Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
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: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 29
Found at i:5059862 original size:26 final size:26
Alignment explanation
Indices: 5059826--5059914 Score: 144
Period size: 26 Copynumber: 3.5 Consensus size: 26
5059816 TGAAAATATA
5059826 TAAGGAAAGATAGTCTAATATAAGAT
1 TAAGGAAAGATAGTCTAATATAAGAT
5059852 TAAGGAAAGATAGTCTAATATAAGAT
1 TAAGGAAAGATAGTCTAATATAAGAT
* *
5059878 TAAGAAAAGATAGTCTAATACAAGAT
1 TAAGGAAAGATAGTCTAATATAAGAT
*
5059904 TAAAG-AAGATA
1 TAAGGAAAGATA
5059915 CAATCGAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 6 0.10
26 53 0.90
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.25
Consensus pattern (26 bp):
TAAGGAAAGATAGTCTAATATAAGAT
Found at i:5060861 original size:53 final size:55
Alignment explanation
Indices: 5060759--5060885 Score: 179
Period size: 53 Copynumber: 2.4 Consensus size: 55
5060749 AAAATTGTAG
* * *
5060759 CAATTAACACATACTTACACCGGTGTTAAGTATGTATATCTCTCAATATCTTA-A
1 CAATTAACACATACTTACACCAGTGTTAAGTATATACATCTCTCAATATCTTAGA
* *
5060813 CAATTAACAAATACTTACACCATTG-TAAGTATATACATCTCTCAATATCTTAGA
1 CAATTAACACATACTTACACCAGTGTTAAGTATATACATCTCTCAATATCTTAGA
*
5060867 -AATTAACACATATTTACAC
1 CAATTAACACATACTTACAC
5060886 ATCTTTCAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 42 0.65
54 23 0.35
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.34
Consensus pattern (55 bp):
CAATTAACACATACTTACACCAGTGTTAAGTATATACATCTCTCAATATCTTAGA
Found at i:5060897 original size:37 final size:37
Alignment explanation
Indices: 5060847--5060922 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
5060837 GTAAGTATAT
*
5060847 ACATCTCTCAATATCTTAGAAATTAACACATATTTAC
1 ACATCTCTCAATATCTTAGAAATTAACACATACTTAC
* *
5060884 ACATCTTTCAATATCTTAGCAATTAACACATACTTAC
1 ACATCTCTCAATATCTTAGAAATTAACACATACTTAC
5060921 AC
1 AC
5060923 CGGTGTAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (37 bp):
ACATCTCTCAATATCTTAGAAATTAACACATACTTAC
Found at i:5063976 original size:14 final size:14
Alignment explanation
Indices: 5063957--5063984 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5063947 GCAGTCGTCG
5063957 TCCGAGATTAGCTC
1 TCCGAGATTAGCTC
5063971 TCCGAGATTAGCTC
1 TCCGAGATTAGCTC
5063985 GACTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (14 bp):
TCCGAGATTAGCTC
Found at i:5066233 original size:38 final size:37
Alignment explanation
Indices: 5066179--5066262 Score: 134
Period size: 38 Copynumber: 2.3 Consensus size: 37
5066169 ATCGGGCCGG
5066179 ATATATATA-TATATTTAAATTAAATTTATAAATATT
1 ATATATATATTATATTTAAATTAAATTTATAAATATT
* *
5066215 ATATATATATTTTAATTTAAATTAAATTTATTAATATT
1 ATATATATATTAT-ATTTAAATTAAATTTATAAATATT
5066253 ATATATATAT
1 ATATATATAT
5066263 ATAATAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
36 9 0.20
37 2 0.05
38 33 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (37 bp):
ATATATATATTATATTTAAATTAAATTTATAAATATT
Found at i:5066301 original size:12 final size:12
Alignment explanation
Indices: 5066284--5066321 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
5066274 TTTTAATGTT
5066284 TATCGGGCCGGG
1 TATCGGGCCGGG
*
5066296 TATCGGGCTGGG
1 TATCGGGCCGGG
*
5066308 TATCGGGCCTGG
1 TATCGGGCCGGG
5066320 TA
1 TA
5066322 ATTGGGGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.11, C:0.21, G:0.45, T:0.24
Consensus pattern (12 bp):
TATCGGGCCGGG
Found at i:5066512 original size:33 final size:33
Alignment explanation
Indices: 5066466--5066533 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
5066456 TGACCTGTTG
*
5066466 GAGGATGAGAGACTCTGCTGGAACCTTCTAGAA
1 GAGGATGAAAGACTCTGCTGGAACCTTCTAGAA
*
5066499 GAGGATGAAAGACTCTTCTGGAACCTTCTAGAA
1 GAGGATGAAAGACTCTGCTGGAACCTTCTAGAA
5066532 GA
1 GA
5066534 TCCCAGCTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (33 bp):
GAGGATGAAAGACTCTGCTGGAACCTTCTAGAA
Found at i:5069946 original size:55 final size:55
Alignment explanation
Indices: 5069889--5070708 Score: 1396
Period size: 55 Copynumber: 14.9 Consensus size: 55
5069879 TGACGAGCCT
* * * *
5069889 GCTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAACAATCTTCATAAAATGTGTCT
1 GCTCTCTATTCCTTCAGAG-AGTATAGA-ACTCGAACAATCTTCATAAAACGGGTCC
* * * * **
5069944 GCTCTCTATTCATTCATAGAGTATA-AGACTCAAATAATCTTCA-ACAAACGGGTTT
1 GCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCATA-AAACGGGTCC
5069999 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
* * *
5070054 ACTCTCTATTACTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
*
5070109 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
* * * *
5070164 ACTCTTTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGCCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
5070219 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
*
5070274 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAATGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
5070329 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
5070384 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
*
5070439 GCTCTCTATTCCTTCAAAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
5070494 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
5070549 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
5070604 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
5070659 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACG
5070709 TATTTGCTTC
Statistics
Matches: 731, Mismatches: 30, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
54 1 0.00
55 727 0.99
56 3 0.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (55 bp):
GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCC
Found at i:5070818 original size:37 final size:37
Alignment explanation
Indices: 5070712--5070821 Score: 141
Period size: 37 Copynumber: 3.0 Consensus size: 37
5070702 TAAAACGTAT
* * * * * *
5070712 TTGCTTCACTATTCTCTCATGAAGGCTTATAG-ATGAT
1 TTGCTTCACAACTCTTTCGTGAAGGCTTA-AGTTTGAA
*
5070749 TTGCTTCACCACTCTTTCGTGAAGGCTTAAGTTTGAA
1 TTGCTTCACAACTCTTTCGTGAAGGCTTAAGTTTGAA
5070786 TTGCTTCACAACTCTTTCGTGAAGGCTTAAGTTTGA
1 TTGCTTCACAACTCTTTCGTGAAGGCTTAAGTTTGA
5070822 CTTGTTTCGA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 2 0.03
37 63 0.97
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (37 bp):
TTGCTTCACAACTCTTTCGTGAAGGCTTAAGTTTGAA
Found at i:5072120 original size:34 final size:33
Alignment explanation
Indices: 5072082--5072153 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
5072072 TTGAACTCTC
*
5072082 CTTTTATTTC-TCTCTTTTTTTTCTTCATTTTTCT
1 CTTTT-TTTCATCTCTATTTTTTCTTC-TTTTTCT
* *
5072116 C-TTTTTTCATTTTCTATTTTTTCTTCTTTTTTT
1 CTTTTTTTCA-TCTCTATTTTTTCTTCTTTTTCT
5072149 CTTTT
1 CTTTT
5072154 CGTTTTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
32 4 0.12
33 10 0.31
34 18 0.56
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (33 bp):
CTTTTTTTCATCTCTATTTTTTCTTCTTTTTCT
Found at i:5072130 original size:15 final size:16
Alignment explanation
Indices: 5072100--5072138 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
5072090 TCTCTCTTTT
*
5072100 TTTTCTTCATTTTTCTC
1 TTTT-TTCATTTTTCTA
5072117 TTTTTTCA-TTTTCTA
1 TTTTTTCATTTTTCTA
5072132 TTTTTTC
1 TTTTTTC
5072139 TTCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTCATTTTTCTA
Found at i:5072137 original size:25 final size:24
Alignment explanation
Indices: 5072088--5072234 Score: 88
Period size: 26 Copynumber: 5.8 Consensus size: 24
5072078 TCTCCTTTTA
*
5072088 TTTCTCTCTTTTTTT-TCTTCA-TT
1 TTTCT-TCTTTTTTTCTTTTCATTT
5072111 TTTC-TC-TTTTTTCATTTTCTATTT
1 TTTCTTCTTTTTTTC-TTTTC-ATTT
*
5072135 TTTCTTCTTTTTTTCTTTTCGTTTT
1 TTTCTTCTTTTTTTCTTTTC-ATTT
*
5072160 TTTCCATCATTTTCCTTT-TTTCTCATTT
1 TTT-CTTC-TTTT--TTTCTTT-TCATTT
*
5072188 TTTCCTTCTTTTTCTTCTTCTCATTTT
1 TTT-CTTCTTTTT-TTCTTTTCA-TTT
* *
5072215 TATTATTATTTTTTTCTTTT
1 T-TTCTTCTTTTTTTCTTTT
5072235 TTTCATTTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
20 6 0.06
21 2 0.02
22 4 0.04
23 5 0.05
24 6 0.06
25 14 0.14
26 21 0.21
27 21 0.21
28 15 0.15
29 5 0.05
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.73
Consensus pattern (24 bp):
TTTCTTCTTTTTTTCTTTTCATTT
Found at i:5072145 original size:9 final size:9
Alignment explanation
Indices: 5072094--5072251 Score: 56
Period size: 9 Copynumber: 18.0 Consensus size: 9
5072084 TTTATTTCTC
*
5072094 TCTTTTTTT
1 TCTTCTTTT
5072103 TCTTCATTTT
1 TCTTC-TTTT
5072113 TC-TC-TTT
1 TCTTCTTTT
*
5072120 T-TTCATTT
1 TCTTCTTTT
5072128 TCTAT-TTTT
1 TCT-TCTTTT
5072137 TCTTCTTTT
1 TCTTCTTTT
5072146 T-TTC-TTT
1 TCTTCTTTT
5072153 TCGTT-TTTT
1 TC-TTCTTTT
*
5072162 TCCATCATTTT
1 T-CTTC-TTTT
*
5072173 CCTT-TTTT
1 TCTTCTTTT
5072181 CTCATT-TTTT
1 -TC-TTCTTTT
*
5072191 CCTTCTTTT
1 TCTTCTTTT
*
5072200 TCTTC-TTC
1 TCTTCTTTT
5072208 TCATT-TTTAT
1 TC-TTCTTT-T
* *
5072218 TATTATTTT
1 TCTTCTTTT
5072227 T-TTCTTTT
1 TCTTCTTTT
5072235 T-TTCATTTT
1 TCTTC-TTTT
5072244 TC-TCTTTT
1 TCTTCTTTT
5072252 ATTTCTTCTT
Statistics
Matches: 116, Mismatches: 12, Indels: 43
0.68 0.07 0.25
Matches are distributed among these distances:
7 10 0.09
8 32 0.28
9 50 0.43
10 20 0.17
11 4 0.03
ACGTcount: A:0.07, C:0.18, G:0.01, T:0.74
Consensus pattern (9 bp):
TCTTCTTTT
Found at i:5085380 original size:36 final size:36
Alignment explanation
Indices: 5085298--5085458 Score: 191
Period size: 36 Copynumber: 4.5 Consensus size: 36
5085288 AGAAACACTT
* *** * *
5085298 TCAATTGAGATAAAAAAAATTTTAAGGAAAA-AATA
1 TCAAGTGAGATAAAATCTATTTTAAGAAAAATAATC
* *
5085333 TCAAGTGAGATAGAATCTATTTTAAGAAAAACAATC
1 TCAAGTGAGATAAAATCTATTTTAAGAAAAATAATC
* *
5085369 TCAAGTCAGATAAAATCTGTTTTAAGAAAAATAATC
1 TCAAGTGAGATAAAATCTATTTTAAGAAAAATAATC
* *
5085405 TCAATTGAGATAAAA-CTTGTTTTAAGAAAAATAATC
1 TCAAGTGAGATAAAATC-TATTTTAAGAAAAATAATC
5085441 TCAAGTGAGATAAAATCT
1 TCAAGTGAGATAAAATCT
5085459 TGAGTGAAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
35 26 0.24
36 82 0.75
37 1 0.01
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (36 bp):
TCAAGTGAGATAAAATCTATTTTAAGAAAAATAATC
Found at i:5085581 original size:44 final size:44
Alignment explanation
Indices: 5085509--5085667 Score: 158
Period size: 44 Copynumber: 3.6 Consensus size: 44
5085499 TAGTGATGAC
* * * **
5085509 GCTGATTCAACTCATTATGTGACAGAATCAAGCAAAATGGTGAT
1 GCTGATCCAACTCCTTATATGATGGAATCAAGCAAAATGGTGAT
* * *
5085553 GTTGATCCAACTCCTTATATGATGGAATCAAGCGAAATGTTGAT
1 GCTGATCCAACTCCTTATATGATGGAATCAAGCAAAATGGTGAT
* * ** *
5085597 GCTGATCCAACTCCTTATGTGATGGAATCGAGCTAAAA-GAAAGGT
1 GCTGATCCAACTCCTTATATGATGGAATCAAGC-AAAATG-GTGAT
* *
5085642 ACTGGTCCAACTCCTTATATGATGGA
1 GCTGATCCAACTCCTTATATGATGGA
5085668 CGAGCCATGT
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
44 67 0.71
45 28 0.29
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTGATCCAACTCCTTATATGATGGAATCAAGCAAAATGGTGAT
Found at i:5087076 original size:19 final size:18
Alignment explanation
Indices: 5087052--5087106 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
5087042 AAAAATACAT
5087052 ATAAAATTAAGTTCTTTTA
1 ATAAAATTAAGTT-TTTTA
* *
5087071 ATAAAA-TAAATTTTTAA
1 ATAAAATTAAGTTTTTTA
*
5087088 ATAAAATTGAGTTTTTTA
1 ATAAAATTAAGTTTTTTA
5087106 A
1 A
5087107 AATAAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 10 0.33
18 14 0.47
19 6 0.20
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (18 bp):
ATAAAATTAAGTTTTTTA
Found at i:5087107 original size:19 final size:18
Alignment explanation
Indices: 5087052--5087114 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
5087042 AAAAATACAT
5087052 ATAAAATTAAGTTCTTTT-A
1 ATAAAATT-AGTT-TTTTAA
**
5087071 ATAAAA-TAAATTTTTAA
1 ATAAAATTAGTTTTTTAA
5087088 ATAAAATTGAGTTTTTTAAA
1 ATAAAATT-AGTTTTTT-AA
5087108 ATAAAAT
1 ATAAAAT
5087115 ATATGAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 4 0.11
17 9 0.25
18 2 0.06
19 12 0.33
