Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 114 of 175
Found at i:35910829 original size:28 final size:28
Alignment explanation
Indices: 35910680--35910830 Score: 162
Period size: 28 Copynumber: 5.4 Consensus size: 28
35910670 AATTTCCACT
* * **
35910680 TATAATATATTTCTGAAAAACTTTCACA
1 TATAAGATAGTTCTGATGAACTTTCACA
*
35910708 TATAAGATAG-TCTTGATGGAC-TTCTACA
1 TATAAGATAGTTC-TGATGAACTTTC-ACA
* * * *
35910736 TATAAGATAGTTTTAATGGACTTCCACA
1 TATAAGATAGTTCTGATGAACTTTCACA
* **
35910764 TATAAGATAGTTTTGACAAACTTTCACA
1 TATAAGATAGTTCTGATGAACTTTCACA
35910792 TATAAGATAGTTCTGATGAACTTTCACA
1 TATAAGATAGTTCTGATGAACTTTCACA
35910820 TATAAGATAGT
1 TATAAGATAGT
35910831 CTTGGCAGAC
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 5 0.05
28 95 0.92
29 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (28 bp):
TATAAGATAGTTCTGATGAACTTTCACA
Found at i:35910842 original size:28 final size:28
Alignment explanation
Indices: 35910699--35910859 Score: 159
Period size: 28 Copynumber: 5.8 Consensus size: 28
35910689 TTTCTGAAAA
**
35910699 ACTTTCACATATAAGATAGTCTTGATGG
1 ACTTTCACATATAAGATAGTCTTGACAG
* * **
35910727 AC-TTCTACATATAAGATAGTTTTAATGG
1 ACTTTC-ACATATAAGATAGTCTTGACAG
* * *
35910755 ACTTCCACATATAAGATAGTTTTGACAA
1 ACTTTCACATATAAGATAGTCTTGACAG
*
35910783 ACTTTCACATATAAGATAGT-TCTGA-TG
1 ACTTTCACATATAAGATAGTCT-TGACAG
*
35910810 AACTTTCACATATAAGATAGTCTTGGCAG
1 -ACTTTCACATATAAGATAGTCTTGACAG
35910839 AC-TTCTACATATAAGATAGTC
1 ACTTTC-ACATATAAGATAGTC
35910860 CTTACGGATA
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
27 7 0.06
28 103 0.90
29 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (28 bp):
ACTTTCACATATAAGATAGTCTTGACAG
Found at i:35911274 original size:9 final size:9
Alignment explanation
Indices: 35911258--35911327 Score: 95
Period size: 9 Copynumber: 7.8 Consensus size: 9
35911248 GGTATTTTTC
35911258 GGTAATTCG
1 GGTAATTCG
* *
35911267 GTTAATTCA
1 GGTAATTCG
*
35911276 GTTAATTCG
1 GGTAATTCG
*
35911285 GTTAATTCG
1 GGTAATTCG
35911294 GGTAATTCG
1 GGTAATTCG
*
35911303 GGTAATTCA
1 GGTAATTCG
35911312 GGTAATTCG
1 GGTAATTCG
35911321 GGTAATT
1 GGTAATT
35911328 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:35911505 original size:12 final size:12
Alignment explanation
Indices: 35911488--35911512 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35911478 AGTAATTTCG
35911488 GGTCGGTTAACC
1 GGTCGGTTAACC
35911500 GGTCGGTTAACC
1 GGTCGGTTAACC
35911512 G
1 G
35911513 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:35912900 original size:27 final size:27
Alignment explanation
Indices: 35912862--35912916 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
35912852 TGGTGCCACA
35912862 AATTAACTCGACATCAACTTAGTATTG
1 AATTAACTCGACATCAACTTAGTATTG
35912889 AATTAACTCGACATCAACTTAGTATTG
1 AATTAACTCGACATCAACTTAGTATTG
35912916 A
1 A
35912917 TAACAACACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
AATTAACTCGACATCAACTTAGTATTG
Found at i:35914372 original size:108 final size:108
Alignment explanation
Indices: 35914183--35914399 Score: 380
Period size: 108 Copynumber: 2.0 Consensus size: 108
35914173 GAGTAAAGCG
** *
35914183 TGCCGACTATGGAGTGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGTTCCATTCCCAT
1 TGCCGACTATGGAACGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGCTCCATTCCCAT
*
35914248 CCCTACTTAGAAAAACTATGAAAATGTCATTCCGTATTTAAAA
66 CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
**
35914291 TGCCGACTATGGAACGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGCTCCATTGTCAT
1 TGCCGACTATGGAACGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGCTCCATTCCCAT
35914356 CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
66 CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
35914399 T
1 T
35914400 AAGTTATATT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (108 bp):
TGCCGACTATGGAACGGTGATGGATTTAGCAATATTCACCCCACCTCGTCCCGCTCCATTCCCAT
CCCTACTTAGAAAAACTACGAAAATGTCATTCCGTATTTAAAA
Found at i:35917570 original size:22 final size:21
Alignment explanation
Indices: 35917526--35917580 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
35917516 TATTCACTAA
*
35917526 TTAATTTCTATAATGGATGTT
1 TTAATTTCTATAATGAATGTT
35917547 TTAATTTCTTAATAAT-AATGTT
1 TTAATTTC-T-ATAATGAATGTT
*
35917569 TT-ATTTCAATAA
1 TTAATTTCTATAA
35917581 CTTCACTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.13
21 13 0.43
22 8 0.27
23 5 0.17
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (21 bp):
TTAATTTCTATAATGAATGTT
Found at i:35925092 original size:16 final size:16
Alignment explanation
Indices: 35925071--35925102 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35925061 TTTATAACTG
*
35925071 CTATGTATTTATATAT
1 CTATGTATGTATATAT
35925087 CTATGTATGTATATAT
1 CTATGTATGTATATAT
35925103 TTGAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (16 bp):
CTATGTATGTATATAT
Found at i:35943582 original size:21 final size:21
Alignment explanation
Indices: 35943553--35943593 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35943543 TTGGAGTAAC
* *
35943553 TCTATCATTAGCGCTAGTTGA
1 TCTAGCATTACCGCTAGTTGA
*
35943574 TCTAGCATTACCTCTAGTTG
1 TCTAGCATTACCGCTAGTTG
35943594 TTCAAATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (21 bp):
TCTAGCATTACCGCTAGTTGA
Found at i:35945869 original size:15 final size:15
Alignment explanation
Indices: 35945849--35945883 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35945839 GTTTTCCTTT
*
35945849 CAACGGTCACTATTC
1 CAACGGTAACTATTC
*
35945864 CAACGGTAACTTTTC
1 CAACGGTAACTATTC
35945879 CAACG
1 CAACG
35945884 ACTACTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (15 bp):
CAACGGTAACTATTC
Found at i:35946088 original size:7 final size:7
Alignment explanation
Indices: 35946015--35946088 Score: 64
Period size: 7 Copynumber: 10.6 Consensus size: 7
35946005 TCCAATCCCC
35946015 ATTTTCTA
1 ATTTTC-A
35946023 ATTTT-A
1 ATTTTCA
35946029 TATTTTCA
1 -ATTTTCA
*
35946037 ATCTTCA
1 ATTTTCA
*
35946044 ATCTTCAA
1 ATTTTC-A
35946052 ATTTT-A
1 ATTTTCA
35946058 ATTTT-A
1 ATTTTCA
35946064 ATTTTCA
1 ATTTTCA
* *
35946071 CTTTCCA
1 ATTTTCA
35946078 ATTTTCA
1 ATTTTCA
35946085 ATTT
1 ATTT
35946089 CAGAATTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
6 13 0.23
7 32 0.57
8 11 0.20
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTTCA
Found at i:35948571 original size:19 final size:20
Alignment explanation
Indices: 35948547--35948598 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
35948537 TACAAAAAGT
*
35948547 TTCAAAATAATTTTTA-AAA
1 TTCAAAATAATTTATAGAAA
35948566 TTCAAAAT-ATTTATAGAAA
1 TTCAAAATAATTTATAGAAA
35948585 TT-AAAA-AATTTATA
1 TTCAAAATAATTTATA
35948599 TTTTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (20 bp):
TTCAAAATAATTTATAGAAA
Found at i:35951427 original size:14 final size:14
Alignment explanation
Indices: 35951406--35951439 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
35951396 TGGTATGGGT
35951406 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
35951419 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
35951433 TTATAGG
1 TTATAGG
35951440 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:35952385 original size:11 final size:11
Alignment explanation
Indices: 35952369--35952400 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
35952359 GACATGGAAG
35952369 CGTTTTGCCGA
1 CGTTTTGCCGA
*
35952380 CGTTTTACCGA
1 CGTTTTGCCGA
35952391 CGTTTTGCCG
1 CGTTTTGCCG
35952401 TGTTTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.09, C:0.28, G:0.25, T:0.38
Consensus pattern (11 bp):
CGTTTTGCCGA
Found at i:35953750 original size:20 final size:18
Alignment explanation
Indices: 35953710--35953746 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35953700 TTATGCCAGG
*
35953710 TGTGTATCCTATCCCTTA
1 TGTGTATCCTAACCCTTA
35953728 TGTGTATCCTAACCCTTA
1 TGTGTATCCTAACCCTTA
35953746 T
1 T
35953747 ATGTTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.43
Consensus pattern (18 bp):
TGTGTATCCTAACCCTTA
Found at i:35953755 original size:18 final size:18
Alignment explanation
Indices: 35953712--35953755 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
35953702 ATGCCAGGTG
* *
35953712 TGTATCCTATCCCTTATG
1 TGTATCCTAACCCTTATA
35953730 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
35953748 TGTTTCCT
1 TGTATCCT
35953756 TTTTCCAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:35957503 original size:126 final size:125
Alignment explanation
Indices: 35957272--35957645 Score: 543
Period size: 126 Copynumber: 3.0 Consensus size: 125
35957262 GGTCAAACAA
*
35957272 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATTAATTTTGCTGACAGTACATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TAATTTTGCTGACAGTGCATC
*
35957337 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * * * *
35957398 TAACTACTATAAAAAAAGAGCGTCCACATGGGAGCTTTTTTCATCAGTTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAT-AATTTTGCTGACAGTGCATC
* * * * *
35957463 TTGCTTGAAGCATTTTTGACACTATTTGTTCAAAATCGTCTTCTCAAAATTATTTTTTTAG
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
35957524 GAACTACGGTAGAAAAAGAGCATCCACGTGGGAGCTCTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TAATTTTGCTGACAGTGCATC
* * *
35957589 CTGCTTGAAGCGTTTTTCACATTATCTT-TTCAGAACCGTCTTCTCAAAATTAATTTT
65 CTGCTTGAAGCGTTTTTGACACTAT-TTGTTCAGAACCGTCTTCTCAAAATTATTTTT
35957646 CCTAAAACAA
Statistics
Matches: 218, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
125 1 0.00
126 214 0.98
127 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
Found at i:35957778 original size:34 final size:32
Alignment explanation
Indices: 35957715--35957838 Score: 110
Period size: 34 Copynumber: 3.8 Consensus size: 32
35957705 CTAAACACAA
* **
35957715 AATTATTTTTTTTTAAA-ACTAAACCCTAATTT
1 AATTAATTTTTTAAAAACACTAAA-CCTAATTT
*
35957747 AATTAATTTTCTTAAAAACTCTAAACTCTAATTT
1 AATTAATTTT-TTAAAAACACTAAAC-CTAATTT
* * *
35957781 AATTTATTTATTTAAAACCCCTAAAACCTAATTT
1 AATTAATTT-TTTAAAAACACT-AAACCTAATTT
35957815 AA--AATTTTTTTAAAAACACTAAAC
1 AATTAA-TTTTTTAAAAACACTAAAC
35957839 GCTGATTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
