Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 194 of 318
Found at i:61070919 original size:49 final size:49
Alignment explanation
Indices: 61070858--61071090 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 49
61070848 AAGCTATCTG
* * * *
61070858 GTACGCATAGTAGCCTGCACTTAGTACTAAAAATGCGACCAATTATCCA
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCA
* ** *
61070907 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CT
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCA
* * * **
61070956 GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGG
1 G-TACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCA
* * * *
61071008 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCA
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCA
61071057 GTACACATAGTA-CTCTGCACTTAGTACTACACAC
1 GTACACATAGTAGC-CTGCACTTAGTACTACACAC
61071091 ATGACCTCAC
Statistics
Matches: 152, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 70 0.46
50 45 0.30
51 35 0.23
52 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCA
Found at i:61077481 original size:22 final size:23
Alignment explanation
Indices: 61077456--61077499 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
61077446 ATAATGAGTA
61077456 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
61077478 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
61077500 ATATAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:61077501 original size:20 final size:21
Alignment explanation
Indices: 61077454--61077504 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
61077444 CGATAATGAG
61077454 TAAAATATATAAATATAAATA
1 TAAAATATATAAATATAAATA
* * *
61077475 AACAAATATTTATATATAAA-A
1 TA-AAATATATAAATATAAATA
61077496 TAAAATATA
1 TAAAATATA
61077505 AATTGAATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 6 0.25
21 3 0.12
22 15 0.62
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATATATAAATATAAATA
Found at i:61079227 original size:66 final size:66
Alignment explanation
Indices: 61079121--61079249 Score: 240
Period size: 66 Copynumber: 2.0 Consensus size: 66
61079111 CTTTTATCTA
* *
61079121 AAAAAGTAAAAGGGAGGATTGTTTTGTTTCTTCTAAGGAATACCATTAGTTAATGTTTTGCTATT
1 AAAAACTAAAAGGGAGGATTGTTTTGTTTCGTCTAAGGAATACCATTAGTTAATGTTTTGCTATT
61079186 T
66 T
61079187 AAAAACTAAAAGGGAGGATTGTTTTGTTTCGTCTAAGGAATACCATTAGTTAATGTTTTGCTA
1 AAAAACTAAAAGGGAGGATTGTTTTGTTTCGTCTAAGGAATACCATTAGTTAATGTTTTGCTA
61079250 GGTAAACTTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (66 bp):
AAAAACTAAAAGGGAGGATTGTTTTGTTTCGTCTAAGGAATACCATTAGTTAATGTTTTGCTATT
T
Found at i:61083486 original size:53 final size:53
Alignment explanation
Indices: 61083329--61083585 Score: 233
Period size: 53 Copynumber: 4.9 Consensus size: 53
61083319 TCCTTAAATT
*
61083329 TTTCCATATGATGCCATAACCTACCAGTTAC-GATCTTACATGATATGGTCTTC
1 TTTCCATATGATGACATAACCTACCAGTTACTG-TCTTACATGATATGGTCTTC
* * * * * *
61083382 TTT-C-TATG-TAATATCATCCTACCTA-TTACAGTCTTACACGATATGGACTTC
1 TTTCCATATGATGACAT-AACCTACC-AGTTACTGTCTTACATGATATGGTCTTC
* * * *
61083433 TTTCTATATGATGATATAACCTACCAGTTACTGTCATACATGATACGGTCTTC
1 TTTCCATATGATGACATAACCTACCAGTTACTGTCTTACATGATATGGTCTTC
* * * *
61083486 TTTCCATATGATGCCATAACCCACCAATTA-TGGTCTTACATGATATGATCTTC
1 TTTCCATATGATGACATAACCTACCAGTTACT-GTCTTACATGATATGGTCTTC
* * * *
61083539 TTTTCATATGATTG-CGTAACCTACCAGTTA-TGATTTTACACGATATG
1 TTTCCATATGA-TGACATAACCTACCAGTTACTG-TCTTACATGATATG
61083586 ATCCTTCCAC
Statistics
Matches: 166, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
50 3 0.02
51 36 0.22
52 6 0.04
53 114 0.69
54 7 0.04
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (53 bp):
TTTCCATATGATGACATAACCTACCAGTTACTGTCTTACATGATATGGTCTTC
Found at i:61092429 original size:27 final size:26
Alignment explanation
Indices: 61092398--61092575 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
61092388 TAAATTGTAC
*
61092398 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
61092425 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
61092451 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
61092479 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
61092507 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
61092534 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
61092561 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61092576 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:61092513 original size:82 final size:81
Alignment explanation
Indices: 61092399--61092554 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
61092389 AAATTGTACA
* *
61092399 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTACGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATACGTA-GCACTAAGTG
61092463 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * * ** *
61092480 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTACGAAATGAATACGTAGCACTAAGTG
*
61092545 TGCGAGTTGA
65 TGCGAATTGA
61092555 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 14 0.22
82 49 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61092521 original size:55 final size:54
Alignment explanation
Indices: 61092426--61092575 Score: 158
Period size: 55 Copynumber: 2.8 Consensus size: 54
61092416 CGACTATGTT
* ** * * *
61092426 GCACTAAGTGTACGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCA
* * ** *
61092480 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCA
* *
61092535 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTGTGCG
61092576 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 37 0.46
55 43 0.54
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCA
Found at i:61092566 original size:82 final size:81
Alignment explanation
Indices: 61092395--61092575 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
61092385 GATTAAATTG
* * *
61092395 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
61092460 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * ** *
61092476 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTACGAAATGAATACGAT-GCACT
* **
61092540 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61092558 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61092576 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61092586 original size:27 final size:27
Alignment explanation
Indices: 61092480--61092586 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
61092470 TGACCATGCG
* * * *
61092480 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
61092508 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
61092535 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
61092562 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
61092587 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:61105445 original size:16 final size:16
Alignment explanation
Indices: 61105420--61105454 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
61105410 AAAAACCACA
*
61105420 TAGTTGAGAGAATTAC
1 TAGTTAAGAGAATTAC
61105436 TAGTTAAGAGAATTAC
1 TAGTTAAGAGAATTAC
61105452 TAG
1 TAG
61105455 CACATGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (16 bp):
TAGTTAAGAGAATTAC
Found at i:61113058 original size:88 final size:88
Alignment explanation
Indices: 61112909--61113353 Score: 635
Period size: 88 Copynumber: 5.1 Consensus size: 88
61112899 ATTGAAAAGA
* * *
61112909 TTATGTGATGTTTGAACA-CTAATGAAGGTTAGCAGTTTAATCAGACATATTTTGT-AGTGAGGC
1 TTATGTGATGTATGAACATC-AATGAAAGTTAGCAGTTTAATCAGACATATTTTATGA-TGAGGC
61112972 ATAACATGCTAGCAACTCTTGAATT
64 ATAACATGCTAGCAACTCTTGAATT
* *
61112997 TTATGTGATGTATGAACATCGATGAAAGTTAGCAGTTTAATCAAACATATTTTATGATGAGGCAT
1 TTATGTGATGTATGAACATCAATGAAAGTTAGCAGTTTAATCAGACATATTTTATGATGAGGCAT
61113062 AACATGCTAGCAACTCTTGAATT
66 AACATGCTAGCAACTCTTGAATT
* * * *
61113085 TTATGTGATGCATGAACATCGATCAAAGTTAGCAGTTTAATCAGACATATTTTATGATAAGGCAT
1 TTATGTGATGTATGAACATCAATGAAAGTTAGCAGTTTAATCAGACATATTTTATGATGAGGCAT
* *
61113150 AACATACCAGCAACTCTTGAATT
66 AACATGCTAGCAACTCTTGAATT
* * *
61113173 TTATGTGATGCACGAACATCAATGAAAGTTAGCAGTTTAATTAGACATATTTTATGATGAGGCAT
1 TTATGTGATGTATGAACATCAATGAAAGTTAGCAGTTTAATCAGACATATTTTATGATGAGGCAT
*
61113238 AACATGCTAGCAACACTTGAATT
66 AACATGCTAGCAACTCTTGAATT
* * * *
61113261 TTTTATAATGTATGAACATCAATGAAAGTTAGCAGTTCAAT-AGGACATATTTTATGATGAGGCA
1 TTATGTGATGTATGAACATCAATGAAAGTTAGCAGTTTAATCA-GACATATTTTATGATGAGGCA
* ** *
61113325 TAACTTGCTAAAAACTTTTGAATT
65 TAACATGCTAGCAACTCTTGAATT
61113349 TTATG
1 TTATG
61113354 GCAAAGTATC
Statistics
Matches: 322, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.00
88 319 0.99
89 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (88 bp):
TTATGTGATGTATGAACATCAATGAAAGTTAGCAGTTTAATCAGACATATTTTATGATGAGGCAT
AACATGCTAGCAACTCTTGAATT
Found at i:61113666 original size:22 final size:22
Alignment explanation
Indices: 61113641--61113685 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
61113631 GACAGCTAGG
61113641 AGCAAGGGATCTGATCATCCAC
1 AGCAAGGGATCTGATCATCCAC
61113663 AGCAAGGGATCTGATCATCCAC
1 AGCAAGGGATCTGATCATCCAC
61113685 A
1 A
61113686 CAAATTCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (22 bp):
AGCAAGGGATCTGATCATCCAC
Found at i:61118634 original size:17 final size:17
Alignment explanation
Indices: 61118612--61118646 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
61118602 CGTGCCCTAC
61118612 AAGCCTGAAATTCGCAA
1 AAGCCTGAAATTCGCAA
*
61118629 AAGCCTGAAATTTGCAA
1 AAGCCTGAAATTCGCAA
61118646 A
1 A
61118647 GAATATCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (17 bp):
AAGCCTGAAATTCGCAA
Found at i:61120476 original size:28 final size:28
Alignment explanation
Indices: 61120428--61120481 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
61120418 TTTTAAATTC
61120428 TAATTAAAAAATTAAAG-AAAATTTACT
1 TAATTAAAAAATTAAAGAAAAATTTACT
* *
61120455 TAATTACAAAAATTATATAAAAATTTA
1 TAATTA-AAAAATTAAAGAAAAATTTA
61120482 GAACCTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 9 0.39
29 8 0.35
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (28 bp):
TAATTAAAAAATTAAAGAAAAATTTACT
Found at i:61126338 original size:27 final size:27
Alignment explanation
Indices: 61126308--61126485 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61126298 ATATTGAGTC
* * * *