20 9 0.25
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
ATAAAATTAGTTTTTTAA
Found at i:5088327 original size:6 final size:6
Alignment explanation
Indices: 5088316--5088347 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5088306 TTGTTTCAAC
5088316 CATTTT CATTTT CATTTT CATTTT CATTTT CA
1 CATTTT CATTTT CATTTT CATTTT CATTTT CA
5088348 GATGTCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (6 bp):
CATTTT
Found at i:5095771 original size:2 final size:2
Alignment explanation
Indices: 5095766--5095801 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
5095756 TAAATTAAAA
*
5095766 AT AT AT AT AT A- AT AT TT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5095802 AAATAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5103418 original size:7 final size:7
Alignment explanation
Indices: 5103403--5103432 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5103393 CTTTGTAATG
5103403 AACCCTA
1 AACCCTA
*
5103410 AATCCTA
1 AACCCTA
5103417 AACCCTA
1 AACCCTA
5103424 AACCCTA
1 AACCCTA
5103431 AA
1 AA
5103433 TATTAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCTA
Found at i:5103429 original size:21 final size:21
Alignment explanation
Indices: 5103403--5103456 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
5103393 CTTTGTAATG
*
5103403 AACCCTAAATCCTAAACCCTA
1 AACCCTAAATCCTAAACACTA
** *
5103424 AACCCTAAATATTAAACATTA
1 AACCCTAAATCCTAAACACTA
5103445 AACCCTAAATCC
1 AACCCTAAATCC
5103457 GATTATGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTAAATCCTAAACACTA
Found at i:5104446 original size:34 final size:33
Alignment explanation
Indices: 5104408--5104472 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 33
5104398 GTCCCCGTCC
*
5104408 CCGTCCCTGTTTAACATAAACGGTTTTTCCCCAT
1 CCGTCCCCGTTTAACATAAACGG-TTTTCCCCAT
5104442 CCGTCCCCGTTTAACATAAACGGTTTTCCCC
1 CCGTCCCCGTTTAACATAAACGGTTTTCCCC
5104473 GTCCTGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 8 0.27
34 22 0.73
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.32
Consensus pattern (33 bp):
CCGTCCCCGTTTAACATAAACGGTTTTCCCCAT
Found at i:5107057 original size:17 final size:17
Alignment explanation
Indices: 5107035--5107067 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5107025 TTTGAGTTTG
5107035 AGTTCGAGCTTGAATCA
1 AGTTCGAGCTTGAATCA
5107052 AGTTCGAGCTTGAATC
1 AGTTCGAGCTTGAATC
5107068 GAGCTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (17 bp):
AGTTCGAGCTTGAATCA
Found at i:5107197 original size:29 final size:28
Alignment explanation
Indices: 5107146--5107201 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
5107136 GTTCGAGCCT
*
5107146 TTTCGAGTTCGAGTCGAGTTTCAATAATA
1 TTTCGAGTTCGAGTCGAGCTTC-ATAATA
5107175 TTTCGAGTTCGAG-CTGAGCTTCATAAT
1 TTTCGAGTTCGAGTC-GAGCTTCATAAT
5107202 TTTTAGCTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (28 bp):
TTTCGAGTTCGAGTCGAGCTTCATAATA
Found at i:5109917 original size:13 final size:13
Alignment explanation
Indices: 5109887--5109928 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
5109877 TGGTATTGAT
*
5109887 GAGGAAAATGATA
1 GAGGAAAATGAGA
5109900 GAGGAGAAATGAGA
1 GAGGA-AAATGAGA
5109914 -AGGAAAAATGAGA
1 GAGG-AAAATGAGA
5109927 GA
1 GA
5109929 ATATAGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.36, T:0.10
Consensus pattern (13 bp):
GAGGAAAATGAGA
Found at i:5120250 original size:41 final size:40
Alignment explanation
Indices: 5120185--5120270 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 40
5120175 ATAAACCACA
5120185 TATTGTGGCTTTTAGGTATAAACGCCGCT-AATTTACCACTC
1 TATTGTGGCTTTTAGGTATAAACGCCGCTGAA-TTA-CACTC
5120226 TATTGTGGCATTTGT-GGTAT-AACGCCGCTGAATTACACTC
1 TATTGTGGC-TTT-TAGGTATAAACGCCGCTGAATTACACTC
5120266 TATTG
1 TATTG
5120271 CGTTTGGCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
40 10 0.24
41 21 0.50
42 10 0.24
43 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (40 bp):
TATTGTGGCTTTTAGGTATAAACGCCGCTGAATTACACTC
Found at i:5120498 original size:41 final size:41
Alignment explanation
Indices: 5120446--5120533 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
5120436 GGTATAAACG
* * * *
5120446 CTAATTTACCACTCTATTACGGCGTTTGTGG-TACAACGCTA
1 CTAAATTACCACTCTATTACGACATTTG-GGCTAAAACGCTA
*
5120487 CTAAATTACCACTCTATTACGACATTTGGGCTAAAACGCTG
1 CTAAATTACCACTCTATTACGACATTTGGGCTAAAACGCTA
5120528 CTAAAT
1 CTAAAT
5120534 GTCTACTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 2 0.05
41 39 0.95
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (41 bp):
CTAAATTACCACTCTATTACGACATTTGGGCTAAAACGCTA
Found at i:5120580 original size:240 final size:236
Alignment explanation
Indices: 5120120--5120690 Score: 703
Period size: 240 Copynumber: 2.4 Consensus size: 236
5120110 TATTATGGTG
* *
5120120 TTTGTCAAAAAACG-CGCTAAAGTATTCTTCAT--TACGTTTGTTGGAAAAAAGCCA-TATAAAC
1 TTTGTCAAAAAACGACGCAAAAGTATTCTTCATGCGACGTTTGTTGG-AAAAAGCCACTATAAAC
* * **
5120181 CA-CATATTGTGGC-TTTTAGGTATAAACGCCGCTAATTTACCACTCTATTGTGGCATTTGTGGT
65 CACCCTATTATGGCATTTTAGGTATAAA---CGCTAATTTACCACTCTATTACGGCATTTGTGGT
* * * * *
5120244 ATAACGCCGCTGAATTACACTCTATTGCGTTTGGCTAAAACGCCCTAAATGTCTACTCTATTACG
127 ACAACGCCACTAAATTACACTCTATTGCATTTGGCTAAAACGCCCTAAATGTCTACTATATTACG
* *
5120309 TCATTTTTACTATAAATGCCGCTATTGATTAACCCTTTTGTGGA-A
192 GCATTTTTACTATAAATGCCGCTATTGATTAACCCTTATGT-GACA
* *
5120354 TTTGTCTAAAAACGACACAAAAGTATTCTTCATGCGACG-TTGTTGG-AAAAGCCACTATAAACC
1 TTTGTCAAAAAACGACGCAAAAGTATTCTTCATGCGACGTTTGTTGGAAAAAGCCACTATAAACC
*
5120417 ACCCTATTATGGCATTTTAGGTATAAACGCTAATTTACCACTCTATTACGGCGTTTGTGGTACAA
66 ACCCTATTATGGCATTTTAGGTATAAACGCTAATTTACCACTCTATTACGGCATTTGTGGTACAA
* * *
5120482 CGCTACTAAATTACCACTCTATTACGACATTTGGGCTAAAACGCTGCTAAATGTCTACTATATTG
131 CGCCACTAAATTA-CACTCTATT--G-CATTT-GGCTAAAACGC-CCTAAATGTCTACTATATTA
*
5120547 CGGCATTTTTACTATAAATGCCGCTATTGATTAACCCTTATGTGACG
190 CGGCATTTTTACTATAAATGCCGCTATTGATTAACCCTTATGTGACA
* * *
5120594 TTTGTCAAAAAATGACGCAAAAGTGTTCTTTATTGCGACGTTTGTTGGAAAAACGCC-CTTATAA
1 TTTGTCAAAAAACGACGCAAAAGTATTCTTCA-TGCGACGTTTGTTGGAAAAA-GCCAC-TATAA
* * * *
5120658 ACCACCCTATTACGACATTTTTGGTAAAAACGC
63 ACCACCCTATTATGGCATTTTAGGTATAAACGC
5120691 CGCTATATTT
Statistics
Matches: 290, Mismatches: 29, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
234 65 0.22
235 34 0.12
236 16 0.06
237 17 0.06
238 4 0.01
239 13 0.04
240 85 0.29
241 7 0.02
242 7 0.02
243 5 0.02
244 37 0.13
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (236 bp):
TTTGTCAAAAAACGACGCAAAAGTATTCTTCATGCGACGTTTGTTGGAAAAAGCCACTATAAACC
ACCCTATTATGGCATTTTAGGTATAAACGCTAATTTACCACTCTATTACGGCATTTGTGGTACAA
CGCCACTAAATTACACTCTATTGCATTTGGCTAAAACGCCCTAAATGTCTACTATATTACGGCAT
TTTTACTATAAATGCCGCTATTGATTAACCCTTATGTGACA
Found at i:5121694 original size:23 final size:23
Alignment explanation
Indices: 5121645--5121688 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5121635 AAGCACAAAT
5121645 TATGTGGATTATACGCATGCTAC
1 TATGTGGATTATACGCATGCTAC
*
5121668 TATGTTGGA-TATACTCATGCT
1 TATG-TGGATTATACGCATGCT
5121689 CATATGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (23 bp):
TATGTGGATTATACGCATGCTAC
Found at i:5126859 original size:30 final size:27
Alignment explanation
Indices: 5126802--5126859 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 27
5126792 TTCAAAGTAT
**
5126802 TATTATTTTATATATTTAATATGAATA
1 TATTATTTTATATATTTAATAAAAATA
5126829 TATTATTTTAATATCATTTTAATAAAAATA
1 TATTATTTT-ATAT-A-TTTAATAAAAATA
5126859 T
1 T
5126860 TAATTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.35
28 4 0.15
29 1 0.04
30 12 0.46
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TATTATTTTATATATTTAATAAAAATA
Found at i:5126860 original size:28 final size:26
Alignment explanation
Indices: 5126802--5126861 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
5126792 TTCAAAGTAT
*
5126802 TATTATTTTATATATTTAATATGAATA
1 TATTATTTTATATATTTAATA-GAAAA
5126829 TATTATTTTAATATCATTTTAATA-AAAA
1 TATTATTTT-ATAT-A-TTTAATAGAAAA
5126857 TATTA
1 TATTA
5126862 ATTATTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.31
28 12 0.41
29 1 0.03
30 7 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
TATTATTTTATATATTTAATAGAAAA
Found at i:5132459 original size:16 final size:16
Alignment explanation
Indices: 5132421--5132459 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5132411 TTGGTTTTTT
5132421 AGATCGGGTCAATATC
1 AGATCGGGTCAATATC
* * *
5132437 GGGTCGGGTCATTATC
1 AGATCGGGTCAATATC
5132453 AGATCGG
1 AGATCGG
5132460 TTGATTTTTG
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (16 bp):
AGATCGGGTCAATATC
Found at i:5132538 original size:32 final size:32
Alignment explanation
Indices: 5132443--5132545 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
5132433 TATCGGGTCG
* * * **
5132443 GGTCATTATCAGATCGGTTGATTTTTGGGTCG
1 GGTCAATATCAGATCAGTTGATTTTTAGGTTT
* *
5132475 GGTTAATA-CTAGATCAGTTAGA-TTTCAGGTTT
1 GGTCAATATC-AGATCAGTT-GATTTTTAGGTTT
*
5132507 GGTCAATATCAGATCAGTTGATTTTTTGGTTT
1 GGTCAATATCAGATCAGTTGATTTTTAGGTTT
5132539 AGGTCAA
1 -GGTCAA
5132546 CCTTTAGGTC
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
31 3 0.05
32 44 0.79
33 9 0.16
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.41
Consensus pattern (32 bp):
GGTCAATATCAGATCAGTTGATTTTTAGGTTT
Found at i:5132802 original size:30 final size:30
Alignment explanation
Indices: 5132768--5132824 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
5132758 ATAATACATG
5132768 TTAGAATTTGTTATCAAAATTTTATATGTT
1 TTAGAATTTGTTATCAAAATTTTATATGTT
*
5132798 TTAGAATTTGTTATCAAATTTTTATAT
1 TTAGAATTTGTTATCAAAATTTTATAT
5132825 TAATCTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (30 bp):
TTAGAATTTGTTATCAAAATTTTATATGTT
Found at i:5132902 original size:14 final size:13
Alignment explanation
Indices: 5132872--5132896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5132862 ATAAATAAAT
5132872 AATTTTTTATTAA
1 AATTTTTTATTAA
5132885 AATTTTTTATTA
1 AATTTTTTATTA
5132897 CCAATTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTTTTATTAA
Found at i:5133245 original size:19 final size:19
Alignment explanation
Indices: 5133198--5133246 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
5133188 TATCAATTTT
*
5133198 ATTTAAATT-AA-TTTATT
1 ATTTAAATTAAATTTTATC
* *
5133215 ATTCAAAATAAATTTTATC
1 ATTTAAATTAAATTTTATC
5133234 ATTTAAATTAAAT
1 ATTTAAATTAAAT
5133247 AAACTTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 16 0.64
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAAATTAAATTTTATC
Found at i:5133800 original size:22 final size:20
Alignment explanation
Indices: 5133754--5133801 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
5133744 GTTACAATCG
5133754 TTATTATTATTCTAAAATTA
1 TTATTATTATTCTAAAATTA
*
5133774 ATATTATT-TTCTACTATAATTA
1 TTATTATTATTCTA--A-AATTA
5133796 TTATTA
1 TTATTA
5133802 AAAAATTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 1 0.04
22 10 0.43
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTATTATTCTAAAATTA
Found at i:5136455 original size:14 final size:14
Alignment explanation
Indices: 5136436--5136465 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5136426 TTGATCTTTG
5136436 AAGTTTTATTAAGA
1 AAGTTTTATTAAGA
*
5136450 AAGTTTTATTGAGA
1 AAGTTTTATTAAGA
5136464 AA
1 AA
5136466 CTCAATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (14 bp):
AAGTTTTATTAAGA
Found at i:5142597 original size:28 final size:27
Alignment explanation
Indices: 5142547--5142619 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
5142537 TTATATATAT
5142547 ATATATATATATATATATATTTAT-TAAC
1 ATATATATATATATAT-TATTTATCT-AC
* *
5142575 ATATATATGTATATATTGCTTTATCTAC
1 ATATATATATATATATT-ATTTATCTAC
*
5142603 TTATATATATATATATT
1 ATATATATATATATATT
5142620 TGTTTCCACA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 37 0.95
29 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (27 bp):
