Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 10 of 349
Found at i:3049212 original size:92 final size:91
Alignment explanation
Indices: 3048888--3049216 Score: 255
Period size: 92 Copynumber: 3.6 Consensus size: 91
3048878 ATGAAATGTG
* * * * * * ***
3048888 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACAATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
* * * ** ****
3048953 TACCATGGCAGCCTGATATGAAACGTG
65 TACCATGGCAACATGACAAAAAATAAA
* * * * * ***
3048980 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACAATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
**
3049045 TACCATGGCAACATGACGGAAAATAAA
65 TACCATGGCAACATGACAAAAAATAAA
* * * * *
3049072 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACAATAGTTGAAAGACACCATGGCAGCATGACA-GAAATAAATAAGACCATGGTTGAAAGA
* *
3049137 TACCATGGCAACATGACAAAAAAATGAG
65 TACCATGGCAACATGAC-AAAAAATAAA
** * *
3049165 TAAGACAATAGTTGAAAGACACTGTGGCATCATGTCA-AAGATAAATAAGACC
1 TAAGACAATAGTTGAAAGACACCATGGCAGCATGACAGAA-ATAAATAAGACC
3049217 GTGGATGGGA
Statistics
Matches: 207, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
91 2 0.01
92 170 0.82
93 35 0.17
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (91 bp):
TAAGACAATAGTTGAAAGACACCATGGCAGCATGACAGAAATAAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACAAAAAATAAA
Found at i:3058810 original size:45 final size:45
Alignment explanation
Indices: 3058760--3058847 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
3058750 AAAAGAGAAG
3058760 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAAA
3058805 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAA
3058848 GGGTTAGGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.50, C:0.16, G:0.20, T:0.14
Consensus pattern (45 bp):
GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAAA
Found at i:3058862 original size:43 final size:44
Alignment explanation
Indices: 3058760--3058869 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 44
3058750 AAAAGAGAAG
3058760 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAAC-AAAAA
3058805 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAAC-AAAA
1 GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAA
** * *
3058848 GGGTTAGGATGAAAACCCGAAA
1 GAATCAAGATGAAAACCCGAAA
3058870 GGGGTGTCCC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 22 0.36
45 39 0.64
ACGTcount: A:0.48, C:0.15, G:0.23, T:0.14
Consensus pattern (44 bp):
GAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATAAACAAAAA
Found at i:3059727 original size:76 final size:77
Alignment explanation
Indices: 3059640--3059793 Score: 265
Period size: 77 Copynumber: 2.0 Consensus size: 77
3059630 TTTATTTCTG
3059640 TTTTTAAAAAAAATCAACTCATATTGC-GGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
1 TTTTTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
3059704 CTTTAGTTCCTA
66 CTTTAGTTCCTA
* *
3059716 TTTTTCAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TTTTTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
* *
3059781 TTTTAGTTTCTA
66 CTTTAGTTCCTA
3059793 T
1 T
3059794 CAACTCATAT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
76 26 0.36
77 47 0.64
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (77 bp):
TTTTTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
CTTTAGTTCCTA
Found at i:3059815 original size:64 final size:64
Alignment explanation
Indices: 3059728--3059847 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
3059718 TTTCAAAAAA
* * *
3059728 ATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
3059792 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTT
3059848 CAATTTATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (64 bp):
ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
Found at i:3060014 original size:64 final size:64
Alignment explanation
Indices: 3059925--3060044 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
3059915 TTTCAAAAAA
* *
3059925 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
* *
3059989 ATCAACTCATATTAGGAGAGGTGAGTTAAGCCTCGGGACACATGCTGAGGTATTTT
1 ATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTT
3060045 CAATTTATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (64 bp):
ATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
Found at i:3060051 original size:197 final size:197
Alignment explanation
Indices: 3059716--3060374 Score: 1174
Period size: 197 Copynumber: 3.3 Consensus size: 197
3059706 TTAGTTCCTA
*
3059716 TTTTTCAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
3059781 TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATT
66 TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATT
3059846 TTCAATTTATGTTTTTCAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTC
131 TTCAATTTATGTTTTTCAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTC
3059911 TG
196 TG
*
3059913 TTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
* * *
3059978 TTTTAGTTTCTATCAACTCATATTAGGAGAGGTGAGTTAAGCCTCGGGACACATGCTGAGGTATT
66 TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATT
* *
3060043 TTCAATTTATGTTTTTCAAAAAAATCGAATCATATTACGAGAAGTGAGTTGAACCTTTTAGTCTC
131 TTCAATTTATGTTTTTCAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTC
3060108 TG
196 TG
*
3060110 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
*
3060175 TTTTAGTTTCTATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATT
66 TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATT
* *
3060240 TTCAATTTATGTTTTCCAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTTTAGTCTC
131 TTCAATTTATGTTTTTCAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTC
3060305 TG
196 TG
* * ** *
3060307 TTTTTCAAAAAAATCAACTTATATTGCGATAGGTGAGTTGAGCCTCAAGTCACACACTGAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
3060372 TTT
66 TTT
3060375 CAATTTTTTA
Statistics
Matches: 439, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
197 439 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (197 bp):
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
TTTTAGTTTCTATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATT
TTCAATTTATGTTTTTCAAAAAAATCGACTCATATTGCGAGAAGTGAGTTGAACCTTTTAGTCTC
TG
Found at i:3060211 original size:64 final size:64
Alignment explanation
Indices: 3060122--3060241 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
3060112 TTTCAAAAAA
* *
3060122 ATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGTATTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
* *
3060186 ATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGACACACGCTGAGGTATTTT
1 ATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTT
3060242 CAATTTATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (64 bp):
ATCAACTCATATTACGAGAGGTGAGTTAAGCCTCGGGACACACGCTGAGGTATTTTTAGTTTCT
Found at i:3062439 original size:133 final size:138
Alignment explanation
Indices: 3062078--3062655 Score: 757
Period size: 133 Copynumber: 4.2 Consensus size: 138
3062068 TTCGTTTCTT
* * *
3062078 TATTAATTATTATTATTATTATTATAT-TTAGTGTATA-CTTT-TTAT-TAGATACATATATGTA
1 TATT-ATTACTATTATTATTATTATATATTAGTGTATATTTTTATTATATAG-TACGTATATGTA
* *
3062139 TATATATTTATGTATAGTATTATTTTTTATTACTTTATTTTAATA-TTTTATTATATTTACTTTT
64 TATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTT
3062203 TGTATTTCAA
129 TGTATTTCAA
* * *
3062213 TATTATTACTATTATCATTATTAT-TGTTAGTGTATATTTTTATTATATATGTATGTATATGTAC
1 TATTATTACTATTATTATTATTATATATTAGTGTATATTTTTATTATATA-GTACGTATATG---
* * *
3062277 ATATATATATATTTGTATATAGTTTTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTT
62 ---TATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTG
3062342 CTTTTTGTATTTC-A
124 CTTTTTGTATTTCAA
*
3062356 -A-TATTGCTATTATTATTATTATATATTAGTGTATACTTTTTA-T-TATA-TACGTATATGTAT
1 TATTATTACTATTATTATTATTATATATTAGTGTATA-TTTTTATTATATAGTACGTATATGTAT
3062416 ATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTT
65 ATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTT
3062481 GTATTTCAA
130 GTATTTCAA
*
3062490 TATTATTACTATTATCATCATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATA
1 TATTATTACTATTAT--T-ATTATTA-T-ATATTAGTGTATATTTTTATTATATA-GTACGTATA
* *
3062555 TGTATATATATTTATATATAGTATTATTCTTTTATTACTTTATTCTAATATTATTATTATATTTG
60 TGTATATATATTTATATATAGTATTATT-TTTTATTACTTTATTTTAATATTTTTATTATATTTG
*
3062620 CTTTTTGTATTTCAT
124 CTTTTTGTATTTCAA
* *
3062635 TATTATTGCTAGTATTATTAT
1 TATTATTACTATTATTATTAT
3062656 CATTATCATC
Statistics
Matches: 393, Mismatches: 23, Indels: 47
0.85 0.05 0.10
Matches are distributed among these distances:
133 73 0.19
134 29 0.07
135 8 0.02
136 15 0.04
137 10 0.03
138 2 0.01
139 16 0.04
140 7 0.02
141 37 0.09
142 22 0.06
143 52 0.13
144 61 0.16
145 61 0.16
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (138 bp):
TATTATTACTATTATTATTATTATATATTAGTGTATATTTTTATTATATAGTACGTATATGTATA
TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATATTTGCTTTTTG
TATTTCAA
Found at i:3062556 original size:10 final size:10
Alignment explanation
Indices: 3062539--3062578 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
3062529 ATATTTTTAT
3062539 TATATATGTA
1 TATATATGTA
*
3062549 TGTATATGTA
1 TATATATGTA
*
3062559 TATATATTTA
1 TATATATGTA
3062569 TATATA-GTA
1 TATATATGTA
3062578 T
1 T
3062579 TATTCTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 3 0.12
10 23 0.88
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATATATGTA
Found at i:3062582 original size:16 final size:16
Alignment explanation
Indices: 3062528--3062574 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
3062518 AATATTAGTG
*
3062528 TATATTTTTAT-TATA
1 TATATATTTATATATA
* * *
3062543 TATGTATGTATATGTA
1 TATATATTTATATATA
3062559 TATATATTTATATATA
1 TATATATTTATATATA
3062575 GTATTATTCT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TATATATTTATATATA
Found at i:3062688 original size:145 final size:141
Alignment explanation
Indices: 3062131--3062688 Score: 602
Period size: 145 Copynumber: 4.0 Consensus size: 141
3062121 ATTAGATACA
*
3062131 TATATGTATATATATTTATGTATAGTATTATTTTTTATTACTTTATTTTAATA-TTTTATTATAT
1 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
* * * * * * * *
3062195 TTACTTTTTGTATTTCAATATTATTACTATTATCATTATTATTGTTAGTGTATATT-TTTATTAT
66 TTGCTTTTTGTATTTCAATATTATTGCTA-TATTATTATCATTATTA-TAT-TATTATATA-TAC
* *
3062259 ATATGTATGTATATG
127 ATATATATATATATG
* * * *
3062274 TACATATATATATATTTGTATATAGTTTTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
1 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
* * *
3062339 TTTCTTTTTGTATTTC-A-A-TATTGC--TATTA-T-T-ATTATTATA-TATTAGTGTATAC-TT
66 TTGCTTTTTGTATTTCAATATTATTGCTATATTATTATCATTATTATATTATTA-TATATACATA
* *
3062394 TTTATTATATACG
130 TATA-TATATATG
3062407 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
1 TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
* * * * * **
3062472 TTGCTTTTTGTATTTCAATATTATTACTATTATCATCATTATTATTAATATTAGTGTATATTTTT
66 TTGCTTTTTGTATTTCAATATTATTGCTA-TATTATTATCATTATT-ATATTA-T-TATATATAC
*
3062537 AT-TATATATGTATG
127 ATATATATATATATG
* *
3062551 TATATGTATATATATTTATATATAGTATTATTCTTTTATTACTTTATTCTAATATTATTATTATA
1 TATATGTATATATATTTATATATAGTATTATT-TTTTATTACTTTATTTTAATATTTTTATTATA
* * *
3062616 TTTGCTTTTTGTATTTCATTATTATTGCTAGTATTATTATCATTATCATCATTATTAACATATAC
65 TTTGCTTTTTGTATTTCAATATTATTGCTA-TATTATTATCATTATTAT-ATTATT-ATATATAC
3062681 ATATATAT
127 ATATATAT
3062689 GTGTATCTTT
Statistics
Matches: 349, Mismatches: 44, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
132 8 0.02
133 84 0.24
134 5 0.01
135 7 0.02
136 6 0.02
137 1 0.00
138 4 0.01
139 4 0.01
141 6 0.02
142 7 0.02
143 53 0.15
144 75 0.21
145 86 0.25
146 3 0.01
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (141 bp):
TATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATATTTTTATTATAT
TTGCTTTTTGTATTTCAATATTATTGCTATATTATTATCATTATTATATTATTATATATACATAT
ATATATATATG
Found at i:3062755 original size:29 final size:26
Alignment explanation
Indices: 3062723--3062778 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 26
3062713 TATTTTCTAC
3062723 TATTATTACAAATATTATTTCTTTTATTA
1 TATTATTA-AAATATTA-TT-TTTTATTA
*
3062752 TATTATTAGAATATTATTTTTTATTA
1 TATTATTAAAATATTATTTTTTATTA
3062778 T
1 T
3062779 CATTTTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.35
