Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 41 of 226
Found at i:14074039 original size:26 final size:26
Alignment explanation
Indices: 14074009--14074063 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
14073999 TCTTTTGAGC
14074009 TTCTTTTTAACCCTTATGGGTTTTCG
1 TTCTTTTTAACCCTTATGGGTTTTCG
14074035 TTCTTTTTAACCCTTATGGGTTTTCG
1 TTCTTTTTAACCCTTATGGGTTTTCG
14074061 TTC
1 TTC
14074064 AGCTCCTACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.11, C:0.20, G:0.15, T:0.55
Consensus pattern (26 bp):
TTCTTTTTAACCCTTATGGGTTTTCG
Found at i:14077226 original size:20 final size:21
Alignment explanation
Indices: 14077182--14077226 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
14077172 TTAAAATACT
* *
14077182 TTTAAAATAATTTTTTTTATT
1 TTTAAAATAATTTTTTTAATG
14077203 TTTAAAATAA-TTTTTTAATG
1 TTTAAAATAATTTTTTTAATG
14077223 TTTA
1 TTTA
14077227 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTAAAATAATTTTTTTAATG
Found at i:14097572 original size:17 final size:17
Alignment explanation
Indices: 14097550--14097582 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14097540 TTTAATATAT
14097550 AATA-TTTATTGTTTAAA
1 AATATTTTATT-TTTAAA
14097567 AATATTTTATTTTTAA
1 AATATTTTATTTTTAA
14097583 TTGTAGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
AATATTTTATTTTTAAA
Found at i:14097796 original size:19 final size:21
Alignment explanation
Indices: 14097761--14097800 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
14097751 TTTAAAAAAT
14097761 TTAATTTTAATTTTAATATTA
1 TTAATTTTAATTTTAATATTA
14097782 TTAA-TTTAA-TTTAATATTA
1 TTAATTTTAATTTTAATATTA
14097801 ATATTAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 5 0.26
21 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATTTTAATTTTAATATTA
Found at i:14097801 original size:25 final size:26
Alignment explanation
Indices: 14097758--14097806 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
14097748 TTTTTTAAAA
*
14097758 AATTTAATTTTAATTTTAATATTATT
1 AATTTAATTTTAATATTAATATTATT
14097784 AATTTAA-TTTAATATTAATATTA
1 AATTTAATTTTAATATTAATATTA
14097807 ATGTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTTAATTTTAATATTAATATTATT
Found at i:14097864 original size:26 final size:26
Alignment explanation
Indices: 14097818--14097867 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14097808 TGTAAAATTC
14097818 AAATATATTATTATATATATATTTGA
1 AAATATATTATTATATATATATTTGA
* *
14097844 AAATAT-TTATGTATTTTTATATTT
1 AAATATATTAT-TATATATATATTT
14097868 TTATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
AAATATATTATTATATATATATTTGA
Found at i:14099464 original size:24 final size:24
Alignment explanation
Indices: 14099437--14099488 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14099427 TTAGTAAGTC
*
14099437 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14099461 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14099485 AAAT
1 AAAT
14099489 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14101439 original size:24 final size:24
Alignment explanation
Indices: 14101412--14101463 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14101402 TTAGTAAGTC
*
14101412 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14101436 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14101460 AAAT
1 AAAT
14101464 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14103438 original size:10 final size:10
Alignment explanation
Indices: 14103420--14103449 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14103410 AGAGGTAAAA
14103420 AAACAAATTT
1 AAACAAATTT
*
14103430 AACCAAATTT
1 AAACAAATTT
14103440 AAACAAATTT
1 AAACAAATTT
14103450 TTAACATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (10 bp):
AAACAAATTT
Found at i:14115903 original size:15 final size:16
Alignment explanation
Indices: 14115877--14115906 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14115867 CTTAAAAGTT
14115877 TAAAAAATTTTAAAAA
1 TAAAAAATTTTAAAAA
14115893 TAAAAAA-TTTAAAA
1 TAAAAAATTTTAAAA
14115907 GTTTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAAAATTTTAAAAA
Found at i:14116034 original size:17 final size:17
Alignment explanation
Indices: 14116008--14116049 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
14115998 ATTTATTTAT
*
14116008 TAAAATAATACTTTT-A
1 TAAAAAAATACTTTTCA
*
14116024 TAAATAAAATATTTTTCA
1 TAAA-AAAATACTTTTCA
14116042 TAAAAAAA
1 TAAAAAAA
14116050 CCCAAAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAAAATACTTTTCA
Found at i:14116619 original size:19 final size:20
Alignment explanation
Indices: 14116586--14116626 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
14116576 TATTTATAAA
**
14116586 TATTTTATATTTA-TTTATT
1 TATTTTATAAATATTTTATT
14116605 TATTTTATAAATATTTTATT
1 TATTTTATAAATATTTTATT
14116625 TA
1 TA
14116627 ACAGAGGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTATAAATATTTTATT
Found at i:14116626 original size:15 final size:15
Alignment explanation
Indices: 14116574--14116626 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
14116564 ATGATATTTA
14116574 TTTATTTATAAATAT
1 TTTATTTATAAATAT
**
14116589 TTTATATT-TATTTA-
1 TTTAT-TTATAAATAT
14116603 TTTATTTTATAAATAT
1 TTTA-TTTATAAATAT
14116619 TTTATTTA
1 TTTATTTA
14116627 ACAGAGGAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 6 0.20
15 18 0.60
16 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATTTATAAATAT
Found at i:14119230 original size:19 final size:20
Alignment explanation
Indices: 14119206--14119257 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
14119196 GTTTTCCTAC
*
14119206 AAAAATAAAATAA-AATAGT
1 AAAAATAAAATAATAATAGG
14119225 AAAAATAAATAATAATAATAGG
1 AAAAAT-AA-AATAATAATAGG
*
14119247 AAAATTAAAAT
1 AAAAATAAAAT
14119258 TTTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 5 0.18
21 7 0.25
22 10 0.36
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATAAAATAATAATAGG
Found at i:14128089 original size:19 final size:19
Alignment explanation
Indices: 14128047--14128097 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
14128037 TTAGGGTTGA
* *
14128047 GTGATTTTGGGTTTAGGTT
1 GTGATTTGGGGTTTAGATT
14128066 GTGATTTGGGGTTTATGATT
1 GTGATTTGGGGTTTA-GATT
14128086 -TGATTTAGGGGT
1 GTGATTT-GGGGT
14128098 GGTAGTGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (19 bp):
GTGATTTGGGGTTTAGATT
Found at i:14129386 original size:19 final size:21
Alignment explanation
Indices: 14129330--14129391 Score: 56
Period size: 24 Copynumber: 2.9 Consensus size: 21
14129320 TCTACGAATC
*
14129330 ATATCTCTAAGATTACATTTATT
1 ATATCTCTAAGATTACA--TAGT
*
14129353 ATATCTTCTACGATTACA-AGT
1 ATATC-TCTAAGATTACATAGT
*
14129374 -TATCTCTAAGATTGCATA
1 ATATCTCTAAGATTACATA
14129392 TATTTCACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
19 10 0.30
20 5 0.15
21 2 0.06
23 5 0.15
24 11 0.33
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (21 bp):
ATATCTCTAAGATTACATAGT
Found at i:14131467 original size:23 final size:23
Alignment explanation
Indices: 14131437--14131484 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
14131427 CCACCACAGT
14131437 GATGTTTACAAATATTAGCTCAC
1 GATGTTTACAAATATTAGCTCAC
14131460 GATGTTTACAAATATTAGCTCAC
1 GATGTTTACAAATATTAGCTCAC
14131483 GA
1 GA
14131485 CTCGTCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (23 bp):
GATGTTTACAAATATTAGCTCAC
Found at i:14134423 original size:109 final size:109
Alignment explanation
Indices: 14134232--14134679 Score: 756
Period size: 109 Copynumber: 4.1 Consensus size: 109
14134222 TACGCATACT
* * *
14134232 AATATCCTTTTAAAAATCTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCC
14134297 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
14134341 AATATCCTTTTAAAAATTTCAAAATAAGGCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCT
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCC
*
14134406 CTAATGTGCCGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
** *
14134450 AATATCCTTTTAAAAATTTCAAAATAAGATAATGTTTTGCGTTTAAAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCC
*
14134515 CTAATGTGCTGGGTTACGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* * *
14134559 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTACGTTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCC
14134624 CTAATGTGCTGGGTTTCGA--TTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
14134666 AATATCCTCTTAAA
1 AATATCCTTTTAAA
14134680 TCTTAATCCA
Statistics
Matches: 318, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
107 36 0.11
109 282 0.89
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:14147156 original size:21 final size:20
Alignment explanation
Indices: 14147108--14147158 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
14147098 GAATTTTATA
14147108 AAAATTTTTATATATTCTTT
1 AAAATTTTTATATATTCTTT
*** *
14147128 AGTTTTTTTAGTATATTTTTT
1 AAAATTTTTA-TATATTCTTT
14147149 AAAATTTTTA
1 AAAATTTTTA