31 4 0.05
32 20 0.26
33 9 0.12
34 38 0.50
35 5 0.07
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.43
Consensus pattern (32 bp):
AATTAATTTTTTAAAAACACTAAACCTAATTT
Found at i:35973261 original size:20 final size:20
Alignment explanation
Indices: 35973236--35973275 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35973226 TGTAAAATGA
*
35973236 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
35973256 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
35973276 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:35973264 original size:34 final size:35
Alignment explanation
Indices: 35973221--35973287 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
35973211 CAGTAAAATA
* *
35973221 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTAGAAAATATTTTAC
35973255 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
35973288 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:35974718 original size:2 final size:2
Alignment explanation
Indices: 35974711--35974737 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35974701 TTCGATTTTA
35974711 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
35974738 AGATTACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35978491 original size:16 final size:16
Alignment explanation
Indices: 35978470--35978506 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
35978460 TTGGTTGAAT
*
35978470 GTAATGGAATAGAGGC
1 GTAATGAAATAGAGGC
*
35978486 GTAATGAAATAGAGGT
1 GTAATGAAATAGAGGC
35978502 GTAAT
1 GTAAT
35978507 AGCAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGAAATAGAGGC
Found at i:35978498 original size:61 final size:61
Alignment explanation
Indices: 35978425--35978551 Score: 227
Period size: 61 Copynumber: 2.1 Consensus size: 61
35978415 GGTTATAAGT
*
35978425 GTAATGGAATAGAGGTGTAATAAAAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGC
1 GTAATGAAATAGAGGTGTAATAAAAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGC
**
35978486 GTAATGAAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGC
1 GTAATGAAATAGAGGTGTAATAAAAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGC
35978547 GTAAT
1 GTAAT
35978552 AATAATCTTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.28
Consensus pattern (61 bp):
GTAATGAAATAGAGGTGTAATAAAAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGC
Found at i:35978828 original size:157 final size:157
Alignment explanation
Indices: 35978627--35978943 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
35978617 TAGAATACCC
*
35978627 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
35978692 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAA
35978757 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
35978784 TTAGCAAAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
35978849 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAA
35978914 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
35978941 TTA
1 TTA
35978944 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:35978918 original size:18 final size:17
Alignment explanation
Indices: 35978897--35978931 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35978887 TTATTATTAA
*
35978897 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
35978915 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
35978932 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:35979017 original size:15 final size:16
Alignment explanation
Indices: 35978996--35979038 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
35978986 GTAAAATATA
35978996 AATTAAAATA-ATTAT
1 AATTAAAATATATTAT
*
35979011 TATT-AAATATATTAT
1 AATTAAAATATATTAT
35979026 AATTAAAATATAT
1 AATTAAAATATAT
35979039 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 11 0.46
16 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:35979137 original size:15 final size:16
Alignment explanation
Indices: 35979116--35979158 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
35979106 GTAAAATATA
35979116 AATTAAAATA-ATTAT
1 AATTAAAATATATTAT
*
35979131 TATT-AAATATATTAT
1 AATTAAAATATATTAT
35979146 AATTAAAATATAT
1 AATTAAAATATAT
35979159 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 11 0.46
16 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:35979303 original size:120 final size:120
Alignment explanation
Indices: 35978877--35979292 Score: 735
Period size: 120 Copynumber: 3.5 Consensus size: 120
35978867 TTAATCATAT
*
35978877 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
35978942 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
35978998 TTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
1 TTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
*
35979063 AATATTCTTATATGAATTTACTCAAATAATAATATATGATACTGTAAAATATAAA
66 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
35979118 TTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
1 TTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* *
35979183 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAA
66 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
* * * *
35979237 TTCGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TT-AAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
35979293 TAAAATAATT
Statistics
Matches: 285, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
119 5 0.02
120 275 0.96
121 5 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
TTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
Found at i:35979402 original size:101 final size:93
Alignment explanation
Indices: 35979241--35979515 Score: 283
Period size: 91 Copynumber: 2.9 Consensus size: 93
35979231 AGAAAATTCG
* * *
35979241 AAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATT-TAAAATAATTA
1 AAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCT----T-A--A
* * * *
35979304 TAACTAATAAATTATATTTTATGAATTTGTATAATTTA
58 TAA-T-ATAAATTTTATTATATGAATTTATACAATTTA
* *
35979342 AAATAA-TAATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT-A-ATA
1 AAATAATTAA-TATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATAATATA
*
35979404 AATTTTCTTATATGAATTTATACAATTTA
65 AATTTTATTATATGAATTTATACAATTTA
* *
35979433 AAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCATAAAATTCTTAATAATA-AA
1 AAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATAATATAA
* *
35979497 ATGTTCTTATATGAATTTA
66 ATTTTATTATATGAATTTA
35979516 CTAAAATCAA
Statistics
Matches: 153, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
91 77 0.50
92 24 0.16
93 1 0.01
94 1 0.01
95 2 0.01
98 1 0.01
100 6 0.04
101 40 0.26
102 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (93 bp):
AAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAATAATATAA
ATTTTATTATATGAATTTATACAATTTA
Found at i:35979403 original size:91 final size:91
Alignment explanation
Indices: 35979308--35979515 Score: 285
Period size: 91 Copynumber: 2.3 Consensus size: 91
35979298 TAATTATAAC
* * * *
35979308 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
35979372 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * *
35979399 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
35979464 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
35979490 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
35979516 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 82 0.78
92 22 0.21
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:35980763 original size:6 final size:6
Alignment explanation
Indices: 35980752--35980776 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35980742 GTTTGAACAT
35980752 TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
35980777 ATAATTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:35981354 original size:21 final size:20
Alignment explanation
Indices: 35981311--35981358 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
35981301 AATGTGTGTT
* *
35981311 AATATATAAATATGTATACA
1 AATATAGAAATATATATACA
35981331 AATTATAGAAATATATATGA-A
1 AA-TATAGAAATATATAT-ACA
35981352 AATATAG
1 AATATAG
35981359 GTATGTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 16 0.67
22 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (20 bp):
AATATAGAAATATATATACA
Found at i:35988688 original size:19 final size:19
Alignment explanation
Indices: 35988658--35988702 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
35988648 TTTACGAGGA
35988658 AATTTAGAGCATGGTGTGCC
1 AATTT-GAGCATGGTGTGCC
*
35988678 AGTTTGAGCATGGTGTGCC
1 AATTTGAGCATGGTGTGCC
35988697 AATTTG
1 AATTTG
35988703 TTTGGGGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.33
Consensus pattern (19 bp):
AATTTGAGCATGGTGTGCC
Found at i:35992966 original size:29 final size:28
Alignment explanation
Indices: 35992893--35993063 Score: 132
Period size: 29 Copynumber: 5.8 Consensus size: 28
35992883 TTTCTTTTCA
*
35992893 TTTATTTTTGAAGCCCTTGTTTCACTTATTTT
1 TTTATTTTT-AAGCCCTTATTTCA---ATTTT
35992925 TTT-TCTTTTAAGCCCTTATTTCAATTTT
1 TTTAT-TTTTAAGCCCTTATTTCAATTTT
35992953 TTTATTTTTGAAGCCCTTATTT-AACCTTTT
1 TTTATTTTT-AAGCCCTTATTTCAA--TTTT
** * *
35992983 TTTGCTTTTAAGTCCTTATTTCACTTTT
1 TTTATTTTTAAGCCCTTATTTCAATTTT
* *
35993011 TTAATTTTTAAAGCCCTAATTT-AACTTATT
1 TTTATTTTT-AAGCCCTTATTTCAA-TT-TT
** *
35993041 TTTGCTTTTAAGTCCTTATTTCA
1 TTTATTTTTAAGCCCTTATTTCA
35993064 CTACTTTTTT
Statistics
Matches: 113, Mismatches: 16, Indels: 22
0.75 0.11 0.15
Matches are distributed among these distances:
28 25 0.22
29 46 0.41
30 21 0.19
31 14 0.12
32 7 0.06
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTATTTTTAAGCCCTTATTTCAATTTT
Found at i:35993064 original size:58 final size:58
Alignment explanation
Indices: 35992896--35993065 Score: 234
Period size: 58 Copynumber: 2.9 Consensus size: 58
35992886 CTTTTCATTT
* * * * * *
35992896 ATTTTTGAAGCCCTTGTTTCACTTATTTTTTTTCTTTTAAGCCCTTATTTCAATTTTTTT
1 ATTTTTGAAGCCCTTATTTAACTTA--TTTTTGCTTTTAAGTCCTTATTTCACTTTTTTA
35992956 ATTTTTGAAGCCCTTATTTAACCTT-TTTTTGCTTTTAAGTCCTTATTTCACTTTTTTA
1 ATTTTTGAAGCCCTTATTTAA-CTTATTTTTGCTTTTAAGTCCTTATTTCACTTTTTTA
* *
35993014 ATTTTTAAAGCCCTAATTTAACTTATTTTTGCTTTTAAGTCCTTATTTCACT
