Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 144 of 207
Found at i:44298279 original size:20 final size:20
Alignment explanation
Indices: 44298241--44298279 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44298231 TTAAAAGTCT
*
44298241 AAAAAATATATATATTTAAG
1 AAAAAATATATATAATTAAG
* *
44298261 AAAAATTATATTTAATTAA
1 AAAAAATATATATAATTAA
44298280 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAAATATATATAATTAAG
Found at i:44298607 original size:17 final size:19
Alignment explanation
Indices: 44298573--44298612 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
44298563 CATTTATTTT
44298573 AATA-TTTTTAATATATTA
1 AATATTTTTTAATATATTA
*
44298591 TATATTTTTTAA-A-ATTA
1 AATATTTTTTAATATATTA
44298608 AATAT
1 AATAT
44298613 AAAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
19 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTTTTAATATATTA
Found at i:44299359 original size:5 final size:5
Alignment explanation
Indices: 44299345--44299374 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
44299335 TAAAATAAGG
44299345 AAATA TAAATA AAATA AAATA AAATA AAAT
1 AAATA -AAATA AAATA AAATA AAATA AAAT
44299375 TAGATTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:44300309 original size:23 final size:23
Alignment explanation
Indices: 44300259--44300307 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
44300249 AGATTTTTCC
44300259 TAAATATTATCACTAAATAATTG
1 TAAATATTATCACTAAATAATTG
44300282 TAAATATTATCACTAAATAATT-
1 TAAATATTATCACTAAATAATTG
44300304 TAAA
1 TAAA
44300308 ATTTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTG
Found at i:44300649 original size:26 final size:26
Alignment explanation
Indices: 44300613--44300665 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
44300603 TAATTTTTGA
* *
44300613 TACATTTTTGGCTTATCGATTGCAAT
1 TACATGTTTGGCTTATCAATTGCAAT
*
44300639 TACATGTTTGGCTTATCAATTGTAAT
1 TACATGTTTGGCTTATCAATTGCAAT
44300665 T
1 T
44300666 TTATTGTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (26 bp):
TACATGTTTGGCTTATCAATTGCAAT
Found at i:44301070 original size:44 final size:44
Alignment explanation
Indices: 44300993--44301076 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
44300983 CTATTGGTCA
* *
44300993 AGTATAAATAATTAATAATACATACTATGTAATTAGTTAAATTT
1 AGTATAAATAATTAATAATAAATACTATGTAATTAATTAAATTT
* * *
44301037 AGTATAATTAATTTATAATAAATA-TATTTTAATTAATTAA
1 AGTATAAATAATTAATAATAAATACTA-TGTAATTAATTAA
44301077 TTATTCAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (44 bp):
AGTATAAATAATTAATAATAAATACTATGTAATTAATTAAATTT
Found at i:44309257 original size:25 final size:26
Alignment explanation
Indices: 44309217--44309266 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
44309207 GTTGTAAATA
44309217 AAATAATATCTCTAGA-AATTTTCTG
1 AAATAATATCTCTAGAGAATTTTCTG
* *
44309242 AAATAATCTCTTTAGAGAATTTTCT
1 AAATAATATCTCTAGAGAATTTTCT
44309267 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (26 bp):
AAATAATATCTCTAGAGAATTTTCTG
Found at i:44312180 original size:17 final size:17
Alignment explanation
Indices: 44312158--44312191 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44312148 GAAGCTTGAG
44312158 ATAGAGCTATCGTTTTA
1 ATAGAGCTATCGTTTTA
44312175 ATAGAGCTATCGTTTTA
1 ATAGAGCTATCGTTTTA
44312192 CTCTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (17 bp):
ATAGAGCTATCGTTTTA
Found at i:44313545 original size:69 final size:69
Alignment explanation
Indices: 44313456--44313638 Score: 258
Period size: 69 Copynumber: 2.7 Consensus size: 69
44313446 CATTGACTTA
* * * * **
44313456 TACCTAAAATGGACAGCATTTAAGCACTAATTCGGACAACATTACTAACATACGGACAACACAAA
1 TACCAAAAATGGACAACATTTAAGCACTAATTTGGACAGCATTAAGAACATACGGACAACACAAA
*
44313521 TTTT
66 TTTG
* * * *
44313525 TACCAAAAATGGACAACATTTAAGCACTAATTTGGATAGCATTAAGAACATTCGGACAACATAGA
1 TACCAAAAATGGACAACATTTAAGCACTAATTTGGACAGCATTAAGAACATACGGACAACACAAA
44313590 TTTG
66 TTTG
*
44313594 TACCAAAAATGGACAACATTTAAGCACCAATTTGGACAGCATTAA
1 TACCAAAAATGGACAACATTTAAGCACTAATTTGGACAGCATTAA
44313639 TACATGCAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 101 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (69 bp):
TACCAAAAATGGACAACATTTAAGCACTAATTTGGACAGCATTAAGAACATACGGACAACACAAA
TTTG
Found at i:44314909 original size:30 final size:31
Alignment explanation
Indices: 44314870--44314927 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
44314860 AAAATAACTA
* *
44314870 TTTCGACATTTTTTCACTTTAGCCCCTAAAG
1 TTTCGACATTTATTCAATTTAGCCCCTAAAG
*
44314901 TTTC-ACATTTATTCAATTTAGTCCCTA
1 TTTCGACATTTATTCAATTTAGCCCCTA
44314928 TTTCACAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (31 bp):
TTTCGACATTTATTCAATTTAGCCCCTAAAG
Found at i:44316479 original size:150 final size:148
Alignment explanation
Indices: 44315967--44316759 Score: 908
Period size: 153 Copynumber: 5.2 Consensus size: 148
44315957 TTTGTTCGTA
* * *
44315967 TTTTTTCCTAGATTTTATTACTTT-TA-AAAAATATACTATTTTCTAATTTTATTATTTTACATT
1 TTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCT-ATTTTATTATTTTACATT
** *
44316030 ATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGT-TTTTTTATTTAAATTAAAAAAAACC
65 ATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAAA-C
*
44316094 CTTATTTCGGCCATTTGTTCGTAT
129 CTTATTTCGGCC---TATTC-TAT
*
44316118 TTTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTTTACATT
1 TTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTC-TATTTTATTATTTTACATT
* * * * *
44316183 ATTTGAGTACATTATATTTGAAATGTATTAATTTAATGTATTTTTTAAATAAATTT-AAAAAACC
65 ATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACC
*
44316247 TTATTTCGGCCCTTTGTTCGTAT
130 TTATTTCGG-CC--TATTC-TAT
44316270 TTTTTT-CCAGATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTA-TTTACATT
1 TTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCT-ATTTTATTATTTTACATT
*
44316333 ATTTTAGTAAATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAATTTTAAAAAAA
65 ATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT-AAA-TTTAAAAAAA
44316398 TCCTTATTTCGGCC-ATT-TAT
128 -CCTTATTTCGGCCTATTCTAT
* *
44316418 TTTTTTCCCAGGTTTTATTAATTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATT
1 TTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTC-TATTTTATTATTTTACATT
* * * * *
44316483 ATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTGTTTTTGAAATAAATTTACAGAAAAC
65 ATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTA-AAAAAAC
*
44316548 CATTATTTCGGCCCTTTGTTCGTA-
129 C-TTATTTCGG-CC--TATTC-TAT
* * * ** *
44316572 TTTTTTCCCCGAATTTTATTACTTT-TA-AAAAATATAATATTTTAAATTTTATAATTTTACATT
1 TTTTTTCCCAG-ATTTTATTACTTTCAATAAAAATATATTATTTTCTATTTTATTATTTTACATT
*
44316635 ATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTTTAAATAAATTTTAAAAAAA
65 ATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTTTTAAATAAA-TTT---AAAA
*
44316700 AAACCTTATTTCGGCCCTTTGTTCGTA-
125 AAACCTTATTTCGG-CC--TATTC-TAT
* * *
44316727 TTTTTTACCGGATTTTAATACTTTCAATAAAAA
1 TTTTTTCCCAGATTTTATTACTTTCAATAAAAA
44316760 ACACACTAAA
Statistics
Matches: 568, Mismatches: 45, Indels: 53
0.85 0.07 0.08
Matches are distributed among these distances:
148 15 0.03
149 62 0.11
150 111 0.20
151 72 0.13
152 85 0.15
153 114 0.20
154 51 0.09
155 45 0.08
156 12 0.02
157 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (148 bp):
TTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCTATTTTATTATTTTACATTA
TTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACCT
TATTTCGGCCTATTCTAT
Found at i:44316505 original size:300 final size:303
Alignment explanation
Indices: 44315957--44316759 Score: 1126
Period size: 300 Copynumber: 2.6 Consensus size: 303
44315947 ATTTTGGCAA
*
44315957 TTTGTTCGTA-TTTTTTCCTAGATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTA
1 TTTGTTCGTATTTTTTTCC-AGATTTTATTACTTTTAAAAAATATAATATTTTCTAATTTTATTA
**
44316021 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGT-TTTTTTATTTAAA--T
65 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTT
* *
44316083 TAAAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTCAATAA
130 TAAAAAAAA-CCTTATTTCGGCCA--T-TTC-TATTTTTTTCCCAGATTTTATTAATTTCAATAA
*
44316148 AAATATATTATTTTCATATTTTATTATTTTACATTATTTGAGTACATTATATTTGAAATGTATTA
190 AAATATATTATTTTCATATTTTATTATTTTACATTATTTGAGTACATTATATTTGAAATATATTA
*
44316213 ATTTAATGTATTTTTTAAATAAATTTA-A-AAAACC-TTATTTCGGCCC
255 ATTTAATGTATTTTTGAAATAAATTTACAGAAAACCATTATTTCGGCCC
* *
44316259 TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATT
1 TTTGTTCGTATTTTTTTCCAGATTTTATTACTTT-TA-AAAAATATAATATTTTCTAATTTTATT
*
44316324 A-TTTACATTATTTTAGTAAATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAAT
64 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT-AAAT
* *
44316388 TTTAAAAAAATCCTTATTTCGGCCA-TT-TATTTTTTTCCCAGGTTTTATTAATTTCAATAAAAA
128 TTTAAAAAAAACCTTATTTCGGCCATTTCTATTTTTTTCCCAGATTTTATTAATTTCAATAAAAA
* * *
44316451 TATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATT
193 TATATTATTTTCATATTTTATTATTTTACATTATTTGAGTACATTATATTTGAAATATATTAATT
* *
44316516 TACTGTGTTTTTGAAATAAATTTACAGAAAACCATTATTTCGGCCC
258 TAATGTATTTTTGAAATAAATTTACAGAAAACCATTATTTCGGCCC
* * * *
44316562 TTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTTAAAAAATATAATATTTT-AAATTTTATAA
1 TTTGTTCGTATTTTTTTCCAG-ATTTTATTACTTTTAAAAAATATAATATTTTCTAATTTTATTA
*
44316626 TTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTTTAAATAAATT
65 TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTTTTAAATAAATT
* * * * *
44316691 TTAAAAAAAAAACCTTATTTCGGCCCTTTGTTCGTA-TTTTTTACCGGATTTTAATACTTTCAAT
129 TT--AAAAAAAACCTTATTTCGG-CC-AT-TTC-TATTTTTTTCCCAGATTTTATTAATTTCAAT
44316755 AAAAA
188 AAAAA
44316760 ACACACTAAA
Statistics
Matches: 449, Mismatches: 31, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
300 115 0.26
301 10 0.02
302 101 0.22
303 97 0.22
304 66 0.15
305 5 0.01
306 14 0.03
307 9 0.02
308 2 0.00
309 28 0.06
310 2 0.00
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (303 bp):
TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTTAAAAAATATAATATTTTCTAATTTTATTAT
TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTT
AAAAAAAACCTTATTTCGGCCATTTCTATTTTTTTCCCAGATTTTATTAATTTCAATAAAAATAT
ATTATTTTCATATTTTATTATTTTACATTATTTGAGTACATTATATTTGAAATATATTAATTTAA
TGTATTTTTGAAATAAATTTACAGAAAACCATTATTTCGGCCC
Found at i:44316770 original size:152 final size:151
Alignment explanation
Indices: 44315957--44316759 Score: 972
Period size: 150 Copynumber: 5.3 Consensus size: 151
44315947 ATTTTGGCAA
** *
44315957 TTTGTTCGTATTTTTTCCTAGATTTTATTACTTTTAA-AAAATATACTATT-TTCT-AATTTTAT
1 TTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAA-ATA-TATTATT-TAAATTTTAT
**
44316019 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGT-TTTTTTATTTAAA-
63 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
*
44316082 TTAAAAAAAACCCTTATTTCGGCCA
128 TTAAAAAAAA-CCTTATTTCGGCCC
* * *
44316107 TTTGTTCGTATTTTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTAT
1 TTTGTTCGTA-TTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTA-TTT-AAATTTTAT
* * * * *
44316172 TATTTTACATTATTTGAGTACATTATATTTGAAATGTATTAATTTAATGTATTTTTTAAATAAAT
63 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
44316237 TT--AAAAAACCTTATTTCGGCCC
128 TTAAAAAAAACCTTATTTCGGCCC
* * *
44316259 TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATT
1 TTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTA-TTT-AAATTTTATT
*
44316324 A-TTTACATTATTTTAGTAAATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAAT
64 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT-AAA-
*
44316388 TTTAAAAAAATCCTTATTTCGG-CC
127 TTTAAAAAAAACCTTATTTCGGCCC
* * * **
44316412 -AT-TT-AT-TTTTTTCCCAGG-TTTTATTAATTTCAATAAAAATATATTATTTTCGTATTTTAT
1 TTTGTTCGTATTTTTTCCC-GGATTTTATTACTTTCAATAAAAATATATTA-TTT-AAATTTTAT
* * * *
44316472 TATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTGTTTTTGAAATAAAT
63 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
* *
44316537 TTACAGAAAACCATTATTTCGGCCC
128 TTAAAAAAAACC-TTATTTCGGCCC
* * * *
44316562 TTTGTTCGTATTTTTTCCCCGAATTTTATTACTTT-TA-AAAAATATAATATTTTAAATTTTATA
1 TTTGTTCGTATTTTTT-CCCGGATTTTATTACTTTCAATAAAAATATATTA-TTTAAATTTTATT
*
44316625 ATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTTTAAATAAAT
64 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTG-TTTTTTAAATAAA-
44316690 TTTAAAAAAAAAACCTTATTTCGGCCC
127 TTT--AAAAAAAACCTTATTTCGGCCC
* *
44316717 TTTGTTCGTATTTTTTACCGGATTTTAATACTTTCAATAAAAA
1 TTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAAA
44316760 ACACACTAAA
Statistics
Matches: 570, Mismatches: 55, Indels: 50
0.84 0.08 0.07
Matches are distributed among these distances:
148 10 0.02
149 61 0.11
150 123 0.22
151 88 0.15
152 88 0.15
153 89 0.16
154 53 0.09
155 45 0.08
156 13 0.02
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (151 bp):
TTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTAAATTTTATTAT
TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTA
AAAAAAACCTTATTTCGGCCC
Found at i:44322526 original size:69 final size:69
Alignment explanation
Indices: 44322446--44322631 Score: 264
Period size: 69 Copynumber: 2.7 Consensus size: 69
44322436 CAGCATTGAC
* * **
44322446 TTGTACCAAAAATGGACAGCATTTAAGCACTAATTCGGACAACATTACTAACATACGGACAACAC
1 TTGTACCAAAAATGGACAGCATTTAAGCACTAATTTGGACAGCATTAAGAACATACGGACAACAC
44322511 AAAT
66 AAAT
* * * * *
44322515 TTGTACAAAAAATGGACAACATTTAAGCACTAATTTGGACAGCATTAAGAACATTCGGACAGCAT
1 TTGTACCAAAAATGGACAGCATTTAAGCACTAATTTGGACAGCATTAAGAACATACGGACAACAC
*
44322580 AGAT
66 AAAT
* *
44322584 TTGTACCAAAAATGGATAGCATTTAAGCACCAATTTGGACAGCATTAA
1 TTGTACCAAAAATGGACAGCATTTAAGCACTAATTTGGACAGCATTAA
44322632 TACATGCAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 103 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (69 bp):
TTGTACCAAAAATGGACAGCATTTAAGCACTAATTTGGACAGCATTAAGAACATACGGACAACAC
AAAT
Found at i:44322627 original size:23 final size:23
Alignment explanation
Indices: 44322527--44322629 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 23
44322517 GTACAAAAAA
* *
44322527 TGGACAACATTTAAGCACTAATT
1 TGGACAGCATTTAAGCACCAATT
*
44322550 TGGACAGCA-TTAAG-AAC-ATT
1 TGGACAGCATTTAAGCACCAATT
* * * **
44322570 CGGACAGCATAGATT-TGTACCAAAAA
1 TGGACAGCAT---TTAAGCACC-AATT
*
44322596 TGGATAGCATTTAAGCACCAATT
1 TGGACAGCATTTAAGCACCAATT
44322619 TGGACAGCATT
1 TGGACAGCATT
44322630 AATACATGCA
Statistics
Matches: 57, Mismatches: 15, Indels: 16
0.65 0.17 0.18
Matches are distributed among these distances:
20 11 0.19
21 1 0.02
22 5 0.09
23 23 0.40
24 8 0.14
26 9 0.16
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (23 bp):
TGGACAGCATTTAAGCACCAATT
Found at i:44323471 original size:43 final size:42
Alignment explanation
Indices: 44323414--44323521 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
44323404 CACTGCCATA
