Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold48
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: 4619657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18863 characters in sequence are not A, C, G, or T
File 12 of 27
Found at i:1718404 original size:27 final size:27
Alignment explanation
Indices: 1718348--1718404 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
1718338 GCCGTCAATT
* *
1718348 TTGAAATTCAATTTGAAATAGTAAATG
1 TTGAAATTCAATTTGAAACAGTAAAGG
*
1718375 TTGAAATTCAATTTGAAACAGTGAAGG
1 TTGAAATTCAATTTGAAACAGTAAAGG
1718402 TTG
1 TTG
1718405 CATAGTACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.35
Consensus pattern (27 bp):
TTGAAATTCAATTTGAAACAGTAAAGG
Found at i:1720429 original size:2 final size:2
Alignment explanation
Indices: 1720424--1720454 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1720414 CATATGTGTT
1720424 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1720455 GTCATGTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1720929 original size:91 final size:93
Alignment explanation
Indices: 1720817--1720984 Score: 229
Period size: 91 Copynumber: 1.8 Consensus size: 93
1720807 TTCATTTATA
* * * *
1720817 TGATGAAAAATAAACAAGAGTTTAATTTTATATTAAATTATTTTATTTT-A-AAGTTTTAATTTT
1 TGATAAAAAATAAACAAGAGTTAAAATTTATATT-AATT-TTTTATTTTCATAAGATTTAATTTT
*
1720880 -TATTAACATTAAAATGTAAATTAATTAATT
64 AT-TTAAAATTAAAATGTAAATTAATTAATT
1720910 TGATAAAAAAT-AA-AAGAGTTAAAATTTATATTAATTTTTTATTTTCATAAGATTTAATTTTAT
1 TGATAAAAAATAAACAAGAGTTAAAATTTATATTAATTTTTTATTTTCATAAGATTTAATTTTAT
1720973 TTAAAATTAAAA
66 TTAAAATTAAAA
1720985 ATTAAAAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
89 9 0.13
90 5 0.07
91 40 0.60
92 3 0.04
93 10 0.15
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (93 bp):
TGATAAAAAATAAACAAGAGTTAAAATTTATATTAATTTTTTATTTTCATAAGATTTAATTTTAT
TTAAAATTAAAATGTAAATTAATTAATT
Found at i:1721000 original size:23 final size:24
Alignment explanation
Indices: 1720974--1721019 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
1720964 TAATTTTATT
1720974 TAAAATTAAAAATTAAA-AATTTA
1 TAAAATTAAAAATTAAATAATTTA
* **
1720997 TAAATTTAACTATTAAATAATTT
1 TAAAATTAAAAATTAAATAATTT
1721020 TACTTGTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAATTAAAAATTAAATAATTTA
Found at i:1721339 original size:22 final size:22
Alignment explanation
Indices: 1721300--1721342 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1721290 TAATCACATA
*
1721300 TTTTATTTTTTAATTATTTTAT
1 TTTTATTTTTAAATTATTTTAT
1721322 TTTTA-TTTTAAATCTATTTTA
1 TTTTATTTTTAAAT-TATTTTA
1721343 AAAGTACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTATTTTTAAATTATTTTAT
Found at i:1721865 original size:14 final size:15
Alignment explanation
Indices: 1721827--1721866 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
1721817 TTACTTCAGT
1721827 AAATAAGTTTTTCGTA
1 AAATAAGTTTTTCG-A
1721843 AAAT-A-TTTTTC-A
1 AAATAAGTTTTTCGA
1721855 AAATAAGTTTTT
1 AAATAAGTTTTT
1721867 TTTACGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.23
13 1 0.05
14 11 0.50
15 1 0.05
16 4 0.18
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (15 bp):
AAATAAGTTTTTCGA
Found at i:1722000 original size:30 final size:32
Alignment explanation
Indices: 1721966--1722034 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
1721956 ATTTTTTATA
*
1721966 AATTAATTAAATTT-AATAAATAATAATA-TT
1 AATTAATTAAATTTAAATAAAAAATAATATTT
**
1721996 AATT-ATTATTTTTAAATAAAAAATAATATTT
1 AATTAATTAAATTTAAATAAAAAATAATATTT
1722027 AATTAATT
1 AATTAATT
1722035 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 17 0.52
31 6 0.18
32 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTAATTAAATTTAAATAAAAAATAATATTT
Found at i:1722038 original size:30 final size:30
Alignment explanation
Indices: 1721980--1722041 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1721970 AATTAAATTT
* *
1721980 AATAAATAATAATATTAATTATTATTTTTA
1 AATAAAAAATAATATTAATTAATATTTTTA
1722010 AATAAAAAATAATATTTAATTAAT-TTTTTA
1 AATAAAAAATAATA-TTAATTAATATTTTTA
1722040 AA
1 AA
1722042 AAATTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AATAAAAAATAATATTAATTAATATTTTTA
Found at i:1722094 original size:13 final size:13
Alignment explanation
Indices: 1722076--1722100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1722066 TTAATTATTT
1722076 TTAAATTAAAAAA
1 TTAAATTAAAAAA
1722089 TTAAATTAAAAA
1 TTAAATTAAAAA
1722101 GAGTTTATTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAATTAAAAAA
Found at i:1722183 original size:111 final size:109
Alignment explanation
Indices: 1722009--1722285 Score: 285
Period size: 111 Copynumber: 2.5 Consensus size: 109
1721999 TATTATTTTT
* * * *
1722009 AAATAAAAAATAATATTTAATTAATTTTTTAAAAAATTACATTAATAAATTCAAACATTAATTAT
1 AAATAAAAAATAATATTAAATTAA--ATTTAAAAAATTACATTAACAAATTAAAACATTAATTAT
*
1722074 -T--TTTAAATTAAAAAATTAAATTAAAAAGAGTTTATTATT-TTTT-TAATA
64 ATGCTTT-TA-T-AAAAA-T-AA--AAAAAGAGTTTATTATTATTTTCTAATA
* * *
1722122 AAATTAAAAATAATATTGAATTAAATTTAAAAAATTACATTAACAAATTAAAATATTAATTATAT
1 AAATAAAAAATAATATTAAATTAAATTTAAAAAATTACATTAACAAATTAAAACATTAATTATAT
** ***
1722187 GCTTTTATAAAAATAAAAGTATTTTTTATTATTATTTTCTAATA
66 GCTTTTATAAAAATAAAAAAAGAGTTTATTATTATTTTCTAATA
**
1722231 AAATAAAAAAGGATATTAAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 AAATAAAAAATAATATTAAATTAAATTT-AAAAAA-TTACATTAACAAATTAAAA
1722286 AATAATATTT
Statistics
Matches: 141, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
107 12 0.09
108 4 0.03
109 31 0.22
110 7 0.05
111 59 0.42
112 2 0.01
113 23 0.16
114 3 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (109 bp):
AAATAAAAAATAATATTAAATTAAATTTAAAAAATTACATTAACAAATTAAAACATTAATTATAT
GCTTTTATAAAAATAAAAAAAGAGTTTATTATTATTTTCTAATA
Found at i:1722307 original size:109 final size:107
Alignment explanation
Indices: 1722104--1722308 Score: 254
Period size: 109 Copynumber: 1.9 Consensus size: 107
1722094 TTAAAAAGAG
* * *
1722104 TTTATTATTTTTTTAATAAAATTAAAAATAATATTGAATTAAATTTAAAAAATTACATTAACAAA
1 TTTATTATTTTTTTAATAAAATAAAAAAGAATATTAAATTAAATTTAAAAAATTACATTAACAAA
* * ***
1722169 TTAAAATATTAATTATATGCTTTTATAAAAATAAAAGTATTT
66 TTAAAATAATAATTATAAGCGAATATAAAAATAAAAGTATTT
*
1722211 TTTATTATTATTTTCTAATAAAATAAAAAAGGATATTAAATTAAATTTAAAAAAATTTACATTAA
1 TTTATTATT-TTTT-TAATAAAATAAAAAAGAATATTAAATTAAATTT-AAAAAA-TTACATTAA
*
1722276 CAAATTAAAA-AATAATATTTAAG-GAAT-TAAAAA
62 CAAATTAAAATAATAAT-TATAAGCGAATATAAAAA
1722309 AATTTATTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
107 9 0.11
108 4 0.05
109 35 0.42
110 12 0.14
111 23 0.28
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (107 bp):
TTTATTATTTTTTTAATAAAATAAAAAAGAATATTAAATTAAATTTAAAAAATTACATTAACAAA
TTAAAATAATAATTATAAGCGAATATAAAAATAAAAGTATTT
Found at i:1722316 original size:22 final size:22
Alignment explanation
Indices: 1722257--1722328 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
1722247 TAAATTAAAT
*
1722257 TTAAAAAAATTTACATTAACAAA
1 TTAAAAAAATTTA-TTTAACAAA
* **
1722280 TT-AAAAAATAATATTTAAGGAA
1 TTAAAAAAAT-TTATTTAACAAA
1722302 TTAAAAAAATTTATTT--CAAA
1 TTAAAAAAATTTATTTAACAAA
1722322 -TAAAAAA
1 TTAAAAAA
1722329 CTCTCTATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
19 7 0.17
20 2 0.05
22 20 0.50
23 11 0.28
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (22 bp):
TTAAAAAAATTTATTTAACAAA
Found at i:1722760 original size:122 final size:122
Alignment explanation
Indices: 1722563--1722834 Score: 377
Period size: 122 Copynumber: 2.2 Consensus size: 122
1722553 AAAAAATATT
** *
1722563 ATTATAATAAAAAAATTTTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTT
1 ATTATAAT-AAAAACCTTTTTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTT
* * *
1722628 AATTCGTTAATGTAAAATTTTAAACTTAATTAAATATTATTTTTTATTTTATT-AAAA
65 AATTCATTAATATAAAATTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAA
*
1722685 ATTATAATAAAAACCTTTTTATTTTAAATTTTTTTATTTTTATAAAAACATAATAATTAA-ATTT
1 ATTATAATAAAAACCTTTTTATTTTAAAATTTTTTA-TTTT-TAAAAACATAATAATTAATATTT
* ** *
1722749 TAATTTATTAATATAATTTTTTAAACTTAATTAAATTTTATTTTTAATTTTATTAAAAA
64 TAATTCATTAATATAAAATTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAA
*
1722808 ATAATAATAATAAACCCTTTTTATTTT
1 ATTATAATAA-AAA-CCTTTTTATTTT
1722835 TATTTAAATT
Statistics
Matches: 133, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
121 24 0.18
122 63 0.47
123 31 0.23
124 3 0.02
125 12 0.09
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.52
Consensus pattern (122 bp):
ATTATAATAAAAACCTTTTTATTTTAAAATTTTTTATTTTTAAAAACATAATAATTAATATTTTA
ATTCATTAATATAAAATTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAA
Found at i:1723231 original size:38 final size:38
Alignment explanation
Indices: 1723168--1723262 Score: 93
Period size: 38 Copynumber: 2.5 Consensus size: 38
1723158 TTTAAAGTTA
* * ** *
1723168 ATTAAAATTTAAAAGATATGGGTAATACATA-ATTTTTT