1 ATTTTTGAAGCCCTTATTTAACTTATTTTTGCTTTTAAGTCCTTATTTCACT
35993066 ACTTTTTTTA
Statistics
Matches: 100, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
57 3 0.03
58 75 0.75
60 19 0.19
61 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.56
Consensus pattern (58 bp):
ATTTTTGAAGCCCTTATTTAACTTATTTTTGCTTTTAAGTCCTTATTTCACTTTTTTA
Found at i:35993101 original size:58 final size:56
Alignment explanation
Indices: 35992921--35993100 Score: 170
Period size: 58 Copynumber: 3.1 Consensus size: 56
35992911 GTTTCACTTA
* * * * * *
35992921 TTTTTTTT-CTTTTAAGCCCTTATTTCAATTTTTTTATTTTTGAAGCCCTTATTTAAC
1 TTTTTTTTGCTTTTAAGTCCTTATTTCACTTTTTTAACTTTTAAAG-CC-AATTTAAC
* *
35992978 CTTTTTTTGCTTTTAAGTCCTTATTTCACTTTTTTAATTTTTAAAGCCCTAATTTAAC
1 TTTTTTTTGCTTTTAAGTCCTTATTTCACTTTTTTAACTTTTAAAG-CC-AATTTAAC
* *
35993036 TTATTTTTGCTTTTAAGTCCTTATTTCACTACTTTTTTTAACTTTTAATG-C-A-TTAAC
1 TTTTTTTTGCTTTTAAGTCCTTATTT--C-AC-TTTTTTAACTTTTAAAGCCAATTTAAC
35993093 TTTTTTTT
1 TTTTTTTT
35993101 TAGTTTTAAG
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
57 19 0.18
58 69 0.64
60 2 0.02
61 2 0.02
62 15 0.14
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.59
Consensus pattern (56 bp):
TTTTTTTTGCTTTTAAGTCCTTATTTCACTTTTTTAACTTTTAAAGCCAATTTAAC
Found at i:35993152 original size:32 final size:32
Alignment explanation
Indices: 35993116--35993176 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
35993106 TTAAGTATTT
*
35993116 ATTTTTAAAGCCCATGTTCAACTTTTTTTAAA
1 ATTTTTAAAGCCCATATTCAACTTTTTTTAAA
* * *
35993148 ATTTTTGAAGCCCTTATTTAACTTTTTTT
1 ATTTTTAAAGCCCATATTCAACTTTTTTT
35993177 GCTTTTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (32 bp):
ATTTTTAAAGCCCATATTCAACTTTTTTTAAA
Found at i:35993204 original size:28 final size:29
Alignment explanation
Indices: 35993150--35993204 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
35993140 TTTTTAAAAT
**
35993150 TTTTGAAGCCCTTATTTAACTTTTTTTGC
1 TTTTGAAGCCCTTATTTAACTAATTTTGC
* *
35993179 TTTT-AAGTCCTTATTTCACTAATTTT
1 TTTTGAAGCCCTTATTTAACTAATTTT
35993205 TTGGGTAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 18 0.82
29 4 0.18
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.56
Consensus pattern (29 bp):
TTTTGAAGCCCTTATTTAACTAATTTTGC
Found at i:35995238 original size:124 final size:122
Alignment explanation
Indices: 35995006--35995239 Score: 281
Period size: 124 Copynumber: 1.9 Consensus size: 122
35994996 TCTAAAGTCC
* * *
35995006 TTATTTAAATTTTTTTTTGGAACTTTTATGTCATTATTTCATTAATTTTACAGTTATAAAACAAA
1 TTATTTAAATTTTTTTTTGGAACTTTTAAGCCATTATTTCACTAATTTTACAGTTATAAAACAAA
* * * **
35995071 ATATGCCAAAATATTAAAATATTTCTTGAACTATTTCCTTCTTTTAAAAACAAATTT
66 ATATGCCAAAAAAGTAAAATAATTCTTGAACTATTTCAATCTTTTAAAAACAAATTT
* * * * *
35995128 TTATTTAAATGCTTTTTTTTGGAACTTTTAAGCCCTTATTTCACTAATTTTATAGTTGTCAAATA
1 TTATTTAAAT--TTTTTTTTGGAACTTTTAAGCCATTATTTCACTAATTTTACAGTTATAAAACA
** * *
35995193 AAATA-GGGAAAACAAGTAAAATAATTCTTGAATTATTTTAATCTTTT
64 AAATATGCCAAAA-AAGTAAAATAATTCTTGAACTATTTCAATCTTTT
35995240 TTAAATAAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
122 10 0.11
123 5 0.05
124 77 0.84
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (122 bp):
TTATTTAAATTTTTTTTTGGAACTTTTAAGCCATTATTTCACTAATTTTACAGTTATAAAACAAA
ATATGCCAAAAAAGTAAAATAATTCTTGAACTATTTCAATCTTTTAAAAACAAATTT
Found at i:35996794 original size:31 final size:31
Alignment explanation
Indices: 35996758--35996817 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
35996748 TGGATCACTA
35996758 AACTATTCGAAA-ATTTTCATTTAAGTCATCG
1 AACTATT-GAAATATTTTCATTTAAGTCATCG
* * *
35996789 AACTATTTAAATTTTTTTATTTAAGTCAT
1 AACTATTGAAATATTTTCATTTAAGTCAT
35996818 TGAATTGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (31 bp):
AACTATTGAAATATTTTCATTTAAGTCATCG
Found at i:35998266 original size:11 final size:10
Alignment explanation
Indices: 35998246--35998274 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
35998236 TACAATTTCC
35998246 TTTTTCTTTT
1 TTTTTCTTTT
35998256 TTTTTCTTTT
1 TTTTTCTTTT
35998266 TTTTT-TTTT
1 TTTTTCTTTT
35998275 GCGAAAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:35998266 original size:17 final size:16
Alignment explanation
Indices: 35998241--35998274 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
35998231 CTTATTACAA
35998241 TTTCCTTTTTCTTTTTT
1 TTTCCTTTTT-TTTTTT
35998258 TTT-CTTTTTTTTTTT
1 TTTCCTTTTTTTTTTT
35998273 TT
1 TT
35998275 GCGAAAGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 6 0.35
17 3 0.18
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTCCTTTTTTTTTTT
Found at i:35998661 original size:71 final size:71
Alignment explanation
Indices: 35998556--35998691 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 71
35998546 GAAATATTTT
* * *
35998556 TTTTTCACCTACATTGTGGAGATGATAAATTTTAATATTATAAAATCAACTAATTATTTCAAATA
1 TTTTTCACCTACACTGTGGAGATGATAAACTTTAATATTATAAAATCAAATAATTATTTCAAATA
35998621 TCATTA
66 TCATTA
* * *
35998627 TTTTTCACCTGCACTGTGGATAT-AGTAAACTTTAATATTATAAAATTAAATAATTATTTCAAAT
1 TTTTTCACCTACACTGTGGAGATGA-TAAACTTTAATATTATAAAATCAAATAATTATTTCAAAT
35998691 A
65 A
35998692 CACATACAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.02
71 57 0.98
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (71 bp):
TTTTTCACCTACACTGTGGAGATGATAAACTTTAATATTATAAAATCAAATAATTATTTCAAATA
TCATTA
Found at i:35999039 original size:30 final size:30
Alignment explanation
Indices: 35999003--35999059 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
35998993 CAAACCTTTT
* *
35999003 TACTTTCCTCCTAATACTTTTACTCCCTCC
1 TACTTTCCCCCTAAAACTTTTACTCCCTCC
35999033 TACTTTCCCCCTAAAACTTTTACTCCC
1 TACTTTCCCCCTAAAACTTTTACTCCC
35999060 CTCCCATCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.40
Consensus pattern (30 bp):
TACTTTCCCCCTAAAACTTTTACTCCCTCC
Found at i:35999792 original size:14 final size:14
Alignment explanation
Indices: 35999768--35999801 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35999758 ACCAAAATTA
35999768 GAAAG-AAAAGAAC
1 GAAAGAAAAAGAAC
*
35999781 GAAAGAAAAAGAAG
1 GAAAGAAAAAGAAC
35999795 GAAAGAA
1 GAAAGAA
35999802 GCAGACGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAAGAAC
Found at i:36007172 original size:5 final size:5
Alignment explanation
Indices: 36007162--36007190 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
36007152 TTAAGCACAT
36007162 AAACC AAACC AAACC AAACC AAACC AAAC
1 AAACC AAACC AAACC AAACC AAACC AAAC
36007191 TTATTCTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACC
Found at i:36011269 original size:29 final size:29
Alignment explanation
Indices: 36011236--36011300 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
36011226 AAAATAATTT
*
36011236 AATCTTTATCCAGCCAATTTCAAATCTTC
1 AATCTTTATCCAGCCAACTTCAAATCTTC
36011265 AATCTTTATCCAGCCAACTTCAAATCTTC
1 AATCTTTATCCAGCCAACTTCAAATCTTC
36011294 AATCTTT
1 AATCTTT
36011301 CAATCTACCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (29 bp):
AATCTTTATCCAGCCAACTTCAAATCTTC
Found at i:36011767 original size:19 final size:19
Alignment explanation
Indices: 36011729--36011772 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
36011719 TTTAATATGT
**
36011729 ATTTTTTATTTGTTGTTTAA
1 ATTTTTTATTTGTTAATT-A
36011749 ATTTTTTATTT-TTAATTA
1 ATTTTTTATTTGTTAATTA
36011767 ATTTTT
1 ATTTTT
36011773 ATAATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
ATTTTTTATTTGTTAATTA
Found at i:36013489 original size:17 final size:16
Alignment explanation
Indices: 36013467--36013500 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36013457 TTTTATAAAT
36013467 AAAAGAGTTATTAATTA
1 AAAAGA-TTATTAATTA
*
36013484 AAAAGATTATTTATTA
1 AAAAGATTATTAATTA
36013500 A
1 A
36013501 TTATAAAAAT
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:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (16 bp):
AAAAGATTATTAATTA
Found at i:36013497 original size:20 final size:20
Alignment explanation
Indices: 36013474--36013512 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36013464 AATAAAAGAG
36013474 TTATTAATTA-AAAAGATTAT
1 TTATTAATTATAAAA-ATTAT
36013494 TTATTAATTATAAAAATTA
1 TTATTAATTATAAAAATTA
36013513 ATTAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TTATTAATTATAAAAATTAT
Found at i:36014188 original size:18 final size:18
Alignment explanation
Indices: 36014148--36014190 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36014138 GTTCAAGGTG
36014148 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
36014166 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
36014184 TAATTAA
1 TAATTAA
36014191 AAACCTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:36015351 original size:24 final size:24
Alignment explanation
Indices: 36015319--36015369 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
36015309 GTGAGTTTTA
36015319 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
36015343 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
36015367 AAT
1 AAT
36015370 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:36017234 original size:93 final size:92
Alignment explanation
Indices: 36017102--36017296 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
36017092 TTGATTTTAG
* *
36017102 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
36017166 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
36017194 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
36017259 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
36017287 CAAATTCATA
1 TAAATTCATA
36017297 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:36017354 original size:17 final size:17
Alignment explanation
Indices: 36017329--36017362 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36017319 ATAATTTTAA
*
36017329 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
36017346 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
36017363 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:36017364 original size:15 final size:16
Alignment explanation
Indices: 36017329--36017367 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
36017319 ATAATTTTAA
*
36017329 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