14147159 AAAAATATAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
AAAATTTTTATATATTCTTT
Found at i:14147185 original size:18 final size:18
Alignment explanation
Indices: 14147164--14147202 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14147154 TTTTAAAAAA
*
14147164 TATAAATTTTGAAAGTTT
1 TATAAATATTGAAAGTTT
* *
14147182 TATAAATATTGTAATTTT
1 TATAAATATTGAAAGTTT
14147200 TAT
1 TAT
14147203 TGAGAGAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
TATAAATATTGAAAGTTT
Found at i:14152014 original size:45 final size:45
Alignment explanation
Indices: 14151955--14152045 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
14151945 GTAATAAATG
14151955 ATACTAATGTGTTAATAGAGCCCGGATGAACGTAGGATAAGATAC
1 ATACTAATGTGTTAATAGAGCCCGGATGAACGTAGGATAAGATAC
14152000 ATACTAATGTGTTAATAGAGCCCGGATGAACGTAGGATAAGATAC
1 ATACTAATGTGTTAATAGAGCCCGGATGAACGTAGGATAAGATAC
14152045 A
1 A
14152046 ATTGGCATGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (45 bp):
ATACTAATGTGTTAATAGAGCCCGGATGAACGTAGGATAAGATAC
Found at i:14152343 original size:34 final size:34
Alignment explanation
Indices: 14152271--14152346 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
14152261 CTTTGTGTGG
* **
14152271 TGTAGTTATCGCTCTGTCGAGTTATTTGGTGTGG
1 TGTAGTTATCGCTCTGTCGAATTATTTGGTGTAA
14152305 TGTAGTTATCGCTCTGTC-AATCTATCTT-GTGTAA
1 TGTAGTTATCGCTCTGTCGAAT-TAT-TTGGTGTAA
14152339 TGTAGTTA
1 TGTAGTTA
14152347 CCTGTGTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 2 0.05
34 33 0.89
35 2 0.05
ACGTcount: A:0.17, C:0.13, G:0.25, T:0.45
Consensus pattern (34 bp):
TGTAGTTATCGCTCTGTCGAATTATTTGGTGTAA
Found at i:14153143 original size:15 final size:17
Alignment explanation
Indices: 14153111--14153144 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14153101 TTAAACTTAT
14153111 AGATGGTTATATTGGTA
1 AGATGGTTATATTGGTA
14153128 AGATGGTTA-A-TGGTA
1 AGATGGTTATATTGGTA
14153143 AG
1 AG
14153145 TGATAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (17 bp):
AGATGGTTATATTGGTA
Found at i:14156513 original size:31 final size:29
Alignment explanation
Indices: 14156478--14156555 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
14156468 TTAATAGCTC
*
14156478 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* * ***
14156509 AGTGACAAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
*
14156538 AGTGACTAAAATATAACA
1 AGTGACTAAAATGTAACA
14156556 TAAGGTAAAC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:14156656 original size:31 final size:31
Alignment explanation
Indices: 14156621--14156685 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
14156611 ATTTTATTTT
* *
14156621 AAAAGACGAAAC-TAACCTTATGTACTTAAGA
1 AAAAGACCAAACTTAACCATATGTACTTAA-A
* *
14156652 AAAAGACCAAGCTTAACCATATTTACTTAAA
1 AAAAGACCAAACTTAACCATATGTACTTAAA
14156683 AAA
1 AAA
14156686 TTAAGAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (31 bp):
AAAAGACCAAACTTAACCATATGTACTTAAA
Found at i:14160244 original size:16 final size:16
Alignment explanation
Indices: 14160222--14160260 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
14160212 CCAATTTAAG
14160222 ATTTAATTTAT-ACATA
1 ATTTAATTT-TGACATA
*
14160238 TTTTAATTTTGACATA
1 ATTTAATTTTGACATA
14160254 ATTTAAT
1 ATTTAAT
14160261 ATTTCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTAATTTTGACATA
Found at i:14160526 original size:30 final size:30
Alignment explanation
Indices: 14160469--14160526 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14160459 TACAAATGAA
* **
14160469 TCTAAATTTTTAAATTTGAAAATTAAAAAG
1 TCTAAATTCTTAAAAGTGAAAATTAAAAAG
14160499 TCTAAATTCTTAAAAGT-AAAATATAAAA
1 TCTAAATTCTTAAAAGTGAAAAT-TAAAA
14160527 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (30 bp):
TCTAAATTCTTAAAAGTGAAAATTAAAAAG
Found at i:14161566 original size:43 final size:43
Alignment explanation
Indices: 14161506--14161595 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
14161496 ATGCGGGGAC
*
14161506 ACACGCTCGTGTGGCCAGGCCGTGTGACTCACACGGTCAAAAG
1 ACACACTCGTGTGGCCAGGCCGTGTGACTCACACGGTCAAAAG
* *
14161549 ACACACTCGTGTGGCCAGGTCGTGTGACTCACACGGTCAAGAG
1 ACACACTCGTGTGGCCAGGCCGTGTGACTCACACGGTCAAAAG
14161592 ACAC
1 ACAC
14161596 GCCCATGTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.24, C:0.30, G:0.29, T:0.17
Consensus pattern (43 bp):
ACACACTCGTGTGGCCAGGCCGTGTGACTCACACGGTCAAAAG
Found at i:14163950 original size:41 final size:41
Alignment explanation
Indices: 14163848--14163953 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
14163838 ACTAGCAATT
* * *
14163848 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
14163889 AGCCTACTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
14163930 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
14163954 TTATCTCATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:14168996 original size:71 final size:70
Alignment explanation
Indices: 14168870--14169005 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 70
14168860 CTTAACACCG
* *
14168870 AATGTATATTCACTATAAACATGAATAGCCGAATGCTTATATACATATATGCTTAACAGATATTA
1 AATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATA-GCTTAACAAATATTA
14168935 GCTCTA
65 GCTCTA
* *
14168941 AATGTATATACACTTTGAACATGAATAGCCGAATGCATATATATACATATA-CTTAACAAATATT
1 AATGTATATACACTATAAACATGAATAGCCGAATGC-T-TATATACATATAGCTTAACAAATATT
14169005 A
64 A
14169006 TAACCAAATG
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
71 46 0.78
72 1 0.02
73 12 0.20
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (70 bp):
AATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATAGCTTAACAAATATTAG
CTCTA
Found at i:14169015 original size:71 final size:70
Alignment explanation
Indices: 14168870--14169021 Score: 198
Period size: 71 Copynumber: 2.1 Consensus size: 70
14168860 CTTAACACCG
* *
14168870 AATGTATATTCACTATAAACATGAATAGCCGAATGCTTATATACATATATGCTTAACAGATATTA
1 AATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATA-GCTTAACAAATATTA
** *
14168935 GCTCTA
65 GAACCA
* *
14168941 AATGTATATACACTTTGAACATGAATAGCCGAATGCATATATATACATATA-CTTAACAAATATT
1 AATGTATATACACTATAAACATGAATAGCCGAATGC-T-TATATACATATAGCTTAACAAATATT
*
14169005 ATAACCA
64 AGAACCA
14169012 AATGTATATA
1 AATGTATATA
14169022 TGTATTTATC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
71 58 0.82
72 1 0.01
73 12 0.17
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (70 bp):
AATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATAGCTTAACAAATATTAG
AACCA
Found at i:14169076 original size:35 final size:35
Alignment explanation
Indices: 14169004--14169083 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
14168994 TAACAAATAT
* * * *
14169004 TATAACCAAATGTATATATGTATTTATCACCTGCA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
* **
14169039 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
*
14169074 TATAATCAAA
1 TATAACCAAA
14169084 CCTATACAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTACTTAACACCTACA
Found at i:14169507 original size:41 final size:41
Alignment explanation
Indices: 14169472--14169659 Score: 229
Period size: 41 Copynumber: 4.6 Consensus size: 41
14169462 ACCGGCAATT
* *
14169472 AGCCAGTTAGACGTAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCAGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* * *
14169513 AGCCTGCTAGACATAAAGTCTGAAACATTTCACCTGCATCA
1 AGCCAGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* * * *
14169554 AGCCTGCTAGACATAAAGT-TCGAAATATTTCTCCGGCATCA
1 AGCCAGCTAGACGTAAAGTCT-GAAACATTTCACCGGCATCA
* *
14169595 AG-CATGCTAGATGTAAAGTCTGAAACATTTCACCAGCATCA
1 AGCCA-GCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
14169636 AGCCTA-CTAGACGTAAAGTCTGAA
1 AGCC-AGCTAGACGTAAAGTCTGAA
14169660 TCATCTTACT
Statistics
Matches: 127, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
40 2 0.02
41 122 0.96
42 2 0.02
43 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (41 bp):
AGCCAGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:14169579 original size:82 final size:83
Alignment explanation
Indices: 14169479--14169659 Score: 278
Period size: 82 Copynumber: 2.2 Consensus size: 83
14169469 ATTAGCCAGT
*
14169479 TAGACGTAAAG-TCTGAAATATTTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTT
1 TAGACGTAAAGTTCTGAAATATTTCACCGGCATCAAGCATGCTAGACATAAAGTCTGAAACATTT
* *
14169543 CACCTGCATCAAGCCTGC
66 CACCAGCATCAAGCCTAC
* * **
14169561 TAGACATAAAGTTC-GAAATATTTCTCCGGCATCAAGCATGCTAGATGTAAAGTCTGAAACATTT
1 TAGACGTAAAGTTCTGAAATATTTCACCGGCATCAAGCATGCTAGACATAAAGTCTGAAACATTT
14169625 CACCAGCATCAAGCCTAC
66 CACCAGCATCAAGCCTAC
14169643 TAGACGTAAAG-TCTGAA
1 TAGACGTAAAGTTCTGAA
14169660 TCATCTTACT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 2 0.02
82 85 0.96
83 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (83 bp):
TAGACGTAAAGTTCTGAAATATTTCACCGGCATCAAGCATGCTAGACATAAAGTCTGAAACATTT
CACCAGCATCAAGCCTAC