1 ATTAGAATTTAAAAAATATTAGTAAT-CATAGATTATTT
* * * *
1723206 ATTATATTTTGAAAAATATTAGTAATTATAGATTATTT
1 ATTAGAATTTAAAAAATATTAGTAATCATAGATTATTT
1723244 ATTAGAATTTAAAAAATAT
1 ATTAGAATTTAAAAAATAT
1723263 GACTAATATA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 3 0.07
38 42 0.93
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.44
Consensus pattern (38 bp):
ATTAGAATTTAAAAAATATTAGTAATCATAGATTATTT
Found at i:1723671 original size:90 final size:91
Alignment explanation
Indices: 1723521--1723699 Score: 240
Period size: 90 Copynumber: 2.0 Consensus size: 91
1723511 TTAAAATTGG
* * * *
1723521 ATTCTTTTTTATGGGAAAAAAAAAGAGTTGATTGATTGTAAATGTCAAATTACAAGGATTAGACT
1 ATTCGTTTTTATGGGAAAAAAAAAAAGTTGATTGATTGTAAATATCAAATTACAAGGATTAAACT
1723586 AAT-CATGAATTATATCTGAGAATCA
66 AATACATGAATTATATCTGAGAATCA
* *
1723611 ATTCGTTTTTAT-TGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGTA-AA-GATTAA
1 ATTCGTTTTTATGGGAAAAAAA-AAAAGTTGATTGATTGTAAATATCA-AAT-TACAAGGATTAA
*
1723673 ACTAATACATGAATTATATTTGAGAAT
63 ACTAATACATGAATTATATCTGAGAAT
1723700 TGATTATAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
89 8 0.10
90 45 0.58
91 23 0.29
92 2 0.03
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (91 bp):
ATTCGTTTTTATGGGAAAAAAAAAAAGTTGATTGATTGTAAATATCAAATTACAAGGATTAAACT
AATACATGAATTATATCTGAGAATCA
Found at i:1723734 original size:57 final size:57
Alignment explanation
Indices: 1723641--1723756 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
1723631 AGAAAAGTTG
* *
1723641 ATTGATTGTAAATATCAGACTGTAAAGATTAAACTAATACATGAATTATATTTGAGA
1 ATTGATTATAAATATCAGACTGTAAAGATTAAACTAATACATGAATTATATCTGAGA
* * * *
1723698 ATTGATTATAAATGTCATACTGT-AAGAATTAGACTAATGCATGAATTATATCTGAGA
1 ATTGATTATAAATATCAGACTGTAAAG-ATTAAACTAATACATGAATTATATCTGAGA
1723755 AT
1 AT
1723757 CAAATTCTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 3 0.06
57 49 0.94
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (57 bp):
ATTGATTATAAATATCAGACTGTAAAGATTAAACTAATACATGAATTATATCTGAGA
Found at i:1723821 original size:150 final size:147
Alignment explanation
Indices: 1723551--1723841 Score: 384
Period size: 150 Copynumber: 2.0 Consensus size: 147
1723541 AAAAGAGTTG
* * *
1723551 ATTGATTGTAAATGTCAAATTACAAGGATTAGACTAATCATGAATTATATCTGAGAATCAATTCG
1 ATTGATTATAAATGTCAAACTACAAGAATTAGACTAATCATGAATTATATCTGAGAATCAATTCG
* * **
1723616 TTTTTATTGAAAAAAAGAAAAGTTGATTGATTGTAAATATCAGACTGTAAAGATTAAACTAATAC
66 TTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATATCAGACTACAAAGATTAAACTAATAC
1723681 ATGAATTATATTTGAGA
131 ATGAATTATATTTGAGA
* **
1723698 ATTGATTATAAATGTCATACTGTAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATT
1 ATTGATTATAAATGTCAAACTACAAGAATTAGACTAAT-CATGAATTATATCTGAGAATC-AATT
* * * * * * * *
1723763 CTTTTTTATAGGAAAAAAGAAAAAGTTGGCTGATTGTAAATGTTAGACTACAAGGATTAGATTAA
64 CGTTTTTATAGAAAAAAAG-AAAAGTTGACTGATTGTAAATATCAGACTACAAAGATTAAACTAA
*
1723828 TGCATGAATTATAT
128 TACATGAATTATAT
1723842 CTGGGAATCA
Statistics
Matches: 122, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
147 32 0.26
148 21 0.17
149 20 0.16
150 49 0.40
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.35
Consensus pattern (147 bp):
ATTGATTATAAATGTCAAACTACAAGAATTAGACTAATCATGAATTATATCTGAGAATCAATTCG
TTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATATCAGACTACAAAGATTAAACTAATAC
ATGAATTATATTTGAGA
Found at i:1723922 original size:92 final size:91
Alignment explanation
Indices: 1723698--1724036 Score: 430
Period size: 93 Copynumber: 3.7 Consensus size: 91
1723688 ATATTTGAGA
* *
1723698 ATTGATTATAAATGTCATACTGTAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATT
1 ATTGATTATAAATGTCAGACTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATC-AATT
1723763 CTTTTTTATAGG-AAAAAAGAAAAAGTTG
65 CTTTTTTAT-GGAAAAAAAG-AAAAGTTG
** * * * * * * *
1723791 GCTGATTGTAAATGTTAGACTACAAGGATTAGATTAATGCATGAATTATATCTGGGAATCAGATA
1 ATTGATTATAAATGTCAGACTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATCA-ATT
1723856 CTTTTTTATGGAAAAAAAGAAAAGTTG
65 CTTTTTTATGGAAAAAAAGAAAAGTTG
*
1723883 ATTGATTATAAATGTCAGATTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAATTC
1 ATTGATTATAAATGTCAGACTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAATTC
* * *
1723948 GTTTTTATTGAAAAAAGAAAGAAAAATTG
66 TTTTTTA-TG-GAAAA-AAAGAAAAGTTG
* * *
1723977 ATTGATTGTAAATGTCAGACTGTAA-AGATTAGACTAATACATGAATTATATCTGAGAATC
1 ATTGATTATAAATGTCAGACTGCAAGA-ATTAGACTAATGCATGAATTATATCTGAGAATC
1724037 GATTGTAAAT
Statistics
Matches: 212, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
91 9 0.04
92 65 0.31
93 73 0.34
94 65 0.31
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (91 bp):
ATTGATTATAAATGTCAGACTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAATTC
TTTTTTATGGAAAAAAAGAAAAGTTG
Found at i:1724068 original size:57 final size:57
Alignment explanation
Indices: 1723980--1724093 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
1723970 AAAATTGATT
1723980 GATTGTAAATGTCAGACTGTAAAGATTAGACTAATACATGAATTATATCTGAGAATC
1 GATTGTAAATGTCAGACTGTAAAGATTAGACTAATACATGAATTATATCTGAGAATC
* * *
1724037 GATTGTAAATGTCAGACTGT-AAGAATTAGACTAATGCATTAATTATATCTGATAATC
1 GATTGTAAATGTCAGACTGTAAAG-ATTAGACTAATACATGAATTATATCTGAGAATC
1724094 AAATTCTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
56 3 0.06
57 50 0.94
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (57 bp):
GATTGTAAATGTCAGACTGTAAAGATTAGACTAATACATGAATTATATCTGAGAATC
Found at i:1724115 original size:243 final size:235
Alignment explanation
Indices: 1723794--1724273 Score: 620
Period size: 240 Copynumber: 2.0 Consensus size: 235
1723784 AAAGTTGGCT
* * * * *
1723794 GATTGTAAATGTTAGACTACAAGGATTAGATTAATGCATGAATTATATCTGGGAATCAGATACTT
1 GATTGTAAATGTCAGACTACAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATACTT
* * *
1723859 TTTTATGGAAAAAAAGAAAAGTTGATTGATTATAAATGTCAGATTGCAAGAATTAGACTAATGCA
66 TTTTAT--AGAAAAA-AAAAGTTGACTGATTATAAATGTCAGACTGCAAGAATTAGACTAATGCA
* * *
1723924 TGAATTATATCTGAGAATC-AATTCGTTTTTATTGAAAAAAGAAAGAAAAATTGATTGATTGTAA
128 TGAATTATATCTGAGAATCGAATACGTTTTTATAGAAAAAA-AAAG-----TTGACTGATTGTAA
* * *
1723988 ATGTCAGACTGTAAAGATTAGACTAATACATGAATTATATCTGAGAATC
187 ATGTCAGACTGCAAAGATTAGACTAATACATAAATTATATCTAAGAATC
** * * *
1724037 GATTGTAAATGTCAGACTGTAAGAATTAGACTAATGCATTAATTATATCTGATAATCAAATTCTT
1 GATTGTAAATGTCAGACTACAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATACTT
* * * *
1724102 TTTTATAGAAAAAAAAAGTTGGCTGATTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATGA
66 TTTTATAGAAAAAAAAAGTTGACTGATTATAAATGTCAGACTGCAAGAATTAGACTAATGCATGA
* * *
1724167 ATTATATCTGAGAATCGGATACTTTTTTATAGGAAAAAAAAGTTGACTGATTGTAAATGTCAGAC
131 ATTATATCTGAGAATCGAATACGTTTTTATAGAAAAAAAAAGTTGACTGATTGTAAATGTCAGAC
* *
1724232 TGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATC
196 TGCAAAGATTAGACTAATACATAAATTATATCTAAGAATC
1724272 GA
1 GA
1724274 ATTCTTTTTT
Statistics
Matches: 208, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
235 59 0.28
240 66 0.32
241 22 0.11
243 61 0.29
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.33
Consensus pattern (235 bp):
GATTGTAAATGTCAGACTACAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATACTT
TTTTATAGAAAAAAAAAGTTGACTGATTATAAATGTCAGACTGCAAGAATTAGACTAATGCATGA
ATTATATCTGAGAATCGAATACGTTTTTATAGAAAAAAAAAGTTGACTGATTGTAAATGTCAGAC
TGCAAAGATTAGACTAATACATAAATTATATCTAAGAATC
Found at i:1724153 original size:332 final size:334
Alignment explanation
Indices: 1723524--1724371 Score: 1259
Period size: 336 Copynumber: 2.6 Consensus size: 334
1723514 AAATTGGATT
* * * *
1723524 CTTTTTTATGGGAAAAAAAAAGAGTTGATTGATTGTAAATGTCAAATTACAAGGATTAGACTAAT
1 CTTTTTTATAGGAAAAAAAAAAAGTTGATTGATTGTAAATGTCAGATTGCAAGGATTAGACTAAT
*
1723589 -CATGAATTATATCTGAGAATCAATTCGTTTTTATTG--AAAAAAAGAAAAGTTGATTGATTGTA
66 GCATGAATTATATCTGAGAATCAATTCGTTTTTATTGAAAAAAAAAGAAAAATTGATTGATTGTA
* * * * *
1723651 AATATCAGACTGTAAAGATTAAACTAATACATGAATTATATTTGAGAATTGATTATAAATGTCAT
131 AATGTCAGACTGTAAAGATTAGACTAATACATGAATTATATCTGAGAATCGATTATAAATGTCAG
1723716 ACTGTAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGGAAAAAA
196 ACTGTAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGG-AAAAA
* *
1723781 GAAAAAGTTGGCTGATTGTAAATGTTAGACTACAAGGATTAGATTAATGCATGAATTATATCTGG
260 GAAAAAGTTGGCTGATTGTAAATGTTAGACTACAAGGATTAGACTAATGCATGAATTATATCTGA
1723846 GAATCAGATA
325 GAATCAGATA
* *
1723856 CTTTTTTAT-GGAAAAAAAGAAAAGTTGATTGATTATAAATGTCAGATTGCAAGAATTAGACTAA
1 CTTTTTTATAGGAAAAAAA-AAAAGTTGATTGATTGTAAATGTCAGATTGCAAGGATTAGACTAA
1723920 TGCATGAATTATATCTGAGAATCAATTCGTTTTTATTGAAAAAAGAAAGAAAAATTGATTGATTG
65 TGCATGAATTATATCTGAGAATCAATTCGTTTTTATTGAAAAAA-AAAGAAAAATTGATTGATTG
*
1723985 TAAATGTCAGACTGTAAAGATTAGACTAATACATGAATTATATCTGAGAATCGATTGTAAATGTC
129 TAAATGTCAGACTGTAAAGATTAGACTAATACATGAATTATATCTGAGAATCGATTATAAATGTC
* *
