TCTTTTCATTTTTAGAATAGATTTTC
4572435 TCTTTTC-TTTTTAGAATAGATTTT
1 TCTTTTCATTTTTAGAATAGATTTT
4572459 ATATTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (26 bp):
TCTTTTCATTTTTAGAATAGATTTTC
Found at i:4575300 original size:24 final size:25
Alignment explanation
Indices: 4575258--4575305 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
4575248 CATTGTAAGG
*
4575258 GGGTTCTTTTTTTTGGAGAAAAAAA
1 GGGTTCTTTTTTTTAGAGAAAAAAA
4575283 GGGTTC-TTTTTTTAGAGAAAAAA
1 GGGTTCTTTTTTTTAGAGAAAAAA
4575306 GGAGAGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (25 bp):
GGGTTCTTTTTTTTAGAGAAAAAAA
Found at i:4575328 original size:24 final size:23
Alignment explanation
Indices: 4575301--4575351 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 23
4575291 TTTTTAGAGA
4575301 AAAAAGGAGAGA-TTCGAATACAAG
1 AAAAA-GAGAGACTTC-AATACAAG
4575325 AAAAAGAGAGACTTTCAATACAAG
1 AAAAAGAGAGAC-TTCAATACAAG
4575349 AAA
1 AAA
4575352 TACACGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.24
24 16 0.64
25 3 0.12
ACGTcount: A:0.57, C:0.10, G:0.20, T:0.14
Consensus pattern (23 bp):
AAAAAGAGAGACTTCAATACAAG
Found at i:4575905 original size:30 final size:30
Alignment explanation
Indices: 4575839--4575921 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
4575829 TGTTATTTTC
*
4575839 TATT-TTATTATTACTTTT-ATTACTATTGT
1 TATTATTATTATTA-TTTTCATTACTATCGT
4575868 T-TCTATTATTATTATTTTCATTACT-TCCGT
1 TAT-TATTATTATTATTTTCATTACTAT-CGT
*
4575898 TATTATTATCATTATTTTCTATTA
1 TATTATTATTATTATTTTC-ATTA
4575922 TCATTAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
28 1 0.02
29 7 0.15
30 33 0.72
31 5 0.11
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (30 bp):
TATTATTATTATTATTTTCATTACTATCGT
Found at i:4576023 original size:25 final size:23
Alignment explanation
Indices: 4575987--4576038 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 23
4575977 TTATATTTAC
4575987 TTTTTTAATATTATTACCATTAT
1 TTTTTTAATATTATTACCATTAT
*
4576010 TTTTTTAAATTATTATTACTATTAT
1 TTTTTT-AA-TATTATTACCATTAT
4576035 TTTT
1 TTTT
4576039 ATTATCCGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.23
24 2 0.08
25 18 0.69
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTTAATATTATTACCATTAT
Found at i:4576032 original size:22 final size:23
Alignment explanation
Indices: 4575987--4576039 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4575977 TTATATTTAC
*
4575987 TTTTTTAATATTATTACCATTAT
1 TTTTTTAATATTATTACCACTAT
**
4576010 TTTTTTAA-ATTATTATTACTAT
1 TTTTTTAATATTATTACCACTAT
4576032 TATTTTTA
1 T-TTTTTA
4576040 TTATCCGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTTAATATTATTACCACTAT
Found at i:4576386 original size:125 final size:127
Alignment explanation
Indices: 4576204--4576465 Score: 352
Period size: 125 Copynumber: 2.1 Consensus size: 127
4576194 ATTTTTCAAG
* * *
4576204 TAAAGGCAATATTCGGTACTTGAAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTC-AGTTT
1 TAAAGGCAATATTCCGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTAGGTTTCGA-TTT
* * *
4576268 TTTGTTTGATCTAAGTAACTGATTATCC-TTTT-AAATTAAAATACATGAGTTGTAAATAAAA
65 TCTGTTTGATCTAAATAACTGAATATCCTTTTTAAAATTAAAATACATGAGTTGTAAATAAAA
* * *
4576329 TAAAGGCAATATTCCGTA-TTTAGAAATTCGAGTAGTCGTGCCCTAACGTACTAGGTTTCGATTT
1 TAAAGGCAATATTCCGTACTTGA-AAATTCGAGAAATCGTGCCCTAACGTACTAGGTTTCGATTT
* * * *
4576393 TCTGTTTGATCTAAATATCTGAATATCCTTTTTAAAATTTAAATACATGAGTTTTAAATGAAA
65 TCTGTTTGATCTAAATAACTGAATATCCTTTTTAAAATTAAAATACATGAGTTGTAAATAAAA
4576456 TAGAAGGCAA
1 TA-AAGGCAA
4576466 GCTCATACTC
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
124 3 0.03
125 76 0.64
126 5 0.04
127 28 0.24
128 7 0.06
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (127 bp):
TAAAGGCAATATTCCGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTAGGTTTCGATTTT
CTGTTTGATCTAAATAACTGAATATCCTTTTTAAAATTAAAATACATGAGTTGTAAATAAAA
Found at i:4576485 original size:125 final size:125
Alignment explanation
Indices: 4576239--4576507 Score: 296
Period size: 125 Copynumber: 2.2 Consensus size: 125
4576229 ATTCGAGAAA
* * * *
4576239 TCGTGTCCTAACGTACTGGGTTTCAGTTTTTTGTTTGATCTAAGTAACTGATTATCCTTTTAAAT
1 TCGTGTCCTAACGTACTAGGTTTCAGTTTTCTGTTTGATCTAAATAACTGAATATCCTTTTAAAT
* * * *
4576304 TAAAATACATGAGTTGTAAATAAAATAAAGGCAATATTCCGTATTTAGAAATTCGA-GTAG
66 TAAAATACATGAGTTGTAAATAAAATAAAGGCAATACTCCATATCTAGAAAGTCGAGGT-G
* *
4576364 TCGTGCCCTAACGTACTAGGTTTC-GATTTTCTGTTTGATCTAAATATCTGAATATCCTTTTTAA
1 TCGTGTCCTAACGTACTAGGTTTCAG-TTTTCTGTTTGATCTAAATAACTGAATATCC-TTTT-A
* * * * * **
4576428 AATTTAAATACATGAGTTTTAAATGAAATAGAAGGCAA-GCT-CATA-CTCGAGGGTCGAGGTG
63 AATTAAAATACATGAGTTGTAAATAAAATA-AAGGCAATACTCCATATCTAGAAAGTCGAGGTG
*
4576489 TTGTGTCCTAACGTACTAG
1 TCGTGTCCTAACGTACTAG
4576508 ATATAACATT
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
124 1 0.01
125 74 0.62
126 9 0.08
127 29 0.24
128 7 0.06
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (125 bp):
TCGTGTCCTAACGTACTAGGTTTCAGTTTTCTGTTTGATCTAAATAACTGAATATCCTTTTAAAT
TAAAATACATGAGTTGTAAATAAAATAAAGGCAATACTCCATATCTAGAAAGTCGAGGTG
Found at i:4577936 original size:106 final size:105
Alignment explanation
Indices: 4577803--4578083 Score: 350
Period size: 106 Copynumber: 2.7 Consensus size: 105
4577793 TGTTTGATTG
* * * * * * *
4577803 GTTCGACCACCGGTCGAGTTCTAAAAACCTTGGTCAGAATATTTCATTTTAACATATGCTAATAG
1 GTTCAACCACCAGTCGAGTTTTGAAAACCTTGGTTAGAATA-TTCATTCTGACATATGCTAATAG
* *
4577868 TTGGATGAATCGATCGAATTGGCAAATTGGGGGCGTGATCA
65 TTGGATGAATCGATCGAATTGGCAAATTAGGGGCATGATCA
* *
4577909 GTTCAACCACCAGTCGAGTTTTGAAAACCTAGGTTAGAATATTCTATTCTGACATATGCTAACAG
1 GTTCAACCACCAGTCGAGTTTTGAAAACCTTGGTTAGAATATTC-ATTCTGACATATGCTAATAG
* * * * **
4577974 TTGGATGAATTGATCGAATTGGTAAATTATGGGCATGGTTG
65 TTGGATGAATCGATCGAATTGGCAAATTAGGGGCATGATCA
* *
4578015 GTTCAACCACTAGTCGAGTTTTGAAAA-CTTAGGTTAGAATATT-ATACTGACATATGCTAATAG
1 GTTCAACCACCAGTCGAGTTTTGAAAACCTT-GGTTAGAATATTCATTCTGACATATGCTAATAG
4578078 TTGGAT
65 TTGGAT
4578084 AATGAAATTT
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
104 24 0.16
105 5 0.03
106 123 0.81
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (105 bp):
GTTCAACCACCAGTCGAGTTTTGAAAACCTTGGTTAGAATATTCATTCTGACATATGCTAATAGT
TGGATGAATCGATCGAATTGGCAAATTAGGGGCATGATCA
Found at i:4578247 original size:9 final size:9
Alignment explanation
Indices: 4578235--4578408 Score: 103
Period size: 9 Copynumber: 19.2 Consensus size: 9
4578225 GATTTTTTAA
4578235 TATAATTTT
1 TATAATTTT
*
4578244 TATAAGTTTA
1 TATAA-TTTT
4578254 TATCAATTTT
1 TAT-AATTTT
* *
4578264 AATATTTTT
1 TATAATTTT
4578273 TATAATATTT
1 TATAAT-TTT
4578283 TAT--TTTT
1 TATAATTTT
*
4578290 AATAATTTT
1 TATAATTTT
* *
4578299 AATATTTTT
1 TATAATTTT
4578308 TAT-A-TTT
1 TATAATTTT
*
4578315 TAAATATGTTT
1 TATA-AT-TTT
4578326 TATTAA-TTT
1 TA-TAATTTT
4578335 TATAATTTT
1 TATAATTTT
*
4578344 TTTAATTTT
1 TATAATTTT
* *
4578353 AATATTTTAT
1 TATAATTT-T
4578363 TATCAATTTT
1 TAT-AATTTT
*
4578373 AAT-A-TTT
1 TATAATTTT
*
4578380 TA-ATTTTT
1 TATAATTTT
4578388 TATAATATTT
1 TATAAT-TTT
4578398 TATAATTTT
1 TATAATTTT
4578407 TA
1 TA
4578409 ATCATTTTAA
Statistics
Matches: 126, Mismatches: 22, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
7 14 0.11
8 10 0.08
9 57 0.45
10 32 0.25
11 12 0.10
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:4578282 original size:20 final size:18
Alignment explanation
Indices: 4578235--4578380 Score: 140
Period size: 17 Copynumber: 7.9 Consensus size: 18
4578225 GATTTTTTAA
* * *
4578235 TATAATTTTTATAAGTTTA
1 TATAATTTTAAT-ATTTTT
4578254 TATCAATTTTAATATTTTT
1 TAT-AATTTTAATATTTTT
4578273 TATAATATTT--TATTTTT
