Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 116 of 190
Found at i:18138501 original size:15 final size:16
Alignment explanation
Indices: 18138476--18138505 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18138466 TTGATATTTT
18138476 TAAATTAAAAAAATTC
1 TAAATTAAAAAAATTC
18138492 TAAA-TAAAAAAATT
1 TAAATTAAAAAAATT
18138506 GTTAACGTAA
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:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAATTAAAAAAATTC
Found at i:18141681 original size:24 final size:25
Alignment explanation
Indices: 18141625--18141673 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
18141615 TCAACAAAGT
*
18141625 TCACATAAAAAT-AAAATAAAAATA
1 TCACAAAAAAATAAAAATAAAAATA
18141649 TCACAAAAAAATAAAAATAAAAATA
1 TCACAAAAAAATAAAAATAAAAATA
18141674 ATATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.18
Consensus pattern (25 bp):
TCACAAAAAAATAAAAATAAAAATA
Found at i:18141686 original size:24 final size:23
Alignment explanation
Indices: 18141628--18141689 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
18141618 ACAAAGTTCA
18141628 CATAAAAAT-AAAATAAAAATAT
1 CATAAAAATAAAAATAAAAATAT
*
18141650 CACAAAAAAATAAAAATAAAAATAAT
1 --CATAAAAATAAAAATAAAAAT-AT
18141676 -ATAAAATATAAAAA
1 CATAAAA-ATAAAAA
18141690 ATTAAGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 5 0.15
24 15 0.45
25 11 0.33
26 2 0.06
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (23 bp):
CATAAAAATAAAAATAAAAATAT
Found at i:18142686 original size:13 final size:13
Alignment explanation
Indices: 18142668--18142692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18142658 AAAAAAGAAA
18142668 TAAAATTAAAAAT
1 TAAAATTAAAAAT
18142681 TAAAATTAAAAA
1 TAAAATTAAAAA
18142693 AATGTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAATTAAAAAT
Found at i:18162847 original size:262 final size:264
Alignment explanation
Indices: 18162379--18162895 Score: 777
Period size: 262 Copynumber: 2.0 Consensus size: 264
18162369 TCGTACCATC
* * *
18162379 CTCAATTATCTGTTAGCTAAGTTAGGCTTTTTAACTATTGTCGTAAATTACTATATGTATTACAT
1 CTCAATTATCTCTTAGCTAAGTTAGGATTTTTAAATATTGTCGTAAATTAC-ATATGTATTACAT
* * * *
18162444 GCCCTCTATCAATACTTGCCTACTAACTATAGAACACATGTCATTGTTGACACATATTTTTAAGA
65 GCCCTCCATCAATACTTGCCTACTAACTATAGAACACATGCCATTGTTAACACATATTTTGAAGA
** * *
18162509 AACATTTGTGTTTGTATAGAATAAATACAATAAAAATTATAATTCCATTAGTATAAAATCGATAA
130 AACATCAGTGTTTGTATAGAATAAATACAATAAAAATAATAATTCCATTAGTATAAAATAGATAA
* * * *
18162574 CTCTTCAATGAATGATCACATATATAGACACCTCATTTTGTCTGGGAATCTTTTTGATATAGAAC
195 CACTTCAATGAATGATCACACATATAGACACCTCATTTTGTCCGAGAATCTTTTTGATATAGAAC
18162639 ACATG
260 ACATG
* * *
18162644 CTCAATTATCTCTTAGCTATGTTAGGATTTTTAAATATTGTTGTAAATTAC-TATGTGTTACATG
1 CTCAATTATCTCTTAGCTAAGTTAGGATTTTTAAATATTGTCGTAAATTACATATGTATTACATG
* *
18162708 CCC-CCATCCATATTTGCCTACTAACTATAGAACACATGCCATTGTTAACACATATTTTGAAGAA
66 CCCTCCATCAATACTTGCCTACTAACTATAGAACACATGCCATTGTTAACACATATTTTGAAGAA
* * * *
18162772 ACATCAGTGTTTGTATAGAATAGATACAATAGAAATAATAATTCCATTATTATAGAATAGATAAC
131 ACATCAGTGTTTGTATAGAATAAATACAATAAAAATAATAATTCCATTAGTATAAAATAGATAAC
* *
18162837 ACTTCAATGAATGATCACACATATAGATAGCTCATTTTGTCCGAGAATCTTTTTGATAT
196 ACTTCAATGAATGATCACACATATAGACACCTCATTTTGTCCGAGAATCTTTTTGATAT
18162896 CAAAATGGGC
Statistics
Matches: 226, Mismatches: 26, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
262 165 0.73
263 15 0.07
265 46 0.20
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (264 bp):
CTCAATTATCTCTTAGCTAAGTTAGGATTTTTAAATATTGTCGTAAATTACATATGTATTACATG
CCCTCCATCAATACTTGCCTACTAACTATAGAACACATGCCATTGTTAACACATATTTTGAAGAA
ACATCAGTGTTTGTATAGAATAAATACAATAAAAATAATAATTCCATTAGTATAAAATAGATAAC
ACTTCAATGAATGATCACACATATAGACACCTCATTTTGTCCGAGAATCTTTTTGATATAGAACA
CATG
Found at i:18162977 original size:6 final size:6
Alignment explanation
Indices: 18162966--18163055 Score: 103
Period size: 6 Copynumber: 15.2 Consensus size: 6
18162956 AAAGCCCAAA
* * * *
18162966 AATTTT AATTTT GATTTT GATTTT AATTTT GAGTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* *
18163014 AGTTTT AGTTTT AATTTT AATTTT GAA-TTT AA-TTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT -AATTTT AATTTT AATTTT A
18163056 TTGGTTAAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
5 7 0.09
6 65 0.88
7 2 0.03
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (6 bp):
AATTTT
Found at i:18164169 original size:16 final size:16
Alignment explanation
Indices: 18164144--18164182 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18164134 AGTAGTAAAG
*
18164144 TATAACATTATAGTAA
1 TATAATATTATAGTAA
*
18164160 TATAATATTATATTAA
1 TATAATATTATAGTAA
18164176 TATAATA
1 TATAATA
18164183 GTATTATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
TATAATATTATAGTAA
Found at i:18164208 original size:3 final size:3
Alignment explanation
Indices: 18164184--18164359 Score: 66
Period size: 3 Copynumber: 60.0 Consensus size: 3
18164174 AATATAATAG
* * * *
18164184 TAT TAT TAC TAG TAT T-T GTAT TAT TA- TAT CA- TAT TA- TAT AAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
18164226 ATAT TA- TAT TA- TAT CAT ATAT TAT TAA TAT TGT AAT CCAT TAG TAT
1 -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
18164272 TAT TATT TAT TTT TAT TAT TA- TATT TAC CA- TAT TA- TAT TAC TAT
1 TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * *
18164316 TAC AAT TA- TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18164360 AATTTTTTCT
Statistics
Matches: 124, Mismatches: 33, Indels: 32
0.66 0.17 0.17
Matches are distributed among these distances:
2 17 0.14
3 95 0.77
4 12 0.10
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:18164318 original size:6 final size:5
Alignment explanation
Indices: 18164159--18164360 Score: 63
Period size: 5 Copynumber: 37.6 Consensus size: 5
18164149 CATTATAGTA
* * * * *
18164159 ATATA ATATT ATATT AATATA ATAGT ATTATT ACTAGT ATTTGT ATTATT
1 ATATT ATATT ATATT -ATATT ATATT A-TATT A-TATT ATAT-T A-TATT
* *
18164209 ATATC ATATT ATATAAT ATATT ATATT ATATCAT ATATT AT-TA ATATT
1 ATATT ATATT ATAT--T ATATT ATATT ATAT--T ATATT ATATT ATATT
* * ** **
18164257 GTAAT CCATT AGTATT ATTATT -TATT -T-TT ATTATT ATATT -TACC
1 ATATT ATATT A-TATT A-TATT ATATT ATATT A-TATT ATATT ATATT
* *
18164301 ATATT ATATT ACTATT ACAATT ATATT ATTATT ATTGTT ATTATT ATTATT
1 ATATT ATATT A-TATT A-TATT ATATT A-TATT A-TATT A-TATT A-TATT
18164352 ATAATT ATA
1 AT-ATT ATA
18164361 ATTTTTTCTT
Statistics
Matches: 150, Mismatches: 30, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
3 2 0.01
4 10 0.07
5 63 0.42
6 63 0.42
7 12 0.08
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:18177302 original size:25 final size:24
Alignment explanation
Indices: 18177274--18177327 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
18177264 GTTATATCCA
18177274 TTGATCGATCCATTAGGCATTTATG
1 TTGAT-GATCCATTAGGCATTTATG
*
18177299 TTGAATGGTCCATTAGGCATTTATG
1 TTG-ATGATCCATTAGGCATTTATG
18177324 TTGA
1 TTGA
18177328 ATGGTGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 24 0.89
26 2 0.07
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (24 bp):
TTGATGATCCATTAGGCATTTATG
Found at i:18177328 original size:25 final size:25
Alignment explanation
Indices: 18177282--18177332 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18177272 CATTGATCGA
18177282 TCCATTAGGCATTTATGTTGAATGG
1 TCCATTAGGCATTTATGTTGAATGG
18177307 TCCATTAGGCATTTATGTTGAATGG
1 TCCATTAGGCATTTATGTTGAATGG
18177332 T
1 T
18177333 GAATTGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (25 bp):
TCCATTAGGCATTTATGTTGAATGG
Found at i:18180963 original size:22 final size:22
Alignment explanation
Indices: 18180911--18180964 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
18180901 CTTCTCTTTT
*
18180911 TTGTTTAAGCTCTTTATACCAA
1 TTGTTTAAGCTCTCTATACCAA
* *
18180933 ATGTTTAAGCT-TCTATATCAA
1 TTGTTTAAGCTCTCTATACCAA
18180954 TTGTTATAAGC
1 TTGTT-TAAGC
18180965 ATACAAGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (22 bp):
TTGTTTAAGCTCTCTATACCAA
Found at i:18184386 original size:20 final size:18
Alignment explanation
Indices: 18184349--18184387 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
18184339 GCCTGACTCT
*
18184349 AGCAAAAATAATTTTCAA
1 AGCAAAAATAATTCTCAA
18184367 AGCAAAACATAAATTCTCAA
1 AGCAAAA-AT-AATTCTCAA
18184387 A
1 A
18184388 TTCATTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (18 bp):
AGCAAAAATAATTCTCAA
Found at i:18193719 original size:22 final size:23
Alignment explanation
Indices: 18193695--18193736 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
18193685 CAGTTTTAGT
18193695 TTTTCTAC-TTCTTT-TTGTTAA
1 TTTTCTACTTTCTTTCTTGTTAA
*
18193716 TTTTGTACTTTCTTTCTTGTT
1 TTTTCTACTTTCTTTCTTGTT
18193737 CCTGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.10, C:0.14, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTTCTACTTTCTTTCTTGTTAA
Found at i:18197854 original size:21 final size:21
Alignment explanation
Indices: 18197812--18197869 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
18197802 ATTTGTGAAC
* **
18197812 ATAATAAAATGATGAATGCATG
1 ATAATATAAT-ATGAACACATG
18197834 ATAATATAATATGAACACATG
1 ATAATATAATATGAACACATG
*
18197855 ACAATATAATATGAA
1 ATAATATAATATGAA
18197870 TGGTAGATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATATAATATGAACACATG
Found at i:18198102 original size:20 final size:20
Alignment explanation
Indices: 18198060--18198103 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