36017346 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
36017361 ATTTAAT
1 ATTTAAT
36017368 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:36017371 original size:17 final size:18
Alignment explanation
Indices: 36017333--36017372 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
36017323 TTTTAAATTT
*
36017333 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
36017351 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
36017367 TATTAA
1 TATTAA
36017373 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:36017487 original size:15 final size:15
Alignment explanation
Indices: 36017452--36017503 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
36017442 TTAAGAATTT
*
36017452 TATTAAATTAT-ATA
1 TATTTAATTATAATA
36017466 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
36017480 TATTTAATAATAAT-
1 TATTTAATTATAATA
36017494 TATGTTAATT
1 TAT-TTAATT
36017504 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:36017494 original size:120 final size:119
Alignment explanation
Indices: 36017328--36017619 Score: 439
Period size: 120 Copynumber: 2.4 Consensus size: 119
36017318 AATAATTTTA
* * *
36017328 AATTTTATTAAATCATATA-TTTAATTAAATCATATTTAATATTAATTAT-TTGAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTAAAT-ATATTTAATAATAATTATGTT--AATTTATATT
* *
36017390 TTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
36017447 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTA-AATATATTTAATAATAATTATGTTAATTTATATTTT
* *
36017512 ACAGTATCATATATTATGATTTGAGTAAATTTATATAAGAATATTAATTTTTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
36017567 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATT-AAATATATTTAATAATAATTATGTT
36017620 TAAATATGAT
Statistics
Matches: 160, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
119 23 0.14
120 125 0.78
121 12 0.08
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:36017584 original size:59 final size:59
Alignment explanation
Indices: 36017401--36017584 Score: 146
Period size: 59 Copynumber: 3.1 Consensus size: 59
36017391 TATAGTATCA
* * *
36017401 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTTATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * * *
36017460 TATA-TAT--TTTAATTATAATATATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AATTTATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
36017519 CATATATTATGATTTGAGTAAATTTATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTTATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
36017580 TATAT
1 TATAT
36017585 ATTTTAATTA
Statistics
Matches: 91, Mismatches: 21, Indels: 26
0.66 0.15 0.19
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 8 0.09
59 19 0.21
60 7 0.08
61 12 0.13
62 9 0.10
63 14 0.15
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTTATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:36017596 original size:18 final size:17
Alignment explanation
Indices: 36017568--36017602 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36017558 ATTTTTAAGA
*
36017568 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36017585 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36017603 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36017722 original size:154 final size:156
Alignment explanation
Indices: 36017556--36017869 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 156
36017546 ATAAGAATAT
*
36017556 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
36017621 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
36017684 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
36017710 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
36017775 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
36017840 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
36017867 TAA
1 TAA
36017870 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 92 0.60
155 2 0.01
157 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:36017750 original size:18 final size:17
Alignment explanation
Indices: 36017722--36017756 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36017712 ATTATTAAGA
*
36017722 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36017739 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36017757 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36017790 original size:75 final size:75
Alignment explanation
Indices: 36017557--36017792 Score: 212
Period size: 75 Copynumber: 3.1 Consensus size: 75
36017547 TAAGAATATT
*
36017557 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
36017622 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
36017632 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
36017693 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
36017707 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
36017772 TTTAAATATGATTA
62 TTTAAATATGATTA
36017786 AATTATT
1 AATTATT
36017793 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
74 1 0.01
75 29 0.25
76 28 0.24
77 6 0.05
78 28 0.24
79 23 0.20
80 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:36018009 original size:16 final size:16
Alignment explanation
Indices: 36017988--36018026 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
36017978 TTGATTTGCT
*
36017988 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
36018004 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
36018020 ATTACAC
1 ATTACAC
36018027 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:36018027 original size:16 final size:16
Alignment explanation
Indices: 36018001--36018057 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
36017991 ACACAGCTTT
* *
36018001 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
36018017 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
36018033 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
36018049 TCCAATACA
1 TCCAATACA
36018058 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:36020370 original size:6 final size:6
Alignment explanation
Indices: 36020359--36020403 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
36020349 CGGAGGAAGG
* *
36020359 AGATGA AGATGA AGATGA AGATGA GGATCG- AGGTGA AGATGA AGA
1 AGATGA AGATGA AGATGA AGATGA AGAT-GA AGATGA AGATGA AGA
36020404 CAAAGATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 1 0.03
6 31 0.94
7 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.38, T:0.16
Consensus pattern (6 bp):
AGATGA
Found at i:36022941 original size:29 final size:29
Alignment explanation
Indices: 36022909--36022974 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
36022899 CCAAAATCAA
*
36022909 CCTATTCCAATAAATATGCCAAAAACTAG
1 CCTATTCCAATAAATATACCAAAAACTAG
* *
36022938 CCTATTCCGATAAATATACCAAAAACTGG
1 CCTATTCCAATAAATATACCAAAAACTAG
36022967 CCTATTCC
1 CCTATTCC
36022975 CTCAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (29 bp):
CCTATTCCAATAAATATACCAAAAACTAG
Found at i:36028776 original size:21 final size:21
Alignment explanation
Indices: 36028752--36028791 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36028742 AAAAAGATAT
* *
36028752 TAATTTATAATAATATTTATA
1 TAATTTACAATAACATTTATA
36028773 TAATTTACAATAACATTTA
1 TAATTTACAATAACATTTA
36028792 AAATATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTTACAATAACATTTATA
Found at i:36030485 original size:175 final size:174
Alignment explanation
Indices: 36030193--36030589 Score: 537
Period size: 175 Copynumber: 2.3 Consensus size: 174
36030183 AAATTTGGTC
* *
36030193 AAAATTAAATATAGTGATAAAATTTCAAATTTGAGTGTAATATAATGACTAAAACTAAAATTGGA
1 AAAATTAAATATAGAGATAAAATTTCAAATTTGAGTGTAATATAATAACTAAAACTAAAATTGGA
* ** *
36030258 CCATTGTTTTATAATAAAGAACGTAAAGGGATCAAAATTGAAATTATACCATCATCTTAT-GAGA
66 CCATAGTTTTATAATAAAGAAAATAAAGGGATCAAAATTAAAATTATACCATCATCTTATAGAGA
* *
36030322 GAGAGAATAGAAAAATGTGT-ATTGTTTGAGGTACCAAATTATGTTA
131 GAGAGAATAGAAAAATGTGTCA---CTCGAGGTACCAAATTATGTTA
* * *
36030368 AAAATTAAATATAGAGATAAAATTTCAAATTTGAATGTAGTATAATAACTAAAACTAAAATTTGA
1 AAAATTAAATATAGAGATAAAATTTCAAATTTGAGTGTAATATAATAACTAAAACTAAAATTGGA
* *
36030433 CTATAGTTTTATAATAAAGAAAATAAAGGGATCAAAATTAAAATTGTACCATCATCTTATAAGGG
66 CCATAGTTTTATAATAAAGAAAATAAAGGGATCAAAATTAAAATTATACCATCATCTTAT-A--G
* * *
36030498 AGAGAGAGAATAGCAGAATGTGTCACTCGATGTACCAAATTATGTTA
128 AGAGAGAGAATAGAAAAATGTGTCACTCGAGGTACCAAATTATGTTA
* * * * *
36030545 AAAATTATATATAAATATGAAATCTCAAATTTGAGTGTAATATAA
1 AAAATTAAATATAGAGATAAAATTTCAAATTTGAGTGTAATATAA
36030590 AGACCGAAAC
Statistics
Matches: 194, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
175 114 0.59
177 57 0.29
179 22 0.11
180 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (174 bp):
AAAATTAAATATAGAGATAAAATTTCAAATTTGAGTGTAATATAATAACTAAAACTAAAATTGGA
CCATAGTTTTATAATAAAGAAAATAAAGGGATCAAAATTAAAATTATACCATCATCTTATAGAGA
GAGAGAATAGAAAAATGTGTCACTCGAGGTACCAAATTATGTTA
Found at i:36041677 original size:21 final size:21
Alignment explanation
Indices: 36041647--36041689 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36041637 ATAAACAATA
**
36041647 TAATGGTTTTGCCTTTTAACT
1 TAATGGTTTTAACTTTTAACT
*
36041668 TAATGTTTTTAACTTTTAACT
1 TAATGGTTTTAACTTTTAACT
36041689 T
1 T
36041690 TTAAAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.56
Consensus pattern (21 bp):
TAATGGTTTTAACTTTTAACT
Found at i:36045972 original size:16 final size:17
Alignment explanation
Indices: 36045945--36045980 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
36045935 TTAGAATTGG
*
36045945 ATTGAGAAAATTATTTA
1 ATTGAGAAAATTAATTA
36045962 ATTGA-AAAATTAATTA
1 ATTGAGAAAATTAATTA
36045978 ATT
1 ATT
36045981 TAATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
ATTGAGAAAATTAATTA
Found at i:36056651 original size:34 final size:34
Alignment explanation
Indices: 36056606--36056676 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
36056596 AATTCATTAA
36056606 ATAATTTATTC-AATT-TTATATAATTAATATAAAAT
1 ATAATTTATTCAAATTATTATAT-A-TAAT-TAAAAT
*
36056641 ATAA-TTATTCAAATTATTTTATATAATTAAAAT
1 ATAATTTATTCAAATTATTATATATAATTAAAAT
36056674 ATA
1 ATA
36056677 TTAACTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 9 0.27