61126308 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61126335 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61126362 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61126390 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61126417 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61126444 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61126471 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61126486 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61126447 original size:82 final size:81
Alignment explanation
Indices: 61126329--61126484 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61126319 TGCTATATAA
* *
61126329 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61126394 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61126411 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61126475 CACTTAGTGC
65 CACTTAGTGC
61126485 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61139868 original size:20 final size:21
Alignment explanation
Indices: 61139814--61139869 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
61139804 TGAATATATA
*
61139814 GAAATACAATCTTATAAATTT
1 GAAATACAATTTTATAAATTT
* * *
61139835 AAATATATAATTTTATATATTT
1 GAA-ATACAATTTTATAAATTT
61139857 GAAATA-AATTTTA
1 GAAATACAATTTTA
61139870 ATAGAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 7 0.24
21 5 0.17
22 17 0.59
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
GAAATACAATTTTATAAATTT
Found at i:61140293 original size:10 final size:10
Alignment explanation
Indices: 61140257--61140286 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
61140247 GTCTATCTCT
61140257 AAAAAAATTAC
1 AAAAAAATT-C
61140268 AAAAAAATTC
1 AAAAAAATTC
61140278 AAAAAAATT
1 AAAAAAATT
61140287 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:61140957 original size:13 final size:15
Alignment explanation
Indices: 61140931--61140963 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
61140921 TAAAATGAAA
61140931 ATAAATTGAAA-TTT
1 ATAAATTGAAATTTT
61140945 ATAAATT-AAATTTT
1 ATAAATTGAAATTTT
61140959 ATAAA
1 ATAAA
61140964 AAAATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATTGAAATTTT
Found at i:61142219 original size:22 final size:22
Alignment explanation
Indices: 61142191--61142232 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
61142181 CACAGTGGGC
*
61142191 ATTCTTCTTATGCTTTTTATGG
1 ATTCTTCTTATCCTTTTTATGG
*
61142213 ATTCTTCTTCTCCTTTTTAT
1 ATTCTTCTTATCCTTTTTAT
61142233 TTCCCCGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.07, T:0.62
Consensus pattern (22 bp):
ATTCTTCTTATCCTTTTTATGG
Found at i:61142925 original size:15 final size:15
Alignment explanation
Indices: 61142905--61142937 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
61142895 CGTTATTAAC
61142905 TTACAACTTCATAAT
1 TTACAACTTCATAAT
61142920 TTACAACTTCATAAT
1 TTACAACTTCATAAT
61142935 TTA
1 TTA
61142938 GGGAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (15 bp):
TTACAACTTCATAAT
Found at i:61146056 original size:7 final size:7
Alignment explanation
Indices: 61146044--61146069 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61146034 ATACAAATTC
61146044 AAAAGTT
1 AAAAGTT
61146051 AAAAGTT
1 AAAAGTT
61146058 AAAAGTT
1 AAAAGTT
61146065 AAAAG
1 AAAAG
61146070 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (7 bp):
AAAAGTT
Found at i:61146316 original size:25 final size:25
Alignment explanation
Indices: 61146275--61146323 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
61146265 TGATTTTTAT
*
61146275 TTTTCATAACTTATTTTAATGAGAG
1 TTTTCATAACTGATTTTAATGAGAG
* *
61146300 TTTTCATAACTGGTTTTGATGAGA
1 TTTTCATAACTGATTTTAATGAGA
61146324 ATTAAAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (25 bp):
TTTTCATAACTGATTTTAATGAGAG
Found at i:61146676 original size:18 final size:18
Alignment explanation
Indices: 61146653--61146690 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61146643 AATATATATT
61146653 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
*
61146671 AACCCAATTACTCAACCC
1 AACCCAATTACCCAACCC
61146689 AA
1 AA
61146691 TCATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:61146757 original size:19 final size:19
Alignment explanation
Indices: 61146693--61146758 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
61146683 CAACCCAATC
* * *
61146693 ATAAAAAATTACAAATAAT
1 ATAAAAAACTAAAAATAAA
* *
61146712 TTAATAAA-TAAAAATAAAA
1 ATAAAAAACTAAAAAT-AAA
**
61146731 ATCTAAAACTAAAAATAAA
1 ATAAAAAACTAAAAATAAA
61146750 ATAAAAAAC
1 ATAAAAAAC
61146759 ATATAATTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
18 6 0.17
19 22 0.63
20 7 0.20
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAAAAAACTAAAAATAAA
Found at i:61146798 original size:18 final size:18
Alignment explanation
Indices: 61146775--61146844 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
61146765 TTTTATATAA
*
61146775 ATAATTCAGTTAATTTGG
1 ATAATTCGGTTAATTTGG
*
61146793 ATAATTCGGGTAATTTGG
1 ATAATTCGGTTAATTTGG
* * **
61146811 GTAATTCGATTAATTCAG
1 ATAATTCGGTTAATTTGG
*
61146829 TTAATTCGGTTAATTT
1 ATAATTCGGTTAATTT
61146845 TATACTTATT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (18 bp):
ATAATTCGGTTAATTTGG
Found at i:61153937 original size:43 final size:43
Alignment explanation
Indices: 61153876--61153959 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
61153866 TAATTAAGCA
*
61153876 ATCCGAGCTCGTTGAGTGG-TCTGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCATTGAGTGGTTC-GAGTTCATTATGGATGCGAGC
*
61153919 ATCCGAGCTCATTGAGTGGTTCGAGTTCATTGTGGATGCGA
1 ATCCGAGCTCATTGAGTGGTTCGAGTTCATTATGGATGCGA
61153960 TGCCTGTGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 36 0.95
44 2 0.05
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (43 bp):
ATCCGAGCTCATTGAGTGGTTCGAGTTCATTATGGATGCGAGC
Found at i:61154443 original size:32 final size:32
Alignment explanation
Indices: 61154406--61154470 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
61154396 GGGATCCATG
61154406 AAATGATGAGTCCATGATCAATGTGACAATGA
1 AAATGATGAGTCCATGATCAATGTGACAATGA
61154438 AAATGATGAGTCCATGATCAATGTGACAATGA
1 AAATGATGAGTCCATGATCAATGTGACAATGA
61154470 A
1 A
61154471 CTTATGTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (32 bp):
AAATGATGAGTCCATGATCAATGTGACAATGA
Found at i:61159495 original size:24 final size:24
Alignment explanation
Indices: 61159468--61159513 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
61159458 ATTTTCATCA
61159468 AAATTTCCAATCATTCAAGCCTTG
1 AAATTTCCAATCATTCAAGCCTTG
61159492 AAATTTCCAATCATTCAAGCCT
1 AAATTTCCAATCATTCAAGCCT
61159514 AACCTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.33
Consensus pattern (24 bp):
AAATTTCCAATCATTCAAGCCTTG
Found at i:61164080 original size:43 final size:43
Alignment explanation
Indices: 61164019--61164185 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
61164009 GATTAACGAG
* * *
61164019 ATGTGATTATGTGTAAGACCATGTATGGGACATTGGCCTCATT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* * *
61164062 ATGTGATTACGTGTAAGACTATGTCTAGGACATTGGCATCGTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* * * *
61164105 ATTTGATTTCGTGTAAGACCATAG-CTGGG-CTATCGGCATCAAT
1 ATGTGATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCATT
* * * *
61164148 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCAT
61164186 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 20, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
42 6 0.06
43 93 0.93
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:61171632 original size:43 final size:43
Alignment explanation
Indices: 61171584--61171691 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
61171574 GATTAATGAG
*
61171584 ATGTGATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATGTCTGGGAAATTAGCATCATT
** * ** *
61171627 ATGTGATTACATGTAAGACCATGTTTGGGACGTTAGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTCTGGGAAATTAGCATCATT
* *
61171670 ATTTGATTTTGTGTAAGACCAT
1 ATGTGATTATGTGTAAGACCAT
61171692 AGCTAGGCTA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTGGGAAATTAGCATCATT
Found at i:61181604 original size:57 final size:57
Alignment explanation
Indices: 61181516--61181634 Score: 220
Period size: 57 Copynumber: 2.1 Consensus size: 57
61181506 TCTATCTTAC
*
61181516 CTACAATATTCTCGCCTTCTTGAAATTATGTTGTTTCACAGATTCTTCTAACGAACT
1 CTACAACATTCTCGCCTTCTTGAAATTATGTTGTTTCACAGATTCTTCTAACGAACT
*
61181573 CTACAACATTCTCGCCTTCTTGAAATTATGTTGTTTCACATATTCTTCTAACGAACT
1 CTACAACATTCTCGCCTTCTTGAAATTATGTTGTTTCACAGATTCTTCTAACGAACT
61181630 CTACA
1 CTACA
61181635 TTCTCAATGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.39
Consensus pattern (57 bp):
CTACAACATTCTCGCCTTCTTGAAATTATGTTGTTTCACAGATTCTTCTAACGAACT
Found at i:61182827 original size:22 final size:22
Alignment explanation
Indices: 61182782--61182828 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
61182772 AATTTAGCCA
* **
61182782 AAAATCTCTAAAATTTCTCTTT
1 AAAAGCTCTAAAATTTCTAATT
*
61182804 AAAAGCTCTCAAATTTCTAATT
1 AAAAGCTCTAAAATTTCTAATT
61182826 AAA
1 AAA
61182829 TTTCTCAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAGCTCTAAAATTTCTAATT
Found at i:61183106 original size:53 final size:53
Alignment explanation
Indices: 61182988--61183095 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
61182978 TGGTAACGGT
* *
61182988 TTATTTTAAATGTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
1 TTATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
61183041 TTATTTTAATTTTTGAATATTATTTAATA-TTTTTTCATTTATGTAATTTTAA
1 TTATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
61183093 TTA
1 TTA
61183096 ATTTGTATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
52 26 0.49
53 27 0.51
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (53 bp):
TTATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
Found at i:61184000 original size:29 final size:29
Alignment explanation
Indices: 61183968--61184027 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
61183958 AATATATATA
* *
61183968 TATATAATAGTCGTTTCATATTTAGTACT
1 TATAAAATAGTCATTTCATATTTAGTACT
*
61183997 TATAAAATAGTTATTTCATATTTAGTACT
1 TATAAAATAGTCATTTCATATTTAGTACT
61184026 TA
1 TA
61184028 GTATTTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (29 bp):
TATAAAATAGTCATTTCATATTTAGTACT
Found at i:61184028 original size:7 final size:7
Alignment explanation
Indices: 61184015--61184046 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