Found at i:14176490 original size:25 final size:25
Alignment explanation
Indices: 14176417--14176555 Score: 138
Period size: 25 Copynumber: 5.6 Consensus size: 25
14176407 ATTCATATAT
* *
14176417 GCTCATACGAGTTGTA-AACGGGAA
1 GCTCATGCGAGCTGTATAACGGGAA
** *
14176441 GCTC-TGCCGAGCTAAATATCGGGAA
1 GCTCATG-CGAGCTGTATAACGGGAA
*
14176466 GCTCATGCGAGCTGTATAACAGGAA
1 GCTCATGCGAGCTGTATAACGGGAA
* * *
14176491 GCTCATGCGAGTTGTATAACAGAAA
1 GCTCATGCGAGCTGTATAACGGGAA
** *
14176516 GCTCATGCGAGCTAAATAATGGGAA
1 GCTCATGCGAGCTGTATAACGGGAA
*
14176541 GCTCATGAGAGCTGT
1 GCTCATGCGAGCTGT
14176556 GGTGTGTCTG
Statistics
Matches: 92, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
23 1 0.01
24 10 0.11
25 79 0.86
26 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.22
Consensus pattern (25 bp):
GCTCATGCGAGCTGTATAACGGGAA
Found at i:14176540 original size:75 final size:74
Alignment explanation
Indices: 14176417--14176555 Score: 201
Period size: 75 Copynumber: 1.9 Consensus size: 74
14176407 ATTCATATAT
* * *
14176417 GCTCATACGAGTTGTAAACGGGAAGCTCTGCCGAGCTAAATATCGGGAAGCTCATGCGAGCTGTA
1 GCTCATACGAGTTGTAAACAGAAAGCTCTGCCGAGCTAAATATCGGGAAGCTCATGAGAGCTGTA
14176482 TAACAGGAA
66 TAACAGGAA
*
14176491 GCTCATGCGAGTTGTATAACAGAAAGCTCATG-CGAGCTAAATAAT-GGGAAGCTCATGAGAGCT
1 GCTCATACGAGTTGTA-AACAGAAAGCTC-TGCCGAGCTAAAT-ATCGGGAAGCTCATGAGAGCT
14176554 GT
63 GT
14176556 GGTGTGTCTG
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
74 15 0.26
75 39 0.67
76 4 0.07
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.22
Consensus pattern (74 bp):
GCTCATACGAGTTGTAAACAGAAAGCTCTGCCGAGCTAAATATCGGGAAGCTCATGAGAGCTGTA
TAACAGGAA
Found at i:14182692 original size:24 final size:24
Alignment explanation
Indices: 14182665--14182721 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
14182655 AAGCCTAATT
*
14182665 CTAATCAATATAAAATATATTATG
1 CTAATAAATATAAAATATATTATG
* * *
14182689 CTAATAAATGTTAAATATATTATA
1 CTAATAAATATAAAATATATTATG
*
14182713 CTACTAAAT
1 CTAATAAAT
14182722 CTTCTAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.39
Consensus pattern (24 bp):
CTAATAAATATAAAATATATTATG
Found at i:14182786 original size:35 final size:35
Alignment explanation
Indices: 14182740--14182808 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
14182730 AAGAAAATAT
14182740 ATTTTGTTTAACTT-AGCTTGCAAGCAATCTCTTAG
1 ATTTTGTTTAACTTGA-CTTGCAAGCAATCTCTTAG
14182775 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTA
1 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTA
14182809 AAATTTGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (35 bp):
ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
Found at i:14192781 original size:17 final size:17
Alignment explanation
Indices: 14192759--14192806 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
14192749 TAATTAAATT
*
14192759 AATTATAAATTTTAAAA
1 AATTATAAATTATAAAA
*
14192776 AATTATAAATTATAAATT
1 AATTATAAATTATAAA-A
*
14192794 ATTTATAAATTAT
1 AATTATAAATTAT
14192807 TTATTAAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTATAAATTATAAAA
Found at i:14192812 original size:18 final size:18
Alignment explanation
Indices: 14192753--14192806 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
14192743 GTTTCTTAAT
* *
14192753 TAAATTAATTATAAATTT
1 TAAATTATTTATAAATTA
* *
14192771 TAAA-AAATTATAAATTA
1 TAAATTATTTATAAATTA
14192788 TAAATTATTTATAAATTA
1 TAAATTATTTATAAATTA
14192806 T
1 T
14192807 TTATTAAGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATTATTTATAAATTA
Found at i:14192920 original size:19 final size:19
Alignment explanation
Indices: 14192896--14192932 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14192886 CTTCTACAGT
14192896 TTAAAATATATATTAAATA
1 TTAAAATATATATTAAATA
*
14192915 TTAAAATATATGTTAAAT
1 TTAAAATATATATTAAAT
14192933 TCCATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TTAAAATATATATTAAATA
Found at i:14194113 original size:15 final size:14
Alignment explanation
Indices: 14194094--14194147 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
14194084 ACAACTTTTT
14194094 TTTTAAAACACGAA
1 TTTTAAAACACGAA
*
14194108 TTTTTAAAATACAAGAA
1 -TTTT-AAA-ACACGAA
14194125 TTTTAGAAACACGAA
1 TTTTA-AAACACGAA
14194140 TTTTAAAA
1 TTTTAAAA
14194148 AAAACATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 3 0.09
15 16 0.47
16 9 0.26
17 6 0.18
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.33
Consensus pattern (14 bp):
TTTTAAAACACGAA
Found at i:14194125 original size:17 final size:16
Alignment explanation
Indices: 14194092--14194148 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
14194082 CAACAACTTT
* *
14194092 TTTTTTAAAACACGAA
1 TTTTTAAAAACAAGAA
14194108 TTTTTAAAATACAAGAA
1 TTTTTAAAA-ACAAGAA
* *
14194125 -TTTTAGAAACACGAA
1 TTTTTAAAAACAAGAA
14194140 -TTTTAAAAA
1 TTTTTAAAAA
14194149 AAACATGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 14 0.40
16 15 0.43
17 6 0.17
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (16 bp):
TTTTTAAAAACAAGAA
Found at i:14194510 original size:16 final size:16
Alignment explanation
Indices: 14194489--14194534 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14194479 TATTAAAATT
14194489 AATTAAAATAAAATAA
1 AATTAAAATAAAATAA
** *
14194505 AATTAAAATGGAATTA
1 AATTAAAATAAAATAA
14194521 AATTAAAGATAAAA
1 AATTAAA-ATAAAA
14194535 ATATAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (16 bp):
AATTAAAATAAAATAA
Found at i:14194688 original size:7 final size:7
Alignment explanation
Indices: 14194676--14194746 Score: 58
Period size: 7 Copynumber: 9.9 Consensus size: 7
14194666 GAATTGAACC
14194676 TCTTTTT
1 TCTTTTT
14194683 TCTTTTTT
1 TC-TTTTT
14194691 TCTTTTT
1 TCTTTTT
14194698 TCTTTTT
1 TCTTTTT
14194705 TCTCCTTTT
1 TCT--TTTT
* *
14194714 TC-CTTC
1 TCTTTTT
14194720 TC-TTTT
1 TCTTTTT
14194726 TCTTCTTTT
1 TC-T-TTTT
14194735 TCTTTTT
1 TCTTTTT
14194742 T-TTTT
1 TCTTTT
14194747 CTCTGCTGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
6 12 0.22
7 22 0.41
8 8 0.15
9 12 0.22
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TCTTTTT
Found at i:14194696 original size:15 final size:15
Alignment explanation
Indices: 14194676--14194746 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
14194666 GAATTGAACC
14194676 TCTTTTTTCTTTTTT
1 TCTTTTTTCTTTTTT
14194691 TCTTTTTTCTTTTTT
1 TCTTTTTTCTTTTTT
* * *
14194706 CTCCTTTTTC--CTTC
1 -TCTTTTTTCTTTTTT
14194720 TC-TTTTTCTTCTTTT
1 TCTTTTTTCTT-TTTT
14194735 TCTTTTTT-TTTT
1 TCTTTTTTCTTTT
14194747 CTCTGCTGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
12 6 0.13
13 2 0.04
14 4 0.09
15 21 0.46
16 13 0.28
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TCTTTTTTCTTTTTT
Found at i:14194697 original size:9 final size:9
Alignment explanation
Indices: 14194678--14194744 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
14194668 ATTGAACCTC
14194678 TTTTTTC-T
1 TTTTTTCTT
14194686 TTTTTTC--
1 TTTTTTCTT
14194693 TTTTTTCTT
1 TTTTTTCTT
*
14194702 TTTTCTCCTT
1 TTTT-TTCTT
*
14194712 TTTCCTTC-T
1 TTT-TTTCTT
*
14194721 CTTTTTCTT
1 TTTTTTCTT
*
14194730 CTTTTTCTT
1 TTTTTTCTT
14194739 TTTTTT
1 TTTTTT
14194745 TTCTCTGCTG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
7 7 0.15
8 10 0.21
9 22 0.46
10 9 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:14194720 original size:20 final size:20
Alignment explanation
Indices: 14194697--14194749 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
14194687 TTTTTCTTTT
14194697 TTCTTTTTTCTCCTTTTTCC
1 TTCTTTTTTCTCCTTTTTCC
* *
14194717 TTCTCTTTTTCTTCTTTTTCT
1 TTCT-TTTTTCTCCTTTTTCC
*
14194738 TTTTTTTTTCTC
1 TTCTTTTTTCTC
14194750 TGCTGGGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (20 bp):
TTCTTTTTTCTCCTTTTTCC
Found at i:14194748 original size:28 final size:28
Alignment explanation
Indices: 14194685--14194750 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
14194675 CTCTTTTTTC
14194685 TTTTTTTCT-TTTTTCTTTTTTCTCCTT
1 TTTTTTTCTCTTTTTCTTTTTTCTCCTT
** *
14194712 TTTCCTTCTCTTTTTCTTCTTTT-TCTTT
1 TTTTTTTCTCTTTTTCTT-TTTTCTCCTT
14194740 TTTTTTTCTCT
1 TTTTTTTCTCT
14194751 GCTGGGCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 7 0.22
28 21 0.66
29 4 0.12
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTTTTTCTCTTTTTCTTTTTTCTCCTT
Found at i:14194920 original size:17 final size:16
Alignment explanation
Indices: 14194900--14194950 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
14194890 GGCTTGTTTC
14194900 TTTTCTCTTTTTTTTTG
1 TTTT-TCTTTTTTTTTG
*
14194917 TTTTTGTTTTTGTTTTG
1 TTTTTCTTTTT-TTTTG
*
14194934 TTTTGTTTTTTTTTTTG
1 TTTT-TCTTTTTTTTTG
14194951 GGCTACTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 6 0.20
17 18 0.60
18 6 0.20
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTG
Found at i:14194922 original size:6 final size:6
Alignment explanation
Indices: 14194907--14194950 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
14194897 TTCTTTTCTC
