Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 55 of 214
Found at i:15372799 original size:58 final size:58
Alignment explanation
Indices: 15372709--15372824 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
15372699 GTGAAGAAGA
15372709 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
15372767 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
15372825 GAATCAAGTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (58 bp):
AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
Found at i:15377044 original size:23 final size:23
Alignment explanation
Indices: 15377013--15377072 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
15377003 TGATATATTA
* *
15377013 TAGTTTATTGTTACTGA-AAATGT
1 TAGTATATTGTTA-TGATAAAGGT
*
15377036 TAGTATATTATT-TGATTAAAGGT
1 TAGTATATTGTTATGA-TAAAGGT
15377059 TAGTATATTGTTAT
1 TAGTATATTGTTAT
15377073 ATTCTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 3 0.10
23 26 0.87
24 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.50
Consensus pattern (23 bp):
TAGTATATTGTTATGATAAAGGT
Found at i:15377154 original size:15 final size:17
Alignment explanation
Indices: 15377121--15377154 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15377111 TGTGTAAATG
15377121 TTTATATACTTTTATAT
1 TTTATATACTTTTATAT
15377138 TTTATATA-TTTTA-AT
1 TTTATATACTTTTATAT
15377153 TT
1 TT
15377155 ATTTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATACTTTTATAT
Found at i:15377575 original size:26 final size:26
Alignment explanation
Indices: 15377545--15377597 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
15377535 TTATTGTTAG
*
15377545 TTAAATGTTAGTATATTGAGATATTT
1 TTAAATATTAGTATATTGAGATATTT
* **
15377571 TTAAATATTATTATATTGTTATATTT
1 TTAAATATTAGTATATTGAGATATTT
15377597 T
1 T
15377598 AGTTTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TTAAATATTAGTATATTGAGATATTT
Found at i:15383171 original size:35 final size:36
Alignment explanation
Indices: 15383062--15383176 Score: 103
Period size: 35 Copynumber: 3.3 Consensus size: 36
15383052 TTATAGCCCT
* * * *
15383062 GAAGGACCTA-TATATTGTTTATATGGTGTTGCCCC
1 GAAGGACCTAGTATATAGTTTACATGGTGTCGCCAC
* * * **
15383097 CAAGGACCT-GTATATAGTTTACACGGAT-TCACCTT
1 GAAGGACCTAGTATATAGTTTACATGG-TGTCGCCAC
*
15383132 GAAGGA-CTAGTATATCGTTTACATGGTGTCGCCAC
1 GAAGGACCTAGTATATAGTTTACATGGTGTCGCCAC
15383167 GAAGGACCTA
1 GAAGGACCTA
15383177 TTGATAACCA
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
34 3 0.05
35 54 0.89
36 4 0.07
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (36 bp):
GAAGGACCTAGTATATAGTTTACATGGTGTCGCCAC
Found at i:15386474 original size:27 final size:27
Alignment explanation
Indices: 15386444--15386621 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
15386434 ATATCGAGTC
* * * *
15386444 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
15386471 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15386498 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
15386526 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
15386553 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
15386580 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15386607 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15386622 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 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:15386583 original size:82 final size:81
Alignment explanation
Indices: 15386465--15386620 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
15386455 TGCTATATAA
*
15386465 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
15386530 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
15386547 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
15386611 CACTTAGTGC
65 CACTTAGTGC
15386621 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15394499 original size:27 final size:27
Alignment explanation
Indices: 15394469--15394646 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
15394459 ATATCGAGTC
* * * *
15394469 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
15394496 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15394523 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
15394551 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
15394578 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
15394605 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15394632 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15394647 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 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:15394608 original size:82 final size:81
Alignment explanation
Indices: 15394490--15394645 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
15394480 TGCTATATAA
*
15394490 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
15394555 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
15394572 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
15394636 CACTTAGTGC
65 CACTTAGTGC
15394646 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15400494 original size:45 final size:45
Alignment explanation
Indices: 15400430--15400523 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
15400420 AACAGATACT
* *
15400430 CGGTGGATTCAGCACATAGCAACCACCT-TATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCA-CTATACTAATCAATGATGTC
*
15400475 CGGTGGAATCAGCACATAGCAACCACTATACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACTATACTAATCAATGATGTC
15400520 CGGT
1 CGGT
15400524 TCACATAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 2 0.04
45 43 0.96
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACTATACTAATCAATGATGTC
Found at i:15400666 original size:75 final size:75
Alignment explanation
Indices: 15400536--15400685 Score: 221
Period size: 75 Copynumber: 2.0 Consensus size: 75
15400526 ACATAGTAGC
* * *
15400536 CTGCACATAGTACTACACATGTGGCCATTACCATCCGATACACGTAGTAGCCTGCACATAGTACT
1 CTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTACCCTGCACATAGTACT
15400601 ACACACGTGAT
65 ACACACGTGAT
* * *
15400612 CTGCACATAGTACTACATATGCGACC-TATCATTCCGGTACACGTAGTACCCTGCACATAGTACT
1 CTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTACCCTGCACATAGTACT
15400676 ACACACGTGA
65 ACACACGTGA
15400686 CCATCACTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 4 0.06
75 40 0.60
76 23 0.34
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (75 bp):
CTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTACCCTGCACATAGTACTA
CACACGTGAT
Found at i:15404197 original size:51 final size:50
Alignment explanation
Indices: 15404137--15404318 Score: 224
Period size: 51 Copynumber: 3.6 Consensus size: 50
15404127 GTTGAATACA
* * *
15404137 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-GTTGGTCACG
* * * **
15404188 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCATA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAG--TTGGTCACG
* *
15404239 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAT-AAAGTTGGTCACG
15404289 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
15404319 TATCGAATGA
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
49 1 0.01
50 39 0.35
51 69 0.62
52 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAGTTGGTCACG
Found at i:15404320 original size:101 final size:102
Alignment explanation
Indices: 15404136--15404325 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 102
15404126 CGTTGAATAC
* * ** *
15404136 ATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACGTGTGTAGTACTAA
1 ATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACTAA
*
15404201 GTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCAT
66 GTGAAGGCTACTACGTGTACCGAAAAGCTTTGGTCAT
* *
15404238 ATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTACTAT
1 ATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACTAA
*
15404302 GTGAAGGCTACTACGTGTATCGAA
66 GTGAAGGCTACTACGTGTACCGAA
15404326 TGATAAAAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 45 0.57
102 34 0.43
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
ATGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACTAA
GTGAAGGCTACTACGTGTACCGAAAAGCTTTGGTCAT
Found at i:15404347 original size:101 final size:102
Alignment explanation
Indices: 15404134--15404357 Score: 272
Period size: 101 Copynumber: 2.2 Consensus size: 102
15404124 ATCGTTGAAT
* ** *
15404134 ACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACGTGTGTAGTACT
1 ACATGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACT
* * *** *
15404199 AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTC
66 AAGTGAAGGCTACTACGTGTACCGAAAAGATAAAGTA
* * *
15404236 ATATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTACT
1 ACATGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACT
* * *
15404300 ATGTGAAGGCTACTACGTGTATCG-AATGATAAAAGTA
66 AAGTGAAGGCTACTACGTGTACCGAAAAGAT-AAAGTA