1 TATAAT-TTTAATATTTTT
*
4578290 AATAATTTTAATATTTTT
1 TATAATTTTAATATTTTT
*
4578308 TAT-ATTTTAAATATGTTT
1 TATAATTTT-AATATTTTT
4578326 TATTAATTTT-ATAATTTTT
1 TA-TAATTTTAAT-ATTTTT
4578345 T-TAATTTTAATATTTTAT
1 TATAATTTTAATATTTT-T
4578363 TATCAATTTTAATATTTT
1 TAT-AATTTTAATATTTT
4578381 AATTTTTTAT
Statistics
Matches: 108, Mismatches: 7, Indels: 23
0.78 0.05 0.17
Matches are distributed among these distances:
16 3 0.03
17 29 0.27
18 28 0.26
19 21 0.19
20 27 0.25
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (18 bp):
TATAATTTTAATATTTTT
Found at i:4578304 original size:18 final size:18
Alignment explanation
Indices: 4578258--4578420 Score: 119
Period size: 18 Copynumber: 9.1 Consensus size: 18
4578248 AGTTTATATC
*
4578258 AATTTTAATATTTTTTAT
1 AATTTTAATATTTTTAAT
4578276 AATATTT--TATTTTTAAT
1 AAT-TTTAATATTTTTAAT
*
4578293 AATTTTAATATTTTTTAT
1 AATTTTAATATTTTTAAT
*
4578311 -ATTTTAAATATGTTTTATT
1 AATTTT-AATAT-TTTTAAT
*
4578330 AATTTT-ATAATTTTT-TT
1 AATTTTAAT-ATTTTTAAT
*
4578347 AATTTTAATATTTTATTAT
1 AATTTTAATATTTT-TAAT
4578366 CAATTTTAATA-TTTTAAT
1 -AATTTTAATATTTTTAAT
**
4578384 TTTTTATAATA-TTTT-AT
1 AATTT-TAATATTTTTAAT
4578401 AATTTTTAATCA-TTTTAAT
1 AA-TTTTAAT-ATTTTTAAT
4578420 A
1 A
4578421 GGGAAAATAT
Statistics
Matches: 120, Mismatches: 10, Indels: 29
0.75 0.06 0.18
Matches are distributed among these distances:
16 3 0.03
17 39 0.32
18 46 0.38
19 17 0.14
20 15 0.12
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (18 bp):
AATTTTAATATTTTTAAT
Found at i:4578336 original size:37 final size:37
Alignment explanation
Indices: 4578235--4578380 Score: 153
Period size: 37 Copynumber: 4.0 Consensus size: 37
4578225 GATTTTTTAA
* *
4578235 TATAATTTTTATAAGTTTATATCAATTTTAATATTTTT
1 TATAATTTTAATATGTTT-TATCAATTTTAATATTTTT
4578273 TATAATATTT--TAT-TTTTAAT-AATTTTAATATTTTT
1 TATAAT-TTTAATATGTTTT-ATCAATTTTAATATTTTT
*
4578308 TAT-ATTTTAAATATGTTTTATTAATTTT-ATAATTTTT
1 TATAATTTT-AATATGTTTTATCAATTTTAAT-ATTTTT
*
4578345 T-TAATTTTAATATTTTATTATCAATTTTAATATTTT
1 TATAATTTTAATATGTT-TTATCAATTTTAATATTTT
4578381 AATTTTTTAT
Statistics
Matches: 94, Mismatches: 3, Indels: 23
0.78 0.03 0.19
Matches are distributed among these distances:
33 3 0.03
34 2 0.02
35 19 0.20
36 20 0.21
37 39 0.41
38 8 0.09
39 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (37 bp):
TATAATTTTAATATGTTTTATCAATTTTAATATTTTT
Found at i:4578385 original size:26 final size:26
Alignment explanation
Indices: 4578292--4578399 Score: 73
Period size: 26 Copynumber: 4.1 Consensus size: 26
4578282 TTATTTTTAA
4578292 TAATTTTAATATTTTTTAT-AT-TTT
1 TAATTTTAATATTTTTTATAATATTT
* * *
4578316 AAATATGTT-TTATTAATTTTATAATTTTTT
1 TAAT-T-TTAATATT--TTTTATAA-TATTT
*
4578346 TAATTTTAATATTTTATTATCA-ATTT
1 TAATTTTAATATTTT-TTATAATATTT
*
4578372 TAATATTTTA-ATTTTTTATAATATTT
1 TAAT-TTTAATATTTTTTATAATATTT
4578398 TA
1 TA
4578400 TAATTTTTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
24 3 0.05
25 10 0.15
26 20 0.31
27 12 0.18
28 8 0.12
29 6 0.09
30 6 0.09
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (26 bp):
TAATTTTAATATTTTTTATAATATTT
Found at i:4583448 original size:56 final size:56
Alignment explanation
Indices: 4583356--4583467 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
4583346 AAAACCTCAC
* * *
4583356 AGAACCAAAGGAAGCAGCCAGAAATGATGATTGGAGCTGTCAATCAGAGGAAATAA
1 AGAACCAAAGGAAGCAGCCAGAAACGATGATCGGAGCTGTCAAACAGAGGAAATAA
* * * *
4583412 AGAATCAAAGGAAGCCGCCAGAAACGATGATCGGAGCTGTTAAACATAGGAAATAA
1 AGAACCAAAGGAAGCAGCCAGAAACGATGATCGGAGCTGTCAAACAGAGGAAATAA
4583468 CTGGCAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.45, C:0.15, G:0.26, T:0.14
Consensus pattern (56 bp):
AGAACCAAAGGAAGCAGCCAGAAACGATGATCGGAGCTGTCAAACAGAGGAAATAA
Found at i:4584717 original size:30 final size:28
Alignment explanation
Indices: 4584659--4584717 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 28
4584649 AAGTAATATG
* *
4584659 GAGAGAAACTCAAAAACAAAAATTGAGA
1 GAGAGAAACGCAAAAACAAAAATAGAGA
4584687 GAGATGAAACGCAAAGAACAACAAA-AGAGA
1 GAGA-GAAACGCAAA-AACAA-AAATAGAGA
4584717 G
1 G
4584718 CTTTGAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 9 0.35
30 10 0.38
31 3 0.12
ACGTcount: A:0.59, C:0.12, G:0.22, T:0.07
Consensus pattern (28 bp):
GAGAGAAACGCAAAAACAAAAATAGAGA
Found at i:4589379 original size:12 final size:12
Alignment explanation
Indices: 4589364--4589443 Score: 72
Period size: 12 Copynumber: 6.6 Consensus size: 12
4589354 GCACCCACAC
4589364 ACACACATACAT
1 ACACACATACAT
*
4589376 ACACACACGCACAT
1 ACACACA--TACAT
*
4589390 ACATACATACAT
1 ACACACATACAT
*
4589402 ACATACATACAT
1 ACACACATACAT
* * *
4589414 GCATACAGACAT
1 ACACACATACAT
*
4589426 ACACACATGCA-
1 ACACACATACAT
4589437 ACACACA
1 ACACACA
4589444 CATCCATCCA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
11 7 0.12
12 40 0.70
14 10 0.18
ACGTcount: A:0.47, C:0.33, G:0.05, T:0.15
Consensus pattern (12 bp):
ACACACATACAT
Found at i:4589380 original size:18 final size:18
Alignment explanation
Indices: 4589359--4589396 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4589349 CACATGCACC
4589359 CACACACACACATACATA
1 CACACACACACATACATA
*
4589377 CACACACGCACATACATA
1 CACACACACACATACATA
4589395 CA
1 CA
4589397 TACATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.39, G:0.03, T:0.11
Consensus pattern (18 bp):
CACACACACACATACATA
Found at i:4589393 original size:4 final size:4
Alignment explanation
Indices: 4589386--4589505 Score: 96
Period size: 4 Copynumber: 29.0 Consensus size: 4
4589376 ACACACACGC
* * *
4589386 ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAG ACAT ACAC ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * *
4589434 GCAAC ACAC ACAT CCAT CCAT GCAT ACAT ACAT ACAT AAAT GAAAT ATAT
1 AC-AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT
4589484 CCACAT ACAT ACAT ACAT ACAT
1 --ACAT ACAT ACAT ACAT ACAT
4589506 GCATGTGCAT
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
4 87 0.91
5 6 0.06
6 3 0.03
ACGTcount: A:0.47, C:0.28, G:0.04, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:4591614 original size:32 final size:32
Alignment explanation
Indices: 4591573--4591639 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
4591563 GAAGAGTGCA
4591573 ATCCGTTCGCCTCTCCGGGCAGAATTGATCCT
1 ATCCGTTCGCCTCTCCGGGCAGAATTGATCCT
4591605 ATCCGTTCGCCTCTCCGGGCAGAATTGATCCT
1 ATCCGTTCGCCTCTCCGGGCAGAATTGATCCT
4591637 ATC
1 ATC
4591640 TCATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.16, C:0.34, G:0.21, T:0.28
Consensus pattern (32 bp):
ATCCGTTCGCCTCTCCGGGCAGAATTGATCCT
Found at i:4596848 original size:6 final size:6
Alignment explanation
Indices: 4596837--4596868 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
4596827 TGTACCTCAT
*
4596837 TTCCTC TTCCTC TTCCTC TTCCTC GTCCTC TT
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC TT
4596869 TCACGGCCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (6 bp):
TTCCTC
Found at i:4597428 original size:24 final size:24
Alignment explanation
Indices: 4597401--4597462 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
4597391 GTTGTGGTGG
* *
4597401 TGCTTGTGCTAATAATGGTGGCGC
1 TGCTTGTGCTAACAATGATGGCGC
** * *
4597425 TGCTTGTGCCGACAATGATTGCGG
1 TGCTTGTGCTAACAATGATGGCGC
4597449 TGCTTGTGCTAACA
1 TGCTTGTGCTAACA
4597463 CAGGTTGTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (24 bp):
TGCTTGTGCTAACAATGATGGCGC
Found at i:4601416 original size:14 final size:13
Alignment explanation
Indices: 4601385--4601421 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
4601375 AATTTTTTTT
4601385 AAAAATAAAACCC