27 2 0.08
28 7 0.27
29 8 0.31
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TATTATTAAAATATTATTTTTTATTA
Found at i:3066838 original size:27 final size:26
Alignment explanation
Indices: 3066807--3066868 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
3066797 TTTCCTTTAA
*
3066807 TAATATTTTTATCAATTTTGAAAA-TTC
1 TAATATTTTCAT-AATTTT-AAAATTTC
*
3066834 TAATAATTTTCATTATTTTAAAATTTC
1 TAAT-ATTTTCATAATTTTAAAATTTC
3066861 TAAT-TTTT
1 TAATATTTT
3066869 AAAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 4 0.13
26 4 0.13
27 16 0.52
28 7 0.23
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
TAATATTTTCATAATTTTAAAATTTC
Found at i:3066879 original size:20 final size:21
Alignment explanation
Indices: 3066854--3066893 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
3066844 CATTATTTTA
3066854 AAATTTCTA-ATTTTTAAAAT
1 AAATTTCTATATTTTTAAAAT
3066874 AAATTTCTATTATTTTTAAA
1 AAATTTCTA-TATTTTTAAA
3066894 TTTTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATTTCTATATTTTTAAAAT
Found at i:3066895 original size:17 final size:18
Alignment explanation
Indices: 3066873--3066911 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3066863 ATTTTTAAAA
*
3066873 TAAA-TTTCTATTATTTT
1 TAAATTTTCTATAATTTT
*
3066890 TAAATTTTTTATAATTTT
1 TAAATTTTCTATAATTTT
3066908 TAAA
1 TAAA
3066912 AACTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TAAATTTTCTATAATTTT
Found at i:3067778 original size:18 final size:19
Alignment explanation
Indices: 3067757--3067799 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
3067747 AAAAAAAATA
*
3067757 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
3067775 AATTTTAAAAATTATTTTG
1 AATTTTAAAAATTATTTTG
3067794 AATTTT
1 AATTTT
3067800 TTTTTGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:3067898 original size:9 final size:9
Alignment explanation
Indices: 3067884--3067913 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3067874 ATACTAATAT
3067884 ATTATTCGA
1 ATTATTCGA
3067893 ATTATTCGA
1 ATTATTCGA
*
3067902 GTTATTCGA
1 ATTATTCGA
3067911 ATT
1 ATT
3067914 GTGAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:3082183 original size:31 final size:32
Alignment explanation
Indices: 3082148--3082221 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
3082138 TTAATAAAAT
**
3082148 ATTTGGTAAC-TGAATTTGA-TAATTTTTCTTA
1 ATTTGGTAACTTGAACCTGACT-ATTTTTCTTA
3082179 ATTTGGT-ACTTGAACCTGACTATTTTTCTTA
1 ATTTGGTAACTTGAACCTGACTATTTTTCTTA
3082210 ATTTGGT-ACTTG
1 ATTTGGTAACTTG
3082222 TCAAACGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 2 0.05
31 36 0.92
32 1 0.03
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (32 bp):
ATTTGGTAACTTGAACCTGACTATTTTTCTTA
Found at i:3083399 original size:18 final size:18
Alignment explanation
Indices: 3083376--3083418 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3083366 GAATAAGTTT
3083376 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
3083394 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
3083412 TTAATTA
1 TTAATTA
3083419 TGCTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:3085095 original size:26 final size:26
Alignment explanation
Indices: 3085058--3085141 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
3085048 TGATACAAAT
* *
3085058 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3085084 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
3085110 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
3085136 TGATAA
1 TGATAA
3085142 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:3086337 original size:8 final size:8
Alignment explanation
Indices: 3086326--3086358 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
3086316 GGCAAAAGTT
3086326 GAAAAGCC
1 GAAAAGCC
3086334 GAAAAGCC
1 GAAAAGCC
*
3086342 GAAATGCC
1 GAAAAGCC
3086350 GAAAA-CC
1 GAAAAGCC
3086357 GA
1 GA
3086359 TATTTTGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.48, C:0.24, G:0.24, T:0.03
Consensus pattern (8 bp):
GAAAAGCC
Found at i:3090879 original size:18 final size:18
Alignment explanation
Indices: 3090856--3090945 Score: 64
Period size: 18 Copynumber: 5.2 Consensus size: 18
3090846 AGTATAAATG
3090856 ATATACAAAAT-AATATAT
1 ATATACAAAATAAATA-AT
3090874 ATATAC-AAATAAATAAT
1 ATATACAAAATAAATAAT
* *
3090891 ATACACAAAATACA-AAT
1 ATATACAAAATAAATAAT
** * *
3090908 AGCT-TAATATAAATAAT
1 ATATACAAAATAAATAAT
*
3090925 ATATATAAAA-ATAATAAT
1 ATATACAAAATA-AATAAT
3090943 ATA
1 ATA
3090946 ATATTTAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
16 6 0.11
17 21 0.38
18 29 0.52
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (18 bp):
ATATACAAAATAAATAAT
Found at i:3090898 original size:17 final size:17
Alignment explanation
Indices: 3090849--3090899 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
3090839 ACGAAACAGT
*
3090849 ATAAATGATATACA-AA
1 ATAAATAATATACACAA
*
3090865 AT-AATATATATATACAA
1 ATAAATA-ATATACACAA
3090882 ATAAATAATATACACAA
1 ATAAATAATATACACAA
3090899 A
1 A
3090900 ATACAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.10
16 8 0.28
17 14 0.48
18 4 0.14
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAAATAATATACACAA
Found at i:3090946 original size:23 final size:21
Alignment explanation
Indices: 3090916--3090958 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3090906 ATAGCTTAAT
3090916 ATAAATAATATATATAAAAATA
1 ATAAATAATATATA-AAAAATA
*
3090938 ATAATATAATATTTAAAAAAT
1 ATAA-ATAATATATAAAAAAT
3090959 GTTCATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATAATATATAAAAAATA
Found at i:3091506 original size:13 final size:13
Alignment explanation
Indices: 3091488--3091513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3091478 GGTAATGGGG
3091488 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
3091501 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
3091514 GGAATTAGTG
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:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:3091553 original size:17 final size:17
Alignment explanation
Indices: 3091531--3091565 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3091521 GTGGCAAGTA
3091531 GGGTGATAGAGTTAGTG
1 GGGTGATAGAGTTAGTG
*
3091548 GGGTGATGGAGTTAGTG
1 GGGTGATAGAGTTAGTG
3091565 G
1 G
3091566 TCGGTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.51, T:0.29
Consensus pattern (17 bp):
GGGTGATAGAGTTAGTG
Found at i:3092168 original size:134 final size:134
Alignment explanation
Indices: 3092014--3092279 Score: 426
Period size: 134 Copynumber: 2.0 Consensus size: 134
3092004 GATAAGGCCG
* * * *
3092014 GTGGTTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTTTTATCTACTCTAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTCTGATCTACTCCAT
**
3092079 AGCCAATACATGGAGATAAGATCTGTAA-TTCTTCAGTCTGCTTCCTGTAACTTCAGGAAGATAA
66 AGCCAATACATGGAGATAAGATCTGTAACTT-TTCAGTCTGCTTCCTACAACTTCAGGAAGATAA
3092143 GACTA
130 GACTA
* * *
3092148 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTCTGATCTACTCCAT
*
3092213 AGCCAATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGGAATATAAG
66 AGCCAATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAG
3092278 AC
131 AC
3092280 CTGTATTTTC
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
134 119 0.98
135 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (134 bp):
GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTCTGATCTACTCCAT
AGCCAATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAG
ACTA
Found at i:3092352 original size:178 final size:178
Alignment explanation
Indices: 3092137--3092811 Score: 1059
Period size: 178 Copynumber: 3.8 Consensus size: 178
3092127 AACTTCAGGA
* *
3092137 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCT-
1 AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTT-TA
* *
3092201 GATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTT
65 GATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTT
* * *
3092266 CAGGAATATAAGACCTGTATTTTCAACCTGCTCTCTTGCTACCTCAGAG
130 CAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
* * *
3092315 AGATGAGGCTGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTAG
1 AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTAG
*
3092380 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTC
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTC
* *
3092445 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGTTACATCAGAG
131 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
* * * *
3092493 AGATAAGGCTGGTGGCTAAAATTTTCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCT-
1 AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTT-TA
* *
3092557 GATCTGCTCCATAGCCGATACATAGAGATAAGATCTATAA-TTTTCAGTCTGCTTCCTGCAACTT
65 GATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTT
* * *
3092621 CAGGAAGATAAGGCTTTTATCTTCAACCTGCTCTCTTTCTACCTCAGAG
130 CAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
* * *
3092670 AGATAAGGGTGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCG
1 AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTAG
* *
3092735 ATCTGTTCCATAGCTGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTC
66 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTC
*
3092800 AGGAATATAAGA
131 AGGAAGATAAGA
3092812 TTAGTGGCTA
Statistics
Matches: 455, Mismatches: 38, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
176 1 0.00
177 162 0.36
178 291 0.64
179 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (178 bp):
AGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTAG
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTC
AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
Found at i:3092402 original size:312 final size:311
Alignment explanation
Indices: 3091812--3092458 Score: 974
Period size: 312 Copynumber: 2.1 Consensus size: 311
3091802 ACCTGTTCCA
* * ** * *
3091812 CTGCAACTTCAGGGAGATGAGGTTAATGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAG
1 CTGCAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
* ** *
3091877 ACTTGCCATTTCTGATCTACTCCATAGCTGATATATGGAGATAAGATCCGTAATTTTCAGTCTGC
66 ACTCGCCATTTCTGATCTACTCCATAGCCAATACATGGAGATAAGATCCGTAATTTTCAGTCTGC
* * *
3091942 TTCTTGCAACTTCAAGAAGATAAGACTAGTATCTTCAACCTGCTCTCTTGCAACCTTAAAGAGAT
131 TTCCTACAACTTCAAGAAGATAAGACTAGTATCTTCAACCTGCTCTCTTGCAACCTCAAAGAGAT
* * **
3092007 AAGGCCGGTGGTTAAAATCTGCTCCATAGCCGATACATGGAGATAAAACCCGCCATTTTTTATCT
196 AAGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTAGATCT
*
3092072 ACTCTATAGCCAATACATGGAGATAAGATCTGT-AATTCTTCAGTCTGCTTC
261 ACTCCATAGCCAATACATGGAGATAAGATCTGTAAATT-TTCAGTCTGCTTC
*
3092123 CTGTAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
1 CTGCAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
* *
3092188 ACTCGCCATTTCTGATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAACTTTTCAGTCTG
66 ACTCGCCATTTCTGATCTACTCCATAGCCAATACATGGAGATAAGATCCGTAA-TTTTCAGTCTG
* * * * *
3092253 CTTCCTACAACTTCAGGAATATAAGACCT-GTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAG
130 CTTCCTACAACTTCAAGAAGATAAGA-CTAGTATCTTCAACCTGCTCTCTTGCAACCTCAAAGAG
* * *
3092317 ATGAGGCTGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTAGAT
194 ATAAGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTAGAT
* *
3092382 CTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTC
259 CTACTCCATAGCCAATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTC
3092435 CTGCAACTTCAGGAAGATAAGACT
1 CTGCAACTTCAGGAAGATAAGACT
3092459 TGTATCTTCA
Statistics
Matches: 301, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
311 105 0.35
312 190 0.63
313 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (311 bp):
CTGCAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAG
ACTCGCCATTTCTGATCTACTCCATAGCCAATACATGGAGATAAGATCCGTAATTTTCAGTCTGC
TTCCTACAACTTCAAGAAGATAAGACTAGTATCTTCAACCTGCTCTCTTGCAACCTCAAAGAGAT
AAGGCCGGTGGCTAAAATCTGCTCCACAGCCGATACATGGAGATAAAACCCGCCATTTTAGATCT
ACTCCATAGCCAATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTC
Found at i:3092716 original size:355 final size:356
Alignment explanation
Indices: 3092137--3092811 Score: 1109
Period size: 355 Copynumber: 1.9 Consensus size: 356
3092127 AACTTCAGGA
* *
3092137 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTCTG
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCTG
* *
3092202 ATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
66 ATCTGCTCCATAGCCAATACATAGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTC
* * *
3092267 AGGAATATAAGACCTGTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGCT
131 AGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
*
3092332 AAAATCTGCTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTAGATCTGCTCCATAGCCGA
196 AAAATCTACTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTAGATCTGCTCCATAGCCGA
3092397 TACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGT
261 TACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGT
3092462 ATCTTCAACCTGCTCTCTTGTTACATCAGAG
326 ATCTTCAACCTGCTCTCTTGTTACATCAGAG
* * * *
3092493 AGATAAGGCTGGTGGCTAAAATTTTCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCTG
1 AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCTG
* *
3092558 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTATAA-TTTTCAGTCTGCTTCCTGCAACTTC
66 ATCTGCTCCATAGCCAATACATAGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTC
* * * * *
3092622 AGGAAGATAAGGCTTTTATCTTCAACCTGCTCTCTTTCTACCTCAGAGAGATAAGGGTGGTGGCT
131 AGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
* * * * *
3092687 AAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGTTCCATAGCTGA
196 AAAATCTACTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTAGATCTGCTCCATAGCCGA
* *
3092752 TACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTCAGGAATATAAGA
261 TACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
3092812 TTAGTGGCTA
Statistics
Matches: 293, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
355 198 0.68
356 95 0.32
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (356 bp):
AGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCACCATTTCTG
ATCTGCTCCATAGCCAATACATAGAGATAAGATCTATAACTTTTCAGTCTGCTTCCTACAACTTC
AGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
AAAATCTACTCCACAGCCGATACATGGAGATAAGACCCGCCATTTTAGATCTGCTCCATAGCCGA
TACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGT
ATCTTCAACCTGCTCTCTTGTTACATCAGAG
Found at i:3092844 original size:89 final size:89
Alignment explanation
Indices: 3092735--3092900 Score: 287
Period size: 89 Copynumber: 1.9 Consensus size: 89
3092725 GCCATTTTCG
* * *
3092735 ATCTGTTCCATAGCTGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
* *
3092800 AGGAATATAAGATTAGTGGCTAAA
66 AGAAAGATAAGATTAGTGGCTAAA
3092824 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
3092889 AGAAAGATAAGA
66 AGAAAGATAAGA
3092901 CCTGTATCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
AGAAAGATAAGATTAGTGGCTAAA
Found at i:3093129 original size:267 final size:266
Alignment explanation
Indices: 3092563--3093047 Score: 697
Period size: 267 Copynumber: 1.8 Consensus size: 266
3092553 TTCTGATCTG
* * * *
3092563 CTCCATAGCCGATACATAGAGATAAGATCTATAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAG
1 CTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGAAAG
* * * * * * *
3092628 ATAAGGCTTTTATCTTCAACCTGCTCTCTTTCTACCTCAGAGAGATAAGGGTGGTGGCTAAAATC
66 ATAAGACCTGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATA
* * *
3092693 TACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGTTCCATAGCTGATACATG
131 TACTCCATAGCCGATACATGGAGATAAGACTCACCATTTTCGATCTGTTCCATAGCCGATACATA
* * * * ***
3092758 GAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTGCAACTTCAGGAATATAAGATTAGTGGCTAA
196 GAGATAAGATCTATAACTTTACAGTCTGCTTCCTACAACTTCAGGAATATAAGACTAGCAACTAA
* *
3092823 AATCTG
261 AATATA
3092829 CTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGAAA
1 CTCCATAGCCGATACATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTACAACTTCAGAAA
*
3092894 GATAAGACCTGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGGCTAAAAT
65 GATAAGACCTGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
*
3092959 ATGCTCCATAGCCGATACATGGAGATAAGACTCACCA-TTTCTGATCTGCTT-CATAGCCGATAC
130 ATACTCCATAGCCGATACATGGAGATAAGACTCACCATTTTC-GATCTG-TTCCATAGCCGATAC
3093022 ATAGAGATAAGATCTATAA-TTTACAG
193 ATAGAGATAAGATCTATAACTTTACAG
3093048 CTTGTTACCC
Statistics
Matches: 198, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
266 42 0.21
267 154 0.78
268 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (266 bp):
CTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGAAAG
ATAAGACCTGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATA
TACTCCATAGCCGATACATGGAGATAAGACTCACCATTTTCGATCTGTTCCATAGCCGATACATA
GAGATAAGATCTATAACTTTACAGTCTGCTTCCTACAACTTCAGGAATATAAGACTAGCAACTAA
AATATA
Found at i:3093249 original size:64 final size:64
Alignment explanation
Indices: 3093148--3093272 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
3093138 TCATGTATAT
* * *
3093148 ATGCTTATGCCAAACAGTTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAGCTAGATGTG
1 ATGCTTATGCCAAACAATTAGGATGCTATGACCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
3093212 ATGCTTATGCCAAATAATTAGGATGCTATGACCAAAATGAATCAAATGCTCCTAACTAGAT
1 ATGCTTATGCCAAACAATTAGGATGCTATGACCAAAATGAATCAAATGCTCCTAACTAGAT
3093273 ATACTATGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (64 bp):
ATGCTTATGCCAAACAATTAGGATGCTATGACCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:3096151 original size:22 final size:21
Alignment explanation
Indices: 3096102--3096178 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
3096092 GCCCCTTTAT
* *
3096102 ATTAAACCCCAAAACCCATCAT
1 ATTAAA-CCCAAAACCCAACAA
* *
3096124 ACTAAACCCCAAAACCCAACAC
1 ATTAAA-CCCAAAACCCAACAA
* *
3096146 ATTAAA-CTACAACCCAACAA
1 ATTAAACCCAAAACCCAACAA
3096166 ATTAAACCCAAAA
1 ATTAAACCCAAAA
3096179 TTTTACCCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 17 0.38
21 4 0.09
22 24 0.53
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (21 bp):
ATTAAACCCAAAACCCAACAA
Found at i:3096873 original size:18 final size:19
Alignment explanation
Indices: 3096847--3096889 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
3096837 TCCCTCTCCC
*
3096847 TCTCCCTTC-TCTTTTCTT
1 TCTCTCTTCTTCTTTTCTT
*
3096865 TCTCTCTTCTTTTTTTCTT
1 TCTCTCTTCTTCTTTTCTT
3096884 TCTCTC
1 TCTCTC
3096890 CTCACCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (19 bp):
TCTCTCTTCTTCTTTTCTT
Found at i:3097614 original size:22 final size:20
Alignment explanation
Indices: 3097586--3097633 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
3097576 CTCAACTTTA
*
3097586 ATATATATTACGTATAGTATTT
1 ATATATAGTACGTATA-TA-TT
3097608 ATATATAGTACGTATATATT
1 ATATATAGTACGTATATATT
3097628 ATATAT
1 ATATAT
3097634 GTGTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 8 0.32
21 2 0.08
22 15 0.60
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (20 bp):
ATATATAGTACGTATATATT
Found at i:3098622 original size:21 final size:18
Alignment explanation
Indices: 3098598--3098642 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
3098588 ACATTTCTAA
3098598 TATGTATTTCTAATACTATAT
1 TATGTATTTC--ATA-TATAT
3098619 TATGT-TTTCATATATAT
1 TATGTATTTCATATATAT
3098636 TATGTAT
1 TATGTAT
3098643 ACACTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATATATAT
Found at i:3099125 original size:24 final size:24
Alignment explanation
Indices: 3099096--3099142 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3099086 GTTTGTATAG
*
3099096 ATATTATGTAAATGTTTTAATATT
1 ATATTATATAAATGTTTTAATATT
* *
3099120 ATATTATATATATGTTTTTATAT
1 ATATTATATAAATGTTTTAATAT
3099143 ATTACGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTATATAAATGTTTTAATATT
Found at i:3104012 original size:26 final size:26
Alignment explanation
Indices: 3103976--3104085 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
3103966 TAATACAAAT
3103976 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3104002 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
3104028 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
3104054 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
3104080 TGATAA
1 TGATAA
3104086 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:3115666 original size:22 final size:21
Alignment explanation
Indices: 3115641--3115693 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
3115631 CCCTTCATAC
*
3115641 TAAACCCCAAAACCCAACACAT
1 TAAA-CCCAAAACCCAACAAAT
* *
3115663 TAAA-CTACAACCCAACAAAT
1 TAAACCCAAAACCCAACAAAT
3115683 TAAACCCAAAA
1 TAAACCCAAAA
3115694 TTTTCCCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 17 0.68
21 4 0.16
22 4 0.16
ACGTcount: A:0.55, C:0.34, G:0.00, T:0.11
Consensus pattern (21 bp):
TAAACCCAAAACCCAACAAAT
Found at i:3117105 original size:22 final size:21
Alignment explanation
Indices: 3117077--3117118 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
3117067 CTCAACTTTA
*
3117077 ATATATATTACGTATAGTATTT
1 ATATATAGTACGTATA-TATTT
3117099 ATATATAGTACGTATATATT
1 ATATATAGTACGTATATATT
3117119 ATGTATGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (21 bp):
ATATATAGTACGTATATATTT
Found at i:3118107 original size:21 final size:18
Alignment explanation
Indices: 3118083--3118127 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
3118073 ACATTTCTAA
3118083 TATGTATTTCTAATACTATAT
1 TATGTATTTC--ATA-TATAT
3118104 TATGT-TTTCATATATAT
1 TATGTATTTCATATATAT
3118121 TATGTAT
1 TATGTAT
3118128 ACACTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TATGTATTTCATATATAT
Found at i:3118612 original size:24 final size:24
Alignment explanation
Indices: 3118583--3118629 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3118573 GTGTGTATAG
*
3118583 ATATTATGTAAATGTTTTAATATT
1 ATATTATATAAATGTTTTAATATT
* *
3118607 ATATTATATATATGTTTTTATAT
1 ATATTATATAAATGTTTTAATAT
3118630 ATTACGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTATATAAATGTTTTAATATT
Found at i:3118889 original size:9 final size:9
Alignment explanation
Indices: 3118875--3118901 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
3118865 ATATATCTTT
3118875 CTATTATTA
1 CTATTATTA
3118884 CTATTATTA
1 CTATTATTA
3118893 CTATTATTA
1 CTATTATTA
3118902 TTAGTATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
CTATTATTA
Found at i:3123424 original size:23 final size:22
Alignment explanation
Indices: 3123394--3123437 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3123384 ATAGCTTAAT
*
3123394 ATAAATAATATATATAAAAATA
1 ATAAATAATATATAAAAAAATA
*
3123416 ATAATATAATATTTAAAAAAAT
1 ATAA-ATAATATATAAAAAAAT
3123438 GTTCATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAAATAATATATAAAAAAATA
Found at i:3123506 original size:15 final size:14
Alignment explanation
Indices: 3123449--3123506 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
3123439 TTCATAAAAG
*
3123449 AGAAAATAAATAAA
1 AGAAAATAAACAAA
* *
3123463 ATATAATAAAACAAA
1 AGAAAAT-AAACAAA
*
3123478 ATGAAAATATACAAA
1 A-GAAAATAAACAAA
3123493 AGAAAATACAACAA
1 AGAAAATA-AACAA
3123507 GAAAAAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.35
15 18 0.53
16 4 0.12
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (14 bp):
AGAAAATAAACAAA
Found at i:3124009 original size:24 final size:24
Alignment explanation
Indices: 3123982--3124027 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
3123972 GGGGTGATTT
3123982 AGTAGGGTGATGGAATTAGTGGCA
1 AGTAGGGTGATGGAATTAGTGGCA
*
3124006 AGTAGGGTGATGGAGTTAGTGG
1 AGTAGGGTGATGGAATTAGTGG
3124028 TCGGTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.02, G:0.46, T:0.26
Consensus pattern (24 bp):
AGTAGGGTGATGGAATTAGTGGCA
Found at i:3130448 original size:25 final size:25
Alignment explanation
Indices: 3130414--3130464 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3130404 CCACAAAAGT
3130414 ATAGTAAAAAGATCATGAACCAACC
1 ATAGTAAAAAGATCATGAACCAACC
3130439 ATAGTAAAAAGATCATGAACCAACC
1 ATAGTAAAAAGATCATGAACCAACC
3130464 A
1 A
3130465 AAAGAAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.20, G:0.12, T:0.16
Consensus pattern (25 bp):
ATAGTAAAAAGATCATGAACCAACC
Found at i:3137702 original size:21 final size:21
Alignment explanation
Indices: 3137663--3137702 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3137653 ACAAAAACTC
*
3137663 GAAATTCCAATTCTATCTTCT
1 GAAATTCCAATTATATCTTCT
* *
3137684 GAAATTTCAATTATTTCTT
1 GAAATTCCAATTATATCTT
3137703 ACTTGAAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (21 bp):
GAAATTCCAATTATATCTTCT
Found at i:3139482 original size:15 final size:15