*
14194907 TTTT-T TTTTGT TTTTGT TTTTG- TTTTG- TTTTGT TTTTTT TTTTG
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTG
14194951 GGCTACTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
5 14 0.40
6 21 0.60
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:14194937 original size:22 final size:22
Alignment explanation
Indices: 14194907--14194950 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14194897 TTCTTTTCTC
*
14194907 TTTTTTTTTGTTTTTGTTTTTG
1 TTTTGTTTTGTTTTTGTTTTTG
*
14194929 TTTTGTTTTGTTTTTTTTTTTG
1 TTTTGTTTTGTTTTTGTTTTTG
14194951 GGCTACTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (22 bp):
TTTTGTTTTGTTTTTGTTTTTG
Found at i:14194948 original size:16 final size:17
Alignment explanation
Indices: 14194907--14194948 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
14194897 TTCTTTTCTC
14194907 TTTTTTTTTGTTTTTGT
1 TTTTTTTTTGTTTTTGT
*
14194924 TTTTGTTTTG-TTTTGT
1 TTTTTTTTTGTTTTTGT
14194940 TTTTTTTTT
1 TTTTTTTTT
14194949 TGGGCTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTGT
Found at i:14195034 original size:8 final size:8
Alignment explanation
Indices: 14195013--14195071 Score: 63
Period size: 8 Copynumber: 7.6 Consensus size: 8
14195003 GTTATAATAC
*
14195013 TTTTTTAT
1 TTTTTTCT
14195021 TATTTTT-T
1 T-TTTTTCT
14195029 TCTTTTTC-
1 T-TTTTTCT
14195037 TTTTTTC-
1 TTTTTTCT
14195044 TTTTTTC-
1 TTTTTTCT
14195051 TTTTTTCT
1 TTTTTTCT
14195059 TTTTTTCT
1 TTTTTTCT
14195067 TTTTT
1 TTTTT
14195072 CTTCTTCTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
7 20 0.43
8 22 0.47
9 5 0.11
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTCT
Found at i:14195041 original size:7 final size:7
Alignment explanation
Indices: 14195024--14195074 Score: 86
Period size: 7 Copynumber: 7.3 Consensus size: 7
14195014 TTTTTATTAT
14195024 TTTTTTC
1 TTTTTTC
14195031 -TTTTTC
1 TTTTTTC
14195037 TTTTTTC
1 TTTTTTC
14195044 TTTTTTC
1 TTTTTTC
14195051 TTTTTTC
1 TTTTTTC
14195058 TTTTTTTC
1 -TTTTTTC
14195066 TTTTTTC
1 TTTTTTC
14195073 TT
1 TT
14195075 CTTCTTCTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.14
7 29 0.69
8 7 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:14195049 original size:15 final size:15
Alignment explanation
Indices: 14195031--14195074 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
14195021 TATTTTTTTC
14195031 TTTTTCTTTTTTC-T
1 TTTTTCTTTTTTCTT
14195045 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
14195060 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
14195075 CTTCTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:14195049 original size:21 final size:21
Alignment explanation
Indices: 14195023--14195098 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 21
14195013 TTTTTTATTA
14195023 TTTTTTTCTTTTTCTTTTTTC
1 TTTTTTTCTTTTTCTTTTTTC
14195044 -TTTTTTCTTTTTTCTTTTTT-
1 TTTTTTTC-TTTTTCTTTTTTC
*
14195064 TCTTTTTTCTTCTTCTTCTTCTTC
1 T-TTTTTTCTTTTTCTT-TT-TTC
*
14195088 TTATTCTTCTT
1 TT-TTTTTCTT
14195099 CAAAACCCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 7 0.15
21 19 0.41
22 9 0.20
23 3 0.07
24 8 0.17
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTTTTCTTTTTTC
Found at i:14195076 original size:3 final size:3
Alignment explanation
Indices: 14195028--14195099 Score: 54
Period size: 3 Copynumber: 27.0 Consensus size: 3
14195018 TATTATTTTT
* *
14195028 TTC TTT TTC TT- TT- TTC TT- TT- TTC TT- TT- TTC TT- TTT TTC TT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
14195068 TT- TTC TTC TTC TTC TTC TTC TTA TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
14195100 AAAACCCTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
2 18 0.31
3 41 0.69
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (3 bp):
TTC
Found at i:14195088 original size:15 final size:15
Alignment explanation
Indices: 14195028--14195099 Score: 54
Period size: 13 Copynumber: 5.4 Consensus size: 15
14195018 TATTATTTTT
*
14195028 TTCTTTTTCTT-TT-
1 TTCTTCTTCTTCTTC
14195041 TTCTT-TT-TTCTT-
1 TTCTTCTTCTTCTTC
*
14195053 TT-TTCTT-TTTTTC
1 TTCTTCTTCTTCTTC
14195066 TT-TT-TTCTTCTTC
1 TTCTTCTTCTTCTTC
*
14195079 TTCTTCTTCTTATTC
1 TTCTTCTTCTTCTTC
14195094 TTCTTC
1 TTCTTC
14195100 AAAACCCTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
11 4 0.08
12 14 0.28
13 16 0.32
14 2 0.04
15 14 0.28
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTCTTCTTCTTC
Found at i:14195442 original size:29 final size:29
Alignment explanation
Indices: 14195426--14195530 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
14195416 AGAAAATTTA
14195426 GGGTAAAAATGTAATTTTAAAAAGGTTAT
1 GGGTAAAAATGTAATTTTAAAAAGGTTAT
* * *
14195455 GGGTTAAAATGTAA-TTTCAAAAGGTTTAG
1 GGGTAAAAATGTAATTTTAAAAAGG-TTAT
* * * * *
14195484 GGGTCAAAATATAATTTCAAAAAGTTTAG
1 GGGTAAAAATGTAATTTTAAAAAGGTTAT
* *
14195513 GGGTCAAAATGTATTTTT
1 GGGTAAAAATGTAATTTT
14195531 TGATTTTTTA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 9 0.14
29 47 0.75
30 7 0.11
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTAAAAAGGTTAT
Found at i:14195977 original size:165 final size:161
Alignment explanation
Indices: 14195696--14196610 Score: 1443
Period size: 165 Copynumber: 5.7 Consensus size: 161
14195686 AAAATTTTCT
* * * * *
14195696 TTTTATTTGAAAAACAGAAA-TT--GA-AAATACCTCGGCGTGTGGCCCGAGGCTCAACTCACCT
1 TTTT-TTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
**
14195757 CTAACAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCG
65 CTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCG
14195821 AGGCTCAACTCACTTCTCGCAATATGAGTTGA
130 AGGCTCAACTCACTTCTCGCAATATGAGTTGA
* *
14195853 TTTTTTTTTGAAAAGACAGAAATTTAAAAGAAATACCTCAGCGTGAGACCCAAGGCTCAACTCAC
1 --TTTTTTTGAAAA-ACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
*
14195918 TTCTCGTAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGAC
63 TTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGAC
*
14195983 CCGAGGCTCAACTCACTTATCGCAATATGAGTTGA
127 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
14196018 TTTTTTTTTGAAAAGACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
1 --TTTTTTTGAAAA-ACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
14196083 TTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGAC
63 TTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGAC
*
14196148 CCGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
127 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
* *
14196183 TTTTTTTCAAAAAACAGAGATTTAAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCA-TC
1 TTTTTTT-GAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACT-
* *
14196245 TCTCGCATTATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTACGAC
64 TCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGAC
*
14196310 CCGAGGCTCGACTCACTTCTCGCAATATGAGTTGA
127 CCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
*
14196345 TTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
14196410 TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGA
66 TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGA
14196475 GGCTCAACTCACTTCTCGCAATATGAGTTGA
131 GGCTCAACTCACTTCTCGCAATATGAGTTGA
* * *
14196506 -TTTGTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGACTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
* *
14196570 TCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAA
66 TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAA
14196611 ATATTTCTTG
Statistics
Matches: 712, Mismatches: 31, Indels: 25
0.93 0.04 0.03
Matches are distributed among these distances:
158 8 0.01
159 11 0.02
160 104 0.15
161 144 0.20
162 86 0.12
163 116 0.16
164 5 0.01
165 238 0.33
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (161 bp):
TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGA
GGCTCAACTCACTTCTCGCAATATGAGTTGA
Found at i:14195990 original size:81 final size:81
Alignment explanation
Indices: 14195696--14196610 Score: 1449
Period size: 80 Copynumber: 11.3 Consensus size: 81
14195686 AAAATTTTCT
* * * * *
14195696 TTTTATTTGAAAAACAGAAA-TT--GA-AAATACCTCGGCGTGTGGCCCGAGGCTCAACTCACCT
1 TTTT-TTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
**
14195757 CTAACAATATGAGTTGA
65 CTCGCAATATGAGTTGA
14195774 --TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
14195837 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
* *
14195853 TTTTTTTTTGAAAAGACAGAAATTTAAAAGAAATACCTCAGCGTGAGACCCAAGGCTCAACTCAC
1 --TTTTTTTGAAAA-ACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
*
14195918 TTCTCGTAATATGAGTTGA
63 TTCTCGCAATATGAGTTGA
*
14195937 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTA
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
14196002 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
14196018 TTTTTTTTTGAAAAGACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
1 --TTTTTTTGAAAA-ACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