1724050 AGACTGTAAGAATTAGACTAATGCATTAATTATATCTGATAATCAAATTCTTTTTTATA-G-AAA
194 AGACTGTAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGGAAAA
*
1724113 A-AAAAAGTTGGCTGATTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATGAATTATATCTG
259 AGAAAAAGTTGGCTGATTGTAAATGTTAGACTACAAGGATTAGACTAATGCATGAATTATATCTG
*
1724177 AGAATCGGATA
324 AGAATCAGATA
* *
1724188 CTTTTTTATAGG---AAAAAAAAGTTGACTGATTGTAAATGTCAGACTGCAAGGATTAGACTAAT
1 CTTTTTTATAGGAAAAAAAAAAAGTTGATTGATTGTAAATGTCAGATTGCAAGGATTAGACTAAT
* * * * *** *
1724250 GCATAAATTATATCTAAGAATCGAATTCTTTTTTATAGAAAAAAAAAAGAAAGCCTAATTGATTG
66 GCATGAATTATATCTGAGAATC-AATTCGTTTTTATTG-AAAAAAAAAGAAAAATTGATTGATTG
* ** *
1724315 TAAATGTTAGACTG-AAAGGATTAGACTAATGTATGAATTATATCTAAGAATCAGATT
129 TAAATGTCAGACTGTAAA-GATTAGACTAATACATGAATTATATCTGAGAATC-GATT
1724372 CTTTTTTATA
Statistics
Matches: 472, Mismatches: 34, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
329 65 0.14
330 77 0.16
331 19 0.04
332 129 0.27
333 42 0.09
335 5 0.01
336 135 0.29
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (334 bp):
CTTTTTTATAGGAAAAAAAAAAAGTTGATTGATTGTAAATGTCAGATTGCAAGGATTAGACTAAT
GCATGAATTATATCTGAGAATCAATTCGTTTTTATTGAAAAAAAAAGAAAAATTGATTGATTGTA
AATGTCAGACTGTAAAGATTAGACTAATACATGAATTATATCTGAGAATCGATTATAAATGTCAG
ACTGTAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGGAAAAAG
AAAAAGTTGGCTGATTGTAAATGTTAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAG
AATCAGATA
Found at i:1724546 original size:274 final size:271
Alignment explanation
Indices: 1724037--1724848 Score: 1071
Period size: 274 Copynumber: 3.0 Consensus size: 271
1724027 TCTGAGAATC
* * *
1724037 GATTGTAAATGTCAGACTGTAAGAATTAGACTAATGCATTAATTATATCTGATAATCAAATTCTT
1 GATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTT
* ** *
1724102 TTTTATAG-AAAAAA-AAAGTTGGCTGATTGTAAATGTTAGACTGCAAGGATTAGACTAATGCAT
65 TTTTATAGAAAAAAAGAAAGCTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCAT
** *
1724165 GAATTATATCTGAGAATCGGATACTTTTTTATAGGAAAAAAAAGTTGACTGATTGTAAATGTCAG
130 GAATTATATCTGAGAATCATATACTTTTTTATA--AAAAAAAA-TTGAATGATTGTAAATGTCAG
* * *
1724230 ACTGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATCGAATTCTTTTTTATAGAAAAAAA
192 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
1724295 AAAGAAAGCCTAATT
257 AAAGAAAGCCTAATT
* * * *
1724310 GATTGTAAATGTTAGACTGAAAGGATTAGACTAATGTATGAATTATATCTAAGAATCAGATTCTT
1 GATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTT
* *
1724375 TTTTATAGAAGAAAAAGAAAGACAGATTGATTGTAAATGTCAGGCTGCAAGGATTAGACTAATGC
65 TTTTATAGAA-AAAAAGAAAG-CTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGC
* * *
1724440 ATGAATTATATTTGAGAATCATATGCTTTTTTATAAAAAAAAATTGAATGATTGTAAATGTCGGA
128 ATGAATTATATCTGAGAATCATATACTTTTTTATAAAAAAAAATTGAATGATTGTAAATGTCAGA
*
1724505 CTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAG---AAAAA
193 CTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAA
1724567 AAGAAAGCCTAATT
258 AAGAAAGCCTAATT
* * * *
1724581 AATTGTAAATGTCAAAATGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAAT-TTT
1 GATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTT
* *
1724645 TTTATAGAAAAAAAAGAAAGGCTGATTGATTGTAAATGTCAGACTGCAAGGATTAAACTAATGTA
66 TTTATAG-AAAAAAAGAAA-GCTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCA
* ** * * *
1724710 TGAATTATATCTGAGAAT-TTATTTTTTTTATATAAGAAAAAGAAAGAGTGATTGATTATAAATG
129 TGAATTATATCTGAGAATCATATACTTTTT-TAT---AAAAA-AAA-ATTGAATGATTGTAAATG
* * * *
1724774 TTAGACTACAAGAATTAGACTAATGTATGAATTATATCTGAGAATCGGATTCTTTTTTATAGGAA
188 TCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATA-GAA
*
1724839 AAAAGAAAGA
252 AAAAAAAAGA
1724849 CTGCAAGGAT
Statistics
Matches: 473, Mismatches: 49, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
268 8 0.02
269 79 0.17
270 5 0.01
271 70 0.15
272 6 0.01
273 67 0.14
274 144 0.30
275 14 0.03
276 4 0.01
277 68 0.14
278 8 0.02
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (271 bp):
GATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTT
TTTATAGAAAAAAAGAAAGCTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATG
AATTATATCTGAGAATCATATACTTTTTTATAAAAAAAAATTGAATGATTGTAAATGTCAGACTG
CAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAAAAG
AAAGCCTAATT
Found at i:1724705 original size:91 final size:91
Alignment explanation
Indices: 1724037--1724847 Score: 941
Period size: 89 Copynumber: 8.9 Consensus size: 91
1724027 TCTGAGAATC
* * * *
1724037 GATTGTAAATGTCAGACTGTAAGAATTAGACTAATGCATTAATTATATCTGATAATCAAATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTT
* **
1724102 TTTTATAG-AAAAAA-AAA-GTTGGCT
65 TTTTATAGAAAAAAAGAAAGGCTGATT
* * *
1724126 GATTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATACTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTT
* * *
1724191 TTTTATAG-GAAAAA-AAA-GTTGACT
65 TTTTATAGAAAAAAAGAAAGGCTGATT
* *
1724215 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATCTAAGAATCGAATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTT
* *
1724280 TTTTATAGAAAAAAAAAAGAAAGCCTAATT
65 TTTTATAG---AAAAAAAGAAAGGCTGATT
* * * *
1724310 GATTGTAAATGTTAGACTGAAAGGATTAGACTAATGTATGAATTATATCTAAGAATCAGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTT
* *
1724375 TTTTATAGAAGAAAAAGAAAGACAGATT
65 TTTTATAGAA-AAAAAGAAAGGCTGATT
* * *
1724403 GATTGTAAATGTCAGGCTGCAAGGATTAGACTAATGCATGAATTATATTTGAGAATCATATGCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCA-ATTCTT
* *
1724468 TTTTAT---AAAAAA-AAA--TTGAAT
65 TTTTATAGAAAAAAAGAAAGGCTGATT
* * *
1724489 GATTGTAAATGTCGGACTGCAAGGATTAAACTAATGCATGAATTATATCTGAGAATCGGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTT
* *
1724554 TTTTATAGAAAAAAAGAAAGCCTAATT
65 TTTTATAGAAAAAAAGAAAGGCTGATT
* * * * *
1724581 AATTGTAAATGTCAAAATGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAAT-TTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTT
1724645 TTTATAGAAAAAAAAGAAAGGCTGATT
66 TTTATAG-AAAAAAAGAAAGGCTGATT
* * **
1724672 GATTGTAAATGTCAGACTGCAAGGATTAAACTAATGTATGAATTATATCTGAGAATTTATT-TTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTT
*
1724736 TTTATATAAGAAAAAGAAAGAG-TGATT
66 TTTATAGAA-AAAAAGAAAG-GCTGATT
* * * * * *
1724763 GATTATAAATGTTAGACTACAAGAATTAGACTAATGTATGAATTATATCTGAGAATCGGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATC-AATTCTT
*
1724828 TTTTATAGGAAAAAAGAAAG
65 TTTTATAGAAAAAAAGAAAG
1724848 ACTGCAAGGA
Statistics
Matches: 626, Mismatches: 76, Indels: 37
0.85 0.10 0.05
Matches are distributed among these distances:
86 67 0.11
88 3 0.00
89 158 0.25
90 16 0.03
91 146 0.23
92 70 0.11
93 92 0.15
94 4 0.01
95 70 0.11
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.33
Consensus pattern (91 bp):
GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTT
TTTATAGAAAAAAAGAAAGGCTGATT
Found at i:1724863 original size:70 final size:70
Alignment explanation
Indices: 1724776--1724970 Score: 284
Period size: 70 Copynumber: 2.8 Consensus size: 70
1724766 TATAAATGTT
* *
1724776 AGACTACAAGAATTAGACTAATGTATGAATTATATCTGAGAATCGGATTCTTTTTTATAGGAAAA
1 AGACTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATA-GAAAA
1724841 -AAGAA
65 CAAGAA
* * *
1724846 AGACTGCAAGGATTAGACTAATGCATGAATTATATCTAAGAATCAGATTCTTTTTTATAGAAAAC
1 AGACTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAC
1724911 AAGAA
66 AAGAA
* * * *
1724916 AGACTGCAAGTATTAGACTAATGCATGAATTGTATATGATAATCGGATTTCTTTT
1 AGACTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATCGGA-TTCTTTT
1724971 GGTAAAAAAA
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
69 5 0.04
70 100 0.89
71 7 0.06
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (70 bp):
AGACTGCAAGAATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAC
AAGAA
Found at i:1725219 original size:15 final size:15
Alignment explanation
Indices: 1725199--1725227 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1725189 TTATTGTTAT
1725199 TTTCGTTCTCATTCA
1 TTTCGTTCTCATTCA
1725214 TTTCGTTCTCATTC
1 TTTCGTTCTCATTC
1725228 TTACTCCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.28, G:0.07, T:0.55
Consensus pattern (15 bp):
TTTCGTTCTCATTCA
Found at i:1728771 original size:19 final size:20
Alignment explanation
Indices: 1728742--1728779 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1728732 ATTAAAAATT
*
1728742 AATTAAAATATAATATAAAA
1 AATTAAAATATAACATAAAA
1728762 AATT-AAATATAACATAAA
1 AATTAAAATATAACATAAA
1728780 TATACAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTAAAATATAACATAAAA
Found at i:1728778 original size:24 final size:25
Alignment explanation
Indices: 1728735--1728783 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
1728725 ATGTAAAATT
* *
1728735 AAAAATTAATTAAAATAT-AATATA
1 AAAAATTAAATAAAACATAAATATA
*
1728759 AAAAATTAAATATAACATAAATATA
1 AAAAATTAAATAAAACATAAATATA
1728784 CAAATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAAATTAAATAAAACATAAATATA
Found at i:1728796 original size:46 final size:48
Alignment explanation
Indices: 1728746--1728862 Score: 120
Period size: 46 Copynumber: 2.5 Consensus size: 48
1728736 AAAATTAATT
1728746 AAAATATAATATAAAAAATTAAATATAACATA-AATA-TACAAAT-ATA
1 AAAATATAATATAAAAAATTAAATA-AACATATAATATTACAAATGATA
* * ** **
1728792 AAAATAT-GTAT-AAAAATTATATAAATTTATAATATTTTAAATGATA
1 AAAATATAATATAAAAAATTAAATAAACATATAATATTACAAATGATA
1728838 AAAATATAA-ATAAAAAATATAAATA
1 AAAATATAATATAAAAAAT-TAAATA
1728863 CTTAAATTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
43 4 0.07
44 15 0.26
45 8 0.14
46 19 0.33
47 6 0.11
48 5 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (48 bp):
AAAATATAATATAAAAAATTAAATAAACATATAATATTACAAATGATA
Found at i:1728855 original size:13 final size:13
Alignment explanation
Indices: 1728837--1728862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1728827 TTTAAATGAT
1728837 AAAAATATAAATA
1 AAAAATATAAATA
1728850 AAAAATATAAATA
1 AAAAATATAAATA
1728863 CTTAAATTTT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAATATAAATA
Found at i:1730509 original size:19 final size:20
Alignment explanation
Indices: 1730465--1730510 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1730455 ATAAATTGTC
*
1730465 ATTAAAATATTTTTATTATT
1 ATTAAAATATTTTAATTATT
*
1730485 AATAAAATATTTTAATT-TT
1 ATTAAAATATTTTAATTATT
1730504 ATTAAAA
1 ATTAAAA
1730511 GTGTTTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTAAAATATTTTAATTATT
Found at i:1730739 original size:17 final size:18
Alignment explanation
Indices: 1730719--1730756 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1730709 TTGAACACTG
*
1730719 AATAAATTT-TTTATTTT
1 AATAAATTTATTAATTTT
*
1730736 AATATATTTATTAATTTT
1 AATAAATTTATTAATTTT
1730754 AAT
1 AAT
1730757 TATTTCTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATAAATTTATTAATTTT
Found at i:1731160 original size:12 final size:12
Alignment explanation
Indices: 1731127--1731168 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1731117 TTTATAAAAA
*
1731127 ATATATATTTAT
1 ATATTTATTTAT
*
1731139 -TCTTTAATTTAT
1 ATATTT-ATTTAT
1731151 ATATTTATTTAT
1 ATATTTATTTAT
1731163 ATATTT
1 ATATTT
1731169 TTAAAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 3 0.12
12 18 0.72
13 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTTATTTAT
Found at i:1731168 original size:20 final size:20
Alignment explanation
Indices: 1731128--1731168 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1731118 TTATAAAAAA
*
1731128 TATATATTTATTCTTTAATT
1 TATATATTTATTCTATAATT
1731148 TATATATTTATT-TATATATT
1 TATATATTTATTCTATA-ATT
1731168 T
1 T
1731169 TTAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TATATATTTATTCTATAATT
Found at i:1731372 original size:11 final size:11
Alignment explanation
Indices: 1731356--1731392 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1731346 AGCTCAAATT
1731356 ATTATTTAAAA
1 ATTATTTAAAA
1731367 ATTATTTAAAA
1 ATTATTTAAAA
1731378 ATTA---AAAA
1 ATTATTTAAAA
1731386 ATTATTT
1 ATTATTT
1731393 TTATATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 8 0.35
11 15 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTATTTAAAA
Found at i:1731718 original size:22 final size:22
Alignment explanation
Indices: 1731688--1731754 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
1731678 AAATTTTTTT
1731688 AAATAAATATTAATTTATATAAA
1 AAAT-AATATTAATTTATATAAA
** *
1731711 AAATAATAAAAATATAT-TAAA
1 AAATAATATTAATTTATATAAA
* *
1731732 AAATTAATTTTATTTTAATATAA
1 AAA-TAATATTAATTT-ATATAA
1731755 GTGAATGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
21 7 0.21
22 17 0.52
23 6 0.18
24 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAATATTAATTTATATAAA
Found at i:1733080 original size:2 final size:2
Alignment explanation
Indices: 1733073--1733103 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1733063 ACTTTAGTTT
1733073 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1733104 TTATGTAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1734376 original size:2 final size:2
Alignment explanation
Indices: 1734362--1734405 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
1734352 TTGTACGAAC
*
1734362 TA TA TA -A TA -A TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1734402 TA TA
1 TA TA
1734406 GCCTTGCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1734835 original size:14 final size:15
Alignment explanation
Indices: 1734804--1734836 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1734794 ATTTTCTTAT
*
1734804 TTTATATATATTATA
1 TTTATATATATTAAA
1734819 TTTATATA-ATTAAA
1 TTTATATATATTAAA
1734833 TTTA
1 TTTA
1734837 AAATAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTATATATATTAAA
Found at i:1735520 original size:16 final size:16
Alignment explanation
Indices: 1735490--1735533 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
1735480 CTATTTTTTA
*
1735490 ATTATATAATTTAT-T
1 ATTATGTAATTTATAT
1735505 ATT-T-T-ATTTATAT
1 ATTATGTAATTTATAT
1735518 ATTATGTAATTTATAT
1 ATTATGTAATTTATAT
1735534 CATATAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 2 0.08
15 4 0.16
16 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTATGTAATTTATAT
Found at i:1740480 original size:17 final size:17
Alignment explanation
Indices: 1740458--1740493 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1740448 ATAAATATCT
* *
1740458 AATTAAACTGTCATTAA
1 AATTAAAATCTCATTAA
1740475 AATTAAAATCTCATTAA
1 AATTAAAATCTCATTAA
1740492 AA
1 AA
1740494 AAATAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (17 bp):
AATTAAAATCTCATTAA
Found at i:1744490 original size:14 final size:14
Alignment explanation
Indices: 1744447--1744491 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
1744437 AATTAAATTT
*
1744447 AATTATTTAATAT-
1 AATTATTTTATATA
* *
1744460 AATTATTTTTTAAA
1 AATTATTTTATATA
1744474 AATTATTTTATATA
1 AATTATTTTATATA
1744488 AATT
1 AATT
1744492 TAAATTTGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTATTTTATATA
Found at i:1745778 original size:20 final size:22
Alignment explanation
Indices: 1745747--1745803 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
1745737 ATATTATTCG
*
1745747 TTATATATATAATTACAA-TAAA
1 TTATA-ATATAATTAAAATTAAA
1745769 -TATAATATAATTAAAATTAAA
1 TTATAATATAATTAAAATTAAA
1745790 TTATAATCATAATT
1 TTATAAT-ATAATT
1745804 TTTAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 11 0.35
21 8 0.26
22 6 0.19
23 6 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATAATATAATTAAAATTAAA
Found at i:1747629 original size:3 final size:3
Alignment explanation
Indices: 1747621--1747661 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1747611 ATAATTTAAA
1747621 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1747662 ATCTTTGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1748126 original size:5 final size:5
Alignment explanation
Indices: 1748110--1748139 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
1748100 TATTATTTTT
1748110 TTAAA TTTAAA TTAAA TTAAA TTAAA TTAA
1 TTAAA -TTAAA TTAAA TTAAA TTAAA TTAA
1748140 TATTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:1748164 original size:12 final size:12
Alignment explanation
Indices: 1748149--1748195 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
1748139 ATATTTATTT
1748149 TATTATTTATAA
1 TATTATTTATAA
*
1748161 TATTA-TTAAAA
1 TATTATTTATAA
*
1748172 TATT-TTTATAT
1 TATTATTTATAA
*
1748183 TAATATTTATAA
1 TATTATTTATAA
1748195 T
1 T
1748196 TTTTATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 16 0.57
12 12 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTATTTATAA
Found at i:1748189 original size:22 final size:22
Alignment explanation
Indices: 1748149--1748208 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
1748139 ATATTTATTT
* *
1748149 TATTATTTATAATATTATTAAAA
1 TATT-TTTATATTAATATTAAAA
* *
1748172 TATTTTTATATTAATATTTATA
1 TATTTTTATATTAATATTAAAA
1748194 -ATTTTTATTATTAAT
1 TATTTTTA-TATTAAT
1748209 TAAATCACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 7 0.22
22 21 0.66
23 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTATATTAATATTAAAA
Found at i:1748748 original size:30 final size:31
Alignment explanation
Indices: 1748690--1748748 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
1748680 TGATAAGATT
* * *
1748690 TTTTTAGATTAAAACTAATTTTTGGATCTAA
1 TTTTTAGATTAAAACCAAATTTTAGATCTAA
*
1748721 TTTTTATA-TAAAACCAAATTTTAGATCT
1 TTTTTAGATTAAAACCAAATTTTAGATCT
1748749 CACCTTTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTTTAGATTAAAACCAAATTTTAGATCTAA
Found at i:1750475 original size:16 final size:16
Alignment explanation
Indices: 1750456--1750546 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 16
1750446 AATTCAAACT
* *
1750456 TAAAAGAATTTGAATC
1 TAAAATAATTTAAATC
* *
1750472 TAAAATTATTCAAATC
1 TAAAATAATTTAAATC
* * *
1750488 TAAAACAAATTAAAATA
