Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 87 of 187
Found at i:25963883 original size:44 final size:44
Alignment explanation
Indices: 25963803--25964238 Score: 338
Period size: 44 Copynumber: 9.7 Consensus size: 44
25963793 ATCATCATGG
* * * * *
25963803 CAAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * *
25963847 CAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * *
25963891 GCAAATCTTATCTCTCTGAAGTTTCAGTAGAGTAGATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * *
25963936 CAAACCTTGTCTCCCTGAAGATGCAGTGGAGCAGGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGCTA
** ** * * *
25963981 GCAAATCTTATCTCTTTGAAGTTGCAGTAAAGTATATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * * **
25964026 TAAGTCTTATCACCCTGAAGTTCCAGTAGAGCAGATTGAATATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * *
25964070 GCGAA-CATTATTTCCCTGAAGTTGCAGTGTAACAGATTAAAGCTACAAGTTA
1 -CAAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGCTA
* *
25964122 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
*
25964166 CAAATCTTATCT-CCTCGAAGTTGCAGTGGAGCAGATTGAAGCGA
1 CAAATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAGCTA
* ** *
25964210 CAATTCCCATAC-CCCTGAAGTTACAGTGG
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGG
25964239 GTTAGAACAG
Statistics
Matches: 305, Mismatches: 71, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
43 3 0.01
44 157 0.51
45 83 0.27
46 25 0.08
48 2 0.01
51 30 0.10
52 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
Found at i:25963921 original size:89 final size:89
Alignment explanation
Indices: 25963802--25964212 Score: 461
Period size: 89 Copynumber: 4.5 Consensus size: 89
25963792 AATCATCATG
*
25963802 GCAAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
*
25963867 TTGCAATGGAGCAGATTGAAGATA
66 TTGCAGTGGAGCAGATTGAAGATA
* *
25963891 GCAAATCTTATCTCTCTGAAGTTTCAGTAGAGTAGATTAAAGCTACAAACCTTGTCTCCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
*
25963956 ATGCAGTGGAGCAGGATTGAAGATA
66 TTGCAGTGGAGCA-GATTGAAGATA
* * * * ** *
25963981 GCAAATCTTATCTCTTTGAAGTTGCAGTAAAGTATATTAAAGCTATAAGTCTTATCACCCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
* * *
25964046 TTCCAGTAGAGCAGATTGAATATA
66 TTGCAGTGGAGCAGATTGAAGATA
* * * **
25964070 GCGAA-CATTATTTCCCTGAAGTTGCAGT-GTAACAGATTAAAGCTACAAGTTACAAATCTTATC
1 GCAAATC-TTATCTCTCTGAAGTTGCAGTAG-AGTAGATTAAAGCTACAA---AC----CTTATC
* *
25964133 TCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTA
57 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
25964166 -CAAATCTTATCTC-CTCGAAGTTGCAGTGGAGCAGATTGAAGCGACAA
1 GCAAATCTTATCTCTCT-GAAGTTGCAGTAGAGTAGATTAAAGCTACAA
25964213 TTCCCATACC
Statistics
Matches: 270, Mismatches: 39, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
88 1 0.00
89 120 0.44
90 77 0.29
94 2 0.01
95 35 0.13
96 35 0.13
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (89 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTGAAGATA
Found at i:25964109 original size:179 final size:180
Alignment explanation
Indices: 25963692--25964192 Score: 478
Period size: 179 Copynumber: 2.7 Consensus size: 180
25963682 AGTGGAGCGT
* * * * *
25963692 ATTGAAGAT-GCGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATAAAAGCTACAAGTCACAA
1 ATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAA-T-AC--
* * * *
25963756 ATCTTATAC-CCCTGAAGTTGCAGTGG-GACGGATTGAAATCATCATGGCAAATCTTATCTCTCT
62 A-CTTAT-CTCCCTGAAGATGCAGTGGAG-CAGATTG-AA-GAT-A--GCAAATCTTATCTCTTT
* * * * *
25963819 GAAGTTACAGTAGAGTAGATTAAAGCTACAAACCTTATCTCCCTGAAGTTGCAATGGAGCAG
119 GAAGTTGCAGTAAAGTAGATTAAAGCTACAAACCTTATCACCCTGAAGTTCCAATAGAGCAG
* * **
25963881 ATTGAAGATAGCAAATCTTATCTCTCTGAAGTTTCAGTAGAGTAGATTAAAGCTACAA-AC-CTT
1 ATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAATACACTT
*
25963944 GTCTCCCTGAAGATGCAGTGGAGCAGGATTGAAGATAGCAAATCTTATCTCTTTGAAGTTGCAGT
66 ATCTCCCTGAAGATGCAGTGGAGCA-GATTGAAGATAGCAAATCTTATCTCTTTGAAGTTGCAGT
* * ** *
25964009 AAAGTATATTAAAGCTATAAGTCTTATCACCCTGAAGTTCCAGTAGAGCAG
130 AAAGTAGATTAAAGCTACAAACCTTATCACCCTGAAGTTCCAATAGAGCAG
* * *
25964060 ATTGAATATAGCGAA-CATTATTTCCCTGAAGTTGCAGT-GTAACAGATTAAAGCTACAAGTTAC
1 ATTGAAGATAGCAAATC-TTATCTCCCTGAAGTTGCAGTAG-AACAGATTAAAGCTACAA--TAC
* * * * *
25964123 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCCTCGAAGT
62 --A-CTTATCTCCCTGAAGATGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGT
25964187 TGCAGT
124 TGCAGT
25964193 GGAGCAGATT
Statistics
Matches: 264, Mismatches: 35, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
178 2 0.01
179 115 0.44
181 1 0.00
182 5 0.02
183 23 0.09
184 31 0.12
185 10 0.04
186 25 0.09
187 2 0.01
189 9 0.03
190 41 0.16
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (180 bp):
ATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAATACACTT
ATCTCCCTGAAGATGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTTGCAGTA
AAGTAGATTAAAGCTACAAACCTTATCACCCTGAAGTTCCAATAGAGCAG
Found at i:25964158 original size:51 final size:49
Alignment explanation
Indices: 25963704--25964212 Score: 175
Period size: 44 Copynumber: 10.9 Consensus size: 49
25963694 TGAAGATGCG
* ** * *
25963704 AATCTTATTTCCCTGAAGTTGCAGTGGAATAGATAAAAGCTACAAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGC-ACAAGTTACA
* * **
25963755 AATCTTATAC-CCCTGAAGTTGCAGTGG-GACGGATTGAAATCATC-A-TGGCA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATT--AAGCA-CAAGTTACA
* * * * *
25963805 AATCTTATCTCTCTGAAGTTACAGTAGAGTAGATT----A-AAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCACAAGTTACA
* * *
25963849 AACCTTATCTCCCTGAAGTTGCAATGGAGCAGATT--G---AAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCACAAGTTA-CA
* * * * *
25963894 AATCTTATCTCTCTGAAGTTTCAGTAGAGTAGATT----A-AAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCACAAGTTACA
* * * *
25963938 AACCTTGTCTCCCTGAAGATGCAGTGGAGCAGGATT--G---AAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAGCACAAGTTA-CA
** ** * * * *
25963984 AATCTTATCTCTTTGAAGTTGCAGTAAAGTATATT----A-AAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCACAAGTTACA
* * * * *
25964028 AGTCTTATCACCCTGAAGTTCCAGTAGAGCAGATT--G---AA-TATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCACAAGT-TA-CA
* * *
25964073 AA-CATTATTTCCCTGAAGTTGCAGTGTAACAGATTAAAGCTACAAGTTACA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGC-ACAAGTTACA
*
25964124 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT--G---AAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCACAAGTTACA
25964168 AATCTTATCT-CCTCGAAGTTGCAGTGGAGCAGATTGAAGCGACAA
1 AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATT-AAGC-ACAA
25964213 TTCCCATACC
Statistics
Matches: 348, Mismatches: 73, Indels: 74
0.70 0.15 0.15
Matches are distributed among these distances:
43 4 0.01
44 134 0.39
45 79 0.23
46 25 0.07
47 1 0.00
48 2 0.01
49 1 0.00
50 29 0.08
51 63 0.18
52 9 0.03
53 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (49 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCACAAGTTACA
Found at i:25970916 original size:91 final size:91
Alignment explanation
Indices: 25970761--25970940 Score: 324
Period size: 91 Copynumber: 2.0 Consensus size: 91
25970751 GAAAACTAAA
25970761 TTCCTACCCATTATCATAACTTTTATAGACAATCTTTTCTACCAAACAAAACTACTACCACTAAT
1 TTCCTACCCATTATCATAACTTTTATAGACAATCTTTTCTACCAAACAAAACTACTACCACTAAT
25970826 CAATTGACTAAGTTGTAAAGCATTTC
66 CAATTGACTAAGTTGTAAAGCATTTC
* * *
25970852 TTCCTACCCATTATGATGACTTTTATAGACAATCTTTTCTACCAAACACAACTACTACCACTAAT
1 TTCCTACCCATTATCATAACTTTTATAGACAATCTTTTCTACCAAACAAAACTACTACCACTAAT
*
25970917 CAATTGGCTAAGTTGTAAAGCATT
66 CAATTGACTAAGTTGTAAAGCATT
25970941 GCTTGTACTC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 85 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (91 bp):
TTCCTACCCATTATCATAACTTTTATAGACAATCTTTTCTACCAAACAAAACTACTACCACTAAT
CAATTGACTAAGTTGTAAAGCATTTC
Found at i:25982103 original size:18 final size:16
Alignment explanation
Indices: 25982080--25982115 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
25982070 AGGAAACTAA
25982080 TGATTTTTTTGTAATATT
1 TGATTTTTTT-TAAT-TT
25982098 TGATTTTTTTTAATTT
1 TGATTTTTTTTAATTT
25982114 TG
1 TG
25982116 TAAAATGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (16 bp):
TGATTTTTTTTAATTT
Found at i:25982972 original size:28 final size:27
Alignment explanation
Indices: 25982915--25982973 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
25982905 AAAGCCCTTT
*
25982915 TTTTTTAAATTTACCGAAATAGGCTGG
1 TTTTTTAAATTTACCGAAATAGGCTCG
* *
25982942 TTTTTTAATTATTTACCGGAATGGGC-CG
1 TTTTTTAA--ATTTACCGAAATAGGCTCG
25982970 TTTT
1 TTTT
25982974 CCCCGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 5 0.19
29 14 0.52
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.46
Consensus pattern (27 bp):
TTTTTTAAATTTACCGAAATAGGCTCG
Found at i:25984501 original size:7 final size:7
Alignment explanation
Indices: 25984489--25984520 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
25984479 AGTGGATTAA
25984489 TATTTAG
1 TATTTAG
25984496 TATTTAG
1 TATTTAG
25984503 TATTTAG
1 TATTTAG
25984510 TATTTAG
1 TATTTAG
25984517 TATT
1 TATT
25984521 ATGTATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:25986097 original size:124 final size:124
Alignment explanation
Indices: 25985746--25986148 Score: 625
Period size: 125 Copynumber: 3.2 Consensus size: 124
25985736 CGAGGGCACA
*
25985746 ATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCAAA
1 ATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGT-GCGAA
*
25985811 ATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTTATATAGCATCCTGGTATCAGCG
65 ATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCG
25985871 ATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTTGCGAA
1 ATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTG-TGCGAA
* *
25985936 ATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCCGGTTTCAGCG
65 ATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCG
* *
25985996 ATTTTATACTATTT-CTCAGAAAACGTC-AAAAAAAATTATTTCTTACATGACCAACTGTGCTGA
1 ATTTTACACTATTTGCTCAG-AAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTGC-GA
* * **
25986059 AATGGCGTCCACGAGGGCACGATTTCACAATTTCTTCTC-TGATAGCATCCTGGTAGAAGCG
64 AATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCAGCG
*
25986120 ATTTTATACTATTTGAC-CAGAAACGTCAA
1 ATTTTACACTATTTG-CTCAGAAACGTCAA
25986149 CTCGAAATAA
Statistics
Matches: 259, Mismatches: 12, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
123 4 0.02
124 110 0.42
125 143 0.55
126 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
ATTTTACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTGCGAAA
TCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCG
Found at i:25986231 original size:52 final size:52
Alignment explanation
Indices: 25986151--25986307 Score: 269
Period size: 52 Copynumber: 3.0 Consensus size: 52
25986141 AACGTCAACT
* * *
25986151 CGAAATAATTTTTTTCGGGACCCTTAAACCTTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
*
25986203 CGAAATAATTTTTTTCGGCACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
1 CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
*
25986255 CGAAATACTTTTTTTCGGGACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
1 CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
25986307 C
1 C
25986308 CCTAAAACCC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 99 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (52 bp):
CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
Found at i:25995423 original size:21 final size:22
Alignment explanation
Indices: 25995394--25995443 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
25995384 AATGGTATAA
*
25995394 AAATGAATTTA-TAGAAA-TTAT
1 AAATAAATTTATTA-AAATTTAT
25995415 AAATAAA-TTATTAAAATTTAT
1 AAATAAATTTATTAAAATTTAT
25995436 AAATAAAT
1 AAATAAAT
25995444 AAATAACTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATAAATTTATTAAAATTTAT
Found at i:25995624 original size:10 final size:10
Alignment explanation
Indices: 25995505--25995624 Score: 52
Period size: 10 Copynumber: 12.2 Consensus size: 10
25995495 TCAGTTTTAT
25995505 TTTTTAATAA
1 TTTTTAATAA
*
25995515 TATTTAATAAA
1 TTTTTAAT-AA
* * *
25995526 ATTTTAGTAG
1 TTTTTAATAA
*
25995536 TTTAT-ATAA
1 TTTTTAATAA
*
25995545 TTTTTTCTATAA
1 -TTTTT-AATAA
*
25995557 -TTTT-CTAA
1 TTTTTAATAA
* *
25995565 TTTATAATTA
1 TTTTTAATAA
*
25995575 TTTTTAAAAA
1 TTTTTAATAA
* *
25995585 ATTATAAT-A
1 TTTTTAATAA
25995594 -TTTTAATAA
1 TTTTTAATAA
*
25995603 TTTCTAATAA
1 TTTTTAATAA
*
25995613 TTTTTAAAAA
1 TTTTTAATAA
25995623 TT
1 TT
25995625 GTTTTATAAA
Statistics
Matches: 78, Mismatches: 24, Indels: 16
0.66 0.20 0.14
Matches are distributed among these distances:
8 9 0.12
9 7 0.09
10 51 0.65
11 7 0.09
12 4 0.05
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:25995624 original size:20 final size:19
Alignment explanation
Indices: 25995563--25995624 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
25995553 ATAATTTTCT
25995563 AATTTATAATTATTTTTAAA
1 AATTTATAA-TATTTTTAAA
* *
25995583 AAATTATAATA-TTTTAAT
1 AATTTATAATATTTTTAAA
*
25995601 AATTTCTAATAATTTTTAAA
1 AATTTATAAT-ATTTTTAAA
25995621 AATT
1 AATT
25995625 GTTTTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 14 0.40
19 3 0.09
20 18 0.51
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTATAATATTTTTAAA
Found at i:25995633 original size:21 final size:21
Alignment explanation
Indices: 25995586--25995633 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
25995576 TTTTAAAAAA
*
25995586 TTATAATATTTTAATAATTTC
1 TTATAATATTTTAAAAATTTC
* *
25995607 TAATAAT-TTTTAAAAATTGTT
1 TTATAATATTTTAAAAATT-TC
25995628 TTATAA
1 TTATAA
25995634 AAATTTACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTATAATATTTTAAAAATTTC
Found at i:25997715 original size:9 final size:9
Alignment explanation
Indices: 25997635--25997730 Score: 50
Period size: 10 Copynumber: 9.9 Consensus size: 9
25997625 AAAAATAATG
*
25997635 TTTTTATAG
1 TTTTTATAA
25997644 TTATTTCAT-A
1 TT-TTT-ATAA
25997654 TTTTTCATAA
1 TTTTT-ATAA
25997664 TATTTTATAA
1 T-TTTTATAA
* *
25997674 TGTTAATAAA
1 TTTTTAT-AA
* *
25997684 ATTTTATAGT
1 TTTTTATA-A
*
25997694 TTTTCTATCA
1 TTTT-TATAA
25997704 TTTTTATAA
1 TTTTTATAA
*
25997713 TTTTTAAAA
1 TTTTTATAA
25997722 TTTATTATA
1 TTT-TTATA
25997731 GTATATTAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
9 28 0.42
10 29 0.44
11 9 0.14
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:25999462 original size:41 final size:41
Alignment explanation
Indices: 25999262--25999454 Score: 359
Period size: 41 Copynumber: 4.7 Consensus size: 41
25999252 TTAAAGTCTA
25999262 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
25999303 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
25999344 ATTTAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
25999385 ATTCAGTTCACCGGCACTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
25999426 ATTCAATTCACCGGCACTTAGCCTGCTAG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAG
25999455 ACATATAGTC
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 147 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.30
Consensus pattern (41 bp):
ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:25999477 original size:41 final size:41
Alignment explanation
Indices: 25999266--25999482 Score: 328
Period size: 41 Copynumber: 5.3 Consensus size: 41
25999256 AGTCTAATTC
*
25999266 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
*
25999307 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTT
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
*
25999348 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
*
25999389 AGTTCACCGGCACTTAGCCTACTAGGCTTATAGCCTGATTCA
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT-A
* * * *
25999431 A-TTCACCGGCACTTAGCCTGCTAGACATATAGTCTGAATA
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
* *
25999471 ATTTCACTGGCA
1 AGTTCACCGGCA
25999483 ATAAATCCGA
Statistics
Matches: 164, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 2 0.01
41 161 0.98
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTA
Found at i:26001266 original size:13 final size:13
Alignment explanation
Indices: 26001248--26001272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26001238 ACCAACGATA
26001248 AAATTTTCACACG
1 AAATTTTCACACG
26001261 AAATTTTCACAC
1 AAATTTTCACAC
26001273 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:26002864 original size:22 final size:22
Alignment explanation
Indices: 26002836--26002905 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
26002826 TTATCATATT
26002836 TACTGTTCTACATTTCGATGCC
1 TACTGTTCTACATTTCGATGCC
* * * *
26002858 TACTGTTTTGCACTAT-GGTGCC
1 TACTGTTCTACA-TTTCGATGCC
* * *
26002880 TATTGTTCTACACTACGATGCC
1 TACTGTTCTACATTTCGATGCC
26002902 TACT
1 TACT
26002906 AATTTACACT
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (22 bp):
TACTGTTCTACATTTCGATGCC
Found at i:26002937 original size:22 final size:22
Alignment explanation
Indices: 26002851--26002952 Score: 80
Period size: 22 Copynumber: 4.6 Consensus size: 22
26002841 TTCTACATTT
* **
26002851 CGATGCCTACTGTTTTGCACTA
1 CGATGCCTACTGATTCACACTA
* * *
26002873 TGGTGCCTATTG-TTCTACACTA
1 CGATGCCTACTGATTC-ACACTA
* *
26002895 CGATGCCTACTAATTTACACTA
1 CGATGCCTACTGATTCACACTA
* * *
26002917 CGGTGCCTACTGATTCGCACTT
1 CGATGCCTACTGATTCACACTA
*
26002939 TGATGCCTACTGAT
1 CGATGCCTACTGAT
26002953 GTGGTGTAGC
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
21 2 0.03
22 57 0.93
23 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (22 bp):
CGATGCCTACTGATTCACACTA
Found at i:26002949 original size:44 final size:44
Alignment explanation
Indices: 26002836--26002928 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
26002826 TTATCATATT
* * ** * *
26002836 TACTGTTCTACATTTCGATGCCTACTGTTTTGCACTATGGTGCC
1 TACTGTTCTACACTACGATGCCTACTAATTTACACTACGGTGCC
*
26002880 TATTGTTCTACACTACGATGCCTACTAATTTACACTACGGTGCC
1 TACTGTTCTACACTACGATGCCTACTAATTTACACTACGGTGCC
26002924 TACTG
1 TACTG
26002929 ATTCGCACTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (44 bp):
TACTGTTCTACACTACGATGCCTACTAATTTACACTACGGTGCC
Found at i:26007285 original size:24 final size:24
Alignment explanation
Indices: 26007222--26007273 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
26007212 TTTTTAGAAG
* * *
26007222 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26007246 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26007270 ATTT
1 ATTT
26007274 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:26008241 original size:25 final size:25
Alignment explanation
Indices: 26008207--26008256 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
26008197 TACAGCGATG
26008207 GTGAACTTCTAGTCGCTTCTGTCAA
1 GTGAACTTCTAGTCGCTTCTGTCAA
26008232 GTGAACTTCTAGTCGCTTCTGTCAA
1 GTGAACTTCTAGTCGCTTCTGTCAA
26008257 CAATTCTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (25 bp):