34 10 0.30
35 9 0.27
36 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (34 bp):
ATAATTTATTCAAATTATTATATATAATTAAAAT
Found at i:36057258 original size:52 final size:52
Alignment explanation
Indices: 36057200--36057303 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 52
36057190 CCTAAGATTT
*
36057200 AATTTAAAAATATAATA-TT-AACATC-TAATTCAAT-ATAAAAAATTATAACCTA
1 AATTTAAAAA-ATAATATTTGAA-ATCTTAAAT-AATAATAAAAAA-TATAACCTA
*
36057252 AATTTAAAAACTAATATTTGAAATCTTAAATAATAATAAAAAATATAACCTA
1 AATTTAAAAAATAATATTTGAAATCTTAAATAATAATAAAAAATATAACCTA
36057304 GTGTATAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
51 5 0.11
52 27 0.59
53 14 0.30
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.34
Consensus pattern (52 bp):
AATTTAAAAAATAATATTTGAAATCTTAAATAATAATAAAAAATATAACCTA
Found at i:36057347 original size:19 final size:18
Alignment explanation
Indices: 36057325--36057377 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
36057315 AACCTAAAAG
36057325 AAATCTAAAATT-ATTCTTA
1 AAATCTAAAATTAATTC--A
36057344 AAATCT-AAATTAATTCA
1 AAATCTAAAATTAATTCA
36057361 AAATCCTAAAATCTAAT
1 AAAT-CTAAAAT-TAAT
36057378 ATCTAACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.17
18 7 0.23
19 14 0.47
20 4 0.13
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATCTAAAATTAATTCA
Found at i:36065441 original size:12 final size:12
Alignment explanation
Indices: 36065424--36065454 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36065414 TATAACCTGA
36065424 ATATATATGTAT
1 ATATATATGTAT
*
36065436 ATATATATTTAT
1 ATATATATGTAT
36065448 ATATATA
1 ATATATA
36065455 GATAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:36067338 original size:88 final size:88
Alignment explanation
Indices: 36067221--36067710 Score: 718
Period size: 88 Copynumber: 5.6 Consensus size: 88
36067211 GTACCATTGG
* * * *
36067221 CTTCGATATGCTTCACTGTCGATGTAGGAAGGCAAGACCTGCTGTCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
36067286 ACTGAGGGAGGCAAGGCTTGTGT
66 ACTGAGGGAGGCAAGGCTTGTGT
* * * **
36067309 CTTTGATTTACTT-TGTCGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
1 CTTCGATCTGCTTCACT-GTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
* *
36067373 AACCGAGGGAGGCAAGGCTTGTGC
65 AACTGAGGGAGGCAAGGCTTGTGT
** *
36067397 CTTCGATCTGCTTCACTGTCGATGCAGGAATACAAGATCTGCTATCTTTAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
36067462 ACCGAGGGAGGCAAGGCTTGTGT
66 ACTGAGGGAGGCAAGGCTTGTGT
* * * *
36067485 CTTCAATCTGCTTCGCCGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTTCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
36067550 ACTGAGGGAGGCAAGGCTTGTGT
66 ACTGAGGGAGGCAAGGCTTGTGT
* *
36067573 CTTCGATCTGCTTCACTGTC-AGTACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
1 CTTCGATCTGCTTCACTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
36067637 AA-TCGAGGGAGGCAAGGCTTGTGT
65 AACT-GAGGGAGGCAAGGCTTGTGT
*
36067661 CTTCGATCTGCTTCACTGTC-AGTACAGGAAGGCAAGATCTGCTATCTTCA
1 CTTCGATCTGCTTCACTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCA
36067711 CTGATCTGTT
Statistics
Matches: 364, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
87 3 0.01
88 360 0.99
89 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
ACTGAGGGAGGCAAGGCTTGTGT
Found at i:36067694 original size:44 final size:44
Alignment explanation
Indices: 36067470--36067696 Score: 164
Period size: 44 Copynumber: 5.2 Consensus size: 44
36067460 CAACCGAGGG
* * *
36067470 AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCCGTC-GATGCAGGA
1 AGGCAAGGCTTGTGTCTTCAATCTGCTTCACTGTCAG-TACAGGA
* * * * *
36067514 AGGCAA-GATCTGCTATCTTCAACCTGCTTCACT-ACA--ACTGAGGG
1 AGGCAAGGCT-TG-TGTCTTCAATCTGCTTCACTGTCAGTAC--AGGA
* *
36067558 AGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAGTACAAGA
1 AGGCAAGGCTTGTGTCTTCAATCTGCTTCACTGTCAGTACAGGA
* * * * * * *
36067602 AGGCAA-GATCTGCTATCTTCAACCTGCTCCACT-ACAAT-CGAGGG
1 AGGCAAGGCT-TG-TGTCTTCAATCTGCTTCACTGTCAGTAC-AGGA
*
36067646 AGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAGTACAGGA
1 AGGCAAGGCTTGTGTCTTCAATCTGCTTCACTGTCAGTACAGGA
36067690 AGGCAAG
1 AGGCAAG
36067697 ATCTGCTATC
Statistics
Matches: 136, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
42 1 0.01
43 38 0.28
44 58 0.43
45 37 0.27
46 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (44 bp):
AGGCAAGGCTTGTGTCTTCAATCTGCTTCACTGTCAGTACAGGA
Found at i:36078947 original size:34 final size:34
Alignment explanation
Indices: 36078904--36078974 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
36078894 TGGGTCTCCA
36078904 TAATTCGCCACTCCTCCGACACAGTAATAAAAAC
1 TAATTCGCCACTCCTCCGACACAGTAATAAAAAC
**
36078938 TAATTCGCCACTCCTTTGACACAGTAATAAAAAC
1 TAATTCGCCACTCCTCCGACACAGTAATAAAAAC
36078972 TAA
1 TAA
36078975 GGGAATAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.24
Consensus pattern (34 bp):
TAATTCGCCACTCCTCCGACACAGTAATAAAAAC
Found at i:36090473 original size:22 final size:22
Alignment explanation
Indices: 36090442--36090483 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
36090432 TACACCAAAA
*
36090442 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
36090464 TAGGCCTTTAGCGGCGCTTT
1 TAGGCCTTTAGCGGCGCTTT
36090484 GAGAAGCGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.29, T:0.40
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:36094685 original size:40 final size:40
Alignment explanation
Indices: 36094624--36095024 Score: 486
Period size: 40 Copynumber: 9.9 Consensus size: 40
36094614 CAAAATATTT
* *
36094624 TTAGCGGCACTTTTCTAAAAACGCCGCTAAAGTCCCCAGCA
1 TTAGCGGCGCTTTTC-AAAAACGCCGCTAAAGACCCCAGCA
* * *
36094665 TTAGCGGCTCTTTCTC-AAAACGCCGCTAAATACCTCAGCA
1 TTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGACCCCAGCA
* *
36094705 TTA-CGGCGCTTTTCCAAAAACGCCACTAAAGACCCCAGAA
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGACCCCAGCA
* *
36094745 CTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCTAGCA
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGACCCCAGCA
* *
36094786 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CCCAACA
1 TTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGACCCCAGCA
* *
36094826 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CCCAACA
1 TTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGACCCCAGCA
* * * *
36094866 TTAGCGGTGTTTTTCCAAAAACGCCGCTAAAGACCACAACA
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGACCCCAGCA
* * *
36094907 TTAGTGGCGCTTTTCAAAAACACCGCTAAAGACCCCAGAA
1 TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGACCCCAGCA
* *
36094947 TTAGCGGCGCTTTTCCAAAAACACCGTTAAAGACCCCAGCA
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGACCCCAGCA
* *
36094988 TTAGCGGCGCTTTTTAAAAACGCCGCTAAAGCCCCCA
1 TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGACCCCA
36095025 AAGGTAAGAA
Statistics
Matches: 317, Mismatches: 35, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.00
39 9 0.03
40 174 0.55
41 131 0.41
42 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.19
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGACCCCAGCA
Found at i:36094840 original size:121 final size:121
Alignment explanation
Indices: 36094624--36095018 Score: 507
Period size: 121 Copynumber: 3.3 Consensus size: 121
36094614 CAAAATATTT
* * * *
36094624 TTAGCGGCACTTTTCTAAAAACGCCGCTAAAGTCCCCAGCATTAGCGGCTCTTTCTC-AAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAG-ACCCAGCATTAGCGGCGCTTTCTCAAAAACGC
* * *
36094688 CGCTAAATACCTCAGCATTA-CGGCGCTTTTCCAAAAACGCCACTAAAGACCCCAGAA
65 CGCTAAAGACC-CAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGAA
* *
36094745 CTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCTAGCATTAGCGGCGCTTTCCCAAAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCC-AGCATTAGCGGCGCTTTCTCAAAAACGC
*
36094810 CGCTAAAGACCCAACATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CCCA-ACA
65 CGCTAAAGACCCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGA-A
* * * * *
36094866 TTAGCGGTGTTTTTCCAAAAACGCCGCTAAAGACCACAACATTAGTGGCGCTTT-TCAAAAACAC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACC-CAGCATTAGCGGCGCTTTCTCAAAAACGC
* * *
36094930 CGCTAAAGACCCCAGA-ATTAGCGGCGCTTTTCCAAAAACACCGTTAAAGACCCCAGCA
65 CGCTAAAGA-CCCA-ACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGAA
*
36094988 TTAGCGGCGCTTTT-TAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAG
36095019 CCCCCAAAGG
Statistics
Matches: 241, Mismatches: 24, Indels: 18
0.85 0.08 0.06
Matches are distributed among these distances:
120 21 0.09
121 157 0.65
122 63 0.26
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (121 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAGCATTAGCGGCGCTTTCTCAAAAACGCC
GCTAAAGACCCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGAA
Found at i:36095024 original size:81 final size:81
Alignment explanation
Indices: 36094624--36095024 Score: 506
Period size: 81 Copynumber: 5.0 Consensus size: 81
36094614 CAAAATATTT
* * * *
36094624 TTAGCGGCACTTTTCTAAAAACGCCGCTAAAGTCCCCAGCATTAGCGGCTCTTTCTC-AAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTT-TCAAAAACGC
* * *
36094688 CGCTAAATACCTCAGCA
65 CGCTAAAGACCCCAGAA
* * *
36094705 TTA-CGGCGCTTTTCCAAAAACGCCACTAAAGACCCCAGAACTAGCGGCGCTTTTCCAAAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTTT-CAAAAACGC
* *
36094769 CGCTAAAGACCCTAGCA
65 CGCTAAAGACCCCAGAA
* * *
36094786 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGA-CCCAACATTAGCGGCGCTTTCCCAAAAACGC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTT-TCAAAAACGC
36094850 CGCTAAAGA-CCCA-ACA
65 CGCTAAAGACCCCAGA-A
* * * * * *
36094866 TTAGCGGTGTTTTTCCAAAAACGCCGCTAAAGACCACAACATTAGTGGCGCTTTTCAAAAACACC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTTTCAAAAACGCC
36094931 GCTAAAGACCCCAGAA
66 GCTAAAGACCCCAGAA
* * *
36094947 TTAGCGGCGCTTTTCCAAAAACACCGTTAAAGACCCCAGCATTAGCGGCGCTTTTTAAAAACGCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTTTCAAAAACGCC
*
36095012 GCTAAAGCCCCCA
66 GCTAAAGACCCCA
36095025 AAGGTAAGAA
Statistics
Matches: 277, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.00
80 95 0.34
81 153 0.55
82 28 0.10