61184005 AGTTATTTCA
61184015 TATTTAG
1 TATTTAG
*
61184022 TACTTAG
1 TATTTAG
61184029 TATTTAG
1 TATTTAG
61184036 TATTTAG
1 TATTTAG
61184043 TATT
1 TATT
61184047 ATGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (7 bp):
TATTTAG
Found at i:61184627 original size:30 final size:30
Alignment explanation
Indices: 61184546--61184640 Score: 109
Period size: 30 Copynumber: 3.2 Consensus size: 30
61184536 GATGGGACAG
* ** * *
61184546 GCCCATCAACCGTGTCCACACAATCATCGG
1 GCCCATCAACAGTACCCACACAATCACCGA
* * **
61184576 GCCCATCAATAGCACTTACACAATCACCGA
1 GCCCATCAACAGTACCCACACAATCACCGA
61184606 GCCCATCAACAGTACCCACACAATCACCGA
1 GCCCATCAACAGTACCCACACAATCACCGA
61184636 GCCCA
1 GCCCA
61184641 ATGCCTCAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.33, C:0.41, G:0.13, T:0.14
Consensus pattern (30 bp):
GCCCATCAACAGTACCCACACAATCACCGA
Found at i:61187642 original size:12 final size:12
Alignment explanation
Indices: 61187625--61187649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61187615 TACATGTCCC
61187625 ATCCACTAACCG
1 ATCCACTAACCG
61187637 ATCCACTAACCG
1 ATCCACTAACCG
61187649 A
1 A
61187650 GTGTCGTGTA
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:0.36, C:0.40, G:0.08, T:0.16
Consensus pattern (12 bp):
ATCCACTAACCG
Found at i:61188442 original size:125 final size:125
Alignment explanation
Indices: 61188220--61188466 Score: 415
Period size: 125 Copynumber: 2.0 Consensus size: 125
61188210 GGCCAAGCAT
* * * *
61188220 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTAGAAATTTTGCTGATAGTGCATCC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTAGAAATTTTGCTAACAATACATCC
*
61188285 TGCTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTCTTCAG
66 TGCTTGAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTCTTCAG
*
61188345 GAACTACTGTAGAAAAA-AGCGTCTACGTGGGAGCTTTTTTCAGAAATTTTGCTAACAATACATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTT-AGAAATTTTGCTAACAATACATC
*
61188409 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTCTT
65 CTGCTTGAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTCTT
61188467 TAAGGTCAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
124 22 0.19
125 92 0.81
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTAGAAATTTTGCTAACAATACATCC
TGCTTGAAACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTCTTCAG
Found at i:61188589 original size:30 final size:28
Alignment explanation
Indices: 61188515--61188673 Score: 80
Period size: 30 Copynumber: 5.5 Consensus size: 28
61188505 CAATGTTGTT
*
61188515 TTAATTTAATTAATTT-TAACCCTAAACC
1 TTAATTT-ATTAATTTAAAACCCTAAACC
* * *
61188543 CTAATTTTATTTATTTAAAATCCTAGAACC
1 TTAA-TTTATTAATTTAAAACCCTA-AACC
61188573 TTAATTTAGTTAATTTACCTAAAACCCATAAACC
1 TTAATTTA-TTAA-TT---TAAAACCC-TAAACC
* * *
61188607 CTAGTTTAATTTATTTAAAACCCT-AA--
1 TTAATTT-ATTAATTTAAAACCCTAAACC
* *
61188633 -T--TTTATTTATTTAAAACCCTAAAAC
1 TTAATTTATTAATTTAAAACCCTAAACC
61188658 TCTAATTTACTTAATT
1 T-TAATTTA-TTAATT
61188674 CATTTAAAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 34
0.69 0.07 0.23
Matches are distributed among these distances:
22 16 0.16
23 5 0.05
25 1 0.01
27 1 0.01
28 12 0.12
29 18 0.18
30 23 0.23
31 2 0.02
33 2 0.02
34 19 0.19
35 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (28 bp):
TTAATTTATTAATTTAAAACCCTAAACC
Found at i:61188627 original size:22 final size:22
Alignment explanation
Indices: 61188602--61188654 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
61188592 TAAAACCCAT
*
61188602 AAACCCTAGTTTAATTTATTTA
1 AAACCCTAATTTAATTTATTTA
*
61188624 AAACCCTAATTTTATTTATTTA
1 AAACCCTAATTTAATTTATTTA
61188646 AAACCCTAA
1 AAACCCTAA
61188655 AACTCTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (22 bp):
AAACCCTAATTTAATTTATTTA
Found at i:61188690 original size:86 final size:86
Alignment explanation
Indices: 61188538--61188701 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 86
61188528 TTTTAACCCT
* * * * *
61188538 AAACCCTAATTTTATTTATTTAAAATCCTAGAACCTTAATTTAGTTAATTTACCTAAAACCCATA
1 AAACCCTAATTTTATTTATTTAAAACCCTAAAACCTTAATTTACTTAATTCACCTAAAAACCATA
*
61188603 AACCCTAGTTTAATTTATTTA
66 AACCCTAATTTAATTTATTTA
** **
61188624 AAACCCTAATTTTATTTATTTAAAACCCTAAAA-CTCTAATTTACTTAATTCATTTAAAAATTAT
1 AAACCCTAATTTTATTTATTTAAAACCCTAAAACCT-TAATTTACTTAATTCACCTAAAAACCAT
*
61188688 AAATCCTAATTTAA
65 AAACCCTAATTTAA
61188702 ATAATTTTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 2 0.03
86 64 0.97
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (86 bp):
AAACCCTAATTTTATTTATTTAAAACCCTAAAACCTTAATTTACTTAATTCACCTAAAAACCATA
AACCCTAATTTAATTTATTTA
Found at i:61189637 original size:12 final size:15
Alignment explanation
Indices: 61189605--61189633 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61189595 AAATTTTGAC
61189605 TAATTTTTTTAATAT
1 TAATTTTTTTAATAT
61189620 TAATTTTTTTAATA
1 TAATTTTTTTAATA
61189634 ATTTATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTAATAT
Found at i:61189969 original size:13 final size:14
Alignment explanation
Indices: 61189947--61189980 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
61189937 TATTTAAATC
*
61189947 AAATTGAATCAATT
1 AAATTAAATCAATT
61189961 -AATTAAATCAATT
1 AAATTAAATCAATT
61189974 AAATTAA
1 AAATTAA
61189981 GTATCGACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
AAATTAAATCAATT
Found at i:61190214 original size:18 final size:18
Alignment explanation
Indices: 61190193--61190230 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61190183 AAATAAATGA
61190193 AAAAGTAAATAGTTTCAT
1 AAAAGTAAATAGTTTCAT
*
61190211 AAAAGTAATTAGTTTCAT
1 AAAAGTAAATAGTTTCAT
61190229 AA
1 AA
61190231 TTTTCATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (18 bp):
AAAAGTAAATAGTTTCAT
Found at i:61190720 original size:15 final size:15
Alignment explanation
Indices: 61190700--61190731 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
61190690 GAAAGACTAA
61190700 AATGATATTTTTTAT
1 AATGATATTTTTTAT
61190715 AATGATATTTTTTAT
1 AATGATATTTTTTAT
61190730 AA
1 AA
61190732 AGGTGGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
AATGATATTTTTTAT
Found at i:61193395 original size:40 final size:40
Alignment explanation
Indices: 61193333--61193535 Score: 270
Period size: 40 Copynumber: 5.1 Consensus size: 40
61193323 AAACCAAGTA
* * *
61193333 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61193372 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61193412 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61193452 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
61193492 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61193532 CCTT
1 CCTT
61193536 TGTTATCATC
Statistics
Matches: 152, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.09
40 138 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61200658 original size:40 final size:40
Alignment explanation
Indices: 61200596--61200880 Score: 373
Period size: 40 Copynumber: 7.2 Consensus size: 40
61200586 AAACCAAGTA
* * *
61200596 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61200635 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61200675 CCTTCGGGACTTAGCCCGGATATAGTAACTCACAGC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-CAAATG
* *
61200715 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCACTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61200755 CCTTTGGGGCTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61200795 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
61200835 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61200875 CCTTCG
1 CCTTCG
61200881 TTATCATCCG
Statistics
Matches: 224, Mismatches: 17, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
39 15 0.07
40 208 0.93
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61203648 original size:20 final size:23
Alignment explanation
Indices: 61203625--61203670 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
61203615 TTATTCTATC
61203625 AAATTAT-AAT-TTAT-ATTATT
1 AAATTATGAATATTATGATTATT
*
61203645 AAATTATGATTATTATGATTATT
1 AAATTATGAATATTATGATTATT
61203668 AAA
1 AAA
61203671 AATAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 2 0.09
22 4 0.18
23 9 0.41
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
AAATTATGAATATTATGATTATT
Found at i:61203961 original size:13 final size:14
Alignment explanation
Indices: 61203943--61203989 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
61203933 TTATTAAGTT
61203943 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
61203956 AATAAAAGAAATGA
1 AATAAAATAAAAGA
61203970 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
*
61203983 AACAAAA
1 AATAAAA
61203990 CAAAGTAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.13
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:61204834 original size:40 final size:39
Alignment explanation
Indices: 61204749--61204857 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 39
61204739 AATTGAGACT
* * *
61204749 GATACTGAACTGAATTATGGAA-TACTGAATATTGTTTG
1 GATACTGAATTGAACTATGAAATTACTGAATATTGTTTG
* * *
61204787 GAATACTGAATTGAATTGTGAAGTTACTGAATATTGTTATG
1 G-ATACTGAATTGAACTATGAAATTACTGAATATTGTT-TG
*
61204828 TG-TACTGCATTGAACTATGAAATTACTGAA
1 -GATACTGAATTGAACTATGAAATTACTGAA
61204858 GTAATGAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 17 0.29
40 38 0.64
41 2 0.03
42 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (39 bp):
GATACTGAATTGAACTATGAAATTACTGAATATTGTTTG
Found at i:61205113 original size:45 final size:45
Alignment explanation
Indices: 61205057--61205162 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
61205047 ATGTGCCGAC
* * *
61205057 TACTATTACTGTTACTGATTC-GACACTTTGTATGTTGAATACTGT
1 TACTGTTACTGTTACTGATTCAGA-ACTTCGTATGTTGAATACTAT
* *
61205102 TACTGTTACTGTTACAGATTCAGAACTTCGTGTGTTGAATACTAT
1 TACTGTTACTGTTACTGATTCAGAACTTCGTATGTTGAATACTAT
61205147 TACTGTTACTGTTACT
1 TACTGTTACTGTTACT
61205163 ACTACCGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 52 0.96
46 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGATTCAGAACTTCGTATGTTGAATACTAT
Found at i:61205172 original size:18 final size:19
Alignment explanation
Indices: 61205141--61205181 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
61205131 GTGTGTTGAA
* *
61205141 TACTATTACTGTTACTG-T