GTGAACTTCTAGTCGCTTCTGTCAA
Found at i:26011542 original size:24 final size:24
Alignment explanation
Indices: 26011479--26011530 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
26011469 TTCTTAGAAG
* *
26011479 ATTTAGCATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26011503 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
26011527 ATTT
1 ATTT
26011531 GACTTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:26012639 original size:2 final size:2
Alignment explanation
Indices: 26012634--26012662 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26012624 TTTTAGTAAT
26012634 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 T
26012663 TGTAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26014606 original size:11 final size:11
Alignment explanation
Indices: 26014592--26014660 Score: 79
Period size: 11 Copynumber: 6.3 Consensus size: 11
26014582 TTTCAATTTA
*
26014592 CTCTCAACTCT
1 CTCTCAATTCT
26014603 CTCTCAATTCAT
1 CTCTCAATTC-T
26014615 -TCTCAA-TCTT
1 CTCTCAATTC-T
26014625 CTCTCAATTCT
1 CTCTCAATTCT
*
26014636 CTCTTAATTCT
1 CTCTCAATTCT
*
26014647 CACTCAATTCT
1 CTCTCAATTCT
26014658 CTC
1 CTC
26014661 AGTTCACTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
10 3 0.06
11 43 0.88
12 3 0.06
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAATTCT
Found at i:26014618 original size:22 final size:21
Alignment explanation
Indices: 26014584--26014656 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
26014574 TCTTACCTTT
* *
26014584 TCAATTTACTCTCAACTCTCTC
1 TCAATTCATTCTCAA-TCTCTC
26014606 TCAATTCATTCTCAATCTTCTC
1 TCAATTCATTCTCAATC-TCTC
* *
26014628 TCAATTC-TCTCTTAATTCTCAC
1 TCAATTCAT-TCTCAA-TCTCTC
26014650 TCAATTC
1 TCAATTC
26014657 TCTCAGTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 3 0.07
22 39 0.89
23 2 0.05
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTCATTCTCAATCTCTC
Found at i:26014653 original size:33 final size:32
Alignment explanation
Indices: 26014584--26014672 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 32
26014574 TCTTACCTTT
* *
26014584 TCAATTTACTCTCAACTCTCTCTCAATTCATTC
1 TCAATTT-CTCTCAATTCTCTCTCAATTCATAC
*
26014617 TCAATCTTCTCTCAATTCTCTCTTAATTC-TCAC
1 TCAAT-TTCTCTCAATTCTCTCTCAATTCAT-AC
* *
26014650 TCAA-TTCTCTCAGTTCACTCTCA
1 TCAATTTCTCTCAATTCTCTCTCA
26014673 TTTTTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 16 0.33
32 1 0.02
33 29 0.60
34 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.01, T:0.43
Consensus pattern (32 bp):
TCAATTTCTCTCAATTCTCTCTCAATTCATAC
Found at i:26022881 original size:3 final size:3
Alignment explanation
Indices: 26022875--26022912 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
26022865 GACGGCCTCC
26022875 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
26022913 CCTAGTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:26052040 original size:22 final size:24
Alignment explanation
Indices: 26051991--26052040 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
26051981 TCAATTCAAT
*
26051991 TCATATAAATTATTATTGTCAAAC
1 TCATATAAATTATTATTGTCAAAA
26052015 TCATAT-AATTA-TATAT-TCAAAA
1 TCATATAAATTATTAT-TGTCAAAA
26052037 TCAT
1 TCAT
26052041 TTTTCCATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 12 0.50
23 6 0.25
24 6 0.25
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (24 bp):
TCATATAAATTATTATTGTCAAAA
Found at i:26052960 original size:15 final size:17
Alignment explanation
Indices: 26052922--26052963 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
26052912 TTATACTAAG
26052922 TTTAATTATACTTAATT
1 TTTAATTATACTTAATT
*
26052939 CTTAATTA-ACTT-ATT
1 TTTAATTATACTTAATT
26052954 TTTAATTATA
1 TTTAATTATA
26052964 AACTTAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 7 0.32
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTATACTTAATT
Found at i:26060979 original size:44 final size:44
Alignment explanation
Indices: 26060924--26061019 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
26060914 TTTGAGGTCA
* * *
26060924 CAGTGGGGCAGACTGAAGAAGCA-AATCTTATCTCCCTGAGGTTG
1 CAGTGGAGCAGACTGAAGAAG-ATAATCCTATCTCCCTGAAGTTG
* ***
26060968 CAGTGGAGCAGATTGAATTCGATAATCCTATCTCCCTGAAGTTG
1 CAGTGGAGCAGACTGAAGAAGATAATCCTATCTCCCTGAAGTTG
*
26061012 TAGTGGAG
1 CAGTGGAG
26061020 TGGATCAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (44 bp):
CAGTGGAGCAGACTGAAGAAGATAATCCTATCTCCCTGAAGTTG
Found at i:26062513 original size:3 final size:3
Alignment explanation
Indices: 26062505--26062551 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
26062495 ATTAAATTTC
26062505 ATT ATT 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 ATT ATT AT
26062552 ATTTGATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:26063967 original size:15 final size:16
Alignment explanation
Indices: 26063949--26063985 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
26063939 TTTATTAATG
26063949 AATTATTTAAAA-ATA
1 AATTATTTAAAATATA
26063964 AATTA-TTAAAATATA
1 AATTATTTAAAATATA
26063979 ACATTAT
1 A-ATTAT
26063986 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.32
15 9 0.47
16 4 0.21
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTATTTAAAATATA
Found at i:26065710 original size:22 final size:21
Alignment explanation
Indices: 26065683--26065767 Score: 98
Period size: 22 Copynumber: 3.9 Consensus size: 21
26065673 CTATCTACTC
26065683 AGCACTTCAGTGCTCTCTGTT
1 AGCACTTCAGTGCTCTCTGTT
* **
26065704 CATCACTTTTGTGCTCTCTGTTT
1 -AGCACTTCAGTGCTCTCTG-TT
* *
26065727 AGCACTTCAGTACTATCTGCTT
1 AGCACTTCAGTGCTCTCTG-TT
26065749 AGCACTTCAGTGCTCTCTG
1 AGCACTTCAGTGCTCTCTG
26065768 GTGTGGTGTA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 49 0.96
23 2 0.04
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.40
Consensus pattern (21 bp):
AGCACTTCAGTGCTCTCTGTT
Found at i:26065755 original size:44 final size:43
Alignment explanation
Indices: 26065659--26065767 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 43
26065649 TTGTACGGGT
* * * * *
26065659 TTAGCACTTTTGTACTATCTACTCAGCACTTCAGTGCTCTCTG
1 TTAGCACTTTTGTGCTCTCTGCTCAGCACTTCAGTACTATCTG
* * *
26065702 TTCATCACTTTTGTGCTCTCTGTTTAGCACTTCAGTACTATCTG
1 TT-AGCACTTTTGTGCTCTCTGCTCAGCACTTCAGTACTATCTG
**
26065746 CTTAGCACTTCAGTGCTCTCTG
1 -TTAGCACTTTTGTGCTCTCTG
26065768 GTGTGGTGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
43 2 0.04
44 49 0.92
45 2 0.04
ACGTcount: A:0.17, C:0.28, G:0.15, T:0.41
Consensus pattern (43 bp):
TTAGCACTTTTGTGCTCTCTGCTCAGCACTTCAGTACTATCTG
Found at i:26071047 original size:20 final size:22
Alignment explanation
Indices: 26070998--26071049 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
26070988 TTTCTATTCT
26070998 ATATATGTATCTATTGTTTTTA
1 ATATATGTATCTATTGTTTTTA
*
26071020 ATTAATATGT-TTTATT-TTTTTA
1 A-T-ATATGTATCTATTGTTTTTA
26071042 ATATATGT
1 ATATATGT
26071050 CAAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 6 0.22
21 1 0.04
22 8 0.30
23 6 0.22
24 6 0.22
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.62
Consensus pattern (22 bp):
ATATATGTATCTATTGTTTTTA
Found at i:26072932 original size:17 final size:17
Alignment explanation
Indices: 26072891--26072933 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
26072881 AAATAATTTA
26072891 TTTATATTTTATAAGTT
1 TTTATATTTTATAAGTT
26072908 TTT-TATTTTACTAA-TT
1 TTTATATTTTA-TAAGTT
*
26072924 TTTAAATTTT
1 TTTATATTTT
26072934 TAGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTTTATAAGTT
Found at i:26076873 original size:23 final size:23
Alignment explanation
Indices: 26076843--26076918 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
26076833 GGAAGACATG
26076843 CCTAAAATTTAGCCAAACAAATC
1 CCTAAAATTTAGCCAAACAAATC
* *
26076866 CCTAAAATTGT-G-GAAGACAAATA
1 CCTAAAATT-TAGCCAA-ACAAATC
* *
26076889 CCTAGAATTTAGCCAAAGAAATC
1 CCTAAAATTTAGCCAAACAAATC
26076912 CCTAAAA
1 CCTAAAA
26076919 ATTGTGGAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
22 3 0.07
23 36 0.86
24 3 0.07
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (23 bp):
CCTAAAATTTAGCCAAACAAATC
Found at i:26076915 original size:46 final size:46
Alignment explanation
Indices: 26076813--26076932 Score: 181
Period size: 44 Copynumber: 2.6 Consensus size: 46
26076803 GATAAAAGAG
* *
26076813 AAACAAATCCCTAAAGTTGTGGAAGAC--ATGCCTAAAATTTAGCC
1 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTAAAATTTAGCC
*
26076857 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTAGAATTTAGCC
1 AAACAAATCCCTAAAATTGTGGAAGACAAATACCTAAAATTTAGCC
*
26076903 AAAGAAATCCCTAAAAATTGTGGAAGACAA
1 AAACAAATCCCT-AAAATTGTGGAAGACAA
26076933 CTTGACTTGA
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
44 26 0.38
46 26 0.38
47 17 0.25
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (46 bp):
AAACAAATCCCTAAAATTGTGGAAGACAAATACCTAAAATTTAGCC
Found at i:26079071 original size:38 final size:38
Alignment explanation
Indices: 26079029--26079105 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
26079019 CTAAGCATGG
26079029 TATAAATATTAAACTAAGTGGAGAAAGATGATAATTCA
1 TATAAATATTAAACTAAGTGGAGAAAGATGATAATTCA
*
26079067 TATAAATATTAAAGTAAGTGGAGAAAGATGATAATTCA
1 TATAAATATTAAACTAAGTGGAGAAAGATGATAATTCA
26079105 T
1 T
26079106 CATCTTCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (38 bp):
TATAAATATTAAACTAAGTGGAGAAAGATGATAATTCA
Found at i:26083867 original size:37 final size:37
Alignment explanation
Indices: 26083808--26083878 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