Alignment explanation
Indices: 3139462--3139496 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
3139452 TTGTTCTTAT
3139462 TTTTTGATCTTTT-TA
1 TTTTTGAT-TTTTCTA
3139477 TTTTTGATTTTTCTA
1 TTTTTGATTTTTCTA
3139492 TTTTT
1 TTTTT
3139497 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTTGATTTTTCTA
Found at i:3139505 original size:10 final size:9
Alignment explanation
Indices: 3139484--3139513 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3139474 TTATTTTTGA
*
3139484 TTTTTCTAT
1 TTTTTTTAT
3139493 TTTTTTTAT
1 TTTTTTTAT
3139502 TTTTTTTAT
1 TTTTTTTAT
3139511 TTT
1 TTT
3139514 ACAAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:3140907 original size:25 final size:27
Alignment explanation
Indices: 3140870--3140922 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3140860 TCAAACATGC
3140870 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
3140896 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
3140922 A
1 A
3140923 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:3146589 original size:25 final size:27
Alignment explanation
Indices: 3146552--3146604 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3146542 TCAAACATGC
3146552 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
3146578 ATTTCGGT-AATTTACCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
3146604 A
1 A
3146605 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:3149187 original size:21 final size:21
Alignment explanation
Indices: 3149161--3149214 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
3149151 TATAATATTC
3149161 TTTATTTTAAATTTCTTAATA
1 TTTATTTTAAATTTCTTAATA
* *
3149182 TTTATTTCAAATTTCTTTATA
1 TTTATTTTAAATTTCTTAATA
3149203 TATTATTTTAAA
1 T-TTATTTTAAA
3149215 CTATTTTACC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATTTTAAATTTCTTAATA
Found at i:3149252 original size:21 final size:21
Alignment explanation
Indices: 3149161--3149257 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 21
3149151 TATAATATTC
*
3149161 TTTATTTTAAATTTCTTA-ATA
1 TTTATTTTAAACTT-TTACATA
* **
3149182 TTTATTTCAAA-TTTCTTTATA
1 TTTATTTTAAACTTT-TACATA
3149203 TATTATTTTAAACTATTTTACCTATTA
1 T-TTATTTTAAAC--TTTTA-C-A-TA
3149230 TTTATTTTAAACTTTTACATA
1 TTTATTTTAAACTTTTACATA
3149251 TTATATT
1 TT-TATT
3149258 ATAGATTTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 18 0.30
22 14 0.23
23 1 0.02
24 6 0.10
25 3 0.05
26 12 0.20
27 3 0.05
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTTTAAACTTTTACATA
Found at i:3149252 original size:24 final size:26
Alignment explanation
Indices: 3149201--3149259 Score: 86
Period size: 24 Copynumber: 2.3 Consensus size: 26
3149191 AATTTCTTTA
*
3149201 TATATTATTTTAAACTATTTTACCTAT
1 TATATTATTTTAAAC-ATTTTACATAT
3149228 TAT-TTATTTTAAAC-TTTTACATAT
1 TATATTATTTTAAACATTTTACATAT
3149252 TATATTAT
1 TATATTAT
3149260 AGATTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 12 0.40
25 4 0.13
26 11 0.37
27 3 0.10
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (26 bp):
TATATTATTTTAAACATTTTACATAT
Found at i:3149319 original size:23 final size:23
Alignment explanation
Indices: 3149289--3149335 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3149279 AGCTTAAACT
* *
3149289 ATTTTATATATTATTCACTTTAA
1 ATTTTATATAATATCCACTTTAA
*
3149312 ATTTTATATAATATCCATTTTAA
1 ATTTTATATAATATCCACTTTAA
3149335 A
1 A
3149336 ATGTTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTATATAATATCCACTTTAA
Found at i:3149619 original size:25 final size:27
Alignment explanation
Indices: 3149569--3149620 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
3149559 TTTATTCTAT
*
3149569 ACATATTATTTATTTTAAGTTCCTTTTC
1 ACATATTATTTATTTTAAG-TACTTTTC
3149597 ACATATTATTTATTTT-AG-ACTTTT
1 ACATATTATTTATTTTAAGTACTTTT
3149621 TATACACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
27 2 0.09
28 16 0.70
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.58
Consensus pattern (27 bp):
ACATATTATTTATTTTAAGTACTTTTC
Found at i:3149631 original size:28 final size:28
Alignment explanation
Indices: 3149566--3149631 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
3149556 CTTTTTATTC
*
3149566 TATACA-TATTATTTATTTTAAGTTCCTT
1 TATACACTATTATTTATTTTAACTT-CTT
3149594 T-T-CACATATTATTTATTTTAGACTT-TT
1 TATACAC-TATTATTTATTTTA-ACTTCTT
3149621 TATACACTATT
1 TATACACTATT
3149632 TAATCCAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
26 2 0.06
27 4 0.12
28 20 0.62
29 6 0.19
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (28 bp):
TATACACTATTATTTATTTTAACTTCTT
Found at i:3151346 original size:18 final size:19
Alignment explanation
Indices: 3151323--3151366 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
3151313 GCCTTCCCCC
*
3151323 AAAAAAACCTAA-CCAAAA
1 AAAAAAACCGAACCCAAAA
3151341 AAAAAAACCGAACCCAAAA
1 AAAAAAACCGAACCCAAAA
*
3151360 AGAAAAA
1 AAAAAAA
3151367 GAAAAACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.73, C:0.20, G:0.05, T:0.02
Consensus pattern (19 bp):
AAAAAAACCGAACCCAAAA
Found at i:3160992 original size:72 final size:69
Alignment explanation
Indices: 3160809--3160992 Score: 217
Period size: 72 Copynumber: 2.6 Consensus size: 69
3160799 CCTTTTAATT
* * * * * * *
3160809 TTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCATGCTGAGGTATTT
1 TTTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAATC
3160874 TCAA
66 TCAA
* **
3160878 TTT-TTGTGTTAATTTCAACTTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA
1 TTTGTT-TGTCAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGATGAGGTA
3160942 ATCTCAA
63 ATCTCAA
*
3160949 TTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TT-TGTTTGTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
3160993 ACTTTTAATT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
68 2 0.02
69 12 0.13
70 27 0.28
71 19 0.20
72 28 0.29
73 7 0.07
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (69 bp):
TTTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAATC
TCAA
Found at i:3161171 original size:86 final size:88
Alignment explanation
Indices: 3161016--3161348 Score: 395
Period size: 86 Copynumber: 3.8 Consensus size: 88
3161006 ACTTTTTCAA
* * * * * *
3161016 AATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCATG-CAATGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
3161080 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * *
3161103 AATCAGCTCATA-TGCGAGAGGTGAGTTGAGCTTCAGGTC-CGCCGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
3161166 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
3161189 AATCAACTCGTATTGCGAGAGGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTCAATTT
1 AATCAACTCATATTGCGAGA-GGTGAGTTGAGCCTCAGGT--CACGCCGAGGTA-TTTTCAATTT
* * ** *
3161254 CTGTTTTTCAAT-TTCTGTCTTTCAAAAAA
62 CTG-TTTTCATTATTATGT-TTT-TGAAAG
* * *
3161283 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
3161348 T
66 T
3161349 GTCAAAAAAT
Statistics
Matches: 213, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
85 1 0.00
86 74 0.35
87 19 0.09
88 17 0.08
89 2 0.01
90 13 0.06
91 21 0.10
92 17 0.08
93 27 0.13
94 22 0.10
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:3161262 original size:14 final size:14
Alignment explanation
Indices: 3161243--3161278 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3161233 CGCCGAGGTA
3161243 TTTTTCAATTTCTG
1 TTTTTCAATTTCTG
3161257 TTTTTCAATTTCTG
1 TTTTTCAATTTCTG
*
3161271 TCTTTCAA
1 TTTTTCAA
3161279 AAAAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:3161384 original size:73 final size:77
Alignment explanation
Indices: 3161259--3161420 Score: 215
Period size: 76 Copynumber: 2.1 Consensus size: 77
3161249 AATTTCTGTT
* **
3161259 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT-GAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTC-AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGGAGCCTCAGGCA
*
3161322 CACGCTGAGGTAA
65 CACGCCGAGGTAA
* *
3161335 TTTCAATTTCTGT-TGTC-AAAAAATCAACTCGTATTGCGAGTGGCAAGTTGGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGCAAGTTGGAGCCTCAGG-CA
*
3161398 CACGCCGAGGTAT
65 CACGCCGAGGTAA
3161411 TTTCAATTTC
1 TTTCAATTTC
3161421 CGTTTTTCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
73 28 0.37
74 10 0.13
75 3 0.04
76 35 0.46
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGCAAGTTGGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:3161499 original size:166 final size:165
Alignment explanation
Indices: 3161189--3161535 Score: 481
Period size: 166 Copynumber: 2.1 Consensus size: 165
3161179 TTTTTGAAAG
*
3161189 AATCAACTCGTATTGCGAGAGGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTCAATTT
1 AATCAACTCGTATTGCGAGAGGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTCAATTT
* * *
3161254 CTGTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 CCGTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCA
*
3161319 GGACACGCTGAGGTAATTTCAATT-TCTGTTGTCAAAA
131 AGACACGCTGAGGTAATTTCAATTGT-TGTTGTC--AA
*
3161356 AATCAACTCGTATTGCGAG-TGGCAAGTTGGAGCCTCAGGTCACACGCCGAGGTA-TTTTCAATT
1 AATCAACTCGTATTGCGAGAGGGCAAGTT-GAGCCTCAGGTCACACGCCGAGGTATTTTTCAATT
*
3161419 TCCGTTTTTCAATTTCTTGCCTTT-AAAAAAAATCAACTCATATTGCGATAGATGAGTTGAG-CT
65 TCCGTTTTTCAATTTC-TGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
* * * *
3161482 CAAGAC-CAGTTTGAGGTATTTTTAATTGTTGTTTTCAA
129 CAAGACAC-G-CTGAGGTAATTTCAATTGTTGTTGTCAA
*
3161520 AATCAACTCATATTGC
1 AATCAACTCGTATTGC
3161536 AAGAAGTGAG
Statistics
Matches: 163, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
164 18 0.11
165 8 0.05
166 86 0.53
167 51 0.31
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (165 bp):
AATCAACTCGTATTGCGAGAGGGCAAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTCAATTT
CCGTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCA
AGACACGCTGAGGTAATTTCAATTGTTGTTGTCAA
Found at i:3162032 original size:88 final size:88
Alignment explanation
Indices: 3161830--3162163 Score: 399
Period size: 86 Copynumber: 3.8 Consensus size: 88
3161820 CTACTTTTTC
* * *
3161830 AAAAT-AAGTCATATTGTGAGAGGTGAGGTGAGCCTCAGGTCACGCCGAGGTA-TTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCT
* *
3161893 G-TCTTCATTATTATGTTTTGAA
66 GTTTTTCAATATTATGTTTTGAA
* *
3161915 AGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCT
*
3161979 GTTTTTCATTATTATGTTTTTGAA
66 GTTTTTCAATATTATG-TTTTGAA
* * * * *
3162003 AGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCAAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTT
* *
3162068 CTGTTTTTCAAT-TTCTGTCTTTCAAAA
64 CTGTTTTTCAATATTATGT-TTT--GAA
* * * *
3162095 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA-TTTC
3162160 TGTT
65 TGTT
3162164 GTCAAAAAAA
Statistics
Matches: 215, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
85 4 0.02
86 45 0.21
87 22 0.10
88 45 0.21
89 1 0.00
90 42 0.20
91 18 0.08
92 38 0.18
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (88 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCT
GTTTTTCAATATTATGTTTTGAA
Found at i:3162077 original size:14 final size:14
Alignment explanation
Indices: 3162058--3162092 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
3162048 CGTCAAGGTA
3162058 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3162072 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
3162086 CTTTCAA
1 TTTTCAA
3162093 AAAAAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:3162200 original size:76 final size:75
Alignment explanation
Indices: 3162072--3162637 Score: 507
Period size: 76 Copynumber: 7.3 Consensus size: 75
3162062 CAATTTCTGT
* *
3162072 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGAC
1 TTTTCAATTTCTGT-TGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
3162137 ACGCTGAGGTA
65 ACGCTGAGGTA
* * * *
3162148 ATTTCAATTTTCTGTTGTCAAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTC
1 TTTTCAA-TTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
*
3162213 ACACGCCGA-GTA
63 ACACGCTGAGGTA
* * **
3162225 TTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTTCTG-TTGTCAA------------AAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
3162290 GAGCCTTAGGACACACTGAGGTA
53 GAGCCTCAGGACACGCTGAGGTA
** * * *
3162313 AATTCAATTTCTGTTGTC-AAAAAAATCAACTCATATTGCGAGCGGCGAGTTGAGCCTTAGGTCA
1 TTTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