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.19
Consensus pattern (81 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTTTCAAAAACGCC
GCTAAAGACCCCAGAA
Found at i:36102853 original size:13 final size:13
Alignment explanation
Indices: 36102837--36102933 Score: 86
Period size: 13 Copynumber: 7.4 Consensus size: 13
36102827 AAATGGTAAA
*
36102837 ATGAAATATTTAG
1 ATGAAATATTTAT
**
36102850 ATGAAATGGTTAT
1 ATGAAATATTTAT
*
36102863 ATGAAATGTTTAT
1 ATGAAATATTTAT
**
36102876 ATCGAAATAGATAT
1 AT-GAAATATTTAT
** *
36102890 ATGAAACGTTGAT
1 ATGAAATATTTAT
* *
36102903 ATGAAGTGTTTAT
1 ATGAAATATTTAT
36102916 ATGAAATATTTAT
1 ATGAAATATTTAT
36102929 ATGAA
1 ATGAA
36102934 TATAGATATG
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
13 56 0.85
14 10 0.15
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (13 bp):
ATGAAATATTTAT
Found at i:36102853 original size:26 final size:26
Alignment explanation
Indices: 36102824--36102883 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
36102814 AAATGTGTAA
36102824 ATGAAATGGTAAAATGAAATATTTAG
1 ATGAAATGGTAAAATGAAATATTTAG
* * * *
36102850 ATGAAATGGTTATATGAAATGTTTAT
1 ATGAAATGGTAAAATGAAATATTTAG
36102876 ATCGAAAT
1 AT-GAAAT
36102884 AGATATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (26 bp):
ATGAAATGGTAAAATGAAATATTTAG
Found at i:36102895 original size:53 final size:53
Alignment explanation
Indices: 36102837--36102948 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
36102827 AAATGGTAAA
* * *
36102837 ATGAAATATTTAGATGAAATGGTTATATGAAATGTTTATATCGAA-ATAGATAT
1 ATGAAACATTGAGATGAAATGGTTATATGAAATATTTATAT-GAATATAGATAT
* * * *
36102890 ATGAAACGTTGATATGAAGTGTTTATATGAAATATTTATATGAATATAGATAT
1 ATGAAACATTGAGATGAAATGGTTATATGAAATATTTATATGAATATAGATAT
*
36102943 GTGAAA
1 ATGAAA
36102949 AGGGACATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
52 3 0.06
53 47 0.94
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.38
Consensus pattern (53 bp):
ATGAAACATTGAGATGAAATGGTTATATGAAATATTTATATGAATATAGATAT
Found at i:36102930 original size:26 final size:25
Alignment explanation
Indices: 36102837--36102933 Score: 95
Period size: 26 Copynumber: 3.7 Consensus size: 25
36102827 AAATGGTAAA
*
36102837 ATGAAATATTTAGATGAAATGGTTAT
1 ATGAAATATTTATATGAAAT-GTTAT
* *
36102863 ATGAAATGTTTATATCGAAATAGATAT
1 ATGAAATATTTATAT-GAAAT-GTTAT
** * *
36102890 ATGAAACGTTGATATGAAGTGTTTAT
1 ATGAAATATTTATATGAAATG-TTAT
36102916 ATGAAATATTTATATGAA
1 ATGAAATATTTATATGAA
36102934 TATAGATATG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
25 1 0.02
26 35 0.60
27 22 0.38
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (25 bp):
ATGAAATATTTATATGAAATGTTAT
Found at i:36110367 original size:22 final size:22
Alignment explanation
Indices: 36110337--36110379 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
36110327 ACACCAAAAC
*
36110337 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
36110359 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
36110380 AGCGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:36110678 original size:43 final size:43
Alignment explanation
Indices: 36110620--36110785 Score: 176
Period size: 43 Copynumber: 3.8 Consensus size: 43
36110610 ATAGACCCTG
* * *
36110620 ATCTATAGCGACGCTTTGACCACAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTCACCACAAACGCCACTAAAGAACCTA
* * * * *
36110663 ATCTTTAGTGGCGCTTTCCCCTA-AAACGCCGC-AATAGACCCTG
1 ATCTTTAGCGGCGCTTTCACC-ACAAACGCCACTAA-AGAACCTA
*
36110706 ATCTATAGCGGCGC-TTCGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTC-ACCAC-AAACGCCACTAAAGAACCTA
* *
36110750 ATCTTTAGCGGCGCTTTCCCCAAAAACGCCACTAAA
1 ATCTTTAGCGGCGCTTTCACCACAAACGCCACTAAA
36110786 TTTGGCAGAT
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 6 0.06
43 57 0.58
44 31 0.31
45 5 0.05
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (43 bp):
ATCTTTAGCGGCGCTTTCACCACAAACGCCACTAAAGAACCTA
Found at i:36110705 original size:86 final size:87
Alignment explanation
Indices: 36110600--36110779 Score: 308
Period size: 87 Copynumber: 2.1 Consensus size: 87
36110590 ATTTTTTCTC
* *
36110600 AAACGCCGGAATAGACCCTGATCTATAGCGACGCTTTGACCAC-AAACGCCACTAAAGAACCTAA
1 AAACGCCGCAATAGACCCTGATCTATAGCGACGCTTCGACCACAAAACGCCACTAAAGAACCTAA
* *
36110664 TCTTTAGTGGCGCTTTCCCCTA
66 TCTTTAGCGGCGCTTTCCCCAA
*
36110686 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
1 AAACGCCGCAATAGACCCTGATCTATAGCGACGCTTCGACCACAAAACGCCACTAAAGAACCTAA
36110751 TCTTTAGCGGCGCTTTCCCCAA
66 TCTTTAGCGGCGCTTTCCCCAA
36110773 AAACGCC
1 AAACGCC
36110780 ACTAAATTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 40 0.45
87 48 0.55
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.19
Consensus pattern (87 bp):
AAACGCCGCAATAGACCCTGATCTATAGCGACGCTTCGACCACAAAACGCCACTAAAGAACCTAA
TCTTTAGCGGCGCTTTCCCCAA
Found at i:36111158 original size:21 final size:21
Alignment explanation
Indices: 36111114--36111158 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
36111104 GCAGCCTGTA
*
36111114 CTTCTCTAGCTGCCGCCTCCG
1 CTTCTCTAGCTGCCGCATCCG
*
36111135 CTTCTCTTA-CTGCCGCATCTG
1 CTTCTC-TAGCTGCCGCATCCG
36111156 CTT
1 CTT
36111159 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.07, C:0.42, G:0.16, T:0.36
Consensus pattern (21 bp):
CTTCTCTAGCTGCCGCATCCG
Found at i:36111275 original size:66 final size:65
Alignment explanation
Indices: 36111129--36111299 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
36111119 CTAGCTGCCG
* ** * *
36111129 CCTCCGCTTCTCTTACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTCGTTGA
36111194 A
65 A
* *
36111195 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTCGTTG
36111259 AA
64 AA
* * * *
36111261 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTG
36111300 TAATTTGCTC
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.93
67 4 0.04
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.40
Consensus pattern (65 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCGTTGAA
Found at i:36116899 original size:9 final size:9
Alignment explanation
Indices: 36116885--36117004 Score: 121
Period size: 9 Copynumber: 14.2 Consensus size: 9
36116875 TAAGGGATAT
36116885 TTATGTAAG
1 TTATGTAAG
36116894 TTATGTAAG
1 TTATGTAAG
36116903 TTATGT-A-
1 TTATGTAAG
* *
36116910 TTAAGTAAA
1 TTATGTAAG
36116919 TTATGTAAG
1 TTATGTAAG
36116928 TTATGT-A-
1 TTATGTAAG
*
36116935 TTATCTAAG
1 TTATGTAAG
36116944 TTATGTAAG
1 TTATGTAAG
36116953 TTATGT-A-
1 TTATGTAAG
* *
36116960 TTAAGTAGG
1 TTATGTAAG
*
36116969 TTATGTAAT
1 TTATGTAAG
*
36116978 TTATGT--C
1 TTATGTAAG
36116985 TTATGTAAG
1 TTATGTAAG
36116994 TTATGTAAG
1 TTATGTAAG
36117003 TT
1 TT
36117005 TTTGATTTTG
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
7 21 0.23
8 5 0.05
9 65 0.71
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36116917 original size:25 final size:25
Alignment explanation
Indices: 36116889--36117004 Score: 169
Period size: 25 Copynumber: 4.6 Consensus size: 25
36116879 GGATATTTAT
36116889 GTAAGTTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* *
36116914 GTAAATTATGTAAGTTATGTATTAT
1 GTAAGTTATGTAAGTTATGTATTAA
*
36116939 CTAAGTTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* * * *
36116964 GTAGGTTATGTAATTTATGTCTTAT
1 GTAAGTTATGTAAGTTATGTATTAA
36116989 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
36117005 TTTGATTTTG
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 79 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (25 bp):
GTAAGTTATGTAAGTTATGTATTAA
Found at i:36116965 original size:50 final size:50
Alignment explanation
Indices: 36116885--36117004 Score: 195
Period size: 50 Copynumber: 2.4 Consensus size: 50
36116875 TAAGGGATAT
36116885 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTA
* ** * *
36116935 TTATCTAAGTTATGTAAGTTATGTATTAAGTAGGTTATGTAATTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTA
36116985 TTATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTT
36117005 TTTGATTTTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (50 bp):
TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTA
Found at i:36117023 original size:50 final size:49
Alignment explanation
Indices: 36116885--36117031 Score: 170
Period size: 50 Copynumber: 2.9 Consensus size: 49
36116875 TAAGGGATAT
* *
36116885 TTATGTAAGTTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTATTAAGT-GATTATGTAACTTATGTA
* * * *
36116935 TTATCTAAGTTATGTAAGTTATGTATTAAGTAGGTTATGTAATTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTATTAAGT-GATTATGTAACTTATGTA
* **
36116985 TTATGTAAGTTATGTAAGTT-TTTGATTTTGTGTATTATGTAACTTAT
1 TTATGTAAGTTATGTAAGTTATGT-ATTAAGTG-ATTATGTAACTTAT
36117032 TTAATTTGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
49 3 0.04
50 81 0.96
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.50
Consensus pattern (49 bp):
TTATGTAAGTTATGTAAGTTATGTATTAAGTGATTATGTAACTTATGTA
Found at i:36117094 original size:12 final size:12
Alignment explanation
Indices: 36117053--36117115 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
36117043 TGGTTATGTA
36117053 TTATTATGTAAG
1 TTATTATGTAAG
* * *
36117065 TTACTATTTAGG
1 TTATTATGTAAG
36117077 TTATTATGTAAG
1 TTATTATGTAAG
* * *
36117089 TCATTATATATG
1 TTATTATGTAAG
*
36117101 TTGGTTATGTAAG
1 TT-ATTATGTAAG
36117114 TT
1 TT
36117116 GTGATATGAT
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
12 28 0.76
13 9 0.24
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:36120147 original size:23 final size:23
Alignment explanation
Indices: 36120099--36120152 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
36120089 ACCCTTGAAA
* * *
36120099 CCCTAAA-TCCCTAGCTCTTAAC
1 CCCTAAACCCCCTAACTCCTAAC
*
36120121 CCCTAAACCCCCTAACTCCTAAT
1 CCCTAAACCCCCTAACTCCTAAC
36120144 CCCTAAACC
1 CCCTAAACC
36120153 TTAAACCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.30, C:0.46, G:0.02, T:0.22
Consensus pattern (23 bp):
CCCTAAACCCCCTAACTCCTAAC
Found at i:36120608 original size:15 final size:15
Alignment explanation
Indices: 36120590--36120620 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36120580 TACCTCTAAC
*