26083798 ATTGGGCACA
* * * *
26083808 TTTTTCTTCAGATGTTCTGATGAGTGCTGGGCACGCC
1 TTTTTCTTCAGATATACCGATGAGCGCTGGGCACGCC
* *
26083845 TTTTTCTTCAGTTATACCGATGAGCGTTGGGCAC
1 TTTTTCTTCAGATATACCGATGAGCGCTGGGCAC
26083879 AATTTATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.38
Consensus pattern (37 bp):
TTTTTCTTCAGATATACCGATGAGCGCTGGGCACGCC
Found at i:26085484 original size:114 final size:114
Alignment explanation
Indices: 26085284--26085507 Score: 385
Period size: 114 Copynumber: 2.0 Consensus size: 114
26085274 TATAAACTTC
* *
26085284 AAATACATAAATTGTAACAACCTAATTTTCAGTGGTGTCGAAAATAGTGGTTCGAGACCAACAAA
1 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCGAGACCAACAAA
26085349 ATATGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
66 ATATGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
** *
26085398 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTTTTTCGAGACCACCAAA
1 AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCGAGACCAACAAA
* *
26085463 ATCTGGCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAG
66 ATATGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAG
26085508 ACAAATATGG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (114 bp):
AAATACATAAACTGTAACAACCTAATTTTCAGTGGTGTCAAAAATAGTGGTTCGAGACCAACAAA
ATATGCCGAGTAAGCTCGTAAATTTTATTATTTAGTATTAACGAGTCAT
Found at i:26086753 original size:24 final size:25
Alignment explanation
Indices: 26086698--26086771 Score: 107
Period size: 24 Copynumber: 3.0 Consensus size: 25
26086688 TCATTCTGTG
*
26086698 GCAAAGGATTAATTGATGATAAAAT
1 GCAAAGGATTAATTGATGGTAAAAT
* *
26086723 GCAAAGGATGAATTGATGGT-ATAT
1 GCAAAGGATTAATTGATGGTAAAAT
26086747 GCAAAGGATTAATTGATGG-AAAAT
1 GCAAAGGATTAATTGATGGTAAAAT
26086771 G
1 G
26086772 TATTAAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 25 0.58
25 18 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.27
Consensus pattern (25 bp):
GCAAAGGATTAATTGATGGTAAAAT
Found at i:26094777 original size:30 final size:31
Alignment explanation
Indices: 26094738--26094797 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
26094728 AGAGGTGGGA
*
26094738 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
26094769 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
26094798 TAAATGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:26098284 original size:21 final size:21
Alignment explanation
Indices: 26098247--26098357 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 21
26098237 TCTCACGAGC
* *
26098247 TTCTG-TTAACTCATATGAGT
1 TTCTGTTTAACCCTTATGAGT
*
26098267 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAACCCTTATGAGT
* * * *
26098288 TTCCGTTCAGCTCC-TATGAGC
1 TTCTGTTTAAC-CCTTATGAGT
** * *
26098309 TTCCATTCAACCCTTTATGGGT
1 TTCTGTTTAACCC-TTATGAGT
* * *
26098331 TTCTGTTTAGCACTTATGTGT
1 TTCTGTTTAACCCTTATGAGT
26098352 TTCTGT
1 TTCTGT
26098358 GCAGCCTTCG
Statistics
Matches: 69, Mismatches: 18, Indels: 7
0.73 0.19 0.07
Matches are distributed among these distances:
20 7 0.10
21 47 0.68
22 15 0.22
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTTAACCCTTATGAGT
Found at i:26114244 original size:3 final size:3
Alignment explanation
Indices: 26114236--26114269 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
26114226 GTTGTAAGGT
26114236 TGG TGG TGGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG T-GG TGG TGG TGG TGG TGG TGG TGG TGG
26114270 CATAGTGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
TGG
Found at i:26119142 original size:21 final size:22
Alignment explanation
Indices: 26119104--26119155 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
26119094 TGGACAAGCC
* *
26119104 ACCACATAATTGCCGAT-AACA
1 ACCACATAATCGCAGATAAACA
* *
26119125 ACCACATAATCGTAGATAAACT
1 ACCACATAATCGCAGATAAACA
26119147 ACCACATAA
1 ACCACATAA
26119156 CTTCCCCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.46, C:0.27, G:0.08, T:0.19
Consensus pattern (22 bp):
ACCACATAATCGCAGATAAACA
Found at i:26126727 original size:31 final size:34
Alignment explanation
Indices: 26126667--26126730 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
26126657 AGGGTGTCCT
*
26126667 TTAAATATTTCACTTTTATATTTATAACTTAAAC
1 TTAAATATTTCACATTTATATTTATAACTTAAAC
*
26126701 TTAAATTTTTCA-ATTTAT-TTTA-AACTTAAA
1 TTAAATATTTCACATTTATATTTATAACTTAAA
26126731 TTTTCAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 8 0.29
32 4 0.14
33 5 0.18
34 11 0.39
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (34 bp):
TTAAATATTTCACATTTATATTTATAACTTAAAC
Found at i:26126739 original size:24 final size:25
Alignment explanation
Indices: 26126695--26126743 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
26126685 TATTTATAAC
26126695 TTAAACTTAAATTTTTCAATTTATT
1 TTAAACTTAAATTTTTCAATTTATT
26126720 TTAAACTTAAA-TTTTCAATTTATT
1 TTAAACTTAAATTTTTCAATTTATT
26126744 AAAACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAAACTTAAATTTTTCAATTTATT
Found at i:26126756 original size:23 final size:24
Alignment explanation
Indices: 26126707--26126772 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
26126697 AAACTTAAAT
* **
26126707 TTTTCAATTTATTTTAAACTTAAA
1 TTTTCAATTTATTTAAAACACAAA
*
26126731 TTTTCAATTTA-TTAAAACACATA
1 TTTTCAATTTATTTAAAACACAAA
* *
26126754 TTTTAAATATTTTTTAAAA
1 TTTTCAAT-TTATTTAAAA
26126773 ATTATTGACT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 15 0.44
24 13 0.38
25 6 0.18
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTCAATTTATTTAAAACACAAA
Found at i:26142026 original size:17 final size:16
Alignment explanation
Indices: 26141981--26142039 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
26141971 TTAATTACTT
*
26141981 TAATATTAAATTAATA
1 TAATATTAAATTAAGA
*
26141997 TAATACT--ATTAAGA
1 TAATATTAAATTAAGA
*
26142011 TAAGTATTAAATTAAGTT
1 TAA-TATTAAATTAAG-A
26142029 TAATATTAAAT
1 TAATATTAAAT
26142040 ATATTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.26
15 3 0.09
16 6 0.17
17 14 0.40
18 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (16 bp):
TAATATTAAATTAAGA
Found at i:26144950 original size:19 final size:18
Alignment explanation
Indices: 26144928--26144968 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
26144918 TTATATTTTT
*
26144928 AAAAATATTAGTTATTATA
1 AAAAATATTAG-TATGATA
26144947 AAAAATATTAGTATGATA
1 AAAAATATTAGTATGATA
26144965 AAAA
1 AAAA
26144969 TAATTTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (18 bp):
AAAAATATTAGTATGATA
Found at i:26146226 original size:29 final size:29
Alignment explanation
Indices: 26146193--26146251 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
26146183 TCCACCTTGA
* *
26146193 CACGAA-TCCTCAACGAACAAGTTCTTCAC
1 CACGAACT-CTCAACAAACAAGTTCTCCAC
*
26146222 CACGAACTCTCAACAAATAAGTTCTCCAC
1 CACGAACTCTCAACAAACAAGTTCTCCAC
26146251 C
1 C
26146252 TCTTCCACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.36, C:0.36, G:0.08, T:0.20
Consensus pattern (29 bp):
CACGAACTCTCAACAAACAAGTTCTCCAC
Found at i:26150068 original size:125 final size:125
Alignment explanation
Indices: 26149838--26150259 Score: 650
Period size: 125 Copynumber: 3.4 Consensus size: 125
26149828 ACATGGACGC
* * *
26149838 GAAGAATTTGTGAAATCGCGCCCTCTTGGACGCGCTTTTGCTACAGTTGGTCATGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
26149903 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
* ** * *
26149963 GAAGAATTTGTTAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGCAGGTCCT-GAAAAAATTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* * * *
26150027 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATT-TGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTACCAGGATGAT-TTATGA
* * * *
26150088 GAAGAATTTCTGAAATCGCGGCCTCGTGGATGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* *
26150153 TTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGGTTTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
26150213 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
26150260 AGCATGTTTG
Statistics
Matches: 263, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
124 41 0.16
125 182 0.69
126 40 0.15
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (125 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGATTTATGA
Found at i:26153497 original size:25 final size:25
Alignment explanation
Indices: 26153469--26153519 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
26153459 TCAAAATAAC
26153469 TCAAAAAAAATTCTATTTTATTACA
1 TCAAAAAAAATTCTATTTTATTACA
* *
26153494 TCAAATAAACTTCTATTTTATTACA
1 TCAAAAAAAATTCTATTTTATTACA
26153519 T
1 T
26153520 AAATAATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (25 bp):
TCAAAAAAAATTCTATTTTATTACA
Found at i:26153555 original size:43 final size:45
Alignment explanation
Indices: 26153493--26153579 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 45
26153483 ATTTTATTAC
*
26153493 ATCAAATAAACTTCTATTTTATTACAT-AAATAATATCAAAATAA
1 ATCAAATAAAATTCTATTTTATTACATAAAATAATATCAAAATAA
26153537 ATCAAA-AAAATTCTATTTTATTACATAAAATAATATCAAAATA
1 ATCAAATAAAATTCTATTTTATTACATAAAATAATATCAAAATA
26153580 TTCAAAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 19 0.46
44 22 0.54
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (45 bp):
ATCAAATAAAATTCTATTTTATTACATAAAATAATATCAAAATAA
Found at i:26153568 original size:68 final size:70
Alignment explanation
Indices: 26153441--26153569 Score: 226
Period size: 68 Copynumber: 1.9 Consensus size: 70
26153431 TAAGCTCATG
* *