14196083 TTCTCGCAATATGAGTTGA
63 TTCTCGCAATATGAGTTGA
*
14196102 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCATTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
14196167 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
* *
14196183 TTTTTTTCAAAAAACAGAGATTTAAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCA-TC
1 TTTTTTT-GAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACT-
*
14196245 TCTCGCATTATGAGTTGA
64 TCTCGCAATATGAGTTGA
* *
14196263 TTTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTACGACCCGAGGCTCGACTCACTT
1 -TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
14196328 CTCGCAATATGAGTTGA
65 CTCGCAATATGAGTTGA
*
14196345 TTTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
14196410 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
14196426 -TTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
14196490 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
* * *
14196506 -TTTGTTGAAAAATAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGACTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
14196570 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
* *
14196586 -TTTTTTGAAAAATAGAAATTGAAAA
1 TTTTTTTGAAAAACAGAAATTTAAAA
14196611 ATATTTCTTG
Statistics
Matches: 787, Mismatches: 32, Indels: 34
0.92 0.04 0.04
Matches are distributed among these distances:
75 15 0.02
76 4 0.01
78 1 0.00
79 49 0.06
80 246 0.31
81 225 0.29
82 90 0.11
83 23 0.03
84 134 0.17
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (81 bp):
TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
TCGCAATATGAGTTGA
Found at i:14197498 original size:10 final size:10
Alignment explanation
Indices: 14197485--14197515 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
14197475 ATTTTTTTCT
14197485 TTTTTTGTTG
1 TTTTTTGTTG
14197495 TTTTTTGTTG
1 TTTTTTGTTG
14197505 TTTTTT-TTG
1 TTTTTTGTTG
14197514 TT
1 TT
14197516 CAAGCATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (10 bp):
TTTTTTGTTG
Found at i:14201502 original size:4 final size:4
Alignment explanation
Indices: 14201486--14201517 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
14201476 CATGCAATAC
*
14201486 ATGA ATAA ATGA ATGA ATGA ATGA ATGA ATGA
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA
14201518 CAAGTAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (4 bp):
ATGA
Found at i:14203680 original size:15 final size:15
Alignment explanation
Indices: 14203660--14203709 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
14203650 AACAACTTTT
14203660 TTTTTAAAACACGAA
1 TTTTTAAAACACGAA
*
14203675 TTTTTAAAATACAAGAA
1 TTTTT-AAA-ACACGAA
14203692 -TTTTAGAAACACGAA
1 TTTTTA-AAACACGAA
14203707 TTT
1 TTT
14203710 AAAAAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 12 0.41
16 11 0.38
17 6 0.21
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (15 bp):
TTTTTAAAACACGAA
Found at i:14203692 original size:17 final size:16
Alignment explanation
Indices: 14203659--14203709 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
14203649 CAACAACTTT
* *
14203659 TTTTTTAAAACACGAA
1 TTTTTAAAAACAAGAA
14203675 TTTTTAAAATACAAGAA
1 TTTTTAAAA-ACAAGAA
* *
14203692 -TTTTAGAAACACGAA
1 TTTTTAAAAACAAGAA
14203707 TTT
1 TTT
14203710 AAAAAAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.21
16 17 0.59
17 6 0.21
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (16 bp):
TTTTTAAAAACAAGAA
Found at i:14204068 original size:16 final size:16
Alignment explanation
Indices: 14204051--14204094 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
14204041 TTATTTATTA
14204051 AAATT-AATTAAAATT
1 AAATTAAATTAAAATT
*
14204066 AAATTAAATTAAAATG
1 AAATTAAATTAAAATT
*
14204082 GAATTAAATTAAA
1 AAATTAAATTAAA
14204095 GATAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
AAATTAAATTAAAATT
Found at i:14204263 original size:8 final size:8
Alignment explanation
Indices: 14204245--14204304 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
14204235 ATTGAACCTC
14204245 TTTTTTC-
1 TTTTTTCT
14204252 TTTTTTCT
1 TTTTTTCT
14204260 TTTTTTC-
1 TTTTTTCT
**
14204267 TCCTTT-T
1 TTTTTTCT
**
14204274 TTCCTTCT
1 TTTTTTCT
14204282 TTTTTTCT
1 TTTTTTCT
14204290 TCTTTTTCT
1 T-TTTTTCT
14204299 TTTTTT
1 TTTTTT
14204305 TTCTCTGCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
7 15 0.35
8 20 0.47
9 8 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTCT
Found at i:14204274 original size:11 final size:11
Alignment explanation
Indices: 14204243--14204308 Score: 68
Period size: 11 Copynumber: 6.3 Consensus size: 11
14204233 GAATTGAACC
14204243 TCTT-TTTTCTT
1 TCTTCTTTT-TT
*
14204254 TTTTCTTTTTT
1 TCTTCTTTTTT
*
14204265 TCTCCTTTTTT
1 TCTTCTTTTTT
*
14204276 CCTTCTTTTTT
1 TCTTCTTTTTT
14204287 TCTTC--TTTT
1 TCTTCTTTTTT
14204296 TCTT-TTTTTT
1 TCTTCTTTTTT
14204306 TCT
1 TCT
14204309 CTGCTGGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 8 0.17
10 7 0.15
11 27 0.59
12 4 0.09
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTCTTTTTT
Found at i:14204284 original size:22 final size:20
Alignment explanation
Indices: 14204252--14204309 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 20
14204242 CTCTTTTTTC
14204252 TTTT-TTCTTTTTTTCTCCTT
1 TTTTCTTCTTTTTTTCTCC-T
*
14204272 TTTTCCTTCTTTTTTTCTTCT
1 TTTT-CTTCTTTTTTTCTCCT
14204293 TTTTCTT-TTTTTTTCTC
1 TTTTCTTCTTTTTTTCTC
14204310 TGCTGGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 9 0.26
20 7 0.21
21 5 0.15
22 13 0.38
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTCTTTTTTTCTCCT
Found at i:14204287 original size:25 final size:25
Alignment explanation
Indices: 14204244--14204292 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14204234 AATTGAACCT
* *
14204244 CTTTTTTCTTTTTTCTTTTTTTCTC
1 CTTTTTTCTTCTTTCTTTTCTTCTC
14204269 CTTTTTTCCTTCTTT-TTTTCTTCT
1 CTTTTTT-CTTCTTTCTTTTCTTCT
14204293 TTTTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (25 bp):
CTTTTTTCTTCTTTCTTTTCTTCTC
Found at i:14204480 original size:6 final size:6
Alignment explanation
Indices: 14204466--14204502 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
14204456 TTCTTTTCTC
14204466 TTTTT- TTTTTG TTTTTG TTTTTG -TTTTG TTTTT- TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTT
14204503 GGGGCTGCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 14 0.47
6 16 0.53
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (6 bp):
TTTTTG
Found at i:14204480 original size:11 final size:11
Alignment explanation
Indices: 14204452--14204499 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
14204442 TTTTTTGGGC
*
14204452 TTGTTTCTTTT
1 TTGTTTTTTTT
* *
14204463 CTCTTTTTTTT
1 TTGTTTTTTTT
14204474 TTGTTTTTGTTT
1 TTGTTTTT-TTT
14204486 TTGTTTTGTTTT
1 TTGTTTT-TTTT
14204498 TT
1 TT
14204500 TTTGGGGCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 14 0.47
12 15 0.50
13 1 0.03
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.83
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:14204492 original size:17 final size:16
Alignment explanation
Indices: 14204466--14204502 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
14204456 TTCTTTTCTC
14204466 TTTTTT-TTTTGTTTT
1 TTTTTTGTTTTGTTTT
14204481 TGTTTTTGTTTTGTTTT
1 T-TTTTTGTTTTGTTTT
14204498 TTTTT
1 TTTTT
14204503 GGGGCTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 9 0.45
17 10 0.50
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (16 bp):
TTTTTTGTTTTGTTTT
Found at i:14204597 original size:15 final size:15
Alignment explanation
Indices: 14204577--14204620 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
14204567 TTTATTATTA
*
14204577 TTTTTTCTTTTTTCT
1 TTTTTTCTTTCTTCT
14204592 TTTTTTCTTTCTTCT
1 TTTTTTCTTTCTTCT
*
14204607 TCTTCTT-TTTCTTC
1 T-TTTTTCTTTCTTC
14204621 AAAACCCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCTTTCTTCT
Found at i:14205005 original size:29 final size:29
Alignment explanation
Indices: 14204989--14205093 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
14204979 AGAAAATTTA
14204989 GGGTAAAAATGTAATTTTAAAAAGGTTAT
1 GGGTAAAAATGTAATTTTAAAAAGGTTAT
* * *
14205018 GGGTTAAAATGTAA-TTTCAAAAGGTTTAG
1 GGGTAAAAATGTAATTTTAAAAAGG-TTAT
* * * * *
14205047 GGGTCAAAATATAATTTCAAAAAGTTTAG
1 GGGTAAAAATGTAATTTTAAAAAGGTTAT
* *
14205076 GGGTCAAAATGTATTTTT
1 GGGTAAAAATGTAATTTT
14205094 TGATTTTTTG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 9 0.14
29 47 0.75
30 7 0.11
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTAAAAAGGTTAT
Found at i:14205108 original size:7 final size:8
Alignment explanation
Indices: 14205088--14205118 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
14205078 GTCAAAATGT
14205088 ATTTTTTG
1 ATTTTTTG
14205096 ATTTTTTG
1 ATTTTTTG
*
14205104 ATTTTTTA
1 ATTTTTTG
14205112 ATTTTTT
1 ATTTTTT
14205119 TTGAAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (8 bp):
ATTTTTTG