ATATATATATATATATTATTTATCTAC
Found at i:5142609 original size:2 final size:2
Alignment explanation
Indices: 5142538--5142590 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
5142528 TTTCACTAAT
* *
5142538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA T- TA -A CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5142578 TA TA TG TA TA TA T
1 TA TA TA TA TA TA T
5142591 TGCTTTATCT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5146518 original size:23 final size:23
Alignment explanation
Indices: 5146474--5146519 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
5146464 ATGGAGTACA
*
5146474 AAAGTGTTCTTTGAAACTAAAAG
1 AAAGTGTTCTTTGAAACAAAAAG
*
5146497 AAAGTGTTCTTTGAAAGAAAAAG
1 AAAGTGTTCTTTGAAACAAAAAG
5146520 TAATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (23 bp):
AAAGTGTTCTTTGAAACAAAAAG
Found at i:5154794 original size:20 final size:20
Alignment explanation
Indices: 5154769--5154817 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
5154759 AAGTGTCTTT
*
5154769 TGAAGTTTTGAAACTCTGCC
1 TGAAGTTTTGAAACTATGCC
* *
5154789 TGAAGTTTCGAAACTATGCT
1 TGAAGTTTTGAAACTATGCC
*
5154809 TAAAGTTTT
1 TGAAGTTTT
5154818 CTAACTCCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (20 bp):
TGAAGTTTTGAAACTATGCC
Found at i:5156535 original size:42 final size:43
Alignment explanation
Indices: 5156482--5156568 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 43
5156472 ATTTAGGATC
* *
5156482 TTTGGAATTTTT-GGATATTTTTTCATTTAGATGTTTTGGTTAT
1 TTTGGAATTTTTAGGA-ATTCTTACATTTAGATGTTTTGGTTAT
* * *
5156525 TTTGG-ATTTTTAGGACTTCTTACTTTTGGATGTTTTGGTTAT
1 TTTGGAATTTTTAGGAATTCTTACATTTAGATGTTTTGGTTAT
5156567 TT
1 TT
5156569 CAGGTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 30 0.79
43 8 0.21
ACGTcount: A:0.16, C:0.05, G:0.20, T:0.60
Consensus pattern (43 bp):
TTTGGAATTTTTAGGAATTCTTACATTTAGATGTTTTGGTTAT
Found at i:5157970 original size:20 final size:20
Alignment explanation
Indices: 5157897--5157970 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
5157887 GTGGACTTTG
*
5157897 GAGTTTCGAAACTTTACA-AA
1 GAGTTTTGAAACTTT-CATAA
* *
5157917 -CGTTTTTAAACTTTCATAA
1 GAGTTTTGAAACTTTCATAA
* *
5157936 GAGTTTTGGAGCTTTC-TATA
1 GAGTTTTGAAACTTTCATA-A
*
5157956 TAGTTTTGAAACTTT
1 GAGTTTTGAAACTTT
5157971 GGGTTCTAAC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
18 2 0.05
19 15 0.37
20 24 0.59
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (20 bp):
GAGTTTTGAAACTTTCATAA
Found at i:5170322 original size:21 final size:19
Alignment explanation
Indices: 5170284--5170329 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
5170274 AATTAATCCT
5170284 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
5170304 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
5170325 A-TAAT
1 ACTAAT
5170330 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:5173428 original size:63 final size:63
Alignment explanation
Indices: 5173293--5173434 Score: 144
Period size: 63 Copynumber: 2.3 Consensus size: 63
5173283 TAAAGGTTGT
* * *
5173293 TATCAATATCGGATGGACTAGTATTAATATCGGATAAACTGATATCCATACCGAATAGACTGG
1 TATCAATACCGGATGAACTAGTATTAATATCGAATAAACTGATATCCATACCGAATAGACTGG
* * * * * * *
5173356 CATCCATACCGGATGAACTAGTATCT-ATATCGAATGAACTGGTATTCATACTGGAT-GAACTGG
1 TATCAATACCGGATGAACTAGTAT-TAATATCGAATAAACTGATATCCATACCGAATAG-ACTGG
* *
5173419 TATCTATACCAGATGA
1 TATCAATACCGGATGA
5173435 GTTGGTATCA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
62 1 0.02
63 62 0.97
64 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (63 bp):
TATCAATACCGGATGAACTAGTATTAATATCGAATAAACTGATATCCATACCGAATAGACTGG
Found at i:5173441 original size:42 final size:41
Alignment explanation
Indices: 5173324--5173469 Score: 134
Period size: 42 Copynumber: 3.5 Consensus size: 41
5173314 TATTAATATC
* * * * *
5173324 GGATAAACTGATATCCATACCGAAT-AGACTGGCATCCATACC
1 GGATGAACTGGTATCTATACCGAATGA-ACTGGTAT-CATACA
* * *
5173366 GGATGAACTAGTATCTATATCGAATGAACTGGTATTCATACT
1 GGATGAACTGGTATCTATACCGAATGAACTGGTA-TCATACA
**
5173408 GGATGAACTGGTATCTATACC-AGATGAGTTGGTATCAATACA
1 GGATGAACTGGTATCTATACCGA-ATGAACTGGTATC-ATACA
*
5173450 AGATGAACTGGTATCTATAC
1 GGATGAACTGGTATCTATAC
5173470 AGAAGATTGG
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.03
42 82 0.94
43 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (41 bp):
GGATGAACTGGTATCTATACCGAATGAACTGGTATCATACA
Found at i:5173470 original size:21 final size:21
Alignment explanation
Indices: 5173367--5173470 Score: 104
Period size: 21 Copynumber: 5.0 Consensus size: 21
5173357 ATCCATACCG
* *
5173367 GATGAACTAGTATCTATATCGA
1 GATGAACTGGTATCTATA-CAA
**
5173389 -ATGAACTGGTAT-TCATACTG
1 GATGAACTGGTATCT-ATACAA
*
5173409 GATGAACTGGTATCTATACCA
1 GATGAACTGGTATCTATACAA
** *
5173430 GATGAGTTGGTATCAATACAA
1 GATGAACTGGTATCTATACAA
5173451 GATGAACTGGTATCTATACA
1 GATGAACTGGTATCTATACA
5173471 GAAGATTGGG
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.03
21 64 0.96
22 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (21 bp):
GATGAACTGGTATCTATACAA
Found at i:5173916 original size:18 final size:18
Alignment explanation
Indices: 5173893--5173927 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5173883 TAGCCATATT
*
5173893 TGGTATCGGTACCCTAGA
1 TGGTATCGATACCCTAGA
5173911 TGGTATCGATACCCTAG
1 TGGTATCGATACCCTAG
5173928 TAGATAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (18 bp):
TGGTATCGATACCCTAGA
Found at i:5173962 original size:21 final size:23
Alignment explanation
Indices: 5173913--5173971 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
5173903 ACCCTAGATG
* *
5173913 GTATCGATACCCT-AGTAGATAA
1 GTATCGATACTCTAAGTAGACAA
5173935 GTATCGATACTCTAAGTAG-CAA
1 GTATCGATACTCTAAGTAGACAA
5173957 -TATCGATACTCTAAG
1 GTATCGATACTCTAAG
5173972 GCCTTCTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 15 0.44
22 14 0.41
23 5 0.15
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (23 bp):
GTATCGATACTCTAAGTAGACAA
Found at i:5175818 original size:467 final size:472
Alignment explanation
Indices: 5174941--5175881 Score: 1797
Period size: 467 Copynumber: 2.0 Consensus size: 472
5174931 CAGACCATTA
5174941 TGGCAATAGATGTACCTCTTAATAAAGGCTTAGTAGCATTGATGGCATAGTAGTATTATTTCTAT
1 TGGCAATAGATGTACCTCTTAATAAAGGCTTAGTAGCATTGATGGCATAGTAGTATTATTTCTAT
5175006 AATTGTACTTTTTAGCACACTCATTTTATGAATTGATGTAATATAGTAGAGGTATTGTGTGGCGC
66 AATTGTACTTTTTAG-ACACTCATTTTATGAATTGATGTAATATAGTAGAGGTATTGTGTGGCGC
5175071 AGGGTTTGCAAGCTCATCGTTCACAATATGTTTTCGTTCGTAGGTTTCAAGTTCTGTGAAGTGCT
130 AGGGTTTGCAAGCTCATCGTTCACAATATGTTTTCGTTCGTAGGTTTCAAGTTCTGTGAAGTGCT
5175136 ATAGGGCAACTATCTCATTGAAAAAGTCTCGACAGAGTACCAGAGTACAATGATGATGACTCAGT
195 ATAGGGCAACTATCTCATTGAAAAAGTCTCGACAGAGTACCAGAGTACAATGATGATGACTCAGT
5175201 AGGTATGTAGAGGTCATGATTGAAATGAGTTAACTTGTAACGTTTTAATTATTTATTATTTACTG
260 AGGTATGTAGAGGTCATGATTGAAATGAGTTAACTTGTAACGTTTTAATTATTTATTATTTACTG
5175266 TGTTTTTAAATTGGGGTATGCTTTTGTAAATGATTATGGTTTTCATACTTTATGTAAATGTTTTT
325 TGTTTTTAAATTGGGGTATGCTTTTGTAAATGATTATGGTTTTCATACTTTATGTAAATGTTTTT
5175331 TAAAGTAAGTATGTTTTCAGCCCT-AAAAACGAGAATCGTTAGTCA-TTC-GTGATTTCC-TGTG
390 TAAAGTAAGTATGTTTTCAG-CCTAAAAAACGAGAATCGTTAGTCATTTCGGTGA-TTCCTTGTG
5175392 ATGCTTAAATCCTCGGGATT
453 ATGCTTAAATCCTCGGGATT
5175412 TGGCAATAGATGTACCTCTTAATAAAGGCTTAGTAGCATTGATGGCATAGTAGTATTATTTCTAT
1 TGGCAATAGATGTACCTCTTAATAAAGGCTTAGTAGCATTGATGGCATAGTAGTATTATTTCTAT
5175477 AATTGTACTTTTTAG-CACTCATTTTATGAATTGATGT-A-ATAGTAGAGGTATTGTGTGGCGCA
66 AATTGTACTTTTTAGACACTCATTTTATGAATTGATGTAATATAGTAGAGGTATTGTGTGGCGCA
5175539 GGGTTTGCAAGCTCATCGTTCACAATATGTTTTCGTTCGTAGGTTTCAAGTTCTGTGAAGTGCTA
131 GGGTTTGCAAGCTCATCGTTCACAATATGTTTTCGTTCGTAGGTTTCAAGTTCTGTGAAGTGCTA
*
5175604 TAGGGCAACTATCTCATTGAAAAAGTCTCGACAGAGTACTAGAGTACAATGATGATGACTCAGTA
196 TAGGGCAACTATCTCATTGAAAAAGTCTCGACAGAGTACCAGAGTACAATGATGATGACTCAGTA
5175669 GGTATGTAGAGGTCATGATTGAAATGAGTTAACTTGTAACGTTTTAATTATTTATTATTTACTGT
261 GGTATGTAGAGGTCATGATTGAAATGAGTTAACTTGTAACGTTTTAATTATTTATTATTTACTGT
5175734 GTTTTTAAATTGGGGTATGCTTTTGTAAATGATTATGGTTTTCATACTTTATGTAAATGTTTTTT
326 GTTTTTAAATTGGGGTATGCTTTTGTAAATGATTATGGTTTTCATACTTTATGTAAATGTTTTTT
5175799 AAAGTAAGTATGTTTTCAGCCTAAAAAACGAGAATCGTTAGTCATTTCGGTGATTCCTTGTGATG
391 AAAGTAAGTATGTTTTCAGCCTAAAAAACGAGAATCGTTAGTCATTTCGGTGATTCCTTGTGATG
5175864 CTTAAATCCTCGGGATT
456 CTTAAATCCTCGGGATT
5175881 T
1 T
5175882 AAGTATTACA
Statistics
Matches: 465, Mismatches: 1, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
466 3 0.01
467 323 0.69
468 8 0.02
469 51 0.11
471 80 0.17
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (472 bp):
TGGCAATAGATGTACCTCTTAATAAAGGCTTAGTAGCATTGATGGCATAGTAGTATTATTTCTAT
AATTGTACTTTTTAGACACTCATTTTATGAATTGATGTAATATAGTAGAGGTATTGTGTGGCGCA
GGGTTTGCAAGCTCATCGTTCACAATATGTTTTCGTTCGTAGGTTTCAAGTTCTGTGAAGTGCTA
TAGGGCAACTATCTCATTGAAAAAGTCTCGACAGAGTACCAGAGTACAATGATGATGACTCAGTA
GGTATGTAGAGGTCATGATTGAAATGAGTTAACTTGTAACGTTTTAATTATTTATTATTTACTGT
GTTTTTAAATTGGGGTATGCTTTTGTAAATGATTATGGTTTTCATACTTTATGTAAATGTTTTTT
AAAGTAAGTATGTTTTCAGCCTAAAAAACGAGAATCGTTAGTCATTTCGGTGATTCCTTGTGATG
CTTAAATCCTCGGGATT
Found at i:5175993 original size:23 final size:23
Alignment explanation
Indices: 5175948--5176021 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
5175938 CTCACCCCTA
* *
5175948 TATTAAATGAATAAAATATTATTAT
1 TATT-AATGAAT-TAATAATATTAT
5175973 TATTAATG-ATTCAATAATATTAT
1 TATTAATGAATT-AATAATATTAT
*
5175996 T-TTTATGAAATTAATAAATATTAT
1 TATTAATG-AATTAAT-AATATTAT
5176020 TA
1 TA
5176022 ATTTAACTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
22 5 0.12
23 16 0.39
24 16 0.39
25 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (23 bp):
TATTAATGAATTAATAATATTAT
Found at i:5176020 original size:24 final size:24
Alignment explanation
Indices: 5175952--5176021 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
5175942 CCCCTATATT
* *
5175952 AAATGAATAAAATATTATTATTATT
1 AAATTAAT-AAATATTATTATTATG
*
5175977 AATGATTCAAT-AATATTATTTTTATG
1 AA--ATT-AATAAATATTATTATTATG
5176003 AAATTAATAAATATTATTA
1 AAATTAATAAATATTATTA
5176022 ATTTAACTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
23 3 0.08
24 12 0.32
25 2 0.05
26 15 0.41
27 2 0.05
28 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (24 bp):
AAATTAATAAATATTATTATTATG
Found at i:5176120 original size:22 final size:22
Alignment explanation
Indices: 5176070--5176145 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
5176060 ATATAATGTC
* *
5176070 ATATACTATTATAATA-TAATTGA
1 ATATAATATTATAATATTAA--AA
*
5176093 ATATAATATTATAATATTCAAA
1 ATATAATATTATAATATTAAAA
* *
5176115 ATATAACATTATATTATTAAAA
1 ATATAATATTATAATATTAAAA
5176137 ATATTAATA
1 ATA-TAATA
5176146 AATATATTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 23 0.52
23 19 0.43
24 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (22 bp):
ATATAATATTATAATATTAAAA
Found at i:5177555 original size:13 final size:13
Alignment explanation
Indices: 5177537--5177561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5177527 AAATTTAAAA
5177537 AATTCATAAACAC
1 AATTCATAAACAC
5177550 AATTCATAAACA
1 AATTCATAAACA
5177562 AAAATAAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AATTCATAAACAC
Found at i:5178016 original size:2 final size:2
Alignment explanation
Indices: 5178011--5178036 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5178001 TTTTATGTCC
5178011 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
5178037 TAAAACTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5179087 original size:36 final size:36
Alignment explanation
Indices: 5179014--5179322 Score: 328
Period size: 37 Copynumber: 8.6 Consensus size: 36
5179004 ATATATTTCG
5179014 AATATAT-ATATTATAG-TTTT-AAAA-A-TTTTAAA
1 AATATATAATA-TATAGTTTTTGAAAACATTTTTAAA
* **
5179046 GAATATATGATATATAGTTTTTGAAAATGTTTTTGAAA
1 -AATATATAATATATAGTTTTTGAAAACATTTTT-AAA