1 AAAAATAAAACCC
4601398 AAAAATAAAACCC
1 AAAAATAAAACCC
*
4601411 AGAAAAGAAAA
1 A-AAAATAAAA
4601422 AAATTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.73, C:0.16, G:0.05, T:0.05
Consensus pattern (13 bp):
AAAAATAAAACCC
Found at i:4602247 original size:30 final size:30
Alignment explanation
Indices: 4602202--4602260 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4602192 CTTAATAAAC
* *
4602202 AAATGTCTCTAAAATAATAATAAAATTAAT
1 AAATATCTCTAAAATAATAACAAAATTAAT
*
4602232 AAATATCTTTAAAATAATAACAAAATTAA
1 AAATATCTCTAAAATAATAACAAAATTAA
4602261 CAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAT
Found at i:4602378 original size:17 final size:17
Alignment explanation
Indices: 4602353--4602385 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4602343 AAATAATAAG
*
4602353 AAAATAATATTTTTTTT
1 AAAAAAATATTTTTTTT
4602370 AAAAAAATATTTTTTT
1 AAAAAAATATTTTTTT
4602386 ATCCTTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAAAAAATATTTTTTTT
Found at i:4610947 original size:45 final size:44
Alignment explanation
Indices: 4610865--4610953 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
4610855 TCACCTAGAC
*
4610865 TTCATCTGTCACTATCAATCAATTTATTTACATAGTAACTTGAT
1 TTCATCTGTCACTATCAACCAATTTATTTACATAGTAACTTGAT
* * * *
4610909 TTCATTTGTCATTATCAACCTAATTTCTTTACTTAGTAACTTGAT
1 TTCATCTGTCACTATCAACC-AATTTATTTACATAGTAACTTGAT
4610954 CCATAGAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 17 0.44
45 22 0.56
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (44 bp):
TTCATCTGTCACTATCAACCAATTTATTTACATAGTAACTTGAT
Found at i:4612077 original size:29 final size:29
Alignment explanation
Indices: 4612041--4612100 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
4612031 TCATTTTTAT
4612041 AAAAGAATTATTTTAAGGCATTAAGTAAA
1 AAAAGAATTATTTTAAGGCATTAAGTAAA
4612070 AAAAGAATTATTTTAAGGCATTAAGTAAA
1 AAAAGAATTATTTTAAGGCATTAAGTAAA
4612099 AA
1 AA
4612101 CATAATGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.30
Consensus pattern (29 bp):
AAAAGAATTATTTTAAGGCATTAAGTAAA
Found at i:4612484 original size:21 final size:22
Alignment explanation
Indices: 4612460--4612500 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4612450 ATGGTATATA
4612460 AAAATGTACA-AGTA-ATATAAT
1 AAAAT-TACATAGTATATATAAT
4612481 AAAATTACATAGTATATATA
1 AAAATTACATAGTATATATA
4612501 TATGTTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAATTACATAGTATATATAAT
Found at i:4613100 original size:21 final size:22
Alignment explanation
Indices: 4613076--4613128 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
4613066 TATACAAAAC
*
4613076 AAAATATACGCATAATATA-TT
1 AAAATATACGCATAATATACAT
** *
4613097 AAAATATATACATAATGTACAT
1 AAAATATACGCATAATATACAT
4613119 AAAATATACG
1 AAAATATACG
4613129 TATATACATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAATATACGCATAATATACAT
Found at i:4617436 original size:5 final size:5
Alignment explanation
Indices: 4617401--4617432 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
4617391 GATTAAAGTA
*
4617401 TAATT TAATT TAATT TAATT TAATT TATTT TA
1 TAATT TAATT TAATT TAATT TAATT TAATT TA
4617433 TTTTTTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:4617475 original size:13 final size:14
Alignment explanation
Indices: 4617457--4617485 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4617447 ATTTTAAAAA
4617457 ATTTGAAAT-TTTT
1 ATTTGAAATATTTT
4617470 ATTTGAAATATTTT
1 ATTTGAAATATTTT
4617484 AT
1 AT
4617486 AATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
ATTTGAAATATTTT
Found at i:4617517 original size:21 final size:21
Alignment explanation
Indices: 4617454--4617539 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 21
4617444 TTAATTTTAA
*
4617454 AAAATTTGAAAT-TT-TTATTT
1 AAAATTTTAAATATTATT-TTT
4617474 GAAATATTTTATAATATTTATTTTT
1 -AAA-ATTTTA-AATA-TTATTTTT
4617499 AAAATTTTAAATATTATTTTT
1 AAAATTTTAAATATTATTTTT
* *
4617520 TAAATATTAAATA-TATTTTT
1 AAAATTTTAAATATTATTTTT
4617540 TAATAATATA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
20 7 0.12
21 22 0.39
22 9 0.16
23 9 0.16
24 3 0.05
25 5 0.09
26 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AAAATTTTAAATATTATTTTT
Found at i:4617519 original size:22 final size:21
Alignment explanation
Indices: 4617454--4617557 Score: 86
Period size: 22 Copynumber: 4.8 Consensus size: 21
4617444 TTAATTTTAA
* *
4617454 AAAATTTGAAAT-TTTTATTTG
1 AAAATTTTAAATATTTT-TTTT
4617475 AAATATTTTATAATATTTATTTTT
1 AAA-ATTTTA-AATATTT-TTTTT
4617499 AAAATTTTAAATATTATTTTTT
1 AAAATTTTAAATATT-TTTTTT
* *
4617521 -AAATATTAAATATATTTTTT
1 AAAATTTTAAATATTTTTTTT
* *
4617541 AATAATATAAAATATTT
1 AA-AATTTTAAATATTT
4617558 AAATATTTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
20 6 0.09
21 16 0.23
22 28 0.40
23 10 0.14
24 9 0.13
25 1 0.01
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AAAATTTTAAATATTTTTTTT
Found at i:4617540 original size:21 final size:21
Alignment explanation
Indices: 4617486--4617556 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
4617476 AATATTTTAT
*
4617486 AATATTTATTTTTAAAATTTTA
1 AATA-TTATTTTTAAAATATTA
*
4617508 AATATTATTTTTTAAATATTA
1 AATATTATTTTTAAAATATTA
*
4617529 AATA-TATTTTTTAATAATATAA
1 AATATTA-TTTTTAA-AATATTA
4617551 AATATT
1 AATATT
4617557 TAAATATTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.05
21 25 0.60
22 14 0.33
23 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTATTTTTAAAATATTA
Found at i:4617646 original size:21 final size:21
Alignment explanation
Indices: 4617607--4617646 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4617597 TTTTATAATA
*
4617607 TTTTAAATATTATTTAATTTG
1 TTTTAAATATTATTAAATTTG
4617628 TTTTATAATATT-TTAAATT
1 TTTTA-AATATTATTAAATT
4617647 ATAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTTG
Found at i:4617655 original size:14 final size:15
Alignment explanation
Indices: 4617630--4617662 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4617620 TTAATTTGTT
4617630 TTATAATATTTTAAA
1 TTATAATATTTTAAA
4617645 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
4617659 TTAT
1 TTAT
4617663 TTTTAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:4617779 original size:15 final size:14
Alignment explanation
Indices: 4617760--4617787 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4617750 AAAAATAAAA
4617760 AAAAAAGATTTATT
1 AAAAAAGATTTATT
4617774 AAAAAAGATTTATT
1 AAAAAAGATTTATT
4617788 TGTTAAAAAA
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:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAAAAAGATTTATT
Found at i:4617804 original size:20 final size:18
Alignment explanation
Indices: 4617767--4617809 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
4617757 AAAAAAAAAG
4617767 ATTTATTAAAAAAGATTT
1 ATTTATTAAAAAAGATTT
*
4617785 ATTTGTTAAAAAATGAATTT
1 ATTTATTAAAAAA-G-ATTT
4617805 ATTTA
1 ATTTA
4617810 AATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.57
19 1 0.05
20 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (18 bp):
ATTTATTAAAAAAGATTT
Found at i:4617864 original size:20 final size:20
Alignment explanation
Indices: 4617815--4617864 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4617805 ATTTAAATAT
*
4617815 ATATATCTTAAAAATAAAAA
1 ATATATATTAAAAATAAAAA
* * *
4617835 ATTTAAATTAAAAATTAAAA
1 ATATATATTAAAAATAAAAA
4617855 ATATATATTA
1 ATATATATTA
4617865 TAACTGATCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATATATTAAAAATAAAAA
Found at i:4618147 original size:62 final size:62
Alignment explanation
Indices: 4618066--4618190 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
4618056 CGTTGATCCT