** *
44323414 TCCCAGATATGGTCTTACATGTTATAATATATCGATGCCACTT-
1 TCCCAGATATGGTCTTACATGAAATAATATA-CGATG-CAATTG
* * * *
44323457 TCCCAGAGAGGGTCTTACACGAAATCATATACGATGCAATTG
1 TCCCAGATATGGTCTTACATGAAATAATATACGATGCAATTG
44323499 TCCCAGATATGGTCTTACATGAA
1 TCCCAGATATGGTCTTACATGAA
44323522 GTCACACCTC
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 4 0.07
42 25 0.46
43 25 0.46
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (42 bp):
TCCCAGATATGGTCTTACATGAAATAATATACGATGCAATTG
Found at i:44330340 original size:17 final size:19
Alignment explanation
Indices: 44330318--44330357 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
44330308 TGTCCAAGTA
44330318 CTAGTT-AGTTT-ATTTTT
1 CTAGTTCAGTTTAATTTTT
44330335 CTAGTTCAGTTTAATTTTT
1 CTAGTTCAGTTTAATTTTT
44330354 -TAGT
1 CTAGT
44330358 ACAACAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.20, C:0.07, G:0.12, T:0.60
Consensus pattern (19 bp):
CTAGTTCAGTTTAATTTTT
Found at i:44340774 original size:11 final size:11
Alignment explanation
Indices: 44340752--44340780 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44340742 CACCTTCACC
44340752 CATTTA-TTTT
1 CATTTATTTTT
44340762 CATTTATTTTT
1 CATTTATTTTT
44340773 CATTTATT
1 CATTTATT
44340781 CAAACCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (11 bp):
CATTTATTTTT
Found at i:44343481 original size:56 final size:56
Alignment explanation
Indices: 44343413--44343526 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 56
44343403 ATATCTAACA
*
44343413 TGGCTCACAAAGGAGCACACATAGAGA-CATATCATAGAGAGCTCGCATAGGGAGCT
1 TGGCTCACAAAGGAGCACACATAGA-ATCATATCACAGAGAGCTCGCATAGGGAGCT
* *** * *
44343469 TGGCTCGCAAAGGAGCTTGCATAGAATCTTATCACATAGAGCTCGCATAGGGAGCT
1 TGGCTCACAAAGGAGCACACATAGAATCATATCACAGAGAGCTCGCATAGGGAGCT
44343525 TG
1 TG
44343527 CTTAAAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (56 bp):
TGGCTCACAAAGGAGCACACATAGAATCATATCACAGAGAGCTCGCATAGGGAGCT
Found at i:44343485 original size:17 final size:18
Alignment explanation
Indices: 44343453--44343487 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44343443 ATCATAGAGA
*
44343453 GCTCGCATAGGGAGCTTG
1 GCTCGCATAAGGAGCTTG
44343471 GCTCGCA-AAGGAGCTTG
1 GCTCGCATAAGGAGCTTG
44343488 CATAGAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (18 bp):
GCTCGCATAAGGAGCTTG
Found at i:44347316 original size:25 final size:26
Alignment explanation
Indices: 44347254--44347318 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
44347244 AGTTCTTCAA
* *
44347254 TGCTTTTGAAAAATGCTTTTGAAAAG
1 TGCTTTTGAAAAGTGCATTTGAAAAG
* * *
44347280 TGCTGTTAAAAAGTG-ATTTGAGAAG
1 TGCTTTTGAAAAGTGCATTTGAAAAG
44347305 TGCTTTTGAAAAGT
1 TGCTTTTGAAAAGT
44347319 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCATTTGAAAAG
Found at i:44347318 original size:13 final size:13
Alignment explanation
Indices: 44347254--44347318 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
44347244 AGTTCTTCAA
*
44347254 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
44347267 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
44347280 TGCTGTTAAAAAG
1 TGCTTTTGAAAAG
* *
44347293 TG-ATTTGAGAAG
1 TGCTTTTGAAAAG
44347305 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
44347318 T
1 T
44347319 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
12 8 0.19
13 34 0.81
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:44347592 original size:20 final size:19
Alignment explanation
Indices: 44347537--44347614 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 19
44347527 TTTTTAAGCA
*
44347537 ATAAATATTAA-TTATATAT
1 ATAAATA-TAATTTAAATAT
* *
44347556 A-AAATTTAATTTGAATAT
1 ATAAATATAATTTAAATAT
*
44347574 ATAAACTATATTTTAAATAT
1 ATAAA-TATAATTTAAATAT
*
44347594 TTAAATATAATCATTAAATAT
1 ATAAATATAAT--TTAAATAT
44347615 TTATAATTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
17 3 0.07
18 11 0.24
19 9 0.20
20 15 0.33
21 8 0.17
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (19 bp):
ATAAATATAATTTAAATAT
Found at i:44347933 original size:16 final size:16
Alignment explanation
Indices: 44347912--44347943 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44347902 CACTGAGCTT
44347912 CTTTCATGGATCTTCA
1 CTTTCATGGATCTTCA
44347928 CTTTCATGGATCTTCA
1 CTTTCATGGATCTTCA
44347944 GGCAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
CTTTCATGGATCTTCA
Found at i:44357257 original size:13 final size:13
Alignment explanation
Indices: 44357239--44357263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44357229 TGGAAAATAA
44357239 TGCAAATTCATTG
1 TGCAAATTCATTG
44357252 TGCAAATTCATT
1 TGCAAATTCATT
44357264 TAAGCTTTGA
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:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TGCAAATTCATTG
Found at i:44365930 original size:13 final size:14
Alignment explanation
Indices: 44365912--44365940 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44365902 TCTACTCGTA
44365912 TGGA-TTTTCTTTT
1 TGGATTTTTCTTTT
44365925 TGGATTTTTCTTTT
1 TGGATTTTTCTTTT
44365939 TG
1 TG
44365941 TATTGCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (14 bp):
TGGATTTTTCTTTT
Found at i:44371269 original size:73 final size:74
Alignment explanation
Indices: 44371157--44371303 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 74
44371147 GCACAAAAGT
* *
44371157 ATATATACAACCAAAGTACTAAAACATGCCCAAAGATTTGCAAAATGAGCATCCTATATA-TTGC
1 ATATATACAACCAAAGTACTAAAACATGCCCAAACATTTGCAAAATGAGCATCCTATATACATGC
44371221 CACAATTAA
66 CACAATTAA
* *
44371230 ATATTTACAACCAAAGTACTAAAACATGCCCAAACATTTGCAAAATGAGCATCCTATATACATGG
1 ATATATACAACCAAAGTACTAAAACATGCCCAAACATTTGCAAAATGAGCATCCTATATACATGC
44371295 CACAATTAA
66 CACAATTAA
44371304 CCACATTTCA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 58 0.84
74 11 0.16
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (74 bp):
ATATATACAACCAAAGTACTAAAACATGCCCAAACATTTGCAAAATGAGCATCCTATATACATGC
CACAATTAA
Found at i:44377951 original size:23 final size:23
Alignment explanation
Indices: 44377919--44377967 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
44377909 GAGTTTAATC
* *
44377919 TAATATCCCGAAAATTACTACCG
1 TAATACCCCGAAAATTACTACAG
44377942 TAATACCCCGAAAATTACTACAG
1 TAATACCCCGAAAATTACTACAG
44377965 TAA
1 TAA
44377968 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (23 bp):
TAATACCCCGAAAATTACTACAG
Found at i:44379082 original size:33 final size:33
Alignment explanation
Indices: 44379045--44379111 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
44379035 TAAAATATGT
*
44379045 AAATAAATATTATTGATTCAAGTTTATCATAGA
1 AAATAAATATTATTGAGTCAAGTTTATCATAGA
* *
44379078 AAATAAATATTATTGAGTCTAGTTTCTCATAGA
1 AAATAAATATTATTGAGTCAAGTTTATCATAGA
44379111 A
1 A
44379112 GAAACAGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.39
Consensus pattern (33 bp):
AAATAAATATTATTGAGTCAAGTTTATCATAGA
Found at i:44384852 original size:8 final size:8
Alignment explanation
Indices: 44384839--44384863 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44384829 TTAGGGTAGA
44384839 CCCATGAT
1 CCCATGAT
44384847 CCCATGAT
1 CCCATGAT
44384855 CCCATGAT
1 CCCATGAT
44384863 C
1 C
44384864 TTTTTCCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:44386369 original size:21 final size:21
Alignment explanation
Indices: 44386345--44386384 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44386335 ACTGACTAAT
44386345 TCTACTT-TTTCTGTTTATTCC
1 TCTACTTCTTT-TGTTTATTCC