1 TACTACTACCGTTACTGAT
61205159 TACTACTACCGTTACTGAT
1 TACTACTACCGTTACTGAT
61205178 TACT
1 TACT
61205182 GTTTAGGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (19 bp):
TACTACTACCGTTACTGAT
Found at i:61205221 original size:18 final size:18
Alignment explanation
Indices: 61205194--61205228 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61205184 TTAGGTACTG
61205194 TGTACCGTTAAGGCACAA
1 TGTACCGTTAAGGCACAA
*
61205212 TGTACTGTTAAGGCACA
1 TGTACCGTTAAGGCACA
61205229 GTATACCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (18 bp):
TGTACCGTTAAGGCACAA
Found at i:61210478 original size:23 final size:23
Alignment explanation
Indices: 61210445--61210488 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
61210435 TTTGAAGGGA
*
61210445 TGAGGGTTAACCCTAACACAAAT
1 TGAGGGGTAACCCTAACACAAAT
*
61210468 TGAGGGGTAACCCTGACACAA
1 TGAGGGGTAACCCTAACACAA
61210489 CTTACCCGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (23 bp):
TGAGGGGTAACCCTAACACAAAT
Found at i:61218883 original size:239 final size:240
Alignment explanation
Indices: 61218444--61218922 Score: 897
Period size: 239 Copynumber: 2.0 Consensus size: 240
61218434 TTTATTACCT
*
61218444 TTGATGATGGATGCCACGTTAGCAAATTAATTAATTTTTAATTTTAAAAAAATTTAAAAAATTAT
1 TTGATGATGGATGCCACGTTAGCAAATTAATTAATTTTTAATTTTAAAAAAATTAAAAAAATTAT
*
61218509 TTAAAAAACTTAATAAGTATTAAAGAAGTAAAAAAAAATTATATATTTCTTTAGATTTTTTAAAA
66 TTAAAAAACTTAATAAGTATTAAAGAAGTAAAAAAAAATTATATATTTCTTCAGATTTTTTAAAA
61218574 AATAATTAATTGCTTATGTGGTATACATGTAGGTGTCCACATGGATGCCACATCAGTAAAGTTAA
131 AATAATTAATTGCTTATGTGGTATACATGTAGGTGTCCACATGGATGCCACATCAGTAAAGTTAA
*
61218639 TAGACATTAATTTTTTTTATCAATTTTGGTGTGATTTGACAAATA
196 TAGACATTAACTTTTTTTATCAATTTTGGTGTGATTTGACAAATA
*
61218684 TTGATGATGGATGCCATGTTAGCAAATTAATTAATTTTTAATTTTAAAAAAATTAAAAAAATTAT
1 TTGATGATGGATGCCACGTTAGCAAATTAATTAATTTTTAATTTTAAAAAAATTAAAAAAATTAT
*
61218749 TTAAAAAACTTAATAAGTATTAAAGAAGT-AAAAAAAATTATATATTTCTTCAGATTTTTTTAAA
66 TTAAAAAACTTAATAAGTATTAAAGAAGTAAAAAAAAATTATATATTTCTTCAGATTTTTTAAAA
*
61218813 AATAATTAATTGCTTATGTGGTATACATGTGGGTGTCCACATGGATGCCACATCAGTAAAGTTAA
131 AATAATTAATTGCTTATGTGGTATACATGTAGGTGTCCACATGGATGCCACATCAGTAAAGTTAA
61218878 TAGACATTAACTTTTTTTATCAATTTTGGTGTGATTTGACAAATA
196 TAGACATTAACTTTTTTTATCAATTTTGGTGTGATTTGACAAATA
61218923 ATGCAAGTTT
Statistics
Matches: 233, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
239 141 0.61
240 92 0.39
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (240 bp):
TTGATGATGGATGCCACGTTAGCAAATTAATTAATTTTTAATTTTAAAAAAATTAAAAAAATTAT
TTAAAAAACTTAATAAGTATTAAAGAAGTAAAAAAAAATTATATATTTCTTCAGATTTTTTAAAA
AATAATTAATTGCTTATGTGGTATACATGTAGGTGTCCACATGGATGCCACATCAGTAAAGTTAA
TAGACATTAACTTTTTTTATCAATTTTGGTGTGATTTGACAAATA
Found at i:61219453 original size:23 final size:24
Alignment explanation
Indices: 61219397--61219463 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 24
61219387 ACATATAATT
*
61219397 AAATATAAATTATATATTATGAAA
1 AAATATAAAATATATATTATGAAA
* *
61219421 AAGTACAAAATATAT-TTAT-ATAA
1 AAATATAAAATATATATTATGA-AA
*
61219444 AAATATAAAA-AAATATTATG
1 AAATATAAAATATATATTATG
61219464 TTTTTATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 4 0.12
23 18 0.53
24 12 0.35
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATATAAAATATATATTATGAAA
Found at i:61219714 original size:31 final size:32
Alignment explanation
Indices: 61219677--61219746 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
61219667 AATCTTTTTT
*
61219677 TTATAAAAA-AATTTAAAATTT-TAAAAGAAA
1 TTATAAAAATAATATAAAATTTCTAAAAGAAA
* *
61219707 TATATAAAAATTATATAAATTTTCTAAAAGAAA
1 T-TATAAAAATAATATAAAATTTCTAAAAGAAA
61219740 TTATAAA
1 TTATAAA
61219747 TTACAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.03
31 8 0.24
32 15 0.44
33 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (32 bp):
TTATAAAAATAATATAAAATTTCTAAAAGAAA
Found at i:61232726 original size:99 final size:98
Alignment explanation
Indices: 61232541--61232804 Score: 264
Period size: 99 Copynumber: 2.8 Consensus size: 98
61232531 TTAAGTTATC
* * *
61232541 GATGCCATGTCCCAGACATGGTCTTACACTGGCTGTCCTAATCGAGGCCGATGCCATTTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTGTCCT-ATCGAGGCAGATGCCATGTCCCAGA
61232606 CATGGTCTTACACTAGCTCTCGTACTTACGTGCT
65 CATGGTCTTACACTAGCTCTCGTACTTACGTGCT
61232640 GATGCCATGTCCCAGACATGGTCTTACACTGACATG-CCT-T-GTA-GCAGATG-CATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TGTCCTATCG-AGGCAGATGCCATGTCCCAG
* *
61232700 ACAT-GTCTTACACTGGCT-TACGT-C-T-CGACGCT
64 ACATGGTCTTACACTAGCTCT-CGTACTTACG-TGCT
* * ** * * * ** *
61232732 GATG-CATGTCCCAGACAT-GTCTTACATTGGCACTCGTCTCAATTCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTGTCCTATCGAGGCAGATGCCATGTCCCAGAC
61232795 ATGGTCTTAC
66 ATGGTCTTAC
61232805 GCTGGCACAC
Statistics
Matches: 142, Mismatches: 13, Indels: 25
0.79 0.07 0.14
Matches are distributed among these distances:
90 13 0.09
91 18 0.13
92 13 0.09
93 16 0.11
94 23 0.16
95 13 0.09
96 7 0.05
97 2 0.01
99 35 0.25
100 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (98 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTGTCCTATCGAGGCAGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCGTACTTACGTGCT
Found at i:61232746 original size:46 final size:47
Alignment explanation
Indices: 61232540--61232810 Score: 250
Period size: 46 Copynumber: 5.7 Consensus size: 47
61232530 GTTAAGTTAT
* * *
61232540 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTGTCCTAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCGT-CTCGATGC
* *
61232589 CGATGCCATTTCCCAGACATGGTCTTACACTAGCTCTCGTACTTACG-TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCGT-C-T-CGATGC
* * * * *
61232639 TGATGCCATGTCCCAGACATGGTCTTACACTGACAT-GCCTTG-TAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCGTCTCGAT-GC
* *
61232685 AGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CGTCTCGATGC
* * * * *
61232731 TGATG-CATGTCCCAGACAT-GTCTTACATTGGCACTCGTCTCAATTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCGTCTCGATGC
*
61232777 CGATGCCATGTCCCAGACATGGTCTTACGCTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
61232811 ACACAAATTA
Statistics
Matches: 185, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
44 13 0.07
45 16 0.09
46 55 0.30
47 16 0.09
48 12 0.06
49 38 0.21
50 33 0.18
51 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCGTCTCGATGC
Found at i:61233537 original size:12 final size:12
Alignment explanation
Indices: 61233520--61233544 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61233510 CAAAAATGTA
61233520 AAAATCATCAAG
1 AAAATCATCAAG
61233532 AAAATCATCAAG
1 AAAATCATCAAG
61233544 A
1 A
61233545 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:61238296 original size:14 final size:14
Alignment explanation
Indices: 61238279--61238317 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
61238269 TCAAAACAAG
61238279 AATTAAGAACACAT
1 AATTAAGAACACAT
61238293 AATTAAGAACACAT
1 AATTAAGAACACAT
61238307 AATTAAGAACA
1 AATTAAGAACA
61238318 AGTTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:61249742 original size:46 final size:45
Alignment explanation
Indices: 61249509--61249775 Score: 175
Period size: 46 Copynumber: 5.7 Consensus size: 45
61249499 TTACCGATGC
* * * * *
61249509 CATGTCCCAGACATAGTCTTACATTGGCTA-TCCTCATCGAGGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGC-ACT-GTC-TC-ATGCCGAT-A
* * * ** *
61249558 CATGTCCCAGACATGGTCTTACACTAGCTCTTGCATATCCATGTTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCAC-TG--TCT-CATGCCGAT-A
* * *
61249608 CATGTCCCAGACATGGTCTTACATTGTCA-TGTCTCATAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCACTGTCTCAT-GCCGATA
* *
61249653 CATGTCCCAGACAT-GTCTTACACTGGCTAAC-GTCTTGAGGCCGATA
1 CATGTCCCAGACATGGTCTTACACTGGC--ACTGTC-TCATGCCGATA
* *
61249699 CATGTCCCGGACAT-GTCTTACACTGGCACTTGTCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCAC-TGTCTC-ATGCCGAT-A
*
61249746 CATGTCCTAGACATGGTCTTACACTGGCAC
1 CATGTCCCAGACATGGTCTTACACTGGCAC
61249776 ACAAATTACC
Statistics
Matches: 175, Mismatches: 28, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
44 13 0.07
45 18 0.10
46 52 0.30
47 14 0.08
48 17 0.10
49 25 0.14
50 34 0.19
51 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTGTCTCATGCCGATA
Found at i:61250506 original size:12 final size:12
Alignment explanation
Indices: 61250489--61250513 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61250479 CAAAAATGTA
61250489 AAAATCATCAAG
1 AAAATCATCAAG
61250501 AAAATCATCAAG
1 AAAATCATCAAG
61250513 A
1 A
61250514 TCACTTAGAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:61252728 original size:50 final size:50
Alignment explanation
Indices: 61252648--61252748 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
61252638 GTGCCATTCT
*
61252648 ATACGGGGCAATAGAAATAGGCATTATTCCCGGTGCTAACTCAATACCAA
1 ATACGGGGCAATAGAAATAGGCATTATTCCCAGTGCTAACTCAATACCAA
* *
61252698 ATACGGGGCAATAGAAATAGGCATTGTTCCCAGTGCTAACTTAATACCAA
1 ATACGGGGCAATAGAAATAGGCATTATTCCCAGTGCTAACTCAATACCAA
61252748 A
1 A
61252749 CTCTACCTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (50 bp):
ATACGGGGCAATAGAAATAGGCATTATTCCCAGTGCTAACTCAATACCAA
Found at i:61256330 original size:21 final size:21
Alignment explanation
Indices: 61256306--61256348 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
61256296 CACTATAGGA
*
61256306 TCACCCGTCCAGGCTATATCC
1 TCACCCGTCCAGGCTAGATCC
61256327 TCACCCGTCCAGGCTAGATCC
1 TCACCCGTCCAGGCTAGATCC
61256348 T
1 T
61256349 TTTCGCCGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.42, G:0.16, T:0.23
Consensus pattern (21 bp):
TCACCCGTCCAGGCTAGATCC
Found at i:61260379 original size:25 final size:23
Alignment explanation
Indices: 61260338--61260383 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
61260328 CAATTTTAAA
61260338 TTTTATTAAAAAATATTTTCATT
1 TTTTATTAAAAAATATTTTCATT
*
61260361 TTTTATATCAAAATATATTTTCA
1 TTTTAT-T-AAAAAATATTTTCA
61260384 AATAAAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 1 0.05
25 13 0.65
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTATTAAAAAATATTTTCATT
Found at i:61260505 original size:12 final size:12
Alignment explanation
Indices: 61260488--61260513 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61260478 TAAGGCCAAA
61260488 ATAAAAATTGAC
1 ATAAAAATTGAC
61260500 ATAAAAATTGAC