1 TAAAA-TAATTTAAATC
*
1750505 TAAAATAATTTGAATC
1 TAAAATAATTTAAATC
* * * *
1750521 TAATATGATTCAAATT
1 TAAAATAATTTAAATC
1750537 TAAGAATAAT
1 TAA-AATAAT
1750547 CAAATTTGAA
Statistics
Matches: 54, Mismatches: 19, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
16 38 0.70
17 16 0.30
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (16 bp):
TAAAATAATTTAAATC
Found at i:1752751 original size:23 final size:23
Alignment explanation
Indices: 1752725--1752769 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1752715 TTTTTTATAA
1752725 AACTAAATATG-AAACGAAAATGC
1 AACTAAATATGAAAAC-AAAATGC
* *
1752748 AACTATATTTGAAAACAAAATG
1 AACTAAATATGAAAACAAAATG
1752770 GAAAAATGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (23 bp):
AACTAAATATGAAAACAAAATGC
Found at i:1753504 original size:17 final size:17
Alignment explanation
Indices: 1753477--1753516 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1753467 TCATTATAAA
*
1753477 AAATA-ATTTAAATTATT
1 AAATATATTAAAATT-TT
1753494 AAATATATTAAAATTTT
1 AAATATATTAAAATTTT
1753511 AAATAT
1 AAATAT
1753517 TAATATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATATTAAAATTTT
Found at i:1754552 original size:30 final size:31
Alignment explanation
Indices: 1754498--1754558 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
1754488 ATCAAAAAAA
1754498 TTAATTTATATCAAAATAAAATTTTTAATTT
1 TTAATTTATATCAAAATAAAATTTTTAATTT
*
1754529 TTAATTTGTATTC-AAAT-AAATTTTTAATTT
1 TTAATTTATA-TCAAAATAAAATTTTTAATTT
1754559 ATATTTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 13 0.46
31 13 0.46
32 2 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (31 bp):
TTAATTTATATCAAAATAAAATTTTTAATTT
Found at i:1754554 original size:23 final size:23
Alignment explanation
Indices: 1754524--1754579 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
1754514 TAAAATTTTT
* *
1754524 AATTTTTAATTTGTATTCAAATA
1 AATTTTTAATTTATATTCAAAGA
*
1754547 AATTTTTAATTTATATTTAAAGA
1 AATTTTTAATTTATATTCAAAGA
*
1754570 AATCTTTAAT
1 AATTTTTAAT
1754580 ATAAAGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (23 bp):
AATTTTTAATTTATATTCAAAGA
Found at i:1754817 original size:20 final size:21
Alignment explanation
Indices: 1754792--1754845 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1754782 ATAAGTATAT
1754792 ATAAAAATAAAATTAAAAA-A
1 ATAAAAATAAAATTAAAAATA
** *
1754812 ATAAAAATTTATTTAAAAATA
1 ATAAAAATAAAATTAAAAATA
1754833 ATAAAATATAAAA
1 ATAAAA-ATAAAA
1754846 AATAAAATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.62
21 7 0.27
22 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAAAATAAAATTAAAAATA
Found at i:1754817 original size:35 final size:36
Alignment explanation
Indices: 1754778--1754854 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
1754768 TTTTTTTGTT
*
1754778 TAAAATAAGTATATATAAA-AATAAAAT-TAAAAAAA
1 TAAAATAAGTATATAAAAATAATAAAATAT-AAAAAA
** *
1754813 TAAAA-ATTTATTTAAAAATAATAAAATATAAAAAA
1 TAAAATAAGTATATAAAAATAATAAAATATAAAAAA
1754848 TAAAATA
1 TAAAATA
1754855 TTAATGAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 9 0.26
35 24 0.69
36 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (36 bp):
TAAAATAAGTATATAAAAATAATAAAATATAAAAAA
Found at i:1754851 original size:14 final size:15
Alignment explanation
Indices: 1754827--1754855 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1754817 AATTTATTTA
1754827 AAAATAATAAAATAT
1 AAAATAATAAAATAT
1754842 AAAA-AATAAAATAT
1 AAAATAATAAAATAT
1754856 TAATGAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATAATAAAATAT
Found at i:1758386 original size:26 final size:26
Alignment explanation
Indices: 1758325--1758411 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 26
1758315 TACCAATATA
1758325 AATATAATTTTAATATTTTTTTAATTATT
1 AATA-AATTTTAATA-TTTTTT-ATTATT
*
1758354 --TATATTTTAATATTTTTTATTATT
1 AATAAATTTTAATATTTTTTATTATT
*
1758378 AATAAATTTTTAATTCATATTTTATTAGTT
1 AATAAA-TTTTAA-T-ATTTTTTATTA-TT
1758408 AATA
1 AATA
1758412 TAAATATAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
24 6 0.12
25 6 0.12
26 12 0.24
27 8 0.16
28 1 0.02
29 10 0.20
30 6 0.12
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (26 bp):
AATAAATTTTAATATTTTTTATTATT
Found at i:1762183 original size:2 final size:2
Alignment explanation
Indices: 1762176--1762217 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1762166 ATAATTTCTC
1762176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1762218 GCCTGGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1763303 original size:2 final size:2
Alignment explanation
Indices: 1763296--1763321 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1763286 GCCGACCTCA
1763296 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
1763322 TATTTTATAA
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:1768358 original size:18 final size:17
Alignment explanation
Indices: 1768337--1768377 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
1768327 ATATATTAAA
1768337 ATTTATATAATATAAATT
1 ATTTATATAATAT-AATT
*
1768355 ATTTATATATTATAATT
1 ATTTATATAATATAATT
1768372 -TTTATA
1 ATTTATA
1768378 AACATACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATATAATATAATT
Found at i:1768361 original size:16 final size:17
Alignment explanation
Indices: 1768329--1768378 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
1768319 ATATATAAAT
* *
1768329 ATATTAAAATTTATATA
1 ATATTATAATTTTTATA
1768346 ATA-TA-AATTATTTAT-
1 ATATTATAATT-TTTATA
1768361 ATATTATAATTTTTATA
1 ATATTATAATTTTTATA
1768378 A
1 A
1768379 ACATACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 7 0.25
16 13 0.46
17 8 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATTATAATTTTTATA
Found at i:1768389 original size:32 final size:31
Alignment explanation
Indices: 1768327--1768393 Score: 73
Period size: 32 Copynumber: 2.1 Consensus size: 31
1768317 TAATATATAA
*
1768327 ATATATTAAAATTTATATAATATAAATTATTT
1 ATATATTAAAATTTATATAACATAAATTA-TT
* * *
1768359 ATATATTATAATTTTTATAAACAT-ACTTATT
1 ATATATTAAAATTTATAT-AACATAAATTATT
1768390 ATAT
1 ATAT
1768394 TAAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 6 0.20
32 20 0.67
33 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
ATATATTAAAATTTATATAACATAAATTATT
Found at i:1769210 original size:24 final size:25
Alignment explanation
Indices: 1769183--1769231 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
1769173 TAATTTTTAT
*
1769183 TATTTAAATAA-AAAAATTAAAATA
1 TATTTAAATAAGAAAAAATAAAATA
*
1769207 TATTTATATAATGAAAAAATAAAAT
1 TATTTAAATAA-GAAAAAATAAAAT
1769232 GTTGCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
TATTTAAATAAGAAAAAATAAAATA
Found at i:1769592 original size:22 final size:23
Alignment explanation
Indices: 1769566--1769610 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1769556 ATTAATCATA
1769566 ATATAAAAA-TAAT-TAAAATATT
1 ATATAAAAATTAATGT-AAATATT
1769588 ATATAAAAATTAATGTAAATATT
1 ATATAAAAATTAATGTAAATATT
1769611 TATGTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 11 0.52
24 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATATAAAAATTAATGTAAATATT
Found at i:1769615 original size:12 final size:12
Alignment explanation
Indices: 1769581--1769623 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
1769571 AAAATAATTA
*
1769581 AAATA-TTATAT
1 AAATATTTATGT
* *
1769592 AAAAATTAATGT
1 AAATATTTATGT
1769604 AAATATTTATGT
1 AAATATTTATGT
1769616 AAATATTT
1 AAATATTT
1769624 TTATATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (12 bp):
AAATATTTATGT
Found at i:1769664 original size:23 final size:23
Alignment explanation
Indices: 1769624--1769667 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1769614 GTAAATATTT
*
1769624 TTATATTTATATAATTTAAATTA
1 TTATATTTATAAAATTTAAATTA
1769647 TTATA-TTATAAAATTTTAAAT
1 TTATATTTATAAAA-TTTAAAT
1769668 AAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATATTTATAAAATTTAAATTA
Found at i:1770737 original size:19 final size:21
Alignment explanation
Indices: 1770698--1770739 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
1770688 TTACATAATT
1770698 TAATATTTAATTAATTAAAAA
1 TAATATTTAATTAATTAAAAA
*
1770719 TAATA-TTATTTAA-TAAAAA
1 TAATATTTAATTAATTAAAAA
1770738 TA
1 TA
1770740 TGGACTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATATTTAATTAATTAAAAA
Found at i:1770737 original size:20 final size:21
Alignment explanation
Indices: 1770698--1770737 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1770688 TTACATAATT
*
1770698 TAATATTTAATTAATTAAAAA
1 TAATATTTAATTAATAAAAAA
*
1770719 TAATA-TTATTTAATAAAAA
1 TAATATTTAATTAATAAAAA
1770738 TATGGACTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATATTTAATTAATAAAAAA
Found at i:1771685 original size:33 final size:35
Alignment explanation
Indices: 1771648--1771730 Score: 82
Period size: 36 Copynumber: 2.3 Consensus size: 35
1771638 TTTGATAAAA
*