* *
5179084 ATATATATAATATATAATTTTTTAAAAC-TTTTT-AA
1 A-ATATATAATATATAGTTTTTGAAAACATTTTTAAA
*
5179119 AATATATAATATATAGTTTTTGAAAACGTTTTTAAAA
1 AATATATAATATATAGTTTTTGAAAACATTTTT-AAA
* * * *
5179156 AACATATATTATATAATTTTTAAAAACATTTTTAAA
1 AATATATAATATATAGTTTTTGAAAACATTTTTAAA
* *
5179192 ATATATATAATATATAATTTTTGAAAACATTTTAAAA
1 A-ATATATAATATATAGTTTTTGAAAACATTTTTAAA
* *
5179229 AATATATATTATATAGTTTTTTAAAACATTTTTAAA
1 AATATATAATATATAGTTTTTGAAAACATTTTTAAA
* * *
5179265 AACATATATTATATAG-TTTTCAAAACATTTTTGAAA
1 AATATATAATATATAGTTTTTGAAAACATTTTT-AAA
*
5179301 GCATATATAATATATAGTTTTT
1 -AATATATAATATATAGTTTTT
5179323 TTAAAATATT
Statistics
Matches: 237, Mismatches: 25, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
33 12 0.05
34 31 0.13
35 27 0.11
36 53 0.22
37 85 0.36
38 29 0.12
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (36 bp):
AATATATAATATATAGTTTTTGAAAACATTTTTAAA
Found at i:5179105 original size:27 final size:27
Alignment explanation
Indices: 5179075--5179128 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
5179065 TTTGAAAATG
* *
5179075 TTTTTGAAAA-TATATATAATATATAA
1 TTTTTTAAAACTATATAAAATATATAA
* *
5179101 TTTTTTAAAACTTTTTAAAATATATAA
1 TTTTTTAAAACTATATAAAATATATAA
5179128 T
1 T
5179129 ATATAGTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTTTTAAAACTATATAAAATATATAA
Found at i:5179108 original size:73 final size:72
Alignment explanation
Indices: 5179030--5179334 Score: 348
Period size: 73 Copynumber: 4.2 Consensus size: 72
5179020 TATATTATAG
* * *
5179030 TTTTAAAA-ATTTTAAAGAATATATGATATATAGTTTTTGAAAATGTTTTTGAAAATATATATAA
1 TTTTAAAACATTTTAAA-AATATATAATATATAGTTTTTGAAAACGTTTTT-AAAAAATATATAA
5179094 TATATAATT
64 TATATAATT
* * *
5179103 TTTTAAAAC-TTTTTAAAATATATAATATATAGTTTTTGAAAACGTTTTTAAAAAACATATATTA
1 TTTTAAAACATTTTAAAAATATATAATATATAGTTTTTGAAAACGTTTTTAAAAAATATATAATA
5179167 TATAATT
66 TATAATT
* * * *
5179174 TTTAAAAACATTTTTAAAATATATATAATATATAATTTTTGAAAAC-ATTTTAAAAAATATATAT
1 TTTTAAAACA-TTTTAAAA-ATATATAATATATAGTTTTTGAAAACGTTTTTAAAAAATATATAA
*
5179238 TATATAGTT
64 TATATAATT
* * * * **
5179247 TTTTAAAACATTTTTAAAAACATATATTATATAG-TTTTCAAAACATTTTTGAAAGCATATATAA
1 TTTTAAAACA-TTTTAAAAATATATAATATATAGTTTTTGAAAACGTTTTT-AAAAAATATATAA
*
5179311 TATATAGTTT
64 TATATA-ATT
*
5179321 TTTTAAAATATTTT
1 TTTTAAAACATTTT
5179335 TTTGGAAAAC
Statistics
Matches: 202, Mismatches: 23, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
71 36 0.18
72 47 0.23
73 83 0.41
74 36 0.18
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (72 bp):
TTTTAAAACATTTTAAAAATATATAATATATAGTTTTTGAAAACGTTTTTAAAAAATATATAATA
TATAATT
Found at i:5179401 original size:23 final size:23
Alignment explanation
Indices: 5179375--5179459 Score: 108
Period size: 23 Copynumber: 3.8 Consensus size: 23
5179365 GAAAATAAAT
*
5179375 TTATT-TTATTATTTATTCTATTT
1 TTATTATTATTATTTATT-TATTA
5179398 TTATCTA-T-TTA-TTA-TTATTA
1 TTAT-TATTATTATTTATTTATTA
5179418 TTATTATTATTATTTATTTATTA
1 TTATTATTATTATTTATTTATTA
5179441 TTATTATTATTATTTATTT
1 TTATTATTATTATTTATTT
5179460 CTGTATTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
19 2 0.04
20 9 0.16
21 4 0.07
22 6 0.11
23 32 0.58
24 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTATTATTATTATTTATTTATTA
Found at i:5179414 original size:3 final size:3
Alignment explanation
Indices: 5179375--5179454 Score: 83
Period size: 3 Copynumber: 25.7 Consensus size: 3
5179365 GAAAATAAAT
* *
5179375 TTA TT- TTA TTA TTTA TT- CTA TTT TTA TCTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA
5179421 TTA TTA TTA TTTA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TT
5179455 TATTTCTGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.04
3 49 0.73
4 14 0.21
5 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:5179425 original size:29 final size:29
Alignment explanation
Indices: 5179374--5179458 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 29
5179364 AGAAAATAAA
* *
5179374 TTTATT-TTATTATTTATTCTATTTTTATCTA
1 TTTATTATTATTA-TTATT-T-TTATTATTTA
*
5179405 TTTATTATTATTATTATTATTATTATTTA
1 TTTATTATTATTATTATTTTTATTATTTA
5179434 TTTATTATTATTATTATTATTTATT
1 TTTATTATTATTATTATT-TTTATT
5179459 TCTGTATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 26 0.54
30 5 0.10
31 11 0.23
32 6 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (29 bp):
TTTATTATTATTATTATTTTTATTATTTA
Found at i:5181198 original size:84 final size:84
Alignment explanation
Indices: 5181048--5181968 Score: 784
Period size: 84 Copynumber: 11.1 Consensus size: 84
5181038 GCTTAAGTCG
* ** * * * * * * *
5181048 AGAAGGGCTATCAACCAACAAAATACCTTCAAGTTTGACTACGCTCAGCTCTAAGGTACATTATT
1 AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
5181113 TGCAGTAT-GAATCAAGGCT
66 TGCAGCATAG-ATCAAGGCT
* * * * *
5181132 AGAAGGGTTATCTTCCAACCAAATACGTTTGAGTTCGACTACGTTCAGCTCCAAGTCACATCATT
1 AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
5181197 TGCAGCATAGTTCAAGGCT
66 TGCAGCATAGATCAAGGCT
* * *
5181216 AGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCTACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
5181281 TGAAGCATA-ACTCAAGGCT
66 TGCAGCATAGA-TCAAGGCT
* * *
5181300 AGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * ***
5181365 TGTAGTATAGCTCAAAAAT
66 TGCAGCATAGATCAAGGCT
* * * * * * * * * *
5181384 AGAAGGGCTATC-T---GCCAAAGACCCTCAAGTTTGATTACACTTAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCAT
**
5181445 TTATAGCATA-ACTCAAGGCT
65 TTGCAGCATAGA-TCAAGGCT
* * * *
5181465 AGAAGGGTTATCTAT-CAA-CAAAGACCTTCGATTTTGACTATGCTCAGCTCAAAGGCACATCAT
1 AGAAGGGTTATCT-TCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * * *
5181528 TTGCAGCATAGCTTAAGTCG
65 TTGCAGCATAGATCAAGGCT
* * * *
5181548 AGAAGGGTTAT-TTGCCTACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCCAGACACATCAT
1 AGAAGGGTTATCTT-CCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
*
5181612 TTGCAACATA-ACTCAAGGCT
65 TTGCAGCATAGA-TCAAGGCT
* * * * * **
5181632 AGAAGAGTTATATGCCAACCAAATACCTTCGAGTACGACTACGCTCAGCTCCAAGGCTTATCATT
1 AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
5181697 TGTAGCATAGCTCAAGGCT
66 TGCAGCATAGATCAAGGCT
* * * * * *
5181716 AGAAGGGTTATCTACC-ACCAAAAGTCCTTCGAGTTTGACTACGCTTAGCTTCGAGGGCACATCA
1 AGAAGGGTTATCTTCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCA
* *
5181780 TTTACAGTATA-ACTCAAGGCT
64 TTTGCAGCATAGA-TCAAGGCT
** * * * *
5181801 AGAAGGGTTAT-TTGTTAA-CAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
1 AGAAGGGTTATCTT-CCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * *
5181864 TTGCAGTATAGTTAAAGGCT
65 TTGCAGCATAGATCAAGGCT
* * * * * * *
5181884 AGAAGGGCTATC-T---GCCAGAGACCCTCGAGTTCGATTACACTCAGCTCC-AGGCATATCATT
1 AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
5181944 TGCAGCATAGCTTAAGGCA
66 TGCAGCATAGATCAAGGCT
5181963 AGAAGG
1 AGAAGG
5181969 TATATCTGCC
Statistics
Matches: 677, Mismatches: 136, Indels: 53
0.78 0.16 0.06
Matches are distributed among these distances:
79 32 0.05
80 54 0.08
81 38 0.06
82 1 0.00
83 83 0.12
84 428 0.63
85 40 0.06
86 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (84 bp):
AGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TGCAGCATAGATCAAGGCT
Found at i:5181302 original size:168 final size:167
Alignment explanation
Indices: 5181048--5181968 Score: 877
Period size: 168 Copynumber: 5.5 Consensus size: 167
5181038 GCTTAAGTCG
* * * * * * *
5181048 AGAAGGGCTATCAACCAACAAAATACCTTCAAGTTTGACTACGCTCAGCTCTAAGGTACATTATT
1 AGAAGGGCTATCTACC-ACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * *
5181113 TGCAGTATGAA-TCAAGGCTAGAAGGGTTATCTTCCAACCAAATACGTTTGAGTTCGACTACGTT
65 TGAAGCAT-AACTCAAGGCTAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCT
*
5181177 CAGCTCCAAGTCACATCATTTGCAGCATAGTTCAAGGCT
129 CAGCTCCAAGGCACATCATTTGCAGCATAGTTCAAGGCT
* *
5181216 AGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCT-ACTACGCTCAGCTCCAAGGCATATCAT
1 AGAAGGGCTATCTACC-ACCAAAGACCTTCGAGTT-TGACTACGCTCAGCTCCAAGGCACATCAT
* * *
5181280 TTGAAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTTGACTACGCT
64 TTGAAGCATAACTCAAGGCTAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCT
* * * ***
5181345 CAGCTCCAAGGCACATCATTTGTAGTATAGCTCAAAAAT
129 CAGCTCCAAGGCACATCATTTGCAGCATAGTTCAAGGCT
* * * * * * * *
5181384 AGAAGGGCTATCT---GCCAAAGACCCTCAAGTTTGATTACACTTAGCTTCGAGGGCACATCATT
1 AGAAGGGCTATCTACCACCAAAGACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCACATCATT
* * *
5181446 T-ATAGCATAACTCAAGGCTAGAAGGGTTATCTAT-CAA-CAAAGACCTTCGATTTTGACTATGC
65 TGA-AGCATAACTCAAGGCTAGAAGGGTTATCT-TCCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
5181508 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTT-AAGTCG
128 TCAGCTCCAAGGCACATCATTTGCAGCATAG-TTCAAGGCT
* * * * * * *
5181548 AGAAGGGTTATTTGCCTACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCCAGACACATCATT
1 AGAAGGGCTATCTACC-ACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATT
* * * * *
5181613 TGCAA-CATAACTCAAGGCTAGAAGAGTTATATGCCAACCAAATACCTTCGAGTACGACTACGCT
65 TG-AAGCATAACTCAAGGCTAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCT
** * *
5181677 CAGCTCCAAGGCTTATCATTTGTAGCATAGCTCAAGGCT
129 CAGCTCCAAGGCACATCATTTGCAGCATAGTTCAAGGCT
* * * * *
5181716 AGAAGGGTTATCTACCACCAAAAGTCCTTCGAGTTTGACTACGCTTAGCTTCGAGGGCACATCAT
1 AGAAGGGCTATCTACCACC-AAAGACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCACATCAT
* ** * * *
5181781 TT-ACAGTATAACTCAAGGCTAGAAGGGTTAT-TTGTTAA-CAAAGACCTTTGAGTTCGATTACA
64 TTGA-AGCATAACTCAAGGCTAGAAGGGTTATCTT-CCAACCAAAGACCTTCGAGTTCGACTACG
* * *
5181843 CTCAGCTCAAAGGCACATCATTTGCAGTATAGTTAAAGGCT
127 CTCAGCTCCAAGGCACATCATTTGCAGCATAGTTCAAGGCT
* * * * * * *
5181884 AGAAGGGCTATCT---GCCAGAGACCCTCGAGTTCGATTACACTCAGCTCC-AGGCATATCATTT
1 AGAAGGGCTATCTACCACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
* * * *
5181945 GCAGCATAGCTTAAGGCAAGAAGG
66 GAAGCATAACTCAAGGCTAGAAGG
5181969 TATATCTGCC
Statistics
Matches: 611, Mismatches: 120, Indels: 50
0.78 0.15 0.06
Matches are distributed among these distances:
162 29 0.05
163 3 0.00
164 110 0.18
165 49 0.08
167 47 0.08
168 333 0.55
169 40 0.07
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (167 bp):
AGAAGGGCTATCTACCACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
GAAGCATAACTCAAGGCTAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTTGCAGCATAGTTCAAGGCT
Found at i:5181682 original size:332 final size:330
Alignment explanation
Indices: 5181048--5181980 Score: 1056
Period size: 332 Copynumber: 2.8 Consensus size: 330
5181038 GCTTAAGTCG
* * * * * * * * * *
5181048 AGAAGGGCTATCAACCAACAAAATACCTTCAAGTTTGACTACGCTCAGC-TCTAAGGTACATTAT
1 AGAAGGGCTATC--TCACCAAAAGACCCTCAAGTTTGACTACACTTAGCTTCGAGGGCACATCAT
* * * * *
5181112 TTGCAGTATGAA-TCAAGGCTAGAAGGGTTATCTTCCAACCAAATACGTTTGAGTTCGACTACGT
64 TTACAGCAT-AACTCAAGGCTAGAAGGGTTATCTT-CAA-CAAAGACCTTTGAGTTCGACTACGC
* * * *
5181176 TCAGCTCCAAGTCACATCATTTGCAGCATAGTTCAAGGCTAGAAGGGTTATCTACCAACCAAAGA
126 TCAGCTCAAAGGCACATCATTTGCAGCATAGTTAAAGGCTAGAAGGGTTATCTGCC-A-CAAAGA
* *
5181241 CCTTCGAGTTCTACTACGCTCAGCTCCAAGGCATATCATTTG-AAGCATAACTCAAGGCTAGAAG
189 CCTTCGAGTTCGACTACGCTCAGCTCCCAGGCATATCATTTGCAA-CATAACTCAAGGCTAGAA-
* **
5181305 GGTTATCTACCAACAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGTAG
252 GGTTATCTGCCAACAAAAGACCTTCGAGTACGACTACGCTCAGCTCCAAGGCACATCATTTGTAG
*
5181370 TATAGCTCAAAAAT
317 CATAGCTCAAAAAT
* *
5181384 AGAAGGGCTATCT-GCC-AAAGACCCTCAAGTTTGATTACACTTAGCTTCGAGGGCACATCATTT
1 AGAAGGGCTATCTCACCAAAAGACCCTCAAGTTTGACTACACTTAGCTTCGAGGGCACATCATTT
* * * * *
5181447 ATAGCATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAGACCTTCGATTTTGACTATGCTCAG
66 ACAGCATAACTCAAGGCTAGAAGGGTTATCT-TCAACAAAGACCTTTGAGTTCGACTACGCTCAG
* * *
5181512 CTCAAAGGCACATCATTTGCAGCATAGCTT-AAGTCGAGAAGGGTTATTTGCCTACAAAAGACCT
130 CTCAAAGGCACATCATTTGCAGCATAG-TTAAAGGCTAGAAGGGTTATCTGCC-AC-AAAGACCT