*
15404337 ACATGGGTAGTACTGTGTGAA
1 ACATGTGTAGTACTGTGTGAA
15404358 AAACCCAAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
100 4 0.04
101 63 0.62
102 35 0.34
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (102 bp):
ACATGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGTAGTACT
AAGTGAAGGCTACTACGTGTACCGAAAAGATAAAGTA
Found at i:15406112 original size:26 final size:26
Alignment explanation
Indices: 15406083--15406139 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
15406073 GAAAGGTTGT
*
15406083 TAAATGACCGTAATGCCCCTAGAGGG
1 TAAATGACCATAATGCCCCTAGAGGG
* ** *
15406109 TAAATGACTATTTTGCCCCTCGAGGG
1 TAAATGACCATAATGCCCCTAGAGGG
15406135 TAAAT
1 TAAAT
15406140 AACTGATTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
TAAATGACCATAATGCCCCTAGAGGG
Found at i:15406149 original size:26 final size:26
Alignment explanation
Indices: 15406096--15406148 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
15406086 ATGACCGTAA
*
15406096 TGCCCCTAGAGGGTAAATGACTATTT
1 TGCCCCTAGAGGGTAAATAACTATTT
*
15406122 TGCCCCTCGAGGGTAAATAACTGATTT
1 TGCCCCTAGAGGGTAAATAACT-ATTT
15406149 GTGCTATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
TGCCCCTAGAGGGTAAATAACTATTT
Found at i:15408369 original size:77 final size:77
Alignment explanation
Indices: 15408241--15408424 Score: 230
Period size: 77 Copynumber: 2.4 Consensus size: 77
15408231 AACAATAAAT
* * *
15408241 TTTATTTTGTTTCAAACA-TAAATTCAATTGAACAATCCTATTTCAGAATTTTATTCCTGCCATT
1 TTTATTTTGTTTCAAACAGAAAAATCAATTGAACAATCATATTTCAGAATTTTATTCCTGCCATT
* *
15408305 TAATAGGATTTG
66 TAACAAGATTTG
* * * *
15408317 TCTTATTTTGTTTCAAATAGAAAAAT-AATTGAACAATCATGTTTTAGGATTTTATTCCTGCCAT
1 T-TTATTTTGTTTCAAACAGAAAAATCAATTGAACAATCATATTTCAGAATTTTATTCCTGCCAT
15408381 TTAACAAGATTTG
65 TTAACAAGATTTG
*
15408394 TTTGATTTTTGTTTTAAACAG-AAAATCAATT
1 TTT-A-TTTTGTTTCAAACAGAAAAATCAATT
15408425 TATCAATTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
76 3 0.03
77 68 0.74
78 21 0.23
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (77 bp):
TTTATTTTGTTTCAAACAGAAAAATCAATTGAACAATCATATTTCAGAATTTTATTCCTGCCATT
TAACAAGATTTG
Found at i:15408451 original size:78 final size:77
Alignment explanation
Indices: 15408242--15408451 Score: 228
Period size: 77 Copynumber: 2.7 Consensus size: 77
15408232 ACAATAAATT
* * * * *
15408242 TTATTTTGTTTCAAACA-TAAATTCAATTGAACAATCCTATTTCAGAATTTTATTCCTGCCATTT
1 TTATTTTGTTTCAAACAGAAAAAT-AATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTT
* *
15408306 AATAGGATTTGTC
65 AACAAGATTTGTC
* *
15408319 TTATTTTGTTTCAAATAGAAAAATAATTGAACAATCATGTTTTAGGATTTTATTCCTGCCATTTA
1 TTATTTTGTTTCAAACAGAAAAATAATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTA
15408384 ACAAGATTTGT-
66 ACAAGATTTGTC
* * * ** *
15408395 TTGATTTTTGTTTTAAACAG-AAAATCAATTTATCAATTTTGTTTCATGATTTTATTC
1 TT-A-TTTTGTTTCAAACAGAAAAAT-AATTGAACAATCATGTTTCAGGATTTTATTC
15408452 TTGTTGCTTC
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
76 2 0.02
77 68 0.61
78 42 0.38
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (77 bp):
TTATTTTGTTTCAAACAGAAAAATAATTGAACAATCATGTTTCAGGATTTTATTCCTGCCATTTA
ACAAGATTTGTC
Found at i:15416310 original size:20 final size:20
Alignment explanation
Indices: 15416281--15416331 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15416271 GTATCGATCT
*
15416281 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCCTAA
*
15416301 GGTATTGATATATTTCCTAA
1 GGTATCGATATATTTCCTAA
*
15416321 GGTATCAATAT
1 GGTATCGATAT
15416332 TCGTACTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (20 bp):
GGTATCGATATATTTCCTAA
Found at i:15416836 original size:14 final size:14
Alignment explanation
Indices: 15416817--15416855 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
15416807 AAATCATTAT
15416817 ATTTTTGTTACACA
1 ATTTTTGTTACACA
15416831 ATTTTTGTTACACA
1 ATTTTTGTTACACA
15416845 ATTTTTGTTAC
1 ATTTTTGTTAC
15416856 TTACACCACA
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:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (14 bp):
ATTTTTGTTACACA
Found at i:15417788 original size:58 final size:58
Alignment explanation
Indices: 15417698--15417813 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
15417688 GTGAAGAAGA
15417698 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
*
15417756 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACTACTAATAATGATAGT
1 AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
15417814 GAATCAAGTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.27
Consensus pattern (58 bp):
AAGAATTATGAAAAAGAATGTTGGTAAAGCTCTAAAATCCACCACTAATAATGATAGT
Found at i:15422535 original size:26 final size:26
Alignment explanation
Indices: 15422505--15422557 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
15422495 TTATTGTTAG
*
15422505 TTAAATGTTAGTATATTGAGATATTT
1 TTAAATATTAGTATATTGAGATATTT
* **
15422531 TTAAATATTATTATATTGTTATATTT
1 TTAAATATTAGTATATTGAGATATTT
15422557 T
1 T
15422558 AGTTTATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (26 bp):
TTAAATATTAGTATATTGAGATATTT
Found at i:15441141 original size:26 final size:26
Alignment explanation
Indices: 15441103--15441157 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
15441093 AACACACTAA
* *
15441103 TATCCCAGTAAAGCTGCCAGTAATAG
1 TATCCCAGCAAAGCTGCCAGTAACAG
* *
15441129 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCCCAGCAAAGCTGCCAGTAACAG
15441155 TAT
1 TAT
15441158 ACTTCCTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (26 bp):
TATCCCAGCAAAGCTGCCAGTAACAG
Found at i:15441384 original size:27 final size:26
Alignment explanation
Indices: 15441323--15441648 Score: 314
Period size: 27 Copynumber: 12.3 Consensus size: 26
15441313 GGGTATAACA
* *
15441323 GTCATTTTACCCTATAAGGTATTTTG
1 GTCATTTTACCCTATAGGGTATTTCG
*
15441349 GTCAGTTTACCCTATAGGGTTATTTCG
1 GTCATTTTACCCTATAGGG-TATTTCG
*
15441376 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTAT-AGGGTATTTCG
* * * * *
15441403 ATCA-TTTAACCTATGGGGCATTTCA
1 GTCATTTTACCCTATAGGGTATTTCG
* * *
15441428 ATCATTTTACCCTAAGAGGGTATTTTG
1 GTCATTTTACCCT-ATAGGGTATTTCG
*
15441455 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTAT-AGGGTATTTCG
* * *
15441482 ATCATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATAG-GGTATTTCG
* *
15441509 TTCATTTTACCCTAT-GGGTTATTTCA
1 GTCATTTTACCCTATAGGG-TATTTCG
* *
15441535 GTCATTTTATCATATGAGGGTATTTCG
1 GTCATTTTACCCTAT-AGGGTATTTCG
* * *
15441562 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-AGGGTATTTCG
*
15441589 GTCATTTTACCCTATAAGGGTATTGCG
1 GTCATTTTACCCTAT-AGGGTATTTCG
* *
15441616 GTCATTTTATCCTATGGGGTATTTCG
1 GTCATTTTACCCTATAGGGTATTTCG
*
15441642 ATCATTT
1 GTCATTT
15441649 ATTGACCTCT
Statistics
Matches: 248, Mismatches: 43, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
25 15 0.06
26 68 0.27
27 158 0.64
28 7 0.03
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTATAGGGTATTTCG
Found at i:15441408 original size:80 final size:81
Alignment explanation
Indices: 15441324--15441648 Score: 403
Period size: 80 Copynumber: 4.1 Consensus size: 81
15441314 GGTATAACAG
* *
15441324 TCATTTTACCCTAT-AAGGTATTTTGGTCAGTTTACCCTATAGGGTTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATAGGGTTATTTCGGTCATTTTACCC
15441388 TATGAGGGTATTTCAA
66 TATGAGGGTATTTCAA
* * *** * *
15441404 TCA-TTTAACCTATGG-GGCATTTCAATCATTTTACCCTA-AGAGGGTATTTTGGTCATTTTACC
1 TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATAG-GGTTATTTCGGTCATTTTACC
15441466 CTATGAGGGTATTTCAA
65 CTATGAGGGTATTTCAA
* * * *
15441483 TCATTTTACCCTATGGAGGTATTTTGTTCATTTTACCCTAT-GGGTTATTTCAGTCATTTTATCA
1 TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATAGGGTTATTTCGGTCATTTTACCC
**
15441547 TATGAGGGTATTTCGG
66 TATGAGGGTATTTCAA
* * * *
15441563 TCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAAGGG-TATTGCGGTCATTTTATC
1 TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTAT-AGGGTTATTTCGGTCATTTTACC
*
15441627 CTATG-GGGTATTTCGA
65 CTATGAGGGTATTTCAA
15441643 TCATTT
1 TCATTT
15441649 ATTGACCTCT
Statistics
Matches: 210, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
78 2 0.01
79 66 0.31
80 99 0.47
81 40 0.19
82 3 0.01
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATAGGGTTATTTCGGTCATTTTACCC
TATGAGGGTATTTCAA
Found at i:15441565 original size:107 final size:107
Alignment explanation
Indices: 15441308--15441648 Score: 397
Period size: 107 Copynumber: 3.2 Consensus size: 107
15441298 CATTTCATCT
** * *
15441308 CCTA-GGGGTATAACAGTCATTTTACCCTAT-AAGGTATTTTGGTCAGTTTACCCTAT-AGGGTT
1 CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGG-T
*
15441370 ATTTCGGTCATTTTACCCTATGAGGGTATTTCAATCA-TTTAA
65 ATTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAA
* * *
15441412 CCTATGGGGCATTTCAATCATTTTACCCTAAGAGGGTATTTTGGTCATTTTACCCTATGAGGGTA
1 CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTA
** * * *
15441477 TTTCAATCATTTTACCCTATG-GAGGTATTTTGTTCATTTTAC
66 TTTCGGTCATTTTACCCTATGAG-GGTATTTCGATCATTTTAA
* * * * * *
15441519 CCTATGGGTTATTTCAGTCATTTTATCATATGAGGGTATTTCGGTCATTTTACCTTATGGGGGTA
1 CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTA
* * * * *
15441584 TTTTGGTCATTTTACCCTATAAGGGTATTGCGGTCATTTTAT
66 TTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAA
15441626 CCTATGGGGTATTTC-GATCATTT
1 CCTATGGGGTATTTCAG-TCATTT
15441649 ATTGACCTCT
Statistics
Matches: 199, Mismatches: 31, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
104 4 0.02
105 22 0.11
106 56 0.28
107 116 0.58
108 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.42
Consensus pattern (107 bp):
CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATGAGGGTA
TTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTAA
Found at i:15442494 original size:51 final size:50
Alignment explanation
Indices: 15442418--15442519 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 50
15442408 TGAGAGAAAG
*
15442418 GTTTCGACAATTTTAATATCACTTGCTACACGTTTACTCCTCGAGGAAATC
1 GTTTCGACAATTTTAATATCACTTGCTACAC-CTTACTCCTCGAGGAAATC
* *
15442469 GTTTCGACGATTTTAATATCACTTGCTACACCTTACTCCTTGAGGAAATC
1 GTTTCGACAATTTTAATATCACTTGCTACACCTTACTCCTCGAGGAAATC
15442519 G
1 G
15442520 AACCGTCAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 18 0.38
51 30 0.62
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (50 bp):
GTTTCGACAATTTTAATATCACTTGCTACACCTTACTCCTCGAGGAAATC
Found at i:15447175 original size:12 final size:11
Alignment explanation
Indices: 15447152--15447209 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 11
15447142 TAGTTCACTT
*
15447152 AAAAACAAGAA
1 AAAAAAAAGAA
15447163 AAATAAAAAGAAA
1 AAA-AAAAAG-AA
15447176 AGAAAAAAGAGAA
1 A-AAAAAA-AGAA
15447189 AAAAAAAAGAA
1 AAAAAAAAGAA
15447200 AAAGAAAAAG
1 AAA-AAAAAG
15447210 GAGAGGCCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 10 0.24
12 17 0.41
13 10 0.24
14 4 0.10
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:15447176 original size:6 final size:6
Alignment explanation
Indices: 15447158--15447209 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
15447148 ACTTAAAAAC
* *
15447158 AAGAAA AATAAA AAG-AA AAGAAAA AAGAGAA AAAAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAG-AAA AAGA-AA AAGAAA AAGAAA AAGAAA
15447207 AAG
1 AAG
15447210 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 5 0.13
6 24 0.62
7 10 0.26
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:15447208 original size:25 final size:26
Alignment explanation
Indices: 15447159--15447213 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
15447149 CTTAAAAACA
15447159 AGAAAAATAAAAAGAAAAGAAAAAAG
1 AGAAAAATAAAAAGAAAAGAAAAAAG
*
15447185 AGAAAAA-AAAAAGAAAAAGAAAAAGG
1 AGAAAAATAAAAAG-AAAAGAAAAAAG
15447211 AGA
1 AGA
15447214 GGCCAAGGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (26 bp):
AGAAAAATAAAAAGAAAAGAAAAAAG
Found at i:15448314 original size:143 final size:142
Alignment explanation
Indices: 15448056--15448567 Score: 625
Period size: 143 Copynumber: 3.6 Consensus size: 142
15448046 GATTGAACTC
* * ** *
15448056 ATTATGGTGAATCTCATCAGCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCT
1 ATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-AGCCTTATCTCC
* * * * * *
15448121 GTGAAGTTGCAGTGGAGTACACTGAAGAAAGCGAATCGTATTTCCCTAGCGTTGCAGTGGAACAG
65 CTGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACAG
*
15448186 ATTAAAGCTAAAA
130 ATTAAAGCTACAA
* * * *
15448199 ATTATGGCGAATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTGAAGTCATCAGTCTTATCTCC
1 ATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAGCCTTATCTCC
* *
15448264 CT-ACAGTTGCATTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAAGA
65 CTGA-AGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACA
15448328 GATTAAAGCTACAA
129 GATTAAAGCTACAA
* * * * *
15448342 ATTATGG-AAGATATTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGTCAGCAGCCTTATCTC
1 ATTATGGCGA-ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAGCCTTATCTC
* * * * * *
15448406 CCTGAAGTTGCAGTGGAGCAAACTAAAGGCAGCGAATATTATTTCCCTGGAGTTACAGTGGAATA
64 CCTGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACA
15448471 GATTAAAGCTACAA
129 GATTAAAGCTACAA
* * * *
15448485 ATTATGACGGATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAATCC-TATCTC
1 ATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C-AGCCTTATCTC
* *
15448549 CCTGAAGTTGAAGTTGAGC
64 CCTGAAGTTGCAGTGGAGC
15448568 GGATTAAAAC
Statistics
Matches: 318, Mismatches: 45, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
142 2 0.01
143 311 0.98
144 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (142 bp):
ATTATGGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAGCCTTATCTCCC
TGAAGTTGCAGTGGAGCAAACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACAGA
TTAAAGCTACAA
Found at i:15450011 original size:4 final size:4
Alignment explanation
Indices: 15449997--15450030 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
15449987 TTATTATTTC
15449997 TATT ATATT TATT TATT TATT TATT TATT TATT T
1 TATT -TATT TATT TATT TATT TATT TATT TATT T
15450031 GCCTAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:15450075 original size:18 final size:19
Alignment explanation
Indices: 15450052--15450091 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
15450042 TTAAATACAT
*
15450052 TTATTTTA-TTATATCATG
1 TTATTTTATTTATATCATC
15450070 TTA-TTTATTTATATCATC
1 TTATTTTATTTATATCATC
15450088 TTAT
1 TTAT
15450092 ATAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATTTTATTTATATCATC
Found at i:15455934 original size:44 final size:44
Alignment explanation
Indices: 15455871--15456078 Score: 155
Period size: 44 Copynumber: 4.5 Consensus size: 44
15455861 TATGGCAGAT
* * *
15455871 CTTATCTTCTTGAAGTTGCAGTGGAGCATATTGAAGCCACTAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC
* * * * **
15455915 CTTATCTACCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAGC
* ** * * *
15455960 CTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--ACTA--GC
* *
15456010 GGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
1 ----CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC
*
15456058 CTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAG
15456079 CGGAACAGGC
Statistics
Matches: 123, Mismatches: 30, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
44 53 0.43
45 31 0.25
47 1 0.01
48 3 0.02
49 1 0.01
50 2 0.02
52 1 0.01
54 31 0.25
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGC
Found at i:15455977 original size:143 final size:143
Alignment explanation
Indices: 15455718--15456227 Score: 763
Period size: 143 Copynumber: 3.6 Consensus size: 143
15455708 TTGAAGTCAA
* * *
15455718 TATGGC-GAATCTTATCTTCCTGAAGTTACAGTGCAGCAGATTGAAGCCACCAACCTTATCTCCC
1 TATGGCAG-ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCC
* * *
15455782 TAAAGTTGCAGCGAAGTAGACTGAAGACAGCGAATCTTATTTCCCTGACGTTGCAGTGGAACAGA
65 TAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGA
15455847 TTAAAGCTACAAAT
130 TTAAAGCTACAAAT
* * * *
15455861 TATGGCAGATCTTATCTTCTTGAAGTTGCAGTGGAGCATATTGAAGCCACTAGCCTTATCTACCT
1 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
* *
15455926 GAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
66 AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
15455991 TAAAGCTACAAAT
131 TAAAGCTACAAAT
* *
15456004 TATTGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
1 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
* *
15456069 AAAGTTGCAGCGGAACAGGCTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
66 AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
15456134 TAAAGCTACAAAT
131 TAAAGCTACAAAT
* * ** * * *
15456147 TATGGCAGATTTTATCTTCCTGAATTTTTAGTGGAGCAAATTGAAGCCACCAATCC-TATCTTCC
1 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTCCC
* *
15456211 TGAAGTTGCAGTGGAGC
65 TAAAGTTGCAGCGGAGC
15456228 GGATTAAAAC
Statistics
Matches: 331, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
143 327 0.99
144 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (143 bp):
TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGAT
TAAAGCTACAAAT
Found at i:15455980 original size:45 final size:45
Alignment explanation
Indices: 15455923--15456132 Score: 154
Period size: 45 Copynumber: 4.5 Consensus size: 45
15455913 GCCTTATCTA
*
15455923 CCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTC
1 CCTGAAGTTGCAGTGGAACAGACTGAAGACAGCGAATCTTATTTC
** * * *
15455968 CCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATTGCGGATCTTATCTT-
1 CCTGAAGTTGCAGTGGAACAGACTGAAG--AC-----A--GCGAATCTTAT-TTC
* * * * ** *
15456022 CCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGCCTTATCTC
1 CCTGAAGTTGCAGTGGAACAGACTGAAGACAGCGAATCTTATTTC
* * *
