Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 67 of 318
Found at i:19403813 original size:27 final size:28
Alignment explanation
Indices: 19403727--19403839 Score: 117
Period size: 27 Copynumber: 4.1 Consensus size: 28
19403717 TTTACCCTAC
* * *
19403727 AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* *
19403754 ATGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGGTATTTTGGTAATTTTACAAATCG
*
19403781 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTTACAAATCG
**
19403809 A-GGGTATTTCT-GTAATTTTGTAAATCG
1 AGGGGTATTT-TGGTAATTTTACAAATCG
19403836 AGGG
1 AGGG
19403840 TAAAATAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 69 0.95
28 4 0.05
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAATCG
Found at i:19403850 original size:27 final size:27
Alignment explanation
Indices: 19403820--19404158 Score: 394
Period size: 27 Copynumber: 12.6 Consensus size: 27
19403810 GGGTATTTCT
* **
19403820 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * * **
19403847 GTAATTCAGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19403874 GTAATTCTATAAATCGACGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
19403901 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19403928 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
19403955 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
19403982 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19404009 GTAATTTTGTAAATCGA-GGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
19404035 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19404062 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
19404089 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19404116 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
19404143 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
19404159 GGAGTACTTT
Statistics
Matches: 266, Mismatches: 43, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 25 0.09
27 240 0.90
28 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:19407477 original size:27 final size:28
Alignment explanation
Indices: 19407437--19407504 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
19407427 TTTAAAACCC
*
19407437 TAGGGGT-ATATCGGTAA-TTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
19407463 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
19407491 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
19407505 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 9 0.23
28 23 0.59
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:19408142 original size:27 final size:27
Alignment explanation
Indices: 19408112--19408173 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
19408102 GGGCAAAATG
19408112 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
19408139 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
19408166 GTAATTTT
1 GTAATTTT
19408174 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:19408186 original size:27 final size:27
Alignment explanation
Indices: 19408153--19408232 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
19408143 TTTTACCCTA
* *
19408153 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
19408180 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
19408207 TAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
19408233 TTGAGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:19408187 original size:54 final size:54
Alignment explanation
Indices: 19408128--19408254 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
19408118 TTACCCCACA
** *
19408128 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAATCC
** * **
19408181 ATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
*
19408236 AGGGTATTTCTGTAATTTT
1 AGGGTATTTCAGTAATTTT
19408255 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.07
54 56 0.92
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
Found at i:19408240 original size:27 final size:28
Alignment explanation
Indices: 19408154--19408266 Score: 117
Period size: 27 Copynumber: 4.1 Consensus size: 28
19408144 TTTACCCTAC
* * *
19408154 AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* *
19408181 ATGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGGTATTTTGGTAATTTTACAAATCG
*
19408208 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTTACAAATCG
**
19408236 A-GGGTATTTCT-GTAATTTTGTAAATCG
1 AGGGGTATTT-TGGTAATTTTACAAATCG
19408263 AGGG
1 AGGG
19408267 TAAAATAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 69 0.95
28 4 0.05
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAATCG
Found at i:19408277 original size:27 final size:27
Alignment explanation
Indices: 19408247--19408586 Score: 394
Period size: 27 Copynumber: 12.6 Consensus size: 27
19408237 GGGTATTTCT
* **
19408247 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * * **
19408274 GTAATTCAGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
19408301 GTAATTCTATAAATCGACAGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
19408328 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19408355 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
19408382 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
19408409 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19408436 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
19408463 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19408490 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
19408517 GTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19408544 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
19408571 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
19408587 GGAGTACTTT
Statistics
Matches: 268, Mismatches: 43, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 266 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:19408600 original size:81 final size:81
Alignment explanation
Indices: 19408219--19408617 Score: 408
Period size: 81 Copynumber: 4.9 Consensus size: 81
19408209 GGGGTATTTT
* * *** * * * *
19408219 GGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAGGGTAAAATAGTAA-TTCAG
1 GGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA-
* * * * *
19408283 TAAATCAAGAGAAAAAT
65 CAAATCGAGGGTAAAAC
* * ** * * ** * **
19408300 AGTAATTCTATAAATCGACAGTAAAACGATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 GGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAC
*
19408365 AAATCAAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * **
19408381 GGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGT
1 GGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAC
19408446 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* *
19408462 GGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTAC
1 GGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAC
19408527 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * ***
19408543 AGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTT
1 GGTAATTTTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAATGGTAATTTT
*
19408606 ACAAGTCGAGGG
64 ACAAATCGAGGG
19408618 CATTTCAATA
Statistics
Matches: 273, Mismatches: 42, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
80 3 0.01
81 269 0.99
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (81 bp):
GGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAC
AAATCGAGGGTAAAAC
Found at i:19411789 original size:22 final size:22
Alignment explanation
Indices: 19411763--19411813 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
19411753 TGCATGTTCG
19411763 AACCTCTTCCATGCATTGTGCA
1 AACCTCTTCCATGCATTGTGCA
* * * *
19411785 AACCTCATCTATGCGTTGTGCG
1 AACCTCTTCCATGCATTGTGCA
19411807 AA-CTCTT
1 AACCTCTT
19411814 AGCATGAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (22 bp):
AACCTCTTCCATGCATTGTGCA
Found at i:19415097 original size:23 final size:23
Alignment explanation
Indices: 19415071--19415280 Score: 282
Period size: 23 Copynumber: 9.2 Consensus size: 23
19415061 CAAAGTGCCA
* * *
19415071 CACTGTAATATAGCCGAAGCTAT
1 CACTGTATTGTAGCCGAAGCTAC
** *
19415094 CACTGTAACGTAGCCCAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
19415117 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
19415140 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
*
19415163 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-TTGTAGCCGAAGCTAC
19415186 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
* * *
19415209 CACTG-AGATGTAGCTGAATCTAC
1 CACTGTA-TTGTAGCCGAAGCTAC
*
19415232 CACTATATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
19415255 CA-TGTATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTAC
19415277 CACT
1 CACT
19415281 AAGATGTAGC
Statistics
Matches: 165, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
22 23 0.14
23 140 0.85
24 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGTATTGTAGCCGAAGCTAC
Found at i:19417615 original size:14 final size:14
Alignment explanation
Indices: 19417596--19417643 Score: 96
Period size: 14 Copynumber: 3.4 Consensus size: 14
19417586 TCTATAAGTA
19417596 CAACCCTACGTGAC
1 CAACCCTACGTGAC
19417610 CAACCCTACGTGAC
1 CAACCCTACGTGAC
19417624 CAACCCTACGTGAC
1 CAACCCTACGTGAC
19417638 CAACCC
1 CAACCC
19417644 CTACCACGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.29, C:0.46, G:0.12, T:0.12
Consensus pattern (14 bp):
CAACCCTACGTGAC
Found at i:19419768 original size:19 final size:17
Alignment explanation
Indices: 19419744--19419778 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
19419734 TTTTTTAAAA
19419744 TAATTTATGAATTATTTAT
1 TAATTTAT--ATTATTTAT
19419763 TAATTTATATTATTTA
1 TAATTTATATTATTTA
19419779 AATTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TAATTTATATTATTTAT
Found at i:19419783 original size:19 final size:20
Alignment explanation
Indices: 19419731--19419783 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
19419721 ATAATTCGTG
* *
19419731 TAATTTTTTAAAATAATTTA
1 TAATTATTTAAATTAATTTA
19419751 TGAATTATTT--ATTAATTTA
1 T-AATTATTTAAATTAATTTA
19419770 T-ATTATTTAAATTA
1 TAATTATTTAAATTA
19419784 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 7 0.25
19 13 0.46
20 1 0.04
21 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TAATTATTTAAATTAATTTA
Found at i:19420828 original size:16 final size:17
Alignment explanation
Indices: 19420789--19420839 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
19420779 AGCTTAATAT
19420789 TATTATATTATTAATAAA
1 TATT-TATTATTAATAAA
* *
19420807 TTTTTATTTTTAA-AAA
1 TATTTATTATTAATAAA
**
19420823 TATTTAAAATTAATAAA
1 TATTTATTATTAATAAA
19420840 ATACTATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 12 0.46
17 11 0.42
18 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTATTATTAATAAA
Found at i:19423162 original size:24 final size:24
Alignment explanation
Indices: 19423125--19423176 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
19423115 TAAACTATTT
*
19423125 AATTATTTTGTTTTTTATTTATATA
1 AATTATTTTATTTTTTATTTATA-A
19423150 AATT-TTTTATTTTTTATTTATAA
1 AATTATTTTATTTTTTATTTATAA
19423173 AATT
1 AATT
19423177 GGCATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 17 0.65
25 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
AATTATTTTATTTTTTATTTATAA
Found at i:19425732 original size:22 final size:22
Alignment explanation
Indices: 19425698--19425749 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
19425688 ATTGAACATG
* *
19425698 TGCA-TGTCCAAACCTCTTCCA
1 TGCATTGTGCAAACCTCATCCA
*
19425719 TGCATTGTGCAAACCTCATCTA
1 TGCATTGTGCAAACCTCATCCA
19425741 TGCATTGTG
1 TGCATTGTG
19425750 TGAACTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (22 bp):
TGCATTGTGCAAACCTCATCCA
Found at i:19428490 original size:19 final size:19
Alignment explanation
Indices: 19428466--19428563 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
19428456 AATCTTTAAG
19428466 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19428485 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19428504 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19428521 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19428540 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
19428561 GAT
1 GAT
19428564 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19428496 original size:36 final size:35
Alignment explanation
Indices: 19428456--19428563 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
19428446 ATGGAAATAT
19428456 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
19428492 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
19428528 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
19428564 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:19431606 original size:16 final size:14
Alignment explanation
Indices: 19431574--19431626 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
19431564 ATCGATACCT
19431574 TTTGCATTCATGCA
1 TTTGCATTCATGCA
19431588 TTTGCATCTCATAGCA
1 TTTGCAT-TCAT-GCA
*
19431604 TTT-CATTGCAT-TA
1 TTTGCATT-CATGCA
19431617 TTTGCATTCA
1 TTTGCATTCA
19431627 AAATTATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 6 0.18
14 12 0.35
15 10 0.29
16 6 0.18
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (14 bp):
TTTGCATTCATGCA
Found at i:19434139 original size:20 final size:19
Alignment explanation
Indices: 19434111--19434149 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
19434101 CTTCTATTTG
19434111 GAAAAAAAAAAGGAAAAAAA
1 GAAAAAAAAAA-GAAAAAAA
* *
19434131 GAAATAAAAGAGAAAAAAA
1 GAAAAAAAAAAGAAAAAAA
19434150 ATAAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (19 bp):
GAAAAAAAAAAGAAAAAAA
Found at i:19434155 original size:9 final size:9
Alignment explanation
Indices: 19434114--19434170 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
19434104 CTATTTGGAA
19434114 AAAAAAAAG
1 AAAAAAAAG
*
19434123 GAAAAAAAG
1 AAAAAAAAG
*
19434132 AAATAAAAG
1 AAAAAAAAG
*
19434141 AGAAAAAA-
1 AAAAAAAAG
*
19434149 AATAAAAAG
1 AAAAAAAAG
*
19434158 AAAAAAGAG
1 AAAAAAAAG
19434167 AAAA
1 AAAA
19434171 GTGAAAAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
8 6 0.16
9 32 0.84
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:19434156 original size:29 final size:31
Alignment explanation
Indices: 19434114--19434179 Score: 50
Period size: 29 Copynumber: 2.2 Consensus size: 31
19434104 CTATTTGGAA
* *
19434114 AAAAAAAAGGAAAAA-AAGAAATA-AAAGAGA-
1 AAAAAAAA-GAAAAAGAAAAAAGAGAAA-AGAG
* *
19434144 AAA-AAAATAAAAAGAAAAAAGAGAAAAGTG
1 AAAAAAAAGAAAAAGAAAAAAGAGAAAAGAG
19434174 AAAAAA
1 AAAAAA
19434180 GAAACATGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
28 5 0.18
29 12 0.43
30 9 0.32
31 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (31 bp):
AAAAAAAAGAAAAAGAAAAAAGAGAAAAGAG
Found at i:19445282 original size:44 final size:44
Alignment explanation
Indices: 19445232--19445600 Score: 265
Period size: 44 Copynumber: 8.5 Consensus size: 44
19445222 GGCAATGTAG
*
19445232 ATCGAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAACAA
1 ATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAA
* * * * * * *
19445276 ATCGAAGATAGCAGATCTGACA-CTCATGTGCTTACAGCGAAGCAG
1 ATCGAAGATAGCAGATTTGGCATC-CCTGTGTTTATAGGGAA-CAA
** *
19445321 ATCGAAGATTTCAGCA--TAGCATCCCTGTGTTTATAGGGAAC-A
1 ATCGAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAA
** * **
19445363 A--GTTG-T-TCA-ACATGGCATCCCTGTGTTTATAGGGAACAA
1 ATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAA
* ** *
19445402 GTTAAAGATAGCAGATTTGTCATCCCTGTGTTTATAGGGAACAA
1 ATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAA
* * * ** * * *
19445446 ATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGCGAAGCAG
1 ATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-CAA
**
19445491 ATCGAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACAA
1 ATCGAAGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAA
* * * * * *
19445534 GTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAAGGAACAA
1 ATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAA
*
19445578 ATCGAAGACATAGCTGATTTGGC
1 ATCGAAG--ATAGCAGATTTGGC
19445601 TTTCACGGTT
Statistics
Matches: 248, Mismatches: 59, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
36 1 0.00
38 27 0.11
39 2 0.01
40 2 0.01
41 1 0.00
42 3 0.01
43 16 0.06
44 152 0.61
45 29 0.12
46 15 0.06
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
ATCGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAA
Found at i:19445390 original size:38 final size:38
Alignment explanation
Indices: 19445330--19445404 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
19445320 GATCGAAGAT
*
19445330 TTCAGCATAGCATCCCTGTGTTTATAGGGAACAAGTTG
1 TTCAACATAGCATCCCTGTGTTTATAGGGAACAAGTTG
*
19445368 TTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTT
1 TTCAACATAGCATCCCTGTGTTTATAGGGAACAAGTT
19445405 AAAGATAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (38 bp):
TTCAACATAGCATCCCTGTGTTTATAGGGAACAAGTTG
Found at i:19445531 original size:88 final size:88
Alignment explanation
Indices: 19445249--19445585 Score: 322
Period size: 88 Copynumber: 3.9 Consensus size: 88
19445239 ATAGCAGATT
* * *
19445249 TGGCATCCCTATGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCATGTGCTTACAGC
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
19445314 GAAGCAGATCGAAGATTTCAGCA
66 GAAGCAGATCGAAGATTTCAGCA
* ** * * * * *
19445337 TAGCATCCCTGTGTTTATAGGGAAC-AA--GTTG-T-TCA-A-CATGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAG
* ** **
19445395 GGAA-CA-AGTTAAAGATAGCAG-A
65 CGAAGCAGA-TCGAAGATTTCAGCA
* *
19445417 TTTGTCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTACTTACA
1 --TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
19445482 GCGAAGCAGATCGAAGATTTCAGCA
64 GCGAAGCAGATCGAAGATTTCAGCA
* * * *
19445507 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCA-TCCTTGTGCTTACAA
1 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCC-TGTGCTTAC-A
*
19445571 G-GAA-CAAATCGAAGA
64 GCGAAGCAGATCGAAGA
19445586 CATAGCTGAT
Statistics
Matches: 195, Mismatches: 38, Indels: 33
0.73 0.14 0.12
Matches are distributed among these distances:
80 2 0.01
81 12 0.06
82 41 0.21
83 4 0.02
84 1 0.01
85 4 0.02
86 1 0.01
87 17 0.09
88 97 0.50
89 14 0.07
90 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (88 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGC
GAAGCAGATCGAAGATTTCAGCA
Found at i:19445904 original size:206 final size:206
Alignment explanation
Indices: 19445547--19446288 Score: 1216
Period size: 206 Copynumber: 3.6 Consensus size: 206
19445537 GAAGATAGCA
* *
19445547 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
19445611 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * *
19445676 CGTCTCCATATTTGATGGAGAGCAGAAACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGC
19445741 AGATCCAAGGT
196 AGATCCAAGGT
19445752 GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
19445817 TACGAAGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
*
19445882 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGC
19445947 AGATCCAAGGT
196 AGATCCAAGGT
*
19445958 GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTTTCACGTGCT
1 GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
19446023 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGGACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * * *
19446088 CGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGC
*
19446153 AGATCCAAGAT
196 AGATCCAAGGT
* * * * * * * *
19446164 GGTTTGGTATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCT
1 GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
19446229 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTTTCAGAAAACAGATCGAAG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
19446289 ATAATAGATT
Statistics
Matches: 504, Mismatches: 32, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
205 60 0.12
206 444 0.88
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGC
AGATCCAAGGT
Found at i:19446700 original size:19 final size:19
Alignment explanation
Indices: 19446676--19446787 Score: 165
Period size: 19 Copynumber: 5.8 Consensus size: 19
19446666 AATCTTTAAG
19446676 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19446695 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19446714 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19446731 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19446750 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
19446771 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
19446788 GATTTAACTT
Statistics
Matches: 86, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
17 17 0.20
19 49 0.57
20 3 0.03
21 9 0.10
22 8 0.09
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19446706 original size:36 final size:35
Alignment explanation
Indices: 19446666--19446773 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
19446656 ATGGAAATAT
19446666 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
19446702 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
19446738 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
19446774 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:19453017 original size:68 final size:68
Alignment explanation
Indices: 19452932--19453060 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 68
19452922 CTAGCCGATT
*
19452932 TGTCTCGTAGCTCTCTTGT-CTACATG-GGATACATCTC-GTATCACACATGTGACCTAGCTACT
1 TGTCTCGTAGCTCTCTTGTAC-ACATGAGG-TACA-CTCAGCATCACACATGTGACCTAGCTACT