26153441 TTATTACATCAAATAATATCAAAATAACTCAAAAAAAATTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAAACTT
26153506 CTATT
66 CTATT
26153511 TTATTACAT-AAATAATATCAAAATAAATC-AAAAAAATTCTATTTTATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAA
26153570 TATCAAAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
68 29 0.51
69 19 0.33
70 9 0.16
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (70 bp):
TTATTACATCAAATAATATCAAAATAAATCAAAAAAAATTCTATTTTATTACATAAAATAAACTT
CTATT
Found at i:26155910 original size:51 final size:51
Alignment explanation
Indices: 26155849--26155946 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
26155839 AATTCTTTAA
26155849 AAATAGGGATTTAAGAG-AAATTT-AAGAAGAACTTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAAATTTGAAG--GAACTTGAGAGCAAATTGAAATT
* * *
26155900 AAATATGGATTTGAGAGAAAATTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAAATTTGAAGGAACTTGAGAGCAAATTGA
26155947 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 33 0.79
52 6 0.14
53 3 0.07
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAAATTTGAAGGAACTTGAGAGCAAATTGAAATT
Found at i:26155933 original size:22 final size:23
Alignment explanation
Indices: 26155908--26155962 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
26155898 TTAAATATGG
26155908 ATTTGAGAGAAAATTTGA-AGG-A
1 ATTTGAGAGAAAA-TTGAGAGGAA
*
26155930 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAGAAAATTGAGAGGAA
26155953 ATTTGAGAGA
1 ATTTGAGAGA
26155963 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 15 0.52
23 10 0.34
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (23 bp):
ATTTGAGAGAAAATTGAGAGGAA
Found at i:26155948 original size:11 final size:12
Alignment explanation
Indices: 26155908--26155961 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
26155898 TTAAATATGG
*
26155908 ATTTGAGAGAAA
1 ATTTGAGAGGAA
26155920 ATTTGA-AGG-A
1 ATTTGAGAGGAA
*
26155930 ATTTGAGAGCAA
1 ATTTGAGAGGAA
26155942 A-TTGAGAGGAA
1 ATTTGAGAGGAA
26155953 ATTTGAGAG
1 ATTTGAGAG
26155962 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.19
11 14 0.39
12 15 0.42
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:26158032 original size:27 final size:27
Alignment explanation
Indices: 26157978--26158042 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
26157968 ATAAAAAATA
26157978 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTAT-ACTTTTTTTTATTT
*
26158006 ACCAAAATATTAT-TTTTTTTATTATTT
1 ACCAAAATATTATACTTTTTT-TTATTT
*
26158033 ACGAAAATAT
1 ACCAAAATAT
26158043 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 6 0.18
27 15 0.44
28 13 0.38
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (27 bp):
ACCAAAATATTATACTTTTTTTTATTT
Found at i:26158144 original size:27 final size:27
Alignment explanation
Indices: 26158114--26158192 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
26158104 GGCCAATCAC
*
26158114 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
* *
26158141 ATTGGTGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
26158168 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
26158193 GACTAAAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.29, C:0.22, G:0.33, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:26158234 original size:18 final size:19
Alignment explanation
Indices: 26158211--26158257 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
26158201 TGTGGCTAAT
* *
26158211 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
26158229 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
26158248 TTAAAT-AAAA
1 TTAAATGAAAA
26158258 AAATGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:26158265 original size:20 final size:19
Alignment explanation
Indices: 26158226--26158266 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
26158216 TGAGAATAGT
* *
26158226 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
26158245 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
26158265 TT
1 TT
26158267 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:26158516 original size:37 final size:37
Alignment explanation
Indices: 26158474--26158544 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
26158464 AGTATTACTT
26158474 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
*
26158511 AATAGTTTATTAAATTAAAATAGATTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
26158545 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:26158522 original size:18 final size:19
Alignment explanation
Indices: 26158474--26158548 Score: 102
Period size: 18 Copynumber: 4.1 Consensus size: 19
26158464 AGTATTACTT
26158474 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
* * *
26158492 AATAGAGTTATTAAATGAG
1 AATAGATTTATTAAATTAA
26158511 AATAG-TTTATTAAATTAA
1 AATAGATTTATTAAATTAA
26158529 AATAGATTTATTAAA-TAA
1 AATAGATTTATTAAATTAA
26158547 AA
1 AA
26158549 AAATGAGTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
18 25 0.51
19 24 0.49
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
AATAGATTTATTAAATTAA
Found at i:26158832 original size:19 final size:19
Alignment explanation
Indices: 26158763--26158831 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
26158753 AACTAAGTAT
26158763 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * **
26158782 TTATTAAATGAGAATA-TT
1 TTATTAAATTAAAATAGAG
26158800 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
26158819 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
26158832 AAATGAGTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:26158839 original size:20 final size:19
Alignment explanation
Indices: 26158763--26158840 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
26158753 AACTAAGTAT
* *
26158763 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
* * * **
26158782 TTATTAAATGAGAATA-TT
1 TTATTAAATAAAAAAAGAG
* *
26158800 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
26158819 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
26158839 TT
1 TT
26158841 GAAGGGGAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
18 14 0.30
19 28 0.60
20 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:26158891 original size:283 final size:282
Alignment explanation
Indices: 26158211--26158902 Score: 1181
Period size: 283 Copynumber: 2.4 Consensus size: 282
26158201 TGTGGCTAAT
26158211 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
1 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
* * *
26158276 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGTCAATTAGCCACATTTCAGTTTTAGTGCGC
66 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGCAATTAGCCACATTTTAATTTTAGTGCGC
26158341 ACAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTGCAA
131 ACAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTGCAA
*
26158406 ATGGTCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAAAAAAATTAAGTATTA
196 ATGGTCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAAAAAAACTAAG-----
26158471 CTTAATAGTTTATTAAATTAAAATAGAGTTA
256 --T--TAGTTTATTAAATTAAAATAGAGTTA
*
26158502 TTAAATGAGAATAGTTTATTAAATTAAAATAGATTTATTAAATAAAAAAATGAGTTGAAGGGGAA
1 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
*
26158567 TAAAAAGAAAATAATAAATAAGGAAGGCTTAGAAGGCAATTAGCCACATTTTAATTTTAGTGCGC
66 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGCAATTAGCCACATTTTAATTTTAGTGCG-
*
26158632 ACAACAGCAGCAATTCACTTTCAAAATTCAAAATGGTAATTTTGCATGTCAGGTCCTTAAAACTG
130 -C-ACAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTG
26158697 CAAATGGTCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAAAAAAACTAAG-T
193 CAAATGGTCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAAAAAAACTAAGTT
26158761 A-TTTATTAAATTAAAATAGAGTTA
258 AGTTTATTAAATTAAAATAGAGTTA
*
26158785 TTAAATGAGAATATTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
1 TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
*
26158850 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGCAATTAGTCACATTTTA
66 TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGCAATTAGCCACATTTTA
26158903 GTCCTTTGGC
Statistics
Matches: 387, Mismatches: 11, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
283 137 0.35
284 2 0.01
291 124 0.32
293 1 0.00
294 123 0.32
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (282 bp):
TTAAATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAAATAAAAAAATGAGTTGAAGGGGAA
TAAAAAGAAAATAATAAATAAGGAGGGCTTAGAAGGCAATTAGCCACATTTTAATTTTAGTGCGC
ACAGCAGCAATTCACTTTCAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTGCAA
ATGGTCACTTAATTAGAATTCTCTCATTTAATAACTCTATTTTAATTTAAAAAAACTAAGTTAGT
TTATTAAATTAAAATAGAGTTA
Found at i:26158993 original size:27 final size:27
Alignment explanation
Indices: 26158906--26158984 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
26158896 CATTTTAGTC
* *
26158906 CTTTGGCACCTTTGGTGTCGCCAATCA
1 CTTTGGCACCTTTGGTGCCGCCAATCT
* *
26158933 CTTTGGCACCATTGGTGCCACCAATCT
1 CTTTGGCACCTTTGGTGCCGCCAATCT
26158960 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCTTTGGTGCCGCCAAT
26158985 GTGATTGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.15, C:0.32, G:0.22, T:0.32
Consensus pattern (27 bp):
CTTTGGCACCTTTGGTGCCGCCAATCT
Found at i:26159091 original size:25 final size:26
Alignment explanation
Indices: 26159057--26159108 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
26159047 TTTCGTAAAT
26159057 AATAAAAAAAAG-TAATATTTTGGTA
1 AATAAAAAAAAGTTAATATTTTGGTA
26159082 AATAAAAAAAAGTTATAATATTTTGGT
1 AATAAAAAAAAG-T-TAATATTTTGGT