*
44386366 TCTAGTTCTTTTGTTTATT
1 TCTACTTCTTTTGTTTATT
44386385 TCGTAGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.65
Consensus pattern (21 bp):
TCTACTTCTTTTGTTTATTCC
Found at i:44397347 original size:25 final size:25
Alignment explanation
Indices: 44397293--44397382 Score: 67
Period size: 25 Copynumber: 3.6 Consensus size: 25
44397283 GGTTACCGAT
* * * *
44397293 TTCAGCTCTTATGAGCTTACTGATAC
1 TTCAGCTCGTATAAGCTTAC-CATTC
44397319 -TCAGCTCGTATAAGCTTACCATTC
1 TTCAGCTCGTATAAGCTTACCATTC
* ** *
44397343 TTCAGCTCGAAGGAGCTTACCGTT-
1 TTCAGCTCGTATAAGCTTACCATTC
* *
44397367 TACAGCTCATATAAGC
1 TTCAGCTCGTATAAGC
44397383 ATACATGTAC
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 14 0.28
25 36 0.72
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (25 bp):
TTCAGCTCGTATAAGCTTACCATTC
Found at i:44404406 original size:25 final size:25
Alignment explanation
Indices: 44404378--44404425 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
44404368 TTTTAGCTCT
44404378 TATGAGCTTACCGATACTCAGCTTG
1 TATGAGCTTACCGATACTCAGCTTG
* *
44404403 TATGAGCTTACCGTTATTCAGCT
1 TATGAGCTTACCGATACTCAGCT
44404426 CAGAGGAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
TATGAGCTTACCGATACTCAGCTTG
Found at i:44404434 original size:25 final size:25
Alignment explanation
Indices: 44404406--44404467 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
44404396 CAGCTTGTAT
44404406 GAGCTTACCGTTATTCAGCTCAGAG
1 GAGCTTACCGTTATTCAGCTCAGAG
* * *
44404431 GAGCTTACTGCTATTCAGCTCGGAG
1 GAGCTTACCGTTATTCAGCTCAGAG
*
44404456 GAGTTTACCGTT
1 GAGCTTACCGTT
44404468 TACAGCTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTCAGAG
Found at i:44413730 original size:40 final size:40
Alignment explanation
Indices: 44413506--44413730 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
44413496 GCTCCTCGTT
* *
44413506 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
44413546 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* ** *
44413586 CAAATGCCTTCGGGACTTAACCCAAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * **
44413626 CCAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTGTCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
44413665 CAAATGCCTTC-CGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
44413706 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44413731 CATCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.01
39 29 0.18
40 116 0.74
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:44420888 original size:39 final size:40
Alignment explanation
Indices: 44420771--44420950 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
44420761 GCTCCTCGTT
*
44420771 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44420811 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
44420851 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
44420890 CAAATGCCTTC--GATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44420930 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
44420951 TGGACATCAT
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
37 1 0.01
39 52 0.44
40 62 0.52
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44420948 original size:79 final size:79
Alignment explanation
Indices: 44420771--44420950 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 79
44420761 GCTCCTCGTT
* *
44420771 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGG
* *
44420836 ATTTAGTAACTCGCAC
64 ATATAGTAACTAGCAC
* * **
44420852 CAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCGG
* *
44420914 ATATGGTCACTTAGCA-
64 ATATAGTAAC-TAGCAC
44420930 CAAAGCCTTCGGGACTTAGCC
1 CAAAGCCTTCGGGACTTAGCC
44420951 TGGACATCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
77 2 0.02
78 28 0.33
79 42 0.50
80 9 0.11
81 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAT
ATAGTAACTAGCAC
Found at i:44426445 original size:27 final size:27
Alignment explanation
Indices: 44426310--44426452 Score: 117
Period size: 27 Copynumber: 5.3 Consensus size: 27
44426300 GGCAAGTTAA
*
44426310 CCCCAGTTCACAACTCAACTGGCAAAC
1 CCCCAATTCACAACTCAACTGGCAAAC
* * ** * * *
44426337 CCCTAGTTCGTAGCTTAACTTG-ATAAC
1 CCCCAATTCACAACTCAACTGGCA-AAC
* * * *
44426364 CCCTAGTTCACAACACAACTGGTAAAC
1 CCCCAATTCACAACTCAACTGGCAAAC
* **
44426391 CCCCAATTCTCAACTCAACTCACAAAC
1 CCCCAATTCACAACTCAACTGGCAAAC
* *
44426418 CTCCAATTCACAACTCAACTGGCGAAC
1 CCCCAATTCACAACTCAACTGGCAAAC
44426445 CCCCAATT
1 CCCCAATT
44426453 TGCAAGTTAA
Statistics
Matches: 89, Mismatches: 25, Indels: 4
0.75 0.21 0.03
Matches are distributed among these distances:
26 1 0.01
27 87 0.98
28 1 0.01
ACGTcount: A:0.33, C:0.37, G:0.09, T:0.21
Consensus pattern (27 bp):
CCCCAATTCACAACTCAACTGGCAAAC
Found at i:44426472 original size:54 final size:54
Alignment explanation
Indices: 44426361--44426482 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
44426351 TTAACTTGAT
* * *
44426361 AACCCCTAGTTCACAACACAACTGGTAAACCCCCAATTCTCAACTCAACTCACA
1 AACCCCCAATTCACAACACAACTGGCAAACCCCCAATTCTCAACTCAACTCACA
* * * * * *
44426415 AACCTCCAATTCACAACTCAACTGGCGAACCCCCAATT-TGCAAGTTAACT-ATTA
1 AACCCCCAATTCACAACACAACTGGCAAACCCCCAATTCT-CAACTCAACTCA-CA
44426469 AACCCCCAATTCAC
1 AACCCCCAATTCAC
44426483 CAAACAGTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 2 0.04
54 54 0.96
ACGTcount: A:0.36, C:0.37, G:0.07, T:0.20
Consensus pattern (54 bp):
AACCCCCAATTCACAACACAACTGGCAAACCCCCAATTCTCAACTCAACTCACA
Found at i:44428658 original size:173 final size:173
Alignment explanation
Indices: 44428364--44428716 Score: 600
Period size: 173 Copynumber: 2.0 Consensus size: 173
44428354 TAGATGAATC
* * * *
44428364 AATTAGCTATGTTGGGATTTAGTTGAGATTTAATTAGAACTGAACTAAACTACTGTAGATGATTA
1 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
44428429 GACTTAAAACTTGTTAAGTGTGTTTAATCACGGGAATCAAGGGTGTTAGTGGGATTATCTAATTT
66 GACTTAAAACTTGTTAAGTGTGTTTAATCACGGGAATCAAGGGTGTTAGTGGGATTATCTAATTT
*
44428494 CTCCACTAAACCTTGTCTCTATTGCATGGGTATATAAGGTTAT
131 CTCCACTAAACCTTGTCTCTATTGCATGAGTATATAAGGTTAT
*
44428537 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAGACTACTATAGATGATTA
1 AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
* *
44428602 GACTTAAAACTTGTTAAG-GTTGTTTAATCACTGGAATCAAGGGTGTTAGTGGGATTATCTGATT
66 GACTTAAAACTTGTTAAGTG-TGTTTAATCACGGGAATCAAGGGTGTTAGTGGGATTATCTAATT
* *
44428666 TCTCCACTAAACCTTGTCTCTGTTGCATGATTATATAAGGTTAT
130 TCTCCACTAAACCTTGTCTCTATTGCATGAGTATATAAGGTTAT
44428710 AATTGGC
1 AATTGGC
44428717 CACCATTACC
Statistics
Matches: 169, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
172 1 0.01
173 168 0.99
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.37
Consensus pattern (173 bp):
AATTGGCTATGTTGGGATTTAGTTGAGATTTAATTACAACTAAACTAAACTACTATAGATGATTA
GACTTAAAACTTGTTAAGTGTGTTTAATCACGGGAATCAAGGGTGTTAGTGGGATTATCTAATTT
CTCCACTAAACCTTGTCTCTATTGCATGAGTATATAAGGTTAT
Found at i:44434577 original size:20 final size:20
Alignment explanation
Indices: 44434450--44434589 Score: 127
Period size: 20 Copynumber: 7.0 Consensus size: 20
44434440 AGGATTACAA
* * *
44434450 TTTGGTGCCTCTATTTGTAG
1 TTTGGTGCCTCTGTTTGCAC
*
44434470 TTTGGTGCCTCTGTTTGTAC
1 TTTGGTGCCTCTGTTTGCAC
** * *
44434490 TTTAATGCCTTTGTTTTCAC
1 TTTGGTGCCTCTGTTTGCAC
44434510 TTTGGTGCCTCTGTTTGCAC
1 TTTGGTGCCTCTGTTTGCAC
* * **
44434530 TTCGATGCCTCTGACTGCAC
1 TTTGGTGCCTCTGTTTGCAC
* * *
44434550 ATTCGTGCCTCTGTTTACAC
1 TTTGGTGCCTCTGTTTGCAC
*