19452994 ACAGGG
63 ACAGGG
* * * *
19453000 TGTCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCATCATACATGTGACCTAGCTAC
1 TGTCTCGTAGCTCTCTTGTACACATGAGGTACACTCAGCATCACACATGTGACCTAGCTAC
19453061 GCTCCCTCTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
67 3 0.06
68 48 0.91
69 2 0.04
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (68 bp):
TGTCTCGTAGCTCTCTTGTACACATGAGGTACACTCAGCATCACACATGTGACCTAGCTACTACA
GGG
Found at i:19461999 original size:71 final size:71
Alignment explanation
Indices: 19461913--19462073 Score: 301
Period size: 70 Copynumber: 2.3 Consensus size: 71
19461903 CGATTTGTCT
19461913 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19461978 CTTTCA
66 CTTTCA
19461984 CGTAGCTCTCTTGTCTACAT-GTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
19462048 CTTTCA
66 CTTTCA
19462054 CGTAG--CTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
19462074 GATACATCTC
Statistics
Matches: 89, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
68 13 0.15
69 1 0.01
70 55 0.62
71 20 0.22
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:19464442 original size:40 final size:39
Alignment explanation
Indices: 19464397--19464604 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
19464387 CGGAATACAA
*
19464397 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19464437 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19464477 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
19464517 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
19464557 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
19464597 CCGGATAT
1 CCGGATAT
19464605 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:19464537 original size:80 final size:80
Alignment explanation
Indices: 19464397--19464603 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
19464387 CGGAATACAA
* * *
19464397 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
19464461 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
19464477 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
19464541 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
19464557 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
19464604 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:19472482 original size:40 final size:39
Alignment explanation
Indices: 19472437--19472644 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
19472427 CGGAATACAA
*
19472437 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19472477 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
19472517 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
19472557 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
19472597 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
19472637 CCGGATAT
1 CCGGATAT
19472645 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:19472577 original size:80 final size:80
Alignment explanation
Indices: 19472437--19472643 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
19472427 CGGAATACAA
* * *
19472437 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
19472501 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
19472517 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
19472581 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
19472597 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
19472644 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:19475702 original size:27 final size:27
Alignment explanation
Indices: 19475665--19475867 Score: 257
Period size: 27 Copynumber: 7.6 Consensus size: 27
19475655 TTAGTTTACC
* * **
19475665 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
19475692 ACTTACCAAAATA--CCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * * *
19475717 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
19475744 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
19475771 AATTACCAAAGTACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
19475798 AATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
19475825 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
19475852 AATTACTAAAATACCC
1 AATTACCAAAATACCC
19475868 TCGACCTGTA
Statistics
Matches: 151, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
25 20 0.13
27 131 0.87
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:19475786 original size:54 final size:54
Alignment explanation
Indices: 19475665--19475967 Score: 270
Period size: 54 Copynumber: 5.6 Consensus size: 54
19475655 TTAGTTTACC
* * *
19475665 AATTACTAAAATACCCTTGGTTTACAAACTTACCAAAATA--CCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
19475717 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* * * * *
19475771 AATTACCAAAGTACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* * * * * ***
19475825 AATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATA-CCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-GGTTTGTAA
** * ** * * * * *
19475879 AATTATTAAAATACCCTCGACTTATAAAATTACCAAAGTACCCTTGATTTATAG
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*** * * *
19475933 AATTACCATTTTACCCTCGATTTACAAAATTACCA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCA
19475968 TTTTACCCTC
Statistics
Matches: 207, Mismatches: 40, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
52 37 0.18
53 4 0.02
54 163 0.79
55 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:19475826 original size:81 final size:80
Alignment explanation
Indices: 19475665--19475940 Score: 288
Period size: 81 Copynumber: 3.4 Consensus size: 80
19475655 TTAGTTTACC
* * * * *
19475665 AATTACTAAAATACCCTTGGTTTACAAACTTACCAAAATA-CCTGGTTTGTAAAATTA-CTAAAA
1 AATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCTGGTTTGTAAAATTATC-AAAA
* *
19475728 TACCCTTTGTTTATAA
65 TACCCCTAGTTTATAA
* * *
19475744 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAGTACCCCTGGTTTGTAAAATTATCAAAA
1 AATTACCAAAATACCCCTGATTTATAAAATTACCAAAATA-CCCTGGTTTGTAAAATTATCAAAA
*
19475809 TACCCCTAGTTTGTAA
65 TACCCCTAGTTTATAA
* * * *** *
19475825 AATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTAAAA
1 AATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCT-GGTTTGTAAAATTATCAAAA
* *
19475890 TA-CCCTCGACTTATAA
65 TACCCCTAG-TTTATAA
* * *
19475906 AATTACCAAAGTACCCTTGATTTATAGAATTACCA
1 AATTACCAAAATACCCCTGATTTATAAAATTACCA
19475941 TTTTACCCTC
Statistics
Matches: 166, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
79 34 0.20
80 9 0.05
81 122 0.73
82 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (80 bp):
AATTACCAAAATACCCCTGATTTATAAAATTACCAAAATACCCTGGTTTGTAAAATTATCAAAAT
ACCCCTAGTTTATAA
Found at i:19475881 original size:27 final size:27
Alignment explanation
Indices: 19475694--19475967 Score: 166
Period size: 27 Copynumber: 10.2 Consensus size: 27
19475684 GTTTACAAAC
**
19475694 TTACCAAAATA-CCT-GGTTTGTAAAA
1 TTACCAAAATACCCTCGACTTGTAAAA
* * * *
19475719 TTACTAAAATACCCTTTG-TTTATAAAA
1 TTACCAAAATACCC-TCGACTTGTAAAA
**
19475746 TTACCAAAATACCC-CTGGTTTGTAAAA
1 TTACCAAAATACCCTC-GACTTGTAAAA
* **
19475773 TTACCAAAGTACCC-CTGGTTTGTAAAA
1 TTACCAAAATACCCTC-GACTTGTAAAA
* * *
19475800 TTATCAAAATACCC-CTAGTTTGTAAAA
1 TTACCAAAATACCCTCGA-CTTGTAAAA
* *
19475827 TTACCAAAATACCC-CTGATTTGTGAAA
1 TTACCAAAATACCCTC-GACTTGTAAAA
* *
19475854 TTACTAAAATACCCTCGACCTGTAAAA
1 TTACCAAAATACCCTCGACTTGTAAAA
** *
19475881 TTATTAAAATACCCTCGACTTATAAAA
1 TTACCAAAATACCCTCGACTTGTAAAA
* * * * *
19475908 TTACCAAAGTACCCTTGATTTATAGAA
1 TTACCAAAATACCCTCGACTTGTAAAA
*** * **
19475935 TTACCATTTTACCCTCGATTTACAAAA
1 TTACCAAAATACCCTCGACTTGTAAAA
19475962 TTACCA
1 TTACCA
19475968 TTTTACCCTC
Statistics
Matches: 209, Mismatches: 32, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
25 10 0.05
26 3 0.01
27 193 0.92
28 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCTCGACTTGTAAAA
Found at i:19475968 original size:27 final size:27
Alignment explanation
Indices: 19475917--19476220 Score: 315
Period size: 27 Copynumber: 11.3 Consensus size: 27
19475907 ATTACCAAAG
* * *
19475917 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
19475944 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
19475971 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
19475998 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ** * *
19476025 TACCCTCAATTTGTAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
19476052 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
19476079 TACCCTC-AGTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
** *
19476106 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
19476133 TACCCTCGATTTATAGAATTACTGGTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
19476160 TACCCTTGGTTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** **
19476187 CGCCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
19476214 TACCCTC
1 TACCCTC
19476221 AATTGTGAAA
Statistics
Matches: 228, Mismatches: 45, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 224 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:19475975 original size:54 final size:54
Alignment explanation
Indices: 19475890--19476220 Score: 360
Period size: 54 Copynumber: 6.1 Consensus size: 54
19475880 ATTATTAAAA
* * **** * * *
19475890 TACCCTCGACTTATAAAATTACCAAAGTACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
*
19475944 TACCCTCGATTTACAAAATTACCATTTTACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTT
* * * ** * *
19475998 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTGTAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * *
19476052 TACCCTCGATTTACAGAATTATCGTTTTACCCTC-AGTTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTT
** * **
19476106 TACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGGTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * * **
19476160 TACCCTTGGTTTACAAAATTATCGTTTCGCCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
19476214 TACCCTC
1 TACCCTC
19476221 AATTGTGAAA
Statistics
Matches: 236, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.01
54 232 0.98
55 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
Found at i:19476422 original size:81 final size:81
Alignment explanation
Indices: 19476237--19476405 Score: 266
Period size: 81 Copynumber: 2.1 Consensus size: 81
19476227 GAAATTACTA
* * *
19476237 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTA
1 AAATACCCCCGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTA
19476302 TAGGGTAGAATTACCG
66 TAGGGTAGAATTACCG
* * * *
19476318 AAATACCCCCGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
1 AAATACCCCCGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTA
19476383 TAGGGTAGAATTACCG
66 TAGGGTAGAATTACCG
*
19476399 AGATACC
1 AAATACC