15456066 CCTAAAGTTGCAGCGGAACAGGCTGAAGACAGCGAATCTTATTTC
1 CCTGAAGTTGCAGTGGAACAGACTGAAGACAGCGAATCTTATTTC
**
15456111 CCTGGCGTTGCAGTGGAACAGA
1 CCTGAAGTTGCAGTGGAACAGA
15456133 TTAAAGCTAC
Statistics
Matches: 122, Mismatches: 31, Indels: 24
0.69 0.18 0.14
Matches are distributed among these distances:
43 1 0.01
44 31 0.25
45 49 0.40
47 3 0.02
52 2 0.02
54 34 0.28
55 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (45 bp):
CCTGAAGTTGCAGTGGAACAGACTGAAGACAGCGAATCTTATTTC
Found at i:15457479 original size:12 final size:12
Alignment explanation
Indices: 15457456--15457487 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15457446 ATTAAAATTA
15457456 ATTATT-TTACT
1 ATTATTATTACT
15457467 ATTATTATTACT
1 ATTATTATTACT
15457479 ATTATTATT
1 ATTATTATT
15457488 TTACTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:15457507 original size:26 final size:26
Alignment explanation
Indices: 15457441--15457499 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
15457431 TTTTGCTATT
**
15457441 TTATTATTAAAATTAATTATTTTACTA
1 TTATTATTACTATT-ATTATTTTACTA
15457468 TTATTATTACTATTATTATTTTACT-
1 TTATTATTACTATTATTATTTTACTA
15457493 TT-TTATT
1 TTATTATT
15457500 TATTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 5 0.17
25 2 0.07
26 11 0.37
27 12 0.40
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTATTACTATTATTATTTTACTA
Found at i:15458664 original size:18 final size:18
Alignment explanation
Indices: 15458643--15458686 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
15458633 TGGTTCTTAC
15458643 TATTTTTAAAATTAAAT-A
1 TATTTTTAAAA-TAAATCA
*
15458661 TA-TTTTAAAATAATTCA
1 TATTTTTAAAATAAATCA
15458678 TATTTTTAA
1 TATTTTTAA
15458687 TCAAACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTTTAAAATAAATCA
Found at i:15460941 original size:23 final size:22
Alignment explanation
Indices: 15460890--15460946 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
15460880 ATTTATATAG
15460890 CAAATTGTAACAAAAAATAACAAT
1 CAAATT-TAA-AAAAAATAACAAT
*
15460914 AAAATTTAAAAAAACCATAA-AAT
1 CAAATTTAAAAAAA--ATAACAAT
15460937 CAAATTTAAA
1 CAAATTTAAA
15460947 TTTAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 5 0.17
23 15 0.52
24 9 0.31
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.23
Consensus pattern (22 bp):
CAAATTTAAAAAAAATAACAAT
Found at i:15463892 original size:50 final size:50
Alignment explanation
Indices: 15463824--15464012 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 50
15463814 TTTTCTGTAC
* * * *
15463824 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCAG
*
15463874 TGCTC-ATGCCATGTCCCAGACATGGTCTTAC--GGGAGACCTCTCATCTCAG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACATGGGAG--CTCTCATATCAG
* * *
15463924 TGCCAACGCCATGTCCCAGACATGGTCTCACATGGGACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC-A-G
15463979 ATGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAT
15464013 CGGATCTCAT
Statistics
Matches: 116, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
48 5 0.04
49 1 0.01
50 70 0.60
51 1 0.01
52 4 0.03
53 2 0.02
54 1 0.01
55 1 0.01
56 31 0.27
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCAG
Found at i:15463957 original size:100 final size:103
Alignment explanation
Indices: 15463824--15464010 Score: 247
Period size: 100 Copynumber: 1.8 Consensus size: 103
15463814 TTTTCTGTAC
* * * ** *
15463824 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GGTGCTC-ATGCCA
1 TGCCAACGCCATATCCCAGACATGGTCTCACATGGGACCTCTCATAACTCAGATGC-CAATGCCA
15463885 TGTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAG
65 TGTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAG
*
15463924 TGCCAACGCCATGTCCCAGACATGGTCTCACATGGGACCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAACGCCATATCCCAGACATGGTCTCACATGGGACCTCTCATAA-CTC-A-GATGCCAATGC
15463989 CATGTCCCAGACATGGTCTTAC
63 CATGTCCCAGACATGGTCTTAC
15464011 ATCGGATCTC
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
100 39 0.53
101 1 0.01
103 2 0.03
105 1 0.01
106 30 0.41
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (103 bp):
TGCCAACGCCATATCCCAGACATGGTCTCACATGGGACCTCTCATAACTCAGATGCCAATGCCAT
GTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAG
Found at i:15471416 original size:26 final size:26
Alignment explanation
Indices: 15471380--15471457 Score: 138
Period size: 26 Copynumber: 3.0 Consensus size: 26
15471370 TCCCAGACAT
*
15471380 AGTCTTACATGGGATATTTTCTGTAC
1 AGTCTTACATGGGATGTTTTCTGTAC
15471406 AGTCTTACATGGGATGTTTTCTGTAC
1 AGTCTTACATGGGATGTTTTCTGTAC
*
15471432 AGTCTTACATGGGATGCTTTCTGTAC
1 AGTCTTACATGGGATGTTTTCTGTAC
15471458 TACCAATGTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (26 bp):
AGTCTTACATGGGATGTTTTCTGTAC
Found at i:15477453 original size:49 final size:49
Alignment explanation
Indices: 15477398--15477493 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
15477388 TAGCACACAG
*
15477398 TGTGTGAGATTCTCGCGTATCTGATATTATTCTAGTGGTCCAAAGGGAC
1 TGTGTGAGATTCTCCCGTATCTGATATTATTCTAGTGGTCCAAAGGGAC
15477447 TGTGTGAGATTCTCCCGTATCTGATATTATTCTAGTGGTCCAAAGGG
1 TGTGTGAGATTCTCCCGTATCTGATATTATTCTAGTGGTCCAAAGGG
15477494 TATACAAAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (49 bp):
TGTGTGAGATTCTCCCGTATCTGATATTATTCTAGTGGTCCAAAGGGAC
Found at i:15487144 original size:16 final size:16
Alignment explanation
Indices: 15487123--15487153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15487113 ATATTTAGTC
15487123 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
15487139 ATATAATTAATTATT
1 ATATAATAAATTATT
15487154 TTTAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:15487223 original size:16 final size:17
Alignment explanation
Indices: 15487187--15487223 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
15487177 AAATTTATTT
*
15487187 TAATAGTAAGTTTTAAA
1 TAATAATAAGTTTTAAA
15487204 -AATAATAA-TTTTAAA
1 TAATAATAAGTTTTAAA
15487219 TAATA
1 TAATA
15487224 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATAATAAGTTTTAAA
Found at i:15490942 original size:38 final size:38
Alignment explanation
Indices: 15490891--15490969 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
15490881 TTGGTAGGGA
15490891 TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
1 TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
*
15490929 TTTAACATGTCTTTATTATGAAGTATTTAGTCTATTTT
1 TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
15490967 TTT
1 TTT
15490970 CTATCATAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56
Consensus pattern (38 bp):
TTTAACATGTCTTTATTATGAAGTATTTAGCCTATTTT
Found at i:15494890 original size:15 final size:15
Alignment explanation
Indices: 15494870--15494899 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15494860 TTAATATTCG
15494870 AATATTTATTTGATT
1 AATATTTATTTGATT
15494885 AATATTTATTTGATT
1 AATATTTATTTGATT
15494900 CATTCTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
AATATTTATTTGATT
Found at i:15495191 original size:18 final size:18
Alignment explanation
Indices: 15495170--15495211 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
15495160 TAATTTAGCC
15495170 ATTTTTATTTTTA-TTATA
1 ATTTTTATTTTTAGTT-TA
*
15495188 ATTTTTGTTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
15495206 ATTTTT
1 ATTTTT
15495212 TCATTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:15495231 original size:31 final size:30
Alignment explanation
Indices: 15495177--15495240 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
15495167 GCCATTTTTA
*
15495177 TTTTTATTATAATTTTTGTTTTTAGTTTAAT
1 TTTTTATTATAATTTTTGCTTTTA-TTTAAT
* *
15495208 TTTTTCATTCTAATTTTT-CTTTTATTTTAT
1 TTTTT-ATTATAATTTTTGCTTTTATTTAAT
15495238 TTT
1 TTT
15495241 GGTAGGTTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 10 0.34
32 11 0.38
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (30 bp):
TTTTTATTATAATTTTTGCTTTTATTTAAT
Found at i:15522973 original size:22 final size:22
Alignment explanation
Indices: 15522948--15522991 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15522938 GTTATCTAGG
15522948 GATAGTCTTCTCCATTCGATTC
1 GATAGTCTTCTCCATTCGATTC
15522970 GATAGTCTTCTCCATTCGATTC
1 GATAGTCTTCTCCATTCGATTC
15522992 TTTCTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (22 bp):
GATAGTCTTCTCCATTCGATTC
Found at i:15530060 original size:21 final size:21
Alignment explanation
Indices: 15530019--15530060 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15530009 TTATTTTTGA
*
15530019 ACATTTTAAATTTTACTTAAT
1 ACATTTTAAATTTTACATAAT
15530040 ACATTTATAAATTTTA-ATAAT
1 ACATTT-TAAATTTTACATAAT
15530061 GTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
ACATTTTAAATTTTACATAAT
Found at i:15532691 original size:30 final size:30
Alignment explanation
Indices: 15532657--15532718 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
15532647 ATAATTTAAC
* *
15532657 ATATTAATTGCTTAAAAATATATAAATTTT