* *
5181576 TCGAGTTCGACTACGCTCAGCTCCCAGACACATCATTTGCAACATAACTCAAGGCTAGAAGAGTT
192 TCGAGTTCGACTACGCTCAGCTCCCAGGCATATCATTTGCAACATAACTCAAGGCTAGAAG-GTT
* * * **
5181641 ATATGCCAACCAAATACCTTCGAGTACGACTACGCTCAGCTCCAAGGCTTATCATTTGTAGCATA
256 ATCTGCCAACAAAAGACCTTCGAGTACGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATA
***
5181706 GCTCAAGGCT
321 GCTCAAAAAT
* * * * *
5181716 AGAAGGGTTATCTACCACCAAAAGTCCTTCGAGTTTGACTACGCTTAGCTTCGAGGGCACATCAT
1 AGAAGGGCTATCT--CACCAAAAGACCCTCAAGTTTGACTACACTTAGCTTCGAGGGCACATCAT
* * * * *
5181781 TTACAGTATAACTCAAGGCTAGAAGGGTTATTTGTTAACAAAGACCTTTGAGTTCGATTACACTC
64 TTACAGCATAACTCAAGGCTAGAAGGGTTATCT-TCAACAAAGACCTTTGAGTTCGACTACGCTC
* * * *
5181846 AGCTCAAAGGCACATCATTTGCAGTATAGTTAAAGGCTAGAAGGGCTATCTG-C-CAGAGACCCT
128 AGCTCAAAGGCACATCATTTGCAGCATAGTTAAAGGCTAGAAGGGTTATCTGCCACAAAGACCTT
* * * * * *
5181909 CGAGTTCGATTACACTCAGCT-CCAGGCATATCATTTGCAGCATAGCTTAAGGCAAGAAGGTATA
193 CGAGTTCGACTACGCTCAGCTCCCAGGCATATCATTTGCAACATAACTCAAGGCTAGAAGGT-TA
5181973 TCTGCCAA
257 TCTGCCAA
5181981 AGACCTCGAT
Statistics
Matches: 505, Mismatches: 79, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
330 2 0.00
331 43 0.09
332 257 0.51
333 47 0.09
334 1 0.00
335 5 0.01
336 150 0.30
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (330 bp):
AGAAGGGCTATCTCACCAAAAGACCCTCAAGTTTGACTACACTTAGCTTCGAGGGCACATCATTT
ACAGCATAACTCAAGGCTAGAAGGGTTATCTTCAACAAAGACCTTTGAGTTCGACTACGCTCAGC
TCAAAGGCACATCATTTGCAGCATAGTTAAAGGCTAGAAGGGTTATCTGCCACAAAGACCTTCGA
GTTCGACTACGCTCAGCTCCCAGGCATATCATTTGCAACATAACTCAAGGCTAGAAGGTTATCTG
CCAACAAAAGACCTTCGAGTACGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTCA
AAAAT
Found at i:5182826 original size:37 final size:37
Alignment explanation
Indices: 5182782--5183115 Score: 364
Period size: 37 Copynumber: 9.1 Consensus size: 37
5182772 TAGAAAAAAG
* *
5182782 TTTTGAAAATATTTCGAAAAATATATATATTATATAG-
1 TTTTGAAAACATTT-TAAAAATATATATATTATATAGT
*
5182819 TTTTG-AAA-ATTTT-AACATATATATGA-TATATAGT
1 TTTTGAAAACATTTTAAAAATATATAT-ATTATATAGT
* *
5182853 TTTTGAAAATTC-TTTTGAAAATATATATAATATATAGT
1 TTTTGAAAA--CATTTTAAAAATATATATATTATATAGT
* *
5182891 TTTTGAAAACATTTTTAAAATATATATAATATATAGT
1 TTTTGAAAACATTTTAAAAATATATATATTATATAGT
* * *
5182928 TTTTGAAAACGTTTTTAAAAA-ACATATATTATATAAT
1 TTTTGAAAAC-ATTTTAAAAATATATATATTATATAGT
* *
5182965 TTTTGAAAACATTTTTAAAATATATATAATATATAGT
1 TTTTGAAAACATTTTAAAAATATATATATTATATAGT
* *
5183002 TTTTGAAAACATTTTTAAAAA-ACATATGTTATATAGT
1 TTTTGAAAACA-TTTTAAAAATATATATATTATATAGT
* *
5183039 TTTTGAAAACATTTTTAAAA-ACATATATTATATAGT
1 TTTTGAAAACATTTTAAAAATATATATATTATATAGT
* * *
5183075 TTTT-AAAACATTTTTGAAAACATATATAATATATAGT
1 TTTTGAAAACA-TTTTAAAAATATATATATTATATAGT
5183112 TTTT
1 TTTT
5183116 TTAAAAAAAA
Statistics
Matches: 260, Mismatches: 23, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
33 17 0.07
34 6 0.02
35 13 0.05
36 47 0.18
37 134 0.52
38 43 0.17
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
TTTTGAAAACATTTTAAAAATATATATATTATATAGT
Found at i:5182913 original size:26 final size:26
Alignment explanation
Indices: 5182865--5182914 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
5182855 TTGAAAATTC
* *
5182865 TTTTGAAAATATATATAATATATAGT
1 TTTTGAAAACATATATAAAATATAGT
* *
5182891 TTTTGAAAACATTTTTAAAATATA
1 TTTTGAAAACATATATAAAATATA
5182915 TATAATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (26 bp):
TTTTGAAAACATATATAAAATATAGT
Found at i:5183116 original size:74 final size:74
Alignment explanation
Indices: 5182782--5183115 Score: 423
Period size: 74 Copynumber: 4.6 Consensus size: 74
5182772 TAGAAAAAAG
* ** * *
5182782 TTTTGAAAATATTTCGAAAAATATATATATTATATAG-TTTTG-AAA-A-TTTTAACATATATAT
1 TTTTGAAAACATTTTTAAAAA-ACATATATTATATAGTTTTTGAAAACATTTTTAAAATATATAT
*
5182843 GATATATAGT
65 AATATATAGT
* * * *
5182853 TTTTGAAAATTC-TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTTAAAATATATA
1 TTTTGAAAA--CATTTTTAAAAAACATATATTATATAGTTTTTGAAAACATTTTTAAAATATATA
5182917 TAATATATAGT
64 TAATATATAGT
* *
5182928 TTTTGAAAACGTTTTTAAAAAACATATATTATATAATTTTTGAAAACATTTTTAAAATATATATA
1 TTTTGAAAACATTTTTAAAAAACATATATTATATAGTTTTTGAAAACATTTTTAAAATATATATA
5182993 ATATATAGT
66 ATATATAGT
* *
5183002 TTTTGAAAACATTTTTAAAAAACATATGTTATATAGTTTTTGAAAACATTTTTAAAA-ACATATA
1 TTTTGAAAACATTTTTAAAAAACATATATTATATAGTTTTTGAAAACATTTTTAAAATATATATA
*
5183066 TTATATAGT
66 ATATATAGT
*
5183075 TTTT-AAAACATTTTT-GAAAACATATATAATATATAGTTTTT
1 TTTTGAAAACATTTTTAAAAAACATATAT--TATATAGTTTTT
5183116 TTAAAAAAAA
Statistics
Matches: 236, Mismatches: 18, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
71 33 0.14
72 24 0.10
73 34 0.14
74 113 0.48
75 32 0.14
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (74 bp):
TTTTGAAAACATTTTTAAAAAACATATATTATATAGTTTTTGAAAACATTTTTAAAATATATATA
ATATATAGT
Found at i:5183183 original size:12 final size:11
Alignment explanation
Indices: 5183166--5183207 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
5183156 TAGAAAACAT
5183166 TTTTTATTTTA
1 TTTTTATTTTA
*
5183177 TTATTTATTCTA
1 TT-TTTATTTTA
5183189 TTTTTA-TTTA
1 TTTTTATTTTA
5183199 TTTATTATT
1 TTT-TTATT
5183208 ATTTATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.23
11 9 0.35
12 11 0.42
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:5183222 original size:26 final size:27
Alignment explanation
Indices: 5183168--5183228 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
5183158 GAAAACATTT
*
5183168 TTTATTTTATTATTTATTCTATTTTTA
1 TTTATTTTATTATTTATTCTATTTGTA
5183195 TTTA-TTTATTA-TTATT-TATATCTGTA
1 TTTATTTTATTATTTATTCTAT-T-TGTA
*
5183221 TTTTTTTT
1 TTTATTTT
5183229 GTCAGGGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
25 6 0.21
26 13 0.45
27 7 0.24
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTATTTTATTATTTATTCTATTTGTA
Found at i:5183953 original size:296 final size:297
Alignment explanation
Indices: 5183381--5183975 Score: 1149
Period size: 297 Copynumber: 2.0 Consensus size: 297
5183371 AGTATCCGAC
5183381 CGAAAACCGGCCACGAACAGCAAGTCCTGCTAAATCGGGACTGACCCATCCCGTTTTAGCCGGTC
1 CGAAAACCGGCCACGAACAGCAAGTCCTGCTAAATCGGGACTGACCCATCCCGTTTTAGCCGGTC
*
5183446 AAATAAATAACATACCGAAAAGAACGGAAACAACCCAACGGCGGTGGGGTATAAATACCCCCACC
66 AAACAAATAACATACCGAAAAGAACGGAAACAACCCAACGGCGGTGGGGTATAAATACCCCCACC
5183511 ATCATCGAACAAGGGGACGTCTATAGAGAGAGACATAACCAGTGGAACAACGAACCATTAACGAT
131 ATCATCGAACAAGGGGACGTCTATAGAGAGAGACATAACCAGTGGAACAACGAACCATTAACGAT
5183576 CCCAGAATACTGCAAACATAGTAAACCAATACACAAATAGCCAACAAGCCACAAAAGCACACAAC
196 CCCAGAATACTGCAAACATAGTAAACCAATACACAAATAGCCAACAAGCCACAAAAGCACACAAC
5183641 TTCGAACACAAAAAAAA-GCATCCAACAGATCGAGAA
261 TTCGAACACAAAAAAAATGCATCCAACAGATCGAGAA
5183677 CGAAAACCGGCCACGAACAGCAAGTCCTGGCTAAATCGGGACTGACCCATCCCGTTTTAGCCGGT
1 CGAAAACCGGCCACGAACAGCAAGTCCT-GCTAAATCGGGACTGACCCATCCCGTTTTAGCCGGT
5183742 CAAACAAATAACATACCGAAAAGAACGGAAACAACCCAAC-GCGGTGGGGTATAAATACCCCCAC
65 CAAACAAATAACATACCGAAAAGAACGGAAACAACCCAACGGCGGTGGGGTATAAATACCCCCAC
5183806 CATCATCGAACAAGGGGACGTCTATAGAGAGAGACATAACCCAGTGGAACAACGAACCATTAACG
130 CATCATCGAACAAGGGGACGTCTATAGAGAGAGACATAA-CCAGTGGAACAACGAACCATTAACG
5183871 ATCCCAGAATACTGCAAACATAGTAAACCAATACACAAATAGCCAACAAGCCACAAAAGCACACA
194 ATCCCAGAATACTGCAAACATAGTAAACCAATACACAAATAGCCAACAAGCCACAAAAGCACACA
5183936 ACTTCGAACACAAAAAAAATGCATCCAACAGATCGAGAA
259 ACTTCGAACACAAAAAAAATGCATCCAACAGATCGAGAA
5183975 C
1 C
5183976 ATCAAGAAAC
Statistics
Matches: 295, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
296 91 0.31
297 184 0.62
298 20 0.07
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (297 bp):
CGAAAACCGGCCACGAACAGCAAGTCCTGCTAAATCGGGACTGACCCATCCCGTTTTAGCCGGTC
AAACAAATAACATACCGAAAAGAACGGAAACAACCCAACGGCGGTGGGGTATAAATACCCCCACC
ATCATCGAACAAGGGGACGTCTATAGAGAGAGACATAACCAGTGGAACAACGAACCATTAACGAT
CCCAGAATACTGCAAACATAGTAAACCAATACACAAATAGCCAACAAGCCACAAAAGCACACAAC
TTCGAACACAAAAAAAATGCATCCAACAGATCGAGAA
Found at i:5184757 original size:16 final size:16
Alignment explanation
Indices: 5184736--5184786 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
5184726 ACTAACCTTA
5184736 TTATTTTTCTTATATT
1 TTATTTTTCTTATATT
*
5184752 TTA-TTTTATTACTATT
1 TTATTTTTCTTA-TATT
*
5184768 TTATATTTCTT-T-TT
1 TTATTTTTCTTATATT
5184782 TTATT
1 TTATT
5184787 AACTTTTGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 6 0.21
15 8 0.28
16 10 0.34
17 5 0.17
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTTCTTATATT
Found at i:5185367 original size:13 final size:13
Alignment explanation
Indices: 5185349--5185374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5185339 GCTTATTTTC
5185349 TATCCAATTAGAG
1 TATCCAATTAGAG
5185362 TATCCAATTAGAG
1 TATCCAATTAGAG
5185375 GGGACATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TATCCAATTAGAG
Found at i:5186885 original size:3 final size:3
Alignment explanation
Indices: 5186877--5186903 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5186867 AGAATGAACT
5186877 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
5186904 AAACAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5188864 original size:11 final size:11
Alignment explanation
Indices: 5188848--5188872 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5188838 AATGATATTG
5188848 TTTGGTTTAAT
1 TTTGGTTTAAT
5188859 TTTGGTTTAAT
1 TTTGGTTTAAT
5188870 TTT
1 TTT
5188873 TTTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTGGTTTAAT
Found at i:5192564 original size:21 final size:21
Alignment explanation
Indices: 5192530--5192604 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
5192520 CGGTTTGTAA
5192530 AAAAACCGGATTTTTTCAGAT
1 AAAAACCGGATTTTTTCAGAT
5192551 AAAAATCCGG-TTTTTT-A-A-
1 AAAAA-CCGGATTTTTTCAGAT
*
5192569 AAAAACCGGATTTTTTCGGAT
1 AAAAACCGGATTTTTTCAGAT
5192590 AAAAACC-GATTTTTT
1 AAAAACCGGATTTTTT
5192605 ATCCGGTTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
17 4 0.08
18 11 0.23
19 1 0.02
20 10 0.21
21 18 0.38
22 4 0.08
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (21 bp):
AAAAACCGGATTTTTTCAGAT
Found at i:5192577 original size:39 final size:38
Alignment explanation
Indices: 5192527--5192605 Score: 131
Period size: 39 Copynumber: 2.1 Consensus size: 38
5192517 TTTCGGTTTG
*
5192527 TAAAAAAACCGGATTTTTTCAGATAAAAATCCGGTTTTT
1 TAAAAAAACCGGATTTTTTCAGATAAAAA-CCGATTTTT
*
5192566 TAAAAAAACCGGATTTTTTCGGATAAAAACCGATTTTT
1 TAAAAAAACCGGATTTTTTCAGATAAAAACCGATTTTT
5192604 TA
1 TA
5192606 TCCGGTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 10 0.26
39 28 0.74
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (38 bp):
TAAAAAAACCGGATTTTTTCAGATAAAAACCGATTTTT
Found at i:5194045 original size:34 final size:35
Alignment explanation
Indices: 5193984--5194051 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
5193974 ACGAAAGATG
5193984 TTAAATTATAAATTAATAATTACTATTAATTTATA
1 TTAAATTATAAATTAATAATTACTATTAATTTATA
5194019 TTAAATTATAAATTAAT-ATTACTATTAATTTAT
1 TTAAATTATAAATTAATAATTACTATTAATTTAT
5194052 TAATCTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 16 0.48
35 17 0.52
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (35 bp):
TTAAATTATAAATTAATAATTACTATTAATTTATA
Found at i:5194046 original size:24 final size:22
Alignment explanation
Indices: 5194008--5194051 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
5193998 AATAATTACT
5194008 ATTAATTTATATTAAATTATAA
1 ATTAATTTATATTAAATTATAA
*
5194030 ATTAATATTACTATTAATTTAT
1 ATTAAT-TTA-TATTAAATTAT
5194052 TAATCTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTAATTTATATTAAATTATAA
Found at i:5197372 original size:14 final size:14
Alignment explanation
Indices: 5197353--5197387 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
5197343 AAGTAATGTA
5197353 TCATTGCAATAATC
1 TCATTGCAATAATC
5197367 TCATTGCAATAATC
1 TCATTGCAATAATC
5197381 TCATTGC
1 TCATTGC
5197388 CAAAGATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (14 bp):