19476406 TTTGTGGGGT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
AAATACCCCCGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTA
TAGGGTAGAATTACCG
Found at i:19476424 original size:27 final size:27
Alignment explanation
Indices: 19476237--19476424 Score: 232
Period size: 27 Copynumber: 7.0 Consensus size: 27
19476227 GAAATTACTA
*
19476237 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
19476264 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
19476291 AAATACCCTTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
19476318 AAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
19476345 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
19476372 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* ** * *
19476399 AGATACCTTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
19476425 ATTTTGCCCC
Statistics
Matches: 137, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:19476666 original size:27 final size:26
Alignment explanation
Indices: 19476624--19476705 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
19476614 GGAGGAAGCA
*
19476624 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
19476651 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* * *
19476677 TATCTAGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
19476704 TT
1 TT
19476706 GACCGATCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:19476827 original size:22 final size:22
Alignment explanation
Indices: 19476793--19476851 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
19476783 CCCGTTATTA
* *
19476793 ATGGCTCTCTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
19476815 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
19476837 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
19476852 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:19477077 original size:28 final size:26
Alignment explanation
Indices: 19477016--19477090 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 26
19477006 TAAGTGGCTT
* * *
19477016 TGCCACATTATCTAATTCTGGTGGCTA
1 TGCCACAATATCT-GTTCTGGTGACTA
*
19477043 TGCCACAAATATCTGTATCTGGTGACTC
1 TGCCAC-AATATCTGT-TCTGGTGACTA
* *
19477071 TGTCACAATGTCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
19477091 CAGCAATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 5 0.12
27 15 0.38
28 20 0.50
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTA
Found at i:19477240 original size:31 final size:31
Alignment explanation
Indices: 19477205--19477315 Score: 168
Period size: 31 Copynumber: 3.6 Consensus size: 31
19477195 TTGCATTCAC
* * *
19477205 ATTTTGATTTTGATTCTGTTACTTGATAATG
1 ATTTTGATTCTGATTCTGTTACCTGATACTG
19477236 ATTTTGATTCTGATTCTGTTACCTGATACTG
1 ATTTTGATTCTGATTCTGTTACCTGATACTG
* *
19477267 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTTTGATTCTGATTCTGTTACCTGATACTG
*
19477298 ATTCTGATTCTGATTCTG
1 ATTTTGATTCTGATTCTG
19477316 ATTCTAGTTC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.50
Consensus pattern (31 bp):
ATTTTGATTCTGATTCTGTTACCTGATACTG
Found at i:19477251 original size:6 final size:6
Alignment explanation
Indices: 19477234--19477329 Score: 90
Period size: 6 Copynumber: 15.7 Consensus size: 6
19477224 TACTTGATAA
* * *
19477234 TGATTT TGATTC TGATTC TG-TTACC TGATAC TGATTT TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC
*
19477283 TG-TCACC TGATTC TGATTC TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGAT--TC TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
19477330 AATGTTTCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:19477262 original size:25 final size:25
Alignment explanation
Indices: 19477209--19477309 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 25
19477199 ATTCACATTT
* *
19477209 TGATTTTGATTCTG-TTACTTGATA-A
1 TGATTTTGATTCTGATT-C-TGTTACC
19477234 TGATTTTGATTCTGATTCTGTTACCTGATAC
1 TGATTTTGATTCTGATTCTGTTA-C-----C
*
19477265 TGATTTTGATTCTGATTCTGTCACC
1 TGATTTTGATTCTGATTCTGTTACC
*
19477290 TGATTCTGATTCTGATTCTG
1 TGATTTTGATTCTGATTCTG
19477310 ATTCTGATTC
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
24 4 0.06
25 35 0.55
26 2 0.03
30 1 0.02
31 22 0.34
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.50
Consensus pattern (25 bp):
TGATTTTGATTCTGATTCTGTTACC
Found at i:19479259 original size:23 final size:24
Alignment explanation
Indices: 19479216--19479260 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
19479206 TTTAATTATT
19479216 TTGTTTTTTATTTATATAAATTTG
1 TTGTTTTTTATTTATATAAATTTG
19479240 TTGTTTTTTATTTATA-AAATT
1 TTGTTTTTTATTTATATAAATT
19479261 GGCATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (24 bp):
TTGTTTTTTATTTATATAAATTTG
Found at i:19481887 original size:22 final size:21
Alignment explanation
Indices: 19481840--19481887 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
19481830 GAATTGAACA
* *
19481840 TATGCATGTGCGAACCTCTTC
1 TATGCATGTGCAAACCTCATC
*
19481861 CATGCATTGTGCAAACCTCATC
1 TATGCA-TGTGCAAACCTCATC
19481883 TATGC
1 TATGC
19481888 GTTCTACGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (21 bp):
TATGCATGTGCAAACCTCATC
Found at i:19488593 original size:39 final size:39
Alignment explanation
Indices: 19488328--19488589 Score: 305
Period size: 39 Copynumber: 6.7 Consensus size: 39
19488318 TTATTGAGGA
* * * *
19488328 TTATAACCGGGCTAAGACCCGCAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG-G-TG
* *
19488366 TTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
19488405 TTATGTCCGGGCCAAGTCCCGAAGGCATTCCTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * **
19488444 TTATATCCGGGCTAAGTCCCAAAGGTATTCACGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
19488483 TTATATCCGGGTTAAGTTCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
19488522 TTATATCCAGGCTAAGTCCCAAAGGTATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
19488561 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
19488590 TGTGTTGGAA
Statistics
Matches: 192, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
38 26 0.14
39 164 0.85
40 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:19510987 original size:19 final size:19
Alignment explanation
Indices: 19510963--19511041 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
19510953 AATCTTTAAG
*
19510963 GATATGCAACCTTAGATAT
1 GATATGCAATCTTAGATAT
19510982 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19511001 G--ATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19511018 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
19511039 GAT
1 GAT
19511042 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
21 9 0.16
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19510993 original size:36 final size:36
Alignment explanation
Indices: 19510953--19511039 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 36
19510943 ATGGAAATAT
19510953 AATCTTTAAGGATATGCAACCTTAGATATGATATGC
1 AATCTTTAAGGATATGCAACCTTAGATATGATATGC
* *
19510989 AATC-TT-AGATATGATGCAATCTTAGATATGATATGC
1 AATCTTTAAG-GAT-ATGCAACCTTAGATATGATATGC
*
19511025 AATCTTGAA-GATATG
1 AATCTTTAAGGATATG
19511040 ATCTTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
34 2 0.05
35 7 0.16
36 32 0.74
37 1 0.02
38 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (36 bp):
AATCTTTAAGGATATGCAACCTTAGATATGATATGC
Found at i:19514084 original size:29 final size:29
Alignment explanation
Indices: 19514051--19514124 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
19514041 GTGACGAGAT
19514051 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
19514080 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
19514109 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19514125 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:19514140 original size:29 final size:28
Alignment explanation
Indices: 19514108--19514182 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
19514098 CTGGAAATAT
* *
19514108 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
19514137 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
19514165 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
19514183 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:19514151 original size:58 final size:57
Alignment explanation
Indices: 19514051--19514182 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
19514041 GTGACGAGAT
* * * * * *
19514051 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
19514109 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
19514166 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
19514183 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:19521961 original size:29 final size:29
Alignment explanation
Indices: 19521928--19522001 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
19521918 GTGACGAGAT
19521928 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
19521957 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
19521986 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19522002 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:19522017 original size:29 final size:29
Alignment explanation
Indices: 19521985--19522058 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 29
19521975 CTGGAAATAT
* *
19521985 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * *
19522014 ATGGCACT--GTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
19522041 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
19522059 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
27 22 0.59
29 15 0.41
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:19528185 original size:29 final size:29
Alignment explanation
Indices: 19528152--19528225 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
19528142 GTGACGAGAT
19528152 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
19528181 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
19528210 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19528226 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:19528241 original size:29 final size:29
Alignment explanation
Indices: 19528209--19528284 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
19528199 CTGGAAATAT
* *
19528209 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
19528238 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
19528267 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
19528285 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:19528252 original size:58 final size:58
Alignment explanation
Indices: 19528152--19528284 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
19528142 GTGACGAGAT
* * * * * *
19528152 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
19528210 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