1 ATATTAATTACTTAAAAATATATAAAATTT
*
15532687 ATATTAATTACTTAAAAATATTTAAAATTT
1 ATATTAATTACTTAAAAATATATAAAATTT
15532717 AT
1 AT
15532719 TTCATATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (30 bp):
ATATTAATTACTTAAAAATATATAAAATTT
Found at i:15539009 original size:157 final size:156
Alignment explanation
Indices: 15538773--15539244 Score: 757
Period size: 157 Copynumber: 3.0 Consensus size: 156
15538763 GTTGTGTGTT
* * * * *
15538773 CATGTTTGAGGAGAGAGAAAATTAGGTTAATGTTTGAAATC-GAGAGAAAAAGGTATGAATATCA
1 CATGTTTGAGGAGAGAGAAAATAATGTTAAGGTTTTAAATCAG-GAGAACAA-GTATGAATATCA
* *
15538837 AGGTTTCATAATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAATTGATGTTGAAGTAAAGA
64 AGGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGA
*
15538902 TTTCTCTTGGAAATTTTTATGTTTTTGA
129 TTTCTCATGGAAATTTTTATGTTTTTGA
*
15538930 CATGTTTGAGGAGAGAGAAAATAATGCTAAGGTTTTAAATCAGGAGAACAATGTATGAATATCAA
1 CATGTTTGAGGAGAGAGAAAATAATGTTAAGGTTTTAAATCAGGAGAACAA-GTATGAATATCAA
* *
15538995 GGTTACATTATGTTTTTAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
65 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
*
15539060 TTCTCATGGAAAGTTTTATGTTTTTGA
130 TTCTCATGGAAATTTTTATGTTTTTGA
* *
15539087 CATGTTTGAGGAGAGAGAAAATCATGTTAAGGTTTTAAATCAAGAGAACAAGATATGAATATCAA
1 CATGTTTGAGGAGAGAGAAAATAATGTTAAGGTTTTAAATCAGGAGAACAAG-TATGAATATCAA
15539152 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
65 GGTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGAT
*
15539217 TTCTCATGGAAAGTTTTTTTGTTTTTGA
130 TTCTCATGGAAA-TTTTTATGTTTTTGA
15539245 ATAAAGAAAT
Statistics
Matches: 292, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
156 1 0.00
157 277 0.95
158 14 0.05
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (156 bp):
CATGTTTGAGGAGAGAGAAAATAATGTTAAGGTTTTAAATCAGGAGAACAAGTATGAATATCAAG
GTTTCATTATGTTTTCAAGTTTAATCTTGTTGGAAAATTATAGAAATGATGTTGAAGTAAAGATT
TCTCATGGAAATTTTTATGTTTTTGA
Found at i:15543051 original size:95 final size:95
Alignment explanation
Indices: 15542888--15543076 Score: 315
Period size: 95 Copynumber: 2.0 Consensus size: 95
15542878 TCATGTCTTG
* * *
15542888 AGACATATTGGACTTTGTCTCGGGACATAAATCCTTTTGTTGAGACATTCAAGCTTTTGTCTCGA
1 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGCTCTTGTCTCGA
* *
15542953 GACAAATAGACTTAGAACTAAAATTTTTTT
66 GACAAATAGACCTAGAACTAAAAGTTTTTT
15542983 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGCTCTTGTCTCGA
1 AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGCTCTTGTCTCGA
* *
15543048 GACAGATAGACCTAGAACTGAAAGTTTTT
66 GACAAATAGACCTAGAACTAAAAGTTTTT
15543077 AATTTAGCCA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (95 bp):
AGACATATTGGACTTTGTCTCGAGACATAAATCCCTTTGTTGAGACATTCAAGCTCTTGTCTCGA
GACAAATAGACCTAGAACTAAAAGTTTTTT
Found at i:15553264 original size:16 final size:16
Alignment explanation
Indices: 15553243--15553274 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15553233 ATTTTGTTGC
*
15553243 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
15553259 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
15553275 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:15553471 original size:46 final size:47
Alignment explanation
Indices: 15553404--15553495 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 47
15553394 AACAGATACA
* *
15553404 CGGTGGATTCAGCACACAGCAACCACC-CTTTGTAATCAATGATATC
1 CGGTGGATTCAGCACACAGCAACCACCACCTTATAATCAATGATATC
* *
15553450 CGGTGGGA-TCAGCACATAGCAACCACCACCTTATAATTAATGATAT
1 CGGT-GGATTCAGCACACAGCAACCACCACCTTATAATCAATGATAT
15553496 TGGTTCACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 22 0.55
47 18 0.45
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (47 bp):
CGGTGGATTCAGCACACAGCAACCACCACCTTATAATCAATGATATC
Found at i:15553568 original size:51 final size:51
Alignment explanation
Indices: 15553505--15553695 Score: 226
Period size: 51 Copynumber: 3.8 Consensus size: 51
15553495 TTGGTTCACA
* * *
15553505 TAGTAGCCTGCACATAGTGCTACACATGTGAACATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGGTACACG
* * * * * *
15553556 TAGTAGCTTGCACATAGTACTACACACGTGATCA-AAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTATCCGGTACACG
* * *
15553607 TAGTAGCCTGCACATACTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCGGTACACG
*
15553657 TAGTAGCCTACACATAGTACTACACATGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
15553696 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.03
50 40 0.34
51 70 0.60
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGGTACACG
Found at i:15553680 original size:101 final size:102
Alignment explanation
Indices: 15553503--15553687 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
15553493 TATTGGTTCA
* * * * *
15553503 CATAGTAGCCTGCACATAGTGCTACACATGTGAACATCACTATCCGATACACGTAGTAGCTTGCA
1 CATAGTAGCCTGCACATACTACTACACATGCGAACATCACTATCCGATACACGTAGTAGCCTACA
15553568 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
* * *
15553605 CATAGTAGCCTGCACATACTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATACTACTACACATGCGAAC-ATCACTATCCGATACACGTAGTAGCCTAC
*
15553668 ACATAGTACTACACATGTGA
65 ACATAGTACTACACACGTGA
15553688 CCATCACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 37 0.51
102 32 0.44
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATACTACTACACATGCGAACATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
Found at i:15558179 original size:18 final size:18
Alignment explanation
Indices: 15558156--15558191 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15558146 TGCACACTCA
15558156 CACTTATCA-TGTTCATAT
1 CACTTATCACT-TTCATAT
15558174 CACTTATCACTTTCATAT
1 CACTTATCACTTTCATAT
15558192 AATGCACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (18 bp):
CACTTATCACTTTCATAT
Found at i:15561630 original size:28 final size:28
Alignment explanation
Indices: 15561567--15561720 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
15561557 ATATTAAGTC
* *
15561567 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
15561594 TGCACACTTAGCGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15561622 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15561650 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15561678 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15561706 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15561721 GTACAATTTA
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 20 0.17
28 100 0.83
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:15577028 original size:28 final size:28
Alignment explanation
Indices: 15576965--15577118 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
15576955 ATATTAAGTC
* *
15576965 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
15576992 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15577020 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15577048 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15577076 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15577104 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15577119 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 21 0.17
28 101 0.83
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:15585111 original size:28 final size:28
Alignment explanation
Indices: 15585048--15585199 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
15585038 ATATTAAGTC
* *
15585048 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
15585075 TGCACACTTAGCGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15585103 CGCACACTTAGTG--ACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15585129 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15585157 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
15585185 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15585200 GTACAATTTA
Statistics
Matches: 116, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
26 25 0.22
27 20 0.17
28 71 0.61
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:15585134 original size:54 final size:55
Alignment explanation
Indices: 15585048--15585224 Score: 232
Period size: 54 Copynumber: 3.2 Consensus size: 55
15585038 ATATTAAGTC
* * * *
15585048 CGCACACTCAGTGCTATATAATC-AACTTGCACACTTAGCGCTATATAATCAAACT
1 CGCACACTTAGTGC-ACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
*
15585103 CGCACACTTAGTG-ACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* * * *
15585157 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGC-ACATAATCAAACTCGCACACTTAGTGCTATATAA-TCAAACT
15585214 CGCACACTTAG
1 CGCACACTTAG
15585225 CGCCAATCTC
Statistics
Matches: 108, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
53 7 0.06
54 42 0.39
55 12 0.11
56 31 0.29
57 16 0.15
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:15585186 original size:82 final size:81
Alignment explanation
Indices: 15585048--15585197 Score: 246