1771648 AAATATATATTA-TATTATTTAATTGATT-AAATT
1 AAATATATATTATTATTATTTAATTAATTAAAATT
* *
1771681 AAATAAAAATATTATTATTTTTTAATTAATTGAAAATT
1 AAAT--ATATATTATTATTATTTAATTAATT-AAAATT
1771719 AAA-ATATTATTA
1 AAATATA-TATTA
1771731 ATAAATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
33 4 0.10
35 9 0.22
36 19 0.47
38 8 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (35 bp):
AAATATATATTATTATTATTTAATTAATTAAAATT
Found at i:1771718 original size:38 final size:39
Alignment explanation
Indices: 1771646--1771721 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
1771636 TATTTGATAA
*
1771646 AAAAATATATATTATATTATTTAATTGATTAAATTAAAT
1 AAAAATATATATTATATTATTTAATTAATTAAATTAAAT
1771685 AAAAATAT-TATTAT-TT-TTTAATTAATTGAAAATTAAA
1 AAAAATATATATTATATTATTTAATTAATT--AAATTAAA
1771722 ATATTATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 10 0.29
37 2 0.06
38 14 0.41
39 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (39 bp):
AAAAATATATATTATATTATTTAATTAATTAAATTAAAT
Found at i:1771730 original size:11 final size:13
Alignment explanation
Indices: 1771718--1771762 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
1771708 AATTGAAAAT
1771718 TAAAATAT-TAT-
1 TAAAATATATATA
1771729 TAATAA-ATATATA
1 TAA-AATATATATA
*
1771742 TAAAATATAAATA
1 TAAAATATATATA
1771755 TAAAATAT
1 TAAAATAT
1771763 TAATTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 5 0.17
12 7 0.24
13 17 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATATATA
Found at i:1771896 original size:19 final size:19
Alignment explanation
Indices: 1771851--1771898 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
1771841 ATAGTTAAAA
*
1771851 ATTTA-AAATTAATATTTT
1 ATTTATAAATAAATATTTT
1771869 ATATTATAAATAAATATTTT
1 AT-TTATAAATAAATATTTT
1771889 ATTTATAAAT
1 ATTTATAAAT
1771899 TAAGTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.07
19 11 0.41
20 14 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTATAAATAAATATTTT
Found at i:1771990 original size:24 final size:26
Alignment explanation
Indices: 1771952--1772003 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
1771942 TAAAATAATT
*
1771952 AATTAATTTTATAAAATAACATTTAA
1 AATTAATTTTATAAAATAACACTTAA
*
1771978 AATT-ATTTT-TAAAATAATACTTAA
1 AATTAATTTTATAAAATAACACTTAA
1772002 AA
1 AA
1772004 AATATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
25 5 0.21
26 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
AATTAATTTTATAAAATAACACTTAA
Found at i:1772001 original size:12 final size:12
Alignment explanation
Indices: 1771963--1772009 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1771953 ATTAATTTTA
*
1771963 TAAAATAACATT
1 TAAAATAATATT
* *
1771975 TAAAATTATTTT
1 TAAAATAATATT
*
1771987 TAAAATAATACT
1 TAAAATAATATT
1771999 TAAAA-AATATT
1 TAAAATAATATT
1772010 ATTTTTGAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAAATAATATT
Found at i:1774298 original size:5 final size:5
Alignment explanation
Indices: 1774288--1774347 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
1774278 AATAATTTTA
* * * * *
1774288 AATAT AATAT AATA- AAAAT AATTAA AATAT TATAT ATTAT AAAAT AATAT
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT
1774338 AAATAT AATA
1 -AATAT AATA
1774348 AAAATATAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
4 3 0.07
5 31 0.74
6 8 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:1774307 original size:26 final size:26
Alignment explanation
Indices: 1774278--1774357 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 26
1774268 TTTCAAACAT
1774278 AATAATTTTAAATATAATATAATA-AA
1 AATAA-TTTAAATATAATATAATATAA
* * *
1774304 AATAATTAAAATATTATATATTATAA
1 AATAATTTAAATATAATATAATATAA
* *
1774330 AATAATATAAATATAATAAAAATATAA
1 AATAATTTAAATATAAT-ATAATATAA
1774357 A
1 A
1774358 CGCCAAATCT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 15 0.34
26 21 0.48
27 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AATAATTTAAATATAATATAATATAA
Found at i:1774649 original size:3 final size:3
Alignment explanation
Indices: 1774636--1774667 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
1774626 AAAGAAATCA
1774636 TCT TCCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT T
1774668 ATTATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:1774672 original size:3 final size:3
Alignment explanation
Indices: 1774666--1774704 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1774656 CTTCTTCTTC
1774666 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1774705 AAATAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1774848 original size:24 final size:24
Alignment explanation
Indices: 1774802--1774849 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1774792 ATATAAAAAT
*
1774802 AATATAATAAATATTATATATTTA
1 AATATAATAAATATTATACATTTA
*
1774826 AATATAATTAATA-TATTACATTTA
1 AATATAATAAATATTA-TACATTTA
1774850 TTGTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
AATATAATAAATATTATACATTTA
Found at i:1775301 original size:52 final size:53
Alignment explanation
Indices: 1775206--1775308 Score: 129
Period size: 52 Copynumber: 1.9 Consensus size: 53
1775196 TTAATATCTT
* * *
1775206 AATTATATTAATCATAAATATTAATATTTTTAATATATATTTAATAATTAAAAA
1 AATTATATTAA-CAAAAATATTAAAATTTTTAATATATATTTAAAAATTAAAAA
* *
1775260 AATTATATTAA-AAAAATATTAAAATATTTT-CTATTTATTTAAAAATTAA
1 AATTATATTAACAAAAATATTAAAAT-TTTTAATATATATTTAAAAATTAA
1775309 TATGTATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
52 28 0.65
53 4 0.09
54 11 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (53 bp):
AATTATATTAACAAAAATATTAAAATTTTTAATATATATTTAAAAATTAAAAA
Found at i:1775668 original size:24 final size:23
Alignment explanation
Indices: 1775615--1775664 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 23
1775605 TTTTCATGAT
1775615 TTATAAAATTTATTGAATTTTTAA
1 TTATAAAATTTATT-AATTTTTAA
1775639 TTATAAAATTTTATT-ATTTTTAA
1 TTATAAAA-TTTATTAATTTTTAA
1775662 TTA
1 TTA
1775665 ATAATAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 11 0.44
24 8 0.32
25 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATAAAATTTATTAATTTTTAA
Found at i:1778685 original size:33 final size:32
Alignment explanation
Indices: 1778648--1778723 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
1778638 TTAGTCACGA
*
1778648 TTATAAAATAAAAATAAA-ATATATATTTTAAAT
1 TTATAAAATAAAAATAAATA-ATATA-TTAAAAT
* * *
1778681 TTATATAATATAAATAATTAATATATTAAAAT
1 TTATAAAATAAAAATAAATAATATATTAAAAT
1778713 TTATATAAATA
1 TTATA-AAATA
1778724 TATAATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 11 0.31
33 24 0.67
34 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
TTATAAAATAAAAATAAATAATATATTAAAAT
Found at i:1778699 original size:18 final size:18
Alignment explanation
Indices: 1778678--1778742 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 18
1778668 ATATATTTTA
1778678 AATTTATATAATATAAAT
1 AATTTATATAATATAAAT
*
1778696 AA-TTA-AT-ATATTAA-
1 AATTTATATAATATAAAT
1778710 AATTTATATAAATATATAAT
1 AATTTATAT-AATATA-AAT
1778730 -ATTT-TA-AATATAA
1 AATTTATATAATATAA
1778743 TTATAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 15
0.70 0.04 0.27
Matches are distributed among these distances:
14 2 0.05
15 10 0.26
16 10 0.26
17 3 0.08
18 8 0.21
19 6 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTTATATAATATAAAT
Found at i:1778776 original size:14 final size:14
Alignment explanation
Indices: 1778683--1778778 Score: 65
Period size: 14 Copynumber: 6.9 Consensus size: 14
1778673 TTTTAAATTT
*
1778683 ATATAATATAAATA
1 ATATAATATAAAAA
*
1778697 AT-TAATATATTAAA
1 ATATAATATA-AAAA
* *
1778711 AT-TTATAT-AAAT
1 ATATAATATAAAAA
***
1778723 ATATAATATTTTAA
1 ATATAATATAAAAA
1778737 ATATAATTATAATAAA
1 ATATAA-TATAA-AAA
1778753 ATA-AATTATAAAAA
1 ATATAA-TATAAAAA
1778767 ATATAATATAAA
1 ATATAATATAAA
1778779 TATATAAATT
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
12 4 0.06
13 12 0.19
14 30 0.47
15 13 0.20
16 5 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAATATAAAAA
Found at i:1778783 original size:57 final size:58
Alignment explanation
Indices: 1778649--1778793 Score: 155
Period size: 57 Copynumber: 2.6 Consensus size: 58
1778639 TAGTCACGAT
* *
1778649 TATAAAATA-AAAATAAA-ATAT-ATATTTTAAATTTATATAATATAAATAATTAATA
1 TATAAAATATAATATAAATATATAATATTTTAAATTAATATAATATAAATAATTAATA
*
1778704 TATTAAAAT-TTATATAAATATATAATATTTTAAATATAATTATAATA-AAATAAATT-ATA
1 TA-TAAAATATAATATAAATATATAATATTTTAAAT-TAA-TATAATATAAAT-AATTAATA
1778763 -A-AAAATATAATATAAATATATAA-ATTATTAA
1 TATAAAATATAATATAAATATATAATATT-TTAA
1778794 TCTTATATTT
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
55 2 0.03
56 20 0.26
57 23 0.30
58 12 0.16
59 9 0.12
60 11 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (58 bp):
TATAAAATATAATATAAATATATAATATTTTAAATTAATATAATATAAATAATTAATA
Found at i:1780128 original size:37 final size:37
Alignment explanation