* *
4618066 CGATGAAGTGTGATCCGTATTTGCTCCAAAACACATTTTAATATCTGCATAATATAAAAAAA
1 CGATAAAGTGTGATCCGTATTTACTCCAAAACACATTTTAATATCTGCATAATATAAAAAAA
* * * *
4618128 CGATAAAGTGTGATCCGTATTTACTTCAGAAGACATTTTAATATCTGCGTAATATAAAAAAA
1 CGATAAAGTGTGATCCGTATTTACTCCAAAACACATTTTAATATCTGCATAATATAAAAAAA
4618190 C
1 C
4618191 ATATATAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (62 bp):
CGATAAAGTGTGATCCGTATTTACTCCAAAACACATTTTAATATCTGCATAATATAAAAAAA
Found at i:4618618 original size:29 final size:29
Alignment explanation
Indices: 4618586--4618663 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 29
4618576 AAAAATAATT
4618586 TAAAAATCATAATTTAAAATATTATAAAA-
1 TAAAAAT-ATAATTTAAAATATTATAAAAC
*
4618615 TAAAATAAATAATATTTAAAATATTATAAAAC
1 TAAAA-ATAT-A-ATTTAAAATATTATAAAAC
*
4618647 TAATAATA-AATTTAAAA
1 TAAAAATATAATTTAAAA
4618664 GCTCATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
28 8 0.19
29 8 0.19
30 2 0.05
31 20 0.48
32 4 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.35
Consensus pattern (29 bp):
TAAAAATATAATTTAAAATATTATAAAAC
Found at i:4618635 original size:31 final size:33
Alignment explanation
Indices: 4618597--4618657 Score: 108
Period size: 31 Copynumber: 1.9 Consensus size: 33
4618587 AAAAATCATA
4618597 ATTTAAAATATTATAAAA-TAA-AATAAATAAT
1 ATTTAAAATATTATAAAACTAATAATAAATAAT
4618628 ATTTAAAATATTATAAAACTAATAATAAAT
1 ATTTAAAATATTATAAAACTAATAATAAAT
4618658 TTAAAAGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 18 0.64
32 3 0.11
33 7 0.25
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (33 bp):
ATTTAAAATATTATAAAACTAATAATAAATAAT
Found at i:4618746 original size:16 final size:14
Alignment explanation
Indices: 4618714--4618745 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4618704 AAAATATATT
4618714 TAATATTTAAAAAA
1 TAATATTTAAAAAA
4618728 TAATATTTAAAAAA
1 TAATATTTAAAAAA
4618742 -AATA
1 TAATA
4618746 AAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATATTTAAAAAA
Found at i:4618751 original size:43 final size:43
Alignment explanation
Indices: 4618701--4618783 Score: 109
Period size: 43 Copynumber: 1.9 Consensus size: 43
4618691 TTTATATTAT
4618701 TAAAAAAT-ATA-TTT-AATATTTAAAAAATAATATTTAAAAAAAA
1 TAAAAAATAATATTTTAAAT-TTTAAAAAAT-A-ATTTAAAAAAAA
*
4618744 TAAAAAATAATATTTTAAATTTTGAAAAATAATTTAAAAA
1 TAAAAAATAATATTTTAAATTTTAAAAAATAATTTAAAAA
4618784 TATATATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
43 17 0.47
44 4 0.11
45 12 0.33
46 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (43 bp):
TAAAAAATAATATTTTAAATTTTAAAAAATAATTTAAAAAAAA
Found at i:4625244 original size:20 final size:20
Alignment explanation
Indices: 4625190--4625238 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
4625180 GCTTATTTTG
*
4625190 AGTAAATGGAATGGAAAGTA
1 AGTAAATGGAATGGTAAGTA
*
4625210 AGTAAATAGAATGGTAAGTA
1 AGTAAATGGAATGGTAAGTA
4625230 AGTAAATGG
1 AGTAAATGG
4625239 CGTGGTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (20 bp):
AGTAAATGGAATGGTAAGTA
Found at i:4637699 original size:18 final size:17
Alignment explanation
Indices: 4637676--4637716 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
4637666 AACAAAAGTT
4637676 ATTTTAAAAAGTTATAAA
1 ATTTTAAAAA-TTATAAA
4637694 ATTTT-AAAATTATAAA
1 ATTTTAAAAATTATAAA
4637710 ACTTTTA
1 A-TTTTA
4637717 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.38
17 8 0.38
18 5 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTTTAAAAATTATAAA
Found at i:4637875 original size:3 final size:3
Alignment explanation
Indices: 4637867--4637891 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4637857 TGTTAAGGTT
4637867 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4637892 GAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4638801 original size:74 final size:74
Alignment explanation
Indices: 4638680--4638822 Score: 241
Period size: 74 Copynumber: 1.9 Consensus size: 74
4638670 GATTGCTCGG
* *
4638680 ATTGGATTGAACACAAGATAGAGTACAGTCGTGATATGGCATGTTGTAGGGGATTGGAGTGGACA
1 ATTGGATTGAACACAAGATAAAGTACAATCGTGATATGGCATGTTGTAGGGGATTGGAGTGGACA
4638745 TGGTTTGGA
66 TGGTTTGGA
* * *
4638754 ATTGGATTGAACGCAGGATAAAGTACAATCGTGATATGGCATGTTGTAGGGGATTGGAGTGGAGA
1 ATTGGATTGAACACAAGATAAAGTACAATCGTGATATGGCATGTTGTAGGGGATTGGAGTGGACA
4638819 TGGT
66 TGGT
4638823 ATGAAGAGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.29, C:0.08, G:0.36, T:0.28
Consensus pattern (74 bp):
ATTGGATTGAACACAAGATAAAGTACAATCGTGATATGGCATGTTGTAGGGGATTGGAGTGGACA
TGGTTTGGA
Found at i:4638954 original size:35 final size:35
Alignment explanation
Indices: 4638904--4639007 Score: 122
Period size: 35 Copynumber: 3.0 Consensus size: 35
4638894 TCTCTGTTTG
* * *
4638904 GCGTGTTTCGATTGGACTTGCTCTTATGAGCATTA
1 GCGTGTTACGTTTGGACTAGCTCTTATGAGCATTA
* *
4638939 GCGTGTTTTA-G-TTGGACTAGCTCTTATGAGTATTG
1 GCGTG--TTACGTTTGGACTAGCTCTTATGAGCATTA
*
4638974 GCGTGTTACGTTTGGACTAGCTCTTGTGAGCATT
1 GCGTGTTACGTTTGGACTAGCTCTTATGAGCATT
4639008 TGATGTATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
33 3 0.05
34 1 0.02
35 52 0.88
36 1 0.02
37 2 0.03
ACGTcount: A:0.16, C:0.15, G:0.28, T:0.40
Consensus pattern (35 bp):
GCGTGTTACGTTTGGACTAGCTCTTATGAGCATTA
Found at i:4645850 original size:43 final size:42
Alignment explanation
Indices: 4645769--4645884 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
4645759 AAAAATTTGT
* * * *
4645769 GGCGTTTGTTGGGAAAGCGCCACTAAAAGCCATGGCTTTTAGC
1 GGCGTTTG-TGGGAAAGCGCCGCTAAAAGCAATAGCTTTTAAC
*
4645812 GGCGTTTGTGGGAAAAGCGCCGCTAAAAGTAATAGCTTTTAAC
1 GGCGTTTGTGGG-AAAGCGCCGCTAAAAGCAATAGCTTTTAAC
* * *
4645855 GGCATTTTTTTGGCAAA-CGCCGCTAAAAGC
1 GGC--GTTTGTGGGAAAGCGCCGCTAAAAGC
4645885 CATTATATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 4 0.07
43 48 0.79
44 3 0.05
45 6 0.10
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (42 bp):
GGCGTTTGTGGGAAAGCGCCGCTAAAAGCAATAGCTTTTAAC
Found at i:4646055 original size:33 final size:32
Alignment explanation
Indices: 4645978--4646057 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 32
4645968 TTCCTTCATT
* * * *
4645978 AAAATCCAACCAAATACAACAAATATAGTAT-
1 AAAATACAACAAAAAACAACAAATATAGCATA
* * *
4646009 AAAATGCAGCAAAAAACAACAAATTTAGCATAA
1 AAAATACAACAAAAAACAACAAATATAGCAT-A
4646042 AAAATACAACAAAAAA
1 AAAATACAACAAAAAA
4646058 TATTAATTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 25 0.64
33 14 0.36
ACGTcount: A:0.64, C:0.16, G:0.05, T:0.15
Consensus pattern (32 bp):
AAAATACAACAAAAAACAACAAATATAGCATA
Found at i:4646307 original size:21 final size:21
Alignment explanation
Indices: 4646282--4646333 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4646272 TTGCTCTGCT
4646282 CTGCTGCCTCTGCCTCCCTCG
1 CTGCTGCCTCTGCCTCCCTCG
* *
4646303 CTGCTG-TTGCTGCCTCCCTCT
1 CTGCTGCCT-CTGCCTCCCTCG
4646324 CTGCTGCCTC
1 CTGCTGCCTC
4646334 CGCTCTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.00, C:0.48, G:0.19, T:0.33
Consensus pattern (21 bp):
CTGCTGCCTCTGCCTCCCTCG
Found at i:4646330 original size:15 final size:16
Alignment explanation
Indices: 4646310--4646339 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4646300 TCGCTGCTGT
4646310 TGCTGCCTCC-CTCTC
1 TGCTGCCTCCGCTCTC
4646325 TGCTGCCTCCGCTCT
1 TGCTGCCTCCGCTCT
4646340 AAGTTGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (16 bp):
TGCTGCCTCCGCTCTC
Found at i:4648347 original size:10 final size:10
Alignment explanation
Indices: 4648340--4648468 Score: 50
Period size: 9 Copynumber: 13.8 Consensus size: 10
4648330 ACATTATTTC
4648340 ATATTATTAT
1 ATATTATTAT
4648350 -TATTTATTAT
1 ATA-TTATTAT
*
4648360 ATATTATTTTCAC
1 ATATTA--TT-AT
*
4648373 AAATTATT-T