Period size: 82 Copynumber: 1.8 Consensus size: 81
15585038 ATATTAAGTC
* * *
15585048 CGCACACTCAGTGCTATATAATCAACTTGCACACTTAGCGCTATATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGCGCTACATAATCAAACTCGCACACTTA
15585113 GTGACATAATCAAACT
66 GTGACATAATCAAACT
* *
15585129 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGCGCTACATAATCAAACTCGCACACTT
15585194 AGTG
65 AGTG
15585198 CTGTACAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
81 21 0.33
82 42 0.67
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (81 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGCGCTACATAATCAAACTCGCACACTTA
GTGACATAATCAAACT
Found at i:15591860 original size:6 final size:6
Alignment explanation
Indices: 15591851--15591877 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15591841 TCTTCCATTT
15591851 CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCC
15591878 CATCCTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTTC
Found at i:15595091 original size:34 final size:35
Alignment explanation
Indices: 15595025--15595091 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15595015 CAAACACCAG
*
15595025 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
15595060 AAAATCTTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
15595092 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:15599425 original size:93 final size:93
Alignment explanation
Indices: 15599256--15599438 Score: 323
Period size: 93 Copynumber: 2.0 Consensus size: 93
15599246 AATTTGAAAT
*
15599256 TGCTACTATCACTAAAGGGGGCATAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
1 TGCTACTATCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
*
15599321 CTAGGAGTTCTATATCCCTTATTCATAC
66 CTAGGAATTCTATATCCCTTATTCATAC
*
15599349 TGCTACTGTCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
1 TGCTACTATCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
15599414 CATA-GAATTCTATATCCCTTATTCA
66 C-TAGGAATTCTATATCCCTTATTCA
15599439 ATTGGAAATC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 84 0.98
94 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (93 bp):
TGCTACTATCACTAAAGGGGGCACAACAATGTTGATGAACAAATTGCGTCCAAAGTTGAAGGACC
CTAGGAATTCTATATCCCTTATTCATAC
Found at i:15600585 original size:23 final size:23
Alignment explanation
Indices: 15600559--15600602 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15600549 TAAGGAAAGC
*
15600559 ATGCAGCTGGACATTCGTGCATA
1 ATGCAGCTGGACATTCATGCATA
* *
15600582 ATGCGGTTGGACATTCATGCA
1 ATGCAGCTGGACATTCATGCA
15600603 CATTGCCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (23 bp):
ATGCAGCTGGACATTCATGCATA
Found at i:15602887 original size:12 final size:12
Alignment explanation
Indices: 15602872--15602926 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
15602862 AAAAGTTGAG
15602872 AGAAAATAAACA
1 AGAAAATAAACA
*
15602884 AGAAAA-AAAGA
1 AGAAAATAAACA
*
15602895 ATGAAAATGAACA
1 A-GAAAATAAACA
*
15602908 AGAAAAGAAA-A
1 AGAAAATAAACA
15602919 ATGAAAAT
1 A-GAAAAT
15602927 GAAAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 7 0.21
12 23 0.68
13 4 0.12
ACGTcount: A:0.73, C:0.04, G:0.15, T:0.09
Consensus pattern (12 bp):
AGAAAATAAACA
Found at i:15602941 original size:24 final size:24
Alignment explanation
Indices: 15602873--15602929 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
15602863 AAAGTTGAGA
*
15602873 GAAAATAAACAAGAAAA-AAAGAAT
1 GAAAATGAACAAGAAAAGAAA-AAT
15602897 GAAAATGAACAAGAAAAGAAAAAT
1 GAAAATGAACAAGAAAAGAAAAAT
15602921 GAAAATGAA
1 GAAAATGAA
15602930 AAAAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.72, C:0.04, G:0.16, T:0.09
Consensus pattern (24 bp):
GAAAATGAACAAGAAAAGAAAAAT
Found at i:15608597 original size:19 final size:20
Alignment explanation
Indices: 15608563--15608601 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
15608553 GATTAATATT
*
15608563 AGTTAATATTTTATTAATTA
1 AGTTAATATTTAATTAATTA
15608583 AGTTAAT-TTTAATTAATTA
1 AGTTAATATTTAATTAATTA
15608602 TAAACTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
AGTTAATATTTAATTAATTA
Found at i:15612306 original size:22 final size:20
Alignment explanation
Indices: 15612272--15612329 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
15612262 ATGCTAACAG
*
15612272 AGGCACCGTAGTGCAAATACAA
1 AGGCACCGAAGTGCAAAT--AA
* *
15612294 AGGCACTGAAGTGCAAATAT
1 AGGCACCGAAGTGCAAATAA
15612314 AGGCACCGAAGTGCAA
1 AGGCACCGAAGTGCAA
15612330 TCCCGTACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 16 0.50
22 16 0.50
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.14
Consensus pattern (20 bp):
AGGCACCGAAGTGCAAATAA
Found at i:15615845 original size:27 final size:27
Alignment explanation
Indices: 15615814--15615870 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
15615804 TTGAATTAGT
15615814 TTAGTTAATTT-GATTTCAATTTATTTG
1 TTAGTTAATTTGGATTT-AATTTATTTG
* * *
15615841 TTAGTTAGTTTGGCTTTAGTTTATTTG
1 TTAGTTAATTTGGATTTAATTTATTTG
15615868 TTA
1 TTA
15615871 CAAATTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.21, C:0.04, G:0.16, T:0.60
Consensus pattern (27 bp):
TTAGTTAATTTGGATTTAATTTATTTG
Found at i:15622103 original size:30 final size:30
Alignment explanation
Indices: 15622050--15622117 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
15622040 TTCCGATAAC
* *
15622050 ATAATTAATGTTAAAATGTTTTCTCA-TACT
1 ATAATTAATGATAAAATGCTTTCTCATTA-T
*
15622080 ATAATTAAT-ATAAACATGCTTTCTTATTAT
1 ATAATTAATGATAAA-ATGCTTTCTCATTAT
15622110 ATAATTAA
1 ATAATTAA
15622118 AAAAAGTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 27 0.82
31 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (30 bp):
ATAATTAATGATAAAATGCTTTCTCATTAT
Found at i:15638260 original size:33 final size:33
Alignment explanation
Indices: 15638222--15638284 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
15638212 GATTACTCAC
15638222 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
15638255 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
15638285 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:15638311 original size:21 final size:21
Alignment explanation
Indices: 15638282--15638337 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
15638272 CAAGCTCTCT
*
15638282 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
15638303 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
15638324 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
15638338 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:15638330 original size:14 final size:14
Alignment explanation
Indices: 15638281--15638337 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
15638271 TCAAGCTCTC
15638281 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
15638294 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
15638308 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
15638322 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
15638336 TT
1 TT
15638338 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:15638391 original size:18 final size:18
Alignment explanation
Indices: 15638299--15638401 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
15638289 TCTTTTTTCG
15638299 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
15638318 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* ** *
15638338 CTCTCACTTTTTGA-TTT
1 CTTTTTCTTTTTCATTTT
* *
15638355 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
15638373 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
15638391 CTTTTTGTTTT
1 CTTTTTCTTTT
15638402 CTTTCAATTT
Statistics
Matches: 64, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
17 12 0.19
18 33 0.52
19 3 0.05
20 8 0.12
21 8 0.12
ACGTcount: A:0.07, C:0.17, G:0.04, T:0.72
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:15638418 original size:6 final size:6
Alignment explanation
Indices: 15638299--15638405 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
15638289 TCTTTTTTCG
* * * **
15638299 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
15638350 -GATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
15638397 -GTTTT CTTT
1 CTTTTT CTTT
15638406 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 8
0.69 0.24 0.08
Matches are distributed among these distances:
5 7 0.10
6 53 0.74
7 9 0.12
8 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:15639547 original size:11 final size:12
Alignment explanation
Indices: 15639481--15639547 Score: 50
Period size: 12 Copynumber: 5.5 Consensus size: 12
15639471 TTTTGCTCGA
*
15639481 TTTTTTTC-ACT
1 TTTTTTTCGATT
15639492 TTTTTTT-GAATT
1 TTTTTTTCG-ATT
*
15639504 TTTTTTCAATCAATT
1 TTTTTT---TCGATT
*
15639519 TTTTTTTCGAAT
1 TTTTTTTCGATT
15639531 TTTTTTT-GATT
1 TTTTTTTCGATT
15639542 TTTTTT
1 TTTTTT
15639548 GTTACTCCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 16 0.36
12 19 0.42
15 10 0.22