Found at i:14206743 original size:96 final size:98
Alignment explanation
Indices: 14206561--14206776 Score: 321
Period size: 96 Copynumber: 2.2 Consensus size: 98
14206551 AACAACTAGC
* * *
14206561 TTTATTTGA-TTTTTCCTTAAAAATCCTAAATACTAAACCCCAGTCTAATTTTTTTTAAAATTTA
1 TTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCCAATCTAATTTTTTTTAAAATTTA
* *
14206625 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
66 TAATTAATTTAATCAAGAAACCCTAAACCCTAA
*
14206658 TTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCTAATCT-A-TTTTTTTAAAATTTA
1 TTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCCAATCTAATTTTTTTTAAAATTTA
* *
14206721 TAATTAATTTAATTAAGAAACCCTAAACCCTTA
66 TAATTAATTTAATCAAGAAACCCTAAACCCTAA
* *
14206754 TTTATTTAATTTTTTACTTAAAA
1 TTTATTTGATTTTTTCCTTAAAA
14206777 CCCTAAAATC
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
96 65 0.60
97 10 0.09
98 33 0.31
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (98 bp):
TTTATTTGATTTTTTCCTTAAAAATCATAAACACTAAACCCCAATCTAATTTTTTTTAAAATTTA
TAATTAATTTAATCAAGAAACCCTAAACCCTAA
Found at i:14213108 original size:15 final size:15
Alignment explanation
Indices: 14213088--14213195 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
14213078 TTTATGGAAA
14213088 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
14213103 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
14213117 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
14213133 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
14213147 AGTCAAAGATATAGGT
1 A-TCAAAGATATGGGT
* **
14213163 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
14213177 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
14213193 ATC
1 ATC
14213196 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:14213125 original size:30 final size:30
Alignment explanation
Indices: 14213082--14213205 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
14213072 TCCATATTTA
* *
14213082 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
14213112 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
14213142 TGGAAAGTCAAAGATATAGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
14213172 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
14213203 TGG
1 TGG
14213206 CATAATAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:14217808 original size:15 final size:15
Alignment explanation
Indices: 14217788--14217865 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
14217778 TTTATGGAAA
14217788 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
14217803 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
14217817 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
14217833 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
14217847 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
14217863 ATC
1 ATC
14217866 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:14217825 original size:30 final size:30
Alignment explanation
Indices: 14217784--14217865 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
14217774 CATATTTATG
*
14217784 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
14217814 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
14217844 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
14217866 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:14224225 original size:26 final size:24
Alignment explanation
Indices: 14224188--14224235 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
14224178 TTTAAAATGA
**
14224188 TTAAAATTATTTTTTTAAAAAAAT
1 TTAAAATTATTTTGCTAAAAAAAT
14224212 TTAAAATTAAATTTTGCTAAAAAA
1 TTAAAATT--ATTTTGCTAAAAAA
14224236 GAGAGTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
26 12 0.60
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TTAAAATTATTTTGCTAAAAAAAT
Found at i:14224226 original size:24 final size:25
Alignment explanation
Indices: 14224188--14224235 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
14224178 TTTAAAATGA
* *
14224188 TTAAAATT-ATTTTTTTAAAAAAAT
1 TTAAAATTAAATTTTCTAAAAAAAT
14224212 TTAAAATTAAATTTTGCTAAAAAA
1 TTAAAATTAAATTTT-CTAAAAAA
14224236 GAGAGTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 5 0.25
26 7 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TTAAAATTAAATTTTCTAAAAAAAT
Found at i:14230186 original size:20 final size:20
Alignment explanation
Indices: 14230117--14230178 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
14230107 ATTATTATTC
*
14230117 TAGAATTTTTTTA-ATTTTT
1 TAGAATTTTTTTATAATTTT
* * *
14230136 TA-ACTTCCTTTATATATTTTT
1 TAGAATT--TTTTTATAATTTT
14230157 TAGAATTTTTTTATAATTTT
1 TAGAATTTTTTTATAATTTT
14230177 TA
1 TA
14230179 TATTTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 18 0.53
21 8 0.24
22 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (20 bp):
TAGAATTTTTTTATAATTTT
Found at i:14231767 original size:23 final size:22
Alignment explanation
Indices: 14231734--14231820 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 22
14231724 GGACTCACCA
14231734 CAGCTCGTATGAGCTTACCGTTT
1 CAGCTC-TATGAGCTTACCGTTT
* *
14231757 TAGCTCTTATGAGCTTACTGTTT
1 CAGCTC-TATGAGCTTACCGTTT
*
14231780 CAGCTCTACGGAGCTTACCG-TT
1 CAGCTCTA-TGAGCTTACCGTTT
*
14231802 CAGCTCGATAGAGCTTACC
1 CAGCTCTAT-GAGCTTACC
14231821 ATTTACCGGC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 20 0.37
23 34 0.63
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (22 bp):
CAGCTCTATGAGCTTACCGTTT
Found at i:14232904 original size:13 final size:13
Alignment explanation
Indices: 14232886--14232910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14232876 ACATGTTTGG
14232886 ATATGAAATTGAT
1 ATATGAAATTGAT
14232899 ATATGAAATTGA
1 ATATGAAATTGA
14232911 CATTGAATTT
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:14233758 original size:13 final size:13
Alignment explanation
Indices: 14233725--14233758 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
14233715 CTAGGCATTT
*
14233725 CCACACGGGCTGG
1 CCACACGGGCTAG
14233738 CTCACACGGGCTAG
1 C-CACACGGGCTAG
14233752 CCACACG
1 CCACACG
14233759 CCCATGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.41, G:0.29, T:0.09
Consensus pattern (13 bp):
CCACACGGGCTAG
Found at i:14235603 original size:38 final size:38
Alignment explanation
Indices: 14235546--14235619 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
14235536 AGAATGGAAA
*
14235546 ATGTTAATGAGTAACTGATTTGTAACTTTTCGATAACG
1 ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAACG
* * * *
14235584 ATGTTAATGGGTGATTGATTTGTCACTTTTCAATAA
1 ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAA
14235620 TGTTAGTGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (38 bp):
ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAACG
Found at i:14243332 original size:15 final size:17
Alignment explanation
Indices: 14243281--14243330 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
14243271 TATAATATGA
*
14243281 TTTAGTAAATTCATATAT
1 TTTATTAAATT-ATATAT
14243299 TTTATTAAATTATATAT
1 TTTATTAAATTATATAT
14243316 TTTATTAAATTATAT
1 TTTATTAAATTATAT
14243331 TTAATAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTATTAAATTATATAT
Found at i:14243534 original size:39 final size:41
Alignment explanation
Indices: 14243480--14243583 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 41
14243470 TCCTTATGCT
* *
14243480 ATTACACCTCTATTCCATTCAACCAAACACAAGAA-TA-CC
1 ATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTATCC
*
14243519 ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTATCT
1 ATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTATCC
14243565 ATTACGCCTCTATTCCATT
1 ATTACGCCTCTATTCCATT
14243584 ACGCATCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
39 9 0.16
41 8 0.15
42 1 0.02
43 1 0.02
44 23 0.42
45 2 0.04
46 11 0.20
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.30
Consensus pattern (41 bp):
ATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTATCC
Found at i:14243558 original size:44 final size:46
Alignment explanation
Indices: 14243491--14243583 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
14243481 TTACACCTCT
*
14243491 ATTCCATTCAACCAAACACAAGAA-TA-CCATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTATCCATTACGCCTCTATTCC
*
14243535 ATTCCATTCAACCAAACAAAAGAATTATCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTATCCATTACGCCTCTATTCC
14243581 ATT
1 ATT
14243584 ACGCATCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 2 0.04
46 20 0.44
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTATCCATTACGCCTCTATTCC
Found at i:14243586 original size:16 final size:16
Alignment explanation
Indices: 14243565--14243617 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
14243555 AGAATTATCT
14243565 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
14243581 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
14243597 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