44434570 TTTGGTGCCTGTGTTATGCA
1 TTTGGTGCCTCTGTT-TGCA
44434590 TCTCGATGCT
Statistics
Matches: 93, Mismatches: 26, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
20 90 0.97
21 3 0.03
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (20 bp):
TTTGGTGCCTCTGTTTGCAC
Found at i:44435034 original size:80 final size:80
Alignment explanation
Indices: 44434932--44435172 Score: 410
Period size: 80 Copynumber: 3.0 Consensus size: 80
44434922 AATGATTGTC
* * * *
44434932 AGGGTATAATTATGAAATCTCTTTTAACATCAATTTATAAGTTAAGATAAGATGATATTGAATTC
1 AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
44434997 ATGAATCATATGGAA
66 ATGAATCATATGGAA
44435012 AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
1 AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
44435077 ATGAATCATATGGAA
66 ATGAATCATATGGAA
* * *
44435092 AAGGTATAGTTATGAAAACTCTTTCAATATCAATTTATAAGTTAAGGTAAGATGAAATTGAATTC
1 AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
*
44435157 ATGAATAATATGGAA
66 ATGAATCATATGGAA
44435172 A
1 A
44435173 TTTTATGTGA
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 153 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (80 bp):
AGGGTATAGTTATGAAAACTCTTTTAATATCAATTTATAAGTTAAGGTAAGATGATATTGAATTC
ATGAATCATATGGAA
Found at i:44436412 original size:19 final size:19
Alignment explanation
Indices: 44436384--44436425 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
44436374 GTGACCACTG
44436384 TTTTCCAAAATTTTC-AAT
1 TTTTCCAAAATTTTCTAAT
44436402 TTTTCCCAAAATTTTCTAAT
1 TTTT-CCAAAATTTTCTAAT
44436422 TTTT
1 TTTT
44436426 TTTATTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTCCAAAATTTTCTAAT
Found at i:44439961 original size:8 final size:9
Alignment explanation
Indices: 44439937--44439962 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44439927 TAAAAACTAA
44439937 ATTAAAAAT
1 ATTAAAAAT
44439946 ATTAAAAAT
1 ATTAAAAAT
44439955 ATTAAAAA
1 ATTAAAAA
44439963 CTCCTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:44450326 original size:80 final size:78
Alignment explanation
Indices: 44450134--44450352 Score: 237
Period size: 80 Copynumber: 2.7 Consensus size: 78
44450124 TTGAATGATG
* ** * **
44450134 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAGGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGA-GT-ACTAAATCCGGGTTAAG-TCCGAAGGCATT
44450198 TGTGCGAGTTACTAAA
63 TGTGCGAGTTACTAAA
* **
44450214 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TACTAAATCCGGGTTAAGT-CCGAAGGCATTT
44450279 GTGCGAGTTACTATAA
64 GTGCGAGTTACTA-AA
* * *
44450295 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTA-CTAAATCCGGGTT-AAGTCCGAAGG
44450353 TACGTGATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
79 14 0.11
80 97 0.80
81 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTACTAAATCCGGGTTAAGTCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:44450333 original size:40 final size:40
Alignment explanation
Indices: 44450134--44450319 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
44450124 TTGAATGATG
* * * *
44450134 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAGGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
**
44450174 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
44450214 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
44450254 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
44450295 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
44450320 AACGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.91
41 11 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44457461 original size:40 final size:40
Alignment explanation
Indices: 44457367--44457549 Score: 259
Period size: 40 Copynumber: 4.7 Consensus size: 40
44457357 TTGAATGATG
* *
44457367 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACT--A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44457404 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44457444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44457484 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44457525 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44457550 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
37 18 0.14
38 14 0.11
39 1 0.01
40 98 0.74
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44457556 original size:80 final size:79
Alignment explanation
Indices: 44457367--44457582 Score: 230
Period size: 80 Copynumber: 2.7 Consensus size: 79
44457357 TTGAATGATG
** * *
44457367 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGT-GACT--ATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAG-CTAAATCCGG-TTAA-ATCCCGAAGGCAT
44457427 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* ** *
44457444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATCCCGAAGGCATT
44457508 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTA-AA
* * *
44457525 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCCGAAGG
44457583 TACGTGATTT
Statistics
Matches: 119, Mismatches: 11, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
77 20 0.17
78 11 0.09
79 18 0.15
80 66 0.55
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:44468766 original size:49 final size:49
Alignment explanation
Indices: 44468681--44468815 Score: 165
Period size: 49 Copynumber: 2.9 Consensus size: 49
44468671 CATTCATCAT
* *
44468681 GTGTTCACCTTTTGATTCATGATATTAAAC------TTAATTTTATACA
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
* * * * *
44468724 GTGTTGAGCTTTTGATTCATGATATTGAATTTAATTTTAATTTTATAAA
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
44468773 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTT
1 GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTT
44468816 GTTTTTTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
43 26 0.34
49 50 0.66
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (49 bp):
GTGTTCACCTTTTGATTCATAATATTAAACTTAATTTTAATTTTATAAA
Found at i:44470374 original size:99 final size:99
Alignment explanation
Indices: 44470200--44470380 Score: 310
Period size: 99 Copynumber: 1.8 Consensus size: 99
44470190 TAGATTATAC
44470200 ATTATTTTTATAGCATTACATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTATTTTTATAGCATTACATATTATGATTTTAGTAAATTC--ATAAGAATATTTAATATTAAGA
44470265 ATTTTATTAAATTATATTTAAAAATAATTAATCTAA
64 ATTTTATTAAATTATATTTAAAAATAATTAATCTAA
* *
44470301 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTAATATTAAGAA
1 ATTAT-TTTTATAGCATTACATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTAAGAA
44470365 TTTTATTAAATTATAT
65 TTTTATTAAATTATAT
44470381 ATTTTTACTA
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
99 38 0.49
101 5 0.06
102 34 0.44
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (99 bp):
ATTATTTTTATAGCATTACATATTATGATTTTAGTAAATTCATAAGAATATTTAATATTAAGAAT
TTTATTAAATTATATTTAAAAATAATTAATCTAA
Found at i:44470399 original size:16 final size:15
Alignment explanation
Indices: 44470378--44470428 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 15
44470368 TATTAAATTA
44470378 TATATTTTTACTAAAT
1 TATATTTTTA-TAAAT
*
44470394 TATATTTTAAT-AAT
1 TATATTTTTATAAAT
*
44470408 TAT-TATTT-TAAAT
1 TATATTTTTATAAAT
44470421 TATATTTT
1 TATATTTT
44470429 ATAGTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 1 0.03
13 9 0.31
14 9 0.31
15 1 0.03
16 9 0.31
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
TATATTTTTATAAAT