Indices: 1780058--1780128 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
1780048 ATTATTTTTA
* *
1780058 TATTTTAAAATATTATAAATTTTATATATTAATAACT
1 TATTTTAAAATATTATAAATTTGAAATATTAATAACT
*
1780095 TATTTTAAAATATTGATATATTTGAAATA-TAATA
1 TATTTTAAAATATT-ATAAATTTGAAATATTAATA
1780129 TATAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 19 0.63
38 11 0.37
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (37 bp):
TATTTTAAAATATTATAAATTTGAAATATTAATAACT
Found at i:1780708 original size:15 final size:14
Alignment explanation
Indices: 1780679--1780721 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
1780669 TTAAATTATT
*
1780679 TATATATTTTTTAA
1 TATATATTTTATAA
1780693 TATATAATTTTATAA
1 TATAT-ATTTTATAA
*
1780708 TAT-TATTTTTTAA
1 TATATATTTTATAA
1780721 T
1 T
1780722 TAAATTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 9 0.35
14 6 0.23
15 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATATTTTATAA
Found at i:1780714 original size:28 final size:25
Alignment explanation
Indices: 1780667--1780736 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 25
1780657 AAAGTAGGAA
*
1780667 AATTAAATT-AT-TTATATATTTTTT
1 AATTAAATTGATAATAT-TATTTTTT
*
1780691 AATATATAATTTTATAATATTATTTTTT
1 AAT-TA-AA-TTGATAATATTATTTTTT
1780719 AATTAAATTGATAATATT
1 AATTAAATTGATAATATT
1780737 TAACTTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 3 0.08
25 12 0.31
26 4 0.10
27 4 0.10
28 13 0.33
29 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (25 bp):
AATTAAATTGATAATATTATTTTTT
Found at i:1781048 original size:16 final size:17
Alignment explanation
Indices: 1781023--1781071 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
1781013 ACATTTACAG
* *
1781023 TTTATATTATATT-TTA
1 TTTATTTTATATTATAA
1781039 TTTATTTTATATTATAA
1 TTTATTTTATATTATAA
* *
1781056 TTTAATTTATCTTATA
1 TTTATTTTATATTATA
1781072 TTTCTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATTTTATATTATAA
Found at i:1781063 original size:22 final size:21
Alignment explanation
Indices: 1781023--1781073 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
1781013 ACATTTACAG
*
1781023 TTTATATTATATTTTATTTAT
1 TTTATATTATATTTAATTTAT
1781044 TTTATATTATAATTTAATTTAT
1 TTTATATTAT-ATTTAATTTAT
*
1781066 CTTATATT
1 TTTATATT
1781074 TCTATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATATTATATTTAATTTAT
Found at i:1784820 original size:6 final size:6
Alignment explanation
Indices: 1784786--1784812 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1784776 TCTTTGATGT
1784786 TCCCTC TCCCTC TCCCTC TCCCTC TCC
1 TCCCTC TCCCTC TCCCTC TCCCTC TCC
1784813 TCTTCCTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCCTC
Found at i:1784831 original size:23 final size:23
Alignment explanation
Indices: 1784788--1784831 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1784778 TTTGATGTTC
*
1784788 CCTCTCCCTCTCCCTCTCCCTCT
1 CCTCTCCCTCTCCCTCCCCCTCT
*
1784811 CCTCTTCCTC-CCACTCCCCCT
1 CCTCTCCCTCTCC-CTCCCCCT
1784832 ACCCGTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.02, C:0.66, G:0.00, T:0.32
Consensus pattern (23 bp):
CCTCTCCCTCTCCCTCCCCCTCT
Found at i:1786144 original size:20 final size:20
Alignment explanation
Indices: 1786085--1786144 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
1786075 TCGGATATAA
* *
1786085 TATATATTTGATATGAATTTT
1 TATATATTT-AAAAGAATTTT
* *
1786106 T-TATTTTTAAAA-TATTTT
1 TATATATTTAAAAGAATTTT
1786124 TATATATTTAAAAGAATTTT
1 TATATATTTAAAAGAATTTT
1786144 T
1 T
1786145 GACTATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 6 0.19
19 12 0.39
20 12 0.39
21 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TATATATTTAAAAGAATTTT
Found at i:1786513 original size:78 final size:78
Alignment explanation
Indices: 1786383--1786538 Score: 217
Period size: 78 Copynumber: 2.0 Consensus size: 78
1786373 ATGAAATCCC
* * * *
1786383 TAAATTTAGCTTTGGTAGTTTTCAATCCGTTGATTTTTCTTATTTACTCAAATTTAACTTTGTGT
1 TAAATTTAGCTTTGGCAATTTTCAATCCGTTGATTTTTCTTAATTACCCAAATTTAACTTTGTGT
1786448 TCAATTAAGTCCT
66 TCAATTAAGTCCT
*
1786461 TAAATTTAGCTTTGGCAATTTTCAATCC-TATGATTTTT-TGTAATTACCCAAATTTATCTTTGT
1 TAAATTTAGCTTTGGCAATTTTCAATCCGT-TGATTTTTCT-TAATTACCCAAATTTAACTTTGT
* *
1786524 GTTCACTTGAGTCCT
64 GTTCAATTAAGTCCT
1786539 AACTAGTTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
77 2 0.03
78 67 0.97
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (78 bp):
TAAATTTAGCTTTGGCAATTTTCAATCCGTTGATTTTTCTTAATTACCCAAATTTAACTTTGTGT
TCAATTAAGTCCT
Found at i:1786917 original size:22 final size:22
Alignment explanation
Indices: 1786870--1786918 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
1786860 ATAACAATGT
* **
1786870 TTTATATTAATATTTATATATT
1 TTTATATTAATATTTAAATAAA
1786892 TTTATAATTAA-ATTTAAATAAA
1 TTTAT-ATTAATATTTAAATAAA
1786914 TTTAT
1 TTTAT
1786919 TACTATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATATTAATATTTAAATAAA
Found at i:1790144 original size:2 final size:2
Alignment explanation
Indices: 1790137--1790167 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1790127 GAAGAAGGTG
1790137 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1790168 ATCAATGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1798017 original size:11 final size:11
Alignment explanation
Indices: 1798003--1798028 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1797993 GATGTTCTTT
1798003 TGAAAGAAATG
1 TGAAAGAAATG
1798014 TGAAAGAAATG
1 TGAAAGAAATG
1798025 TGAA
1 TGAA
1798029 CTATGTGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.27, T:0.19
Consensus pattern (11 bp):
TGAAAGAAATG
Found at i:1799120 original size:14 final size:14
Alignment explanation
Indices: 1799101--1799145 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
1799091 AATATGATAT
*
1799101 AAATAAAATAATTA
1 AAATAATATAATTA
1799115 AAATAATATAA-TA
1 AAATAATATAATTA
* *
1799128 AAATTATATAATAA
1 AAATAATATAATTA
1799142 AAAT
1 AAAT
1799146 TATAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAATATAATTA
Found at i:1799146 original size:14 final size:13
Alignment explanation
Indices: 1799108--1799158 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
1799098 TATAAATAAA
*
1799108 ATAATTAAAATAAT
1 ATAA-TAAAATTAT
1799122 ATAATAAAATTAT
1 ATAATAAAATTAT
1799135 ATAATAAAAATTAT
1 ATAAT-AAAATTAT
1799149 A-AA-AAAATTA
1 ATAATAAAATTA
1799159 AAATTTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
11 7 0.20
13 15 0.43
14 13 0.37
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAAAATTAT
Found at i:1799155 original size:12 final size:14
Alignment explanation
Indices: 1799108--1799149 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
1799098 TATAAATAAA
* *
1799108 ATAATTAAAATAAT
1 ATAATAAAAATTAT
1799122 ATAAT-AAAATTAT
1 ATAATAAAAATTAT
1799135 ATAATAAAAATTAT
1 ATAATAAAAATTAT
1799149 A
1 A
1799150 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATAAAAATTAT
Found at i:1799177 original size:17 final size:17
Alignment explanation
Indices: 1799097--1799214 Score: 66
Period size: 18 Copynumber: 6.8 Consensus size: 17
1799087 TATAAATATG
* *
1799097 ATATAAATAAAATAATTA
1 ATATAAATATAA-AATTT
*
1799115 AAATAATATAATAAAA-TT
1 ATATAA-AT-ATAAAATTT
1799133 ATAT-AATA-AAAA-TT
1 ATATAAATATAAAATTT
* *
1799147 ATAAAAAAATTAAAATTT
1 ATATAAATA-TAAAATTT
*
1799165 ATATAAATATAAAATAGT
1 ATATAAATATAAAAT-TT
*
1799183 -TATAAATATAATAAATAT
1 ATATAAATAT-A-AAATTT
1799201 ATAATAAATATAAA
1 AT-ATAAATATAAA
1799215 TATATAAATT
Statistics
Matches: 79, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
14 9 0.11
15 4 0.05
16 2 0.03
17 20 0.25
18 23 0.29
19 10 0.13
20 11 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (17 bp):
ATATAAATATAAAATTT
Found at i:1799196 original size:26 final size:25
Alignment explanation
Indices: 1799164--1799223 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
1799154 AATTAAAATT
**
1799164 TATATAAATATAAAATAGTTATAAA
1 TATATAAATATAAAATAAATATAAA
*
1799189 TATAATAAATATATAATAAATATAAA
1 TAT-ATAAATATAAAATAAATATAAA
1799215 TATATAAAT
1 TATATAAAT
1799224 TATTGAATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 9 0.29
26 22 0.71
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
TATATAAATATAAAATAAATATAAA
Found at i:1799198 original size:9 final size:9
Alignment explanation
Indices: 1799088--1799213 Score: 52
Period size: 9 Copynumber: 14.1 Consensus size: 9
1799078 ACATGATTAT
1799088 ATAAATATGA
1 ATAAATAT-A
*
1799098 TATAAATAAA
1 -ATAAATATA
* *
1799108 ATAATTAAA
1 ATAAATATA
1799117 AT-AATATA
1 ATAAATATA
*
1799125 ATAAA-ATT
1 ATAAATATA
1799133 ATATAATA-A
1 ATA-AATATA
*
1799142 A-AATTATA
1 ATAAATATA
* *
1799150 A-AAAAATT
1 ATAAATATA
*
1799158 A-AAATTTA
1 ATAAATATA
1799166 TATAAATAT-
1 -ATAAATATA
*
1799175 A-AAATAGTT
1 ATAAATA-TA
1799184 ATAAATATA
1 ATAAATATA
1799193 ATAAATATATA
1 AT-AA-ATATA
1799204 ATAAATATA
1 ATAAATATA
1799213 A
1 A