3162377 CACGCCGAGGTA
64 CACGCTGAGGTA
* * ** *
3162389 TTTTCAATTTCTGTTTTTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAACCT
1 TTTTCAATTTCTG-----TTGTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
** *
3162454 CAAAACATGCTGAGGTA
59 CAGGACACGCTGAGGTA
***
3162471 TTTTCAATTGTCTGTT-TTTGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATT-TCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
3162535 ACGCTGAGGTA
65 ACGCTGAGGTA
* * * * *
3162546 ATTTCAATTTCTG-TGTCAAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAG-CTCA-GTCA
1 TTTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
3162608 CGCTGA-GTA
66 CGCTGAGGTA
*
3162617 TTTTCAATTTCTTGTTTTCAA
1 TTTTCAATTTC-TGTTGTCAA
3162638 TTTATGTTGT
Statistics
Matches: 397, Mismatches: 62, Indels: 65
0.76 0.12 0.12
Matches are distributed among these distances:
71 13 0.03
72 11 0.03
73 10 0.03
74 75 0.19
75 56 0.14
76 76 0.19
77 23 0.06
78 10 0.03
81 4 0.01
82 20 0.05
83 4 0.01
84 34 0.09
86 1 0.00
87 11 0.03
88 13 0.03
89 36 0.09
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:3162228 original size:815 final size:810
Alignment explanation
Indices: 3160633--3162293 Score: 2755
Period size: 815 Copynumber: 2.0 Consensus size: 810
3160623 TCTTCAAGGG
3160633 AAATAAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAAGTATTTTTAATTGTTG
1 AAATAAACTCATATTGCGAGAGATGAGTTGAG-CTCAAGACACGTTGAAGTATTTTTAATTGTTG
*
3160698 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATCGGGGCACGCTGAAGGTATTTTTA
65 TTTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCATCGGGGCACGCTGAAGGTATTTTTA
*
3160763 GTTTTAAATGACTCATATTGGCGAGAGGTGAGTTAGCCTTTTAATTTTTGTTTTTCAAAATCAAC
130 GTTTT--ATGACTCATATTGGCGAGAGGTGAATTAGCCTTTTAATTTTTGTTTTTCAAAATCAAC
*
3160828 TCATATTGCTAGAGGTGAGTTGAGCCTCGGGCATGCTGAGGTATTTTCAATTTTTGTGTTAATTT
193 TCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTGTTAATTT
3160893 CAACTTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTCTGTTTG
258 CAACTTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTCTGTTTG
*
3160958 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACTTTTAATTTCTACTTTTTCAAAATCAGC
323 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACTTTTAATTTCTACTTTTTCAAAATAAGC
* * * *
3161023 TCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCATGCAATGTATTTTTAATTTCTGTCTTCATTA
388 TCATATTGTGAGAGGTGAGGTGAGCCTCAGGTCACGCAAGGTATTTTCAATTTCTGTCTTCATTA
*
3161088 TTATGTTTTTGAAAGAATCAGCTCATATGCGAGAGGTGAGTTGAGCTTCAGGTCCGCCGAGGTAT
453 TTATGTTTTTGAAAGAATCAGCTCATATGCGAGAGGTGAGTTGAGCCTCAGGTCCGCCGAGGTAT
3161153 TTTCAATTTTTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATTGCGAGAGGGCGAGTT
518 TTTCAATTTTTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATTGCGAGAGGGCGAGTT
*
3161218 GAGCCTCAGGTCACACGCCGAGGTATTTTTCAATTTCTGTTTTTCAATTTCTGTCTTTCAAAAAA
583 GAGCCTCAGGTCACACGCCAAGGTATTTTTCAATTTCTGTTTTTCAATTTCTGTCTTTCAAAAAA
3161283 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
648 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
3161348 TGTCAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGGAGCCTCAGGTCACACGCCGAGGTATTT
713 TGTCAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGGAGCCTCAGGTCACACGCCGAGGTATTT
3161413 TCAATTTCCGTTTTTCAATTTCTTGCCTTTAAAAA
778 TCAATTTCCGTTTTTCAATTTC-TGCCTTT-AAAA
* * *
3161448 AAATCAACTCATATTGCGATAGATGAGTTGAGCTCAAGAC-CAGTTTGAGGTATTTTTAATTGTT
1 AAATAAACTCATATTGCGAGAGATGAGTTGAGCTCAAGACAC-G-TTGAAGTATTTTTAATTGTT
*
3161512 GTTTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACGCTG-AGGTATTTTT
64 GTTTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCATCGGGGCACGCTGAAGGTATTTTT
*
3161576 AG-TTT-TGACTCATA-T-GCGAGAGGTGAATTAAGCCTTTTAATTTTTATTTTTTTCAAAATCA
129 AGTTTTATGACTCATATTGGCGAGAGGTGAATT-AGCCTTTTAA-TTTT-TGTTTTTCAAAATCA
3161637 ACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
191 ACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTGTG--TT
3161702 AATTTCAAC-TCATATTGCG-GAGGTGAGTTGAGCCTCAGGAC-CAGATGAGGTTAATTCTCCAA
253 AATTTCAACTTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-GATGAGG-TAA-TCT-CAA
3161764 TTTCTG-TTGTCAAGAATCAACTCATATTGCGGAGAGGTGGGTTGAACTTTTAATTTCTACTTTT
314 -TTCTGTTTGTCAAGAATCAACTCATATTGC-GAGAGGTGGGTTGAACTTTTAATTTCTACTTTT
*
3161828 TCAAAATAAG-TCATATTGTGAGAGGTGAGGTGAGCCTCAGGTCACGCCGAGGTA-TTTCAATTT
377 TCAAAATAAGCTCATATTGTGAGAGGTGAGGTGAGCCTCAGGTCACG-CAAGGTATTTTCAATTT
3161891 CTGTCTTCATTATTATG-TTTTGAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
441 CTGTCTTCATTATTATGTTTTTGAAAGAATCAGCTCATA-TGCGAGAGGTGAGTTGAGCCTCAGG
3161955 TCACGCCGAGGTATTTTCAA-TTTTGTTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATT
505 TC-CGCCGAGGTATTTTCAATTTTTG-TTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATT
*
3162019 GCGAGA-GGCGAGTTGAGCCTCAGGTCACACGTCAAGGTA-TTTTCAATTTCTGTTTTTCAATTT
568 GCGAGAGGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTTCAATTTCTGTTTTTCAATTT
*
3162082 CTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGT
633 CTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
3162147 AATTTCAATTTTCTGTTGTCAAAAAAAATCAACTCGTATTGCGAGTGGCGAGTT-GAGCCTCAGG
698 AATTTCAA-TTTCTGTTGTC--AAAAAATCAACTCGTATTGCGAGTGGCAAGTTGGAGCCTCAGG
*
3162211 TCACACGCCGA-GTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
760 TCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTAAAA
** *
3162261 AAATTGACTCATATTGCGAGAGGTGAGTTGAGC
1 AAATAAACTCATATTGCGAGAGATGAGTTGAGC
3162294 CTTAGGACAC
Statistics
Matches: 801, Mismatches: 24, Indels: 44
0.92 0.03 0.05
Matches are distributed among these distances:
808 13 0.02
809 11 0.01
810 13 0.02
811 45 0.06
812 58 0.07
813 49 0.06
814 159 0.20
815 288 0.36
816 134 0.17
817 31 0.04
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (810 bp):
AAATAAACTCATATTGCGAGAGATGAGTTGAGCTCAAGACACGTTGAAGTATTTTTAATTGTTGT
TTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCATCGGGGCACGCTGAAGGTATTTTTAG
TTTTATGACTCATATTGGCGAGAGGTGAATTAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
TATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTGTTAATTTCAA
CTTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTCTGTTTGTCA
AGAATCAACTCATATTGCGAGAGGTGGGTTGAACTTTTAATTTCTACTTTTTCAAAATAAGCTCA
TATTGTGAGAGGTGAGGTGAGCCTCAGGTCACGCAAGGTATTTTCAATTTCTGTCTTCATTATTA
TGTTTTTGAAAGAATCAGCTCATATGCGAGAGGTGAGTTGAGCCTCAGGTCCGCCGAGGTATTTT
CAATTTTTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCGTATTGCGAGAGGGCGAGTTGAG
CCTCAGGTCACACGCCAAGGTATTTTTCAATTTCTGTTTTTCAATTTCTGTCTTTCAAAAAAAAT
CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGT
CAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGGAGCCTCAGGTCACACGCCGAGGTATTTTCA
ATTTCCGTTTTTCAATTTCTGCCTTTAAAA
Found at i:3162541 original size:75 final size:74
Alignment explanation
Indices: 3162239--3162634 Score: 384
Period size: 74 Copynumber: 5.2 Consensus size: 74
3162229 CAATTTCCGT
** * ** *
3162239 TTTTCAATTTCTGCCTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACAC
1 TTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
3162304 ACTGAGGTA
66 GCTGAGGTA
** * * * * *
3162313 AATTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGCGGCGAGTTGAGCCTTAGGTCAC
1 TTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
*
3162378 ACGCCGAGGTA
64 ACGCTGAGGTA
* ** *
3162389 TTTTCAATTTCTGTTTTTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAACCT
1 TTTTCAATTTCTG----TTTTT----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
** *
3162454 CAAAACATGCTGAGGTA
58 CAGGACACGCTGAGGTA
*
3162471 TTTTCAATTGTCTGTTTTTGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATT-TCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
3162536 CGCTGAGGTA
65 CGCTGAGGTA
* * ** * * * *
3162546 ATTTCAATTTCTGTGTCAAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAG-CTCA-GTCAC
1 TTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
3162609 GCTGA-GTA
66 GCTGAGGTA
3162617 TTTTCAATTTCTTGTTTT
1 TTTTCAATTTC-TGTTTT
3162635 CAATTTATGT
Statistics
Matches: 262, Mismatches: 48, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
71 13 0.05
72 13 0.05
73 4 0.02
74 88 0.34
75 56 0.21
76 22 0.08
79 5 0.02
80 3 0.01
82 20 0.08
83 4 0.02
84 34 0.13
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:3162865 original size:72 final size:73
Alignment explanation
Indices: 3162781--3162923 Score: 238
Period size: 73 Copynumber: 2.0 Consensus size: 73
3162771 CTTCAAAAAA
*
3162781 AAAATTCAACTCATATTGC-GAGAAATG-GTTGGGCC-TCAAGACACGTTGATGGTAATTTCAAT
1 AAAATTCAACTCATATTGCGGAG-AATGAGTTGAGCCTTCAAGACACGTTGA-GGTAATTTCAAT
3162843 TTCTGTTCTC
64 TTCTGTTCTC
3162853 AAAATTCAACTCATATTGCGGAGAATGAGTTGAGCCTTCAAGACACGTTGAGGTAATTTCAATTT
1 AAAATTCAACTCATATTGCGGAGAATGAGTTGAGCCTTCAAGACACGTTGAGGTAATTTCAATTT
3162918 CTGTTC
66 CTGTTC
3162924 AAAATGAGTT
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
72 23 0.34
73 30 0.45
74 14 0.21
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAATTCAACTCATATTGCGGAGAATGAGTTGAGCCTTCAAGACACGTTGAGGTAATTTCAATTT
CTGTTCTC
Found at i:3162930 original size:50 final size:51
Alignment explanation
Indices: 3162876--3162973 Score: 180
Period size: 50 Copynumber: 1.9 Consensus size: 51
3162866 TATTGCGGAG
*
3162876 AATGAGTTGAGCCTTCAAGACACG-TTGAGGTAATTTCAATTTCTGTTCAA
1 AATGAGTTGAGCCGTCAAGACACGTTTGAGGTAATTTCAATTTCTGTTCAA
3162926 AATGAGTTGAGCCGTCAAGACACGTTTGAGGTAATTTCAATTTCTGTT
1 AATGAGTTGAGCCGTCAAGACACGTTTGAGGTAATTTCAATTTCTGTT
3162974 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 23 0.50
51 23 0.50
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (51 bp):
AATGAGTTGAGCCGTCAAGACACGTTTGAGGTAATTTCAATTTCTGTTCAA
Found at i:3163010 original size:75 final size:74
Alignment explanation
Indices: 3162925--3163209 Score: 328
Period size: 75 Copynumber: 3.8 Consensus size: 74
3162915 TTTCTGTTCA
* *
3162925 AAATGAGTTGAGCCGTCAAGACACGTTTGAGGTAATTTCAATTTCTG-TTTTC-AAAATTCAACT
1 AAATGAGTTGAGCC-TCAAGACACG-CTGAGGTAATTTCAATTTCTGTTTTTCAAAAAATCAACT
3162988 CATATTGCGAG
64 CATATTGCGAG
* * *
3162999 AAAATTAGTTGAGCCTCAA-ACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAATC
1 -AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTTC-----AAAAAATC
*
3163063 AACTTCATATTGTGAG
60 AAC-TCATATTGCGAG
* *
3163079 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTA-ATTTCAATTTCTGTTTTTCAAAAAATCAACTC
3163144 ATATTGCGAG
65 ATATTGCGAG
** * *
3163154 AGGTGAGTTTGAGCCTCAGGA-ACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAA
1 AAATGAG-TTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTTCAAAAAA
3163210 AATCATCATA
Statistics
Matches: 185, Mismatches: 14, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
72 19 0.10
73 19 0.10
74 16 0.09
75 39 0.21
76 23 0.12
79 26 0.14
80 24 0.13
81 19 0.10
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (74 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTTCAAAAAATCAACTCA
TATTGCGAG
Found at i:3163209 original size:155 final size:153
Alignment explanation
Indices: 3162925--3163211 Score: 395
Period size: 155 Copynumber: 1.9 Consensus size: 153
3162915 TTTCTGTTCA
* *
3162925 AAATGAGTTGAGCCGTCAAGACACGTTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCA
1 AAATGAGTTGAGCCGTCAAGACACGTCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCA
* * *
3162990 TATTGCGAGAAAATTAGTTGAGCCTCAAACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAA
66 TATTGCGAGAAAATGAGTTGAGCCTCAAACA-GCTGAGGTAATTTCAATTTCTGTTTGTCAAAAA
3163055 AAAAAATCAACTTCATATTGTGAG
130 AAAAAATCAACTTCATATTGTGAG
* *
3163079 AAATGAGTTGAGCC-TCAAGACATG-CTGAGGTATTTTTCAATTTCTGTTTTTCAAAAAATCAAC
1 AAATGAGTTGAGCCGTCAAGACACGTCTGAGGTA-ATTTCAATTTCTG-TTTTC-AAAAATCAAC
**
3163142 TCATATTGCGAG-AGGTGAGTTTGAGCCTCAGGAAC-GCTGAGGTAATTTCAATTTCTG-TTGTC
63 TCATATTGCGAGAAAATGAG-TTGAGCCTCA--AACAGCTGAGGTAATTTCAATTTCTGTTTGTC
3163204 AAAAAAAA
125 AAAAAAAA
3163212 TCATCATATT
Statistics
Matches: 118, Mismatches: 9, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
152 7 0.06
153 21 0.18
154 35 0.30
155 52 0.44
157 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (153 bp):
AAATGAGTTGAGCCGTCAAGACACGTCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCA
TATTGCGAGAAAATGAGTTGAGCCTCAAACAGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAA
AAAAATCAACTTCATATTGTGAG