26159109 TAATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.50
28 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.35
Consensus pattern (26 bp):
AATAAAAAAAAGTTAATATTTTGGTA
Found at i:26159852 original size:24 final size:23
Alignment explanation
Indices: 26159812--26159857 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
26159802 AACATACCCA
*
26159812 CATATTTATAATAATAAATAATAT
1 CATATTTACAATAATAAA-AATAT
26159836 CATATTCTACAAT-ATAAAAATA
1 CATATT-TACAATAATAAAAATA
26159858 ATGGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (23 bp):
CATATTTACAATAATAAAAATAT
Found at i:26160771 original size:18 final size:18
Alignment explanation
Indices: 26160730--26160771 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
26160720 TATATTATTT
*
26160730 TTAAATATATATAATACA
1 TTAAAAATATATAATACA
*
26160748 TCAAAAATACTATAA-ACA
1 TTAAAAATA-TATAATACA
26160766 TTAAAA
1 TTAAAA
26160772 TAAATATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAATATATAATACA
Found at i:26160997 original size:11 final size:11
Alignment explanation
Indices: 26160968--26161010 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
26160958 AAAGAGGGAG
*
26160968 AAAACAACAAT
1 AAAATAACAAT
*
26160979 AAAATAACATT
1 AAAATAACAAT
* *
26160990 AAAGTAACAAA
1 AAAATAACAAT
26161001 AAAATAACAA
1 AAAATAACAA
26161011 ATCTTTTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAATAACAAT
Found at i:26163782 original size:20 final size:20
Alignment explanation
Indices: 26163759--26163797 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26163749 AAATTTGGAA
* *
26163759 TTTAATCTTTTTATTTTTAT
1 TTTAATCTCTCTATTTTTAT
26163779 TTTAATCTCTCTATTTTTA
1 TTTAATCTCTCTATTTTTA
26163798 AGAAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTAATCTCTCTATTTTTAT
Found at i:26166747 original size:3 final size:3
Alignment explanation
Indices: 26166739--26166777 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
26166729 TTTAGGCAGT
*
26166739 AGA AGA AGA TGA AG- AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
26166778 ATGGAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:26167106 original size:3 final size:3
Alignment explanation
Indices: 26167098--26167125 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26167088 TGATTGATGG
26167098 TGT TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT T
26167126 AGCACTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:26169581 original size:20 final size:20
Alignment explanation
Indices: 26169556--26169596 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26169546 ACTTAATGCT
26169556 CTTGCAAATAAAAAAACAAA
1 CTTGCAAATAAAAAAACAAA
26169576 CTTGCAAATAAAAAAACAAA
1 CTTGCAAATAAAAAAACAAA
26169596 C
1 C
26169597 ATAAACCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.05, T:0.15
Consensus pattern (20 bp):
CTTGCAAATAAAAAAACAAA
Found at i:26171932 original size:35 final size:35
Alignment explanation
Indices: 26171893--26171962 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
26171883 TGGCTATGAG
* *
26171893 ATGCTTAAATGAACCAGACCAACTAACACACCAGA
1 ATGCTCAAATGAACCAGACCAACCAACACACCAGA
** * *
26171928 ATGCTCGTATGAGCCAGACCAGCCAACACACCAGA
1 ATGCTCAAATGAACCAGACCAACCAACACACCAGA
26171963 GTACATTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.40, C:0.31, G:0.16, T:0.13
Consensus pattern (35 bp):
ATGCTCAAATGAACCAGACCAACCAACACACCAGA
Found at i:26172988 original size:18 final size:18
Alignment explanation
Indices: 26172965--26173003 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
26172955 TTATAACCTA
26172965 ATTAATTGTACCCTTATT
1 ATTAATTGTACCCTTATT
26172983 ATTAATTGTACCCTTATT
1 ATTAATTGTACCCTTATT
26173001 ATT
1 ATT
26173004 TCAATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTAATTGTACCCTTATT
Found at i:26173241 original size:7 final size:7
Alignment explanation
Indices: 26173214--26173243 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
26173204 TGACCTCATA
*
26173214 AATATTA
1 AATATTT
26173221 AATATTT
1 AATATTT
26173228 AATATTT
1 AATATTT
26173235 AATATTT
1 AATATTT
26173242 AA
1 AA
26173244 AAACTGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
AATATTT
Found at i:26188975 original size:23 final size:23
Alignment explanation
Indices: 26188948--26189046 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
26188938 AGTGTTATTG
* *
26188948 ATCAGTGGTAGCTTTGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
26188971 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
26188994 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
26189017 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
26189040 ATCAGTG
1 ATCAGTG
26189047 TTGCACTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:26190775 original size:62 final size:62
Alignment explanation
Indices: 26190685--26190843 Score: 221
Period size: 62 Copynumber: 2.6 Consensus size: 62
26190675 GACCATAGGT
* * * * *
26190685 CCAGGGACACAGGCGTGTGCCCAGGCCGTGTAACTCA-TTGTTTGTGGTATAAGACCACACGG
1 CCAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTT-TTTGTGGTACAAGACCACACAG
* *
26190747 CCAGAGACACGGGCATGTGTCCAGGCCGTGTAACTCACTTTTTGTGGTACAAGATCACACAG
1 CCAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTTTTTGTGGTACAAGACCACACAG
**
26190809 ATAGGGACACGGGCATGTGTCCAGGCCGTGTAACT
1 CCAGGGACACGGGCATGTGTCCAGGCCGTGTAACT
26190844 TACTGTTTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 84 0.98
63 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (62 bp):
CCAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTTTTTGTGGTACAAGACCACACAG
Found at i:26190868 original size:62 final size:62
Alignment explanation
Indices: 26190686--26190868 Score: 215
Period size: 62 Copynumber: 3.0 Consensus size: 62
26190676 ACCATAGGTC
* * * * * *
26190686 CAGGGACACAGGCGTGTGCCCAGGCCGTGTAACTCATTGTTTGTGGTAT-AAGACCACACGGC
1 CAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTGTTTGTGGT-TCAAGACCACACAGA
* * * *
26190748 CAGAGACACGGGCATGTGTCCAGGCCGTGTAACTCACTTTTTGTGGTACAAGATCACACAGA
1 CAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTGTTTGTGGTTCAAGACCACACAGA
* * * * *
26190810 TAGGGACACGGGCATGTGTCCAGGCCGTGTAACTTACTGTTTATGCTTCAAAACCACAC
1 CAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTGTTTGTGGTTCAAGACCACAC
26190869 GGGCAAGACA
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
62 101 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (62 bp):
CAGGGACACGGGCATGTGTCCAGGCCGTGTAACTCACTGTTTGTGGTTCAAGACCACACAGA
Found at i:26208118 original size:33 final size:32
Alignment explanation
Indices: 26208046--26208122 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
26208036 TATATACATG
* * **
26208046 TGTAAGACCATAGCTGGGCTATGACATTCTGA
1 TGTAAGACCATAACTGGGCTATGACATACAAA
* *
26208078 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA
26208112 TGTAAGACCAT
1 TGTAAGACCAT
26208123 GGAAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGACATACAAA
Found at i:26210270 original size:43 final size:43
Alignment explanation
Indices: 26210200--26210404 Score: 254
Period size: 43 Copynumber: 4.8 Consensus size: 43
26210190 CGCCGCTAAA
* *
26210200 TTTAGCGGCG-TTTATGTGAAAAACGCCGCTAAAGAACATGACC
1 TTTAGCGGCGCTTT-TGTCACAAACGCCGCTAAAGAACATGACC
* *
26210243 TTTAGCGGCGCTTTTGTCACAATCGCCGCTAAAGACCATGACC
1 TTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGACC
*
26210286 TTTAGCGGCGCTTTTGTCACAAACGCTGCTAAAGAACATGACC
1 TTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGACC
* * * *
26210329 TTTAGCGGTGCTTTTTATCACAAACGCCGCTAAAAAACA-AACC
1 TTTAGCGGCGC-TTTTGTCACAAACGCCGCTAAAGAACATGACC
* * *
26210372 TTTAGCGACGCTTCTCG-CAAAAACGCCGCTAAA
1 TTTAGCGGCGCTT-TTGTCACAAACGCCGCTAAA
26210405 AGCATATCAT
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
42 17 0.12
43 98 0.69
44 27 0.19
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGACC
Found at i:26210469 original size:24 final size:23
Alignment explanation
Indices: 26210433--26210478 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
26210423 ACTTATATTA
26210433 ATAAAATAATATTTAT-TTTTATG
1 ATAAAATAATA-TTATGTTTTATG
*
26210456 ATAAATATTATATTATGTTTTAT
1 ATAAA-ATAATATTATGTTTTAT
26210479 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
ATAAAATAATATTATGTTTTATG
Found at i:26214032 original size:41 final size:40
Alignment explanation
Indices: 26213983--26214182 Score: 224
Period size: 41 Copynumber: 4.9 Consensus size: 40
26213973 CTATTGCCCT
* *
26213983 GAGCATTAGCAGCGCTTCTTTAAAAACGCCGCT-AAATCTCC
1 GAGCATTAGCGGCGCTT-TTTAAAAACGCCGCTAAAACCT-C
* * *
26214024 GAGTATTAGCGGCGCTTTTTTAGAAACGCCGCTAAAACCTT
1 GAGCATTAGCGGCGC-TTTTTAAAAACGCCGCTAAAACCTC
* *
26214065 GAGCATTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGCC-C
1 GAGCATTAGCGGCGCTTTTT-AAAAACGCCGCTAAAACCTC
* * *
26214105 TGAGCATTAGCGGCGCTTGTTAAAAAACGCTGCTAAAACCTT
1 -GAGCATTAGCGGCGCTT-TTTAAAAACGCCGCTAAAACCTC
*
26214147 GAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAA
1 GAGCATTAGCGGCGCTTTTT-AAAAACGCCGCTAAA
26214183 GCCCCCGAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
40 7 0.05
41 120 0.88
42 9 0.07
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTTTAAAAACGCCGCTAAAACCTC
Found at i:26214080 original size:82 final size:82
Alignment explanation
Indices: 26213982--26214186 Score: 288
Period size: 82 Copynumber: 2.5 Consensus size: 82
26213972 ACTATTGCCC
* * * * *
26213982 TGAGCATTAGCAGCGCTTCTTT-AAAAACGCCGCTAAATCTCC-GAGTATTAGCGGCGCTTTTTT
1 TGAGCATTAGCGGCGCTT-TTTAAAAAACGCCGCTAAAGC-CCTGAGCATTAGCGGCGCTTGTTA