1799214 ATATATAAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
7 8 0.09
8 25 0.28
9 26 0.29
10 16 0.18
11 14 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAAATATA
Found at i:1799202 original size:11 final size:11
Alignment explanation
Indices: 1799188--1799216 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1799178 ATAGTTATAA
1799188 ATATAATAAAT
1 ATATAATAAAT
1799199 ATATAATAAAT
1 ATATAATAAAT
1799210 ATA-AATA
1 ATATAATA
1799217 TATAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATATAATAAAT
Found at i:1802690 original size:19 final size:19
Alignment explanation
Indices: 1802666--1802734 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 19
1802656 AACTAAAACC
1802666 TAATTAAA-AATTTATAATA
1 TAATTAAATAATTTATAA-A
1802685 TAATTAAAATTAATTTCATAAA
1 TAATT-AAA-TAATTT-ATAAA
1802707 T-ATTAAATAATTTATAAA
1 TAATTAAATAATTTATAAA
1802725 -AATATAAATA
1 TAAT-TAAATA
1802735 TTCATTTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.16
19 17 0.39
20 6 0.14
21 3 0.07
22 7 0.16
23 4 0.09
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATTAAATAATTTATAAA
Found at i:1802932 original size:14 final size:16
Alignment explanation
Indices: 1802904--1802940 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1802894 AAGTTTTTTA
1802904 ATTT-TTTTTCTCTTT
1 ATTTATTTTTCTCTTT
1802919 -TTTATTTTTC-CTTT
1 ATTTATTTTTCTCTTT
1802933 ATTTATTT
1 ATTTATTT
1802941 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTATTTTTCTCTTT
Found at i:1803321 original size:19 final size:18
Alignment explanation
Indices: 1803299--1803336 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
1803289 AAATTAATAA
1803299 AATAATTATTTATATTTTT
1 AATAATTATTTA-ATTTTT
*
1803318 AATAATTTTTTAATTTTT
1 AATAATTATTTAATTTTT
1803336 A
1 A
1803337 TAAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATAATTATTTAATTTTT
Found at i:1804982 original size:26 final size:23
Alignment explanation
Indices: 1804953--1805003 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
1804943 TAATTGAATA
*
1804953 AAAATTAACATATAAATATATTTTTT
1 AAAA-TAACA-ATAAA-ATAATTTTT
*
1804979 AAAATAATAATAAAATAATTTTT
1 AAAATAACAATAAAATAATTTTT
1805002 AA
1 AA
1805004 TTAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 10 0.43
24 5 0.22
25 4 0.17
26 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATAACAATAAAATAATTTTT
Found at i:1805632 original size:18 final size:19
Alignment explanation
Indices: 1805596--1805643 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
1805586 ATAAATTTTT
**
1805596 TAAATTTTAAAATAAATTA
1 TAAATTTTATTATAAATTA
*
1805615 -AAATTTTATTATACATTA
1 TAAATTTTATTATAAATTA
*
1805633 TATATTTTATT
1 TAAATTTTATT
1805644 TTTAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATTTTATTATAAATTA
Found at i:1805641 original size:19 final size:17
Alignment explanation
Indices: 1805610--1805663 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
1805600 TTTTAAAATA
*
1805610 AATTAAAATTTTATTAT
1 AATTAATATTTTATTAT
*
1805627 ACATTATATATTTTATTTTT
1 A-ATTA-ATATTTTA-TTAT
1805647 AATTAAT-TTTTATTAT
1 AATTAATATTTTATTAT
1805663 A
1 A
1805664 TGTAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.13
17 6 0.19
18 6 0.19
19 11 0.35
20 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTAATATTTTATTAT
Found at i:1811112 original size:26 final size:25
Alignment explanation
Indices: 1811069--1811122 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
1811059 ATATATTTAA
* *
1811069 ATTTTTTATATATTTTTAAATATCAT
1 ATTTTATATATATATTTAAATAT-AT
*
1811095 ATTTTATATTTATATTTAAATATAT
1 ATTTTATATATATATTTAAATATAT
1811120 ATT
1 ATT
1811123 AAATATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTTATATATATATTTAAATATAT
Found at i:1811128 original size:25 final size:26
Alignment explanation
Indices: 1811083--1811135 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
1811073 TTTATATATT
** *
1811083 TTTAAATATCATATTTTATATTTATA
1 TTTAAATATCATATTAAATATTAATA
1811109 TTTAAATAT-ATATTAAATATTAATA
1 TTTAAATATCATATTAAATATTAATA
1811134 TT
1 TT
1811136 AATCACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTAAATATCATATTAAATATTAATA
Found at i:1811756 original size:16 final size:16
Alignment explanation
Indices: 1811707--1811759 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
1811697 ATTCGATATA
1811707 AATAAAATATTTAAATAT
1 AATAAAA-ATTTAAA-AT
* **
1811725 TATATAAAATAAAAAAT
1 AATA-AAAATTTAAAAT
1811742 AATAAAAATTTAAAAT
1 AATAAAAATTTAAAAT
1811758 AA
1 AA
1811760 ATATATTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 12 0.43
17 5 0.18
18 8 0.29
19 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAAAAATTTAAAAT
Found at i:1811783 original size:29 final size:31
Alignment explanation
Indices: 1811746--1811814 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 31
1811736 AAAAATAATA
1811746 AAAATTTAA-AATA-AATATATTAATATATT
1 AAAATTTAATAATATAATATATTAATATATT
*
1811775 AAAATTTAAATAATATAATTTATTAATATATT
1 AAAATTT-AATAATATAATATATTAATATATT
*
1811807 CAAATTTA
1 AAAATTTA
1811815 TGTTATAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.20
30 2 0.06
31 5 0.14
32 21 0.60
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
AAAATTTAATAATATAATATATTAATATATT
Found at i:1811796 original size:14 final size:14
Alignment explanation
Indices: 1811738--1811796 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
1811728 ATAAAATAAA
1811738 AAATAATAAAAATTT
1 AAATAAT-AAAATTT
1811753 -AA-AATAAATATATT
1 AAATAATAAA-AT-TT
*
1811767 AATATATTAAAATTT
1 AA-ATAATAAAATTT
*
1811782 AAATAATATAATTT
1 AAATAATAAAATTT
1811796 A
1 A
1811797 TTAATATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
12 3 0.08
13 5 0.14
14 15 0.42
15 5 0.14
16 3 0.08
17 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATAATAAAATTT
Found at i:1815872 original size:54 final size:54
Alignment explanation
Indices: 1815785--1815893 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
1815775 TCTACCTTCC
*
1815785 TGTTTTCAAGCTCCAATATTTCCCAACAGTTTATTAGTTCCTTTCAATCCTAAT
1 TGTTTTCAAGCTCCAATATTTCCCAACAATTTATTAGTTCCTTTCAATCCTAAT
1815839 TGTTTTCAAGCTCCAATATTTCCCAACAATTTATTAGTTCCTTTCAATCCTAAT
1 TGTTTTCAAGCTCCAATATTTCCCAACAATTTATTAGTTCCTTTCAATCCTAAT
1815893 T
1 T
1815894 CATTTCAGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (54 bp):
TGTTTTCAAGCTCCAATATTTCCCAACAATTTATTAGTTCCTTTCAATCCTAAT
Found at i:1823303 original size:21 final size:21
Alignment explanation
Indices: 1823279--1823323 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1823269 ATAAAGTTTT
*
1823279 AATTTATTTATTAAATTA-AAA
1 AATTTA-TAATTAAATTATAAA
*
1823300 AATTTATAATTAATTTATAAA
1 AATTTATAATTAAATTATAAA
1823321 AAT
1 AAT
1823324 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTATAATTAAATTATAAA
Found at i:1823325 original size:17 final size:17
Alignment explanation
Indices: 1823305--1823353 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
1823295 TAAAAAATTT
1823305 ATAATTAATTTATAAAA
1 ATAATTAATTTATAAAA
*
1823322 ATAATT-TTTTAATAAAA
1 ATAATTAATTT-ATAAAA
1823339 AT-A-TAATTTAGTAAA
1 ATAATTAATTTA-TAAA
1823354 TTTATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 2 0.07
16 11 0.41
17 14 0.52
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTAATTTATAAAA
Found at i:1825731 original size:26 final size:26
Alignment explanation
Indices: 1825683--1825732 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1825673 TAGGTTTAGG
* *
1825683 TATAAATATTTAATATAACATATTTT
1 TATAAAAATTTAATAAAACATATTTT
* *
1825709 TATAAAAATTTATTAAAATATATT
1 TATAAAAATTTAATAAAACATATT
1825733 GATATTAACT
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:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
TATAAAAATTTAATAAAACATATTTT
Found at i:1826341 original size:43 final size:42
Alignment explanation
Indices: 1826294--1826384 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 42
1826284 TAAATTTTAT
* * *
1826294 AAAATTAAAT-TAAATACATGTGATAAAATATTATAAAAATTAA
1 AAAATTAAATATAAA-ACATATAACAAAATATTATAAAAA-TAA
* * *
1826337 AAAATTTAATATAAAATATATAACAAATTATTATAAAAATAA
1 AAAATTAAATATAAAACATATAACAAAATATTATAAAAATAA
1826379 AAAATT
1 AAAATT
1826385 GATATTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 28 0.68
44 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (42 bp):
AAAATTAAATATAAAACATATAACAAAATATTATAAAAATAA
Found at i:1826373 original size:22 final size:21
Alignment explanation
Indices: 1826322--1826384 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
1826312 TGTGATAAAA
1826322 TATTATAAAAATTAAAAAATT
1 TATTATAAAAATTAAAAAATT
* *
1826343 TAATATAAAATATATAACAAA-T
1 TATTATAAAA-AT-TAAAAAATT
1826365 TATTATAAAAA-TAAAAAATT
1 TATTATAAAAATTAAAAAATT
1826385 GATATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 6 0.17
20 1 0.03
21 10 0.29
22 12 0.34
23 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TATTATAAAAATTAAAAAATT
Done.