1 ATATTATTAT
* *
4648382 TTATT-TTTT
1 ATATTATTAT
*
4648391 ACATTATTAT
1 ATATTATTAT
*
4648401 TTA-TA-TAT
1 ATATTATTAT
4648409 -TATTATTAT
1 ATATTATTAT
* *
4648418 ATTTTACT-T
1 ATATTATTAT
*
4648427 GTATTA-TAT
1 ATATTATTAT
4648436 AT-TTA-T-T
1 ATATTATTAT
4648443 A-ATTATTAT
1 ATATTATTAT
4648452 ATA-TATTAT
1 ATATTATTAT
4648461 ATATTATT
1 ATATTATT
4648469 TTTACATATA
Statistics
Matches: 88, Mismatches: 15, Indels: 32
0.65 0.11 0.24
Matches are distributed among these distances:
7 7 0.08
8 13 0.15
9 32 0.36
10 24 0.27
11 4 0.05
12 2 0.02
13 6 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (10 bp):
ATATTATTAT
Found at i:4648356 original size:7 final size:7
Alignment explanation
Indices: 4648341--4648469 Score: 54
Period size: 7 Copynumber: 18.1 Consensus size: 7
4648331 CATTATTTCA
4648341 TATTA-T
1 TATTATT
4648347 TATTATT
1 TATTATT
*
4648354 TATTATA
1 TATTATT
4648361 TATTATT
1 TATTATT
* **
4648368 T-TCACA
1 TATTATT
*
4648374 AATTATT
1 TATTATT
4648381 T-TTATT
1 TATTATT
* *
4648387 TTTTACAT
1 TATTA-TT
4648395 TATTATT
1 TATTATT
4648402 TA-TATAT
1 TATTAT-T
4648409 TATTA-T
1 TATTATT
4648415 TA-TATTT
1 TATTA-TT
*
4648422 TACTTGTAT
1 TA-TTAT-T
4648431 TATATATT
1 TAT-TATT
*
4648439 TATTAAT
1 TATTATT
4648446 TATTATAT
1 TATTAT-T
*
4648454 ATATTATA
1 -TATTATT
4648462 TATTATT
1 TATTATT
4648469 T
1 T
4648470 TTACATATAT
Statistics
Matches: 90, Mismatches: 19, Indels: 27
0.66 0.14 0.20
Matches are distributed among these distances:
5 2 0.02
6 19 0.21
7 43 0.48
8 14 0.16
9 12 0.13
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (7 bp):
TATTATT
Found at i:4648442 original size:27 final size:27
Alignment explanation
Indices: 4648383--4648465 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
4648373 AAATTATTTT
* *
4648383 TATTTTTTACATTATTATTTATA-TAT-
1 TATTTATTA-ATTATTATATATATTATA
*
4648409 TA-TTATTATATT-TTACT-TGTATTATA
1 TATTTATTA-ATTATTA-TATATATTATA
4648435 TATTTATTAATTATTATATATATTATA
1 TATTTATTAATTATTATATATATTATA
4648462 TATT
1 TATT
4648466 ATTTTTACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
24 6 0.13
25 12 0.26
26 8 0.17
27 21 0.45
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (27 bp):
TATTTATTAATTATTATATATATTATA
Found at i:4648456 original size:22 final size:21
Alignment explanation
Indices: 4648431--4648480 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
4648421 TTACTTGTAT
* *
4648431 TATATATTTATTAATTATTATA
1 TATATATATATT-ATTATTACA
*
4648453 TATATTATATATTATTTTTACA
1 TATA-TATATATTATTATTACA
4648475 TATATA
1 TATATA
4648481 CACTTTCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATATATTATTATTACA
Found at i:4648477 original size:20 final size:20
Alignment explanation
Indices: 4648340--4648477 Score: 54
Period size: 20 Copynumber: 6.8 Consensus size: 20
4648330 ACATTATTTC
* **
4648340 ATATTATTATTATTTATTAT
1 ATATTATTTTTACATATTAT
* *
4648360 ATATTATTTTCACAAATTAT
1 ATATTATTTTTACATATTAT
*
4648380 -TTTTATTTTTTACATTATTAT
1 ATATTA-TTTTTACA-TATTAT
* * *
4648401 TTA-TA-TATTA-TTATTAT
1 ATATTATTTTTACATATTAT
* *
4648418 ATTTTACTTGTATTATATATT-T
1 ATATTA-TT-T-TTACATATTAT
* *
4648440 ATTAATTA-TTATATATATTAT
1 A-T-ATTATTTTTACATATTAT
4648461 ATATTATTTTTACATAT
1 ATATTATTTTTACATAT
4648478 ATACACTTTC
Statistics
Matches: 86, Mismatches: 19, Indels: 26
0.66 0.15 0.20
Matches are distributed among these distances:
17 7 0.08
18 2 0.02
19 12 0.14
20 40 0.47
21 10 0.12
22 7 0.08
23 5 0.06
24 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (20 bp):
ATATTATTTTTACATATTAT
Found at i:4648565 original size:17 final size:18
Alignment explanation
Indices: 4648545--4648600 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
4648535 TTATAGTTTA
4648545 TATTTTTATATAAT-TAT
1 TATTTTTATATAATATAT
*
4648562 TATTCTTATA-AATATAT
1 TATTTTTATATAATATAT
*
4648579 T-TTTATTATATATTATAT
1 TATTT-TTATATAATATAT
4648597 TATT
1 TATT
4648601 AAATATCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 7 0.22
19 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTATATAATATAT
Found at i:4657266 original size:17 final size:17
Alignment explanation
Indices: 4657244--4657278 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4657234 TGAATGCTCT
4657244 GGTATTATCTCCACCAA
1 GGTATTATCTCCACCAA
4657261 GGTATTATCTCCACCAA
1 GGTATTATCTCCACCAA
4657278 G
1 G
4657279 TCCAGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (17 bp):
GGTATTATCTCCACCAA
Found at i:4660753 original size:205 final size:205
Alignment explanation
Indices: 4660387--4660764 Score: 675
Period size: 205 Copynumber: 1.8 Consensus size: 205
4660377 TAGGCTGCAG
4660387 CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
* * *
4660452 CTTATAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCGAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGAAAATCT
* *
4660517 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
131 AAGATGATTTGGCATCTCTGTACTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
4660582 GGAGCAGATA
196 GGAGCAGATA
* *
4660592 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCTTTGTG
1 CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
*
4660657 CTTACAATGAGCGAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGAAAATCT
66 CTTACAAGGAGCGAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGAAAATCT
*
4660722 AAGATGATTTGGCATCTCTGTACTATCAGAGAACAAATTGAAG
131 AAGATGATTTGGCATCTCTGTACTATCAGAGAACAAATCGAAG
4660765 AAGCAGATTT
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
205 164 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
CATAGAAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAGCGAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGAAAATCT
AAGATGATTTGGCATCTCTGTACTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
GGAGCAGATA
Found at i:4662643 original size:31 final size:31
Alignment explanation
Indices: 4662589--4662648 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
4662579 ATTTTTATTA
*
4662589 TTTTACATTATTATTTATATATT-ATTATAT
1 TTTTACATTATTATATATATATTAATTATAT
* *
4662619 TTTTACTTGTATTATATATTTATTAATTAT
1 TTTTACAT-TATTATATATATATTAATTAT
4662649 TTATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 13 0.52
32 5 0.20
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTTACATTATTATATATATATTAATTATAT
Found at i:4662766 original size:17 final size:18
Alignment explanation
Indices: 4662746--4662801 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
4662736 TTATAGTTTA
4662746 TATTTTTATATAAT-TAT
1 TATTTTTATATAATATAT
*
4662763 TATTCTTATA-AATATAT
1 TATTTTTATATAATATAT
*
4662780 T-TTTATTATATATTATAT
1 TATTT-TTATATAATATAT
4662798 TATT
1 TATT
4662802 AAATATCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 7 0.22
19 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTATATAATATAT
Found at i:4662805 original size:30 final size:31
Alignment explanation
Indices: 4662744--4662807 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
4662734 TATTATAGTT
*
4662744 TATATTTTTATATAATTATTATTCTTATAAA
1 TATATTTTTATATAATTATTATTCATATAAA
4662775 TATATTTTTATTATATATTA-TATT-AT-TAAA
1 TATATTTTTA-TATA-ATTATTATTCATATAAA
4662805 TAT
1 TAT
4662808 CACACTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 11 0.37
32 8 0.27
33 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TATATTTTTATATAATTATTATTCATATAAA
Found at i:4668945 original size:9 final size:9
Alignment explanation
Indices: 4668931--4669151 Score: 194
Period size: 9 Copynumber: 25.7 Consensus size: 9
4668921 TAACTCTAAT
4668931 TAAGTTATG
1 TAAGTTATG
4668940 TAAGTTATG
1 TAAGTTATG
* * *
4668949 ATATGATATA
1 -TAAGTTATG