19528268 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
19528285 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:19536059 original size:29 final size:29
Alignment explanation
Indices: 19536026--19536099 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
19536016 GTGACGAGAT
19536026 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
19536055 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
19536084 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19536100 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:19536115 original size:29 final size:28
Alignment explanation
Indices: 19536083--19536157 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
19536073 CTGGAAATAT
* *
19536083 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
19536112 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
19536140 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
19536158 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:19536126 original size:58 final size:57
Alignment explanation
Indices: 19536026--19536157 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
19536016 GTGACGAGAT
* * * * * *
19536026 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
19536084 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
19536141 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
19536158 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:19541700 original size:23 final size:23
Alignment explanation
Indices: 19541651--19541724 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
19541641 ACTTCTATTT
* *
19541651 CAAAAAAAAGGAAAAAAG-AAAA
1 CAAAAAAGAGAAAAAAAGAAAAA
* *
19541673 -GAAAAGGAGAAAAAAAGAAAAA
1 CAAAAAAGAGAAAAAAAGAAAAA
19541695 CAAAAAAGAGAAAAAACA-AAAAA
1 CAAAAAAGAGAAAAAA-AGAAAAA
19541718 CAAAAAA
1 CAAAAAA
19541725 ATGGAGAGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.30
22 4 0.09
23 25 0.58
24 1 0.02
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (23 bp):
CAAAAAAGAGAAAAAAAGAAAAA
Found at i:19541724 original size:16 final size:16
Alignment explanation
Indices: 19541690--19541725 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19541680 AGAAAAAAAG
* *
19541690 AAAAACAAAAAAGAGA
1 AAAAACAAAAAACAAA
19541706 AAAAACAAAAAACAAA
1 AAAAACAAAAAACAAA
19541722 AAAA
1 AAAA
19541726 TGGAGAGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAACAAA
Found at i:19542732 original size:43 final size:43
Alignment explanation
Indices: 19542680--19542904 Score: 170
Period size: 43 Copynumber: 5.3 Consensus size: 43
19542670 AGCACCTTAA
19542680 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
* * * * *
19542723 TCCTTAAGCAATA--GTAGAGCAGATCAAAGACTTGC----CTTAATC
1 TCCCTAAGCAGTAGGGTA-A-CAGGT-TAA-ATTTGCAGATCTT-ATC
19542765 -CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
* * * * *
19542807 TCCCTAAGCTGTAGTGG-AGCAGATTGAAGA-CT-C-G-CCTTAATC
1 TCCCTAAGCAGTAG-GGTAACAGGTT-AA-ATTTGCAGATCTT-ATC
* *
19542849 -CCCTAAGCTGTAGGGTAACAGGTTAAATTTGCATATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
19542891 TCCCTAAGCAGTAG
1 TCCCTAAGCAGTAG
19542905 TGGAGCAGAT
Statistics
Matches: 139, Mismatches: 21, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
39 6 0.04
40 7 0.05
41 43 0.31
42 15 0.11
43 55 0.40
44 7 0.05
45 6 0.04
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (43 bp):
TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
Found at i:19542815 original size:84 final size:84
Alignment explanation
Indices: 19542674--19543198 Score: 708
Period size: 84 Copynumber: 6.3 Consensus size: 84
19542664 AAATTCAGCA
* *
19542674 CCTTAAT-CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAATAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* * *
19542738 AGAGCAGATCAAAGACTTG
66 GGAGCAGATCGAAGACTCG
*
19542757 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCTGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
19542822 GGAGCAGATTGAAGACTCG
66 GGAGCAGATCGAAGACTCG
* *
19542841 CCTTAATCCCCTAAGCTGTAGGGTAACAGGTTAAATTTGCATATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
19542906 GGAGCAGATCGAAGACTCC
66 GGAGCAGATCGAAGACTCG
* * * *
19542925 CCTTAATCCCCAAAGCAGTAGGGTAATAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
19542985 GGAGCAGATCGACGACGACTCA
66 GGAGCAGATCGA--A-GACTCG
* * *
19543007 CCTTAATCCCCTAAACAGCAGTGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
19543072 GGAGCAGATTGAAGACCCG
66 GGAGCAGATCGAAGACTCG
* * *
19543091 CCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCTGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
19543154 GGAGCAGATCGAAGATGATGCA
66 GGAGCAGATCGAAGA--CT-CG
19543176 CCTTAA-CCCCTAAGCAGTAGGGT
1 CCTTAATCCCCTAAGCAGTAGGGT
19543199 CCAAGATGAT
Statistics
Matches: 390, Mismatches: 40, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
79 36 0.09
81 1 0.00
82 59 0.15
83 9 0.02
84 241 0.62
85 8 0.02
87 36 0.09
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (84 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACTCG
Found at i:19542856 original size:41 final size:41
Alignment explanation
Indices: 19542808--19543111 Score: 139
Period size: 41 Copynumber: 7.3 Consensus size: 41
19542798 GATCTTATCT
*
19542808 CCCTAAGCTGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
* * * * *
19542849 CCCTAAGCTGTAG-GGTAACAGGTT-AA-ATTTGCATATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATTGAAGACTCGC----CTTAATC
* *
19542891 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCCCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
* ** * *
19542933 CCCAAAGCAGTAG-GGTAATAGGTTCACAGA-T---CTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATTGA-AGACTCGCCTTAATC
* * *
19542970 TCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGA--A-GACTCGCCTTAATC
* * * * * * *
19543015 CCCTAAACAGCAGTGTAACAGGTT-AA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGGAGCAGATTGAAGA-CT-C-G-CCTTAATC
*
19543057 TCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
*
19543099 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
19543112 GGTAACAGGT
Statistics
Matches: 191, Mismatches: 43, Indels: 58
0.65 0.15 0.20
Matches are distributed among these distances:
37 3 0.02
38 20 0.10
39 8 0.04
40 9 0.05
41 58 0.30
42 16 0.08
43 44 0.23
44 26 0.14
45 7 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATTGAAGACTCGCCTTAATC
Found at i:19543198 original size:250 final size:248
Alignment explanation
Indices: 19542671--19543198 Score: 733
Period size: 250 Copynumber: 2.1 Consensus size: 248
19542661 ACAAAATTCA
* *
19542671 GCACCTTAATCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAATA
1 GCACCTTAACCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CAGATCTTATCTCCCTAAGCAATA
* ** * *
19542736 GTAGAGCAGATCAAAGACTTGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGAT
63 GCAGAGCAGATCAAAGACTCACCTTAATCCCCTAAACAGCAGGGTAACAGGTTAAATTTGCAGAT
* *
19542801 CTTATCTCCCTAAGCTGTAGTGGAGCAGATTGAAGACTCGCCTTAATCCCCTAAGCTGTAGGGTA
128 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCGCCTTAATCCCCTAAGCTGTAGGGTA
* * *
19542866 ACAGGTTAAATTTGCATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACT
193 ACAGGTTAAATTTGCAGATCTTA-CTCCCTAAGCAGTAGCGGAGCAGATCGAAGAAT
* * * * *
19542923 -CCCCTTAATCCCCAAAGCAGTAGGGTAATAGGTT-CA-CAGATCTTATCTCCCTAAGCAGTAGC
1 GCACCTTAA-CCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTTATCTCCCTAAGCAATAGC
* * *
19542985 GGAGCAGATCGACGACGACTCACCTTAATCCCCTAAACAGCAGTGTAACAGGTTAAATTTGCAGA
65 AGAGCAGATC-A--AAGACTCACCTTAATCCCCTAAACAGCAGGGTAACAGGTTAAATTTGCAGA
19543050 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCGCCTTAATCCCCTAAG-TAGTAGGG
127 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCGCCTTAATCCCCTAAGCT-GTAGGG
*
19543114 TAACAGGTTAAATTTGCAGATCTTA-TCCCTAAGCTGTAGCGGAGCAGATCGAAGATGAT
191 TAACAGGTTAAATTTGCAGATCTTACTCCCTAAGCAGTAGCGGAGCAGATCGAAGA--AT
19543173 GCACCTTAACCCCTAAGCAGTAGGGT
1 GCACCTTAACCCCTAAGCAGTAGGGT
19543199 CCAAGATGAT
Statistics
Matches: 245, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
247 32 0.13
248 29 0.12
249 1 0.00
250 146 0.60
251 15 0.06
252 22 0.09
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (248 bp):
GCACCTTAACCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTTATCTCCCTAAGCAATAGCA
GAGCAGATCAAAGACTCACCTTAATCCCCTAAACAGCAGGGTAACAGGTTAAATTTGCAGATCTT
ATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCGCCTTAATCCCCTAAGCTGTAGGGTAACA
GGTTAAATTTGCAGATCTTACTCCCTAAGCAGTAGCGGAGCAGATCGAAGAAT
Found at i:19543997 original size:19 final size:19
Alignment explanation
Indices: 19543973--19544070 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
19543963 AATCTTTAAG
*
19543973 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
19543992 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19544011 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19544028 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19544047 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
19544068 GAT
1 GAT
19544071 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19544011 original size:14 final size:15
Alignment explanation
Indices: 19543992--19544048 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
19543982 TCTTAGATGT
19543992 GATATG-CAATCTTA
1 GATATGACAATCTTA
19544006 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
19544023 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
19544042 GATATGA
1 GATATGA
19544049 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:19544019 original size:36 final size:37
Alignment explanation
Indices: 19543973--19544070 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
19543963 AATCTTTAAG
*
19543973 GATATGCAATCTTAGATGTGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
19544011 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
19544047 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
19544071 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
40 9 0.16
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:19545666 original size:16 final size:17
Alignment explanation
Indices: 19545627--19545677 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
19545617 AGCTTAATAT
19545627 TATTATATTATTAATAAA
1 TATT-TATTATTAATAAA
* *
19545645 TTTTTATTTTTAA-AAA
1 TATTTATTATTAATAAA
**
19545661 TATTTAAAATTAATAAA
1 TATTTATTATTAATAAA
19545678 ATACTATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 12 0.46
17 11 0.42
18 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTATTATTAATAAA
Found at i:19556558 original size:40 final size:38
Alignment explanation
Indices: 19556471--19556617 Score: 136
Period size: 40 Copynumber: 3.7 Consensus size: 38
19556461 AGCTTGGTTT