*
26214045 AGAAACGCCGCTAAAACCT
64 AAAAACGCCGCTAAAACCT
* *
26214064 TGAGCATTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGCCCTGAGCATTAGCGGCGCTTGTTAAA
1 TGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTGTTAAA
*
26214129 AAACGCTGCTAAAACCT
66 AAACGCCGCTAAAACCT
*
26214146 TGAGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAAGCCC
1 TGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCC
26214187 CCGAAAACTA
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
81 5 0.05
82 105 0.95
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (82 bp):
TGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTGTTAAA
AAACGCCGCTAAAACCT
Found at i:26214277 original size:38 final size:39
Alignment explanation
Indices: 26214222--26214316 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
26214212 TGGGCTTAGG
*
26214222 TTTTTTGCGGCACTTTTTGAAAAACGCCGCTAATGC-TCA
1 TTTTTAGCGGCA-TTTTTGAAAAACGCCGCTAATGCTTCA
* * * * * *
26214261 TTTTTAGCGGCGTTTTTTAAAAGCGCTGCTAATTCTTGA
1 TTTTTAGCGGCATTTTTGAAAAACGCCGCTAATGCTTCA
26214300 TTTTTAGCGGCATTTTT
1 TTTTTAGCGGCATTTTT
26214317 TTATCAAAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 19 0.40
39 28 0.60
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (39 bp):
TTTTTAGCGGCATTTTTGAAAAACGCCGCTAATGCTTCA
Found at i:26222140 original size:14 final size:15
Alignment explanation
Indices: 26222071--26222141 Score: 69
Period size: 14 Copynumber: 5.0 Consensus size: 15
26222061 ATCCTACCCC
* *
26222071 ATATACTGATATAGA
1 ATATACAGATACAGA
*
26222086 A-ATACATATACA-A
1 ATATACAGATACAGA
*
26222099 ATATACGGATACA-A
1 ATATACAGATACAGA
26222113 ATATACAGATACAGA
1 ATATACAGATACAGA
*
26222128 A-ATATAGATACAGA
1 ATATACAGATACAGA
26222142 TACTCAAACA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.04
14 42 0.89
15 3 0.06
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (15 bp):
ATATACAGATACAGA
Found at i:26231390 original size:27 final size:27
Alignment explanation
Indices: 26231360--26231417 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
26231350 TAAAATGGCA
*
26231360 ATTTTACCCCATAG-GGGTATTTTGGTC
1 ATTTTA-CCCATAGAGGGTATTTCGGTC
* *
26231387 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCATAGAGGGTATTTCGGTC
26231414 ATTT
1 ATTT
26231418 ATCAACCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (27 bp):
ATTTTACCCATAGAGGGTATTTCGGTC
Found at i:26234956 original size:22 final size:22
Alignment explanation
Indices: 26234931--26234979 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
26234921 TCCAAGTTAG
26234931 ATAAAACAATTAAAATA-AATAA
1 ATAAAACAATTAAAATATAAT-A
* * *
26234953 ATAAGATAATTAATATATAATA
1 ATAAAACAATTAAAATATAATA
26234975 ATAAA
1 ATAAA
26234980 TCTACGATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAAAACAATTAAAATATAATA
Found at i:26235249 original size:20 final size:20
Alignment explanation
Indices: 26235218--26235255 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26235208 TTGAAAAGAA
26235218 AACTCAAAGAGAA-TTTATT
1 AACTCAAAGAGAAGTTTATT
26235237 AACTCAGAAGAGAAGTTTA
1 AACTCA-AAGAGAAGTTTA
26235256 ATAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (20 bp):
AACTCAAAGAGAAGTTTATT
Found at i:26245850 original size:27 final size:27
Alignment explanation
Indices: 26245820--26246036 Score: 176
Period size: 27 Copynumber: 8.0 Consensus size: 27
26245810 TTTCATCTCC
**
26245820 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* * *
26245847 TAGGGGTACTTCTGTCGTTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
26245874 T-GAGGGTATTTCGGTCATTTTACCCTA
1 TAG-GGGTATTTCAGTCATTTTACCCTA
*
26245901 TAGGAGTATTTC-GATCATTTTACCCTA
1 TAGGGGTATTTCAG-TCATTTTACCCTA
* * *
26245928 TGGGGGTATTTCAGTCATTCTACTCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* * *
26245955 T-GGGAGCATTTC-GATCATTCTACTCTA
1 TAGGG-GTATTTCAG-TCATTTTACCCTA
* * * *
26245982 TGGGGGTATTTCGGTCATTCTA--TTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
26246007 TATGGCGGTATTTTAGTCATTTTACCCTA
1 TA-GG-GGTATTTCAGTCATTTTACCCTA
26246036 T
1 T
26246037 GAGGAAATTT
Statistics
Matches: 157, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
25 3 0.02
26 8 0.05
27 137 0.87
28 6 0.04
29 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCCTA
Found at i:26245922 original size:54 final size:54
Alignment explanation
Indices: 26245833--26246059 Score: 219
Period size: 54 Copynumber: 4.2 Consensus size: 54
26245823 GGGTATAACA
* * *
26245833 GTCATTTTACCCTATAGGGGTACTTCTG-TCGTTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATAGGAGTATTTC-GATCATTTTACCCTATGAGGGTATTTCG
* *
26245887 GTCATTTTACCCTATAGGAGTATTTCGATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAGGAGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* * * * * * *
26245941 GTCATTCTACTCTATGGGAGCATTTCGATCATTCTACTCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGAGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* * * * ** *
26245995 GTCATTCTA--TTATATGGCGGTATTT-TAGTCATTTTACCCTATGAGGAAATTTTG
1 GTCATTTTACCCTATA-GG-AGTATTTCGA-TCATTTTACCCTATGAGGGTATTTCG
26246049 GTCATTTTACC
1 GTCATTTTACC
26246060 TACTATTTTG
Statistics
Matches: 143, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
52 3 0.02
53 4 0.03
54 136 0.95
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGAGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
Found at i:26245956 original size:81 final size:81
Alignment explanation
Indices: 26245834--26246059 Score: 238
Period size: 81 Copynumber: 2.8 Consensus size: 81
26245824 GGTATAACAG
* * * * *
26245834 TCATTTTACCCTATAGGGGTACTTCTGTCGTTTTACCCTATGAGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGAATTTCGGTCATTTTACCC
26245899 TATAGGAGTATTTCGA
66 TATAGGAGTATTTCGA
* * * * * *
26245915 TCATTTTACCCTATGGGGGTATTTCAGTCATTCTACTCTATG-GGAGCATTTCGATCATTCTACT
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGG-GAATTTCGGTCATTTTACC
* * *
26245979 CTATGGGGGTATTTCGG
65 CTATAGGAGTATTTCGA
* *** * * * *
26245996 TCATTCTATTATATGGCGGTATTTTAGTCATTTTACCCTATGAGGAAATTTTGGTCATTTTACC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGAATTTCGGTCATTTTACC
26246060 TACTATTTTG
Statistics
Matches: 116, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
80 2 0.02
81 112 0.97
82 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGAATTTCGGTCATTTTACCC
TATAGGAGTATTTCGA
Found at i:26246037 original size:27 final size:26
Alignment explanation
Indices: 26245832--26246059 Score: 138
Period size: 27 Copynumber: 8.5 Consensus size: 26
26245822 GGGGTATAAC
*
26245832 AGTCATTTTACCCTATAGGGGTACTTCT
1 AGTCATTTTACCCTAT-GGGGTA-TTTT
* *
26245860 -GTCGTTTTACCCTATGAGGGTATTTC
1 AGTCATTTTACCCTATG-GGGTATTTT
* *
26245886 GGTCATTTTACCCTATAGGAGTA-TTT
1 AGTCATTTTACCCTAT-GGGGTATTTT
* *
26245912 CGATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTAT-GGGGTATTTT
* * *
26245940 AGTCATTCTACTCTATGGGAGCA-TTT
1 AGTCATTTTACCCTATGGG-GTATTTT
* * * *
26245966 CGATCATTCTACTCTATGGGGGTATTTC
1 AG-TCATTTTACCCTAT-GGGGTATTTT
* * ***
26245994 GGTCATTCTATTATATGGCGGTATTTT
1 AGTCATTTTACCCTATGG-GGTATTTT
**
26246021 AGTCATTTTACCCTATGAGGAAATTTT
1 AGTCATTTTACCCTATG-GGGTATTTT
*
26246048 GGTCATTTTACC
1 AGTCATTTTACC
26246060 TACTATTTTG
Statistics
Matches: 159, Mismatches: 30, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
26 14 0.09
27 134 0.84
28 11 0.07
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (26 bp):
AGTCATTTTACCCTATGGGGTATTTT
Found at i:26246766 original size:12 final size:12
Alignment explanation
Indices: 26246749--26246790 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
26246739 ATCTCAATAT
26246749 TCTCTCCTCAAA
1 TCTCTCCTCAAA
*
26246761 TCTCTCC-AAATA
1 TCTCTCCTCAA-A
*
26246773 TCTCTCCTCAAT
1 TCTCTCCTCAAA
26246785 TCTCTC
1 TCTCTC
26246791 TATGACCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.38
Consensus pattern (12 bp):
TCTCTCCTCAAA
Found at i:26246776 original size:24 final size:25
Alignment explanation
Indices: 26246744--26246790 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
26246734 CCCAAATCTC
26246744 AATATTCTCTCCTCAAATCTCTCCA
1 AATATTCTCTCCTCAAATCTCTCCA
*
26246769 AATA-TCTCTCCTCAATTCTCTC
1 AATATTCTCTCCTCAAATCTCTC
26246791 TATGACCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATTCTCTCCTCAAATCTCTCCA
Found at i:26247415 original size:17 final size:17
Alignment explanation
Indices: 26247369--26247415 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
26247359 GGATTCGTCA
* *
26247369 TTTGGTAGACTCTAAGT
1 TTTGGCAGACTCTAAGG
*
26247386 TTTGGC-GAGCTCTAGGG
1 TTTGGCAGA-CTCTAAGG
26247403 TTTGGCAGACTCT
1 TTTGGCAGACTCT
26247416 TCTGTTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.36
Consensus pattern (17 bp):
TTTGGCAGACTCTAAGG
Found at i:26257439 original size:22 final size:22
Alignment explanation
Indices: 26257414--26257456 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
26257404 AACTTAATTC
26257414 ACATTTATTGA-TTGAATGTAAT
1 ACATTTATT-ACTTGAATGTAAT
26257436 ACATTTATTACTTGAATGTAA
1 ACATTTATTACTTGAATGTAA
26257457 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTACTTGAATGTAAT
Found at i:26266388 original size:50 final size:50
Alignment explanation
Indices: 26266313--26266505 Score: 269
Period size: 50 Copynumber: 3.8 Consensus size: 50
26266303 ATTTGGGTAA
*
26266313 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
26266363 AGAGGTCCCATGTAAGACCATGTCTGGGGCATGGCGTTGGCAGCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