1 ATAAAAATTGAC
61260512 AT
1 AT
61260514 TCATTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (12 bp):
ATAAAAATTGAC
Found at i:61262446 original size:20 final size:20
Alignment explanation
Indices: 61262408--61262446 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61262398 ACTCATGGTA
*
61262408 TCGATAATTTTTTACAAGTG
1 TCGATAATTTTTTAAAAGTG
61262428 TCGAT-ATTTTTATAAAAGT
1 TCGATAATTTTT-TAAAAGT
61262447 AACAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (20 bp):
TCGATAATTTTTTAAAAGTG
Found at i:61269430 original size:23 final size:23
Alignment explanation
Indices: 61269403--61269449 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
61269393 GACTTTTTAG
61269403 AAAGAATTGTGAAAATATAACCT
1 AAAGAATTGTGAAAATATAACCT
61269426 AAAGAATTGTGAAAATATAACCT
1 AAAGAATTGTGAAAATATAACCT
61269449 A
1 A
61269450 TCCCAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.26
Consensus pattern (23 bp):
AAAGAATTGTGAAAATATAACCT
Found at i:61273922 original size:73 final size:73
Alignment explanation
Indices: 61273820--61273958 Score: 215
Period size: 73 Copynumber: 1.9 Consensus size: 73
61273810 CCAAACGAAT
* * ** *
61273820 ATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGTCGTTTAACAGATTTTATTCAAATTT
1 ATTAAAAGTAAATAAAATCCGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCAAATTT
61273885 TTTTTCAA
66 TTTTTCAA
* *
61273893 ATTAAAAGTAAATAAAATCCGTTTTGGGATTTATTCCCACCGTTCAACAGATTTTATTCCAATTT
1 ATTAAAAGTAAATAAAATCCGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCAAATTT
61273958 T
66 T
61273959 GATTTTATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (73 bp):
ATTAAAAGTAAATAAAATCCGTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCAAATTT
TTTTTCAA
Found at i:61274022 original size:88 final size:89
Alignment explanation
Indices: 61273893--61274736 Score: 772
Period size: 88 Copynumber: 9.7 Consensus size: 89
61273883 TTTTTTTCAA
* * * * *
61273893 ATTAAAAGT-AAATAAAATCCGTTTTGGGATTTATTCCCACCGTTCAACAGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAACAGATTTTATTCCAATT
61273957 TTGATTTTATTTCC-AAAACGAGT
66 TTGATTTTATTTCCAAAAACGAGT
* * * **
61273980 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTTTCACCGTTTAATGGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAACAGATTTTATTCCAATT
*
61274045 TTGGTTTTATTTCC-AAAACGAGT
66 TTGATTTTATTTCCAAAAACGAGT
* * ** *
61274068 ATT-AAATTAAAATAAAAAT-TGTTTCGGAATTTATTCCCGTTGTTCAATAGA-TTTATTCCAAT
1 ATTAAAATTAAAAT-AAAATCTGTTTCGGGATTTATTCTCGCCGTTCAACAGATTTTATTCCAAT
*
61274130 TTTGATTTTATTTCCAAAAATGAGT
65 TTTGATTTTATTTCCAAAAACGAGT
* * * *
61274155 ATT-AAATTAAAATAAAATCTGTTTCGGGATTTATTCTTGCCGATCAACGGATCTTATTCCAAAT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAACAGATTTTATTCC-AAT
* *
61274219 TTTTATTTTATTTCCAAAAATGAGT
65 TTTGATTTTATTTCCAAAAACGAGT
* * * *
61274244 ATTAAAATTAAAATAAAATCTATTTTGGGAATTATTCTCGCTGTTCAACAGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAACAGATTTTATTCCAATT
61274309 TTGATTTTATTTCCAAAAACGAGT
66 TTGATTTTATTTCCAAAAACGAGT
* *
61274333 ATT-AAATTAAAATAAAATCTGTTTCGGGATTTATTCTTGCCGTTCAACGGATTTTATTCCAAAA
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAACAGATTTTATTCC--AA
* *
61274397 TTTTG-TTTTATTTTCAAAAATGAGT
64 TTTTGATTTTATTTCCAAAAACGAGT
* * * * * ** * * *
61274422 ATTAAAATTAAAATAAAATTTATTTTGGGATTTATTCTCGCTGTTCAGC-GGGTATCTTAC-ATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAACAGATTTTATTCCAATT
* * * *
61274485 TTGATTTTGTTGCCAAAAATGAGAA
66 TTGATTTTATTTCCAAAAACGAG-T
* * * * * * * * **
61274510 ATT-AAGTT-AAATAAAATTTATTTCGGGATTGATCCTTGCTGATCAACAAGATTTTATT-TGAT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAAC-AGATTTTATTCCAAT
* *
61274572 TTT-ATTTTGTTTCCAAATTA-GA--
65 TTTGATTTTATTTCCAAA-AACGAGT
* * **
61274594 ATT-AAATT-AAATAAAATCTGTTTTGGGATTTATTCTCGCC-ATCTAACAAGATTTTATT-TGA
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTC-AAC-AGATTTTATTCCAA
* * *
61274655 TTTT-ATTTTAATTCTAAATTA-GA--
64 TTTTGATTTTATTTCCAAA-AACGAGT
* * * * *
61274678 ATT-AAATT-AAATAAAATTTGTTTCGGGATTTATTCCCGCTGTTTAACAAGAGTTTATTC
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAAC-AGATTTTATTC
61274737 GATATTGTTT
Statistics
Matches: 644, Mismatches: 94, Indels: 40
0.83 0.12 0.05
Matches are distributed among these distances:
83 3 0.00
84 118 0.18
85 1 0.00
86 69 0.11
87 122 0.19
88 150 0.23
89 86 0.13
90 95 0.15
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (89 bp):
ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAACAGATTTTATTCCAATT
TTGATTTTATTTCCAAAAACGAGT
Found at i:61274338 original size:178 final size:177
Alignment explanation
Indices: 61273893--61274712 Score: 867
Period size: 178 Copynumber: 4.7 Consensus size: 177
61273883 TTTTTTTCAA
* ** * * *
61273893 ATTAAAAGT-AAATAAAATCCGTTTTGGGATTTATTCCCACCGTTCAACAGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTATTTTGGGATTTATTCTCGCTGTTCAACAGATTTTATTCCAATT
*
61273957 TTGATTTTATTTCC-AAAACGAGTATTAAAATTAAAATAAAATCTGTTTCGGGATTTATT-TTCA
66 TTGATTTTATTTCCAAAAACGAGTATT-AAATTAAAATAAAATCTGTTTCGGGATTTATTCTT-G
* * * ** *
61274020 CCGTTTAATGGATTTTATTCC-AATTTTGGTTTTATTTCCAAAACGAGT
129 CCGATCAACGGATTTTATTCCAAATTTTTATTTTATTTCCAAAATGAGT
* * * * * *
61274068 ATT-AAATTAAAATAAAAAT-TGTTTCGGAATTTATTCCCGTTGTTCAATAGA-TTTATTCCAAT
1 ATTAAAATTAAAAT-AAAATCTATTTTGGGATTTATTCTCGCTGTTCAACAGATTTTATTCCAAT
*
61274130 TTTGATTTTATTTCCAAAAATGAGTATTAAATTAAAATAAAATCTGTTTCGGGATTTATTCTTGC
65 TTTGATTTTATTTCCAAAAACGAGTATTAAATTAAAATAAAATCTGTTTCGGGATTTATTCTTGC
*
61274195 CGATCAACGGATCTTATTCCAAATTTTTATTTTATTTCCAAAAATGAGT
130 CGATCAACGGATTTTATTCCAAATTTTTATTTTATTTCC-AAAATGAGT
*
61274244 ATTAAAATTAAAATAAAATCTATTTTGGGAATTATTCTCGCTGTTCAACAGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTATTTTGGGATTTATTCTCGCTGTTCAACAGATTTTATTCCAATT
61274309 TTGATTTTATTTCCAAAAACGAGTATTAAATTAAAATAAAATCTGTTTCGGGATTTATTCTTGCC
66 TTGATTTTATTTCCAAAAACGAGTATTAAATTAAAATAAAATCTGTTTCGGGATTTATTCTTGCC
* * * *
61274374 GTTCAACGGATTTTATTCCAAAATTTTGTTTTATTTTCAAAAATGAGT
131 GATCAACGGATTTTATTCCAAATTTTTATTTTA-TTTCCAAAATGAGT
* * ** * * *
61274422 ATTAAAATTAAAATAAAATTTATTTTGGGATTTATTCTCGCTGTTCAGC-GGGTATCTTAC-ATT
1 ATTAAAATTAAAATAAAATCTATTTTGGGATTTATTCTCGCTGTTCAACAGATTTTATTCCAATT
* * * * * * * * *
61274485 TTGATTTTGTTGCCAAAAATGAGAAATTAAGTT-AAATAAAATTTATTTCGGGATTGATCCTTGC
66 TTGATTTTATTTCCAAAAACGAG-TATTAAATTAAAATAAAATCTGTTTCGGGATTTATTCTTGC
* * ** * * *
61274549 TGATCAACAAGATTTTATT--TGA-TTTTATTTTGTTTCC-AAATTAGA
130 CGATCAAC-GGATTTTATTCCAAATTTTTATTTTATTTCCAAAATGAGT
* ** **
61274594 ATT-AAATT-AAATAAAATCTGTTTTGGGATTTATTCTCGC-CATCTAACAAGATTTTATT-TGA
1 ATTAAAATTAAAATAAAATCTATTTTGGGATTTATTCTCGCTGTTC-AAC-AGATTTTATTCCAA
* * * *
61274655 TTTT-ATTTTAATTCTAAATTA-GA--ATTAAATT-AAATAAAATTTGTTTCGGGATTTATTC
64 TTTTGATTTTATTTCCAAA-AACGAGTATTAAATTAAAATAAAATCTGTTTCGGGATTTATTC
61274713 CCGCTGTTTA
Statistics
Matches: 552, Mismatches: 76, Indels: 41
0.83 0.11 0.06
Matches are distributed among these distances:
168 31 0.06
169 2 0.00
170 31 0.06
171 17 0.03
172 20 0.04
173 4 0.01
174 87 0.16
175 62 0.11
176 77 0.14
177 57 0.10
178 160 0.29
179 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (177 bp):
ATTAAAATTAAAATAAAATCTATTTTGGGATTTATTCTCGCTGTTCAACAGATTTTATTCCAATT
TTGATTTTATTTCCAAAAACGAGTATTAAATTAAAATAAAATCTGTTTCGGGATTTATTCTTGCC
GATCAACGGATTTTATTCCAAATTTTTATTTTATTTCCAAAATGAGT
Found at i:61280225 original size:29 final size:29
Alignment explanation
Indices: 61280193--61280252 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
61280183 TGATTAAAGA
61280193 AATGCATAGAATCATGCGATCTAAATTTG
1 AATGCATAGAATCATGCGATCTAAATTTG
*
61280222 AATGCATAGAATCATGCGATTTAAATTTG
1 AATGCATAGAATCATGCGATCTAAATTTG
61280251 AA
1 AA
61280253 CAACTGCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.32
Consensus pattern (29 bp):
AATGCATAGAATCATGCGATCTAAATTTG
Found at i:61284745 original size:42 final size:42
Alignment explanation
Indices: 61284636--61284799 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
61284626 TACCATACCA
* * * * *
61284636 ATGCCATATCCTAGATATGGTTTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATAG
* * *
61284678 ATGCCAATAGCCCAGCTATGATCTTACACGAAGTCTCATATCAG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATAT-AG
* * *
61284722 -TGCCATTTCCCAGATATGGTCTTACACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
61284763 ATGCCATATCCCAGATATGGTCTTACAC-ATAGTCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCA
61284800 GTAACCCTAA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 70 0.69
43 29 0.29
44 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
Found at i:61297046 original size:46 final size:46
Alignment explanation
Indices: 61296979--61297148 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
61296969 AACCCGCCCC
*
61296979 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
61297025 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
61297073 TCA-CGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
61297118 TAGGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
61297149 AGATGCTCAA
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 57 0.55
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:61297093 original size:93 final size:93
Alignment explanation
Indices: 61296984--61297154 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
61296974 GCCCCTAAGT
* *
61296984 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
61297049 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * *
61297077 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61297142 CGAGTTCAGATGC
66 CGAGTTCAGATGC
61297155 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:61300063 original size:24 final size:24
Alignment explanation
Indices: 61300016--61300132 Score: 98
Period size: 24 Copynumber: 4.9 Consensus size: 24
61300006 CGTCTCTTAT
*
61300016 GAGCTTACTGATATATCAGCTCATAA
1 GAGCTTACTG-T-TTTCAGCTCATAA
**
61300042 GAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACTGTTTTCAGCTCATAA
* * * *
61300066 GAGCTTACCG-TTTCAACTCGTAT
1 GAGCTTACTGTTTTCAGCTCATAA
61300089 GAGCTTACTG--TTCAGCTCA-ATA
1 GAGCTTACTGTTTTCAGCTCATA-A
*
61300111 GAGCTTACTGTTCATCAGCTCA
1 GAGCTTACTGTT-TTCAGCTCA
61300133 AGAGGAGCTA
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.01
22 17 0.23
23 18 0.24
24 19 0.26
25 9 0.12
26 10 0.14