36120590 CCTTAACTCCATAAA
1 CCTTAAATCCATAAA
36120605 CCTTAAATCCATAAA
1 CCTTAAATCCATAAA
36120620 C
1 C
36120621 ACCATATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
CCTTAAATCCATAAA
Found at i:36121003 original size:41 final size:41
Alignment explanation
Indices: 36120908--36121147 Score: 209
Period size: 41 Copynumber: 5.9 Consensus size: 41
36120898 TAAAAAATAT
* * * ** **
36120908 ATTAGCGGCACTTTTTCAAAAACGCCGC-AAAGATCTTAGC
1 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCCAGAGC
*
36120948 ATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCCAGAGC
* * * * **
36120989 ATTACCGGCACTTCTTCAAAAACGTCGCTAAAGGATAGAGC
1 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCCAGAGC
* * * * * *
36121030 ATTAGCGGCGTTTTTTAAGAAGCGCCGCT-AATGCTCTG-GC
1 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGC-CAGAGC
* * *
36121070 TTTTAGCGGCGCTTAC-TCAAAAACGCCGCTAAAGGCTAGAGC
1 -ATTAGCGGCGCTT-CTTAAAAAACGCCGCTAAAGGCCAGAGC
*
36121112 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAAGGGCC
1 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCC
36121148 CCAAAAACTC
Statistics
Matches: 153, Mismatches: 40, Indels: 13
0.74 0.19 0.06
Matches are distributed among these distances:
40 30 0.20
41 117 0.76
42 6 0.04
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCCAGAGC
Found at i:36121057 original size:82 final size:82
Alignment explanation
Indices: 36120907--36121147 Score: 267
Period size: 82 Copynumber: 3.0 Consensus size: 82
36120897 ATAAAAAATA
* **
36120907 TATTAGCGGCACTTTTTCAAAAACGCCGC-AAA-GATCTTAGCATTAGCGGCGCTTCTTAAAAAA
1 TATTAGCGGCACTTCTTCAAAAACGCCGCTAAAGGAT-AGAGCATTAGCGGCGCTTCTTAAAAAA
*
36120970 TGCCGCTAAAGGCCAGAGC
65 CGCCGCTAAAGGCCAG-GC
* * * * * *
36120989 -ATTACCGGCACTTCTTCAAAAACGTCGCTAAAGGATAGAGCATTAGCGGCGTTTTTTAAGAAGC
1 TATTAGCGGCACTTCTTCAAAAACGCCGCTAAAGGATAGAGCATTAGCGGCGCTTCTTAAAAAAC
* *
36121053 GCCGCT-AATGCTCTGGC
66 GCCGCTAAAGGC-CAGGC
* * *
36121070 TTTTAGCGGCGCTTAC-TCAAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTTCTTAAAAAA
1 TATTAGCGGCACTT-CTTCAAAAACGCCGCTAAAGGATAGAGCATTAGCGGCGCTTCTTAAAAAA
*
36121134 CGCCGCTAAGGGCC
65 CGCCGCTAAAGGCC
36121148 CCAAAAACTC
Statistics
Matches: 130, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
81 31 0.24
82 92 0.71
83 7 0.05
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (82 bp):
TATTAGCGGCACTTCTTCAAAAACGCCGCTAAAGGATAGAGCATTAGCGGCGCTTCTTAAAAAAC
GCCGCTAAAGGCCAGGC
Found at i:36121292 original size:40 final size:40
Alignment explanation
Indices: 36121243--36121318 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
36121233 ATTTTCTGTT
* *
36121243 AAGCACCGCTAATTCTCTATCTTTAGCGGCGTTTTTATAA
1 AAGCACCGCTAATGCTCGATCTTTAGCGGCGTTTTTATAA
* * *
36121283 AAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTT
1 AAGCACCGCTAATGCTCGATCTTTAGCGGCGTTTTT
36121319 TGTCCAAACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (40 bp):
AAGCACCGCTAATGCTCGATCTTTAGCGGCGTTTTTATAA
Found at i:36133511 original size:40 final size:40
Alignment explanation
Indices: 36133456--36133658 Score: 316
Period size: 40 Copynumber: 5.1 Consensus size: 40
36133446 CATTCCAGAT
* *
36133456 AGAAGCTCATAAGAGCTAATCCAACTGAAACACGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
*
36133496 AGAAGCTCATAAGAGCTGATCCAACCGAAACACACCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
*
36133536 AGAAGCTCATAAGAGCTGATCCAACTGAAACACGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
*
36133576 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAT
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
* * * * *
36133616 AGAAGCACATAAGAGCTTATCTAACCAAAACACGCCGAAC
1 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
36133656 AGA
1 AGA
36133659 GAGTATAACA
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 150 1.00
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.12
Consensus pattern (40 bp):
AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAC
Found at i:36135370 original size:22 final size:23
Alignment explanation
Indices: 36135342--36135384 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36135332 TAAAAATGTG
*
36135342 AAAAAAT-AAAATATTTAAAACT
1 AAAAAATAAAAATAATTAAAACT
36135364 AAAAAATAAAAATAATTAAAA
1 AAAAAATAAAAATAATTAAAA
36135385 AATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAAATAAAAATAATTAAAACT
Found at i:36143129 original size:27 final size:27
Alignment explanation
Indices: 36143056--36143130 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
36143046 TGCAACCCTA
* * *
36143056 TGTTTAATGTCCTAACGAACTACCTCG
1 TGTTTACTGTCCTAGCGGACTACCTCG
* *
36143083 TGTTTACTATCCTAGAGGACTACCTCG
1 TGTTTACTGTCCTAGCGGACTACCTCG
*
36143110 TGTTTACTGTCATAGCGGACT
1 TGTTTACTGTCCTAGCGGACT
36143131 CCTTATGCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (27 bp):
TGTTTACTGTCCTAGCGGACTACCTCG
Found at i:36143419 original size:161 final size:161
Alignment explanation
Indices: 36143149--36143487 Score: 462
Period size: 161 Copynumber: 2.1 Consensus size: 161
36143139 TGCAATAGCT
* *
36143149 GAGCTATAATCTTACACATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGTATTCACTAT
1 GAGCTATAGTCTTACACATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGGATTCACTAT
* * * *
36143214 CCTGATGGACTCTTTATGCTGCCACAACCAAGCTATGGTCTTACACATGTAACCCTATGTTTGAT
66 CCTGATGGACTCCTTATGCTGCCACAACCAAGCTATGATCTTACACATGTAACCCCATGTTTAAT
* *
36143279 GTCTCAACGAACTTTATTGGTTGTCATAGGC
131 GTCCCAACGAACTCTATTGGTTGTCATAGGC
* * * * * * *
36143310 GAGCTATGGTCTTACATATGTAACCCCATGTTTAATGTCTTGGTGGATTACCTCGGGTTTACTGT
1 GAGCTATAGTCTTACACATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGGATTCACTAT
* * * *
36143375 CTTGATGGACTCCTTATGCTGCCATAACCGAGCTATGATCTTACATATGTAACCCCATGTTTAAT
66 CCTGATGGACTCCTTATGCTGCCACAACCAAGCTATGATCTTACACATGTAACCCCATGTTTAAT
* * * *
36143440 TTCCCAATGGACTCTATTGGTTGTCATAGTC
131 GTCCCAACGAACTCTATTGGTTGTCATAGGC
*
36143471 GAGATATAGTCTTACAC
1 GAGCTATAGTCTTACAC
36143488 TTTTAAAGCT
Statistics
Matches: 152, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
161 152 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (161 bp):
GAGCTATAGTCTTACACATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGGATTCACTAT
CCTGATGGACTCCTTATGCTGCCACAACCAAGCTATGATCTTACACATGTAACCCCATGTTTAAT
GTCCCAACGAACTCTATTGGTTGTCATAGGC
Found at i:36145831 original size:16 final size:16
Alignment explanation
Indices: 36145810--36145847 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
36145800 TAGAACTGAG
*
36145810 TTAAAAAATTATTTAA
1 TTAAAAAATTAATTAA
36145826 TTAAAAAATTAATTAA
1 TTAAAAAATTAATTAA
36145842 TTAAAA
1 TTAAAA
36145848 TTAATTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAAAATTAATTAA
Found at i:36145860 original size:14 final size:14
Alignment explanation
Indices: 36145814--36145853 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
36145804 ACTGAGTTAA
*
36145814 AAAATTATTTAATT
1 AAAATTAATTAATT
36145828 AAAAAATTAATTAATT
1 --AAAATTAATTAATT
36145844 AAAATTAATT
1 AAAATTAATT
36145854 TGATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTAATTAATT
Found at i:36147788 original size:19 final size:19
Alignment explanation
Indices: 36147764--36147803 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36147754 CTCAAAAGCG
36147764 AAAAGCAACAAGCAAA-CAA
1 AAAAGCAACAAG-AAAGCAA
*
36147783 AAAAGCCACAAGAAAGCAA
1 AAAAGCAACAAGAAAGCAA
36147802 AA
1 AA
36147804 TGCACACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.68, C:0.20, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAGCAACAAGAAAGCAA
Found at i:36150748 original size:7 final size:6
Alignment explanation
Indices: 36150720--36150744 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36150710 CTATTTTATT
36150720 ATTTAA ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA A
36150745 ATTTTTCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:36152491 original size:114 final size:114
Alignment explanation
Indices: 36152190--36152746 Score: 802
Period size: 114 Copynumber: 4.9 Consensus size: 114
36152180 AAAATAAGCA
* *
36152190 TTAGCGGCGTTTTTGAGAAAGCACCGC-AAAAAACCTAAGCCCAACGACG-TCG-TTTCTCGAGC
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCT-GTTTTCT-GAGC
* * *
36152252 TTTCGGGGATTTAGAGGCATTTATAAGAAAGCGCCGCTAATGCTCAGGGCT
64 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
36152303 TTAGCGGCGTTTTTGGG-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGCTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
* * *
36152367 TCGGGGATTTAGCGGCTTTTTTAAGAAAGCGCCGCTAATGCTCGGGGTT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
36152416 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTTTAAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
* * *
36152481 TCAGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTTAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
**
36152530 TTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
* * * *
36152595 TCAGGGATTTAGCGGCGTTTTT-GGTAAAGTGCCGCTAATGCCCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGCT
* *
36152644 TTAGCGGCGTTTTTGGAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
* *
36152709 TCGGGGATTTTGCGGCGTTTTT-TGAAAAGCGCCGCTAA
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAA
36152747 AAATATTTTA
Statistics
Matches: 402, Mismatches: 37, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
112 8 0.02
113 106 0.26
114 288 0.72
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:36153030 original size:14 final size:14
Alignment explanation
Indices: 36152989--36153030 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
36152979 AGTTCATATT
36152989 TTATGGTTTAGGGA
1 TTATGGTTTAGGGA
*
36153003 GTATGGGTTTAGGGA
1 TTAT-GGTTTAGGGA
*
36153018 TTATGGATTAGGG
1 TTATGGTTTAGGG
36153031 GTTGGGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (14 bp):
TTATGGTTTAGGGA
Found at i:36153348 original size:14 final size:14
Alignment explanation
Indices: 36153329--36153362 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
36153319 GATTAGGGGT
36153329 TTAGGGGTT-AGATG
1 TTAGGGGTTAAGA-G
36153343 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