* * *
19556471 CGAAGGGCCTTTGAGCCAGTGCTAATAATCGAACTTAGTTT
1 CGAAGGG-CTTTGAGCCAGTG-T-CTAATCGGACTTAGTTC
*
19556512 CGAAGGGCTTTAGAGCCAGTGTCGTAACCGGACTTAGTTC
1 CGAAGGGCTTT-GAGCCAGTGTC-TAATCGGACTTAGTTC
* *
19556552 CGAAGGGCCTTCGAGCCAGTGGTCTAATCGGAGCTT-GGTC
1 CGAAGGG-CTTTGAGCCAGT-GTCTAATCGGA-CTTAGTTC
19556592 TCGAAGGGCTTTTGAGCCAGTG-CTAA
1 -CGAAGGGC-TTTGAGCCAGTGTCTAA
19556618 GAATCGGGCT
Statistics
Matches: 91, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
39 4 0.04
40 45 0.49
41 42 0.46
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (38 bp):
CGAAGGGCTTTGAGCCAGTGTCTAATCGGACTTAGTTC
Found at i:19556629 original size:41 final size:40
Alignment explanation
Indices: 19556462--19556639 Score: 153
Period size: 41 Copynumber: 4.4 Consensus size: 40
19556452 TTAAATCCGA
* *
19556462 GCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAATCGA
1 GCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCT-AGAATCGG
* * * *
19556503 ACTTAGTTTCGAAGGG-CTTTAGAGCCAGTG-TCGTAACCGG
1 GCTTGGTTTCGAAGGGCCTTT-GAGCCAGTGCTAG-AATCGG
* * * * * **
19556543 ACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGTCTAATCGG
1 GCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAGAATCGG
* *
19556583 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAGAATCGG
1 -GCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCT-AGAATCGG
*
19556625 GCTTGATTTCGAAGG
1 GCTTGGTTTCGAAGG
19556640 ATGTTTGTGC
Statistics
Matches: 110, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
40 38 0.35
41 66 0.60
42 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (40 bp):
GCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAGAATCGG
Found at i:19561399 original size:2 final size:2
Alignment explanation
Indices: 19561392--19561421 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19561382 TTACTCATCC
19561392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19561422 GTATTTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19566855 original size:40 final size:40
Alignment explanation
Indices: 19566780--19566998 Score: 338
Period size: 40 Copynumber: 5.5 Consensus size: 40
19566770 AACCCAAGTA
*
19566780 CCTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
19566819 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
19566859 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
19566899 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
19566939 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
19566978 CCTTTGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
19566999 GTCATCCGAA
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 36 0.21
40 131 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:19572205 original size:16 final size:17
Alignment explanation
Indices: 19572166--19572221 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
19572156 AGCTTAATAT
19572166 TATTATATTATTAATAAA
1 TATT-TATTATTAATAAA
* *
19572184 TTTTTATTTTTAA-AAA
1 TATTTATTATTAATAAA
**
19572200 TATTTAAAATTAATAAAA
1 TATTTATTATTAAT-AAA
19572218 TATT
1 TATT
19572222 ATAATTTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 12 0.40
17 8 0.27
18 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTATTATTAATAAA
Found at i:19575677 original size:40 final size:40
Alignment explanation
Indices: 19575607--19575722 Score: 130
Period size: 40 Copynumber: 2.9 Consensus size: 40
19575597 TTTTTCATAC
* *
19575607 AGATCGAGCATTAG-TGGTGTTTTTTGAAAAACGCCACTAT
1 AGATCGAGCATTAGCT-GCGTTTCTTGAAAAACGCCACTAT
* *
19575647 AGATCGAGCATTAGCTGCGTTTCTTCAAAAACGCCGCTAT
1 AGATCGAGCATTAGCTGCGTTTCTTGAAAAACGCCACTAT
* *
19575687 AGGTCGACCATTAGC-GACGCTTTC-TGAAAAACGCCA
1 AGATCGAGCATTAGCTG-CG-TTTCTTGAAAAACGCCA
19575723 AAAGTTAAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 59 0.91
41 5 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (40 bp):
AGATCGAGCATTAGCTGCGTTTCTTGAAAAACGCCACTAT
Found at i:19575820 original size:40 final size:40
Alignment explanation
Indices: 19575765--19575874 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
19575755 AGCTTTAGTG
*
19575765 GCATTAGCGGCGCTTTTTGGAAAACGCCAATACAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCAATACAGGTCGA
* ** * *
19575805 GCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGGTTGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCAATACAGGTCGA
* * *
19575845 CCATTAGCAGTGCTTTTTGAAAAACGCCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCAA
19575875 AAAAAATTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCAATACAGGTCGA
Found at i:19575963 original size:154 final size:150
Alignment explanation
Indices: 19575627--19576019 Score: 485
Period size: 151 Copynumber: 2.6 Consensus size: 150
19575617 TTAGTGGTGT
*
19575627 TTTTTGAAAAACGCCACTATAGATCGAGCATTAGCTGCG-TTTCTTCAAAAACGCCGCTATAGGT
1 TTTTTGAAAAACGCCACTATAGATCGAGCATTAG-TGCGCTTT-TTGAAAAACGCCGCTATAGGT
* * *
19575691 CGACCATTAGCGACGCTTTCTGAAAAACGCCAAAAGTTAAGCACAATGTCGTCGTTTTATGTTGA
64 CGACCATTAGCGACGCTTTTTGAAAAACGCCAAAAATTAAGCACAACGTCGTCGTTTTATGTTGA
* *
19575756 GCTTTAGTGGCATTAGCGGCGC
129 ACTTTAGTGGCATTAGCGGCAC
* * * * *
19575778 TTTTTGGAAAACGCCAATACAGGTCGAGCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGGTT
1 TTTTTGAAAAACGCCACTATAGATCGAGCATTAGT-GCGCTTTTTGAAAAACGCCGCTATAGGTC
* * *
19575843 GACCATTAGC-AGTGCTTTTTGAAAAACGCCAAAAAAAATTAAGTACAACGTCGTTGTTTTATGT
65 GACCATTAGCGA-CGCTTTTTGAAAAACGCC---AAAAATTAAGCACAACGTCGTCGTTTTATGT
19575907 TGAACTTTAGTGGCATTAGCGGCAC
126 TGAACTTTAGTGGCATTAGCGGCAC
* * * **
19575932 TTTTTGAAAAATGCCGCTGTAGAAT-GAGCATTA----GCTTTTTGAAAAACGCCGCTATAGAAC
1 TTTTTGAAAAACGCCACTATAG-ATCGAGCATTAGTGCGCTTTTTGAAAAACGCCGCTATAGGTC
*
19575992 GAGCATTAGCGACGCTTTTTGAAAAACG
65 GACCATTAGCGACGCTTTTTGAAAAACG
19576020 TCGTAAAAAA
Statistics
Matches: 208, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
149 48 0.23
150 3 0.01
151 79 0.38
152 3 0.01
154 74 0.36
155 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (150 bp):
TTTTTGAAAAACGCCACTATAGATCGAGCATTAGTGCGCTTTTTGAAAAACGCCGCTATAGGTCG
ACCATTAGCGACGCTTTTTGAAAAACGCCAAAAATTAAGCACAACGTCGTCGTTTTATGTTGAAC
TTTAGTGGCATTAGCGGCAC
Found at i:19575977 original size:35 final size:35
Alignment explanation
Indices: 19575931--19576001 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
19575921 ATTAGCGGCA
* * *
19575931 CTTTTTGAAAAATGCCGCTGTAGAATGAGCATTAG
1 CTTTTTGAAAAACGCCGCTATAGAACGAGCATTAG
19575966 CTTTTTGAAAAACGCCGCTATAGAACGAGCATTAG
1 CTTTTTGAAAAACGCCGCTATAGAACGAGCATTAG
19576001 C
1 C
19576002 GACGCTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (35 bp):
CTTTTTGAAAAACGCCGCTATAGAACGAGCATTAG
Found at i:19576417 original size:22 final size:21
Alignment explanation
Indices: 19576388--19576441 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
19576378 AGTTACTATT
*
19576388 TTATGGTTTATTGATTATGGA
1 TTATGGTTTATGGATTATGGA
* *
19576409 TTATGGGTTTAAGGATTATGGT
1 TTAT-GGTTTATGGATTATGGA
19576431 TTATGGTTTAT
1 TTATGGTTTAT
19576442 AGTTTAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (21 bp):
TTATGGTTTATGGATTATGGA
Found at i:19576446 original size:7 final size:7
Alignment explanation
Indices: 19576387--19576524 Score: 64
Period size: 7 Copynumber: 19.6 Consensus size: 7
19576377 GAGTTACTAT
19576387 TTTATGG
1 TTTATGG
*
19576394 TTTATTG
1 TTTATGG
*
19576401 ATTATGG
1 TTTATGG
*
19576408 ATTATGGG
1 TTTAT-GG
*
19576416 TTTAAGG
1 TTTATGG
*
19576423 ATTATGG
1 TTTATGG
19576430 TTTATGG
1 TTTATGG
*
19576437 TTTATAG
1 TTTATGG
*
19576444 TTTAAGG
1 TTTATGG
* **
19576451 GTTGGGG
1 TTTATGG
*
19576458 TTTAAGG
1 TTTATGG
19576465 TTTA-GG
1 TTTATGG
19576471 TGTTA-GG
1 T-TTATGG
* *
19576478 GTTAAGG
1 TTTATGG
* *
19576485 GTTAGAGG
1 TTTA-TGG
*
19576493 TTTAAGG
1 TTTATGG
*
19576500 TTTATGT
1 TTTATGG
*
19576507 TTTATGA
1 TTTATGG
*
19576514 TTTAAGG
1 TTTATGG
19576521 TTTA
1 TTTA
19576525 GGGGATAGGA
Statistics
Matches: 103, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
6 6 0.06
7 86 0.83
8 11 0.11
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:19576499 original size:15 final size:16
Alignment explanation
Indices: 19576462--19576500 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 16
19576452 TTGGGGTTTA
19576462 AGGTTT-AGGTGTTAG
1 AGGTTTAAGGTGTTAG
19576477 -GG-TTAAGG-GTTAG
1 AGGTTTAAGGTGTTAG
19576490 AGGTTTAAGGT
1 AGGTTTAAGGT
19576501 TTATGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
13 7 0.35
14 7 0.35
15 6 0.30
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.36
Consensus pattern (16 bp):
AGGTTTAAGGTGTTAG
Found at i:19576615 original size:27 final size:26
Alignment explanation
Indices: 19576583--19576668 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 26
19576573 TTTATATATT
19576583 AAATAATTTCTTATATAATTGTAAAAG
1 AAATAATTTCTT-TATAATTGTAAAAG
* *
19576610 AAATAA--T-ATTA-AATT-TAACATATT
1 AAATAATTTCTTTATAATTGTAA-A-A-G
19576634 AAATAATTTCTTCTATAATTGTAAAAG
1 AAATAATTTCTT-TATAATTGTAAAAG
19576661 AAATAATT
1 AAATAATT
19576669 ATAATTGTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
21 3 0.07
22 5 0.11
23 3 0.07
24 7 0.15
25 1 0.02
26 1 0.02
27 15 0.33
28 3 0.07
29 5 0.11
30 3 0.07
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (26 bp):
AAATAATTTCTTTATAATTGTAAAAG
Found at i:19577240 original size:18 final size:18
Alignment explanation
Indices: 19577203--19577256 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
19577193 CTCTCTCCCC
** *
19577203 ATTCCCTTTTTTTTCCCA
1 ATTCCCTTTTCATTCTCA
* *
19577221 ATTTCTTTTTCATTCTCA
1 ATTCCCTTTTCATTCTCA
*
19577239 ATTCCCTTTTCTTTCTCA
1 ATTCCCTTTTCATTCTCA
19577257 GCTTTTCTCA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.30, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTCCCTTTTCATTCTCA
Found at i:19586454 original size:21 final size:20
Alignment explanation
Indices: 19586419--19586470 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
19586409 AAAATTTAAC
19586419 ATAATATAATATTTACATAAAA
1 ATAA-ATAATATTTA-ATAAAA
* *
19586441 ATAAATATTATTTAATTAAA
1 ATAAATAATATTTAATAAAA
19586461 ATAAAATAAT
1 AT-AAATAAT
19586471 TTTTTTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATAATATTTAATAAAA
Found at i:19586537 original size:43 final size:43
Alignment explanation
Indices: 19586476--19586581 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
19586466 ATAATTTTTT
* *
19586476 TAAAGGTAATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCAGC
* * *
19586519 TAAAGGTCATGTTCTTTAGCGTCGTTTTTGGGAAAAGCGCAGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCAGC
* *
19586562 TAAAGATCATGTTCTGTAGC
1 TAAAGGTCATGTTCTTTAGC
19586582 AGCTTTTTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCAGC
Found at i:19592224 original size:48 final size:48
Alignment explanation