18198050 GTTTGGTTAT
* *
18198060 GTTTTAGGGTTAGGGTTAGG
1 GTTTTAGGGTTAGAGTTAAG
* *
18198080 GTTTTAGGGTTTGATTTAAG
1 GTTTTAGGGTTAGAGTTAAG
18198100 GTTT
1 GTTT
18198104 GATGGGAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (20 bp):
GTTTTAGGGTTAGAGTTAAG
Found at i:18200212 original size:22 final size:22
Alignment explanation
Indices: 18200182--18200320 Score: 161
Period size: 22 Copynumber: 6.3 Consensus size: 22
18200172 AAGACTTAAG
* * *
18200182 GATTATGCCTATATGACTTTGA
1 GATTGTGCCTAGAGGACTTTGA
* *
18200204 AATTGTGCCTAGAGGACTTTGG
1 GATTGTGCCTAGAGGACTTTGA
* *
18200226 GATTGTGCTTGGAGGACTTTGA
1 GATTGTGCCTAGAGGACTTTGA
* * *
18200248 AATTGTACCTAGAAGACTTTGA
1 GATTGTGCCTAGAGGACTTTGA
* *
18200270 GATTGTGCTTGGAGGACTTTGA
1 GATTGTGCCTAGAGGACTTTGA
*
18200292 GATTGTGCCGAGAGGACTTTGA
1 GATTGTGCCTAGAGGACTTTGA
18200314 GATTGTG
1 GATTGTG
18200321 TAAAGAGGAG
Statistics
Matches: 95, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 95 1.00
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.35
Consensus pattern (22 bp):
GATTGTGCCTAGAGGACTTTGA
Found at i:18200275 original size:66 final size:66
Alignment explanation
Indices: 18200196--18200319 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 66
18200186 ATGCCTATAT
* *
18200196 GACTTTGAAATTGTGCCTAGAGGACTTTGGGATTGTGCTTG-GAGGACTTTGAAATTGTACCTAG
1 GACTTTGAAATTGTGCCTAGAGGACTTTGAGATTGTGC-CGAGAGGACTTTGAAATTGTACCTAG
18200260 AA
65 AA
* * * *
18200262 GACTTTGAGATTGTGCTTGGAGGACTTTGAGATTGTGCCGAGAGGACTTTGAGATTGT
1 GACTTTGAAATTGTGCCTAGAGGACTTTGAGATTGTGCCGAGAGGACTTTGAAATTGT
18200320 GTAAAGAGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
65 1 0.02
66 50 0.98
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.34
Consensus pattern (66 bp):
GACTTTGAAATTGTGCCTAGAGGACTTTGAGATTGTGCCGAGAGGACTTTGAAATTGTACCTAGA
A
Found at i:18200329 original size:44 final size:44
Alignment explanation
Indices: 18200196--18200320 Score: 205
Period size: 44 Copynumber: 2.8 Consensus size: 44
18200186 ATGCCTATAT
*
18200196 GACTTTGAAATTGTGCCTAGAGGACTTTGGGATTGTGCTTGGAG
1 GACTTTGAAATTGTGCCTAGAGGACTTTGAGATTGTGCTTGGAG
* *
18200240 GACTTTGAAATTGTACCTAGAAGACTTTGAGATTGTGCTTGGAG
1 GACTTTGAAATTGTGCCTAGAGGACTTTGAGATTGTGCTTGGAG
* *
18200284 GACTTTGAGATTGTGCCGAGAGGACTTTGAGATTGTG
1 GACTTTGAAATTGTGCCTAGAGGACTTTGAGATTGTG
18200321 TAAAGAGGAG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (44 bp):
GACTTTGAAATTGTGCCTAGAGGACTTTGAGATTGTGCTTGGAG
Found at i:18200427 original size:40 final size:39
Alignment explanation
Indices: 18200351--18200497 Score: 134
Period size: 40 Copynumber: 3.7 Consensus size: 39
18200341 TGCCCAGTTA
* * *
18200351 AATATTGCCCGAAGGTCTTAGAAGTCATTTGAAAATTTAG
1 AATATTGCCCAAAGGTCTTAGAAATC-TTTTAAAATTTAG
* * *
18200391 AATATTACCCAAATGTCTTAGAAATCTTTTATAAATTTAA
1 AATATTGCCCAAAGGTCTTAGAAATCTTTTA-AAATTTAG
* * *
18200431 AATTTTGCTCAAAGGTCTTTGAAAAT-TTTTCAAAAATTTAG
1 AATATTGCCCAAAGGTCTTAG-AAATCTTTT--AAAATTTAG
* * *
18200472 AATTTTGCTCAAAGGTCTTGGAAATC
1 AATATTGCCCAAAGGTCTTAGAAATC
18200498 ATTGAAAAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 4 0.04
40 53 0.60
41 31 0.35
42 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (39 bp):
AATATTGCCCAAAGGTCTTAGAAATCTTTTAAAATTTAG
Found at i:18200560 original size:40 final size:40
Alignment explanation
Indices: 18200459--18200638 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 40
18200449 TTGAAAATTT
* *
18200459 TTCAAAAATTTAGAA-TTTTG-CTCAAAGGTCTTGGAAATCA
1 TTCAAAAATTTA-AAGTTTTGCCT-GAAGGTCTTGGAATTCA
* * ** *
18200499 TTGAAAAATATAAAGCCTTGCCTGAAGGT-TTTGAGATTCA
1 TTCAAAAATTTAAAGTTTTGCCTGAAGGTCTTGGA-ATTCA
* *
18200539 TTCAAAAATTTAAAGTTTTGCC-CAGAGGTCTTGGAATTTA
1 TTCAAAAATTTAAAGTTTTGCCTGA-AGGTCTTGGAATTCA
* * *
18200579 TTCAAAAATTCAAAGTTTTGCTTGGAA-GTCTTGGAATTCT
1 TTCAAAAATTTAAAGTTTTGCCT-GAAGGTCTTGGAATTCA
*
18200619 TTCAAAAATTTAAGGTTTTG
1 TTCAAAAATTTAAAGTTTTG
18200639 TTTGGAGATT
Statistics
Matches: 112, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
39 7 0.06
40 97 0.87
41 7 0.06
42 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (40 bp):
TTCAAAAATTTAAAGTTTTGCCTGAAGGTCTTGGAATTCA
Found at i:18200586 original size:80 final size:80
Alignment explanation
Indices: 18200459--18200638 Score: 197
Period size: 80 Copynumber: 2.2 Consensus size: 80
18200449 TTGAAAATTT
* *
18200459 TTCAAAAATTTAGAA-TTTTGCTCAAAGGTCTTGGAAATCATTGAAAAATAT-AAAGCCTTGCCT
1 TTCAAAAATTTA-AAGTTTTGCCCAAAGGTCTTGGAAATCATTCAAAAAT-TCAAAGCCTTGCCT
*
18200522 -GAAGGT-TTTGAGATTCA
64 GGAA-GTCTTGGA-ATTCA
* * * ** *
18200539 TTCAAAAATTTAAAGTTTTGCCCAGAGGTCTTGGAATTTATTCAAAAATTCAAAGTTTTGCTTGG
1 TTCAAAAATTTAAAGTTTTGCCCAAAGGTCTTGGAAATCATTCAAAAATTCAAAGCCTTGCCTGG
*
18200604 AAGTCTTGGAATTCT
66 AAGTCTTGGAATTCA
*
18200619 TTCAAAAATTTAAGGTTTTG
1 TTCAAAAATTTAAAGTTTTG
18200639 TTTGGAGATT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
79 3 0.04
80 75 0.88
81 7 0.08
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (80 bp):
TTCAAAAATTTAAAGTTTTGCCCAAAGGTCTTGGAAATCATTCAAAAATTCAAAGCCTTGCCTGG
AAGTCTTGGAATTCA
Found at i:18203562 original size:32 final size:31
Alignment explanation
Indices: 18203494--18203562 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
18203484 TTTTGCTTTT
* *
18203494 CTTTCTTTTTCTTTTTTTTTTCTTTTGCAAG
1 CTTTTTTTTTCTTTTTTTTTTCTTTTGCAAA
*
18203525 CTTTTTTTTTCTTTTTTGTTTTGTTTT-CAAA
1 CTTTTTTTTTCTTTTTT-TTTTCTTTTGCAAA
*
18203556 ATTTTTT
1 CTTTTTT
18203563 CAATTTCCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 25 0.76
32 8 0.24
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.74
Consensus pattern (31 bp):
CTTTTTTTTTCTTTTTTTTTTCTTTTGCAAA
Found at i:18210440 original size:21 final size:21
Alignment explanation
Indices: 18210407--18210467 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
18210397 CATTCATCAT
18210407 TTTTTTTGGTTTTTTTTCTTGCC
1 TTTTTTT--TTTTTTTTCTTGCC
18210430 TTTTTTTTTTTTTTTCTTGCC
1 TTTTTTTTTTTTTTTCTTGCC
*
18210451 TTTTTTTTGTTATTTTC
1 TTTTTTTT-TTTTTTTC
18210468 ACCATGCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
21 22 0.61
22 7 0.19
23 7 0.19
ACGTcount: A:0.02, C:0.11, G:0.08, T:0.79
Consensus pattern (21 bp):
TTTTTTTTTTTTTTTCTTGCC
Found at i:18211176 original size:13 final size:13
Alignment explanation
Indices: 18211153--18211216 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
18211143 AAAATCAAAA
18211153 TTTT-CTTTCTTT
1 TTTTCCTTTCTTT
*
18211165 TTATT-TTTTCTTT
1 TT-TTCCTTTCTTT
18211178 TTTTCCTTTCTTT
1 TTTTCCTTTCTTT
*
18211191 TTTT-CTTCTATTT
1 TTTTCCTT-TCTTT
18211204 TTTTCCTTT-TTT
1 TTTTCCTTTCTTT
18211216 T
1 T
18211217 CTTTGCATGC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
12 11 0.24
13 31 0.69
14 3 0.07
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCCTTTCTTT
Found at i:18211182 original size:21 final size:22
Alignment explanation
Indices: 18211153--18211220 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
18211143 AAAATCAAAA
*
18211153 TTTTCTTT-CTTTTTATTTTTTC
1 TTTTCTTTCCTTTCT-TTTTTTC
18211175 TTTT-TTTCCTTTCTTTTTTTC
1 TTTTCTTTCCTTTCTTTTTTTC
* * *
18211196 TTCTATTT-TTTTCCTTTTTTTC
1 TTTTCTTTCCTTT-CTTTTTTTC
18211218 TTT
1 TTT
18211221 GCATGCTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTCTTTCCTTTCTTTTTTTC
Found at i:18211187 original size:26 final size:26
Alignment explanation
Indices: 18211153--18211216 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
18211143 AAAATCAAAA
* *
18211153 TTTT-CTTTCTTTTTATT-TTTTCTTT
1 TTTTCCTTTCTTTTT-TTCTTCTATTT
18211178 TTTTCCTTTCTTTTTTTCTTCTATTT
1 TTTTCCTTTCTTTTTTTCTTCTATTT
18211204 TTTTCCTTT-TTTT
1 TTTTCCTTTCTTTT
18211217 CTTTGCATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 10 0.29
26 25 0.71
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTCCTTTCTTTTTTTCTTCTATTT
Found at i:18214890 original size:14 final size:14
Alignment explanation
Indices: 18214869--18214900 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18214859 TTTTTTTCCA
18214869 TTTT-TTTTTATTT
1 TTTTATTTTTATTT
18214882 TTTTATTTTTATTT
1 TTTTATTTTTATTT
18214896 TTTTA
1 TTTTA
18214901 GTTTAGAACA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:18215820 original size:25 final size:26
Alignment explanation
Indices: 18215792--18215840 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
18215782 ATTAAAATCA
18215792 AAATT-TTTTTTTTTTGAAAACAAGG
1 AAATTATTTTTTTTTTGAAAACAAGG
*
18215817 AAATTATTTTTTTTTTTAAAACAA
1 AAATTATTTTTTTTTTGAAAACAA
18215841 AATTACAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (26 bp):
AAATTATTTTTTTTTTGAAAACAAGG
Found at i:18216535 original size:32 final size:33
Alignment explanation
Indices: 18216480--18216593 Score: 92
Period size: 32 Copynumber: 3.5 Consensus size: 33
18216470 TTTGAGGGTT
* *
18216480 GGTTTAAGGTCTA-GGTTATGGTTTTGGGTTTTG
1 GGTTTAGGGT-TAGGGTTAGGGTTTTGGGTTTTG
* *
18216513 GGGTTAGGGTTAGGGTTA-GGTTTTAAGGTTTT-
1 GGTTTAGGGTTAGGGTTAGGGTTTT-GGGTTTTG
* * ** *
18216545 GATTTAGGGTTTGGACTAGGGTTTAGGG-TTTG
1 GGTTTAGGGTTAGGGTTAGGGTTTTGGGTTTTG
*
18216577 GGTTTAGGATTAGGGTT
1 GGTTTAGGGTTAGGGTT
18216594 TAAGGTTTGA
Statistics
Matches: 62, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
31 3 0.05
32 35 0.56
33 24 0.39
ACGTcount: A:0.15, C:0.02, G:0.39, T:0.44
Consensus pattern (33 bp):
GGTTTAGGGTTAGGGTTAGGGTTTTGGGTTTTG
Found at i:18216581 original size:6 final size:7
Alignment explanation
Indices: 18216499--18216601 Score: 58
Period size: 7 Copynumber: 15.7 Consensus size: 7
18216489 TCTAGGTTAT