14243613 ATTAC
1 ATTAC
14243618 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:14244316 original size:21 final size:23
Alignment explanation
Indices: 14244286--14244331 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
14244276 TTTGAGAGAA
*
14244286 AAAAATATTG-TCGATTTTTATT
1 AAAAATATTGATAGATTTTTATT
*
14244308 AAAAA-ATTGATATATTTTTATT
1 AAAAATATTGATAGATTTTTATT
14244330 AA
1 AA
14244332 GTATATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (23 bp):
AAAAATATTGATAGATTTTTATT
Found at i:14252628 original size:29 final size:29
Alignment explanation
Indices: 14252590--14252647 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
14252580 GGACTATATA
14252590 AATCGATAATGATCGAAATACATCAAAAT
1 AATCGATAATGATCGAAATACATCAAAAT
*
14252619 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATCGAAATACATCAAAAT
14252648 GAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (29 bp):
AATCGATAATGATCGAAATACATCAAAAT
Found at i:14252717 original size:29 final size:29
Alignment explanation
Indices: 14252590--14252711 Score: 101
Period size: 29 Copynumber: 4.3 Consensus size: 29
14252580 GGACTATATA
* *
14252590 AATCGATAATGATCGAAATACATCAAAAT
1 AATCGAAAATGATTGAAATACATCAAAAT
*
14252619 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGAAAATGATTGAAATACATCAAAAT
* * ** *
14252648 GAAAT-TAAAAT-ATTAAAATTTAT--ATA-
1 --AATCGAAAATGATTGAAATACATCAAAAT
*
14252674 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGAAAATGATTGAAATACATCAAAAT
*
14252703 AATCTAAAA
1 AATCGAAAA
14252712 ATATTGTTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
24 3 0.04
25 4 0.06
26 9 0.13
27 2 0.03
28 2 0.03
29 44 0.62
30 4 0.06
31 3 0.04
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (29 bp):
AATCGAAAATGATTGAAATACATCAAAAT
Found at i:14255003 original size:49 final size:49
Alignment explanation
Indices: 14254949--14255052 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
14254939 TCATGTGTTA
* * ** * *
14254949 TAATTTTATACAGTGTTGAGTTTTTTATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
*
14254998 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
14255047 TAATTT
1 TAATTT
14255053 GTTTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:14256515 original size:44 final size:41
Alignment explanation
Indices: 14256467--14256565 Score: 92
Period size: 44 Copynumber: 2.3 Consensus size: 41
14256457 AGTATTATAT
14256467 ATTATGATTTTAGTAAATTCATATAAGAATAAGAATT-TTATTAA
1 ATTAT-ATTTTAGTAAATT-ATAT-AGAATAAGAATTATT-TTAA
* ** *
14256511 ATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAA
1 A-T-TATATT-TTAGTAAATTATATAGAATAAGAATTATTTTAA
14256555 ATTATATTTTA
1 ATTATATTTTA
14256566 TAGTATTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
41 3 0.06
42 6 0.13
43 1 0.02
44 15 0.32
45 10 0.21
46 12 0.26
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (41 bp):
ATTATATTTTAGTAAATTATATAGAATAAGAATTATTTTAA
Found at i:14256554 original size:26 final size:28
Alignment explanation
Indices: 14256500--14256669 Score: 89
Period size: 28 Copynumber: 5.8 Consensus size: 28
14256490 TAAGAATAAG
* * *
14256500 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
14256528 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* *
14256554 AATTATATTTTATAGTATTATATATTATGATTT
1 AATTATA-TTTA-A-TA--ATATATTATTATTA
* * *
14256587 TATTAGTAAATTCATATAAGA-A-TATTTATTAA
1 AATTA-T--ATTTA-ATAATATATTA-TTATT-A
* * * *
14256619 CAATTTTATTAAATTATATATTTTTATTA
1 -AATTATATTTAATAATATATTATTATTA
14256648 AATTATATTTAATAATA-ATTAT
1 AATTATATTTAATAATATATTAT
14256670 GTTAAAATAT
Statistics
Matches: 107, Mismatches: 20, Indels: 31
0.68 0.13 0.20
Matches are distributed among these distances:
26 10 0.09
27 14 0.13
28 29 0.27
29 7 0.07
30 12 0.11
31 9 0.08
32 8 0.07
33 9 0.08
34 3 0.03
35 5 0.05
36 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:14256579 original size:110 final size:115
Alignment explanation
Indices: 14256413--14256675 Score: 396
Period size: 120 Copynumber: 2.3 Consensus size: 115
14256403 AATAAAGTAG
*
14256413 ATTA-TAAATTATATTTAAAAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA-T
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
*
14256475 T-TTAGTAAATTCATATAAG-A-A-TAAGAATTTTATTAAATTATATATT
66 TATTAGTAAATTCATATAAGAATATTAACAATTTTATTAAATTATATATT
14256521 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA-T
14256586 TTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
65 TTATTAGTAAATTCATATAAG-A-A--TATTAACAATTTTATTAAATTATATATT
* *
14256641 TTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTATTTTAAA
14256676 ATATGATTAA
Statistics
Matches: 139, Mismatches: 4, Indels: 12
0.90 0.03 0.08
Matches are distributed among these distances:
108 4 0.03
109 22 0.16
110 34 0.24
112 2 0.01
113 18 0.13
116 1 0.01
119 1 0.01
120 57 0.41
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (115 bp):
ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT
TATTAGTAAATTCATATAAGAATATTAACAATTTTATTAAATTATATATT
Found at i:14256855 original size:39 final size:43
Alignment explanation
Indices: 14256802--14256903 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
14256792 TTTTCTTATG
* * *
14256802 CTATTATACCTCTATTC-T-ATTCAACCAAACACAAGAA-TAC
1 CTATTACACCTCTATTCATAAGTCAACCAAACAAAAGAATTAC
*
14256842 C-ATTACGCCTCTATTCCATTACAGTCAACCAAACAAAAGAATTAC
1 CTATTACACCTCTATT-CA-TA-AGTCAACCAAACAAAAGAATTAC
14256887 CTATTACACCTCTATTC
1 CTATTACACCTCTATTC
14256904 CATTACGCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
39 12 0.24
40 2 0.04
42 1 0.02
44 17 0.34
45 5 0.10
46 13 0.26
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.29
Consensus pattern (43 bp):
CTATTACACCTCTATTCATAAGTCAACCAAACAAAAGAATTAC
Found at i:14256906 original size:46 final size:44
Alignment explanation
Indices: 14256822--14256909 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
14256812 TCTATTCTAT
* *
14256822 TCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTACAG
1 TCAACCAAACAAAAGAATACCATTACACCTCTATTCCATTACAG
14256866 TCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTAC
1 TCAACCAAACAAAAGAA-TACC-ATTACACCTCTATTCCATTAC
14256910 GCCTCTATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 16 0.40
45 4 0.10
46 20 0.50
ACGTcount: A:0.40, C:0.31, G:0.05, T:0.25
Consensus pattern (44 bp):
TCAACCAAACAAAAGAATACCATTACACCTCTATTCCATTACAG
Found at i:14256914 original size:16 final size:16
Alignment explanation
Indices: 14256889--14256926 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
14256879 AGAATTACCT
14256889 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
14256905 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
14256921 ATTACA
1 ATTACA
14256927 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:14257006 original size:10 final size:10
Alignment explanation
Indices: 14256993--14257053 Score: 70
Period size: 10 Copynumber: 6.1 Consensus size: 10
14256983 AAAGAAGGAG
14256993 AAGAAAGAA-A
1 AAGAAA-AAGA
*
14257003 AAGAAAAAAA
1 AAGAAAAAGA
* *
14257013 AAGGAAAGGA
1 AAGAAAAAGA
*
14257023 AAGAAGAAGA
1 AAGAAAAAGA
14257033 AAGAAAAAGA
1 AAGAAAAAGA
14257043 AAGAAAAAGA
1 AAGAAAAAGA
14257053 A
1 A
14257054 CGGAGAAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
9 2 0.05
10 41 0.95
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:14257016 original size:26 final size:25
Alignment explanation
Indices: 14256978--14257048 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
14256968 CCGGCTGGAG
* *
14256978 AGAAGAAAGAAGGAGAAGAAAGAAAA
1 AGAAAAAAAAAGGA-AAGAAAGAAAA
*
14257004 AGAAAAAAAAAGGAAAGGAAAGAAGA
1 AGAAAAAAAAAGGAAA-GAAAGAAAA
*
14257030 AGAAAGAAAAA-GAAAGAAA
1 AGAAAAAAAAAGGAAAGAAA
14257049 AAGAACGGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.10
25 6 0.15
26 30 0.75
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (25 bp):
AGAAAAAAAAAGGAAAGAAAGAAAA
Found at i:14257061 original size:30 final size:30
Alignment explanation
Indices: 14256997--14257065 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
14256987 AAGGAGAAGA
* *
14256997 AAGAA-AAAGAAAAAAAAAGGAAAGGAAAG
1 AAGAAGAAAGAAAAAAAAAGAAAAAGAAAG
* *
14257026 AAGAAGAAAGAAAAAGAAAGAAAAAGAACG
1 AAGAAGAAAGAAAAAAAAAGAAAAAGAAAG
*
14257056 GAGAAGAAAG
1 AAGAAGAAAG
14257066 GAGAAGAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.72, C:0.01, G:0.26, T:0.00
Consensus pattern (30 bp):
AAGAAGAAAGAAAAAAAAAGAAAAAGAAAG
Found at i:14257062 original size:10 final size:10
Alignment explanation
Indices: 14256987--14257073 Score: 58
Period size: 10 Copynumber: 9.1 Consensus size: 10
14256977 GAGAAGAAAG
14256987 AAGGAGAAGA
1 AAGGAGAAGA
* *
14256997 AAGAAAAAGA
1 AAGGAGAAGA
14257007 AA--A-AA-A
1 AAGGAGAAGA
14257013 AAGGA-AAGGA
1 AAGGAGAA-GA
*
14257023 AAGAAGAAGA
1 AAGGAGAAGA
* *
14257033 AAGAAAAAGA
1 AAGGAGAAGA
* *
14257043 AAGAAAAAGA
1 AAGGAGAAGA
*
14257053 ACGGAGAAGA
1 AAGGAGAAGA