Indices: 19592086--19592296 Score: 216
Period size: 48 Copynumber: 4.4 Consensus size: 48
19592076 GATCCCATAT
* * * *
19592086 ATGGTCTTACATGGGATCTCA-ACTCGGTGCTGATGCCATATCCCAGAT
1 ATGGTCTTATATGGGATCTCATA-TCGATGCTGATGCCATGTCCCAGAC
* * * *
19592134 ATGGCCTTAT-TCAGGACCTCATA-CGATGC-CATGCCATGTCCCAGAC
1 ATGGTCTTATAT-GGGATCTCATATCGATGCTGATGCCATGTCCCAGAC
*
19592180 ATGGTCTTATACGGGATCTCATAAT-GATGCTGATGCCATGTCCCAGAC
1 ATGGTCTTATATGGGATCTCAT-ATCGATGCTGATGCCATGTCCCAGAC
* * * * * * *
19592228 ATAGTTTTATATAGGATCTCATGTCAATGCCGATGCCACGTCCCAGAC
1 ATGGTCTTATATGGGATCTCATATCGATGCTGATGCCATGTCCCAGAC
19592276 ATGGTCTTATATGGGATCTCA
1 ATGGTCTTATATGGGATCTCA
19592297 ATAACCCTAA
Statistics
Matches: 132, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
46 31 0.23
47 13 0.10
48 87 0.66
49 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (48 bp):
ATGGTCTTATATGGGATCTCATATCGATGCTGATGCCATGTCCCAGAC
Found at i:19592249 original size:94 final size:96
Alignment explanation
Indices: 19592086--19592297 Score: 261
Period size: 94 Copynumber: 2.2 Consensus size: 96
19592076 GATCCCATAT
* * * * *
19592086 ATGGTCTTACATGGGATCTCAACTCGGTGCTGATGCCATATCCCAGATATGGCCTTATTCAGGAC
1 ATGGTCTTATATGGGATCTCAAATCGATGCTGATGCCATATCCCAGACATAGCCTTATTCAGGAC
* *
19592151 CTCAT-ACGATGCC-ATGCCATGTCCCAGAC
66 CTCATGACAATGCCGATGCCACGTCCCAGAC
* * **
19592180 ATGGTCTTATACGGGATCTCATAAT-GATGCTGATGCCATGTCCCAGACATAGTTTTATAT-AGG
1 ATGGTCTTATATGGGATCTCA-AATCGATGCTGATGCCATATCCCAGACATAGCCTTAT-TCAGG
* *
19592243 ATCTCATGTCAATGCCGATGCCACGTCCCAGAC
64 ACCTCATGACAATGCCGATGCCACGTCCCAGAC
19592276 ATGGTCTTATATGGGATCTCAA
1 ATGGTCTTATATGGGATCTCAA
19592298 TAACCCTAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
94 55 0.55
95 10 0.10
96 35 0.35
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (96 bp):
ATGGTCTTATATGGGATCTCAAATCGATGCTGATGCCATATCCCAGACATAGCCTTATTCAGGAC
CTCATGACAATGCCGATGCCACGTCCCAGAC
Found at i:19600377 original size:50 final size:50
Alignment explanation
Indices: 19600300--19600743 Score: 466
Period size: 50 Copynumber: 8.8 Consensus size: 50
19600290 ACCGAAGCTC
* *
19600300 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * *
19600350 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAGCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
** * * *
19600400 TC-GGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGCTA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CAA
* * *
19600451 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATCTGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* ** *
19600501 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * * * *
19600551 TC-GGATACACGTAGTAGTCTGCACTTAGTACTACATACGTGATCGAAGCTA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAA
* ** *
19600602 TCGGGTATGCATAGTAG-CTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
*
19600651 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATATGACCTAA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
*** *
19600700 CCGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
19600744 TTCTCACAAT
Statistics
Matches: 333, Mismatches: 49, Indels: 22
0.82 0.12 0.05
Matches are distributed among these distances:
49 23 0.07
50 218 0.65
51 51 0.15
52 41 0.12
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:19600567 original size:151 final size:151
Alignment explanation
Indices: 19600292--19600739 Score: 693
Period size: 151 Copynumber: 3.0 Consensus size: 151
19600282 CCCTTGTAAC
* * *
19600292 CGAAGCTCTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTA
* * *
19600357 CACGTAGTAGCCTGCACTTAGTACTACACACGTGAGCTAACCATCGGATACATGTAGTAGCCTGC
66 CACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCGGATACACGTAGTAGCCTGC
19600422 ACTTAGTACTACACACGTGAT
131 ACTTAGTACTACACACGTGAT
*
19600443 TGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACAT-CTGACCTAACAATCTGGT
1 CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC-GACCTAACAATCTGGT
*
19600507 ACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCGGATACACGTAGTAGTCTG
65 ACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCGGATACACGTAGTAGCCTG
*
19600572 CACTTAGTACTACATACGTGAT
130 CACTTAGTACTACACACGTGAT
*
19600594 CGAAGCTATCGGGTATGCATAGTAG-CTGCACTTAGTACTACACATGCGACCTAACAATCTGGTA
1 CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTA
* * * ** * *
19600658 CACATAGTAGCCTGCACTTAGTACTACACATATGACCTAAAACCGTCTTAAACACATAGTAGCCT
66 CACGTAGTAGCCTGCACTTAGTACTACACACATGACCT--AACCATCGGATACACGTAGTAGCCT
*
19600723 GCACATAGTACTACACA
129 GCACTTAGTACTACACA
19600740 TGTGTTCTCA
Statistics
Matches: 272, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
150 74 0.27
151 164 0.60
152 34 0.12
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (151 bp):
CGAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTA
CACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCGGATACACGTAGTAGCCTGC
ACTTAGTACTACACACGTGAT
Found at i:19602582 original size:43 final size:43
Alignment explanation
Indices: 19602518--19602804 Score: 459
Period size: 43 Copynumber: 6.7 Consensus size: 43
19602508 TAGAAAAAAT
19602518 GCCGCTAAAGGTCAAGGCTTTTAGC-GCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
* * *
19602560 GCCGCTAAAGGTCTAGGCCTTTTAGCGGCGTTTGTTGGAAAACC
1 GCCGCTAAAGGTCAAGG-CTTTTAGCGGCGTTTGTGGGAAAAGC
* *
19602604 GCCGCAAAAGGTCAAGGCTTTTAGCGGCGTTTCTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
19602647 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
** *
19602690 GCCGCTAAAGGTCAAGGCTTTTAGCAACGTTTGTTGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
* *
19602733 GCCGCTAAAGGTCAAGTCTTTTAGCGGCGTTTGTGAGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
*
19602776 GCCGTTAAAGGTCAAGGCTTTTAGCGGCG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
19602805 CTTTTTCTAC
Statistics
Matches: 223, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
42 16 0.07
43 177 0.79
44 30 0.13
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
Found at i:19605158 original size:27 final size:28
Alignment explanation
Indices: 19605101--19605170 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
19605091 AAACTTGTAC
*
19605101 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
19605129 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
19605156 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19605171 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:19605181 original size:27 final size:27
Alignment explanation
Indices: 19605101--19605182 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
19605091 AAACTTGTAC
* * *
19605101 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
19605129 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
19605156 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
19605183 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:19613098 original size:27 final size:28
Alignment explanation
Indices: 19613041--19613110 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
19613031 AAACTTGTAC
*
19613041 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
19613069 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
19613096 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19613111 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:19613121 original size:27 final size:27
Alignment explanation
Indices: 19613041--19613122 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
19613031 AAACTTGTAC
* * *
19613041 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
19613069 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
19613096 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
19613123 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:19619966 original size:57 final size:57
Alignment explanation
Indices: 19619893--19620004 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 57
19619883 TATTAGTTAG
** * *
19619893 GTTATGTAAGTTGTTATGTACGTTATGTGAGTCATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTGTTATGTAAATTATGTAAGTCATATAAATTATGTAAGTTATGTGA
* * *
19619950 GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGT
1 GTTATGTAAGTTGTTATGTAAATTATGTAAGTCATATAAATTATGTAAGTTATGT
19620005 AATTTATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.29, C:0.02, G:0.23, T:0.46
Consensus pattern (57 bp):
GTTATGTAAGTTGTTATGTAAATTATGTAAGTCATATAAATTATGTAAGTTATGTGA
Found at i:19619969 original size:39 final size:39
Alignment explanation
Indices: 19619926--19620000 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
19619916 TATGTGAGTC
*
19619926 ATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTT
1 ATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTGTT
19619965 ATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 ATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
19620001 ATGTAATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (39 bp):
ATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTGTT
Found at i:19620006 original size:9 final size:9
Alignment explanation
Indices: 19619905--19620017 Score: 109
Period size: 9 Copynumber: 12.2 Consensus size: 9
19619895 TATGTAAGTT
*
19619905 GTTATGTAC
1 GTTATGTAA
*
19619914 GTTATGTGA
1 GTTATGTAA
*
19619923 GTCATGTAA
1 GTTATGTAA
*
19619932 ATTATGTAA
1 GTTATGTAA
*
19619941 GTTATGTGA
1 GTTATGTAA
19619950 GTTATGTAA
1 GTTATGTAA
19619959 GTTGTTATGTAA
1 ---GTTATGTAA
*
19619971 ATTATGTAA
1 GTTATGTAA
* *
19619980 GTTATATGA
1 GTTATGTAA
19619989 GTTATGTAA
1 GTTATGTAA
19619998 GTTATGTAA
1 GTTATGTAA
* *
19620007 TTTATTTAA
1 GTTATGTAA
19620016 GT
1 GT
19620018 AATGATCAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
9 74 0.89
12 9 0.11
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:19620017 original size:57 final size:57
Alignment explanation
Indices: 19619893--19620017 Score: 160
Period size: 57 Copynumber: 2.2 Consensus size: 57
19619883 TATTAGTTAG
** * * *
19619893 GTTATGTAAGTTGTTATGTACGTTATGTGAGTCATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTGTTATGTAAATTATGTAAGTCATATAAATTATGTAAGTTATGTAA
* * *
19619950 GTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAA
1 GTTATGTAAGTTGTTATGTAAATTATGTAAGTCATATAAATTATGTAAGTTATGTAA
* *
19620007 TTTATTTAAGT
1 GTTATGTAAGT
19620018 AATGATCAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (57 bp):
GTTATGTAAGTTGTTATGTAAATTATGTAAGTCATATAAATTATGTAAGTTATGTAA
Found at i:19621436 original size:27 final size:27
Alignment explanation
Indices: 19621406--19621664 Score: 119
Period size: 27 Copynumber: 9.6 Consensus size: 27
19621396 CGACTTGTAA
19621406 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCGATTTACAG
***
19621433 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
* **** ** *