Found at i:44470414 original size:15 final size:13
Alignment explanation
Indices: 44470390--44470429 Score: 55
Period size: 12 Copynumber: 3.0 Consensus size: 13
44470380 TATTTTTACT
44470390 AAATTATATTTTA
1 AAATTATATTTTA
44470403 ATAATTATTATTTT-
1 A-AATTA-TATTTTA
44470417 AAATTATATTTTA
1 AAATTATATTTTA
44470430 TAGTATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
14 6 0.25
15 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAATTATATTTTA
Found at i:44470437 original size:15 final size:13
Alignment explanation
Indices: 44470392--44470440 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 13
44470382 TTTTTACTAA
44470392 ATTATATTTTAAT
1 ATTATATTTTAAT
44470405 AATTATTATTTTAA-
1 -ATTA-TATTTTAAT
44470419 ATTATATTTTATAGT
1 ATTATATTTTA-A-T
44470434 ATTATAT
1 ATTATAT
44470441 ATTATGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.23
13 5 0.16
14 4 0.13
15 15 0.48
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTATATTTTAAT
Found at i:44470445 original size:32 final size:31
Alignment explanation
Indices: 44470370--44470445 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 31
44470360 AAGAATTTTA
44470370 TTAA-ATTATATATT-TTTACTAAATTATATT
1 TTAATATTATATATTATTTA-TAAATTATATT
44470400 TTAATA--AT-TATTATTT-TAAATTATATT
1 TTAATATTATATATTATTTATAAATTATATT
44470427 TTATAGTATTATATATTAT
1 TTA-A-TATTATATATTAT
44470446 GATTTTAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
27 14 0.36
28 5 0.13
29 7 0.18
30 4 0.10
31 3 0.08
32 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (31 bp):
TTAATATTATATATTATTTATAAATTATATT
Found at i:44470538 original size:26 final size:26
Alignment explanation
Indices: 44470509--44470665 Score: 80
Period size: 26 Copynumber: 5.5 Consensus size: 26
44470499 TATATTTTTA
44470509 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTTAATAATAATTATT
*
44470535 TTAAATTATATTTTATAGTATTATATATTATGA
1 TTAAATTATA-TTTA-A-TA--ATA-ATTAT-T
** * * *
44470568 TTTTATTATTCATATAAGAATATTTAATAT
1 TTAAATTA-T-ATTTAATAATAATT-AT-T
* * * * *
44470598 TAATAATTTTATTAAATTATATATTTTT
1 TTA-AATTATATTTAATAATA-ATTATT
*
44470626 ATTAAATTATATTTAATAATAATTATG
1 -TTAAATTATATTTAATAATAATTATT
44470653 TTAAATTATATTT
1 TTAAATTATATTT
44470666 TATAGTATTA
Statistics
Matches: 94, Mismatches: 24, Indels: 26
0.65 0.17 0.18
Matches are distributed among these distances:
26 23 0.24
27 8 0.09
28 16 0.17
29 14 0.15
30 9 0.10
31 6 0.06
32 6 0.06
33 7 0.07
34 4 0.04
35 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (26 bp):
TTAAATTATATTTAATAATAATTATT
Found at i:44470621 original size:120 final size:119
Alignment explanation
Indices: 44470266--44470758 Score: 841
Period size: 118 Copynumber: 4.1 Consensus size: 119
44470256 ATATTAAGAA
* * *
44470266 TTTTATTAAATTATATTTAAAAATAATTAATCTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
44470331 TTTAGTAAATTC--TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* *
44470383 TTTTACTAAATTATATTTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATA-TTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
44470448 TTTTAGTAAATTCAGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
65 TTTTAGTAAATTCA-TTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
44470504 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
* *
44470569 TTTA-T-TATTCATATAAGAATATTTAATATTAATAATTTTATTAAATTATATAT
66 TTTAGTAAATTCAT-TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
44470622 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
*
44470687 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCAT-TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
44470742 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
44470759 ATATTTAATA
Statistics
Matches: 356, Mismatches: 13, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
117 15 0.04
118 170 0.48
119 1 0.00
120 116 0.33
121 54 0.15
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (119 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:44470625 original size:18 final size:18
Alignment explanation
Indices: 44470591--44470637 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
44470581 ATAAGAATAT
44470591 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
44470609 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
44470627 TTAAATTATAT
1 TTAAATTATAT
44470638 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:44470684 original size:238 final size:238
Alignment explanation
Indices: 44470266--44470758 Score: 841
Period size: 238 Copynumber: 2.1 Consensus size: 238
44470256 ATATTAAGAA
44470266 TTTTATTAAATTATATTTAAAAATAATTAATCTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAAAAATAATTAATCTAAATTATATTTTATAGTATTATATATTATGAT
44470331 TTTAGTAAATTCTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTA
66 TTTAGTAAATTCTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTA
* * *
44470396 TATTTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC
131 TATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTC
44470461 AGT-TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
196 A-TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
* * *
44470504 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAAAAATAATTAATCTAAATTATATTTTATAGTATTATATATTATGAT
* * *
44470569 TTTA-T-TATTCATATAAGAATATTTAATATTAATAATTTTATTAAATTATATATTTTTATTAAA
66 TTTAGTAAATTC---TAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAA
44470632 TTATA-TTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAA
128 TTATATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAA
44470696 TTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
193 TTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
44470742 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
44470759 ATATTTAATA
Statistics
Matches: 242, Mismatches: 9, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
236 4 0.02
237 2 0.01
238 183 0.76
239 53 0.22
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (238 bp):
TTTTATTAAATTATATTTAAAAATAATTAATCTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTA
TATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTC
ATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:44470833 original size:238 final size:237
Alignment explanation
Indices: 44470266--44470834 Score: 780
Period size: 238 Copynumber: 2.4 Consensus size: 237
44470256 ATATTAAGAA
*
44470266 TTTTATTAAATTATATTTAAAAATAATTAAT-CTAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAATAATAATT-ATGCTAAATTATA-TTTATAG-ATTATATATTATGA
* * *
44470330 TTTTAGTAA--ATTCTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAA
63 TATTAATAATCA-TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAA
* * *
44470393 TTATATTTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAA
127 TTATATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAA
44470458 TTCAGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
192 TTCAGTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
**
44470504 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGCTAAATTATA-TTTATAG-ATTATATATTATGAT
* * * * *
44470569 TTTATTATTCATATAAGAATATTTAATATTAATAATTTTATTAAATTATATATTTTTATTAAATT
64 ATTAATAATCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATT
44470634 ATA-TTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATT
129 ATATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATT
44470698 CA-TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
194 CAGT-TAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
*
44470742 TTTTATTAAATTATATTATATTTAATAATAATTATGCTAAATTATGA-TTA-A-ATTATTTATTA
1 TTTTATT--A--A-ATTATATTTAATAATAATTATGCTAAATTAT-ATTTATAGATTATATATTA
* * *
44470804 TTTATATTAATAATCTTATTA-AA-ATTTAATA
60 -TGATATTAATAATCATATAAGAATATTTAATA
44470835 ACAATAACAA
Statistics
Matches: 301, Mismatches: 19, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
237 3 0.01
238 181 0.60
239 66 0.22
240 16 0.05
241 1 0.00
242 4 0.01
243 29 0.10
244 1 0.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (237 bp):
TTTTATTAAATTATATTTAATAATAATTATGCTAAATTATATTTATAGATTATATATTATGATAT
TAATAATCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTAT
ATTTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCA
GTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:44471005 original size:45 final size:44
Alignment explanation
Indices: 44470922--44471017 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 44
44470912 ATTACAACAT
*
44470922 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
*
44470966 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTC
44471011 CATTACA
1 CATTACA
44471018 CCTCTATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.44
45 26 0.54
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
Found at i:44471021 original size:16 final size:16
Alignment explanation
Indices: 44470996--44471033 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
44470986 TTGAATTACT
*
44470996 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
44471012 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
44471028 ATTACA
1 ATTACA
44471034 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:44477503 original size:29 final size:30
Alignment explanation
Indices: 44477466--44477522 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44477456 TCCGAGCCTT
*
44477466 GGGGAAAAA-TGTAATTATGTAAAAGTTTA
1 GGGGAAAAATTGTAATTATGAAAAAGTTTA
* *
44477495 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAATTGTAATTATGAAAAAGTT
44477523 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGAAAAATTGTAATTATGAAAAAGTTTA
Found at i:44477752 original size:13 final size:13
Alignment explanation
Indices: 44477734--44477765 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44477724 TTTCCAGCAA
44477734 TTATGAATTTATT
1 TTATGAATTTATT
44477747 TTATGAATTTATT
1 TTATGAATTTATT
*
44477760 TGATGA
1 TTATGA
44477766 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:44478019 original size:49 final size:50
Alignment explanation
Indices: 44477948--44478088 Score: 169
Period size: 51 Copynumber: 2.8 Consensus size: 50
44477938 TCCATGGCAT
* * *
44477948 GAGACGAGAGGTCCCATGTAAGACCATGT-TGGGACATGGCGTTGGCACC
1 GAGACGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACC
* *
44477997 GAGATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC
1 GAGACGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACC
* ** *
44478047 -ATCACGAGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 GA-GACGAG-AGGTCCCATATAAGACCATGTCTGGGACATGGC
44478089 TTTAGCATGT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 27 0.35
50 22 0.28
51 29 0.37
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.18
Consensus pattern (50 bp):
GAGACGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACC
Found at i:44484727 original size:26 final size:25
Alignment explanation
Indices: 44484692--44484752 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
44484682 AAACTTTTTG
44484692 TATTCATTTTTGAGCCAA-TAGTCTTT
1 TATTC-TTTTTGAG-CAATTAGTCTTT
* *
44484718 TATTCTTTTTGAGTAATTATTCTTT
1 TATTCTTTTTGAGCAATTAGTCTTT
44484743 TATTCTTTTT
1 TATTCTTTTT
44484753 TTTCCACATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.78
26 5 0.16
ACGTcount: A:0.20, C:0.11, G:0.08, T:0.61
Consensus pattern (25 bp):
TATTCTTTTTGAGCAATTAGTCTTT
Found at i:44484784 original size:16 final size:19
Alignment explanation
Indices: 44484763--44484800 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
44484753 TTTCCACATC
44484763 ATTCAT-AA-TCATAT-TT
1 ATTCATAAATTCATATATT
44484779 ATTCATAAATTCATATATT
1 ATTCATAAATTCATATATT
44484798 ATT
1 ATT
44484801 TGTATATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 6 0.32
19 5 0.26
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTCATAAATTCATATATT
Found at i:44489654 original size:88 final size:88
Alignment explanation
Indices: 44489499--44489671 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 88
44489489 GGTGAAATCT
* * ** *
44489499 TAGCCTTATCTCCCTGAGCAGTAGTGGAGTAAGTTGAATAAAGTAGATCTTGTCTTCCTATATTG
1 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAATAAAGCAGATCTTACCTTCCTATACTG
*
44489564 GCAGCGAAGTAGATCGAAGATAC
66 GCAGCGAAGCAGATCGAAGATAC
* * * *
44489587 TAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAA-AATAGCAGATCTTACCTTCTTGTACT
1 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAATAA-AGCAGATCTTACCTTCCTATACT
*
44489651 GGCAGCGAAGCATATCGAAGA
65 GGCAGCGAAGCAGATCGAAGA
44489672 CACCAGTCTT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
87 2 0.03
88 71 0.97
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (88 bp):
TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAATAAAGCAGATCTTACCTTCCTATACTG
GCAGCGAAGCAGATCGAAGATAC
Found at i:44489948 original size:50 final size:50
Alignment explanation
Indices: 44489866--44490048 Score: 152
Period size: 50 Copynumber: 3.7 Consensus size: 50
44489856 GTAGGGGAAC
* * * **
44489866 AGATTAAAGTCACAACGACGAATCTTGTTTCCCCGACATTGTAGTTAAAT
1 AGATTGAAGCCACAACGTCGAATCTTACTTCCCCGACATTGTAGTTAAAT
* * * **** ***
44489916 AGATTGAAGCCACAACGTCAAATTTTACTTCCCTGGTGGTGTAGGGGAAT
1 AGATTGAAGCCACAACGTCGAATCTTACTTCCCCGACATTGTAGTTAAAT
* * * *
44489966 AGATTGAAGCTACGACGAT-GAATCTTATTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCCACAACG-TCGAATCTTACTTCCCCGACATTGTAGTTAAAT
* * *
44490016 AAATTGAAGCCACAATGGCGAATCTTACTTCCC
1 AGATTGAAGCCACAACGTCGAATCTTACTTCCC
44490049 TGGTGGTGTA
Statistics
Matches: 96, Mismatches: 35, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
50 95 0.99
51 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCCACAACGTCGAATCTTACTTCCCCGACATTGTAGTTAAAT
Found at i:44490072 original size:50 final size:50
Alignment explanation
Indices: 44489940--44490245 Score: 258
Period size: 50 Copynumber: 6.0 Consensus size: 50
44489930 ACGTCAAATT
* * *
44489940 TTACTTCCCTGGTGGTGTAGGGGAATAGATTGAAGCTACGACGATGAATC
1 TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATC
* * **** * ** * * * * * *
44489990 TTATTTCCCCGACATTGCAGTTAAATAAATTGAAGCCACAATGGCGAATC
1 TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATC
44490040 TTACTTCCCTGGTGGTGTAAG-GGAACAGATTGAAGCTACGACGGTGAATC
1 TTACTTCCCTGGTGGTGT-AGTGGAACAGATTGAAGCTACGACGGTGAATC
44490090 TTGTTTACTTCCCTGGTGGTGTAAG-GGAACAGATTGAAGCTACGACGGTGAATC
1 ----TTACTTCCCTGGTGGTGT-AGTGGAACAGATTGAAGCTACGACGGTGAATC
** * **** ** * *
44490144 TTGTTTCCCCGACATTGTAGTTAAATAGATTGAAG-TCACAACGGTGAATC
1 TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCT-ACGACGGTGAATC
*
44490194 TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATC
1 TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATC
44490244 TT
1 TT
44490246 GTTTCCCTCA
Statistics
Matches: 194, Mismatches: 54, Indels: 16
0.73 0.20 0.06
Matches are distributed among these distances:
49 3 0.02