TCATTGCAATAATC
Found at i:5200786 original size:21 final size:21
Alignment explanation
Indices: 5200761--5200800 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5200751 AAGACTCTAT
5200761 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
5200782 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
5200801 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:5208276 original size:21 final size:21
Alignment explanation
Indices: 5208227--5208289 Score: 99
Period size: 22 Copynumber: 3.0 Consensus size: 21
5208217 GCATATGAAA
*
5208227 TTGTCCCGAAGGACCTGTGAG
1 TTGTCCCGAAGGACCTATGAG
5208248 TATGTCCCGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAG
*
5208270 TTGTCCCGAAAGACCTATGA
1 TTGTCCCGAAGGACCTATGA
5208290 AACCCTCGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 19 0.49
22 20 0.51
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:5208890 original size:21 final size:21
Alignment explanation
Indices: 5208864--5208922 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
5208854 TTTTCGTTCA
*
5208864 AGGGGGTATCGGTACCCAACT
1 AGGGGGTATCGATACCCAACT
5208885 AGGGGGTATCGATACCCAACT
1 AGGGGGTATCGATACCCAACT
5208906 -GGAGGGTATCGATACCC
1 AGG-GGGTATCGATACCC
5208923 TCAATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (21 bp):
AGGGGGTATCGATACCCAACT
Found at i:5216211 original size:21 final size:21
Alignment explanation
Indices: 5216181--5216221 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5216171 CTATGAACAG
*
5216181 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCACCGATGCAT
*
5216202 TGCTATAGTGCACCGATGCA
1 TGCTACAGTGCACCGATGCA
5216222 CTAAAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGCACCGATGCAT
Found at i:5219589 original size:21 final size:22
Alignment explanation
Indices: 5219525--5219602 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
5219515 AAATTGTCTT
* *
5219525 GAAGAACCTGTGAGTATGTCCC
1 GAAGGACCTATGAGTATGTCCC
* *
5219547 GAAGGATCTGTGAGTATGTCCC
1 GAAGGACCTATGAGTATGTCCC
5219569 GAAGGACCTATGAGT-TGTCCC
1 GAAGGACCTATGAGTATGTCCC
5219590 GAAGGACCTATGA
1 GAAGGACCTATGA
5219603 AACCCTCGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 19 0.37
22 33 0.63
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (22 bp):
GAAGGACCTATGAGTATGTCCC
Found at i:5223578 original size:17 final size:17
Alignment explanation
Indices: 5223557--5223617 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
5223547 TGACCGGTTT
*
5223557 GACCCGACCTGTTGA-CT
1 GACCCGACC-GTTGACCC
5223574 GACCCGAGCCGTTGACCC
1 GACCCGA-CCGTTGACCC
*
5223592 AACCCGACCGTTGACCC
1 GACCCGACCGTTGACCC
5223609 GACCCGACC
1 GACCCGACC
5223618 CAGTGATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
17 30 0.77
18 9 0.23
ACGTcount: A:0.20, C:0.44, G:0.23, T:0.13
Consensus pattern (17 bp):
GACCCGACCGTTGACCC
Found at i:5223680 original size:29 final size:29
Alignment explanation
Indices: 5223620--5223897 Score: 328
Period size: 29 Copynumber: 9.6 Consensus size: 29
5223610 ACCCGACCCA
* *
5223620 GTGATATTCTGGGAATTA-TTTGAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * *
5223648 GTGATATTCTGGGAATTATTTTGAAAAAT
1 GTGACATTTTGGGAATTATTTTGAAAAAG
5223677 GTGACATTTTGGGAATTATTTTGAAAAAAG
1 GTGACATTTTGGGAATTATTTTG-AAAAAG
*
5223707 GTGACATTTTGGGAATTATTTTGAAAAAA
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * *
5223736 ATGACATTTTGGGAATTATTTTTAAAAAA
1 GTGACATTTTGGGAATTATTTTGAAAAAG
** *
5223765 GTGAC-TTTCTATGAATTATTTTGAAAAAT
1 GTGACATTT-TGGGAATTATTTTGAAAAAG
* * *
5223794 GTGACATTTT-GAAATTATTTTAAAAAAAA
1 GTGACATTTTGGGAATTATTTT-GAAAAAG
* * *
5223823 GTGATATTCTAGGAATTATTTTGAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* *
5223852 GTGATATTTTGGGAATTATTTTAAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
5223881 GTGACATTTTGGGAATT
1 GTGACATTTTGGGAATT
5223898 TTTGAATGTG
Statistics
Matches: 219, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
28 30 0.14
29 148 0.68
30 41 0.19
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (29 bp):
GTGACATTTTGGGAATTATTTTGAAAAAG
Found at i:5231281 original size:29 final size:28
Alignment explanation
Indices: 5231180--5231339 Score: 196
Period size: 29 Copynumber: 5.6 Consensus size: 28
5231170 CCCGACCCAA
*
5231180 TGACATTATGAGAATTA-TTTGAAAAGG
1 TGACATTATGGGAATTATTTTGAAAAGG
* *
5231207 TGACATTCTGGGAATTATTTTGAAAAAACTG
1 TGACATTATGGGAATTATTTTG--AAAA-GG
5231238 TGACATTATGGGAATTATTTTGAAAGAGG
1 TGACATTATGGGAATTATTTTGAAA-AGG
* *
5231267 TGACATTATGTGAATTATTTTGAAAAAG
1 TGACATTATGGGAATTATTTTGAAAAGG
*
5231295 TGACATTCTGGGAATTATTTTGAAAAAGG
1 TGACATTATGGGAATTATTTTG-AAAAGG
* *
5231324 TGACATTTTGAGAATT
1 TGACATTATGGGAATT
5231340 TTGAATGTGG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
27 15 0.13
28 26 0.23
29 47 0.41
30 5 0.04
31 22 0.19
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (28 bp):
TGACATTATGGGAATTATTTTGAAAAGG
Found at i:5231325 original size:57 final size:59
Alignment explanation
Indices: 5231180--5231339 Score: 220
Period size: 57 Copynumber: 2.8 Consensus size: 59
5231170 CCCGACCCAA
* * *
5231180 TGACATTATGAGAATTA-TTTG-AAAAGGTGACATTCTGGGAATTATTTTGAAAAAACTG
1 TGACATTATGGGAATTATTTTGAAAAAGGTGACATTATGAGAATTATTTTGAAAAAAC-G
* *
5231238 TGACATTATGGGAATTATTTTGAAAGAGGTGACATTATGTGAATTATTTTG-AAAAA-G
1 TGACATTATGGGAATTATTTTGAAAAAGGTGACATTATGAGAATTATTTTGAAAAAACG
* *
5231295 TGACATTCTGGGAATTATTTTGAAAAAGGTGACATTTTGAGAATT
1 TGACATTATGGGAATTATTTTGAAAAAGGTGACATTATGAGAATT
5231340 TTGAATGTGG
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
57 42 0.46
58 16 0.17
59 9 0.10
60 25 0.27
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (59 bp):
TGACATTATGGGAATTATTTTGAAAAAGGTGACATTATGAGAATTATTTTGAAAAAACG
Found at i:5235115 original size:187 final size:187
Alignment explanation
Indices: 5234616--5235365 Score: 1380
Period size: 187 Copynumber: 4.0 Consensus size: 187
5234606 GAAAGTACAT
5234616 AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCTAAAACCATGAC
1 AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCTAAAACCATGAC
*
5234681 TGGCTGG-AACTTTGAAATATATCTTCATGTTCCTACAGATTAACACTTTAGTCCTTACTTTGTG
66 TGGCTGGAAACTTTGAAATATATCTTCATGTTCCTACAGATTAACACTTTAGTCCTTATTTTGTG
*
5234745 GTGTGACATAAATAAGAATTTCAAATTAAAATACCTAGAGGAGCTAAAATA-TTTTG
131 GTGTGACATAAATAAGAATTTCAAATTAAAAGACCTAGAGGAGCTAAAATATTTTTG
5234801 AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCT-AAACCATGAC
1 AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCTAAAACCATGAC
* *
5234865 TAGCTGGAAACTTTGAAATATATCTTCATGTTCCTACATATTAACACTTTAGTCCTTATTTTGTG
66 TGGCTGGAAACTTTGAAATATATCTTCATGTTCCTACAGATTAACACTTTAGTCCTTATTTTGTG
5234930 GTGTGACATAAATAAGAATTTCAAATTAAAAGACCTAGAGGAGCTAAAATATTTTTG
131 GTGTGACATAAATAAGAATTTCAAATTAAAAGACCTAGAGGAGCTAAAATATTTTTG
*
5234987 AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCTAAAACCCTGAC
1 AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCTAAAACCATGAC
*
5235052 TGGCTGGAAACTTTGAAATATATCTTCATGTTCCTACATATTAACACTTTAGTCCTTATTTTGTG
66 TGGCTGGAAACTTTGAAATATATCTTCATGTTCCTACAGATTAACACTTTAGTCCTTATTTTGTG
5235117 GTGTGACATAAATAAGAATTTCAAATTAAAAGACCTAGAGGAGCTAAAATATTTTTG
131 GTGTGACATAAATAAGAATTTCAAATTAAAAGACCTAGAGGAGCTAAAATATTTTTG
* *
5235174 AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCTAAAACCCTGGC
1 AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCTAAAACCATGAC
* *
5235239 TGGCTAGAAACTTTGAAATATATCTTCATGTTCCTACAGATTAACACTTTAGTCCTTATTTTATG
66 TGGCTGGAAACTTTGAAATATATCTTCATGTTCCTACAGATTAACACTTTAGTCCTTATTTTGTG
*
5235304 GTGTGACATAAATAATAATTTCAAATTAAAAGACCTAGAGGAGCTAAAATATTTTTG
131 GTGTGACATAAATAAGAATTTCAAATTAAAAGACCTAGAGGAGCTAAAATATTTTTG
5235361 AATTT
1 AATTT
5235366 AAAATTTTAA
Statistics
Matches: 551, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
184 16 0.03
185 159 0.29
186 59 0.11
187 317 0.58
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (187 bp):
AATTTTTCCTTTTATTTGATTTGCGATAAATGAGAATTGGGTAAACTTGGGCCTAAAACCATGAC
TGGCTGGAAACTTTGAAATATATCTTCATGTTCCTACAGATTAACACTTTAGTCCTTATTTTGTG
GTGTGACATAAATAAGAATTTCAAATTAAAAGACCTAGAGGAGCTAAAATATTTTTG
Found at i:5236613 original size:139 final size:140
Alignment explanation
Indices: 5236408--5236680 Score: 381
Period size: 139 Copynumber: 2.0 Consensus size: 140
5236398 ACTAAACCTA
* * *
5236408 AAAATGGAGGCTTTAATATTAATCCTAATTGATTTTAACCAAATTATGGGATCAAATAATCGAAA
1 AAAATGGAGGCTCTAACATTAATCCTAATTGATTTTAACCAAATTATGGAATCAAATAATCGAAA
* * * * * * *
5236473 TGGACCCTCAG-GCATTGAGGCAAGGGCCAAATCAAATATTCCCCTAAATTAAAGGACTAAACTG
66 TGAACCCT-AGAACATTAAGACAAGGGCCAAATAAAATATTCCCCTAAATTAAAAGACTAAAATG
5236537 AAATTAAGCCT
130 AAATTAAGCCT
5236548 AAAATGGAGGCTCTAACATTAATCCTAATTGATTTTAA-CAAATTACT-GAATCAAATAATCGAA
1 AAAATGGAGGCTCTAACATTAATCCTAATTGATTTTAACCAAATTA-TGGAATCAAATAATCGAA
* * * *
5236611 ATGAACCCTTGAACATTAAGACGAGGGTCAAATAAAATATTCCCCTTAATTAAAAGACTAAAATG
65 ATGAACCCTAGAACATTAAGACAAGGGCCAAATAAAATATTCCCCTAAATTAAAAGACTAAAATG
5236676 AAATT
130 AAATT
5236681 GATCTAAAGC
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
138 1 0.01
139 79 0.68
140 37 0.32
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.27
Consensus pattern (140 bp):
AAAATGGAGGCTCTAACATTAATCCTAATTGATTTTAACCAAATTATGGAATCAAATAATCGAAA
TGAACCCTAGAACATTAAGACAAGGGCCAAATAAAATATTCCCCTAAATTAAAAGACTAAAATGA
AATTAAGCCT
Found at i:5236708 original size:139 final size:140
Alignment explanation
Indices: 5236415--5236716 Score: 369
Period size: 139 Copynumber: 2.2 Consensus size: 140
5236405 CTAAAAATGG
* * *
5236415 AGGCTTTAATATTAATCCTAATTGATTTTAACCAAATTATGGGATCAAATAATCGAAATGGACCC
1 AGGCTCTAATATTAATCCTAATTGATTTTAACCAAATTATGGAATCAAATAATCGAAATGAACCC
* * * * * *
5236480 TCAGGCATTGAGGCAAGGGCCAAATCAAATATTCCCCTAAATTAAAGGACTAAACTGAAATTAAG
66 TCAGACATTAAGACAAGGGCCAAATAAAATATTCCCCTAAATTAAAAGACTAAAATGAAATTAAG
***
5236545 CCTAAAATGG
131 CCTAAAACAA
*
5236555 AGGCTCTAACATTAATCCTAATTGATTTTAA-CAAATTACT-GAATCAAATAATCGAAATGAACC
1 AGGCTCTAATATTAATCCTAATTGATTTTAACCAAATTA-TGGAATCAAATAATCGAAATGAACC
* * * * *
5236618 CT-TGAACATTAAGACGAGGGTCAAATAAAATATTCCCCTTAATTAAAAGACTAAAATGAAATTG
65 CTCAG-ACATTAAGACAAGGGCCAAATAAAATATTCCCCTAAATTAAAAGACTAAAATGAAATTA
* *
5236682 A-TCTAAAGCAA
129 AGCCTAAAACAA
5236693 AGGCTCTAATTATTAATCCTAATT
1 AGGCTCTAA-TATTAATCCTAATT
5236717 AATTATGAAA
Statistics
Matches: 138, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
138 15 0.11
139 93 0.67
140 30 0.22
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (140 bp):
AGGCTCTAATATTAATCCTAATTGATTTTAACCAAATTATGGAATCAAATAATCGAAATGAACCC
TCAGACATTAAGACAAGGGCCAAATAAAATATTCCCCTAAATTAAAAGACTAAAATGAAATTAAG
CCTAAAACAA
Found at i:5237161 original size:30 final size:30
Alignment explanation
Indices: 5237126--5237183 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
5237116 GACAAAAACT
*
5237126 TAAATAACATAAAA-ATAAATTGCATAAATG
1 TAAATAACA-AAAATATAAATTGAATAAATG
*
5237156 TAAATAACAAAAATGTAAATTGAATAAA
1 TAAATAACAAAAATATAAATTGAATAAA
5237184 ATTAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (30 bp):
TAAATAACAAAAATATAAATTGAATAAATG
Found at i:5238290 original size:22 final size:21
Alignment explanation
Indices: 5238265--5238323 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
5238255 TGTAGGGTGA
5238265 AATGTTGTGAAAAACAATAAAG
1 AATGTTGTGAAAAA-AATAAAG
* *
5238287 AATGCTATAT-AAAAAAGTAAAG
1 AATG-T-TGTGAAAAAAATAAAG
*
5238309 AATGTTGTGGAAAAA
1 AATGTTGTGAAAAAA
5238324 TTGCGTTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 2 0.07
21 6 0.20
22 14 0.47
23 6 0.20
24 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (21 bp):
AATGTTGTGAAAAAAATAAAG
Found at i:5249731 original size:252 final size:252
Alignment explanation
Indices: 5248984--5249780 Score: 1195
Period size: 252 Copynumber: 3.2 Consensus size: 252
5248974 TTATTATTTT
*
5248984 GGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCAGTTTTTTTAAGTGTGATATTCGG