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.73
Consensus pattern (12 bp):
TTTTTTTCGATT
Found at i:15641489 original size:21 final size:21
Alignment explanation
Indices: 15641463--15641525 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
15641453 TTGGTATTTG
15641463 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
15641484 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
15641505 GGTATTTGGTACGAAGTGGTA
1 GG-AATTGGTACGAAATGGTA
15641526 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.35, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:15641494 original size:11 final size:11
Alignment explanation
Indices: 15641474--15641506 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15641464 GAATTGGTAC
15641474 GAAATGGTATG
1 GAAATGGTATG
*
15641485 GAATTGGTAT-
1 GAAATGGTATG
15641495 GAAATGGTATG
1 GAAATGGTATG
15641506 G
1 G
15641507 TATTTGGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (11 bp):
GAAATGGTATG
Found at i:15644186 original size:15 final size:16
Alignment explanation
Indices: 15644154--15644186 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15644144 AAATTCGGTT
15644154 TAGAATAGAAATAAGG
1 TAGAATAGAAATAAGG
*
15644170 TAGATTAGAAA-AAGG
1 TAGAATAGAAATAAGG
15644185 TA
1 TA
15644187 ATTGATGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (16 bp):
TAGAATAGAAATAAGG
Found at i:15646655 original size:17 final size:18
Alignment explanation
Indices: 15646633--15646666 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15646623 ACAACACTCC
*
15646633 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
15646650 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
15646667 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:15646774 original size:15 final size:16
Alignment explanation
Indices: 15646749--15646780 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15646739 TATCTCACAC
15646749 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
15646765 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
15646780 T
1 T
15646781 TTCATTTTCT
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:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:15647741 original size:17 final size:18
Alignment explanation
Indices: 15647707--15647746 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15647697 TTTAACTTGA
* *
15647707 TTTTTTTGGTCACCTTTT
1 TTTTTTTGCTCACATTTT
15647725 TTTTTTTGCTCA-ATTTT
1 TTTTTTTGCTCACATTTT
15647742 TTTTT
1 TTTTT
15647747 CACTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTTTTTGCTCACATTTT
Found at i:15647772 original size:17 final size:16
Alignment explanation
Indices: 15647752--15647803 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
15647742 TTTTTCACTA
15647752 TTTTTTTGAATA-TTT
1 TTTTTTTGAATATTTT
*
15647767 TTTTTTTCAATCAATTTT
1 TTTTTTTGAAT--ATTTT
*
15647785 TTTTTTCGAAT-TTTT
1 TTTTTTTGAATATTTT
15647800 TTTT
1 TTTT
15647804 ATTTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 18 0.58
17 1 0.03
18 12 0.39
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (16 bp):
TTTTTTTGAATATTTT
Found at i:15647798 original size:43 final size:39
Alignment explanation
Indices: 15647722--15647813 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 39
15647712 TTGGTCACCT
15647722 TTTTTTTTTTGCTCAATTTTTTTTTCACTATTTTTTTGAATA
1 TTTTTTTTTTGCTCAATTTTTTTTTCAC-ATTTTTTT--ATA
*
15647764 TTTTTTTTTT-CAATCAATTTTTTTTTTCGA-ATTTTTTTTTA
1 TTTTTTTTTTGC--TCAA-TTTTTTTTTC-ACATTTTTTTATA
15647805 TTTTTTTTT
1 TTTTTTTTT
15647814 GTTACTCCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
41 12 0.27
42 10 0.22
43 12 0.27
44 10 0.22
45 1 0.02
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (39 bp):
TTTTTTTTTTGCTCAATTTTTTTTTCACATTTTTTTATA
Found at i:15648153 original size:15 final size:16
Alignment explanation
Indices: 15648121--15648153 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15648111 AAATTCGGTT
15648121 TAGAATAGAAACAAGG
1 TAGAATAGAAACAAGG
*
15648137 TAGATTAGAAA-AAGG
1 TAGAATAGAAACAAGG
15648152 TA
1 TA
15648154 ATTGATGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.03, G:0.24, T:0.18
Consensus pattern (16 bp):
TAGAATAGAAACAAGG
Found at i:15650047 original size:22 final size:22
Alignment explanation
Indices: 15650017--15650060 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15650007 TTTGGTATTT
15650017 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
15650039 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
15650061 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:15654972 original size:22 final size:22
Alignment explanation
Indices: 15654942--15654985 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15654932 TTTGGTATTT
15654942 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
15654964 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
15654986 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:15658006 original size:19 final size:19
Alignment explanation
Indices: 15657957--15658008 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
15657947 TTCCCGCAAA
*
15657957 AAAATC-AGTAGAAAAAGTC
1 AAAATCAAGTA-AAAAAGAC
* *
15657976 AAAA-AAATTAAAAAAGAC
1 AAAATCAAGTAAAAAAGAC
15657994 AAAATCAAGTAAAAA
1 AAAATCAAGTAAAAA
15658009 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.69, C:0.08, G:0.10, T:0.13
Consensus pattern (19 bp):
AAAATCAAGTAAAAAAGAC
Found at i:15660655 original size:33 final size:34
Alignment explanation
Indices: 15660618--15660689 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
15660608 GAGTTAGTTT
15660618 ATTAAATTTAGTTCAACTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* * *
15660651 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
15660685 ATTAA
1 ATTAA
15660690 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:15661844 original size:30 final size:30
Alignment explanation
Indices: 15661788--15661844 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15661778 TGGGCTCAAA
**
15661788 TCAAGAAAATCAAGATTCACTTTCTTGTTT
1 TCAAGAAAATCAAGATTCACAATCTTGTTT
15661818 TCAAGAAAATCAAGATTTCA-AATCTTG
1 TCAAGAAAATCAAGA-TTCACAATCTTG
15661845 GAAATCTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (30 bp):
TCAAGAAAATCAAGATTCACAATCTTGTTT
Found at i:15670182 original size:17 final size:18
Alignment explanation
Indices: 15670160--15670193 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15670150 ACAACACTCC
*
15670160 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
15670177 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
15670194 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:15671389 original size:14 final size:13
Alignment explanation
Indices: 15671356--15671408 Score: 79
Period size: 13 Copynumber: 3.9 Consensus size: 13
15671346 AAACCGTATG
*
15671356 CAATTTATTTTTT
1 CAATTTTTTTTTT
15671369 CAATTTTTTTTTT
1 CAATTTTTTTTTT
15671382 CAATTTTTTTTTT
1 CAATTTTTTTTTT
15671395 CGAACTTTTTTTTT
1 C-AA-TTTTTTTTT
15671409 ACGCACCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
13 26 0.70
14 2 0.05
15 9 0.24
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:15674871 original size:15 final size:15
Alignment explanation
Indices: 15674851--15674901 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
15674841 ACTCTCCTCA
*
15674851 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
15674866 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
15674881 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
15674895 TTCTTTT
1 TTCTTTT
15674902 TATTGATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:15676959 original size:17 final size:17
Alignment explanation
Indices: 15676927--15676961 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15676917 CACTTCTCTT
*
15676927 TTTTTTTTAATTCTGAA
1 TTTTTTTTAATACTGAA
15676944 TTTTTTTTAATACTGAA
1 TTTTTTTTAATACTGAA
15676961 T
1 T
15676962 ACACAAAGAA
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:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTTTTTTAATACTGAA
Found at i:15679952 original size:11 final size:12
Alignment explanation
Indices: 15679936--15679983 Score: 62
Period size: 11 Copynumber: 3.8 Consensus size: 12
15679926 TATCAAGTTG
15679936 TGAAAAAAAA-T
1 TGAAAAAAAATT
15679947 TGAAAAAAAATT
1 TGAAAAAAAATT
15679959 GTGAAAAAAAAAATT
1 -TG--AAAAAAAATT
15679974 TGAAAAAAAA
1 TGAAAAAAAA
15679984 GAGAGCTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
11 10 0.30
12 9 0.27
13 2 0.06
14 2 0.06
15 10 0.30
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (12 bp):
TGAAAAAAAATT
Found at i:15679967 original size:15 final size:14
Alignment explanation
Indices: 15679938--15679983 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
15679928 TCAAGTTGTG
15679938 AAAAAAAA-TTG--
1 AAAAAAAATTTGAA
15679949 AAAAAAAATTGTGAA
1 AAAAAAAATT-TGAA
15679964 AAAAAAAATTTGAA
1 AAAAAAAATTTGAA