*
18216499 GGTTTTG
1 GGTTTAG
*
18216506 GGTTTTG
1 GGTTTAG
*
18216513 GGGTTAG
1 GGTTTAG
18216520 GG-TTAG
1 GGTTTAG
18216526 GG-TTAG
1 GGTTTAG
* *
18216532 GTTTTAA
1 GGTTTAG
*
18216539 GGTTT-T
1 GGTTTAG
*
18216545 GATTTAG
1 GGTTTAG
18216552 GGTTT--
1 GGTTTAG
**
18216557 GGACTAG
1 GGTTTAG
18216564 GGTTTAG
1 GGTTTAG
18216571 GGTTT-G
1 GGTTTAG
18216577 GGTTTA-
1 GGTTTAG
*
18216583 GGATTAG
1 GGTTTAG
*
18216590 GGTTTAA
1 GGTTTAG
18216597 GGTTT
1 GGTTT
18216602 GATGGGAAAT
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
5 3 0.04
6 26 0.35
7 45 0.61
ACGTcount: A:0.15, C:0.01, G:0.40, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:18216581 original size:13 final size:13
Alignment explanation
Indices: 18216563--18216602 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
18216553 GTTTGGACTA
18216563 GGGTTTAGGGTTT
1 GGGTTTAGGGTTT
* *
18216576 GGGTTTAGGATTA
1 GGGTTTAGGGTTT
*
18216589 GGGTTTAAGGTTT
1 GGGTTTAGGGTTT
18216602 G
1 G
18216603 ATGGGAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (13 bp):
GGGTTTAGGGTTT
Found at i:18216593 original size:26 final size:25
Alignment explanation
Indices: 18216551--18216602 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
18216541 TTTTGATTTA
*
18216551 GGGTTTGGACTAGGGTTTAGGGTTT
1 GGGTTTGGACTAGGGTTTAAGGTTT
*
18216576 GGGTTTAGGATTAGGGTTTAAGGTTT
1 GGGTTT-GGACTAGGGTTTAAGGTTT
18216602 G
1 G
18216603 ATGGGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.15, C:0.02, G:0.42, T:0.40
Consensus pattern (25 bp):
GGGTTTGGACTAGGGTTTAAGGTTT
Found at i:18220480 original size:9 final size:9
Alignment explanation
Indices: 18220446--18220534 Score: 62
Period size: 9 Copynumber: 10.4 Consensus size: 9
18220436 AGATAAATGA
*
18220446 ATTGCATAC
1 ATTGCATTC
*
18220455 ATTGCATCC
1 ATTGCATTC
*
18220464 ACTGCATTC
1 ATTGCATTC
18220473 ATTGCATTC
1 ATTGCATTC
* *
18220482 ACTACATTC
1 ATTGCATTC
*
18220491 ACTGCA-T-
1 ATTGCATTC
18220498 -TT--ATTC
1 ATTGCATTC
18220504 ATTGCATTC
1 ATTGCATTC
*
18220513 ACTGCATTC
1 ATTGCATTC
* *
18220522 ACTACATTC
1 ATTGCATTC
18220531 ATTG
1 ATTG
18220535 TGCATGATCA
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
4 1 0.02
5 1 0.02
6 1 0.02
7 2 0.03
8 1 0.02
9 57 0.90
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.38
Consensus pattern (9 bp):
ATTGCATTC
Found at i:18220503 original size:22 final size:22
Alignment explanation
Indices: 18220478--18220520 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18220468 CATTCATTGC
18220478 ATTCACTACATTCACTGCATTT
1 ATTCACTACATTCACTGCATTT
* *
18220500 ATTCATTGCATTCACTGCATT
1 ATTCACTACATTCACTGCATT
18220521 CACTACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (22 bp):
ATTCACTACATTCACTGCATTT
Found at i:18220507 original size:31 final size:31
Alignment explanation
Indices: 18220469--18220529 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
18220459 CATCCACTGC
*
18220469 ATTCATTGCATTCACTACATTCACTGCATTT
1 ATTCATTGCATTCACTACATTCACTACATTT
*
18220500 ATTCATTGCATTCACTGCATTCACTACATT
1 ATTCATTGCATTCACTACATTCACTACATT
18220530 CATTGTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTCATTGCATTCACTACATTCACTACATTT
Found at i:18220533 original size:22 final size:22
Alignment explanation
Indices: 18220486--18220533 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18220476 GCATTCACTA
* *
18220486 CATTCACTGCATTTATTCATTG
1 CATTCACTGCATTCATACATTG
18220508 CATTCACTGCATTCACTACATT-
1 CATTCACTGCATTCA-TACATTG
18220530 CATT
1 CATT
18220534 GTGCATGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.25, C:0.27, G:0.06, T:0.42
Consensus pattern (22 bp):
CATTCACTGCATTCATACATTG
Found at i:18220962 original size:44 final size:41
Alignment explanation
Indices: 18220835--18220971 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 41
18220825 CCATATATCT
*
18220835 ATTTTATTTTTTGAAAGTTTTAA-ACCTCTATTATGGGGAGC
1 ATTTTATTTTTTGAAAG-TTTAATACCTCAATTATGGGGAGC
* * * *
18220876 ATTTTAATTTTT-AAAGTTTCAGTGCCTCAGTTATGGGGGAGC
1 ATTTTATTTTTTGAAAGTTT-AATACCTCAATTAT-GGGGAGC
* *
18220918 ATTTTATTTTTTTGAAAGTTCTAATACCTCAATTGTAGGAGAGC
1 ATTTTA-TTTTTTGAAAGTT-TAATACCTCAATTAT-GGGGAGC
18220962 ATTTTATTTT
1 ATTTTATTTT
18220972 AATTTTTTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.04
40 5 0.06
41 19 0.24
42 13 0.17
43 9 0.12
44 28 0.36
45 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (41 bp):
ATTTTATTTTTTGAAAGTTTAATACCTCAATTATGGGGAGC
Found at i:18221263 original size:12 final size:12
Alignment explanation
Indices: 18221246--18221347 Score: 78
Period size: 12 Copynumber: 8.4 Consensus size: 12
18221236 AAAGCCATAA
18221246 AATTTTGATTTT
1 AATTTTGATTTT
*
18221258 AATTTTGATTGT
1 AATTTTGATTTT
** *
18221270 GGTTTTGGTTTT
1 AATTTTGATTTT
**
18221282 GGTTTTGATTTT
1 AATTTTGATTTT
** *
18221294 GGTTTTGGTTTT
1 AATTTTGATTTT
* *
18221306 GATTTTAATTTT
1 AATTTTGATTTT
*
18221318 AGTTTTGATTTT
1 AATTTTGATTTT
*
18221330 AATTTTAATTTT
1 AATTTTGATTTT
18221342 GAATTT
1 -AATTT
18221348 AATTTTATTC
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
12 69 0.93
13 5 0.07
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (12 bp):
AATTTTGATTTT
Found at i:18221278 original size:6 final size:6
Alignment explanation
Indices: 18221269--18221311 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
18221259 ATTTTGATTG
* *
18221269 TGGTTT TGGTTT TGGTTT TGATTT TGGTTT TGGTTT TGATTT T
1 TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT TGGTTT T
18221312 AATTTTAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.28, T:0.67
Consensus pattern (6 bp):
TGGTTT
Found at i:18221316 original size:6 final size:6
Alignment explanation
Indices: 18221302--18221354 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
18221292 TTGGTTTTGG
* * *
18221302 TTTTGA TTTTAA TTTTAG TTTTGA TTTTAA TTTTAA TTTTGAA -TTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT-AA TTTTAA
18221350 TTTTA
1 TTTTA
18221355 TTCTATTGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 2 0.05
6 36 0.90
7 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (6 bp):
TTTTAA
Found at i:18221330 original size:18 final size:18
Alignment explanation
Indices: 18221248--18221354 Score: 108
Period size: 18 Copynumber: 5.9 Consensus size: 18
18221238 AGCCATAAAA
18221248 TTTTGATTTTAATTTT-G
1 TTTTGATTTTAATTTTAG
* * ** *
18221265 ATTGTGGTTTTGGTTTTGG
1 -TTTTGATTTTAATTTTAG
** *
18221284 TTTTGATTTTGGTTTTGG
1 TTTTGATTTTAATTTTAG
18221302 TTTTGATTTTAATTTTAG
1 TTTTGATTTTAATTTTAG
*
18221320 TTTTGATTTTAATTTTAA
1 TTTTGATTTTAATTTTAG
*
18221338 TTTTGAATTTAATTTTA
1 TTTTGATTTTAATTTTA
18221355 TTCTATTGGT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
18 76 0.99
19 1 0.01
ACGTcount: A:0.18, C:0.00, G:0.17, T:0.65
Consensus pattern (18 bp):
TTTTGATTTTAATTTTAG
Found at i:18221336 original size:24 final size:24
Alignment explanation
Indices: 18221248--18221342 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 24
18221238 AGCCATAAAA
* *
18221248 TTTTGATTTTAATTTTGATTGTGG
1 TTTTGATTTTAATTTTAATTTTGG
* ** *
18221272 TTTTGGTTTTGGTTTTGATTTTGG
1 TTTTGATTTTAATTTTAATTTTGG
* * *
18221296 TTTTGGTTTTGATTTTAATTTTAG
1 TTTTGATTTTAATTTTAATTTTGG
18221320 TTTTGATTTTAATTTTAATTTTG
1 TTTTGATTTTAATTTTAATTTTG
18221343 AATTTAATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.66
Consensus pattern (24 bp):
TTTTGATTTTAATTTTAATTTTGG
Found at i:18222501 original size:19 final size:19
Alignment explanation
Indices: 18222475--18222583 Score: 103
Period size: 19 Copynumber: 5.7 Consensus size: 19
18222465 TTGTATGATC
*
18222475 ATTTGCATGATTTTTTATT
1 ATTTGCATGATTATTTATT
* *
18222494 AATTGCATGATTATATA-T
1 ATTTGCATGATTATTTATT
*
18222512 ATTTGCATGATTATTGATT
1 ATTTGCATGATTATTTATT
* * *
18222531 ATTTGCTTGATTATATACAT
1 ATTTGCATGATTATTTA-TT
* *
18222551 ATTTGCATGTTTATTGATT
1 ATTTGCATGATTATTTATT
* *
18222570 ATTGGCAAGATTAT
1 ATTTGCATGATTAT
18222584 GAATACATTG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
18 15 0.21
19 41 0.59
20 14 0.20
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.51
Consensus pattern (19 bp):
ATTTGCATGATTATTTATT
Found at i:18222519 original size:37 final size:38
Alignment explanation
Indices: 18222475--18222601 Score: 134
Period size: 37 Copynumber: 3.3 Consensus size: 38
18222465 TTGTATGATC
* *
18222475 ATTTGCATGATTTTTTATTAATTGCATGATTATAT-AT
1 ATTTGCATGATTATTGATTAATTGCATGATTATATAAT
* *
18222512 ATTTGCATGATTATTGATTATTTGCTTGATTATATACAT
1 ATTTGCATGATTATTGATTAATTGCATGATTATATA-AT
* * *
18222551 ATTTGCATGTTTATTGATT-ATTGGCAAGATTAT-GAAT
1 ATTTGCATGATTATTGATTAATT-GCATGATTATATAAT
*
18222588 ACATTGCATGATTA
1 A-TTTGCATGATTA
18222602 AGTTTTGCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
37 34 0.45
38 13 0.17
39 28 0.37
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (38 bp):
ATTTGCATGATTATTGATTAATTGCATGATTATATAAT
Found at i:18222565 original size:39 final size:37
Alignment explanation
Indices: 18222475--18222583 Score: 130
Period size: 39 Copynumber: 2.9 Consensus size: 37
18222465 TTGTATGATC
* *
18222475 ATTTGCATGATTT-TTTATTAATTGCATGATTATATAT
1 ATTTGCATG-TTTATTGATTATTTGCATGATTATATAT
* *
18222512 ATTTGCATGATTATTGATTATTTGCTTGATTATATACAT
1 ATTTGCATGTTTATTGATTATTTGCATGATTATAT--AT
* *
18222551 ATTTGCATGTTTATTGATTATTGGCAAGATTAT
1 ATTTGCATGTTTATTGATTATTTGCATGATTAT
18222584 GAATACATTG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
36 2 0.03
37 28 0.46
39 31 0.51
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.51