1 GGGTCGAGTCGGGTGAAACTTTATTTTGGTCGGGTCGGG-C--TTTTTTTAAGTGTGATATTCGG
* * *
5249049 GTCGGGTCGAATTCAGGTTTTGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTA
63 GTC-GGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTA
* *
5249114 TATATTTAGAAATAATTACAATAATACCCCT-T-TATATATAATTTTTTCAATTAAGTCACTGGT
127 TATATTTAGGAATAATTACAATAATACCCCTCTCTATATAT-ATTTTTTCAATTAAGTCACTGTT
* * *
5249177 TTTATTGAATAAAAATAATTTTTTTATTATTTTGGG-TCG--A-GTTTCTAATTTATATATTC
191 TTTATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTTGGTCAGGTTTCTAATTCATATATTC
* *
5249236 GGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTTGGTTTTTTTAAGTGTGATATTCGG
1 GGGTCGAGTCGGGTGAAACTTTATTTTGGTCGGGTC-GG--GCTTTTTTTAAGTGTGATATTCGG
* *
5249301 GTCGGTCGAGTTCGAGTTTAGGGTGAAAAAAACCCGACCCGAAAATATATATAATTTTACCTTAT
63 GTCGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTAT
*
5249366 ATATTTAGGAATAATTACAATAATACCCCTCTC--TCTATATTTTTTCAATTAAGTCACTGTTTT
128 ATATTTAGGAATAATTACAATAATACCCCTCTCTATATATATTTTTTCAATTAAGTCACTGTTTT
* * *
5249429 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCAGGTC-GGATTTCTAATTCATATATTT
193 TATTGAATAAAAATATTTTTTTATTATTTCGGGT-TGGTCAGG-TTTCTAATTCATATATTC
* *
5249490 GGGTCGAGTCGAGTGAAACTTTACTTTGGTCGGGTC-GGCTTTTTTTAAGTGTGATATTCGGGTC
1 GGGTCGAGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGCTTTTTTTAAGTGTGATATTCGGGTC
* *
5249554 GAGTCGGGTTCGGGTTTAGGGTGAAAAATACCCGACCC-AAAAAATATATAATTTTACCTTATAT
66 G-GTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATAT
5249618 ATTTAGGAATAATTACAATAATACCCCTCTCTATATATATTTTTTCAATTAAGTCACTGTTTTTA
130 ATTTAGGAATAATTACAATAATACCCCTCTCTATATATATTTTTTCAATTAAGTCACTGTTTTTA
5249683 TTGAATAAAAATATTTTTTTATTATTTCGGGTTGTGTCAGGTTTCTAATTCATATATTC
195 TTGAATAAAAATATTTTTTTATTATTTCGGGTTG-GTCAGGTTTCTAATTCATATATTC
5249742 GGGTC-AGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGG
1 GGGTCGA-GTCGGGTGAAACTTTATTTTGGTCGGGTCGGG
5249781 TCACGGATGG
Statistics
Matches: 498, Mismatches: 29, Indels: 35
0.89 0.05 0.06
Matches are distributed among these distances:
249 17 0.03
250 121 0.24
251 126 0.25
252 177 0.36
253 7 0.01
254 49 0.10
255 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (252 bp):
GGGTCGAGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGCTTTTTTTAAGTGTGATATTCGGGTC
GGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATA
TTTAGGAATAATTACAATAATACCCCTCTCTATATATATTTTTTCAATTAAGTCACTGTTTTTAT
TGAATAAAAATATTTTTTTATTATTTCGGGTTGGTCAGGTTTCTAATTCATATATTC
Found at i:5253235 original size:2 final size:2
Alignment explanation
Indices: 5253230--5253269 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
5253220 TTTTTTCCAA
5253230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5253270 CATAAAGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5256868 original size:14 final size:15
Alignment explanation
Indices: 5256835--5256880 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
5256825 TTTTCTTCGA
*
5256835 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
5256849 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
5256862 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
5256877 TATT
1 TATT
5256881 ATTTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:5258228 original size:3 final size:3
Alignment explanation
Indices: 5258212--5258298 Score: 90
Period size: 3 Copynumber: 29.7 Consensus size: 3
5258202 TGTAATATTA
* * * * *
5258212 AAT AAT -AT ATT AAT AAT AAT AAT AAT TAT AAT TAT AAT TAT AAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
5258259 AAT AAT AAT AAT TAT AAT AAT AAT AAT -AT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
5258299 AAATGAAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 6 0.09
3 60 0.88
4 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:5259115 original size:227 final size:226
Alignment explanation
Indices: 5258542--5259338 Score: 1306
Period size: 227 Copynumber: 3.5 Consensus size: 226
5258532 AAGTTATTCT
** * * * * *
5258542 CTGGAAAAACTGACCCATCAAGTAATGGATTTGAGCAAAAAGCTGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
* * * * *
5258607 AACTTCTTCTTCCTTCTTCAGATGGGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCTA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCA
* * * * *
5258672 TCAATTGATAGATTTGAGCAGAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCTATTT
131 TCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATC--CTT
* *
5258737 CTTCATATAAGTTCTTCTCATTATGAACTCGAA
194 CTTCAGATGAGTTCTTCTCATTATGAACTCGAA
* * * * *
5258770 CTGGAAAAGATAATCTATCAAGTGATAGATTTGATCAAAAGGTTGAATAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
*
5258835 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATAAACTCGAACTGGAAAAGTTGATCCA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCA
* *
5258900 TCAAGTGATGGATTAGATCAAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCATCCTTCT
131 TCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCT
5258965 TCAGATGAGTTCTTCTCATTATGAACTCGAA
196 TCAGATGAGTTCTTCTCATTATGAACTCGAA
5258996 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAAACAAATTCTTCTCATTAT
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTG-AACAAATTCTTCTCATTAT
5259061 GAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCC
65 GAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCC
5259126 ATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTC
130 ATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTC
5259191 TTCAGATGAGTTCTTCTCATTATGAACTCGAA
195 TTCAGATGAGTTCTTCTCATTATGAACTCGAA
*
5259223 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATA
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
*
5259288 AACTTCTTCATCATTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
5259339 ACACTATTGA
Statistics
Matches: 532, Mismatches: 36, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
226 143 0.27
227 222 0.42
228 167 0.31
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (226 bp):
CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCA
TCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCT
TCAGATGAGTTCTTCTCATTATGAACTCGAA
Found at i:5259199 original size:340 final size:340
Alignment explanation
Indices: 5258542--5259338 Score: 1308
Period size: 340 Copynumber: 2.3 Consensus size: 340
5258532 AAGTTATTCT
** * * * * *
5258542 CTGGAAAAACTGACCCATCAAGTAATGGATTTGAGCAAAAAGCTGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
* * *
5258607 AACTTCTTCTTCCTTCTTCAGATGGGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCTA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCA
* * *
5258672 TCAATTGATAGATTTGAGCAGAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCTATTT
131 TCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATC-ACTT
* *
5258737 CTTCATATAAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCTATCAAGTGATAGATTT
195 CTTCAGATAAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTT
*
5258802 GATCAAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTC
260 GATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTC
5258867 TCATTATAAACTCGAA
325 TCATTATAAACTCGAA
* *
5258883 CTGGAAAAGTTGATCCATCAAGTGATGGATTAGATCAAAAGGTTGAATAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
* *
5258948 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCA
* *
5259013 TCAAGTGATGGATTTGATCAAAAGGTTGAAACAAATTCTTCTCATTATGAACTTCTTCATC-CTT
131 TCAAGTGATAGATTTGAGCAAAAGGTTG-AACAAATTCTTCTCATTATGAACTTCTTCATCACTT
* * * *
5259077 CTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTT
195 CTTCAGATAAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTT
5259142 GATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTC
260 GATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTC
*
5259207 TCATTATGAACTCGAA
325 TCATTATAAACTCGAA
*
5259223 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATA
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
*
5259288 AACTTCTTCATCATTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
5259339 ACACTATTGA
Statistics
Matches: 424, Mismatches: 31, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
340 252 0.59
341 140 0.33
342 32 0.08
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (340 bp):
CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCA
TCAAGTGATAGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCACTTC
TTCAGATAAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTG
ATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCT
CATTATAAACTCGAA
Found at i:5259349 original size:113 final size:113
Alignment explanation
Indices: 5258542--5259338 Score: 1306
Period size: 113 Copynumber: 7.0 Consensus size: 113
5258532 AAGTTATTCT
** * * * * *
5258542 CTGGAAAAACTGACCCATCAAGTAATGGATTTGAGCAAAAAGCTGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
* *
5258607 AACTTCTTCTTCCTTCTTCAGATGGGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
* * * * * * *
5258655 CTGGAAAAGATAATCTATCAATTGATAGATTTGAGCAGAAGGTTGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
* * *
5258720 AACTTCTTCATCTATTTCTTCATATAAGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATC--CTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
* * * * *
5258770 CTGGAAAAGATAATCTATCAAGTGATAGATTTGATCAAAAGGTTGAATAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
*
5258835 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATAAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
* *
5258883 CTGGAAAAGTTGATCCATCAAGTGATGGATTAGATCAAAAGGTTGAATAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
5258948 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
5258996 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAAACAAATTCTTCTCATTAT
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTG-AACAAATTCTTCTCATTAT
5259061 GAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
65 GAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
5259110 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
5259175 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
*
5259223 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATA
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
*
5259288 AACTTCTTCATCATTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
5259336 CTG
1 CTG
5259339 ACACTATTGA
Statistics
Matches: 647, Mismatches: 34, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
113 430 0.66
114 112 0.17
115 105 0.16
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (113 bp):
CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
Found at i:5260287 original size:83 final size:83
Alignment explanation
Indices: 5260148--5260508 Score: 579
Period size: 83 Copynumber: 4.4 Consensus size: 83
5260138 CTTATTTTTA
* * * * *
5260148 CTATGAGCAAATTCATCTTTTAAATCCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACCAGATCAGATAACTCAAA
5260213 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
5260231 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACCAGATCAGATAACTCAAA
5260296 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
5260314 TTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAA-C----CAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACCAGATCAGATAACTCAAA
* *
5260374 GAACACTTCCATAAGATA
66 GAACACTTCCAGAAGATG
* * * *
5260392 TTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACCAGATCAGATAACTCAAA
5260457 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
5260475 CTATGAGCACATTCATCTTTCAAATTCAATGATT
1 CTATGAGCACATTCATCTTTCAAATTCAATGATT
5260509 AGACTGGGAT
Statistics
Matches: 257, Mismatches: 16, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
78 72 0.28
79 1 0.00
82 1 0.00
83 183 0.71
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:5260419 original size:161 final size:163
Alignment explanation