14257063 AAGGAGAAGA
1 AAGGAGAAGA
14257073 A
1 A
14257074 GAAGAGGGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
6 3 0.05
7 2 0.03
8 4 0.06
10 53 0.83
11 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (10 bp):
AAGGAGAAGA
Found at i:14257062 original size:20 final size:20
Alignment explanation
Indices: 14256978--14257073 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 20
14256968 CCGGCTGGAG
14256978 AGAAGAAAG-AAGGAGAAGAA
1 AGAA-AAAGAAAGGAGAAGAA
14256998 AGAAAAAGAAA--A-AA-AA
1 AGAAAAAGAAAGGAGAAGAA
* * *
14257014 AGGAAAGGAAAGAAGAAGAA
1 AGAAAAAGAAAGGAGAAGAA
* *
14257034 AGAAAAAGAAAGAAAAAGAA
1 AGAAAAAGAAAGGAGAAGAA
* * *
14257054 CGGAGAAGAAAGGAGAAGAA
1 AGAAAAAGAAAGGAGAAGAA
14257074 GAAGAGGGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
16 11 0.18
17 2 0.03
18 2 0.03
19 6 0.10
20 40 0.66
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (20 bp):
AGAAAAAGAAAGGAGAAGAA
Found at i:14257063 original size:36 final size:37
Alignment explanation
Indices: 14256985--14257063 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 37
14256975 GAGAGAAGAA
*
14256985 AGAAGGAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
1 AGAAGAAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
* *
14257022 A-AAGAAGAAGAAAGAAAAAGAAAGAAAAA-GAACGG
1 AGAAGAAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
14257057 AGAAGAA
1 AGAAGAA
14257064 AGGAGAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 6 0.16
36 31 0.82
37 1 0.03
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (37 bp):
AGAAGAAGAAGAAAGAAAAAGAAAAAAAAAGGAAAGG
Found at i:14257763 original size:153 final size:155
Alignment explanation
Indices: 14257460--14257912 Score: 657
Period size: 153 Copynumber: 2.9 Consensus size: 155
14257450 AGGGTTTTTT
* *
14257460 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAACGTAAAATTATAAAATACGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
* *** * *
14257525 TATA-TTTTTTGAAA-CAATGAGGCTTCGGTAAAAAATACGAACAAAGGGCTAAAATAAGGGTTT
66 TATATTTTTTTGAAAGTAAT-AAAATTCGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTT
14257588 TTTACTAAATTTATTTTAAAAAA-AC
130 TTTACTAAATTTATTTTAAAAAACAC
*
14257613 ACTAAATTAATACATTTTAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
* * *
14257678 TATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATATGAATAAAGGGCCGAAATAAGGGTTT
66 TATATTTTT-TTGAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTT
*
14257743 TTTACTAAATTTATTTAAAAAAACAC
130 TTTACTAAATTTATTTTAAAAAACAC
* * *
14257769 ACTAAATTAATACATTTCAAATATAATGTACTAAAATAATGTAAAATCAGAAAAT-CAGAAAATA
1 ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATAC-GAAAATA
* * *
14257833 GTATATTTTTTT-AAAGTAATAAAATT-GGGGAAAAATACGAACAAAGGGCTGAAATAAGGATTT
65 ATATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTT
*
14257896 TTTACTAAATTTGTTTT
130 TTTACTAAATTTATTTT
14257913 GAAGTTGCAG
Statistics
Matches: 270, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
153 113 0.42
154 18 0.07
155 67 0.25
156 72 0.27
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (155 bp):
ACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAA
TATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTT
TTACTAAATTTATTTTAAAAAACAC
Found at i:14260184 original size:8 final size:8
Alignment explanation
Indices: 14260170--14260211 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
14260160 AGGTGTTACC
14260170 ACAACATT
1 ACAACATT
*
14260178 GCAACATT
1 ACAACATT
14260186 ACAACATT
1 ACAACATT
*
14260194 AC-ACATA
1 ACAACATT
*
14260201 ACAACTTT
1 ACAACATT
14260209 ACA
1 ACA
14260212 GCATAAGCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (8 bp):
ACAACATT
Found at i:14260466 original size:22 final size:23
Alignment explanation
Indices: 14260438--14260482 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14260428 ATGTAATCTT
*
14260438 AGATATGA-TATGTAATTTTAGA
1 AGATATGATTATGTAATATTAGA
*
14260460 AGATATGATTTTGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
14260483 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:14261503 original size:45 final size:46
Alignment explanation
Indices: 14261425--14261568 Score: 272
Period size: 46 Copynumber: 3.2 Consensus size: 46
14261415 TTTTTAAGTT
*
14261425 TATACATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
14261471 TATATATGTAATTATTA-TTTTATGATTTATATATTTATTACCTTA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
14261516 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
1 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
14261562 TATATAT
1 TATATAT
14261569 ATATGTACGT
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
45 45 0.47
46 51 0.53
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (46 bp):
TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTA
Found at i:14261689 original size:100 final size:102
Alignment explanation
Indices: 14261514--14261726 Score: 331
Period size: 100 Copynumber: 2.1 Consensus size: 102
14261504 TTTATTACCT
* * * * *
14261514 TATATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATATATGTACGT
1 TATATATATATAATCATTATCTTTATGATCTATATATTTATTAAC-T-TATATATATATGTACGT
14261579 ATATATATTATACTTTCTATACATATTTTATAATTTCTA
64 ATATATATTATACTTTCTATACATATTTTATAATTTCTA
*
14261618 TATATATATATTATCATTATCTTTATGATCTATATATTTATTAAC-T-TATATATATGTACGTAT
1 TATATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTAT
*
14261681 ATATATTATACTTTCTATCCATATTTTATAATTTCTA
66 ATATATTATACTTTCTATACATATTTTATAATTTCTA
14261718 TATATATAT
1 TATATATAT
14261727 TTTTCTTTAT
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
100 62 0.61
101 1 0.01
104 39 0.38
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (102 bp):
TATATATATATAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATATGTACGTAT
ATATATTATACTTTCTATACATATTTTATAATTTCTA
Found at i:14261722 original size:18 final size:18
Alignment explanation
Indices: 14261678--14261724 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
14261668 TATATGTACG
*
14261678 TATATATATTATACTTTC
1 TATATATATTATAATTTC
*
14261696 TATCCATATTTTATAATTTC
1 TAT--ATATATTATAATTTC
14261716 TATATATAT
1 TATATATAT
14261725 ATTTTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.33
20 16 0.67
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATATATTATAATTTC
Found at i:14261724 original size:20 final size:20
Alignment explanation
Indices: 14261578--14261626 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
14261568 TATATGTACG
*
14261578 TATATATATTATACTTTCTA
1 TATATATATTATAATTTCTA
* *
14261598 TACATATTTTATAATTTCTA
1 TATATATATTATAATTTCTA
14261618 TATATATAT
1 TATATATAT
14261627 ATTATCATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATATATTATAATTTCTA
Found at i:14262802 original size:37 final size:37
Alignment explanation
Indices: 14262760--14262889 Score: 104
Period size: 37 Copynumber: 3.5 Consensus size: 37
14262750 AAAATTATAC
14262760 TAACTAACAATAATAATTAGGGTTTTACTAAAAATAA
1 TAACTAACAATAATAATTAGGGTTTTACTAAAAATAA
** *** *
14262797 TAACTAACAATAAT-A-TAATGTAAAAACTAACAATCATAC
1 TAACTAACAATAATAATTAGGGT-TTTACTAA-AA--ATAA
***
14262836 TAACTAA-AATAATAATTAGGGTTTTTACTAATCCTAA
1 TAACTAACAATAATAATTAGGG-TTTTACTAAAAATAA
*
14262873 TAACTAACCATAATAAT
1 TAACTAACAATAATAAT
14262890 AATATTAGTT
Statistics
Matches: 69, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
35 4 0.06
36 6 0.09
37 25 0.36
38 14 0.20
39 11 0.16
40 8 0.12
41 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (37 bp):
TAACTAACAATAATAATTAGGGTTTTACTAAAAATAA
Found at i:14262843 original size:23 final size:23
Alignment explanation
Indices: 14262798--14262844 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14262788 TAAAAATAAT
*
14262798 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
14262821 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
14262844 A
1 A
14262845 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:14263162 original size:3 final size:3
Alignment explanation
Indices: 14263154--14263224 Score: 70
Period size: 3 Copynumber: 23.3 Consensus size: 3
14263144 CTTGCGCCAC
* **
14263154 CTT CTT CTT CTT CTT CTT CTC CTT CTT CAG CTCT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT
* * * *
14263200 CTC CTT CTC CTT CTC CTT CTC CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
14263225 AGCTGGGCTG
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
3 51 0.96
4 2 0.04
ACGTcount: A:0.01, C:0.42, G:0.01, T:0.55
Consensus pattern (3 bp):
CTT
Found at i:14263940 original size:20 final size:20
Alignment explanation
Indices: 14263915--14263961 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14263905 TATTTATATT
14263915 ATTTTTT-AATTTAAATTTAA
1 ATTTTTTGAATTT-AATTTAA
* *
14263935 ATTTTTTGCATTTTATTTAA
1 ATTTTTTGAATTTAATTTAA
14263955 ATTTTTT
1 ATTTTTT
14263962 TAGGGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTTTGAATTTAATTTAA
Done.