Consensus pattern (37 bp):
ATTTGCATGTTTATTGATTATTTGCATGATTATATAT
Found at i:18222670 original size:21 final size:20
Alignment explanation
Indices: 18222606--18222734 Score: 110
Period size: 18 Copynumber: 6.7 Consensus size: 20
18222596 TGATTAAGTT
18222606 TTGCATGATATTTTATATTA
1 TTGCATGATATTTTATATTA
* * *
18222626 TTGCTTGGTATTTTATATTT
1 TTGCATGATATTTTATATTA
* *
18222646 TTGCATGATGATTTAATAATA
1 TTGCATGAT-ATTTTATATTA
*
18222667 TTGCATG--ATTTAATATTA
1 TTGCATGATATTTTATATTA
* *
18222685 TTGAATGA-ATTTGAT-TTAA
1 TTGCATGATATTTTATATT-A
*
18222704 TTGCATG--ATTTAATATT-
1 TTGCATGATATTTTATATTA
18222721 TTGCATGATATTTT
1 TTGCATGATATTTT
18222735 GCACATATGT
Statistics
Matches: 89, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
17 7 0.08
18 24 0.27
19 19 0.21
20 24 0.27
21 15 0.17
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (20 bp):
TTGCATGATATTTTATATTA
Found at i:18229627 original size:21 final size:23
Alignment explanation
Indices: 18229587--18229632 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 23
18229577 TAAAACTTGC
18229587 TTTAAACAAAAATGACAATTAAAA
1 TTTAAAC-AAAATGACAATTAAAA
18229611 TTTAAAC-AAAT-ACAATTAAAA
1 TTTAAACAAAATGACAATTAAAA
18229632 T
1 T
18229633 GGAAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
22 4 0.18
24 7 0.32
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (23 bp):
TTTAAACAAAATGACAATTAAAA
Found at i:18231866 original size:6 final size:6
Alignment explanation
Indices: 18231841--18231892 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
18231831 AGCCCAAAAT
* * * *
18231841 TTTTAA TTGTAA -TTTGA TTTTAA TTTTAA TCTTGA TTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
18231888 TTTTA
1 TTTTA
18231893 TGATTTTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 3 0.08
6 34 0.92
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (6 bp):
TTTTAA
Found at i:18231875 original size:18 final size:17
Alignment explanation
Indices: 18231841--18231890 Score: 82
Period size: 18 Copynumber: 2.9 Consensus size: 17
18231831 AGCCCAAAAT
*
18231841 TTTTAATTGTAATTTGA
1 TTTTAATTTTAATTTGA
18231858 TTTTAATTTTAATCTTGA
1 TTTTAATTTTAAT-TTGA
18231876 TTTTAATTTTAATTT
1 TTTTAATTTTAATTT
18231891 TATGATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTAATTTTAATTTGA
Found at i:18231955 original size:24 final size:24
Alignment explanation
Indices: 18231909--18231956 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18231899 TATTTTGGTT
* *
18231909 TAAAAAGAAAAAAAAAGTCAAAAG
1 TAAAAAAAAAAAAAAAGTAAAAAG
18231933 TAAAAAAAAAAAAAGAAG-AAAAAG
1 TAAAAAAAAAAAAA-AAGTAAAAAG
18231957 AAGTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.06
Consensus pattern (24 bp):
TAAAAAAAAAAAAAAAGTAAAAAG
Found at i:18233020 original size:18 final size:20
Alignment explanation
Indices: 18232997--18233044 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
18232987 CTACTTTGAT
18232997 TTTTTTGTTTGA-TTCT-TA
1 TTTTTTGTTTGATTTCTCTA
* * *
18233015 TTTTTTATTTTATTTTTCTA
1 TTTTTTGTTTGATTTCTCTA
18233035 TTTTTTGTTT
1 TTTTTTGTTT
18233045 TTTTATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 10 0.42
19 3 0.12
20 11 0.46
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.79
Consensus pattern (20 bp):
TTTTTTGTTTGATTTCTCTA
Found at i:18233079 original size:17 final size:17
Alignment explanation
Indices: 18233018--18233079 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
18233008 ATTCTTATTT
*
18233018 TTTATT-TTATTTTTCTA
1 TTTATTATTA-TTTTATA
* * *
18233035 TTTTTTGTTTTTTTATA
1 TTTATTATTATTTTATA
18233052 TATTATATATTATTTTATA
1 T-TTAT-TATTATTTTATA
18233071 TTTATTATT
1 TTTATTATT
18233080 TTCAATGGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 16 0.44
18 9 0.25
19 11 0.31
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATTATTATTTTATA
Found at i:18233291 original size:18 final size:18
Alignment explanation
Indices: 18233267--18233320 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 18
18233257 TATATTTTGC
18233267 ATAATTGCATGATTATAT
1 ATAATTGCATGATTATAT
* *
18233285 TTAATTGCATGATAATAAAT
1 ATAATTGCATGAT--TATAT
*
18233305 ATATTTGCATGATTAT
1 ATAATTGCATGATTAT
18233321 TGTATGATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 14 0.48
20 15 0.52
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (18 bp):
ATAATTGCATGATTATAT
Found at i:18233633 original size:17 final size:19
Alignment explanation
Indices: 18233611--18233660 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
18233601 TATTAGAAAA
18233611 TATTTTTTAAAATAA-A-T
1 TATTTTTTAAAATAAGAGT
18233628 TA-TTTTTACAAATAAGAGT
1 TATTTTTTA-AAATAAGAGT
*
18233647 TATTTTTTACAATA
1 TATTTTTTAAAATA
18233661 TAAAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.21
17 8 0.29
18 1 0.04
19 7 0.25
20 6 0.21
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (19 bp):
TATTTTTTAAAATAAGAGT
Found at i:18233651 original size:19 final size:18
Alignment explanation
Indices: 18233611--18233664 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 18
18233601 TATTAGAAAA
18233611 TATTTTTTA-AAATAAAT
1 TATTTTTTACAAATAAAT
18233628 TA-TTTTTACAAATAAGAGT
1 TATTTTTTACAAATAA-A-T
18233647 TATTTTTTACAATATAAA
1 TATTTTTTACAA-ATAAA
18233665 AATTAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.19
17 8 0.25
18 1 0.03
19 3 0.09
20 10 0.31
21 4 0.12
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (18 bp):
TATTTTTTACAAATAAAT
Found at i:18234600 original size:20 final size:21
Alignment explanation
Indices: 18234557--18234613 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
18234547 TTTTCCTCCC
*
18234557 TTTATCTTTGTATTTTATTTA
1 TTTATCTTTATATTTTATTTA
*
18234578 TTTATCTTTACATTTTA-TTA
1 TTTATCTTTATATTTTATTTA
18234598 TTTATCTTTATATTTT
1 TTTATCTTTATATTTT
18234614 TCATTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTATCTTTATATTTTATTTA
Found at i:18234661 original size:28 final size:26
Alignment explanation
Indices: 18234576--18234662 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 26
18234566 GTATTTTATT
18234576 TATTTATCTTTACA-TTTTATTATTTA
1 TATTTATCTTTACATTTTTA-TATTTA
* * *
18234602 TCTTTATATTTTTCATTTTTATATCGTT-
1 TATTTAT-CTTTACATTTTTATAT--TTA
18234630 TATTTATCTTTACATTTTTATCATTTGA
1 TATTTATCTTTACATTTTTAT-ATTT-A
18234658 TATTT
1 TATTT
18234663 TATTTTTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
26 8 0.17
27 20 0.42
28 18 0.38
29 2 0.04
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTTATCTTTACATTTTTATATTTA
Found at i:18235535 original size:24 final size:23
Alignment explanation
Indices: 18235508--18235553 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18235498 TATCTTTTGT
*
18235508 TTTAATTGTGGTTTTATTTTATTA
1 TTTAATTGT-ATTTTATTTTATTA
*
18235532 TTTAGTTGTATTTTATTTTATT
1 TTTAATTGTATTTTATTTTATT
18235554 TATAGATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.70
Consensus pattern (23 bp):
TTTAATTGTATTTTATTTTATTA
Found at i:18236662 original size:74 final size:75
Alignment explanation
Indices: 18236475--18236667 Score: 214
Period size: 75 Copynumber: 2.6 Consensus size: 75
18236465 TTTTTGTAAA
* * * *
18236475 AAAAGAACCAATCGATCCCTTTTAAGAGAGGATTGATCCATTTTACAAATTTTGAAATCAACATG
1 AAAAGAACAAATCGATCCATTTTCAGAGAGGATTGATCCATTTTACAAATTTTAAAATCAACATG
*
18236540 TTTTCTATAT
66 TTTACTATAT
* * * * * *
18236550 AAAAGAACAAATCAATCTATTTTCAAAG-GGAATTGATCCATTTTGCCAGTTTTAAAAT-AA-AT
1 AAAAGAACAAATCGATCCATTTTCAGAGAGG-ATTGATCCATTTTACAAATTTTAAAATCAACA-
*
18236612 TGGTTTACTGTAT
64 T-GTTTACTATAT
*
18236625 AAAA-AACAAATCGATCCATTTTCAGAGAGGATCGATCCATTTT
1 AAAAGAACAAATCGATCCATTTTCAGAGAGGATTGATCCATTTT
18236668 TTCCATTCTC
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
73 1 0.01
74 37 0.38
75 60 0.61
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (75 bp):
AAAAGAACAAATCGATCCATTTTCAGAGAGGATTGATCCATTTTACAAATTTTAAAATCAACATG
TTTACTATAT
Found at i:18242385 original size:5 final size:5
Alignment explanation
Indices: 18242370--18242418 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
18242360 ATTAATTCTT
18242370 TTTTCC TTTTC TTTTC -TTTC TTTTCC TTTTC -TTTC TCTTT- TTTTC
1 TTTT-C TTTTC TTTTC TTTTC TTTT-C TTTTC TTTTC T-TTTC TTTTC
18242415 TTTT
1 TTTT
18242419 TTGAAACCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
4 11 0.29
5 15 0.39
6 12 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:18242395 original size:20 final size:20
Alignment explanation
Indices: 18242368--18242418 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
18242358 AAATTAATTC
18242368 TTTTTTCCTTTTCTTT-TCT
1 TTTTTTCCTTTTCTTTCTCT
18242387 TTCTTTTCCTTTTCTTTCTCT
1 TT-TTTTCCTTTTCTTTCTCT
18242408 TTTTTT-CTTTT
1 TTTTTTCCTTTT
18242419 TTGAAACCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.23
20 18 0.60
21 5 0.17
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTCCTTTTCTTTCTCT
Found at i:18242398 original size:15 final size:14
Alignment explanation
Indices: 18242365--18242417 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
18242355 TTAAAATTAA
*
18242365 TTCTTTT-TTCCTT
1 TTCTTTTCTTTCTT
18242378 TTCTTTTCTTTCTT
1 TTCTTTTCTTTCTT
18242392 TTCCTTTTCTTTCTCT
1 TT-CTTTTCTTTCT-T
18242408 TT-TTTTCTTT
1 TTCTTTTCTTT
18242418 TTTGAAACCA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
13 7 0.19
14 15 0.42
15 11 0.31
16 3 0.08
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTCTTTTCTTTCTT
Found at i:18242911 original size:7 final size:7
Alignment explanation
Indices: 18242848--18243001 Score: 76