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCATAA
Found at i:61300114 original size:22 final size:22
Alignment explanation
Indices: 61300016--61300136 Score: 102
Period size: 23 Copynumber: 5.1 Consensus size: 22
61300006 CGTCTCTTAT
61300016 GAGCTTACTGATATATCAGCTCATAA
1 GAGCTTACTG-T-T-TCAGCTCAT-A
*
61300042 GAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACTG-TTTCAGCTCA-TA
* * *
61300066 GAGCTTACCGTTTCAACTCGTA
1 GAGCTTACTGTTTCAGCTCATA
61300088 TGAGCTTACTG-TTCAGCTCAATA
1 -GAGCTTACTGTTTCAGCTC-ATA
61300111 GAGCTTACTGTTCATCAGCTCA-A
1 GAGCTTACTGTT--TCAGCTCATA
61300134 GAG
1 GAG
61300137 GAGCTAACCA
Statistics
Matches: 80, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
22 18 0.22
23 24 0.30
24 18 0.22
25 9 0.11
26 11 0.14
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (22 bp):
GAGCTTACTGTTTCAGCTCATA
Found at i:61300325 original size:20 final size:19
Alignment explanation
Indices: 61300300--61300370 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
61300290 TGTTTATATG
* *
61300300 GATGAATTACTATTGATACC
1 GATGAACTACTATT-ATACA
* *
61300320 GATGAATTACTGTTATTACTA
1 GATGAACTACTATTA-TAC-A
61300341 -ATGAACTACTATTTATACA
1 GATGAACTACTA-TTATACA
61300360 GATGAACTACT
1 GATGAACTACT
61300371 GGCTATATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 2 0.05
20 38 0.88
21 3 0.07
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (19 bp):
GATGAACTACTATTATACA
Found at i:61300384 original size:40 final size:39
Alignment explanation
Indices: 61300294--61300398 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 39
61300284 GATATGTGTT
* * * * *
61300294 TATATGGATGAATTACTATTGATACCGATGAATTACTGT
1 TATATGAATGAATTACTATTTATACAGATGAACTACTGC
*
61300333 TATTACT-AATGAACTACTATTTATACAGATGAACTACTGGC
1 TA-TA-TGAATGAATTACTATTTATACAGATGAACTACT-GC
*
61300374 TATATGAATGAATTACAATTTATAC
1 TATATGAATGAATTACTATTTATAC
61300399 GAATAGAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.06
40 47 0.87
41 4 0.07
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (39 bp):
TATATGAATGAATTACTATTTATACAGATGAACTACTGC
Found at i:61303717 original size:22 final size:23
Alignment explanation
Indices: 61303692--61303737 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
61303682 CAACCAAACC
61303692 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
61303714 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
61303737 A
1 A
61303738 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:61303743 original size:23 final size:23
Alignment explanation
Indices: 61303699--61303743 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
61303689 ACCAATTCAA
*
61303699 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
61303722 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
61303744 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:61321130 original size:243 final size:242
Alignment explanation
Indices: 61320686--61321131 Score: 723
Period size: 242 Copynumber: 1.8 Consensus size: 242
61320676 AACTAATAAT
* * *
61320686 TAATGGAAATTGTTGATTTAGATTCAATTTATGGTTCTTTGACTATTACTGAAATATTCTTTCCA
1 TAATGAAAATTGTTAATTTAGATTCAATTTATGGTTCTTTAACTATTACTGAAATATTCTTTCCA
61320751 TTTGTTCATGTTGTTTCTCATTTAACTCATATAAATAGAAAATGTACATTGCTATTTTTGATTGA
66 TTTGTTCATGTTGTTTCTCATTTAACTCATATAAATAGAAAATGTACATTGCTATTTTTGATTGA
* * * *
61320816 ATTTCATATTAGAGGACTCGATGATGATGCCTTCAATTTGGATGATGATGAATGAGGCCTCATGC
131 ATTTCAGACTAGAGGACTCGATGATGATGCCTTCAATTTAGATGATGATGAATAAGGCCTCATGC
61320881 ATATTATGAATGAGGCCTCCTATTCAACTAATAATTAATGGATGTAC
196 ATATTATGAATGAGGCCTCCTATTCAACTAATAATTAATGGATGTAC
* *
61320928 TAATGAAAATTGTTAATTTAGCTTCAATTTATGGTTCTTTAACTATTACTGAAATATTGTTTCCA
1 TAATGAAAATTGTTAATTTAGATTCAATTTATGGTTCTTTAACTATTACTGAAATATTCTTTCCA
* *
61320993 TTTGTTCATGTT-TTTCTCATTTAACTCATATACATAGAAAATGTACATTGTTATTTTTGCAGTT
66 TTTGTTCATGTTGTTTCTCATTTAACTCATATAAATAGAAAATGTACATTGCTATTTTTG-A-TT
* * * * *
61321057 GAATTTTAGACTAGAGGACTTGATGATGATGCCTTCAGTTTAGATGATGATGAGTAAGGCCTCCT
129 GAATTTCAGACTAGAGGACTCGATGATGATGCCTTCAATTTAGATGATGATGAATAAGGCCTCAT
61321122 GCATATTATG
194 GCATATTATG
61321132 TGTGTGCATA
Statistics
Matches: 186, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
241 45 0.24
242 73 0.39
243 68 0.37
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (242 bp):
TAATGAAAATTGTTAATTTAGATTCAATTTATGGTTCTTTAACTATTACTGAAATATTCTTTCCA
TTTGTTCATGTTGTTTCTCATTTAACTCATATAAATAGAAAATGTACATTGCTATTTTTGATTGA
ATTTCAGACTAGAGGACTCGATGATGATGCCTTCAATTTAGATGATGATGAATAAGGCCTCATGC
ATATTATGAATGAGGCCTCCTATTCAACTAATAATTAATGGATGTAC
Found at i:61321510 original size:35 final size:35
Alignment explanation
Indices: 61321466--61321764 Score: 292
Period size: 35 Copynumber: 8.6 Consensus size: 35
61321456 AGACAATGTT
*
61321466 TATCGCAACCTTTTTAAAGTTGCCTTAGACGTGTC
1 TATCCCAACCTTTTTAAAGTTGCCTTAGACGTGTC
* **
61321501 TATCCCAACC-TTTTAAAGGTTGCTTTAGACAAGTC
1 TATCCCAACCTTTTTAAA-GTTGCCTTAGACGTGTC
* *
61321536 TATTCCAACC-TTTTAAAGGTT-CCTTTAGACGGGTC
1 TATCCCAACCTTTTTAAA-GTTGCC-TTAGACGTGTC
** *
61321571 TATCTTAACC-TTTTAAAGCTTGTCTTAGACAG-GTC
1 TATCCCAACCTTTTTAAAG-TTGCCTTAGAC-GTGTC
* *
61321606 TATCCCAA-ATTTTTAAAGGTTGCCTTAGACATGTC
1 TATCCCAACCTTTTTAAA-GTTGCCTTAGACGTGTC
* *
61321641 TAT-CTAA-CTTTTTAAAGGTT-CCTTTAGACGGGTC
1 TATCCCAACCTTTTTAAA-GTTGCC-TTAGACGTGTC
* * * *
61321675 TATCCCAACCCTTTTAACGTTGTCTTAGACATGTC
1 TATCCCAACCTTTTTAAAGTTGCCTTAGACGTGTC
* *
61321710 TATCCCAACCATTTTAACGTTGCCTTAGACGTGTC
1 TATCCCAACCTTTTTAAAGTTGCCTTAGACGTGTC
61321745 TATCCCAACCTTTTTAAAGT
1 TATCCCAACCTTTTTAAAGT
61321765 CGCATTTGAT
Statistics
Matches: 220, Mismatches: 32, Indels: 24
0.80 0.12 0.09
Matches are distributed among these distances:
33 2 0.01
34 36 0.16
35 171 0.78
36 11 0.05
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (35 bp):
TATCCCAACCTTTTTAAAGTTGCCTTAGACGTGTC
Found at i:61321547 original size:70 final size:70
Alignment explanation
Indices: 61321466--61321764 Score: 324
Period size: 70 Copynumber: 4.3 Consensus size: 70
61321456 AGACAATGTT
* *
61321466 TATCGCAACCTTTTTAAAGTTGCCTTAGACGTGTCTATCCCAACCTTTTAAAGGTTGCTTTAGAC
1 TATCCCAACCTTTTTAAAGTTGCCTTAGACATGTCTATCCCAACCTTTTAAAGGTTGCTTTAGAC
*
61321531 AAGTC
66 AGGTC
* ** ** *
61321536 TATTCCAACC-TTTTAAAGGTT-CCTTTAGACGGGTCTATCTTAACCTTTTAAAGCTTG-TCTTA
1 TATCCCAACCTTTTTAAA-GTTGCC-TTAGACATGTCTATCCCAACCTTTTAAAGGTTGCT-TTA
61321598 GACAGGTC
63 GACAGGTC
* * * *
61321606 TATCCCAA-ATTTTTAAAGGTTGCCTTAGACATGTCTAT-CTAACTTTTTAAAGGTTCCTTTAGA
1 TATCCCAACCTTTTTAAA-GTTGCCTTAGACATGTCTATCCCAACCTTTTAAAGGTTGCTTTAGA
*
61321669 CGGGTC
65 CAGGTC
* * * * *
61321675 TATCCCAACCCTTTTAACGTTGTCTTAGACATGTCTATCCCAACCATTTT-AACGTTGCCTTAGA
1 TATCCCAACCTTTTTAAAGTTGCCTTAGACATGTCTATCCCAACC-TTTTAAAGGTTGCTTTAGA
61321739 C-GTGTC
65 CAG-GTC
61321745 TATCCCAACCTTTTTAAAGT
1 TATCCCAACCTTTTTAAAGT
61321765 CGCATTTGAT
Statistics
Matches: 192, Mismatches: 27, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
69 62 0.32
70 124 0.65
71 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (70 bp):
TATCCCAACCTTTTTAAAGTTGCCTTAGACATGTCTATCCCAACCTTTTAAAGGTTGCTTTAGAC
AGGTC
Found at i:61321711 original size:104 final size:103
Alignment explanation
Indices: 61321466--61321763 Score: 375
Period size: 104 Copynumber: 2.8 Consensus size: 103
61321456 AGACAATGTT
* * * * * *
61321466 TATCGCAACCTTTTTAAAGTTGCCTTAGACGTGTCTATCCCAACCTTTTAAAGGTTGCTTTAGAC
1 TATCCCAACCCTTTTAAAGTTGTCTTAGACATGTCTATCCCAA-ATTTTAAAGGTTGCCTTAGAC
* *
61321531 AAGTCTATTCCAACCTTTTAAAGGTTCCTTTAGACGGGTC
65 ATGTCTA-TCCAACTTTTTAAAGGTTCCTTTAGACGGGTC
** *
61321571 TATCTTAA-CCTTTTAAAGCTTGTCTTAGACAGGTCTATCCCAAATTTTTAAAGGTTGCCTTAGA
1 TATCCCAACCCTTTTAAAG-TTGTCTTAGACATGTCTATCCCAAA-TTTTAAAGGTTGCCTTAGA
*
61321635 CATGTCTATCTAACTTTTTAAAGGTTCCTTTAGACGGGTC
64 CATGTCTATCCAACTTTTTAAAGGTTCCTTTAGACGGGTC
* *
61321675 TATCCCAACCCTTTTAACGTTGTCTTAGACATGTCTATCCCAACCATTTT-AACGTTGCCTTAGA
1 TATCCCAACCCTTTTAAAGTTGTCTTAGACATGTCTATCCCAA--ATTTTAAAGGTTGCCTTAGA
*
61321739 CGTGTCTATCCCAACCTTTTTAAAG
64 CATGTCTAT-CCAA-CTTTTTAAAG
61321764 TCGCATTTGA
Statistics
Matches: 168, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
104 89 0.53
105 68 0.40
106 11 0.07
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (103 bp):
TATCCCAACCCTTTTAAAGTTGTCTTAGACATGTCTATCCCAAATTTTAAAGGTTGCCTTAGACA
TGTCTATCCAACTTTTTAAAGGTTCCTTTAGACGGGTC
Found at i:61322388 original size:24 final size:24
Alignment explanation
Indices: 61322372--61322426 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
61322362 ACCCTCGTAC
61322372 TCATCTTCATCTCGACCCTTATCT
1 TCATCTTCATCTCGACCCTTATCT
* * *
61322396 TCATCTTCATCTCTACCTTTGTCT
1 TCATCTTCATCTCGACCCTTATCT
*
61322420 TCGTCTT
1 TCATCTT
61322427 TGTCTCTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.13, C:0.35, G:0.05, T:0.47
Consensus pattern (24 bp):
TCATCTTCATCTCGACCCTTATCT
Found at i:61324546 original size:15 final size:16
Alignment explanation
Indices: 61324500--61324550 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
61324490 AAATATATTA
**
61324500 AAAATTAAAAAAACTTT
1 AAAATTAACGAAA-TTT
**
61324517 AAAATTAACTTAATTT
1 AAAATTAACGAAATTT
61324533 AAAA-TAACGAAATTT
1 AAAATTAACGAAATTT
61324548 AAA
1 AAA
61324551 TTTTCTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 12 0.41
16 7 0.24
17 10 0.34
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (16 bp):
AAAATTAACGAAATTT
Found at i:61325436 original size:29 final size:29
Alignment explanation
Indices: 61325394--61325479 Score: 154
Period size: 29 Copynumber: 2.9 Consensus size: 29
61325384 ATCTTAGATG
61325394 TGATATGCAATCTTAGATATGATATGATA
1 TGATATGCAATCTTAGATATGATATGATA
61325423 TGATATGCAATCTTAGATATGATATGATA
1 TGATATGCAATCTTAGATATGATATGATA
61325452 TGATATGCAATCTTGAAGATATGATATG
1 TGATATGCAATCTT--AGATATGATATG
61325480 CAATCTTGGA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 43 0.78
31 12 0.22
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (29 bp):
TGATATGCAATCTTAGATATGATATGATA
Found at i:61325448 original size:19 final size:19
Alignment explanation
Indices: 61325357--61325419 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
61325347 AATCTTTAAG
61325357 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
61325376 AATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
61325395 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61325414 GATATG