Indices: 5260148--5260508 Score: 573
Period size: 161 Copynumber: 2.2 Consensus size: 163
5260138 CTTATTTTTA
* * * * *
5260148 CTATGAGCAAATTCATCTTTTAAATCCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACC--A-CAGATAACTCAAA
* * *
5260213 GAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAAC
63 GAACACTTCCAGAAGATACTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTCTACCAAAC
5260278 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
128 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
5260314 TTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAA-C-CAGATAACTCAAAGAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACCACAGATAACTCAAAGAA
* * *
5260377 CACTTCCATAAGATATTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTCTGCCAAACCAG
66 CACTTCCAGAAGATACTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTCTACCAAACCAG
5260442 ATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 ATCAGATAACTCAAAGAACACTTCCAGAAGATG
5260475 CTATGAGCACATTCATCTTTCAAATTCAATGATT
1 CTATGAGCACATTCATCTTTCAAATTCAATGATT
5260509 AGACTGGGAT
Statistics
Matches: 182, Mismatches: 13, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
161 141 0.77
165 1 0.01
166 40 0.22
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (163 bp):
CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTCTACCAAACCACAGATAACTCAAAGAA
CACTTCCAGAAGATACTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTCTACCAAACCAG
ATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:5261654 original size:10 final size:10
Alignment explanation
Indices: 5261641--5261686 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
5261631 CCCCTTTTTC
5261641 TTTTTTCTCT
1 TTTTTTCTCT
5261651 TTTTTCTCTCT
1 TTTTT-TCTCT
*
5261662 TTTTTTTTCT
1 TTTTTTCTCT
*
5261672 TTTTTTTTCT
1 TTTTTTCTCT
5261682 TTTTT
1 TTTTT
5261687 CTTCAAGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
10 24 0.71
11 10 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:5265690 original size:21 final size:20
Alignment explanation
Indices: 5265648--5265690 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
5265638 TTCTCCCCCT
*
5265648 TTCAATTTTGCCTTTCTGTC
1 TTCAATTTTGCCTTTCTCTC
5265668 TTCACATTTT-CCTTTCATCTC
1 TTCA-ATTTTGCCTTTC-TCTC
5265689 TT
1 TT
5265691 ATTCTTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.12, C:0.28, G:0.05, T:0.56
Consensus pattern (20 bp):
TTCAATTTTGCCTTTCTCTC
Found at i:5274380 original size:3 final size:3
Alignment explanation
Indices: 5274364--5274435 Score: 51
Period size: 3 Copynumber: 24.7 Consensus size: 3
5274354 TGTAATATTA
* * * * * *
5274364 AAT AAT -AT ATT AAT AAT AAT AAT TAT TAT AAT TAT AAT TAT AAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
5274411 AAT TAT AAT AAT -AT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AA
5274436 AAATGAAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 6 0.11
3 45 0.85
4 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:5274395 original size:18 final size:18
Alignment explanation
Indices: 5274364--5274423 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
5274354 TGTAATATTA
*
5274364 AATAATATATTAATAATAAT
1 AATAAT-TA-TAATTATAAT
*
5274384 AATTATTATAATTATAAT
1 AATAATTATAATTATAAT
*
5274402 TATAATTATAATTATAAT
1 AATAATTATAATTATAAT
5274420 AATA
1 AATA
5274424 TAAATAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 28 0.80
19 2 0.06
20 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATAATTATAATTATAAT
Found at i:5275602 original size:2 final size:2
Alignment explanation
Indices: 5275595--5275620 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5275585 AAATTATTAA
5275595 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
5275621 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5287065 original size:23 final size:23
Alignment explanation
Indices: 5287039--5287092 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
5287029 CCCAAAGTAT
5287039 TATGTAAAGACTTACAAAATCTA
1 TATGTAAAGACTTACAAAATCTA
5287062 TATGTAAAGACTTACAAAATCTA
1 TATGTAAAGACTTACAAAATCTA
*
5287085 AATGTAAA
1 TATGTAAA
5287093 ATTTGGAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (23 bp):
TATGTAAAGACTTACAAAATCTA
Found at i:5305907 original size:20 final size:20
Alignment explanation
Indices: 5305882--5305924 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5305872 TCTAAGAGCC
* *
5305882 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
5305902 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
5305922 CAT
1 CAT
5305925 GAGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:5314475 original size:20 final size:20
Alignment explanation
Indices: 5314450--5314492 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5314440 TCTAAGAGCC
* *
5314450 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
5314470 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
5314490 CAT
1 CAT
5314493 GAGGTGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:5316217 original size:96 final size:96
Alignment explanation
Indices: 5316053--5316244 Score: 330
Period size: 96 Copynumber: 2.0 Consensus size: 96
5316043 AATTTCCTGT
*
5316053 GGAGACGATACTCAACTTATCACTTTATTACTTGTTCGATTGTGTATACTTGCACACATATCCGC
1 GGAGACGATACTCAACTTATCACTTTATTACTTGTTCGATTGTATATACTTGCACACATATCCGC
**
5316118 ACTCATTTATAGTACTCACAAACTGCGGACA
66 ACTCATTTATAGTACTCACAAAAAGCGGACA
* * *
5316149 GGAGACGATACTCTACTTATCACTTTATTACTTGTTCGATTGTATATATTTGCACATATATCCGC
1 GGAGACGATACTCAACTTATCACTTTATTACTTGTTCGATTGTATATACTTGCACACATATCCGC
5316214 ACTCATTTATAGTACTCACAAAAAGCGGACA
66 ACTCATTTATAGTACTCACAAAAAGCGGACA
5316245 ACTATCAATA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (96 bp):
GGAGACGATACTCAACTTATCACTTTATTACTTGTTCGATTGTATATACTTGCACACATATCCGC
ACTCATTTATAGTACTCACAAAAAGCGGACA
Found at i:5317421 original size:188 final size:191
Alignment explanation
Indices: 5317051--5317451 Score: 564
Period size: 189 Copynumber: 2.1 Consensus size: 191
5317041 TAACAATACT
* * *
5317051 TTTTAATCTGAAATATTCAAAAGATAAAACTCCTTTTACCATTCAAACTAAAACATATATTATTT
1 TTTTAATTTGTAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTAAAACATATATTATTT
* ** * *
5317116 TAATTTAAAATATTCAAAGGTATATAATTATCTTTAATATTCAAAGTTAAAAAGGTAACAAATAC
66 TAATTTAAAATATGCAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATAC
* *
5317181 CTTTTTAAATTGACATATTTAAAGAGTAATTATCCTACTAATATTCAAATTAAATAA-T-TA
131 CTTTCTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAA-AATTATA
* * * *
5317241 -TTTAATTTGTAATGGTCAAAAGAT-AAACTCCTTTTACTATTCAATCTTAAACATATATTATTT
1 TTTTAATTTGTAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTAAAACATATATTATTT
* * *
5317304 TAATTTGAAATATGCAAAAATATATAATTATCTTTTAATATTTAAAATTAAAAAAGATAACAACT
66 TAATTTAAAATATGCAAAAATATATAATTATC-TTTAATATTCAAAATT-AAAAAGATAACAAAT
5317369 ACC-TTCTAAATTGAC-TCATTAAAAGAGTAATTATCCTACTAATATT-AAATTAAAAATTATA
129 ACCTTTCTAAATTGACAT-ATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAATTATA
5317430 TTTTAATTTGTAATAGTCAAAA
1 TTTTAATTTGTAATAGTCAAAA
5317452 AGACTATGAA
Statistics
Matches: 187, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
187 2 0.01
188 74 0.40
189 75 0.40
190 36 0.19
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.39
Consensus pattern (191 bp):
TTTTAATTTGTAATAGTCAAAAGATAAAACTCCTTTTACCATTCAAACTAAAACATATATTATTT
TAATTTAAAATATGCAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATAC
CTTTCTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAATTAAAAATTATA
Found at i:5320828 original size:24 final size:25
Alignment explanation
Indices: 5320809--5320876 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
5320799 ATAAATTGCA
5320809 CCGAAGTG-CCGCGTAGAAATTTGTC
1 CCGAAG-GACCGCGTAGAAATTTGTC
5320834 CCGAAGGACCGCGTAG-AATTTGTC
1 CCGAAGGACCGCGTAGAAATTTGTC
* *
5320858 CCGAAGGACCACATAGAAA
1 CCGAAGGACCGCGTAGAAA
5320877 AATTCCTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 23 0.59
25 16 0.41
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (25 bp):
CCGAAGGACCGCGTAGAAATTTGTC
Found at i:5324491 original size:188 final size:192
Alignment explanation
Indices: 5324191--5324568 Score: 461
Period size: 188 Copynumber: 2.0 Consensus size: 192
5324181 TTAAAAGATA
5324191 AAACTCCTTTTACCATTAAAACTAAAATAGGTATTATTTTAATTTGAAATATATAAAAATATATA
1 AAACTCCTTTTACCATTAAAACTAAAATA-GTATTATTTTAATTTGAAATATATAAAAATATATA
* * * *
5324256 ATTACCTTCAATATTGAAAGTTAAAAAGTTAGCAAATACCTTTTT-AAAT-TGACATATTTAAAG
65 ATTACCTTCAATATTCAAAATTAAAAAGTTAACAAATACCTTTTTAAAATCT-ACATATTAAAAG
* * * *
5324319 AGTAATT-ATCC-ACTGATATTCAAATT-AAATAATAT-ATTTAATTTGCAATGGTCAAAATAG
129 AGTAATTAATCCTACTAATATTCAAATTAAAAAAATATCATTTAATTTACAATAGTCAAAATAG
* * *
5324379 AAACTCCTTTTACTATTCAAAATTAGACATA-TATTATTTTAATTTGAAATATA-AAAAAGTATA
1 AAACTCCTTTTACCATT-AAAACTA-AAATAGTATTATTTTAATTTGAAATATATAAAAA-TATA
** * * **
5324442 TAATTATTTGTTAATATTCAAAATTAAAAA-TATAACACATACC-TTTTAAAATCTATTTATTAA
63 TAATTACCT-TCAATATTCAAAATTAAAAAGT-TAACAAATACCTTTTTAAAATCTACATATTAA
*
5324505 AAGAGTAATTAATCCTACTAATATTCAAATTAAAAAAATATCTTTTAATTTACAATAGTCAAAA
126 AAGAGTAATTAATCCTACTAATATTCAAATTAAAAAAATATCATTTAATTTACAATAGTCAAAA
5324569 GTACTATGAA
Statistics
Matches: 161, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
187 5 0.03
188 54 0.34
189 52 0.32
190 9 0.06
191 14 0.09
192 8 0.05
193 19 0.12
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (192 bp):
AAACTCCTTTTACCATTAAAACTAAAATAGTATTATTTTAATTTGAAATATATAAAAATATATAA
TTACCTTCAATATTCAAAATTAAAAAGTTAACAAATACCTTTTTAAAATCTACATATTAAAAGAG
TAATTAATCCTACTAATATTCAAATTAAAAAAATATCATTTAATTTACAATAGTCAAAATAG
Found at i:5326640 original size:27 final size:28
Alignment explanation
Indices: 5326602--5326658 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
5326592 AGAATTATAG
*
5326602 AATTGCCCCTGAAGTATAAAATGA-CTA
1 AATTCCCCCTGAAGTATAAAATGACCTA
*
5326629 AATTCCCCCTGAAGTGTAAAATGACCTA
1 AATTCCCCCTGAAGTATAAAATGACCTA
5326657 AA
1 AA
5326659 GTATCTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (28 bp):
AATTCCCCCTGAAGTATAAAATGACCTA
Found at i:5327888 original size:32 final size:32
Alignment explanation
Indices: 5327847--5327919 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
5327837 CCTAAGGTAA
5327847 CCCTTGGGTACGCTCTCAGGCTCCAAAGAACT
1 CCCTTGGGTACGCTCTCAGGCTCCAAAGAACT
* * ** *
5327879 CCCTTGGGTAGGCTCTCAGGTTCCATGGCACT
1 CCCTTGGGTACGCTCTCAGGCTCCAAAGAACT
5327911 CCCTTGGGT
1 CCCTTGGGT
5327920 TAGTCATGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.15, C:0.33, G:0.26, T:0.26
Consensus pattern (32 bp):
CCCTTGGGTACGCTCTCAGGCTCCAAAGAACT
Found at i:5342355 original size:14 final size:14
Alignment explanation
Indices: 5342336--5342398 Score: 99
Period size: 14 Copynumber: 4.5 Consensus size: 14
5342326 ACTTAGATTT
*
5342336 AGTCAACTTGTCTG
1 AGTCAACTCGTCTG
* *
5342350 AGTCAACTAGTCCG
1 AGTCAACTCGTCTG
5342364 AGTCAACTCGTCTG
1 AGTCAACTCGTCTG
5342378 AGTCAACTCGTCTG
1 AGTCAACTCGTCTG
5342392 AGTCAAC
1 AGTCAAC
5342399 ATATTTAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 45 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (14 bp):
AGTCAACTCGTCTG
Found at i:5342432 original size:13 final size:14
Alignment explanation
Indices: 5342407--5342436 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
5342397 ACATATTTAG
5342407 TTTGACACGTTGAC
1 TTTGACACGTTGAC
5342421 TTTGAC-CGTTGAC
1 TTTGACACGTTGAC
5342434 TTT
1 TTT
5342437 AACCCACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (14 bp):
TTTGACACGTTGAC
Found at i:5352213 original size:21 final size:21
Alignment explanation
Indices: 5352187--5352226 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5352177 TGCATCAAGG
5352187 CTTTTGTAGACGCCATGAAAT
1 CTTTTGTAGACGCCATGAAAT
* *
5352208 CTTTTGTCGAGGCCATGAA
1 CTTTTGTAGACGCCATGAA
5352227 TTAGTGCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
CTTTTGTAGACGCCATGAAAT
Done.