Period size: 7 Copynumber: 22.6 Consensus size: 7
18242838 TGCATGATTA
18242848 GTTTAGG
1 GTTTAGG
18242855 GTTTGAGG
1 GTTT-AGG
18242863 G-TT-GG
1 GTTTAGG
* *
18242868 TTTTGGG
1 GTTTAGG
18242875 GTTTAAGTTG
1 GTTT-AG--G
*
18242885 GTTTGGG
1 GTTTAGG
*
18242892 GTCTA-G
1 GTTTAGG
18242898 G-TTAGG
1 GTTTAGG
18242904 GTTTAGG
1 GTTTAGG
*
18242911 GTTTAGA
1 GTTTAGG
18242918 G-TTAGG
1 GTTTAGG
**
18242924 GTTTAAA
1 GTTTAGG
18242931 GTTTAAGG
1 GTTT-AGG
*
18242939 TTTTA-G
1 GTTTAGG
*
18242945 GATTAGG
1 GTTTAGG
18242952 GTTT--G
1 GTTTAGG
18242957 GTTT-GTG
1 GTTTAG-G
18242964 GTTT-GG
1 GTTTAGG
*
18242970 GTTTAGA
1 GTTTAGG
18242977 GTTTAGG
1 GTTTAGG
*
18242984 ATTTAGG
1 GTTTAGG
*
18242991 GTTTATG
1 GTTTAGG
18242998 GTTT
1 GTTT
18243002 TAGAGTTTGG
Statistics
Matches: 111, Mismatches: 22, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
5 9 0.08
6 20 0.18
7 67 0.60
8 9 0.08
9 1 0.01
10 5 0.05
ACGTcount: A:0.16, C:0.01, G:0.38, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:18242994 original size:14 final size:14
Alignment explanation
Indices: 18242899--18243009 Score: 65
Period size: 13 Copynumber: 8.1 Consensus size: 14
18242889 GGGGTCTAGG
*
18242899 TTAGGGTTTAGGGT
1 TTAGGATTTAGGGT
*
18242913 TTA-GAGTTAGGGT
1 TTAGGATTTAGGGT
* *
18242926 TTA-AAGTTTAAGGTT
1 TTAGGA-TTT-AGGGT
18242941 TTAGGA-TTAGGGT
1 TTAGGATTTAGGGT
18242954 TT-GG-TTT-GTGGT
1 TTAGGATTTAG-GGT
* *
18242966 TT-GGGTTTAGAGT
1 TTAGGATTTAGGGT
18242979 TTAGGATTTAGGGT
1 TTAGGATTTAGGGT
* *
18242993 TTATGGTTTTAGAGT
1 TTA-GGATTTAGGGT
18243008 TT
1 TT
18243010 GGAGTCTATG
Statistics
Matches: 76, Mismatches: 12, Indels: 17
0.72 0.11 0.16
Matches are distributed among these distances:
11 1 0.01
12 11 0.14
13 25 0.33
14 20 0.26
15 18 0.24
16 1 0.01
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (14 bp):
TTAGGATTTAGGGT
Found at i:18245607 original size:51 final size:50
Alignment explanation
Indices: 18245519--18245649 Score: 133
Period size: 51 Copynumber: 2.6 Consensus size: 50
18245509 GGATTCACAC
* * *
18245519 CAAAAA-ATTCTTTAAAAGTTC-AGGATTCACATTGAAAGGTT-AGGATTCA
1 CAAAAAGATTCTTCAAAGGTTCGA-GATTCACATCGAAAGGTTGA-GATTCA
* *
18245568 TAAAAAGATTCTTCAAAAGGTTTGAGATTCACATCGAAAGGTTGAGATTCA
1 CAAAAAGATTCTTC-AAAGGTTCGAGATTCACATCGAAAGGTTGAGATTCA
** * *
18245619 CACTAAGATTTTTCAAAGGTTCGGGATTCAC
1 CAAAAAGATTCTTCAAAGGTTCGAGATTCAC
18245650 TCTAAAAAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
49 5 0.07
50 21 0.31
51 39 0.58
52 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (50 bp):
CAAAAAGATTCTTCAAAGGTTCGAGATTCACATCGAAAGGTTGAGATTCA
Found at i:18245730 original size:51 final size:51
Alignment explanation
Indices: 18245574--18245851 Score: 218
Period size: 51 Copynumber: 5.5 Consensus size: 51
18245564 TTCATAAAAA
* * * *
18245574 GATTCTTCAAAAGGTTTGAGATTCACATCG-AAAGGTTGAGATTCACACTAA
1 GATTTTTC-AAAGGTTTGGGATTCACATCGAAAAGGCTGAGATTCACACTAG
* * * *
18245625 GATTTTTCAAAGGTTCGGGATTCAC-TCTAAAAAAGCT-AGGGTT-AGCACTAG
1 GATTTTTCAAAGGTTTGGGATTCACATC-GAAAAGGCTGA-GATTCA-CACTAG
* * * *
18245676 GATTTTTTAAAGGTTTGGGATTCGCATCGAAAAGGCTGAGATTCACATTGG
1 GATTTTTCAAAGGTTTGGGATTCACATCGAAAAGGCTGAGATTCACACTAG
* * *
18245727 GATTTTTCAATA-GTTTGGGATTTACA-CCAAAAGGCT-AGGGTTCACACTAG
1 GATTTTTCAA-AGGTTTGGGATTCACATCGAAAAGGCTGA-GATTCACACTAG
* * *
18245777 GATTTTCCAATA-GTTTGGGATTCACA-CCAAAAGGGCT-AGGGTTCACA-TCAG
1 GATTTTTCAA-AGGTTTGGGATTCACATCGAAAA-GGCTGA-GATTCACACT-AG
*
18245828 GATTTTTCAAAGGCTTGGGATTCA
1 GATTTTTCAAAGGTTTGGGATTCA
18245852 TATTGAAAGG
Statistics
Matches: 188, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
49 3 0.02
50 67 0.36
51 113 0.60
52 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (51 bp):
GATTTTTCAAAGGTTTGGGATTCACATCGAAAAGGCTGAGATTCACACTAG
Found at i:18245793 original size:101 final size:101
Alignment explanation
Indices: 18245574--18245851 Score: 264
Period size: 101 Copynumber: 2.7 Consensus size: 101
18245564 TTCATAAAAA
* * *
18245574 GATTCTTCAAAAGGTTTGAGATTCACATCGAAAGGTTGAGATTCACACTAAGATTTTTCAAAGGT
1 GATT-TTCCAAAGGTTTGGGATTCACATCGAAAGGCTGAGATTCACACTAAGATTTTTCAAAGGT
*
18245639 TCGGGATTCACTCTAAAAAAGCTAGGGTTAGCACTAG
65 TCGGGATTCACACTAAAAAAGCTAGGGTTAGCACTAG
** * * **
18245676 GATTTTTTAAAGGTTTGGGATTCGCATCGAAAAGGCTGAGATTCACATTGGGATTTTTCAATA-G
1 GATTTTCCAAAGGTTTGGGATTCACATCG-AAAGGCTGAGATTCACACTAAGATTTTTCAA-AGG
* * * *
18245740 TTTGGGATTTACAC-CAAAAGGCTAGGGTTCA-CACTAG
64 TTCGGGATTCACACTAAAAAAGCTAGGGTT-AGCACTAG
* * * *
18245777 GATTTTCCAATA-GTTTGGGATTCACACCAAAAGGGCT-AGGGTTCACA-TCAGGATTTTTCAAA
1 GATTTTCCAA-AGGTTTGGGATTCACATCGAAA-GGCTGA-GATTCACACT-AAGATTTTTCAAA
18245839 GGCTT-GGGATTCA
62 GG-TTCGGGATTCA
18245852 TATTGAAAGG
Statistics
Matches: 146, Mismatches: 21, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
100 6 0.04
101 92 0.63
102 47 0.32
103 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (101 bp):
GATTTTCCAAAGGTTTGGGATTCACATCGAAAGGCTGAGATTCACACTAAGATTTTTCAAAGGTT
CGGGATTCACACTAAAAAAGCTAGGGTTAGCACTAG
Found at i:18245979 original size:41 final size:41
Alignment explanation
Indices: 18245891--18246373 Score: 179
Period size: 41 Copynumber: 11.8 Consensus size: 41
18245881 CTTTAGATTC
* * *
18245891 ACAATGATTGATAGTTGGAAGACTTTGGATTCA-TAATAAAG
1 ACAATGATTCATAGTTGAAAGACTTTGGATTCACT-ATAGAG
** *
18245932 GTAATGATTCATTGTTGAAAGACTTTGGATTCACTATAGAG
1 ACAATGATTCATAGTTGAAAGACTTTGGATTCACTATAGAG
* * * *
18245973 ACAATGACTCATAGTTGAAA-AGCTCTAGATTCACAATAGA-
1 ACAATGATTCATAGTTGAAAGA-CTTTGGATTCACTATAGAG
* * * * * *
18246013 AAAAAGATTCATAGTTTGGATGACTTTGGATTCA-TA-ACAAA
1 ACAATGATTCATAG-TTGAAAGACTTTGGATTCACTATA-GAG
* * * ** * * *
18246054 AAAATGGTTGATAGTTTGATGGACTTTGGATTCACAACAGAA
1 ACAATGATTCATAG-TTGAAAGACTTTGGATTCACTATAGAG
* * * * ** *
18246096 AAAAT-ATTCATAATGTGGATGACTTTAAATTCACAATAGAG
1 ACAATGATTCATAGT-TGAAAGACTTTGGATTCACTATAGAG
* * * *
18246137 A-AAAGATTCATAGTTGGAGGATTTTGGATTCA-TAATAGAG
1 ACAATGATTCATAGTTGAAAGACTTTGGATTCACT-ATAGAG
* * * * * * * *
18246177 A-AA--ATTTACAGTTTAGAGTGCTCTGGATTCACAACAGAG
1 ACAATGATTCATAGTTGAAAG-ACTTTGGATTCACTATAGAG
* * * ** * *
18246216 A-AATGGTTTATAGTTTGAATGACTTTTAATTCA-TAACAAAG
1 ACAATGATTCATAG-TTGAAAGACTTTGGATTCACT-ATAGAG
* * * * *
18246257 TA-AACGATTCATAGTTTAAAAAACTTTAGATTCACAATAGAG
1 -ACAATGATTCATAG-TTGAAAGACTTTGGATTCACTATAGAG
* *
18246299 A-AACGATTCATAGTTTGAAAGACTTTGGATTCACTACAGAG
1 ACAATGATTCATAG-TTGAAAGACTTTGGATTCACTATAGAG
* * *
18246340 TA-AATGATTCATAGTTTGGAGGATTTTGGATTCA
1 -ACAATGATTCATAG-TTGAAAGACTTTGGATTCA
18246374 TAACCGAAAA
Statistics
Matches: 333, Mismatches: 89, Indels: 39
0.72 0.19 0.08
Matches are distributed among these distances:
38 9 0.03
39 18 0.05
40 40 0.12
41 193 0.58
42 72 0.22
43 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.32
Consensus pattern (41 bp):
ACAATGATTCATAGTTGAAAGACTTTGGATTCACTATAGAG
Found at i:18246272 original size:42 final size:42
Alignment explanation
Indices: 18246203--18246397 Score: 148
Period size: 42 Copynumber: 4.7 Consensus size: 42
18246193 AGTGCTCTGG
* * * * *
18246203 ATTCACAACAGAG-AAATGGTTTATAGTTTGAATGACTTTTA
1 ATTCATAACAGAGTAAACGATTCATAGTTTGAAAGACTTTTA
* * *
18246244 ATTCATAACAAAGTAAACGATTCATAGTTTAAAAAAC-TTTA
1 ATTCATAACAGAGTAAACGATTCATAGTTTGAAAGACTTTTA
* * **
18246285 GATTCACAATAGAG-AAACGATTCATAGTTTGAAAGACTTTGG
1 -ATTCATAACAGAGTAAACGATTCATAGTTTGAAAGACTTTTA
* * * *
18246327 ATTCACT-ACAGAGTAAATGATTCATAGTTTGGAGGA-TTTTGG
1 ATTCA-TAACAGAGTAAACGATTCATAGTTTGAAAGACTTTT-A
* ** *
18246369 ATTCATAACCGAAAAAACAATTCATAGTT
1 ATTCATAACAGAGTAAACGATTCATAGTT
18246398 AGGATGGCTC
Statistics
Matches: 121, Mismatches: 26, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
41 50 0.41
42 71 0.59
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (42 bp):
ATTCATAACAGAGTAAACGATTCATAGTTTGAAAGACTTTTA
Found at i:18246291 original size:83 final size:83
Alignment explanation
Indices: 18246202--18246356 Score: 213
Period size: 83 Copynumber: 1.9 Consensus size: 83
18246192 GAGTGCTCTG
* * * * *
18246202 GATTCACAACAGAGAAATGGTTTATAGTTTGAATGACTTTTAATTCA-TAACAAAGTAAACGATT
1 GATTCACAACAGAGAAACGATTCATAGTTTGAAAGACTTTGAATTCACT-ACAAAGTAAACGATT
18246266 CATAGTTTAAAAAACTTTA
65 CATAGTTTAAAAAACTTTA
* * * *
18246285 GATTCACAATAGAGAAACGATTCATAGTTTGAAAGACTTTGGATTCACTACAGAGTAAATGATTC
1 GATTCACAACAGAGAAACGATTCATAGTTTGAAAGACTTTGAATTCACTACAAAGTAAACGATTC
18246350 ATAGTTT
66 ATAGTTT
18246357 GGAGGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 61 0.98
84 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (83 bp):
GATTCACAACAGAGAAACGATTCATAGTTTGAAAGACTTTGAATTCACTACAAAGTAAACGATTC
ATAGTTTAAAAAACTTTA
Found at i:18248119 original size:25 final size:26
Alignment explanation
Indices: 18248091--18248143 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
18248081 TTATTTTCCC
*
18248091 TTTTAGTTTCATTTTC-TCCTTTTCT
1 TTTTACTTTCATTTTCTTCCTTTTCT
*
18248116 TTTTTCTTTCATTTTCTTTCCTTTTCT
1 TTTTACTTTCATTTTC-TTCCTTTTCT
18248143 T
1 T
18248144 AGTTTCTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.58
27 10 0.42
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTACTTTCATTTTCTTCCTTTTCT
Found at i:18257935 original size:11 final size:12
Alignment explanation
Indices: 18257919--18257964 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
18257909 GGTTTGGGCA
18257919 ATTTTTT-TTAT
1 ATTTTTTATTAT
18257930 ATTTTTTATT-T
1 ATTTTTTATTAT
18257941 ATTTTATTATTATT
1 ATTTT-TTATTA-T
*
18257955 ATTTTCTATT
1 ATTTTTTATT
18257965 TTTTGTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 13 0.43