1 GATATG
61325420 ATATGATATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:61325474 original size:21 final size:21
Alignment explanation
Indices: 61325448--61325492 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
61325438 GATATGATAT
61325448 GATATGATATGCAATCTTGAA
1 GATATGATATGCAATCTTGAA
*
61325469 GATATGATATGCAATCTTGGA
1 GATATGATATGCAATCTTGAA
61325490 GAT
1 GAT
61325493 TTAATTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (21 bp):
GATATGATATGCAATCTTGAA
Found at i:61325477 original size:5 final size:5
Alignment explanation
Indices: 61325409--61325458 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
61325399 TGCAATCTTA
**
61325409 GATAT GATAT GATAT GATAT GCA-AT CTTA- GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT G-ATAT GATAT GATAT GATAT GATAT GATAT
61325458 G
1 G
61325459 CAATCTTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 2 0.05
5 35 0.92
6 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:61327360 original size:8 final size:8
Alignment explanation
Indices: 61327341--61327373 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
61327331 TTTAGTCATA
61327341 ATTATA-T
1 ATTATATT
61327348 ATTATATT
1 ATTATATT
61327356 ATTATATT
1 ATTATATT
61327364 ATTATATT
1 ATTATATT
61327372 AT
1 AT
61327374 GTAATTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTATATT
Found at i:61329398 original size:42 final size:42
Alignment explanation
Indices: 61329338--61329534 Score: 218
Period size: 42 Copynumber: 4.7 Consensus size: 42
61329328 CCGAAGGCTG
* * * *
61329338 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
* *
61329380 AACGGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
* *
61329422 AACAAAAGCTCA-ATAGAGCTGAACAGAAACCCATAAAGGTTA
1 AACAGAAGCTCATA-AGAGCTGAACAGAAACCCATAAGGGTTA
* * * * *
61329464 AACAAAAGCTCAATAA-AGTTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTC-ATAAGAGCTGAACAGAAACCCATAAGGGTTA
* * *
61329506 AACAGAAGCTCATGAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTGAACAGAAA
61329535 GTAAACATGA
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
41 4 0.03
42 124 0.95
43 2 0.02
44 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
Found at i:61329450 original size:84 final size:84
Alignment explanation
Indices: 61329338--61329534 Score: 245
Period size: 84 Copynumber: 2.3 Consensus size: 84
61329328 CCGAAGGCTG
* * * **
61329338 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTGAACGGAAGCTC-ATAAGAGCTGA
1 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAAGGTTAAACAAAAGCTCAATAA-AGCTGA
* *
61329402 ACGGAAACCCATAAGGGTTA
65 ACAGAAACCCATAAGAGTTA
* * *
61329422 AACAAAAGCTCAAT-AGAGCTGAACAGAAACCCATAAAGGTTAAACAAAAGCTCAATAAAGTTGA
1 AACAGAAGCTC-ATGAGAGCTAAACAGAAACCCATAAAGGTTAAACAAAAGCTCAATAAAGCTGA
* *
61329486 ACAGAAACTCATATGAGTTA
65 ACAGAAACCCATAAGAGTTA
*
61329506 AACAGAAGCTCATGAGAGCTAAACGGAAA
1 AACAGAAGCTCATGAGAGCTAAACAGAAA
61329535 GTAAACATGA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
83 2 0.02
84 87 0.92
85 6 0.06
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (84 bp):
AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAAGGTTAAACAAAAGCTCAATAAAGCTGAA
CAGAAACCCATAAGAGTTA
Found at i:61329504 original size:21 final size:21
Alignment explanation
Indices: 61329336--61329523 Score: 107
Period size: 21 Copynumber: 9.0 Consensus size: 21
61329326 GCCCGAAGGC
* * *
61329336 TGAACAGAAGCTCATGAGAGC
1 TGAACAGAAACTCATAAGAGT
* * * *
61329357 TAAATAGAAACCCATAAGGGT
1 TGAACAGAAACTCATAAGAGT
* * *
61329378 TGAACGGAAGCTCATAAGAGC
1 TGAACAGAAACTCATAAGAGT
* * *
61329399 TGAACGGAAACCCATAAGGGT
1 TGAACAGAAACTCATAAGAGT
* *
61329420 TAAACA-AAAGCTCA-ATAGAGC
1 TGAACAGAAA-CTCATA-AGAGT
*
61329441 TGAACAGAAACCCATAA-AGGT
1 TGAACAGAAACTCATAAGA-GT
*
61329462 TAAACA-AAAGCTCAATAA-AGT
1 TGAACAGAAA-CTC-ATAAGAGT
*
61329483 TGAACAGAAACTCATATGAGT
1 TGAACAGAAACTCATAAGAGT
* * *
61329504 TAAACAGAAGCTCATGAGAG
1 TGAACAGAAACTCATAAGAG
61329524 CTAAACGGAA
Statistics
Matches: 124, Mismatches: 34, Indels: 18
0.70 0.19 0.10
Matches are distributed among these distances:
20 11 0.09
21 101 0.81
22 12 0.10
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:61355295 original size:24 final size:24
Alignment explanation
Indices: 61355238--61355309 Score: 99
Period size: 24 Copynumber: 2.9 Consensus size: 24
61355228 GGACTCACCA
*
61355238 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTAAGAGCTTACTG-T-TAT
*
61355264 CAGCTCGTAAGAGCTTACTGTTCT
1 CAGCTCGTAAGAGCTTACTGTTAT
*
61355288 CAGCTCGTCAGAGCTTACTGTT
1 CAGCTCGTAAGAGCTTACTGTT
61355310 TCTAGCTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 23 0.53
25 1 0.02
26 19 0.44
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTGTTAT
Found at i:61358787 original size:21 final size:21
Alignment explanation
Indices: 61358758--61358825 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
61358748 ACTTATATGA
*
61358758 GTTTTAGTTTAACCCTTCTGG
1 GTTTCAGTTTAACCCTTCTGG
* * **
61358779 GTTTCAGTTTAGCTCTTCTAA
1 GTTTCAGTTTAACCCTTCTGG
* * *
61358800 GCTTCATTTTAACCCTTATGG
1 GTTTCAGTTTAACCCTTCTGG
61358821 GTTTC
1 GTTTC
61358826 CATTCAGCTC
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTCTGG
Found at i:61358812 original size:42 final size:42
Alignment explanation
Indices: 61358765--61358875 Score: 147
Period size: 42 Copynumber: 2.6 Consensus size: 42
61358755 TGAGTTTTAG
* *
61358765 TTTAACCCTTCTGGGTTTCAGTTTAGCTCTTCTAAGCTT-CA
1 TTTAACCCTTATGGGTTTCAGTTTAGCTCTTATAAGCTTCCA
*
61358806 TTTTAACCCTTATGGGTTTCCA-TTCAGCTCTTATAAGCTTCCA
1 -TTTAACCCTTATGGGTTT-CAGTTTAGCTCTTATAAGCTTCCA
61358849 TTTAACCCTTATGGGTTTTC-GTTTAGC
1 TTTAACCCTTATGGG-TTTCAGTTTAGC
61358876 ACCTATGTGC
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
42 54 0.89
43 7 0.11
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.44
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTCAGTTTAGCTCTTATAAGCTTCCA
Found at i:61358838 original size:21 final size:21
Alignment explanation
Indices: 61358810--61358866 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
61358800 GCTTCATTTT
61358810 AACCCTTATGGGTTTCCATTC
1 AACCCTTATGGGTTTCCATTC
* * ** * *
61358831 AGCTCTTATAAGCTTCCATTT
1 AACCCTTATGGGTTTCCATTC
61358852 AACCCTTATGGGTTT
1 AACCCTTATGGGTTT
61358867 TCGTTTAGCA
Statistics
Matches: 25, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCATTC
Found at i:61361647 original size:17 final size:18
Alignment explanation
Indices: 61361625--61361658 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
61361615 ATAAAAAATG
61361625 TCTAATTTATTT-TTTAA
1 TCTAATTTATTTATTTAA
61361642 TCTAATTTATTTATTTA
1 TCTAATTTATTTATTTA
61361659 TTTAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TCTAATTTATTTATTTAA
Found at i:61365028 original size:15 final size:16
Alignment explanation
Indices: 61365003--61365034 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
61364993 CGGTAGCGGC
61365003 ACCGTCCGAAACCGCT
1 ACCGTCCGAAACCGCT
61365019 ACCG-CCGAAACCGCT
1 ACCGTCCGAAACCGCT
61365034 A
1 A
61365035 TTATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.28, C:0.44, G:0.19, T:0.09
Consensus pattern (16 bp):
ACCGTCCGAAACCGCT
Found at i:61375372 original size:20 final size:20
Alignment explanation
Indices: 61375347--61375390 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
61375337 AAAGACTAAA
* *
61375347 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
61375367 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
61375387 ATGA
1 ATGA
61375391 GTACATGGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:61375767 original size:23 final size:23
Alignment explanation
Indices: 61375740--61375785 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
61375730 TGCATGTAAT
61375740 GTGATTAATGTTGATGTGCTTTA
1 GTGATTAATGTTGATGTGCTTTA
61375763 GTGATTAATGTTGATGTGCTTTA
1 GTGATTAATGTTGATGTGCTTTA
61375786 CTTGTATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.48
Consensus pattern (23 bp):
GTGATTAATGTTGATGTGCTTTA
Found at i:61378376 original size:33 final size:28
Alignment explanation
Indices: 61378311--61378366 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
61378301 AAGAAAGGGT
61378311 TAGAATCGAGATTGAATTGAAAAATTGC
1 TAGAATCGAGATTGAATTGAAAAATTGC
61378339 TAGAATCGAGATTGAATTGAAAAATTGC
1 TAGAATCGAGATTGAATTGAAAAATTGC
61378367 CTAACTAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (28 bp):
TAGAATCGAGATTGAATTGAAAAATTGC
Found at i:61385213 original size:47 final size:47
Alignment explanation
Indices: 61385144--61385240 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
61385134 CTTTTAAACA
61385144 GGGTCTATTTCTCCTCTCAATAAGAGCTTATCTTGAATCAGTATCCT
1 GGGTCTATTTCTCCTCTCAATAAGAGCTTATCTTGAATCAGTATCCT
*
61385191 GGGTCTATTTCTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCT
1 GGGTCTATTTCTCCTCTCAATAAGAGCTTATCTTGAATCAGTATCCT
61385238 GGG
1 GGG
61385241 ATATTAAAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (47 bp):
GGGTCTATTTCTCCTCTCAATAAGAGCTTATCTTGAATCAGTATCCT
Found at i:61394422 original size:6 final size:6
Alignment explanation
Indices: 61394411--61394467 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
61394401 TTCTCCTATC
* * * * * *
61394411 TTTTTA TTTTTA TCTCTA TTTTTC TTTTTC TTTTTC TTTTTC TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
61394459 TTTTCA TTT
1 TTTTTA TTT
61394468 CAATTTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:61394444 original size:12 final size:12
Alignment explanation
Indices: 61394429--61394462 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
61394419 TTTATCTCTA
61394429 TTTTTCTTTTTC
1 TTTTTCTTTTTC
61394441 TTTTTCTTTTTC
1 TTTTTCTTTTTC
*
61394453 TTTTTATTTT
1 TTTTTCTTTT
61394463 CATTTCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:61394462 original size:18 final size:18
Alignment explanation
Indices: 61394409--61394462 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
61394399 AATTCTCCTA
* * *
61394409 TCTTTTTATTTTTATCTC
1 TCTTTTTCTTTTTATTTT
* *
61394427 TATTTTTCTTTTTCTTTT
1 TCTTTTTCTTTTTATTTT
61394445 TCTTTTTCTTTTTATTTT
1 TCTTTTTCTTTTTATTTT
61394463 CATTTCAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (18 bp):
TCTTTTTCTTTTTATTTT
Found at i:61398153 original size:69 final size:69
Alignment explanation
Indices: 61398040--61398746 Score: 508