19621460 AATTATCGTTTTACCCTCGATTTTTAA
1 AATTACCAAAGTACCCTCGATTTACAG
**** *
19621487 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
****
19621514 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCAAAGTACCCTCGA-TTTACAG
***
19621541 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
***
19621568 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCAAAGTACCCTCGA-TTTACAG
* *** * *
19621595 AATTACTATTTTACCCTCAATTTATAG
1 AATTACCAAAGTACCCTCGATTTACAG
* **** *
19621622 AATTATCGTTTTACCCTCGATTTACAA
1 AATTACCAAAGTACCCTCGATTTACAG
*
19621649 AATTACCAAAATACCC
1 AATTACCAAAGTACCC
19621665 CTAGGTTGTA
Statistics
Matches: 200, Mismatches: 27, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
26 4 0.02
27 194 0.97
28 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:19621514 original size:81 final size:80
Alignment explanation
Indices: 19621425--19621656 Score: 347
Period size: 81 Copynumber: 2.9 Consensus size: 80
19621415 AGTACTCCCG
**
19621425 ATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTTTAAAAT
1 ATTTACAGAATTACCATTTTACCCTC-ATTTACAGAATTATCGTTTTACCCTCGATTTACAAAAT
*
19621490 TACCGTTTTACCCTCA
65 TACCATTTTACCCTCA
* * * *
19621506 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAGAAT
1 ATTTACAGAATTACCATTTTACCCTCA-TTTACAGAATTATCGTTTTACCCTCGATTTACAAAAT
19621571 TACCATTTTACCCTCA
65 TACCATTTTACCCTCA
* * *
19621587 GTTTACAGAATTACTATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATTTACAAAAT
1 ATTTACAGAATTACCATTTTACCCTC-ATTTACAGAATTATCGTTTTACCCTCGATTTACAAAAT
19621652 TACCA
65 TACCA
19621657 AAATACCCCT
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.01
81 133 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (80 bp):
ATTTACAGAATTACCATTTTACCCTCATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATT
ACCATTTTACCCTCA
Found at i:19621664 original size:54 final size:54
Alignment explanation
Indices: 19621423--19621656 Score: 328
Period size: 54 Copynumber: 4.3 Consensus size: 54
19621413 AAAGTACTCC
* *
19621423 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCT
** * *
19621477 CGATTTTTAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCT
* *
19621531 C-AGTTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCT
* * *
19621585 C-AGTTTACAGAATTACTATTTTACCCTCAATTTATAGAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCT
*
19621639 CGATTTACAAAATTACCA
1 CGATTTACAGAATTACCA
19621657 AAATACCCCT
Statistics
Matches: 159, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 157 0.99
55 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.39
Consensus pattern (54 bp):
CGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACCCT
Found at i:19621664 original size:81 final size:81
Alignment explanation
Indices: 19621404--19621664 Score: 328
Period size: 81 Copynumber: 3.2 Consensus size: 81
19621394 CTCGACTTGT
* *
19621404 AAAATTACCAAAGTACTCC-C-GATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTATC
1 AAAATTACCAAATTAC-CCTCAG-TTTACAGAATTACCATTTTACCCTCAATTTACAGAATTATC
**
19621467 GTTTTACCCTCGATTTTT
64 GTTTTACCCTCGATTTAC
*** * * * * *
19621485 AAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCAT
1 AAAATTACCAAATTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATTTACAGAATTATCGT
19621550 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* ** * *
19621566 AGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCAATTTATAGAATTATCGT
1 AAAATTACCAAATTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATTTACAGAATTATCGT
19621631 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
*
19621647 AAAATTACCAAAATACCC
1 AAAATTACCAAATTACCC
19621665 CTAGGTTGTA
Statistics
Matches: 153, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
80 2 0.01
81 151 0.99
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAATTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATTTACAGAATTATCGT
TTTACCCTCGATTTAC
Found at i:19621677 original size:27 final size:27
Alignment explanation
Indices: 19621646--19621829 Score: 237
Period size: 27 Copynumber: 6.8 Consensus size: 27
19621636 CCTCGATTTA
19621646 CAAAATTACCAAAATACCCCTAGG-TTG
1 CAAAATTACCAAAATACCCCT-GGTTTG
* * *
19621673 TAAAACTACTAAAATACCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTG
*
19621700 CAAAATTACCAAAATATCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTG
19621727 CAAAATTACCAAAATACCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTG
* *
19621754 TAAAATTACCAAAATACCCATGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTG
* **
19621781 CAAAATTACTAAAATACCCCT-GTAGGG
1 CAAAATTACCAAAATACCCCTGGT-TTG
* *
19621808 TAAAATTACCGAAATACCCCTG
1 CAAAATTACCAAAATACCCCTG
19621830 TAGGGTAGAA
Statistics
Matches: 136, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.03
27 132 0.97
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.26
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCCTGGTTTG
Found at i:19621691 original size:81 final size:81
Alignment explanation
Indices: 19621444--19621691 Score: 196
Period size: 81 Copynumber: 3.1 Consensus size: 81
19621434 ATTACCATTT
* * * ** **** *
19621444 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCAATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAGTT
* *****
19621509 TACAGAATTACCGTTT
66 TACAGAACTACTAAAA
* * ***
19621525 TACCCTCAGTTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAGTT
* ***
19621590 TACAGAATTACTATTT
66 TACAGAACTACTAAAA
* * *
19621606 TACCCTCAATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACCAAAATACCC-CTAGG
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTC-A-G
19621670 TTGTA-A-AACTACTAAAA
64 TT-TACAGAACTACTAAAA
19621687 TACCC
1 TACCC
19621692 CTGGTTTGCA
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 134 0.95
82 4 0.03
83 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCAGTT
TACAGAACTACTAAAA
Found at i:19621855 original size:27 final size:27
Alignment explanation
Indices: 19621728--19621844 Score: 103
Period size: 27 Copynumber: 4.3 Consensus size: 27
19621718 CCTGGTTTGC
* **
19621728 AAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCGAAATACCCCT-GTAGGGT
* * ** *
19621755 AAAATTACCAAAATACCCATGGT-TTGC
1 AAAATTACCGAAATACCCCT-GTAGGGT
**
19621782 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
19621809 AAAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
19621836 AGAATTACC
1 AAAATTACC
19621845 ATTTTGCCCC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.03
27 77 0.97
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:19624103 original size:10 final size:10
Alignment explanation
Indices: 19624088--19624138 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
19624078 AAATATAAAA
19624088 ACTTATTCAT
1 ACTTATTCAT
19624098 ACTTATTC--
1 ACTTATTCAT
** *
19624106 A-TTATAAAA
1 ACTTATTCAT
19624115 ACTTATTCAT
1 ACTTATTCAT
19624125 ACTTATTCAT
1 ACTTATTCAT
19624135 ACTT
1 ACTT
19624139 CAAATAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
7 4 0.12
8 1 0.03
9 1 0.03
10 27 0.82
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (10 bp):
ACTTATTCAT
Found at i:19624119 original size:27 final size:27
Alignment explanation
Indices: 19624081--19624134 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
19624071 TTGAATCAAA
19624081 TATAAAAACTTATTCATACTTATTCAT
1 TATAAAAACTTATTCATACTTATTCAT
19624108 TATAAAAACTTATTCATACTTATTCAT
1 TATAAAAACTTATTCATACTTATTCAT
19624135 ACTTCAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (27 bp):
TATAAAAACTTATTCATACTTATTCAT
Found at i:19624208 original size:23 final size:23
Alignment explanation
Indices: 19624182--19624230 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
19624172 GTTCAAGTTT
19624182 ATTTAAAGGGCT-CAAATTCATAC
1 ATTTAAAGGGCTGC-AATTCATAC
19624205 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
19624228 ATT
1 ATT
19624231 AGATTAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:19626562 original size:19 final size:19
Alignment explanation
Indices: 19626535--19626588 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
19626525 CGTCCACTCA
*
19626535 GAGTCTTCAATGGCAGTCG
1 GAGTCTTCAACGGCAGTCG
*
19626554 GATTCTTCAACGGCAGTCG
1 GAGTCTTCAACGGCAGTCG
19626573 GAGTCTTCAACGGCAG
1 GAGTCTTCAACGGCAG
19626589 AAGGATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (19 bp):
GAGTCTTCAACGGCAGTCG
Found at i:19626645 original size:19 final size:20
Alignment explanation
Indices: 19626606--19626657 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
19626596 TTTCGATTTT
* *
19626606 GATTCGGGGAAATATTTAGG
1 GATTAGGGGAAATAGTTAGG
19626626 GATTAGGGGAAA-AGTTAGG
1 GATTAGGGGAAATAGTTAGG
*
19626645 GATTTGGGGAAAT
1 GATTAGGGGAAAT
19626658 TTGGGTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.27
Consensus pattern (20 bp):
GATTAGGGGAAATAGTTAGG
Found at i:19628031 original size:46 final size:46
Alignment explanation
Indices: 19627981--19628156 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
19627971 TGGTTGAGCA
19627981 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
19628027 TCCGAACTCGTTAAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19628072 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
19628120 CCCGAGCTCATTGAGTTGAGTCCTAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19628157 GAGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19628137 original size:93 final size:93
Alignment explanation
Indices: 19627978--19628149 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
19627968 GGATGGTTGA
* * *
19627978 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTAAGT
19628043 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
19628071 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTAAGT
*
19628136 TGAGTCCTAGTTCG
66 TGAGTCCGAGTTCG
19628150 CTTATGGGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTAAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19630553 original size:15 final size:14
Alignment explanation
Indices: 19630512--19630555 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
19630502 GAAATTTATT
*
19630512 TTTAGGGTTTACAAA
1 TTTAGGGTTTA-TAA
19630527 TTTAGGGTTTATAA
1 TTTAGGGTTTATAA
19630541 TTTAGGGTATTATAA
1 TTTAGGGT-TTATAA
19630556 GGGTTTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTATAA
Found at i:19630764 original size:29 final size:29
Alignment explanation
Indices: 19630726--19630781 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
19630716 AGAGTTTAGA
*
19630726 TCATGGGTTATGATTTAGGGATTAGGCGG
1 TCATCGGTTATGATTTAGGGATTAGGCGG
*
19630755 TCATCGGTTATGATTTAGGGGTTAGGC
1 TCATCGGTTATGATTTAGGGATTAGGC
19630782 TTCATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.36, T:0.36
Consensus pattern (29 bp):
TCATCGGTTATGATTTAGGGATTAGGCGG
Done.