*
4668959 T-ATTTATG
1 TAAGTTATG
*
4668967 -CA-TTATG
1 TAAGTTATG
*
4668974 TAAGTTATT
1 TAAGTTATG
*
4668983 TAAATTATG
1 TAAGTTATG
4668992 TAAGTTATG
1 TAAGTTATG
*
4669001 TGAGTTATG
1 TAAGTTATG
*
4669010 TGAGTTATG
1 TAAGTTATG
4669019 TAAGTTATG
1 TAAGTTATG
*
4669028 TAA---ATA
1 TAAGTTATG
*
4669034 TAAGTTATA
1 TAAGTTATG
4669043 TAAGTTATG
1 TAAGTTATG
*
4669052 TGAGTTATG
1 TAAGTTATG
4669061 T-A---A-G
1 TAAGTTATG
4669065 TAAGTTATG
1 TAAGTTATG
*
4669074 TGAGTTATG
1 TAAGTTATG
4669083 TAAGTTATG
1 TAAGTTATG
* *
4669092 TAAATTATA
1 TAAGTTATG
4669101 TAAGTTATG
1 TAAGTTATG
4669110 TAAGTTATG
1 TAAGTTATG
*
4669119 TGAGTTATG
1 TAAGTTATG
*
4669128 TAAGTTATA
1 TAAGTTATG
*
4669137 TGAGTTATG
1 TAAGTTATG
4669146 TAAGTT
1 TAAGTT
4669152 CAAGTATATA
Statistics
Matches: 171, Mismatches: 29, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 5 0.03
7 5 0.03
8 7 0.04
9 144 0.84
10 6 0.04
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4669071 original size:22 final size:22
Alignment explanation
Indices: 4669043--4669087 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4669033 ATAAGTTATA
4669043 TAAGTTATGTGAGTTATGTAAG
1 TAAGTTATGTGAGTTATGTAAG
4669065 TAAGTTATGTGAGTTATGTAAG
1 TAAGTTATGTGAGTTATGTAAG
4669087 T
1 T
4669088 TATGTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (22 bp):
TAAGTTATGTGAGTTATGTAAG
Found at i:4669439 original size:15 final size:15
Alignment explanation
Indices: 4669417--4669477 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
4669407 GGAAAAAAAT
4669417 TTAT-TTTAATTAAA
1 TTATATTTAATTAAA
*
4669431 TTATATTT-ATAAAAA
1 TTATATTTAAT-TAAA
*
4669446 TTATA-TTAATTTAA
1 TTATATTTAATTAAA
* *
4669460 TAATATTTAAATAAA
1 TTATATTTAATTAAA
4669475 TTA
1 TTA
4669478 ATCCAAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
14 14 0.39
15 22 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATATTTAATTAAA
Found at i:4669454 original size:29 final size:28
Alignment explanation
Indices: 4669410--4669477 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
4669400 ATCACATGGA
* *
4669410 AAAAAATTTATTTTAATTAAATTATATTT
1 AAAAAA-TTATATTAATTAAATAATATTT
*
4669439 ATAAAAATTATATTAATTTAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
4669468 AAATAAATTA
1 AAA-AAATTA
4669478 ATCCAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.06
29 27 0.79
30 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:4669500 original size:22 final size:23
Alignment explanation
Indices: 4669473--4669519 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
4669463 TATTTAAATA
4669473 AATTAATCCAAATTATATT-ATT
1 AATTAATCCAAATTATATTAATT
4669495 AATTAATCCAAATTATATTAATT
1 AATTAATCCAAATTATATTAATT
4669518 AA
1 AA
4669520 AATAAGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTAATCCAAATTATATTAATT
Found at i:4669515 original size:19 final size:20
Alignment explanation
Indices: 4669446--4669519 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 20
4669436 TTTATAAAAA
4669446 TTATATTAATTTAAT--AATAT
1 TTATATTAA-TTAATCCAA-AT
* *
4669466 TTAAATAAATTAATCCAAAT
1 TTATATTAATTAATCCAAAT
4669486 TATATTATTAATTAATCCAAA-
1 T-TA-TATTAATTAATCCAAAT
4669507 TTATATTAATTAA
1 TTATATTAATTAA
4669520 AATAAGATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
19 15 0.33
20 12 0.26
21 5 0.11
22 14 0.30
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATATTAATTAATCCAAAT
Found at i:4673287 original size:3 final size:3
Alignment explanation
Indices: 4673276--4673315 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4673266 TTTTTCTCTT
4673276 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4673316 TACTATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:4673699 original size:21 final size:21
Alignment explanation
Indices: 4673673--4673727 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
4673663 AGTTTAAGGT
**
4673673 TTTATGGTTTTGGATTTAGGG
1 TTTATGGTTTTAAATTTAGGG
* *
4673694 TTTATGATTTAAAATTTAGGG
1 TTTATGGTTTTAAATTTAGGG
*
4673715 TTTATAGTTTTAA
1 TTTATGGTTTTAA
4673728 GACGTTTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (21 bp):
TTTATGGTTTTAAATTTAGGG
Found at i:4674572 original size:20 final size:19
Alignment explanation
Indices: 4674547--4674584 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4674537 ATTTGACCAA
4674547 ATTTCTTGAAAATAAATTAG
1 ATTTC-TGAAAATAAATTAG
*
4674567 ATTTCTGTAAATAAATTA
1 ATTTCTGAAAATAAATTA
4674585 ACTCATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (19 bp):
ATTTCTGAAAATAAATTAG
Found at i:4676057 original size:27 final size:27
Alignment explanation
Indices: 4676018--4676104 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
4676008 AGCACCGCCA
**
4676018 CCACAACGGGAACCA-TCGGCAGAAACG
1 CCACAACCCGAACCACT-GGCAGAAACG
* * *
4676045 TCACAACCCGAACCACTGGTAGCAACG
1 CCACAACCCGAACCACTGGCAGAAACG
* *
4676072 CCACAACCCGAACC-CGTGGCTGAAACA
1 CCACAACCCGAACCAC-TGGCAGAAACG
4676099 CCACAA
1 CCACAA
4676105 GCTGATGTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.36, C:0.38, G:0.20, T:0.07
Consensus pattern (27 bp):
CCACAACCCGAACCACTGGCAGAAACG
Found at i:4676243 original size:24 final size:24
Alignment explanation
Indices: 4676216--4676274 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
4676206 TGTCGAAACA
4676216 TATGCTCCGACATATCATCCAATT
1 TATGCTCCGACATATCATCCAATT
*
4676240 TATGCTCCGACATATCCTCCAATT
1 TATGCTCCGACATATCATCCAATT
4676264 TATGCTCCGAC
1 TATGCTCCGAC
4676275 GTACGCTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.32
Consensus pattern (24 bp):
TATGCTCCGACATATCATCCAATT
Found at i:4678682 original size:183 final size:183
Alignment explanation
Indices: 4678374--4678741 Score: 736
Period size: 183 Copynumber: 2.0 Consensus size: 183
4678364 ACCACTAGAA
4678374 TGATGACCTGGTGATGGCCAAACCGTGACTATGCAAAATTCGTGAGGGACAAAGTTATAGAGTTT
1 TGATGACCTGGTGATGGCCAAACCGTGACTATGCAAAATTCGTGAGGGACAAAGTTATAGAGTTT
4678439 GGAAAGCTTTTAAGTGCCGAGAGCGACTAGAGTAAGATGGATATCTATATATTTATAAATATACT
66 GGAAAGCTTTTAAGTGCCGAGAGCGACTAGAGTAAGATGGATATCTATATATTTATAAATATACT
4678504 GTCTGTATAGAGTAAAGATTTATGGAGTAAAAGTAACATAAAGGCCTTTATAT
131 GTCTGTATAGAGTAAAGATTTATGGAGTAAAAGTAACATAAAGGCCTTTATAT
4678557 TGATGACCTGGTGATGGCCAAACCGTGACTATGCAAAATTCGTGAGGGACAAAGTTATAGAGTTT
1 TGATGACCTGGTGATGGCCAAACCGTGACTATGCAAAATTCGTGAGGGACAAAGTTATAGAGTTT
4678622 GGAAAGCTTTTAAGTGCCGAGAGCGACTAGAGTAAGATGGATATCTATATATTTATAAATATACT
66 GGAAAGCTTTTAAGTGCCGAGAGCGACTAGAGTAAGATGGATATCTATATATTTATAAATATACT
4678687 GTCTGTATAGAGTAAAGATTTATGGAGTAAAAGTAACATAAAGGCCTTTATAT
131 GTCTGTATAGAGTAAAGATTTATGGAGTAAAAGTAACATAAAGGCCTTTATAT
4678740 TG
1 TG
4678742 TCAAATTGTA
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 185 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (183 bp):
TGATGACCTGGTGATGGCCAAACCGTGACTATGCAAAATTCGTGAGGGACAAAGTTATAGAGTTT
GGAAAGCTTTTAAGTGCCGAGAGCGACTAGAGTAAGATGGATATCTATATATTTATAAATATACT
GTCTGTATAGAGTAAAGATTTATGGAGTAAAAGTAACATAAAGGCCTTTATAT
Found at i:4680006 original size:25 final size:25
Alignment explanation
Indices: 4679978--4680030 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
4679968 ATAAACTAGA
4679978 ATCACAATAATTTCAGAAACAAACG
1 ATCACAATAATTTCAGAAACAAACG
4680003 ATCACAATAATTTCAGAAACAAACG
1 ATCACAATAATTTCAGAAACAAACG
4680028 ATC
1 ATC
4680031 CGCATCATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.51, C:0.21, G:0.08, T:0.21
Consensus pattern (25 bp):
ATCACAATAATTTCAGAAACAAACG
Found at i:4680103 original size:13 final size:13
Alignment explanation
Indices: 4680087--4680112 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4680077 ATAGAGTTAG
4680087 AGCATAGGACTAT
1 AGCATAGGACTAT