Period size: 69 Copynumber: 10.2 Consensus size: 69
61398030 TTTTTATATA
* * * ** * ** *
61398040 CGAACCTTGGTTTTACAGTTGGGAGCTTTACTCTCTCTAGTTATGTTAGAGGTCGCGACTCTTCG
1 CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAGAGGTCACGACTCTTCG
*
61398105 CCTA
66 CCTG
* * * * * * * * * *
61398109 CAAACCTTGATTTTACAACTAGGAGCTTTGTTCTTGCTAATTATGTTTGAGGTTATGGCTCTTCG
1 CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAGAGGTCACGACTCTTCG
61398174 CCTG
66 CCTG
* * * * * * *** * *
61398178 CGAACCTTGATTTTACAGTTGGGAGCTTCGCTCTCGCTAACTGTGTT-GAATGTTGTGGCTCTTT
1 CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAG-AGGTCACGACTCTTC
*
61398242 GCTTG
65 GCCTG
** * ** * * * *
61398247 C-AAGCCTTAATTTTATATTTGGGA-CATTTGCTCTCGTTAAATATGTTAGAGGTCACAACTCTT
1 CGAA-CCTCGATTTTACAGCTGGGAGC-TTTGTTCTCGCTAACTATGTTAGAGGTCACGACTCTT
61398310 CGCCTG
64 CGCCTG
* * * * * * *
61398316 CAAACCTCAATTTTATAGCTGGGAGCTTTGCTT-TTGCTAACTATGTTAGATGTCAAGGCTCTTC
1 CGAACCTCGATTTTACAGCTGGGAGCTTTG-TTCTCGCTAACTATGTTAGAGGTCACGACTCTTC
*
61398380 GCCTA
65 GCCTG
* * * * * * **
61398385 CGATCCTCGATTTTACAACTGAGAGCTTTGTTCTCGCTAACTGTGTTAGAGATCACAACTCTTTT
1 CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAGAGGTCACGACTCTTCG
* *
61398450 CTTA
66 CCTG
* * * * * * * *
61398454 CGAACATCGATTTTACAGCTGAGAGCTTTGTTCTCACTAACTGTGTTGGAGATCGC-AGCTCTTT
1 CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAGAGGTCACGA-CTCTTC
* *
61398518 TCCTA
65 GCCTG
* * * * * * *
61398523 CGAACATCGATTTTACAGCTGAGAGCTTTGTTCTCGCTAACTGTGTTGGAGATCA-TAGCTCTTT
1 CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAGAGGTCACGA-CTCTTC
61398587 GCCTG
65 GCCTG
* ** *
61398592 CGAACCTCGATTTTACAGTTGGGAGCTTTACTCTCGCTAATTATGTTAGAGGTCACGACTCTTCG
1 CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAGAGGTCACGACTCTTCG
61398657 CCTG
66 CCTG
* * * * * * * * *
61398661 CGAACCTTGATTTTATAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCCACGGCTCTTTG
1 CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAGAGGTCACGACTCTTCG
61398726 CCTG
66 CCTG
*
61398730 CGAACCTTGATTTTACA
1 CGAACCTCGATTTTACA
61398747 AATGATAATT
Statistics
Matches: 523, Mismatches: 104, Indels: 22
0.81 0.16 0.03
Matches are distributed among these distances:
68 7 0.01
69 510 0.98
70 6 0.01
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (69 bp):
CGAACCTCGATTTTACAGCTGGGAGCTTTGTTCTCGCTAACTATGTTAGAGGTCACGACTCTTCG
CCTG
Found at i:61398724 original size:207 final size:206
Alignment explanation
Indices: 61398040--61398746 Score: 634
Period size: 207 Copynumber: 3.4 Consensus size: 206
61398030 TTTTTATATA
* * * ** * *
61398040 CGAACCTTGGTTTTACAGTTGGGAGCTTTACTCTCTCTAGTTATGTTAGAGGTCGCGACTCTTCG
1 CGAACCTTGATTTTACAGTTGGGAGCTTTGCTCTCGCTAACTATGTTAGAGGTCACAACTCTTCG
* * * * * *
61398105 CCTACAAACCTTGATTTTACAACT-AGGAGCTTTGTTCTTGCTAATTATGTTTGAGGTTATGGCT
66 CCTACAAACCTCGATTTTACAGCTGA-GAGCTTTGTTCTTGCTAACTATGTTAGA-GTCATAGCT
* * * **
61398169 CTTCGCCTGCGAACCTTGATTTTACAGTTGGGAGCTTCGCTCTCGCTAACTGTGTT-GAATGTTG
129 CTTCGCCTGCGAACCTCGATTTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTAG-AGGTCA
* *
61398233 TGGCTCTTTGCTTG
193 CGACTCTTTGCTTG
* * * * *
61398247 C-AAGCCTTAATTTTATATTTGGGA-CATTTGCTCTCGTTAAATATGTTAGAGGTCACAACTCTT
1 CGAA-CCTTGATTTTACAGTTGGGAGC-TTTGCTCTCGCTAACTATGTTAGAGGTCACAACTCTT
* * * *
61398310 CGCCTGCAAACCTCAATTTTATAGCTGGGAGCTTTGCTT-TTGCTAACTATGTTAGATGTCA-AG
64 CGCCTACAAACCTCGATTTTACAGCTGAGAGCTTTG-TTCTTGCTAACTATGTTAGA-GTCATA-
* * ** * * *
61398373 GCTCTTCGCCTACGATCCTCGATTTTACAACTGAGAGCTTTGTTCTCGCTAACTGTGTTAGAGAT
126 GCTCTTCGCCTGCGAACCTCGATTTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGT
* * *
61398438 CACAACTCTTTTCTTA
191 CACGACTCTTTGCTTG
* * * * * * * * * * * **
61398454 CGAACATCGATTTTACAGCTGAGAGCTTTGTTCTCACTAACTGTGTTGGAGATCGCAGCTCTTTT
1 CGAACCTTGATTTTACAGTTGGGAGCTTTGCTCTCGCTAACTATGTTAGAGGTCACAACTCTTCG
* * * * *
61398519 CCTACGAACATCGATTTTACAGCTGAGAGCTTTGTTCTCGCTAACTGTGTTGGAGATCATAGCTC
66 CCTACAAACCTCGATTTTACAGCTGAGAGCTTTGTTCTTGCTAACTATGTTAGAG-TCATAGCTC
* * * *
61398584 TTTGCCTGCGAACCTCGATTTTACAGTTGGGAGCTTTACTCTCGCTAATTATGTTAGAGGTCACG
130 TTCGCCTGCGAACCTCGATTTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCACG
* *
61398649 ACTCTTCGCCTG
195 ACTCTTTGCTTG
* * * * ** *
61398661 CGAACCTTGATTTTATAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCCACGGCTCTTTG
1 CGAACCTTGATTTTACAGTTGGGAGCTTTGCTCTCGCTAACTATGTTAGAGGTCACAACTCTTCG
* * *
61398726 CCTGCGAACCTTGATTTTACA
66 CCTACAAACCTCGATTTTACA
61398747 AATGATAATT
Statistics
Matches: 392, Mismatches: 97, Indels: 22
0.77 0.19 0.04
Matches are distributed among these distances:
206 6 0.02
207 379 0.97
208 7 0.02
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (206 bp):
CGAACCTTGATTTTACAGTTGGGAGCTTTGCTCTCGCTAACTATGTTAGAGGTCACAACTCTTCG
CCTACAAACCTCGATTTTACAGCTGAGAGCTTTGTTCTTGCTAACTATGTTAGAGTCATAGCTCT
TCGCCTGCGAACCTCGATTTTACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCACGA
CTCTTTGCTTG
Found at i:61402540 original size:50 final size:50
Alignment explanation
Indices: 61402468--61402711 Score: 301
Period size: 50 Copynumber: 4.9 Consensus size: 50
61402458 ACGGTTTTAA
* * *
61402468 GTCACGTGTGTATTACTGAGTGCAGGCTACTACGTGTACCAGATTGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
** * * * *
61402518 GTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAGCTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAG
* * *
61402569 ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
* * *
61402619 GTCACGTGTATAGTACTAAGTGCAGGCTACTACGTATACCAGATTGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
* * *
61402669 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
61402712 GAGCTTCGGT
Statistics
Matches: 162, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 120 0.74
51 42 0.26
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAG
Found at i:61402600 original size:101 final size:100
Alignment explanation
Indices: 61402469--61402711 Score: 301
Period size: 101 Copynumber: 2.4 Consensus size: 100
61402459 CGGTTTTAAG
* * * * ** *
61402469 TCACGTGTGTATTACTGAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTATAGTAC
* *
61402534 TAAGTGCAGGCTACTATGCGTA-CCCA-ATAGCTTCGA
66 TAAGTGCAGGCTACTA--CGTATACCAGATAG-TTAGA
* *
61402570 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTATAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTATAGTAC
* *
61402635 TAAGTGCAGGCTACTACGTATACCAGATTGTTAGG
66 TAAGTGCAGGCTACTACGTATACCAGATAGTTAGA
* * *
61402670 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
61402712 GAGCTTCGGT
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
99 4 0.03
100 44 0.36
101 75 0.61
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTATAGTAC
TAAGTGCAGGCTACTACGTATACCAGATAGTTAGA
Found at i:61407495 original size:22 final size:22
Alignment explanation
Indices: 61407467--61407508 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61407457 CTGCCTCTAC
*
61407467 GAACTTATGAGTCCGTTCGTGA
1 GAACTTATGAGCCCGTTCGTGA
61407489 GAACTTATGAGCCCGTTCGT
1 GAACTTATGAGCCCGTTCGT
61407509 ATAGGTCAGC
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:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (22 bp):
GAACTTATGAGCCCGTTCGTGA
Found at i:61409946 original size:12 final size:12
Alignment explanation
Indices: 61409916--61409972 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
61409906 CTATATCTTT
61409916 TATTATAATATA
1 TATTATAATATA
*
61409928 TAATATAATA-A
1 TATTATAATATA
61409939 TAGTTATATATATTA
1 TA-TTATA-ATA-TA
*
61409954 TATTTATAAAATA
1 TA-TTATAATATA
61409967 TATTAT
1 TATTAT
61409973 TTCATCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 3 0.08
12 17 0.46
13 7 0.19
14 2 0.05
15 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TATTATAATATA
Found at i:61410172 original size:18 final size:17
Alignment explanation
Indices: 61410149--61410182 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
61410139 TATCATGCCA
61410149 TATAGTATATAATATATT
1 TATAGTATAT-ATATATT
61410167 TATAGTATATATATAT
1 TATAGTATATATATAT
61410183 GCATCAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TATAGTATATATATATT
Found at i:61410401 original size:219 final size:215
Alignment explanation
Indices: 61410175--61410579 Score: 558
Period size: 216 Copynumber: 1.9 Consensus size: 215
61410165 TTTATAGTAT
* * * *
61410175 ATATATATGCATCAATGATTGAACGTTATAATATCATGGTAATACTATATTTTTTAATTATAATC
1 ATATATATGCATCAATGATTAAACATTATAATATCAT-GTAATACTATATATTTT-ATTATAATA
* * * *
61410240 TATAATATAATAATAGTTATATATAATAGTAGTACATTATATAGTACTTATAATTATATATTATT
64 TATAATATAATAATAGTTATATAGAATAATAGTACATTATATA-T--TAATAATCATATATTATT
* * * * *
61410305 GTTTATTATTATACTATTTAAAATGTGCCCCAAGTCTATATACTTTTTGTACATTTGAAAGAGTA
126 GTTTATTATTATAATAATTAAAATATGCACCAAGTCCATATACTTTTTGTACATTTGAAAGAGTA
61410370 AATTATAATATATTAATCATTTACA
191 AATTATAATATATTAATCATTTACA
* * *
61410395 TATATATATGCATCATTGATTAAATATTATAATATCATGTAATATTATATATTTTATTATAATAT
1 -ATATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATATTTTATTATAATAT
* *
61410460 ATAATATAATAATAGTTATATAGAATAATAGTACATTATATATTAATTATCATGTATTATTGTTT
65 ATAATATAATAATAGTTATATAGAATAATAGTACATTATATATTAATAATCATATATTATTGTTT
*** *
61410525 ATTATTATAATAATTAAAATATGCATTGAGTCCCTATACTTTTTGTACATTTGAA
130 ATTATTATAATAATTAAAATATGCACCAAGTCCATATACTTTTTGTACATTTGAA
61410580 GGTTAATCCT
Statistics
Matches: 162, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
216 64 0.40
218 1 0.01
219 49 0.30
220 15 0.09
221 33 0.20
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (215 bp):
ATATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATATTTTATTATAATATA
TAATATAATAATAGTTATATAGAATAATAGTACATTATATATTAATAATCATATATTATTGTTTA
TTATTATAATAATTAAAATATGCACCAAGTCCATATACTTTTTGTACATTTGAAAGAGTAAATTA
TAATATATTAATCATTTACA
Found at i:61410611 original size:15 final size:17
Alignment explanation
Indices: 61410591--61410644 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
61410581 GTTAATCCTC
61410591 ATACTATATTATA-TA-
1 ATACTATATTATATTAT
*
61410606 ATACTATATCATATTAT
1 ATACTATATTATATTAT
*
61410623 ATAATATATTAATAGTTAT
1 ATACTATATT-ATA-TTAT
61410642 ATA
1 ATA
61410645 TAATAGAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 12 0.38
16 2 0.06
17 8 0.25
18 3 0.09
19 7 0.22
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (17 bp):
ATACTATATTATATTAT
Done.