Found at i:3163344 original size:94 final size:89
Alignment explanation
Indices: 3163187--3163364 Score: 202
Period size: 94 Copynumber: 1.9 Consensus size: 89
3163177 GCTGAGGTAA
*
3163187 TTTCAATTTCTGTTGTCAAAAAAAATCATCATATTATGAGAGGCGATTGAGCCTCAGGTCACGCG
1 TTTCAATTTCTGTTGTCAAAAAAAATCATCATATTACGAGAGGCGATTGAGCCT-AGGTCACGCG
3163252 CC-AAG-TATTTTCAATTTTATTGTT
65 CCTAAGCTA-TTTCAATTTTATTGTT
* *
3163276 TTTCAATTTCTGCCTT-TCAAAAAAAATCAAAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGC
1 TTTCAATTTCTG--TTGTCAAAAAAAATC---A-TCATATTACGAGAGGCGA-TTGAGCCTAGG-
*
3163339 TCACGCGCCTGAGCTATTTCAATTTT
58 TCACGCGCCTAAGCTATTTCAATTTT
3163365 GTCTTTCAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
89 12 0.16
90 12 0.16
91 2 0.03
93 3 0.04
94 24 0.32
95 20 0.27
96 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (89 bp):
TTTCAATTTCTGTTGTCAAAAAAAATCATCATATTACGAGAGGCGATTGAGCCTAGGTCACGCGC
CTAAGCTATTTCAATTTTATTGTT
Found at i:3163527 original size:13 final size:13
Alignment explanation
Indices: 3163509--3163543 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
3163499 TCGACGGTAT
3163509 TTTTCAAAATCTG
1 TTTTCAAAATCTG
* *
3163522 TTTTCAGATTCTG
1 TTTTCAAAATCTG
3163535 TTTTCAAAA
1 TTTTCAAAA
3163544 ATTACTCATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:3164560 original size:23 final size:21
Alignment explanation
Indices: 3164510--3164569 Score: 95
Period size: 20 Copynumber: 2.8 Consensus size: 21
3164500 CCCTCCCCCC
3164510 AAAAAAAAACCTAA-CCAAAA
1 AAAAAAAAACCTAACCCAAAA
3164530 AAAAAAAAACCTAACCCAAAA
1 AAAAAAAAACCTAACCCAAAA
3164551 AGAAAGAAAAACCTAACCC
1 A-AAA-AAAAACCTAACCC
3164570 CCCAAGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
20 14 0.38
21 7 0.19
22 3 0.08
23 13 0.35
ACGTcount: A:0.68, C:0.23, G:0.03, T:0.05
Consensus pattern (21 bp):
AAAAAAAAACCTAACCCAAAA
Found at i:3164578 original size:23 final size:23
Alignment explanation
Indices: 3164514--3164569 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
3164504 CCCCCCAAAA
3164514 AAAAACCTAA-CCAAAAA-AAA-
1 AAAAACCTAACCCAAAAAGAAAG
3164534 AAAAACCTAACCCAAAAAGAAAG
1 AAAAACCTAACCCAAAAAGAAAG
3164557 AAAAACCTAACCC
1 AAAAACCTAACCC
3164570 CCCAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.30
21 7 0.21
22 3 0.09
23 13 0.39
ACGTcount: A:0.66, C:0.25, G:0.04, T:0.05
Consensus pattern (23 bp):
AAAAACCTAACCCAAAAAGAAAG
Found at i:3166172 original size:12 final size:12
Alignment explanation
Indices: 3166155--3166179 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3166145 TATCATATAA
3166155 ATTTTCTTCTCT
1 ATTTTCTTCTCT
3166167 ATTTTCTTCTCT
1 ATTTTCTTCTCT
3166179 A
1 A
3166180 GAATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTTCTTCTCT
Found at i:3171288 original size:37 final size:37
Alignment explanation
Indices: 3171238--3171316 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
3171228 ATTAGTTGAA
3171238 GATTGAAGAAAAGGGTTTAATTAACGGAAGATTGTTT
1 GATTGAAGAAAAGGGTTTAATTAACGGAAGATTGTTT
*
3171275 GATTGAAGAAAAGGGTTTAATTGACGGAAGATTGTTT
1 GATTGAAGAAAAGGGTTTAATTAACGGAAGATTGTTT
3171312 GATTG
1 GATTG
3171317 GTGAGAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (37 bp):
GATTGAAGAAAAGGGTTTAATTAACGGAAGATTGTTT
Found at i:3171297 original size:18 final size:18
Alignment explanation
Indices: 3171239--3171298 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
3171229 TTAGTTGAAG
3171239 ATTGAAGAAAAGGGTTTA
1 ATTGAAGAAAAGGGTTTA
* ** *
3171257 ATT-AACGGAAGATTGTTTG
1 ATTGAA--GAAAAGGGTTTA
3171276 ATTGAAGAAAAGGGTTTA
1 ATTGAAGAAAAGGGTTTA
3171294 ATTGA
1 ATTGA
3171299 CGGAAGATTG
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 2 0.06
18 16 0.52
19 11 0.35
20 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.27, T:0.32
Consensus pattern (18 bp):
ATTGAAGAAAAGGGTTTA
Found at i:3172584 original size:43 final size:43
Alignment explanation
Indices: 3172523--3172608 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
3172513 ATTGTTGGAA
*
3172523 AGAATAGCTAATTAATTGATAGCGAAGTTCAATAGATTTAAGG
1 AGAATAGCTAATTAATTGATAGCGAAATTCAATAGATTTAAGG
*
3172566 AGAATGGCTAATTAATTGATAGCGAAATTCAATAGATTTAAGG
1 AGAATAGCTAATTAATTGATAGCGAAATTCAATAGATTTAAGG
3172609 TTGAAATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (43 bp):
AGAATAGCTAATTAATTGATAGCGAAATTCAATAGATTTAAGG
Found at i:3175942 original size:21 final size:22
Alignment explanation
Indices: 3175916--3175963 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
3175906 AATATCAAAC
*
3175916 ATATTTTATTACTTAA-ATTTA
1 ATATTTTAATACTTAATATTTA
*
3175937 ATA-TTTAATATTTAATATTTA
1 ATATTTTAATACTTAATATTTA
3175958 ATATTT
1 ATATTT
3175964 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 10 0.43
21 11 0.48
22 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTTAATACTTAATATTTA
Found at i:3175982 original size:7 final size:7
Alignment explanation
Indices: 3175928--3175980 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
3175918 ATTTTATTAC
3175928 TTAA-AT
1 TTAATAT
3175934 TTAATAT
1 TTAATAT
3175941 TTAATAT
1 TTAATAT
3175948 TTAATAT
1 TTAATAT
3175955 TTAATAT
1 TTAATAT
* *
3175962 TTATTTT
1 TTAATAT
*
3175969 TTAATTT
1 TTAATAT
3175976 TTAAT
1 TTAAT
3175981 TTATTAGATC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
6 4 0.09
7 39 0.91
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTAATAT
Found at i:3176896 original size:32 final size:30
Alignment explanation
Indices: 3176860--3176918 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
3176850 TATAAATAGG
3176860 GAGAGAGAACAATGCCTTAAGTAGAGAATA
1 GAGAGAGAACAATGCCTTAAGTAGAGAATA
3176890 GAGAGAGAACAATGCCTTAAGTAGAGAAT
1 GAGAGAGAACAATGCCTTAAGTAGAGAAT
3176919 GACAATTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.27, T:0.17
Consensus pattern (30 bp):
GAGAGAGAACAATGCCTTAAGTAGAGAATA
Found at i:3181191 original size:18 final size:18
Alignment explanation
Indices: 3181170--3181205 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3181160 GAACAGTACT
3181170 GTATACGTAAATAGTGCC
1 GTATACGTAAATAGTGCC
3181188 GTATACGTAAATAGTGCC
1 GTATACGTAAATAGTGCC
3181206 ATAAATGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATACGTAAATAGTGCC
Found at i:3181771 original size:11 final size:11
Alignment explanation
Indices: 3181742--3181794 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
3181732 TGACCTTTCC
3181742 AAGGTATGGG-
1 AAGGTATGGGA
*
3181752 TAGGTATGGGA
1 AAGGTATGGGA
* *
3181763 AATGTATGGGC
1 AAGGTATGGGA
*
3181774 AAGGTATGGGC
1 AAGGTATGGGA
*
3181785 AAGGAATGGG
1 AAGGTATGGG
3181795 TATATTCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
10 9 0.25
11 27 0.75
ACGTcount: A:0.30, C:0.04, G:0.45, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:3182994 original size:23 final size:23
Alignment explanation
Indices: 3182967--3183040 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
3182957 TAGGGATGGA
3182967 GGATGATAGGTTATGGGTGCATG
1 GGATGATAGGTTATGGGTGCATG
* * *
3182990 GGATG--AGCTTGTTGGCT-CA-G
1 GGATGATAGGTT-ATGGGTGCATG
3183010 GTTGATGATAGGTTATGGGTGCATG
1 G--GATGATAGGTTATGGGTGCATG
3183035 GGATGA
1 GGATGA
3183041 GCTTGTTGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 2 0.05
21 6 0.16
22 8 0.21
23 14 0.37
24 6 0.16
25 2 0.05
ACGTcount: A:0.20, C:0.07, G:0.42, T:0.31
Consensus pattern (23 bp):
GGATGATAGGTTATGGGTGCATG
Found at i:3183018 original size:45 final size:45
Alignment explanation
Indices: 3182968--3183057 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
3182958 AGGGATGGAG
3182968 GATGATAGGTTATGGGTGCATGGGATGAGCTTGTTGGCTCAGGTT
1 GATGATAGGTTATGGGTGCATGGGATGAGCTTGTTGGCTCAGGTT
3183013 GATGATAGGTTATGGGTGCATGGGATGAGCTTGTTGGCTCAGGTT
1 GATGATAGGTTATGGGTGCATGGGATGAGCTTGTTGGCTCAGGTT
3183058 TAGTGACCCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.18, C:0.09, G:0.40, T:0.33
Consensus pattern (45 bp):
GATGATAGGTTATGGGTGCATGGGATGAGCTTGTTGGCTCAGGTT
Found at i:3188334 original size:3 final size:3
Alignment explanation
Indices: 3188326--3188351 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3188316 TACTTTAATT
3188326 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
3188352 CATTGGTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3188584 original size:12 final size:13
Alignment explanation
Indices: 3188556--3188587 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
3188546 AAAACATTAT
3188556 TATTATTTTACCA
1 TATTATTTTACCA
3188569 TATTATTTTA-CA
1 TATTATTTTACCA
3188581 TATTATT
1 TATTATT
3188588 GCTGTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATTTTACCA
Found at i:3188791 original size:20 final size:21
Alignment explanation
Indices: 3188753--3188791 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3188743 ATATATGTCG
*
3188753 TATATGTTTATGTATATATCA
1 TATATGTTTATGTAGATATCA
3188774 TATATGTTT-TGTAGATAT
1 TATATGTTTATGTAGATAT
3188792 TATGTATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (21 bp):
TATATGTTTATGTAGATATCA
Found at i:3189109 original size:23 final size:22
Alignment explanation
Indices: 3189078--3189133 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
3189068 ATTCATGTAT
3189078 TTTAT-TATATAT-GTATATATC
1 TTTATGTATATATAG-ATATATC
*
3189099 TTTAATGTATATATAGGTATATC
1 TTT-ATGTATATATAGATATATC
3189122 TTTATGTA-ATAT
1 TTTATGTATATAT
3189134 TAGTATTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 7 0.23
22 7 0.23
23 16 0.52
24 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TTTATGTATATATAGATATATC
Found at i:3189463 original size:9 final size:9
Alignment explanation
Indices: 3189449--3189480 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
3189439 ATATATCTTT
3189449 CTATTATTA
1 CTATTATTA
3189458 CTATTATTA
1 CTATTATTA
3189467 CTATTATTA
1 CTATTATTA
*
3189476 TTATT
1 CTATT
3189481 GTGTGTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (9 bp):
CTATTATTA
Found at i:3192491 original size:30 final size:30
Alignment explanation
Indices: 3192455--3192511 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3192445 TATAATTTTT
3192455 TTAATTTATTTTGATATT-TGAATTTAACGA
1 TTAATTTATTTTGAT-TTCTGAATTTAACGA
*
3192485 TTAATTTATTTTTATTTCTGAATTTAA
1 TTAATTTATTTTGATTTCTGAATTTAA
3192512 ATTAGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.58
Consensus pattern (30 bp):
TTAATTTATTTTGATTTCTGAATTTAACGA
Found at i:3192905 original size:24 final size:23
Alignment explanation
Indices: 3192876--3192924 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
3192866 TAAGCCCCCC
3192876 AAAA-AAAAACCTAA-CCCAAAA
1 AAAAGAAAAACCTAACCCCAAAA
3192897 AAAAGAAAAACCTAACCCCCAAAA
1 AAAAGAAAAACCTAA-CCCCAAAA
3192921 AAAA
1 AAAA
3192925 ATCAAGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.16
22 10 0.40
24 11 0.44
ACGTcount: A:0.69, C:0.24, G:0.02, T:0.04
Consensus pattern (23 bp):
AAAAGAAAAACCTAACCCCAAAA
Found at i:3192908 original size:22 final size:22
Alignment explanation
Indices: 3192876--3192925 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
3192866 TAAGCCCCCC
3192876 AAAAAAAAACCTAA-CCCAAAA
1 AAAAAAAAACCTAACCCCAAAA
*
3192897 AAAAGAAAAACCTAACCCCCAAA
1 AAAA-AAAAACCTAACCCCAAAA
3192920 AAAAAA
1 AAAAAA
3192926 TCAAGAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 12 0.46
23 10 0.38
ACGTcount: A:0.70, C:0.24, G:0.02, T:0.04
Consensus pattern (22 bp):
AAAAAAAAACCTAACCCCAAAA
Found at i:3193168 original size:12 final size:12
Alignment explanation
Indices: 3193151--3193184 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3193141 GATTTTATCT
3193151 TCTTTATTTTAC
1 TCTTTATTTTAC
*
3193163 TCTTTATTTTAT
1 TCTTTATTTTAC
*
3193175 TTTTTATTTT
1 TCTTTATTTT
3193185 TTTCCTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTATTTTAC
Found at i:3193716 original size:11 final size:11
Alignment explanation
Indices: 3193698--3193727 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3193688 GTGTATATTG
3193698 TATATATTATA
1 TATATATTATA
*
3193709 TTTATATTATA
1 TATATATTATA
3193720 TATATATT
1 TATATATT
3193728 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:3194139 original size:16 final size:15
Alignment explanation
Indices: 3194115--3194149 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
3194105 TAATTATTGT
3194115 TATTCTAATATTTTCA
1 TATTCTAATATTTT-A
*
3194131 TATTTTAATATTTTA
1 TATTCTAATATTTTA
3194146 TATT
1 TATT