26266413 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
26266463 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26266506 TGTTATTATC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 91 0.73
51 34 0.27
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:26268826 original size:3 final size:3
Alignment explanation
Indices: 26268818--26268848 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
26268808 ATTTATTTAT
26268818 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26268849 CGTATTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:26270223 original size:23 final size:23
Alignment explanation
Indices: 26270197--26270257 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
26270187 TTTGTTTTCT
* *
26270197 TTTTAGTTTTAGTTTTATTTTTA
1 TTTTACTTTTAGTTTTATGTTTA
*
26270220 TTTTTCTTTTA-TGTTTATGTTTA
1 TTTTACTTTTAGT-TTTATGTTTA
*
26270243 TTATTATTTTTAGTT
1 TT-TTACTTTTAGTT
26270258 CTTTTTATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 20 0.67
24 8 0.27
25 1 0.03
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.74
Consensus pattern (23 bp):
TTTTACTTTTAGTTTTATGTTTA
Found at i:26270224 original size:6 final size:6
Alignment explanation
Indices: 26270191--26270254 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
26270181 AGTTTATTTG
* * * * *
26270191 TTTTCT TTTTAG TTTTAG TTTTAT TTTTAT TTTT-C TTTTAT GTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
26270238 GTTTAT TATTAT TTTTA
1 TTTTAT TTTTAT TTTTA
26270255 GTTCTTTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
5 4 0.08
6 44 0.92
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:26270229 original size:29 final size:30
Alignment explanation
Indices: 26270191--26270253 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
26270181 AGTTTATTTG
*
26270191 TTTTCTTTTTA-GTTT-TAGTTTTATTTTTAT
1 TTTTCTTTTTATGTTTAT-G-TTTATTATTAT
26270221 TTTTC-TTTTATGTTTATGTTTATTATTAT
1 TTTTCTTTTTATGTTTATGTTTATTATTAT
26270250 TTTT
1 TTTT
26270254 AGTTCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 19 0.63
30 10 0.33
31 1 0.03
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.76
Consensus pattern (30 bp):
TTTTCTTTTTATGTTTATGTTTATTATTAT
Found at i:26272759 original size:50 final size:50
Alignment explanation
Indices: 26272634--26272881 Score: 280
Period size: 50 Copynumber: 4.8 Consensus size: 50
26272624 ATTTGGGTCA
* * **
26272634 AGAGATCCCATGTAAGACCATGTCTTGGACATGGCATTGGCATAATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAG---ATG
* * *
26272690 AGAGGTCTCGTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
26272740 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
26272790 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
26272840 AGAACTCCCATGTAATACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26272882 GTACAAGAAA
Statistics
Matches: 169, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 129 0.76
53 4 0.02
56 36 0.21
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:26272917 original size:49 final size:50
Alignment explanation
Indices: 26272700--26272920 Score: 194
Period size: 50 Copynumber: 4.4 Consensus size: 50
26272690 AGAGGTCTCG
* * * * * **
26272700 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCCCA
* * * * * ** *
26272750 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCCCA
* * *
26272800 CGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCCCA
* * * * *
26272850 TGTAATACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AACATCCCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC-TCCCA
* *
26272899 TGTAAGACTATGTTTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
26272921 AGCTTTGGCA
Statistics
Matches: 148, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
48 3 0.02
49 27 0.18
50 118 0.80
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCCCA
Found at i:26277306 original size:22 final size:22
Alignment explanation
Indices: 26277278--26277320 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26277268 AACTTAATAC
*
26277278 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
26277300 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
26277321 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:26277499 original size:18 final size:19
Alignment explanation
Indices: 26277458--26277500 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
26277448 AAAATATATT
26277458 AAAAATTAAAAAATTAAAC
1 AAAAATTAAAAAATTAAAC
* *
26277477 -TAAATTAAGAAA-TAAAC
1 AAAAATTAAAAAATTAAAC
26277494 AAAAATT
1 AAAAATT
26277501 TCTTCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAAAATTAAAC
Found at i:26279788 original size:20 final size:20
Alignment explanation
Indices: 26279759--26279808 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
26279749 TGTCAGTACT
* * *
26279759 ATGAATAGTGGGGTCAAGTC
1 ATGAACAGTGGAGTCAAATC
26279779 ATGAACAGTGGAGTCAAATC
1 ATGAACAGTGGAGTCAAATC
26279799 ATGAACAGTG
1 ATGAACAGTG
26279809 ATAATATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (20 bp):
ATGAACAGTGGAGTCAAATC
Found at i:26285893 original size:70 final size:70
Alignment explanation
Indices: 26285772--26286325 Score: 586
Period size: 70 Copynumber: 7.9 Consensus size: 70
26285762 TCCCTTTCAA
* * * * **
26285772 AAAATAGGTAGCGTGAGCTCAAACTCCCAATTGTAACCTTAAGGCTCGCAGGTTCAATATTGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
26285837 CCCCC
66 CCCCC
* * * * * * * *
26285842 GAAATAGTTAGCGCGAACTCAAGCTCCCAGTTGTAACCTTAAGACTTGCAGGTTCAATACCGTAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
26285907 CCCCC
66 CCCCC
* * * * *
26285912 AAAATAGTTAGCGCGAGCTCAAGCTCCTAATTGTAGCTTTAAGGCTCTCATGTTCAATACTGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
* *
26285977 CCTCT
66 CCCCC
* * * * * * * *
26285982 AAAATAGTTAGTGCAAGCTCAAGCTCTCAACTATAACTGTAAGGCTCGCGGGTTCAATACCGCAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
26286047 CCCCC
66 CCCCC
* * * * * * *
26286052 AAAATAGTTAGTGCAAGCTCAAGCTCCCAGTTGTAGCTTTAAGGCTCTCAGGTTCAATACTGCAG
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
26286117 CCCCC
66 CCCCC
* * * * * *
26286122 AAAAGAGTTAGCGTGAGCTCAATCTCCTAACTGTAACTTTAAGTCTCGCAGGTTCAATACCGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
26286187 CCCCC
66 CCCCC
* * * *
26286192 AAAATAGTTAGCGTGAGCTCAAGCTCCCAATTGTAACTTTAAGGTTCACAAGTTCAATACCGCAA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
*
26286257 CCTCC
66 CCCCC
* * * * * * * * * * *
26286262 AAGACAGTTAGTGTGAGCTCAAGCTCCTAACTGTAGCTTTAAGGTTTGTAGGTTTAATACCGCA
1 AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCA
26286326 GTCTCCAAAG
Statistics
Matches: 400, Mismatches: 84, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 400 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (70 bp):
AAAATAGTTAGCGCGAGCTCAAGCTCCCAATTGTAACTTTAAGGCTCGCAGGTTCAATACCGCAA
CCCCC
Found at i:26286498 original size:18 final size:18
Alignment explanation
Indices: 26286477--26286517 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
26286467 GGTTTACTTG
*
26286477 AGTTTGAAAATTCGCTTA
1 AGTTTGAAAATTCGCTCA
*
26286495 AG-TTGAAAATTTGCTCA
1 AGTTTGAAAATTCGCTCA
26286512 AGTTTG
1 AGTTTG
26286518 CTTAAGCCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (18 bp):
AGTTTGAAAATTCGCTCA
Found at i:26289556 original size:24 final size:26
Alignment explanation
Indices: 26289529--26289583 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
26289519 ATAATTGGAG
*
26289529 TAAAAAC-AATA-ACAAACCTGATTA
1 TAAAAACAAATAGACAAACATGATTA
* *
26289553 T-AAAACAAATAGACACATATGATTA
1 TAAAAACAAATAGACAAACATGATTA
26289578 TAAAAA
1 TAAAAA
26289584 GAATCTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 5 0.20
24 5 0.20
25 11 0.44
26 4 0.16
ACGTcount: A:0.60, C:0.13, G:0.05, T:0.22
Consensus pattern (26 bp):
TAAAAACAAATAGACAAACATGATTA
Found at i:26295860 original size:3 final size:3
Alignment explanation
Indices: 26295854--26295891 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
26295844 CGCTACCCCT
* *
26295854 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
26295892 TGCTTCTGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:26305277 original size:4 final size:4
Alignment explanation
Indices: 26305270--26305318 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
26305260 TGATTAATTT
* *
26305270 TTAA TTAA TTAA TT-T TTAA TTAA TTTAA TTAA GTTAA TTAA GTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA -TTAA TTAA -TTAA TTAA TTAA TTAA
26305319 AGATTTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 28 0.74
5 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:26305280 original size:25 final size:23
Alignment explanation
Indices: 26305249--26305308 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 23
26305239 TTCGCTAATT
26305249 TTAATTAATTGTGATTAATT-TTTAA
1 TTAATTAATT-T--TTAATTATTTAA
26305274 TTAATTAATTTTTAATTAATTTAA
1 TTAATTAATTTTTAATT-ATTTAA
26305298 TTAAGTTAATT
1 TTAA-TTAATT
26305309 AAGTAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.19
24 10 0.31
25 16 0.50
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TTAATTAATTTTTAATTATTTAA
Found at i:26305282 original size:15 final size:15
Alignment explanation
Indices: 26305262--26305299 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
26305252 ATTAATTGTG
26305262 ATTAATTTTTAATTA
1 ATTAATTTTTAATTA
26305277 ATTAATTTTTAATTA
1 ATTAATTTTTAATTA
26305292 ATTTAATT
1 A-TTAATT
26305300 AAGTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTAATTTTTAATTA
Done.