4680100 AGCATAGGACTAT
1 AGCATAGGACTAT
4680113 CTTTCTACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
AGCATAGGACTAT
Found at i:4681825 original size:13 final size:14
Alignment explanation
Indices: 4681800--4681829 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4681790 TTCATTTAAA
4681800 TTATTAGAAAAATT
1 TTATTAGAAAAATT
4681814 TTATTA-AAAAATT
1 TTATTAGAAAAATT
4681827 TTA
1 TTA
4681830 AATAATTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TTATTAGAAAAATT
Found at i:4682724 original size:20 final size:20
Alignment explanation
Indices: 4682696--4682733 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4682686 CTATTACTAT
*
4682696 TTTTGAATTTCTTACAAAAA
1 TTTTAAATTTCTTACAAAAA
4682716 TTTTAAATTTCTTACAAA
1 TTTTAAATTTCTTACAAA
4682734 TTTACTTAAA
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:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTTAAATTTCTTACAAAAA
Found at i:4682791 original size:20 final size:20
Alignment explanation
Indices: 4682768--4682820 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
4682758 TTACTGAATT
* **
4682768 TCTTATAAATTTACTAAACC
1 TCTTACAAATTTACTAAAAA
* *
4682788 TCTTGCAAAATTACTAAAAA
1 TCTTACAAATTTACTAAAAA
4682808 TCTTACAAATTTA
1 TCTTACAAATTTA
4682821 TAGCGTTTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (20 bp):
TCTTACAAATTTACTAAAAA
Found at i:4682943 original size:70 final size:70
Alignment explanation
Indices: 4682834--4682965 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 70
4682824 CGTTTAACTG
* * * * *
4682834 ATTTTTTACAACTTTATAAATTATTAAATATCTTCTGAAATTACTAAATTATATTTTTAATGTTG
1 ATTTCTTACAACTTTATAAACTATGAAATATCTTATGAAATTACTAAATTATATTTGTAATGTTG
4682899 GACTA
66 GACTA
* * **
4682904 ATTTCTTACAACTTTGTAAACTATGGAATCA-CTTATGAAATTGTTAAATTATATTTGTAATG
1 ATTTCTTACAACTTTATAAACTATGAAAT-ATCTTATGAAATTACTAAATTATATTTGTAATG
4682966 ATTTCAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 51 0.98
71 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.46
Consensus pattern (70 bp):
ATTTCTTACAACTTTATAAACTATGAAATATCTTATGAAATTACTAAATTATATTTGTAATGTTG
GACTA
Found at i:4690737 original size:97 final size:88
Alignment explanation
Indices: 4690622--4690832 Score: 221
Period size: 91 Copynumber: 2.3 Consensus size: 88
4690612 ACTTCAACCC
*
4690622 AAAAAAAGTGTAAGCCCCAATGTGGAAAATATTATCAAAAAAAAGTCTAGGTCTCAATGT-AGGA
1 AAAAAAAGTCTAA-CCCCAATGTGGAAAATATTA-C-----AAAGTCTAGGTCTCAATGTGA-GA
4690686 ACAATTGC-CAAGTTTAAGG-CCTAATTTAGACCA
58 ACAATT-CTCAAGTTT-AGGACCTAATTTAGA--A
* * *
4690719 AAAAAAAGTTTAGACCCCAATGTGGAAAATGTTACCAAGTCTAGGTCTCAATGTGAGAACAATTC
1 AAAAAAAGTCTA-ACCCCAATGTGGAAAATATTACAAAGTCTAGGTCTCAATGTGAGAACAATTC
4690784 TCAAGTTTAGGACCTAATTTAGAA
65 TCAAGTTTAGGACCTAATTTAGAA
* *
4690808 AAAAAAAATCTAAACCCCAGTGTGG
1 AAAAAAAGTCT-AACCCCAATGTGG
4690833 GAGAAGTTGC
Statistics
Matches: 103, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
89 21 0.20
90 5 0.05
91 44 0.43
92 1 0.01
96 1 0.01
97 30 0.29
98 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (88 bp):
AAAAAAAGTCTAACCCCAATGTGGAAAATATTACAAAGTCTAGGTCTCAATGTGAGAACAATTCT
CAAGTTTAGGACCTAATTTAGAA
Found at i:4690789 original size:91 final size:89
Alignment explanation
Indices: 4690664--4690832 Score: 236
Period size: 91 Copynumber: 1.9 Consensus size: 89
4690654 TATCAAAAAA
*
4690664 AAGTCTAGGTCTCAATGTAGGAACAATTGCCAAGTTTAAGG-CCTAATTTAGACCAAAAAAAAGT
1 AAGTCTAGGTCTCAATGTAGGAACAATTGCCAAGTTT-AGGACCTAATTTAGA--AAAAAAAAAT
* *
4690728 TTAGACCCCAATGTGGAAAATGTTACC
63 CTAAACCCCAATGTGGAAAATGTTACC
4690755 AAGTCTAGGTCTCAATGT-GAGAACAATT-CTCAAGTTTAGGACCTAATTTAGAAAAAAAAAATC
1 AAGTCTAGGTCTCAATGTAG-GAACAATTGC-CAAGTTTAGGACCTAATTTAGAAAAAAAAAATC
*
4690818 TAAACCCCAGTGTGG
64 TAAACCCCAATGTGG
4690833 GAGAAGTTGC
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
89 22 0.31
90 5 0.07
91 44 0.62
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (89 bp):
AAGTCTAGGTCTCAATGTAGGAACAATTGCCAAGTTTAGGACCTAATTTAGAAAAAAAAAATCTA
AACCCCAATGTGGAAAATGTTACC
Found at i:4692444 original size:30 final size:30
Alignment explanation
Indices: 4692410--4692470 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4692400 TTCCCGAGCC
4692410 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
** * *
4692440 TAGGGGCAAATTTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
4692470 T
1 T
4692471 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:4698009 original size:36 final size:36
Alignment explanation
Indices: 4697960--4698031 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
4697950 GTAAGTTACT
*
4697960 TTCATCCTATAAGTCATTATCTCATTTAAAAAAAAA
1 TTCATCCTATAAGTCATAATCTCATTTAAAAAAAAA
*
4697996 TTCATCCTGTAAGTCATAATCTCATTTAAAAAAAAA
1 TTCATCCTATAAGTCATAATCTCATTTAAAAAAAAA
4698032 ATTACTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (36 bp):
TTCATCCTATAAGTCATAATCTCATTTAAAAAAAAA
Found at i:4698230 original size:39 final size:39
Alignment explanation
Indices: 4698182--4698260 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
4698172 TTAGCCGAAA
* *
4698182 CACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAG
1 CACACAAGTGCTAAACGGAAGCCCAAAGGCTAACTGAAG
*
4698221 CACACAAGTGCTAGACGGAAGCCCAAAGGCTAACTGAAG
1 CACACAAGTGCTAAACGGAAGCCCAAAGGCTAACTGAAG
4698260 C
1 C
4698261 TCATCAGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.38, C:0.25, G:0.25, T:0.11
Consensus pattern (39 bp):
CACACAAGTGCTAAACGGAAGCCCAAAGGCTAACTGAAG
Found at i:4700023 original size:12 final size:12
Alignment explanation
Indices: 4700006--4700030 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4699996 AGGTTCCAAA
4700006 ACCACCGTTTCT
1 ACCACCGTTTCT
4700018 ACCACCGTTTCT
1 ACCACCGTTTCT
4700030 A
1 A
4700031 GTATCACTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (12 bp):
ACCACCGTTTCT
Found at i:4711713 original size:19 final size:19
Alignment explanation
Indices: 4711691--4711730 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4711681 AAAAATGGGG
4711691 AATACATTTCGAAATGTGT
1 AATACATTTCGAAATGTGT
4711710 AATACATTTCGAAATGTGT
1 AATACATTTCGAAATGTGT
4711729 AA
1 AA
4711731 ATTAGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
AATACATTTCGAAATGTGT
Found at i:4717859 original size:29 final size:29
Alignment explanation
Indices: 4717817--4717872 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
4717807 GGCAAAAGCA
4717817 CTCAAGTAGTATACAATGAAATTATTTGC
1 CTCAAGTAGTATACAATGAAATTATTTGC
4717846 CTCAAGTAGTATACAATGAAATTATTT
1 CTCAAGTAGTATACAATGAAATTATTT
4717873 TTTTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (29 bp):
CTCAAGTAGTATACAATGAAATTATTTGC
Found at i:4718945 original size:12 final size:12
Alignment explanation
Indices: 4718916--4718949 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4718906 ATTATTACTA
*
4718916 AATAAACGAGTC
1 AATAAACGAGCC
4718928 -ATAAACGAGCC
1 AATAAACGAGCC
4718939 AATAAACGAGC
1 AATAAACGAGC
4718950 TTGTTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.12
Consensus pattern (12 bp):
AATAAACGAGCC
Found at i:4719571 original size:18 final size:18
Alignment explanation
Indices: 4719548--4719590 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4719538 ATTCAAAGTG
4719548 TAATTAATTTAAA-ATATT
1 TAATTAA-TTAAATATATT
*
4719566 TAATTAATTAAATTTATT
1 TAATTAATTAAATATATT
4719584 TAATTAA
1 TAATTAA
4719591 AAATCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAATATATT
Found at i:4725387 original size:39 final size:40
Alignment explanation
Indices: 4725332--4725436 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
4725322 TTCTAGCACC
** * *
4725332 AGCCTGCGGGAATTTAAACCCGG-TATA-ATACCAGC-TCGT