3194150 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:3197636 original size:12 final size:12
Alignment explanation
Indices: 3197619--3197654 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
3197609 AACATTTTGA
3197619 CATTCATGCATT
1 CATTCATGCATT
3197631 CATTCATGCATT
1 CATTCATGCATT
*
3197643 CATTCATACATT
1 CATTCATGCATT
3197655 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:3206004 original size:71 final size:70
Alignment explanation
Indices: 3205905--3206080 Score: 221
Period size: 71 Copynumber: 2.5 Consensus size: 70
3205895 CTTTTCAAGG
* *
3205905 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
3205969 TGTTTT
65 TGTTTT
** * * *
3205975 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCTGATGTATTTTTAATTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
3206040 TGTTTT
65 TGTTTT
** * *
3206046 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
3206081 TTTAATTTCT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 31 0.33
71 60 0.65
72 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
GTTTT
Found at i:3206170 original size:13 final size:13
Alignment explanation
Indices: 3206152--3206185 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3206142 CGCTGAGGTA
*
3206152 TTTTCAATTTCTG
1 TTTTCAATTTATG
3206165 TTTTCAATTTATG
1 TTTTCAATTTATG
3206178 TTGTTCAA
1 TT-TTCAA
3206186 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:3206304 original size:140 final size:140
Alignment explanation
Indices: 3206052--3206305 Score: 440
Period size: 140 Copynumber: 1.8 Consensus size: 140
3206042 TTTTAAATTG
* *
3206052 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGC
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTTAAAAATCAACTCATATTGC
*
3206117 GAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAATTTATGTTGT
66 GAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTAATTTCAATTTCTGTTTTCAATTTATGTTGT
3206182 TCAAGAATCA
131 TCAAGAATCA
*
3206192 ACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTTAAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTCTACTTTTTAAAAATCAACTCATATTG
3206256 CGAGAGGTGAGTTGAGCCTCAGGAT-ACGCTGAGGTAATTTCAATTTCTGT
65 CGAGAGGTGAGTTGAGCCTCAGG-TCACGCTGAGGTAATTTCAATTTCTGT
3206306 CTTTAAAAAA
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
140 105 0.97
141 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (140 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTTAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTAATTTCAATTTCTGTTTTCAATTTATGTTGT
TCAAGAATCA
Found at i:3206345 original size:75 final size:75
Alignment explanation
Indices: 3206238--3206378 Score: 203
Period size: 75 Copynumber: 1.9 Consensus size: 75
3206228 TCTACTTTTT
* * *
3206238 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ATACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGT-ATTTCAATTT
3206302 CTGTCTTTAAA
65 CTGTCTTTAAA
** *
3206313 AAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTATTTCAATTT
3206378 C
65 C
3206379 CGTTTTTCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 37 0.64
76 11 0.19
77 10 0.17
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTATTTCAATTTC
TGTCTTTAAA
Found at i:3206463 original size:92 final size:91
Alignment explanation
Indices: 3206293--3206900 Score: 332
Period size: 92 Copynumber: 7.1 Consensus size: 91
3206283 GCTGAGGTAA
* ** *
3206293 TTTCAATTTCTGTCTTTAAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
* *
3206358 ACGCCGAGGTA-TTTCAATTTCCGTT
66 ACGCCGAGCTATTTTCAATTTCCGTC
* * * *
3206383 TTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGATCCT-TGGCT
1 TTTCAATTTCTGCCTTT--AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-T
* * *
3206447 CACGCGCTGAGCTATTTTCAATTTCTGTC
63 CACACGCCGAGCTATTTTCAATTTCCGTC
* * *
3206476 TTTC-A-----------AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
* * *
3206529 ACACTGAGGTATTTT---TTT---TAC
66 ACGCCGAGCTATTTTCAATTTCCGT-C
* * *** * * * *
3206550 -TTCAATTTAT--ATTTTTCAAAAACCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGAGTCA
1 TTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GTCA
*** * ** *
3206611 CATATCGAGGTATTTTCAAAATCTG-C
65 CACGCCGAGCTATTTTCAATTTCCGTC
* ** * *
3206637 TTTTCAAGTTAAG--TTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
1 -TTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCA
* * * **
3206696 CACGCTGAGGTAATTTCAATTTTTGTC
65 CACGCCGAGCTATTTTCAATTTCCGTC
* *
3206723 TTTCAA-----------AAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
* *
3206777 ACGCCGAGGTA-TTTCAATTTCCGTT
66 ACGCCGAGCTATTTTCAATTTCCGTC
* * *
3206802 TTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
1 TTTCAATTTCTGCCTTT--AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-T
* * *
3206866 CACGCGCTGAGCTATTTTCAATTTCTGTC
63 CACACGCCGAGCTATTTTCAATTTCCGTC
3206895 TTTCAA
1 TTTCAA
3206901 AAAAAATCAA
Statistics
Matches: 406, Mismatches: 65, Indels: 91
0.72 0.12 0.16
Matches are distributed among these distances:
73 4 0.01
74 2 0.00
76 3 0.01
78 38 0.09
79 70 0.17
80 13 0.03
82 1 0.00
83 50 0.12
85 24 0.06
86 2 0.00
87 38 0.09
88 1 0.00
89 11 0.03
90 16 0.04
91 4 0.01
92 95 0.23
93 34 0.08
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (91 bp):
TTTCAATTTCTGCCTTTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
ACGCCGAGCTATTTTCAATTTCCGTC
Found at i:3206540 original size:171 final size:167
Alignment explanation
Indices: 3206238--3206542 Score: 432
Period size: 171 Copynumber: 1.8 Consensus size: 167
3206228 TCTACTTTTT
*
3206238 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGCTAATTTCAATTTC
** * * *
3206303 TGTCTTTAAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
66 TGTCTTTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACACCGAGGT
3206368 ATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
131 ATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
* * * * *
3206405 AAAAATCGACTCATATTGCGAGAGGTGAGTTGATCCT-TGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAT-A--CGCTGAGCTAATTTCAAT
* * *
3206469 TTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACT
63 TTCTGTCTTT--AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACACC
3206534 GAGGTATTT
126 GAGGTATTT
3206543 TTTTTACTTC
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
166 3 0.03
167 36 0.30
169 26 0.22
171 54 0.45
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (167 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGCTAATTTCAATTTC
TGTCTTTAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACACCGAGGT
ATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
Found at i:3206680 original size:87 final size:86
Alignment explanation
Indices: 3206484--3207562 Score: 588
Period size: 87 Copynumber: 12.6 Consensus size: 86
3206474 TCTTTCAAAA
3206484 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACA-CTGAGGTATTTT---
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAG-TCACACATC-GAGGTATTTTCAA
** *
3206544 TTT-T-ACTTCAATTTATATTTTTC
64 TTTCTGTTTTCAATTTA-A-GTTTC
* * * * **
3206567 AAAAACCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGAGTCACATATCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGTCACACATCGAGGTATTTTCAATT
*
3206632 TCTGCTTTTCAAGTTAAGTTTC
66 TCTG-TTTTCAATTTAAGTTTC
* * *
3206654 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAG-GACAC-GCTGAGGTAATTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGTCACACATC-GAGGTATTTTCAAT
* *
3206716 TTTTGTCTTTCAA---AA----A
65 TTCTGT-TTTCAATTTAAGTTTC
* * * **
3206732 AAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCC-TCAGGTCACACGCCGAGGTA-TTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCA-GTCACACATCGAGGTATTTTCAAT
* **
3206795 TTCCGTTTTTCAATTTCTGCCTTTC
65 TTCTG-TTTTCAATTTAAG--TTTC
* * * * *
3206820 AAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGC-GCTGAGCTATTT
1 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAG-TCACACATC-GAGGTATTT
3206883 TCAATTTCTGTCTTTC-A---AA-----
60 TCAATTTCTGT-TTTCAATTTAAGTTTC
3206902 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACA-CTGAGGTATTTT---
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAG-TCACACATC-GAGGTATTTTCAA
* **
3206962 TTT-T-TACTTCAATTTGTATTTTTC
64 TTTCTGT-TTTCAA-TT-TAAGTTTC
* * * * **
3206986 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCTTTGAGTCACATATCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGTCACACATCGAGGTATTTTCAATT
* *
3207051 TCTGCTTTTCAAGTTAAGTTTT
66 TCTG-TTTTCAATTTAAGTTTC
* * *
3207073 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAAG--ATACGTTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTC-AGTCACACATCGAGGTATTTTCAAT
3207135 TTCTGTCTTTCAA---AA-----
65 TTCTGT-TTTCAATTTAAGTTTC
* * * * *
3207150 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACC-TCAAG--ACGC-T-GAGGTGTTTTCCAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTC-AGTCACACATCGAGGTATTTTCAAT
**
3207210 TTCTGTTCTTCAATTTCTGTGTTTC
65 TTCTGTT-TTCAA-TT-TAAGTTTC
* * * * *
3207235 AAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACAC-GCTGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGTCACACATC-GAGGTATTTTC-
*
3207299 AATTT-TGTTTTTCAAATTT-TGTTTTTCC
62 AATTTCTG-TTTTC-AATTTAAG--TTT-C
* * * *
3207327 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTCAGCC-TCAG-AACAC-GCTGAGGTATTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGTCACACATC-GAGGTATTTTC
* * *
3207389 AATTTTTTTTTTCAATTTATGTTTGTC
62 AATTTCTGTTTTCAATTTAAG-TT-TC
* **
3207416 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAAGCCACACGCCGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTC-AGTCACACATCGAGGTATTTTCA
* * * *
3207480 ATTGATGTTTTTTTTTAATTTATGCTTTGC
63 A-T--T-TCTGTTTTCAATTTAAG-TTT-C
* * *
3207510 AAAAATCAACTCATATTACGAGAGGTGAGTTGAG-CTTCGGGTCACATATCGAG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTC-AGTCACACATCGAG
3207563 TTTTAAAGAG
Statistics
Matches: 797, Mismatches: 107, Indels: 175
0.74 0.10 0.16
Matches are distributed among these distances:
73 4 0.01
74 3 0.00
75 26 0.03
76 1 0.00
77 44 0.06
78 86 0.11
79 18 0.02
80 11 0.01
81 1 0.00
82 4 0.01
83 48 0.06
84 58 0.07
85 55 0.07
86 5 0.01
87 116 0.15
88 42 0.05
89 29 0.04
90 32 0.04
91 44 0.06
92 99 0.12
93 52 0.07
94 19 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAGTCACACATCGAGGTATTTTCAATT
TCTGTTTTCAATTTAAGTTTC
Found at i:3206741 original size:78 final size:78
Alignment explanation
Indices: 3206654--3207482 Score: 354
Period size: 78 Copynumber: 9.8 Consensus size: 78
3206644 GTTAAGTTTC
*
3206654 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTT
3206719 TGTCTTTCAAAAA
66 TGTCTTTCAAAAA
* * * *
3206732 AAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTA-TTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAA-T
* **
3206796 TCCGTTTTTCAATTTCTGCCTTTCAAAA
63 T---TTTGTC---TT-T--C--AAAA-A
* * * *
3206824 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
*
3206888 TTCTGTCTTTC--AAA
63 TTTTGTCTTTCAAAAA
* * *
3206902 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTT---TT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAATT
* * ****
3206964 TTTACTTCAATTTGTATTTTTC
64 TTT--GTC--TTT-CA--AAAA
* ** * ** *
3206986 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAG-CTTTGAGTCACATATCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACAC-GCT-GAGGTATTTTCAAT
* * *
3207050 ATCTG-CTTTTCAAGTTAAGTTTT
63 TTTTGTC-TTTCAA---AA----A
* * * *
3207073 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGATACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTT
3207138 TGTCTTTC-AAAA
66 TGTCTTTCAAAAA
* * * * * *
3207150 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGTTTTCCATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTT
*
3207213 TGT-TCTTCAATTTCTGTGTTTCAA
66 TGTCT-TTCAA-----------AAA
* * * ** *
3207237 AAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGACACGCTGAGGTATTTTCAATT
*
3207302 TTTGTTTTTCAAATTTTGTTTTTCCAA
64 TTTGTCTTTCAAA------------AA
* * *
3207329 AAAAAATCAACTCATATTGTGAGAGGTGAGTTCAGCCTCAGAACACGCTGAGGTATTTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
3207394 TT-TTTTTCAATTTATGTTTGTCAA
65 TTGTCTTTCAA---A--------AA
* *
3207418 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCCACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-GACACGCTGAGGTATTTTCAATT
3207483 GATGTTTTTT