15679978 AAAAAA
1 AAAAAA
15679984 GAGAGCTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.26
12 1 0.03
13 2 0.06
14 10 0.32
15 10 0.32
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (14 bp):
AAAAAAAATTTGAA
Found at i:15680929 original size:18 final size:18
Alignment explanation
Indices: 15680908--15680953 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
15680898 GAGTGACGAG
15680908 AGAAAAAGAAACTGAAAA
1 AGAAAAAGAAACTGAAAA
*
15680926 AGAAACAA-AAATTGAAAA
1 AGAAA-AAGAAACTGAAAA
15680944 AGAGAAAAGA
1 AGA-AAAAGA
15680954 TTGGAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAACTGAAAA
Found at i:15690003 original size:22 final size:22
Alignment explanation
Indices: 15689973--15690016 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15689963 TTTGGTATTT
15689973 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
15689995 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
15690017 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:15693505 original size:20 final size:19
Alignment explanation
Indices: 15693482--15693546 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
15693472 AAGCTCAAAC
15693482 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
15693502 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
15693522 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
15693542 GAGCT
1 GAGCT
15693547 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:15694041 original size:20 final size:20
Alignment explanation
Indices: 15694018--15694064 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15694008 GGGTTAAGAT
*
15694018 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
15694038 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
15694058 TGAGCTG
1 TGAGCTG
15694065 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:15695269 original size:19 final size:19
Alignment explanation
Indices: 15695247--15695284 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15695237 AACTAGCCAA
15695247 GGACAACTCAAGAGTCATT
1 GGACAACTCAAGAGTCATT
15695266 GGACAACTCAAGAGTCATT
1 GGACAACTCAAGAGTCATT
15695285 TTCTAAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
GGACAACTCAAGAGTCATT
Found at i:15695999 original size:13 final size:14
Alignment explanation
Indices: 15695983--15696015 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15695973 GAAAAAAATT
15695983 AAAAAAAA-TTCAA
1 AAAAAAAATTTCAA
*
15695996 AAAAAAAATTTGAA
1 AAAAAAAATTTCAA
15696010 AAAAAA
1 AAAAAA
15696016 CTAGTTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAAAATTTCAA
Found at i:15696072 original size:11 final size:12
Alignment explanation
Indices: 15696056--15696102 Score: 69
Period size: 11 Copynumber: 3.8 Consensus size: 12
15696046 TATCAAGTTG
15696056 TGAAAAAAAA-T
1 TGAAAAAAAATT
15696067 TGAAAAAAAATT
1 TGAAAAAAAATT
15696079 GTGAAAAAAAAATT
1 -TG-AAAAAAAATT
15696093 TGAAAAAAAA
1 TGAAAAAAAA
15696103 GAGAGAGCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
11 10 0.30
12 9 0.27
13 4 0.12
14 10 0.30
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (12 bp):
TGAAAAAAAATT
Found at i:15696076 original size:13 final size:13
Alignment explanation
Indices: 15696058--15696102 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
15696048 TCAAGTTGTG
15696058 AAAAAAAA-TTG-
1 AAAAAAAATTTGA
15696069 AAAAAAAATTGTGA
1 AAAAAAAATT-TGA
15696083 AAAAAAAATTTGA
1 AAAAAAAATTTGA
15696096 AAAAAAA
1 AAAAAAA
15696103 GAGAGAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.26
12 1 0.03
13 12 0.39
14 10 0.32
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (13 bp):
AAAAAAAATTTGA
Found at i:15699567 original size:19 final size:19
Alignment explanation
Indices: 15699545--15699582 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15699535 AACTAGCCAA
15699545 GGACAACTCAAGAGTCATT
1 GGACAACTCAAGAGTCATT
15699564 GGACAACTCAAGAGTCATT
1 GGACAACTCAAGAGTCATT
15699583 TTCTAAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
GGACAACTCAAGAGTCATT
Found at i:15701105 original size:24 final size:22
Alignment explanation
Indices: 15701074--15701118 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15701064 CTGTTCGAAG
15701074 AGATTTCAAGAATCAAGAAAATCA
1 AGATTTC-A-AATCAAGAAAATCA
*
15701098 AGATTTCAAATCTAGAAAATC
1 AGATTTCAAATCAAGAAAATC
15701119 TTGGTCCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 1 0.05
24 7 0.35
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.24
Consensus pattern (22 bp):
AGATTTCAAATCAAGAAAATCA
Found at i:15711388 original size:18 final size:18
Alignment explanation
Indices: 15711321--15711388 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
15711311 TTTTCACATC
* *
15711321 CTTTTTCAATCTCAATTT
1 CTTTTTCAATCTCACTCT
* **
15711339 CTTTTTCCATGACACTCGTTT
1 CTTTTTCAATCTCACTC---T
15711360 CTTTCTTCAATCTCACTCT
1 CTTT-TTCAATCTCACTCT
15711379 CTTTTTCAAT
1 CTTTTTCAAT
15711389 TTCTTGTTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 18 0.47
19 5 0.13
21 5 0.13
22 10 0.26
ACGTcount: A:0.18, C:0.28, G:0.03, T:0.51
Consensus pattern (18 bp):
CTTTTTCAATCTCACTCT
Found at i:15712413 original size:11 final size:11
Alignment explanation
Indices: 15712399--15712433 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
15712389 TTTTTTTTCC
15712399 TTTTTTTG-AT
1 TTTTTTTGAAT
15712409 TTTTTTTGAAT
1 TTTTTTTGAAT
15712420 TTTTTTCTGAAT
1 TTTTTT-TGAAT
15712432 TT
1 TT
15712434 CTTCTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.35
11 8 0.35
12 7 0.30
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:15712538 original size:10 final size:10
Alignment explanation
Indices: 15712510--15712538 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15712500 CAACTCAAAT
15712510 TTTTTTTTA-
1 TTTTTTTTAC
15712519 TTTTTTTTAC
1 TTTTTTTTAC
15712529 TTTTTTTTAC
1 TTTTTTTTAC
15712539 GTTACGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTAC
Found at i:15713969 original size:20 final size:20
Alignment explanation
Indices: 15713946--15713992 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15713936 GGGTTAAGAT
*
15713946 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
15713966 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
15713986 TGAGCTG
1 TGAGCTG
15713993 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:15720450 original size:20 final size:20
Alignment explanation
Indices: 15720427--15720480 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
15720417 AGTTTTTCCC
*
15720427 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
15720447 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
15720467 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
15720481 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:15720462 original size:30 final size:30
Alignment explanation
Indices: 15720427--15720500 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
15720417 AGTTTTTCCC
15720427 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
15720457 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
15720487 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
15720501 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:15720490 original size:20 final size:20
Alignment explanation
Indices: 15720427--15720491 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
15720417 AGTTTTTCCC
* * * *
15720427 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
15720447 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
15720466 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
15720487 AGCTC
1 AGCTC
15720492 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:15722115 original size:14 final size:15
Alignment explanation
Indices: 15722096--15722161 Score: 66
Period size: 14 Copynumber: 4.5 Consensus size: 15
15722086 TTGGAGTAAC
15722096 AAAAAAA-AATCAAA
1 AAAAAAATAATCAAA
15722110 AAAAAAAT--TCGAAA
1 AAAAAAATAATC-AAA
* *
15722124 AAAAAAATTGATTAAA
1 AAAAAAA-TAATCAAA
*
15722140 AAAAAAATATTCAAA
1 AAAAAAATAATCAAA
15722155 AAAAAAA
1 AAAAAAA
15722162 GTGAAACAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.05
14 17 0.40
15 13 0.30
16 10 0.23
17 1 0.02
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAAAAATAATCAAA
Found at i:15722173 original size:44 final size:43
Alignment explanation
Indices: 15722096--15722190 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 43
15722086 TTGGAGTAAC
* * **
15722096 AAAAAAAAATCAAAAAAAAAATTCGAAAAAAAAAATTGATTAA
1 AAAAAAAAATCAAAAAAAAAAGTCGAAAAAAAAAATCGAGCAA
*
15722139 AAAAAAAATATTCAAAAAAAAAAGT-GAAACAAAAAATCGAGCAA
1 AAAAAAAA-A-TCAAAAAAAAAAGTCGAAAAAAAAAATCGAGCAA
15722183 AAAAAAAA
1 AAAAAAAA
15722191 GGTGACCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 8 0.18
44 24 0.53
45 13 0.29
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (43 bp):
AAAAAAAAATCAAAAAAAAAAGTCGAAAAAAAAAATCGAGCAA
Done.