1 AGCCTGCGGGTCTTTAAGCCCGGATA-ACATACCAGCAT-AT
*
4725371 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATACCAGCATAT
*
4725411 AGCCTGCGAGTCTTTAAGCCCGGATA
1 AGCCTGCGGGTCTTTAAGCCCGGATA
4725437 CAATTCCTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 21 0.37
40 35 0.61
41 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATAACATACCAGCATAT
Found at i:4727925 original size:46 final size:45
Alignment explanation
Indices: 4727872--4728047 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
4727862 TATTTGGGCA
4727872 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
4727918 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
4727965 TCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
4728011 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4728048 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:4728006 original size:93 final size:93
Alignment explanation
Indices: 4727868--4728039 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
4727858 AGGATATTTG
* *
4727868 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
4727933 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* *
4727961 GGCATCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
4728026 TTGAGTCCGAGTTC
66 TTGAGTCCAAGTTC
4728040 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:4730188 original size:20 final size:19
Alignment explanation
Indices: 4730125--4730194 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
4730115 ATTAATATAT
* *
4730125 ATTTTTGGTACTTCCTTAGA
1 ATTTTTGGTA-TTCCTCATA
*
4730145 ATTTTTCGTATTTCCTCACT-
1 ATTTTTGGTA-TTCCTCA-TA
4730165 -TTTTTGGTATTCCCTCATA
1 ATTTTTGGTATT-CCTCATA
4730184 ATTTTTGGTAT
1 ATTTTTGGTAT
4730195 GTAACACTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.07
19 13 0.32
20 25 0.61
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (19 bp):
ATTTTTGGTATTCCTCATA
Found at i:4731652 original size:43 final size:42
Alignment explanation
Indices: 4731543--4731814 Score: 153
Period size: 43 Copynumber: 6.3 Consensus size: 42
4731533 CTGACACCGC
* * * * * *
4731543 AGTGCATCATCGGATCAACTGAACG-AAGTATACTAGTACCTA
1 AGTGCATCATCGGATGAACCGAA-GAAATTATACTGGCACATA
4731585 TAGTGCATCATCGG--GCAAGCCGAAGAAATTATACTGGCACATA
1 -AGTGCATCATCGGATG-AA-CCGAAGAAATTATACTGGCACATA
* ** *
4731628 AGGTGCATCATCGGATGAAGCGAAGTGATCATACTGGCACATA
1 A-GTGCATCATCGGATGAACCGAAGAAATTATACTGGCACATA
* * * * * * *
4731671 GGTGCATCGTAGGATAAACCAAAGCAAA-TATATTGGAACACGTA
1 AGTGCATCATCGGATGAACCGAAG-AAATTATACTGG--CACATA
* * *
4731715 AGTGCATCATCAGATGAACCGAA-ACAAATATACTGGCACATGC
1 AGTGCATCATCGGATGAACCGAAGA-AATTATACTGGCACAT-A
* * * *
4731758 AGTGCATCATCAGATAAACCAAAGTAAA-TATATTGGCATACGA-A
1 AGTGCATCATCGGATGAACCGAAG-AAATTATACTGGC--AC-ATA
4731802 AGTGCATCATCGG
1 AGTGCATCATCGG
4731815 CTAAATCAAA
Statistics
Matches: 177, Mismatches: 35, Indels: 33
0.72 0.14 0.13
Matches are distributed among these distances:
42 33 0.19
43 94 0.53
44 45 0.25
45 4 0.02
46 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (42 bp):
AGTGCATCATCGGATGAACCGAAGAAATTATACTGGCACATA
Found at i:4731720 original size:86 final size:86
Alignment explanation
Indices: 4731630--4731814 Score: 223
Period size: 87 Copynumber: 2.1 Consensus size: 86
4731620 GGCACATAAG
* *** *
4731630 GTGCATCATCGGATGAAGCG-AAGTGATCATACTGGCACAT-AGGTGCATCGT-AGGATAAACCA
1 GTGCATCATCGGATGAACCGAAACAAAT-ATACTGGCACATGA-GTGCATCATCA-GATAAACCA
*
4731692 AAGCAAATATATTGGAACACGTAA
63 AAGCAAATATATTGGAACACGAAA
*
4731716 GTGCATCATCAGATGAACCGAAACAAATATACTGGCACATGCAGTGCATCATCAGATAAACCAAA
1 GTGCATCATCGGATGAACCGAAACAAATATACTGGCACATG-AGTGCATCATCAGATAAACCAAA
* * *
4731781 GTAAATATATTGGCATACGAAA
65 GCAAATATATTGGAACACGAAA
4731803 GTGCATCATCGG
1 GTGCATCATCGG
4731815 CTAAATCAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
86 30 0.36
87 52 0.62
88 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (86 bp):
GTGCATCATCGGATGAACCGAAACAAATATACTGGCACATGAGTGCATCATCAGATAAACCAAAG
CAAATATATTGGAACACGAAA
Found at i:4731743 original size:44 final size:43
Alignment explanation
Indices: 4731683--4731812 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
4731673 TGCATCGTAG
*
4731683 GATAAACCAAAGCAAATATATTGGAACACGTAAGTGCATCATCA
1 GATAAACCAAAGCAAATATATTGGCACACG-AAGTGCATCATCA
* * * *
4731727 GATGAACCGAAA-CAAATATACTGGCACATGCAGTGCATCATCA
1 GATAAACC-AAAGCAAATATATTGGCACACGAAGTGCATCATCA
* *
4731770 GATAAACCAAAGTAAATATATTGGCATACGAAAGTGCATCATC
1 GATAAACCAAAGCAAATATATTGGCACACG-AAGTGCATCATC
4731813 GGCTAAATCA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.04
43 33 0.46
44 33 0.46
45 3 0.04
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (43 bp):
GATAAACCAAAGCAAATATATTGGCACACGAAGTGCATCATCA
Found at i:4732623 original size:20 final size:20
Alignment explanation
Indices: 4732598--4732671 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
4732588 AAGATCAACC
*
4732598 AATTTTTTATAGTCCCTCAT
1 AATTTTTTATACTCCCTCAT
** *
4732618 AATTTTTGGTACTTCCTCAT
1 AATTTTTTATACTCCCTCAT
* * *
4732638 AATTTTTTGGTATTCTCTCAT
1 AATTTTTT-ATACTCCCTCAT
4732659 AATTTTTTATACT
1 AATTTTTTATACT
4732672 TATTCAGAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 26 0.60
21 17 0.40
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.54
Consensus pattern (20 bp):
AATTTTTTATACTCCCTCAT
Found at i:4732644 original size:21 final size:20
Alignment explanation
Indices: 4732612--4732666 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 20
4732602 TTTTATAGTC
4732612 CCTCATAA-TTTTTGGTACTT
1 CCTCATAATTTTTTGGTA-TT
4732632 CCTCATAATTTTTTGGTATT
1 CCTCATAATTTTTTGGTATT
4732652 CTCTCATAATTTTTT
1 C-CTCATAATTTTTT
4732667 ATACTTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.20, C:0.18, G:0.07, T:0.55
Consensus pattern (20 bp):
CCTCATAATTTTTTGGTATT
Found at i:4732968 original size:20 final size:20
Alignment explanation
Indices: 4732945--4732988 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4732935 TTTTATATTC
4732945 CCTTATAAGTTTTT-GTACTT
1 CCTTA-AAGTTTTTGGTACTT
* *
4732965 CCTTAAATTTTTTGGTATTT
1 CCTTAAAGTTTTTGGTACTT
4732985 CCTT
1 CCTT
4732989 CTTCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.57
Consensus pattern (20 bp):
CCTTAAAGTTTTTGGTACTT
Found at i:4733888 original size:20 final size:20
Alignment explanation
Indices: 4733863--4733915 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4733853 TTGATAACAT
*
4733863 ATTATGAAGGAGTACTAATA
1 ATTATGAAGGAGTACTAAAA
* * *
4733883 ATTATGTAGAAATACTAAAA
1 ATTATGAAGGAGTACTAAAA
4733903 ATTATGAAGGAGT
1 ATTATGAAGGAGT
4733916 GATATAAGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (20 bp):
ATTATGAAGGAGTACTAAAA
Found at i:4743543 original size:22 final size:22
Alignment explanation
Indices: 4743518--4743563 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
4743508 TCGTATGGTA
4743518 ATATATTCAAAATTA-AAAAAAC
1 ATATATT-AAAATTAGAAAAAAC
*
4743540 ATATATTAACATTAGGAAAAAAC
1 ATATATTAAAATTA-GAAAAAAC
4743563 A
1 A
4743564 AAAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 7 0.33
23 8 0.38
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (22 bp):
ATATATTAAAATTAGAAAAAAC
Found at i:4744751 original size:31 final size:32
Alignment explanation
Indices: 4744680--4744741 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
4744670 GTAGCTTAGC
* * *
4744680 AACTTAAATAAAAACTTTTGGAATAGTTTATT
1 AACTTAAATAAAAACTTTTGAAACAGTTTAAT
4744712 AACTTAAATAAAAACTTTT-AAACAGTTTAA
1 AACTTAAATAAAAACTTTTGAAACAGTTTAA
4744742 ATGACTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (32 bp):
AACTTAAATAAAAACTTTTGAAACAGTTTAAT
Done.