12 7 0.23
13 4 0.13
14 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:18267282 original size:27 final size:27
Alignment explanation
Indices: 18267252--18267306 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
18267242 TTATAATGTG
*
18267252 AGAAACATAGTAATTGATGTAATTTTT
1 AGAAACATAGCAATTGATGTAATTTTT
* * *
18267279 AGAAATATAGCAATTGGTTTAATTTTT
1 AGAAACATAGCAATTGATGTAATTTTT
18267306 A
1 A
18267307 AAAAATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.42
Consensus pattern (27 bp):
AGAAACATAGCAATTGATGTAATTTTT
Found at i:18269025 original size:6 final size:6
Alignment explanation
Indices: 18269014--18269079 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
18269004 AATCTTATTC
* * ** * *
18269014 TTAATT TTAA-T TTGATT TTAATT TTAATT TTGATT TTGGTT TTGATA
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT
*
18269061 TTAATT TT-ATT TTAGTT TT
1 TTAATT TTAATT TTAATT TT
18269080 TGTTTAAGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
5 9 0.18
6 40 0.82
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:18269036 original size:17 final size:18
Alignment explanation
Indices: 18269014--18269050 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
18269004 AATCTTATTC
18269014 TTAATTTTAA-TTTGATT
1 TTAATTTTAATTTTGATT
18269031 TTAATTTTAATTTTGATT
1 TTAATTTTAATTTTGATT
18269049 TT
1 TT
18269051 GGTTTTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTAATTTTAATTTTGATT
Found at i:18269049 original size:12 final size:11
Alignment explanation
Indices: 18269002--18269079 Score: 57
Period size: 12 Copynumber: 6.7 Consensus size: 11
18268992 CTCAAATATC
*
18269002 TTAATCTTATT
1 TTAATTTTATT
*
18269013 CTTAATTTTAAT
1 -TTAATTTTATT
*
18269025 TTGATTTTAATT
1 TTAATTTT-ATT
18269037 TTAATTTTGATT
1 TTAATTTT-ATT
** *
18269049 TTGGTTTTGATA
1 TTAATTTT-ATT
18269061 TTAATTTTATT
1 TTAATTTTATT
*
18269072 TTAGTTTT
1 TTAATTTT
18269080 TGTTTAAGTT
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
11 16 0.31
12 36 0.69
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (11 bp):
TTAATTTTATT
Found at i:18269078 original size:23 final size:22
Alignment explanation
Indices: 18269014--18269079 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 22
18269004 AATCTTATTC
* *
18269014 TTAATTTTAATTTGATTTTAATT
1 TTAATTTTATTTTG-TTTTAATA
*
18269037 TTAATTTTGATTTTGGTTTTGATA
1 TTAATTTT-ATTTT-GTTTTAATA
18269061 TTAATTTTATTTTAGTTTT
1 TTAATTTTATTTT-GTTTT
18269080 TGTTTAAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 18 0.49
24 18 0.49
25 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (22 bp):
TTAATTTTATTTTGTTTTAATA
Found at i:18273316 original size:25 final size:25
Alignment explanation
Indices: 18273288--18273348 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
18273278 TCATACTTGC
18273288 GTTTTTCTTTCTACGCATTGCTTCT
1 GTTTTTCTTTCTACGCATTGCTTCT
*
18273313 GTTTTTCTTTCTATGCATTGCTTCT
1 GTTTTTCTTTCTACGCATTGCTTCT
18273338 GTTTTTCTTTC
1 GTTTTTCTTTC
18273349 CTTTGGTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.07, C:0.21, G:0.11, T:0.61
Consensus pattern (25 bp):
GTTTTTCTTTCTACGCATTGCTTCT
Found at i:18274117 original size:14 final size:12
Alignment explanation
Indices: 18274094--18274131 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
18274084 TTAAATTTAC
18274094 AAAAATAATAAT
1 AAAAATAATAAT
*
18274106 AAATAT-ATAAT
1 AAAAATAATAAT
18274117 AAAAATAATAA-
1 AAAAATAATAAT
18274128 AAAA
1 AAAA
18274132 TTTTAACATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:18277209 original size:120 final size:120
Alignment explanation
Indices: 18276987--18277212 Score: 362
Period size: 120 Copynumber: 1.9 Consensus size: 120
18276977 CATAAATCTA
* * *
18276987 GGCATGGATATGGACTAATAGTAGATTCTATATGTCCTCTTTGTAAAAGTTTAATAATTCGTATA
1 GGCATGAATATGGACTAATAGTAGATTCTATAAGTCCTCTTTGTAAAAGTTCAATAATTCGTATA
18277052 TCAAATTCATCTATATCTTGTTTAGAACATATCATTGGTTTTACCATAAATGCGG
66 TCAAATTCATCTATATCTTGTTTAGAACATATCATTGGTTTTACCATAAATGCGG
* * * *
18277107 GGCATGAATATGGACTAGTAGTAGATTCTATAAGTCCTTTTTGTAAAAGTTCATTAATTTGTATA
1 GGCATGAATATGGACTAATAGTAGATTCTATAAGTCCTCTTTGTAAAAGTTCAATAATTCGTATA
* * *
18277172 TCAAATTCATCTATATCTTGTTTAGTATATATTATTGGTTT
66 TCAAATTCATCTATATCTTGTTTAGAACATATCATTGGTTT
18277213 GACCCTAATT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (120 bp):
GGCATGAATATGGACTAATAGTAGATTCTATAAGTCCTCTTTGTAAAAGTTCAATAATTCGTATA
TCAAATTCATCTATATCTTGTTTAGAACATATCATTGGTTTTACCATAAATGCGG
Found at i:18282874 original size:18 final size:18
Alignment explanation
Indices: 18282844--18282881 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
18282834 CCTTTAATAA
18282844 ATTCAATAGAAAAATTAT
1 ATTCAATAGAAAAATTAT
18282862 ATTCACATA-AAAAATTAT
1 ATTCA-ATAGAAAAATTAT
18282880 AT
1 AT
18282882 CATCTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (18 bp):
ATTCAATAGAAAAATTAT
Found at i:18288450 original size:52 final size:51
Alignment explanation
Indices: 18288307--18288513 Score: 145
Period size: 53 Copynumber: 3.9 Consensus size: 51
18288297 TTCTATTTAC
* * * * *
18288307 AAAATGTAGTATTTGCAAA-TTTTTTCAATGAAATACTACATTTTTGCTTCAA
1 AAAATGTAGT-TTT-TAAATTTTTTTCAATCAAATACTACATTTATACATCAA
* * *
18288359 AAACATGGT-GTTTGTAAATTTGTATTCAATCAAAAACTACATTTATACAT-AA
1 AAA-AT-GTAGTTTTTAAATTT-TTTTCAATCAAATACTACATTTATACATCAA
* * *
18288411 ACAAATGTAGTTTTTATAATTTTTTTCAATCAAATACTACGTATCA-ACTTTC-A
1 A-AAATGTAGTTTTTA-AATTTTTTTCAATCAAATACTACAT-TTATAC-ATCAA
* * * *
18288464 AAAATATAGTTTTATAAATTCTTTTTCAATCAAAAACTATATTTCTACAT
1 AAAATGTAGTTTT-TAAATT-TTTTTCAATCAAATACTACATTTATACAT
18288514 ATAGACATGT
Statistics
Matches: 121, Mismatches: 21, Indels: 26
0.72 0.12 0.15
Matches are distributed among these distances:
51 5 0.04
52 54 0.45
53 60 0.50
54 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.42
Consensus pattern (51 bp):
AAAATGTAGTTTTTAAATTTTTTTCAATCAAATACTACATTTATACATCAA
Found at i:18291690 original size:21 final size:21
Alignment explanation
Indices: 18291651--18291690 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18291641 TTTTTTAAGT
*
18291651 GATCGATCCCCTATGTGGGGG
1 GATCGATCCCCTATCTGGGGG
* *
18291672 GATCGATCCCTTTTCTGGG
1 GATCGATCCCCTATCTGGG
18291691 TTTCAACACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (21 bp):
GATCGATCCCCTATCTGGGGG
Found at i:18291790 original size:21 final size:21
Alignment explanation
Indices: 18291727--18291795 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 21
18291717 GAACAACCGA
*
18291727 TCGATCCCTTTAAG-AGGGGA-
1 TCGATCCC-TTATGTAGGGGAT
* *
18291747 TCGATCCGTTGACT-TAGGTGAT
1 TCGATCCCTT-A-TGTAGGGGAT
18291769 TCGATCCCTTATGTAGGGGAT
1 TCGATCCCTTATGTAGGGGAT
18291790 T-GATCC
1 TCGATCC
18291796 TTTTTCTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 2 0.05
20 14 0.36
21 14 0.36
22 9 0.23
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (21 bp):
TCGATCCCTTATGTAGGGGAT
Found at i:18301640 original size:142 final size:142
Alignment explanation
Indices: 18301378--18301668 Score: 550
Period size: 142 Copynumber: 2.1 Consensus size: 142
18301368 TATGGTTGTA
18301378 GAAA-CTTCCAATAGATTCTATGTAGACACACTTACAATATGTCAAAACTCCACTAATTATAGTC
1 GAAAGCTTCCAATAGATTCTATGTAGACACACTTACAATATGTCAAAACTCCACTAATTATAGTC
*
18301442 TTTAAAAGTTTACTACCTACTTGATTCAAAAGTTGTTTAGTTAAGATCACTGGTCAACTATACTT
66 TTTAAAAGTTTACTACCTACTTGATTCAAAAGTTGTTTAGTTAAGATCACTAGTCAACTATACTT
18301507 TAAAGATTGTTG
131 TAAAGATTGTTG
18301519 GAAAGCTTCCAATAGATTCTATGTAGACACACTTACAATATGTCAAAACTCCACTAATTATAGTC
1 GAAAGCTTCCAATAGATTCTATGTAGACACACTTACAATATGTCAAAACTCCACTAATTATAGTC
18301584 TTTAAAAGTTTACTACCTACTTGATTCAAAA-TGTGTTTAGTTAAGATCACTAGTCAACTATACT
66 TTTAAAAGTTTACTACCTACTTGATTCAAAAGT-TGTTTAGTTAAGATCACTAGTCAACTATACT
18301648 TTAAAGATTGTTG
130 TTAAAGATTGTTG
18301661 GAAAGCTT
1 GAAAGCTT
18301669 TTGTTGATGC
Statistics
Matches: 147, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
141 5 0.03
142 142 0.97
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (142 bp):
GAAAGCTTCCAATAGATTCTATGTAGACACACTTACAATATGTCAAAACTCCACTAATTATAGTC
TTTAAAAGTTTACTACCTACTTGATTCAAAAGTTGTTTAGTTAAGATCACTAGTCAACTATACTT
TAAAGATTGTTG
Found at i:18304430 original size:119 final size:120
Alignment explanation
Indices: 18304296--18304526 Score: 308
Period size: 119 Copynumber: 1.9 Consensus size: 120
18304286 ATACCATAAT
****
18304296 ATTTCTATAAATTATTAAT-AAATTTTAAAAAAATATCAAATATAAAAC-TTTTTCAAAACAAAT
1 ATTTCTATAAATTATTAATAAAATTTT--AAAAATATCAAATATAAAACATCCAACAAAACAAAT
* * * *
18304359 ATAAATCTTATTCCACATTAAAACC-AAATTTACCATCAAATCAAGATAATTTTTTTA
64 ATAAATCTTAATACACA-TAAAACCGAAATTTACCAACAAATCAACATAATTTTTTTA
* *
18304416 ATTTCTAT-AATTATTATTAAAATTTTAAAAATATTAAATATAAAACATCCAACAAAACAAATAT
1 ATTTCTATAAATTATTAATAAAATTTTAAAAATATCAAATATAAAACATCCAACAAAACAAATAT
*
18304480 AAATCTTAATACACATCAAACCGAAATTTACCAACAAATCAACATAA
66 AAATCTTAATACACATAAAACCGAAATTTACCAACAAATCAACATAA
18304527 ATCTTACACA
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
118 25 0.26
119 57 0.59
120 15 0.15
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (120 bp):
ATTTCTATAAATTATTAATAAAATTTTAAAAATATCAAATATAAAACATCCAACAAAACAAATAT
AAATCTTAATACACATAAAACCGAAATTTACCAACAAATCAACATAATTTTTTTA
Found at i:18304715 original size:32 final size:33
Alignment explanation
Indices: 18304677--18304758 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
18304667 TAACACAACA
18304677 AAAACTCAACAAATATATAACAAAAAA-CTAAC
1 AAAACTCAACAAATATATAACAAAAAATCTAAC
* * * *