Statistics
Matches: 580, Mismatches: 92, Indels: 146
0.71 0.11 0.18
Matches are distributed among these distances:
74 1 0.00
75 30 0.05
76 1 0.00
77 39 0.07
78 88 0.15
79 12 0.02
80 14 0.02
81 2 0.00
82 4 0.01
83 12 0.02
84 45 0.08
85 22 0.04
86 6 0.01
87 75 0.13
88 35 0.06
89 18 0.03
90 29 0.05
91 55 0.09
92 58 0.10
93 34 0.06
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTT
TGTCTTTCAAAAA
Found at i:3206830 original size:170 final size:168
Alignment explanation
Indices: 3206461--3206960 Score: 455
Period size: 170 Copynumber: 2.9 Consensus size: 168
3206451 CGCTGAGCTA
* * *
3206461 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
1 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AG-G
* * * * * * *
3206526 CACACACTGAGGTATTTTTTTTACTTCAATTTATATTTTTC---AAAAACCAACTCATATTGCGA
64 CACACGCTGAGCTA--------ATTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGA
* * * * * ** * *
3206588 AAGGTGAGTTGAGCCT-TGAGTCACATATCGAGGTATTTTCAAAATCTGC
121 GAGGCGAGTTGAGCCTCAGA-TCACACACCGAGGTA-TTTCAATTTCCGT
* **
3206637 TTTTCAAGTTAAG--TTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
1 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGC
* * * *
3206695 ACACGCTGAGGTAATTTCAATTTTTGTCTTTCAAAAAAAAAATCAACTCGTATTGCGAGCGGCGA
65 ACACGCTGAGCTAATTTCAATTTCTGTCTTTC--AAAAAAAATCAACTCATATTGCGAGAGGCGA
* *
3206760 GTTGAGCCTCAGGTCACACGCCGAGGTATTTCAATTTCCGT
128 GTTGAGCCTCAGATCACACACCGAGGTATTTCAATTTCCGT
* *
3206801 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--
* * *
3206866 CACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAG
64 CACACGCTGAGCTAATTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAG
* *
3206931 TTGAGCTTCAGATCACACACTGAGGTATTT
129 TTGAGCCTCAGATCACACACCGAGGTATTT
3206961 TTTTTTACTT
Statistics
Matches: 269, Mismatches: 40, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
160 15 0.06
164 19 0.07
165 44 0.16
166 5 0.02
168 12 0.04
169 2 0.01
170 130 0.48
172 28 0.10
174 4 0.01
176 10 0.04
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (168 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCA
CACGCTGAGCTAATTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTT
GAGCCTCAGATCACACACCGAGGTATTTCAATTTCCGT
Found at i:3207013 original size:419 final size:418
Alignment explanation
Indices: 3206238--3207544 Score: 1792
Period size: 419 Copynumber: 3.1 Consensus size: 418
3206228 TCTACTTTTT
3206238 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
*
3206303 TGTCTTT--AAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAG
66 TGTCTTTCAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAG
3206366 GTATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGT
131 GTATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGT
*
3206431 GAGTTGATCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTC
196 GAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTC-AAAAAAAATCAACTC
3206496 ATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTA-TTTTTTTTACTTCAATTTAT
260 ATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTTTACTTCAATTTAT
*
3206560 ATTTTTCAAAAACCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGAGTCACATATCGAGGTATT
325 ATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGAGTCACATATCGAGGTATT
3206625 TTCAAAATCTGCTTTTCAAGTTAAGTTTC
390 TTCAAAATCTGCTTTTCAAGTTAAGTTTC
* *
3206654 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
3206719 TGTCTTTCAAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGA
66 TGTCTTTC-AAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGA
3206784 GGTATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGG
130 GGTATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGG
3206849 TGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTC
195 TGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTC
*
3206914 ATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTTTACTTCAATTTGT
260 ATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTTTACTTCAATTTAT
*
3206979 ATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCTTTGAGTCACATATCGAGGTATT
325 ATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGAGTCACATATCGAGGTATT
*
3207044 TTCAAAATCTGCTTTTCAAGTTAAGTTTT
390 TTCAAAATCTGCTTTTCAAGTTAAGTTTC
* * *
3207073 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGATACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
* * * * * * *
3207138 TGTCTTTCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA----AGACGCTGAG
66 TGTCTTTCAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAG
* * * * ** *
3207199 GTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTC--AAAAAAATC-AGCTCATATTGCGAGTG
131 GT-ATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGA-CTCATATTGCGAGAG
* * * *
3207261 GTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTTTGTTTTTCAAATTTTGTTTTTC
194 GTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC-AA-------TTTC------TGTCTTT-
* * * *
3207326 CAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTCAGCCTCAGA--ACACGCTGAGGTATTTTC
244 CAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTA-TTT-
** * * *
3207389 AATTTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
307 --TTTTTTACTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
** * *** * * ** * * *
3207454 TCAAGCCACACGCCGAGGTATTTTCAATTGATGTTTTTTTTTAATTTATGCTTTGC
368 TTGAGTCACATATCGAGGTATTTTCAA--AAT-CTGCTTTTCAAGTTAAG-TTT-C
*
3207510 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3207545 TTCGGGTCAC
Statistics
Matches: 802, Mismatches: 57, Indels: 43
0.89 0.06 0.05
Matches are distributed among these distances:
412 1 0.00
413 57 0.07
414 12 0.01
415 27 0.03
416 70 0.09
418 97 0.12
419 346 0.43
421 4 0.00
426 12 0.01
427 9 0.01
428 42 0.05
430 20 0.02
432 55 0.07
434 2 0.00
435 11 0.01
436 3 0.00
437 34 0.04
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (418 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
TGTCTTTCAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAG
GTATTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGT
GAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCA
TATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTTTACTTCAATTTATA
TTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGAGTCACATATCGAGGTATTT
TCAAAATCTGCTTTTCAAGTTAAGTTTC
Found at i:3207222 original size:75 final size:76
Alignment explanation
Indices: 3207073--3207215 Score: 225
Period size: 77 Copynumber: 1.9 Consensus size: 76
3207063 GTTAAGTTTT
* *
3207073 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGATACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-ACGCTGAGGTATTTTCAATTTC
3207138 TGTCTTTCAAAA
65 TGTCTTTCAAAA
* * *
3207150 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-ACGCTGAGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
3207214 GT
66 GT
3207216 TCTTCAATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 22 0.36
77 39 0.64
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
GTCTTTCAAAA
Found at i:3207313 original size:91 final size:88
Alignment explanation
Indices: 3207127--3207544 Score: 413
Period size: 91 Copynumber: 4.6 Consensus size: 88
3207117 CGTTGAGGTA
* * * *
3207127 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCT---CA
1 TTTTCAATTTATGT-TTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGACC
* * *
3207189 AGACGCTGAGGTGTTTTCCATTTCTGT
63 ACACGCTGAGGTATTTTCAATTT-TGT
* * * * *
3207216 TCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGAC-CA
3207281 CACGCTGAGGTATTTTCAAATTTTGT
64 CACGCTGAGGTATTTTC-AATTTTGT
* *
3207307 TTTTCAAATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTCAGCCTCAGA
1 TTTTC-AATTTATG-TTTT-C-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGA
*
3207371 --ACACGCTGAGGTATTTTCAATTTTTT
61 CCACACGCTGAGGTATTTTCAATTTTGT
3207397 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AGCC
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGA-CC
* *
3207461 ACACGCCGAGGTATTTTCAATTGATGTTTT
63 ACACGCTGAGGTATTTTCAA-T--T-TTGT
* * *
3207491 TTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 TTTTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3207545 TTCGGGTCAC
Statistics
Matches: 288, Mismatches: 21, Indels: 37
0.83 0.06 0.11
Matches are distributed among these distances:
87 38 0.13
88 39 0.14
89 26 0.09
90 35 0.12
91 47 0.16
92 45 0.16
93 36 0.12
94 19 0.07
95 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGACCACA
CGCTGAGGTATTTTCAATTTTGT
Found at i:3207329 original size:15 final size:14
Alignment explanation
Indices: 3207293--3207325 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
3207283 CGCTGAGGTA
3207293 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
3207307 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
3207321 TTTTC
1 TTTTC
3207326 CAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTTCAAATTTTGT
Found at i:3207436 original size:181 final size:180
Alignment explanation
Indices: 3207127--3207540 Score: 488
Period size: 180 Copynumber: 2.3 Consensus size: 180
3207117 CGTTGAGGTA
* * *
3207127 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACA
* * * *
3207192 CGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCG
66 CGCTGAGGTATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCG
* ** *
3207257 AGTGGTGAGTTGAGCCTTGA-CTCACACGCTGAGGTATTTTCAAATTTTGT
131 AGAGGTGAGTTGAGCCTCAAGC-CACACGCCGAGGTATTTTCAAATTTTGT
* * * *
3207307 TTTTCAAATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTCAGCCTCAGA
1 TTTTC-AATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTC--A
* *
3207371 ACACGCTGAGGTATTTTCAATTT-TTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATAT
63 ACACGCTGAGGTATTTTCAATTTCTGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATAT
3207434 TGCGAGAGGTGAGTTGAGCCTCAAGCCACACGCCGAGGTATTTTCAATTGATGTTT-T
127 TGCGAGAGGTGAGTTGAGCCTCAAGCCACACGCCGAGGTATTTTCAA---AT-TTTGT
* * *
3207491 TTTTTAATTTATG-CTTTGC----AAAAATCAACTCATATTACGAGAGGTGAGTT
1 TTTTCAATTTCTGTCTTT-CAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
3207541 GAGCTTCGGG
Statistics
Matches: 202, Mismatches: 21, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
180 80 0.40
181 79 0.39
182 22 0.11
183 8 0.04
184 10 0.05
185 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (180 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACA
CGCTGAGGTATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTCAAGCCACACGCCGAGGTATTTTCAAATTTTGT
Found at i:3208271 original size:19 final size:19
Alignment explanation
Indices: 3208227--3208277 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
3208217 TTAAGCCCCG
3208227 CCCAAAAAAAACCTAACCC
1 CCCAAAAAAAACCTAACCC
***
3208246 AAAAAAAAAAACCTAACCC
1 CCCAAAAAAAACCTAACCC
3208265 CCCAAAAAAAACC
1 CCCAAAAAAAACC
3208278 AAGAAACCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.61, C:0.35, G:0.00, T:0.04
Consensus pattern (19 bp):
CCCAAAAAAAACCTAACCC
Found at i:3208536 original size:13 final size:13
Alignment explanation
Indices: 3208518--3208542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3208508 TTTTACTCTT
3208518 TTTTTTATTTTTA
1 TTTTTTATTTTTA
3208531 TTTTTTATTTTT
1 TTTTTTATTTTT
3208543 TTCCTTTTTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:3208551 original size:30 final size:32
Alignment explanation
Indices: 3208494--3208553 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
3208484 CTAAAGGTGA
*
3208494 TTTTATCTTCTTTATTTTACTCTTTTTTTTAT
1 TTTTATCTTCTTTATTTTACTCCTTTTTTTAT
**
3208526 TTTTAT-TT-TTTATTTTTTTCCTTTTTTT
1 TTTTATCTTCTTTATTTTACTCCTTTTTTT
3208554 CGAATCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 2 0.08
32 6 0.24
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTATCTTCTTTATTTTACTCCTTTTTTTAT
Found at i:3208604 original size:11 final size:12
Alignment explanation
Indices: 3208582--3208632 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
3208572 TATATACATC
3208582 ATAATAAAAAAT
1 ATAATAAAAAAT
3208594 ATAATAAAAATAT
1 ATAATAAAAA-AT
*
3208607 ATATACAAAACAAAT
1 ATA-A-TAAA-AAAT
3208622 ATAA-AAAAAAT
1 ATAATAAAAAAT
3208633 TACCTTTTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 4 0.12
12 13 0.38
13 5 0.15
14 2 0.06
15 8 0.24
16 2 0.06
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAAAAAAT
Done.