36153357 TTAGGG
1 TTAGGG
36153363 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:36154300 original size:113 final size:114
Alignment explanation
Indices: 36154131--36154358 Score: 395
Period size: 113 Copynumber: 2.0 Consensus size: 114
36154121 CCGCTAAAGG
*
36154131 TAAGCAATAGCGGCGTTTTCTATAAAAACGCTACAAAAAATAAATCAATTTATAAAAAAATAAAA
1 TAAGCAATAGCGGCGTTTTCTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAAATAAAA
* *
36154196 AAAATTTAGAATAGTAAAACGGCGTTGTTTTGTTCAAAATGAAAAAAAT
66 AAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAT
* *
36154245 TAAGCAATAGCGGCGTTTTCTAT-AAAACGCCGCAAAAAATAAGTCAATTTATAAAAAAATAAAA
1 TAAGCAATAGCGGCGTTTTCTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAAATAAAA
*
36154309 AAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAT
66 AAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAT
36154358 T
1 T
36154359 TGCGGCGCTT
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
113 85 0.79
114 23 0.21
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (114 bp):
TAAGCAATAGCGGCGTTTTCTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAAATAAAA
AAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAT
Found at i:36154406 original size:145 final size:145
Alignment explanation
Indices: 36154245--36154883 Score: 1151
Period size: 145 Copynumber: 4.4 Consensus size: 145
36154235 TGAAAAAAAT
*
36154245 TAAGCAATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAGTCAATTTATAAAAAAATAAAAA
1 TAAGCAATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAA
36154310 AATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAG
66 AATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAG
36154375 AAGCGCCGCTAAAGG
131 AAGCGCCGCTAAAGG
36154390 TAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAT-AAA
1 TAAGCAATAGCGGCGTTTTCTAT-AAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAA
*
36154454 AAATTTTAGAATAGTAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAA
65 AAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAA
36154519 GAAGCGCCGCTAAAGG
130 GAAGCGCCGCTAAAGG
* *
36154535 TAAGCAATAGCGGTGTTTT-TAT-AAACGCCGTAAAAAATAAATCAATTTATAAAAAAATAAAAA
1 TAAGCAATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAA
*
36154598 AATTTTAGAATAGCAAAACGACGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAG
66 AATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAG
36154663 AAGCGCCGCTAAAGG
131 AAGCGCCGCTAAAGG
* *
36154678 TAAGCAATAGCGGCGTTTTCTATAAAAATGCCGCAAAAAATAAATAAATTTATAAAAAAATAAAA
1 TAAGCAATAGCGGCGTTTTCTAT-AAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAA
*
36154743 AAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTTGTGGCGCTTTATA
65 AAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAA-TTTGCGGCGCTTTATA
36154808 AGAAGCGCCGCTAAAGG
129 AGAAGCGCCGCTAAAGG
36154825 TAAGCAATAGCGGCGTTTTCTA-AAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAT
1 TAAGCAATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAT
36154884 TCCCAAAATT
Statistics
Matches: 474, Mismatches: 14, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
142 35 0.07
143 100 0.21
144 6 0.01
145 159 0.34
146 120 0.25
147 54 0.11
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (145 bp):
TAAGCAATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAA
AATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAG
AAGCGCCGCTAAAGG
Found at i:36154589 original size:288 final size:291
Alignment explanation
Indices: 36154245--36154883 Score: 1167
Period size: 288 Copynumber: 2.2 Consensus size: 291
36154235 TGAAAAAAAT
*
36154245 TAAGCAATAGCGGCGTTTTCTATAAAACGCCGCAAAAAATAAGTCAATTTATAAAAAAATAAAAA
1 TAAGCAATAGCGGCGTTTTCTAT-AAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAA
*
36154310 AATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAG
65 AATTTTAGAATAGCAAAACGACGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAG
*
36154375 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATCAATT
130 AAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATAAATT
*
36154440 TATAAAAAAAT-AAAAAATTTTAGAATAGTAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAA-T
195 TATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATT
36154503 TTGCGGCGCTTTATAAGAAGCGCCGCTAAAGG
260 TTGCGGCGCTTTATAAGAAGCGCCGCTAAAGG
* *
36154535 TAAGCAATAGCGGTGTTTT-TATAAACGCCGTAAAAAATAAATCAATTTATAAAAAAATAAAAAA
1 TAAGCAATAGCGGCGTTTTCTATAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAA
36154599 ATTTTAGAATAGCAAAACGACGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGA
66 ATTTTAGAATAGCAAAACGACGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGA
*
36154664 AGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAATGCCGCAAAAAATAAATAAATTT
131 AGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATAAATTT
36154729 ATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTT
196 ATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTT
*
36154794 TGTGGCGCTTTATAAGAAGCGCCGCTAAAGG
261 TGCGGCGCTTTATAAGAAGCGCCGCTAAAGG
*
36154825 TAAGCAATAGCGGCGTTTTCTAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAT
1 TAAGCAATAGCGGCGTTTTCTATAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAT
36154884 TCCCAAAATT
Statistics
Matches: 335, Mismatches: 11, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
288 177 0.53
289 53 0.16
290 68 0.20
291 37 0.11
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (291 bp):
TAAGCAATAGCGGCGTTTTCTATAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAA
ATTTTAGAATAGCAAAACGACGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGCTTTATAAGA
AGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAAAATAAATAAATTT
ATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTT
TGCGGCGCTTTATAAGAAGCGCCGCTAAAGG
Found at i:36156968 original size:14 final size:14
Alignment explanation
Indices: 36156949--36156977 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36156939 TCAGTTTGAT
36156949 TATTTTTAGTTTTA
1 TATTTTTAGTTTTA
36156963 TATTTTTAGTTTTA
1 TATTTTTAGTTTTA
36156977 T
1 T
36156978 TTTAGTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TATTTTTAGTTTTA
Found at i:36158677 original size:43 final size:42
Alignment explanation
Indices: 36158627--36158784 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 42
36158617 CATAAATGCT
* *
36158627 GCTAAAGAATCGTACTTTTAGCGGCGTTTGTGATAAAAGCGCC
1 GCTAAAGAATCGTTC-TTTAGCGGCGTTTGTGATAAAAGAGCC
* * *
36158670 GCTAAAG-ATCATGTTCTTTAGTGGCGTTTGTGAAAAAAGAGCT
1 GCTAAAGAATC--GTTCTTTAGCGGCGTTTGTGATAAAAGAGCC
* *
36158713 GCTAAAGATTAT-GTTCTTTAGCGGCATTTGTGAGT-AAAGTGCC
1 GCTAAAGA--ATCGTTCTTTAGCGGCGTTTGTGA-TAAAAGAGCC
*
36158756 GCTAAAGAA-CATGTTCTTTAGCGGTGTTT
1 GCTAAAGAATC--GTTCTTTAGCGGCGTTT
36158785 TGTTTTTAAG
Statistics
Matches: 94, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 85 0.90
44 3 0.03
46 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
GCTAAAGAATCGTTCTTTAGCGGCGTTTGTGATAAAAGAGCC
Found at i:36158818 original size:86 final size:86
Alignment explanation
Indices: 36158643--36158823 Score: 195
Period size: 86 Copynumber: 2.1 Consensus size: 86
36158633 GAATCGTACT
* * *
36158643 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGTGGCGTTTGTGAAAAAA
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTGAAAAAA
* ** **
36158708 GAGCTGCTAAAGATTATGTTC
66 GAGCCGCTAAAGAACATGACC
* * ****
36158729 TTTAGCGGCATTTGTGAGT-AAAGTGCCGCTAAAGAACATGTTCTTTAGCGGTGTTT-TGTTTTT
1 TTTAGCGGCATTTGTGA-TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTG-AAAA
*
36158792 AAGCGCCGCTAAAGAACATGACC
64 AAGAGCCGCTAAAGAACATGACC
36158815 TTTAGCGGC
1 TTTAGCGGC
36158824 GTTTATTTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
85 2 0.03
86 75 0.96
87 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (86 bp):
TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTGAAAAAA
GAGCCGCTAAAGAACATGACC
Found at i:36166567 original size:38 final size:38
Alignment explanation
Indices: 36166512--36166591 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
36166502 AATTGATTTG
*
36166512 TATATGAAGATAAGTTGCTGAATTGATTCGTATATAAT
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
*
36166550 TATATGAAGATAGGTTGCCGAATTGATTCGTATATAAT
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
36166588 TATA
1 TATA
36166592 CATTGCTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (38 bp):
TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
Found at i:36166859 original size:184 final size:184
Alignment explanation
Indices: 36166550--36167075 Score: 953
Period size: 184 Copynumber: 2.9 Consensus size: 184
36166540 CGTATATAAT
* *
36166550 TATATGAAGATAGGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
36166615 TGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGTCGAATTGATTCGTATATGAT
66 TGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGTCGAATTGATTCGTATATGAT
* *
36166680 TATACATTACTAAAATTTATTTGTATATGGTTATATATTATCGAAATTTATTTG
131 TATACATTACTGAAATTTATTTGTATATGGTTATATATTATCAAAATTTATTTG
36166734 TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
*
36166799 TGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGCCGAATTGATTCGTATATGAT
66 TGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGTCGAATTGATTCGTATATGAT
36166864 TATACATTACTGAAATTTATTTGTATATGGTTATATATTATCAAAATTTATTTG
131 TATACATTACTGAAATTTATTTGTATATGGTTATATATTATCAAAATTTATTTG
* *
36166918 TATATGAAGATAAGTTGCCAAATTAATTCGTATATAATTATACATTGCTGAAATTTACTTGTATA
1 TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
*
36166983 TGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGTCGAATTGATTTGTATATGAT
66 TGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGTCGAATTGATTCGTATATGAT
* * *
36167048 TATACTTTGCTGAAATTGATTTGTATAT
131 TATACATTACTGAAATTTATTTGTATAT
36167076 AAAGATAAGT
Statistics
Matches: 330, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 330 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (184 bp):
TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
TGGTTATACATTATCGAAATTGATTTGTATATGAAGATAAGTTGTCGAATTGATTCGTATATGAT
TATACATTACTGAAATTTATTTGTATATGGTTATATATTATCAAAATTTATTTG
Done.