18304709 AAAACTCAACAAATCTATAATAAAAAATTTAAT
1 AAAACTCAACAAATATATAACAAAAAATCTAAC
18304742 AGTAAACTCAACAAATA
1 A--AAACTCAACAAATA
18304759 AACAATAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 25 0.60
33 4 0.10
35 13 0.31
ACGTcount: A:0.62, C:0.16, G:0.01, T:0.21
Consensus pattern (33 bp):
AAAACTCAACAAATATATAACAAAAAATCTAAC
Found at i:18305730 original size:16 final size:17
Alignment explanation
Indices: 18305698--18305731 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18305688 TTGTATTTGT
18305698 TATTTTTAATTAAAATAA
1 TATTTTTAA-TAAAATAA
18305716 TATTTTTAA-AAAATAA
1 TATTTTTAATAAAATAA
18305732 AAATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTTTTAATAAAATAA
Found at i:18306990 original size:18 final size:18
Alignment explanation
Indices: 18306954--18306995 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
18306944 GAAAAACTAA
*
18306954 AAAAATATTTTTTCTCTT
1 AAAAATATTTTTTCACTT
18306972 AAAAATATTATTTT-ACTT
1 AAAAATATT-TTTTCACTT
*
18306990 AGAAAT
1 AAAAAT
18306996 CATAAAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (18 bp):
AAAAATATTTTTTCACTT
Found at i:18307177 original size:18 final size:17
Alignment explanation
Indices: 18307133--18307180 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
18307123 ATTAAAGAAA
*
18307133 AAATTTATTGTTATATTT
1 AAATATATT-TTATATTT
*
18307151 AAA-ATATTTTATTTTT
1 AAATATATTTTATATTT
18307167 CAAATATATTTTAT
1 -AAATATATTTTAT
18307181 GAAGTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 7 0.27
17 7 0.27
18 12 0.46
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
AAATATATTTTATATTT
Found at i:18307347 original size:43 final size:45
Alignment explanation
Indices: 18307273--18307366 Score: 115
Period size: 44 Copynumber: 2.1 Consensus size: 45
18307263 TTAAAAATTG
* * *
18307273 AAAATTAAGTTAAAAAATTTTATACATTTTTAAGAA-A-TAAGTAA
1 AAAATTAAGATAAAAAACTTCATACATTTTTAA-AATATTAAGTAA
18307317 AAAATTAA-ATAAAAAACTTCATATCA-TTTTAAAATATTAAGTAA
1 AAAATTAAGATAAAAAACTTCATA-CATTTTTAAAATATTAAGTAA
18307361 AAAATT
1 AAAATT
18307367 TCATATCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.05
43 19 0.43
44 23 0.52
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (45 bp):
AAAATTAAGATAAAAAACTTCATACATTTTTAAAATATTAAGTAA
Found at i:18307350 original size:32 final size:32
Alignment explanation
Indices: 18307314--18307389 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
18307304 AAGAAATAAG
18307314 TAAAAAATTAAATAAAAAACTTCATATCATTT
1 TAAAAAATTAAATAAAAAACTTCATATCATTT
* * *
18307346 TAAAATATTAAGTAAAAAATTTCATATCATTT
1 TAAAAAATTAAATAAAAAACTTCATATCATTT
*
18307378 TAAGAAA-TAAAT
1 TAAAAAATTAAAT
18307390 TTGTTAATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 4 0.11
32 34 0.89
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.36
Consensus pattern (32 bp):
TAAAAAATTAAATAAAAAACTTCATATCATTT
Found at i:18307649 original size:30 final size:31
Alignment explanation
Indices: 18307615--18307717 Score: 81
Period size: 32 Copynumber: 3.3 Consensus size: 31
18307605 ATAAATCAAT
18307615 TTTTAATAA-CATA-GAAATTTTTAGTT-ATTA
1 TTTTAA-AATCATATGAAATTTTTA-TTAATTA
*
18307645 TTTTAAAATGATATGAAATTTTTATTGAATTA
1 TTTTAAAATCATATGAAATTTTTATT-AATTA
* * *
18307677 TTTTAAACCAAT-ATAT-AAATGTTTACTAATTT
1 TTTT-AA--AATCATATGAAATTTTTATTAATTA
18307709 TTTTAAAAT
1 TTTTAAAAT
18307718 GACAAGGAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
29 5 0.08
30 11 0.18
31 12 0.19
32 16 0.26
33 11 0.18
34 4 0.06
35 3 0.05
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (31 bp):
TTTTAAAATCATATGAAATTTTTATTAATTA
Found at i:18307835 original size:17 final size:15
Alignment explanation
Indices: 18307793--18307837 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
18307783 TTTCTATTAA
18307793 AAATAAAAAATATTT
1 AAATAAAAAATATTT
*
18307808 AACTAACAAAATATGTT
1 AAATAA-AAAATAT-TT
18307825 ACAATAAAAAATA
1 A-AATAAAAAATA
18307838 AAATATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.20
16 7 0.28
17 9 0.36
18 4 0.16
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (15 bp):
AAATAAAAAATATTT
Found at i:18307870 original size:17 final size:17
Alignment explanation
Indices: 18307832--18307873 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
18307822 GTTACAATAA
*
18307832 AAAATAAAATATTATTT
1 AAAATATAATATTATTT
*
18307849 TAAATATAATATT-TTAT
1 AAAATATAATATTATT-T
18307866 AAAATATA
1 AAAATATA
18307874 TATGAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATATAATATTATTT
Found at i:18308112 original size:18 final size:17
Alignment explanation
Indices: 18308091--18308134 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
18308081 TTCTATTAAA
18308091 AATAAAAAATAT-TTA-
1 AATAAAAAATATGTTAC
*
18308106 ACTAATAAAATATGTTAC
1 AATAA-AAAATATGTTAC
18308124 AATAAAAAATA
1 AATAAAAAATA
18308135 AAAATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 9 0.38
18 4 0.17
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (17 bp):
AATAAAAAATATGTTAC
Found at i:18308306 original size:297 final size:297
Alignment explanation
Indices: 18307606--18308498 Score: 1700
Period size: 297 Copynumber: 3.0 Consensus size: 297
18307596 AATAGACTAA
*
18307606 TAAATCAATTTTTAATAACATAGAAATTTTTAGTTATTATTTTAAAATGATATGAAATTTTTATT
1 TAAATCAATTTTTAATAACATAGAAATTTTTACTTATTATTTTAAAATGATATGAAATTTTTATT
* * *
18307671 GAATTATTTTAAACCAATATATAAATGTTTACTAATTTTTTTAAAATGACAAGGAATTTTATCAA
66 GAATTTTTTTAAACCAATATATAAATTTTTAGTAATTTTTTTAAAATGACAAGGAATTTTATCAA
18307736 AACGATTTTGAAAATTTTAAATTAATTTTAATTTTTTCAAAATTTATTTTCTATTAAAAATAAAA
131 AACGATTTTGAAAATTTTAAATTAATTTTAATTTTTTCAAAATTTATTTTCTATTAAAAATAAAA
*
18307801 AATATTTAACTAACAAAATATGTTACAATAAAAAAT-AAAATATTATTTTAAATATAATATTTTA
196 AATATTTAACTAATAAAATATGTTACAATAAAAAATAAAAATATTATTTTAAATATAATATTTTA
18307865 TAAAATATATATGAAATATAAACAAAAATCAAGATAC
261 TAAAATATATATGAAATATAAACAAAAATCAAGATAC
18307902 TAAATCAATTTTTAATAACATAGAAATTTTTACTTATTATTTTAAAATGATATGAAATTTTTATT
1 TAAATCAATTTTTAATAACATAGAAATTTTTACTTATTATTTTAAAATGATATGAAATTTTTATT
18307967 GAATTTTTTTAAACCAATATATAAATTTTTAGTAATTTTTTTTAAAATGACAAGGAATTTTATCA
66 GAATTTTTTTAAACCAATATATAAATTTTTAGTAA-TTTTTTTAAAATGACAAGGAATTTTATCA
18308032 AAACGATTTTGAAAATTTTAAATTAATTTTAATTTTTTCAAAATTTATTTTCTATTAAAAATAAA
130 AAACGATTTTGAAAATTTTAAATTAATTTTAATTTTTTCAAAATTTATTTTCTATTAAAAATAAA
18308097 AAATATTTAACTAATAAAATATGTTACAATAAAAAATAAAAATATTATTTTAAATATAATATTTT
195 AAATATTTAACTAATAAAATATGTTACAATAAAAAATAAAAATATTATTTTAAATATAATATTTT
18308162 ATAAAATATATATGAAATATAAACAAAAATCAAGATAC
260 ATAAAATATATATGAAATATAAACAAAAATCAAGATAC
18308200 TAAATCAATTTTTAATAACATAGAAATTTTTACTTATTATTTTAAAATGATATGAAATTTTTATT
1 TAAATCAATTTTTAATAACATAGAAATTTTTACTTATTATTTTAAAATGATATGAAATTTTTATT
18308265 GAATTTTTTTAAACCAATATATAAATTTTTAGTAATTTTTTTAAAATGACAAGGAATTTTATCAA
66 GAATTTTTTTAAACCAATATATAAATTTTTAGTAATTTTTTTAAAATGACAAGGAATTTTATCAA
18308330 AACGATTTTGAAAATTTTAAATTAATTTTAATTTTTTCAAAATTTATTTTCTATTAAAAATAAAA
131 AACGATTTTGAAAATTTTAAATTAATTTTAATTTTTTCAAAATTTATTTTCTATTAAAAATAAAA
*
18308395 AATATTTAACTAATAAAATATGTTGCAATAAAAAATAAAAATATTATTTTAAATATAATATTTTA
196 AATATTTAACTAATAAAATATGTTACAATAAAAAATAAAAATATTATTTTAAATATAATATTTTA
*
18308460 T-AAATATATATGAAATATAAACAAAAATCGAGATAC
261 TAAAATATATATGAAATATAAACAAAAATCAAGATAC
18308496 TAA
1 TAA
18308499 TTATTAGCTT
Statistics
Matches: 588, Mismatches: 7, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
296 133 0.23
297 290 0.49
298 165 0.28
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (297 bp):
TAAATCAATTTTTAATAACATAGAAATTTTTACTTATTATTTTAAAATGATATGAAATTTTTATT
GAATTTTTTTAAACCAATATATAAATTTTTAGTAATTTTTTTAAAATGACAAGGAATTTTATCAA
AACGATTTTGAAAATTTTAAATTAATTTTAATTTTTTCAAAATTTATTTTCTATTAAAAATAAAA
AATATTTAACTAATAAAATATGTTACAATAAAAAATAAAAATATTATTTTAAATATAATATTTTA
TAAAATATATATGAAATATAAACAAAAATCAAGATAC
Found at i:18308465 original size:16 final size:17
Alignment explanation
Indices: 18308434--18308467 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
18308424 AAAAAATAAA
*
18308434 AATATTATTTTAAATAT
1 AATATTATTATAAATAT
18308451 AATATT-TTATAAATAT
1 AATATTATTATAAATAT
18308467 A
1 A
18308468 TATGAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTATTATAAATAT
Found at i:18320409 original size:21 final size:21
Alignment explanation
Indices: 18320359--18320409 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
18320349 TTCATGAAGG
18320359 GATTGATCTTGTCATTAGGGT
1 GATTGATCTTGTCATTAGGGT
**
18320380 GATCAATCTT-TCATGTAGGGT
1 GATTGATCTTGTCAT-TAGGGT
18320401 GATTGATCT
1 GATTGATCT
18320410 CTTCTTGTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.41
Consensus pattern (21 bp):
GATTGATCTTGTCATTAGGGT
Found at i:18325832 original size:13 final size:13
Alignment explanation
Indices: 18325807--18325849 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
18325797 AAGTAGTATT
*
18325807 TTTATTAAGTTAA
1 TTTATTAAATTAA
*
18325820 TTTCTTAAATTAA
1 TTTATTAAATTAA
*
18325833 GTTATTAAATATAA
1 TTTATTAAAT-TAA
18325847 TTT
1 TTT
18325850 TAATAATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (13 bp):
TTTATTAAATTAA
Found at i:18328181 original size:21 final size:21
Alignment explanation
Indices: 18328155--18328201 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18328145 TTTTTTTATT
* *
18328155 TTTTTAAATATT-TAATAAATA
1 TTTTTAAA-ATTATAAAAAAAA
18328176 TTTTTAAAATTATAAAAAAAA
1 TTTTTAAAATTATAAAAAAAA
18328197 TTTTT
1 TTTTT
18328202 CTTAAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTTAAAATTATAAAAAAAA
Found at i:18329034 original size:16 final size:16
Alignment explanation
Indices: 18329002--18329050 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
18328992 TTTTTATTAT
* *
18329002 TTATTATTTATTAAAA
1 TTATTAATTAATAAAA
*
18329018 TTTTTAATTAATAAAA
1 TTATTAATTAATAAAA
**
18329034 TTATTGTTTAATAAAA
1 TTATTAATTAATAAAA
18329050 T
1 T
18329051 AATTTAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTATTAATTAATAAAA
Found at i:18330527 original size:21 final size:21
Alignment explanation
Indices: 18330486--18330531 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
18330476 TTTTTTACAG
* *
18330486 ATTTATTAAAGTTTTATAAAT
1 ATTTTTTAAAGTTTCATAAAT
18330507 ATTTTTTAAAGATTTCA-AAAT
1 ATTTTTTAAAG-TTTCATAAAT
18330528 -TTTT
1 ATTTT
18330532 AAGGTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 4 0.18
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
ATTTTTTAAAGTTTCATAAAT
Found at i:18330581 original size:20 final size:21
Alignment explanation
Indices: 18330556--18330598 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18330546 TTTACCAATC
18330556 TTTTTTTTT-TC-CTTTTTCT
1 TTTTTTTTTATCACTTTTTCT
*
18330575 TTTTTTTTTATCATTTTTTCT
1 TTTTTTTTTATCACTTTTTCT
18330596 TTT
1 TTT
18330599 CTAAAATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 2 0.10
21 10 0.48
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTATCACTTTTTCT
Found at i:18332227 original size:15 final size:17
Alignment explanation
Indices: 18332197--18332228 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
18332187 AAATTTATAA
18332197 AATTTTGATAATTACAT
1 AATTTTGATAATTACAT
18332214 AATTTT-AT-ATTACAT
1 AATTTTGATAATTACAT
18332229 CATCAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (17 bp):
AATTTTGATAATTACAT
Found at i:18335328 original size:125 final size:124
Alignment explanation
Indices: 18335109--18335352 Score: 400
Period size: 125 Copynumber: 2.0 Consensus size: 124
18335099 TATCTCAATG
* *
18335109 TCACTATGAATAATTGATCCCAAAAATAAAAAATGACTATCTTTTGGTACTACCTCACATCCAAC
1 TCACTATGAATAATTGATCCCAAAAATAAAAAATGACGATCTTTTAGTACTACCTCACATCCAAC
* * *
18335174 TTAATCATATTAGCACTTGCTTTCTTATGACTACAAACTTACATTCTATATATTTAACA
66 TTAATCACATTAGCACTTGCTTTCCTATGACTACAAACTTACATTCCATATATTTAACA
* *
18335233 TCACTATGAATAATTGATCCCAAATATAAAAAATGACGAT-TCTTTAGTACTACCTCACCATTCA
1 TCACTATGAATAATTGATCCCAAAAATAAAAAATGACGATCT-TTTAGTACTACCTCA-CATCCA
18335297 ACTTAATCACATTAGCACTTGCTTTCCTATGACTACAAACTTACATTCCATATATT
64 ACTTAATCACATTAGCACTTGCTTTCCTATGACTACAAACTTACATTCCATATATT
18335353 CAGTTTTATA
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
123 1 0.01
124 52 0.47
125 58 0.52
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (124 bp):
TCACTATGAATAATTGATCCCAAAAATAAAAAATGACGATCTTTTAGTACTACCTCACATCCAAC
TTAATCACATTAGCACTTGCTTTCCTATGACTACAAACTTACATTCCATATATTTAACA
Found at i:18339566 original size:21 final size:21
Alignment explanation
Indices: 18339540--18339586 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
18339530 CTTAATGGTG
18339540 GAGTAAGGATGCTAACACATA
1 GAGTAAGGATGCTAACACATA
*
18339561 GAGTAAGGATGCTGACACATA
1 GAGTAAGGATGCTAACACATA
18339582 G-GTAA
1 GAGTAA
18339587 CAATGAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (21 bp):
GAGTAAGGATGCTAACACATA
Found at i:18343080 original size:85 final size:81
Alignment explanation
Indices: 18342937--18343102 Score: 269
Period size: 85 Copynumber: 2.0 Consensus size: 81
18342927 ATTTACAACC
* * *
18342937 AAAAGGGTGAAAGTAGTTTATGTTGGGCCTTTTACCTTTGAAAAGTTCATATGGAGTTTTTTTTT
1 AAAAGGGTGAAAGTAGTTCATGTTAGGCCTTTTAACTTTGAAAAGTTCATATGGAG----TTTTT
18343002 TTTTTCAAAATTGGTCTAAT
62 TTTTTCAAAATTGGTCTAAT
18343022 AAAAGGGTGAAAGTAGTTCATGTTAGGCCTTTTAACTTTGAAAAGTTCATATGGAGTTTTTTTTT
1 AAAAGGGTGAAAGTAGTTCATGTTAGGCCTTTTAACTTTGAAAAGTTCATATGGAGTTTTTTTTT
18343087 TCAAAATTGGTCTAAT
66 TCAAAATTGGTCTAAT
18343103 TATAGCACTA
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
81 25 0.32
85 53 0.68
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (81 bp):
AAAAGGGTGAAAGTAGTTCATGTTAGGCCTTTTAACTTTGAAAAGTTCATATGGAGTTTTTTTTT
TCAAAATTGGTCTAAT
Found at i:18346113 original size:36 final size:36
Alignment explanation
Indices: 18346061--18346146 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
18346051 ATTATGTGAG
* * * *
18346061 ATTAGAGGTTGTTACCTTAATCTAGAAAGGTAGGGA
1 ATTAGAGGTTGCTACCTTAACCTAAAAAGGTAGAGA
* *
18346097 ATTTGAGGTTGCTACCTTAGCCTAAAAAGGTAGAGA
1 ATTAGAGGTTGCTACCTTAACCTAAAAAGGTAGAGA
18346133 ATTAGAGGTTGCTA
1 ATTAGAGGTTGCTA
18346147 TCTTGAGGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (36 bp):
ATTAGAGGTTGCTACCTTAACCTAAAAAGGTAGAGA
Found at i:18346691 original size:6 final size:6
Alignment explanation
Indices: 18346680--18346746 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
18346670 AAAGCCTAAA
** * * * *
18346680 AATTTT AATTTT GGTTTT AATTTT GATTTT AATCTT AATTTT GATTTGG
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTT-T
**
18346729 GTTTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT
18346747 TGGTCAAAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
6 42 0.91
7 4 0.09
ACGTcount: A:0.24, C:0.01, G:0.10, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:18346699 original size:12 final size:12
Alignment explanation
Indices: 18346681--18346746 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
18346671 AAGCCTAAAA
18346681 ATTTTAATTTTG
1 ATTTTAATTTTG
*
18346693 GTTTTAATTTTG
1 ATTTTAATTTTG
* *
18346705 ATTTTAATCTTA
1 ATTTTAATTTTG
* *
18346717 ATTTTGATTTGGG
1 ATTTTAATTT-TG
* *
18346730 TTTTTAATTTTA
1 ATTTTAATTTTG
18346742 ATTTT
1 ATTTT
18346747 TGGTCAAAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
12 32 0.80
13 8 0.20
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.65
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:18346703 original size:18 final size:18
Alignment explanation
Indices: 18346680--18346746 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
18346670 AAAGCCTAAA
18346680 AATTTTAATTTTGGTTTT
1 AATTTTAATTTTGGTTTT
* ** *
18346698 AATTTTGATTTTAATCTT
1 AATTTTAATTTTGGTTTT
* *
18346716 AATTTTGATTTGGGTTTTT
1 AATTTTAATTTTGG-TTTT
18346735 AATTTTAATTTT
1 AATTTTAATTTT
18346747 TGGTCAAAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 25 0.66
19 13 0.34
ACGTcount: A:0.24, C:0.01, G:0.10, T:0.64
Consensus pattern (18 bp):
AATTTTAATTTTGGTTTT
Found at i:18347830 original size:20 final size:20
Alignment explanation
Indices: 18347793--18347846 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
18347783 TTTTTTTTCT
*
18347793 TTTTCTATTCTT-TTATTATA
1 TTTTCTATT-TTATGATTATA
*
18347813 TTTTCTATTTTATGATTATT
1 TTTTCTATTTTATGATTATA
*
18347833 TTTTGTTATTTTAT
1 TTTT-CTATTTTAT
18347847 TATTTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 19 0.66
21 8 0.28
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTTCTATTTTATGATTATA
Found at i:18348529 original size:18 final size:18
Alignment explanation
Indices: 18348493--18348535 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
18348483 TTAATCTTTG
* *
18348493 TATTCAAAAAAATTAATT
1 TATTTAAAAAAAATAATT
* *
18348511 TTTTTAAAAAAAATGATT
1 TATTTAAAAAAAATAATT
18348529 TATTTAA
1 TATTTAA
18348536 TAAGCTTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TATTTAAAAAAAATAATT
Found at i:18350896 original size:25 final size:24
Alignment explanation
Indices: 18350864--18350920 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
18350854 TTTTGCTAGT
18350864 AACTTCTTCTTCATTTTCCTTTGG
1 AACTTCTTCTTCATTTTCCTTTGG
* * *
18350888 CAACTTCTTTTTCTTTTTCTTTTGG
1 -AACTTCTTCTTCATTTTCCTTTGG
18350913 AAGCTTCT
1 AA-CTTCT
18350921 CCCCCTCCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.12, C:0.23, G:0.09, T:0.56
Consensus pattern (24 bp):
AACTTCTTCTTCATTTTCCTTTGG
Found at i:18352060 original size:14 final size:14
Alignment explanation
Indices: 18352041--18352071 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18352031 TCTTCTTCTC
18352041 TTTCTCTCTTTTTT
1 TTTCTCTCTTTTTT
18352055 TTTCTCTCTTTTTT
1 TTTCTCTCTTTTTT
18352069 TTT
1 TTT
18352072 TAATTGTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTCTCTCTTTTTT
Found at i:18352062 original size:16 final size:15
Alignment explanation
Indices: 18352041--18352072 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18352031 TCTTCTTCTC
18352041 TTTCTCTC-TTTTTT
1 TTTCTCTCTTTTTTT
18352055 TTTCTCTCTTTTTTT
1 TTTCTCTCTTTTTTT
18352070 TTT
1 TTT
18352073 AATTGTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCTCTCTTTTTTT
Found at i:18352066 original size:13 final size:13
Alignment explanation
Indices: 18352023--18352070 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
18352013 AACCCTTGCT
18352023 TTTTCTTTTCT-TC
1 TTTT-TTTTCTCTC
* *
18352036 TTCTCTTTCTCTC
1 TTTTTTTTCTCTC
18352049 TTTTTTTTTCTCTC
1 -TTTTTTTTCTCTC
18352063 TTTTTTTT
1 TTTTTTTT
18352071 TTAATTGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.17
13 13 0.45
14 11 0.38
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTCTCTC
Found at i:18352266 original size:22 final size:22
Alignment explanation
Indices: 18352231--18352284 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
18352221 AGGTTCACCT
* * *
18352231 GGAGGTCTTGAAGATTGTGCCC
1 GGAGGTTTTAAAGATTATGCCC
**
18352253 GGAGGTTTTAAAGATTATGCTT
1 GGAGGTTTTAAAGATTATGCCC
18352275 GGAGGTTTTA
1 GGAGGTTTTA
18352285 GGAATTTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.33, T:0.35
Consensus pattern (22 bp):
GGAGGTTTTAAAGATTATGCCC
Done.