50 138 0.71
51 3 0.02
54 50 0.26
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATC
Found at i:44490079 original size:100 final size:100
Alignment explanation
Indices: 44489813--44490091 Score: 389
Period size: 100 Copynumber: 2.8 Consensus size: 100
44489803 ATTACAGTGG
* * * * *
44489813 AATAGATTGAAGCCGCAACAGCAAATCTTACTTCCTTGGCGGTGTAGGGGAACAGATTAAAG-TC
1 AATAGATTGAAGCCACAACGGCAAATCTTACTTCCCTGGTGGTGTAGGGGAACAGATTGAAGCT-
* * * *
44489877 ACAACGACGAATCTTGTTTCCCCGACATTGTAGTTA
65 ACGACGATGAATCTTATTTCCCCGACATTGCAGTTA
* * *
44489913 AATAGATTGAAGCCACAACGTCAAATTTTACTTCCCTGGTGGTGTAGGGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCAAATCTTACTTCCCTGGTGGTGTAGGGGAACAGATTGAAGCTA
44489978 CGACGATGAATCTTATTTCCCCGACATTGCAGTTA
66 CGACGATGAATCTTATTTCCCCGACATTGCAGTTA
* * * *
44490013 AATAAATTGAAGCCACAATGGCGAATCTTACTTCCCTGGTGGTGTAAGGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCAAATCTTACTTCCCTGGTGGTGTAGGGGAACAGATTGAAGCTA
*
44490078 CGACGGTGAATCTT
66 CGACGATGAATCTT
44490092 GTTTACTTCC
Statistics
Matches: 158, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
100 157 0.99
101 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGCAAATCTTACTTCCCTGGTGGTGTAGGGGAACAGATTGAAGCTA
CGACGATGAATCTTATTTCCCCGACATTGCAGTTA
Found at i:44490108 original size:54 final size:54
Alignment explanation
Indices: 44490040--44490249 Score: 235
Period size: 54 Copynumber: 4.0 Consensus size: 54
44490030 ATGGCGAATC
44490040 TTACTTCCCTGGTGGTGTAAG-GGAACAGATTGAAGCTACGACGGTGAATCTTGT
1 TTACTTCCCTGGTGGTGT-AGTGGAACAGATTGAAGCTACGACGGTGAATCTTGT
44490094 TTACTTCCCTGGTGGTGTAAG-GGAACAGATTGAAGCTACGACGGTGAATCTTGT
1 TTACTTCCCTGGTGGTGT-AGTGGAACAGATTGAAGCTACGACGGTGAATCTTGT
**** ** * *
44490148 TT-C--CCC-GACATTGTAGTTAAATAGATTGAAG-TCACAACGGTGAATC----
1 TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCT-ACGACGGTGAATCTTGT
*
44490194 TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGT
1 TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGT
44490248 TT
1 TT
44490250 CCCTCACATT
Statistics
Matches: 128, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
49 6 0.05
50 56 0.44
51 4 0.03
53 1 0.01
54 58 0.45
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (54 bp):
TTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGT
Found at i:44490129 original size:154 final size:154
Alignment explanation
Indices: 44489939--44490249 Score: 516
Period size: 154 Copynumber: 2.0 Consensus size: 154
44489929 AACGTCAAAT
* *
44489939 TTTACTTCCCTGGTGGTGTAGGGGAATAGATTGAAGCTACGACGATGAATCTTATTTCCCCGACA
1 TTTACTTCCCTGGTGGTGTAAGGGAACAGATTGAAGCTACGACGATGAATCTTATTTCCCCGACA
*
44490004 TTGCAGTTAAATAAATTGAAGCCACAATGGCGAATCTTACTTCCCTGGTGGTGTAAG-GGAACAG
66 TTGCAGTTAAATAAATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGT-AGTGGAACAG
*
44490068 ATTGAAGCTACGACGGTGAATCTTG
130 ATTGAAGCTACGACGGCGAATCTTG
* *
44490093 TTTACTTCCCTGGTGGTGTAAGGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACA
1 TTTACTTCCCTGGTGGTGTAAGGGAACAGATTGAAGCTACGACGATGAATCTTATTTCCCCGACA
* * * *
44490158 TTGTAGTTAAATAGATTGAAGTCACAACGGTGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGA
66 TTGCAGTTAAATAAATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGA
44490223 TTGAAGCTACGACGGCGAATCTTG
131 TTGAAGCTACGACGGCGAATCTTG
44490247 TTT
1 TTT
44490250 CCCTCACATT
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
153 2 0.01
154 144 0.99
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (154 bp):
TTTACTTCCCTGGTGGTGTAAGGGAACAGATTGAAGCTACGACGATGAATCTTATTTCCCCGACA
TTGCAGTTAAATAAATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGA
TTGAAGCTACGACGGCGAATCTTG
Found at i:44490233 original size:100 final size:100
Alignment explanation
Indices: 44490063--44490278 Score: 312
Period size: 100 Copynumber: 2.1 Consensus size: 100
44490053 GGTGTAAGGG
*
44490063 AACAGATTGAAG-CTACGACGGTGAATCTTGTTTACTTCCCTGGTGGTGTAAGGGAACAGATTGA
1 AACAGATTGAAGTC-ACAACGGTGAATC----TTACTTCCCTGGTGGTGTAAGGGAACAGATTGA
* *
44490127 AGCTACGACGGTGAATCTTGTTTCCC-CGACATTGTAGTTA
61 AGCTACGACGGCGAATCTTGTTTCCCTC-ACATTGCAGTTA
*
44490167 AATAGATTGAAGTCACAACGGTGAATCTTACTTCCCTGGTGGTGT-AGTGGAACAGATTGAAGCT
1 AACAGATTGAAGTCACAACGGTGAATCTTACTTCCCTGGTGGTGTAAG-GGAACAGATTGAAGCT
44490231 ACGACGGCGAATCTTGTTTCCCTCACATTGCAGTTA
65 ACGACGGCGAATCTTGTTTCCCTCACATTGCAGTTA
44490267 AACAGATTGAAG
1 AACAGATTGAAG
44490279 ATGGTAAGTC
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
99 2 0.02
100 77 0.74
101 1 0.01
104 23 0.22
105 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
AACAGATTGAAGTCACAACGGTGAATCTTACTTCCCTGGTGGTGTAAGGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCTCACATTGCAGTTA
Found at i:44490271 original size:50 final size:50
Alignment explanation
Indices: 44489966--44490278 Score: 186
Period size: 50 Copynumber: 6.2 Consensus size: 50
44489956 GTAGGGGAAT
* * * *
44489966 AGATTGAAGCTACGACGATGAATCTTATTTCCC-CGACATTGCAGTTAAAT
1 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCTC-ACATTGTAGTTAAAC
* * * * * ** ***** **
44490016 AAATTGAAGCCACAATGGCGAATCTTACTTCCCTGGTGGTGTAAG-GGAAC
1 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCTCACATTGT-AGTTAAAC
* * * * *
44490066 AGATTGAAGCTACGACGGTGAATCTTGTTTACTTC-CCTGGTGGTGTAAGGGAAC
1 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCTCACATTGTAGT-T-A---AAC
*
44490120 AGATTGAAGCTACGACGGTGAATCTTGTTTCCC-CGACATTGTAGTTAAAT
1 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCTC-ACATTGTAGTTAAAC
* ** ***** **
44490170 AGATTGAAG-TCACAACGGTGAATCTTACTTCCCTGGTGGTGTAGTGGAAC
1 AGATTGAAGCT-ACGACGGTGAATCTTGTTTCCCTCACATTGTAGTTAAAC
* *
44490220 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCTCACATTGCAGTTAAAC
1 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCTCACATTGTAGTTAAAC
44490270 AGATTGAAG
1 AGATTGAAG
44490279 ATGGTAAGTC
Statistics
Matches: 188, Mismatches: 62, Indels: 26
0.68 0.22 0.09
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 138 0.73
51 3 0.02
53 2 0.01
54 35 0.19
55 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGTGAATCTTGTTTCCCTCACATTGTAGTTAAAC
Found at i:44490347 original size:44 final size:42
Alignment explanation
Indices: 44490290--44490482 Score: 178
Period size: 44 Copynumber: 4.5 Consensus size: 42
44490280 TGGTAAGTCT
*
44490290 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATGATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA-CC-ATGATCC
* * *
44490334 TATCTCTCTGAAGTTGCAGTGGAG-TGAGTTAAAACCTTAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGA-TT-AAACCAT-GATCC
* * *
44490378 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA--ATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTA-AACCATGATCC
* * **
44490419 TATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAATGATGAATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAACCATG-ATCC
44490463 TATAC-CTCTGAAGTTGCAGT
1 TAT-CTCTCTGAAGTTGCAGT
44490483 AGGTCGGATT
Statistics
Matches: 121, Mismatches: 18, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
41 31 0.26
42 1 0.01
43 4 0.03
44 79 0.65
45 6 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAACCATGATCC
Found at i:44490472 original size:85 final size:86
Alignment explanation
Indices: 44490290--44490484 Score: 229
Period size: 85 Copynumber: 2.3 Consensus size: 86
44490280 TGGTAAGTCT
* * * *
44490290 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATGATCCTATCTCTCTGAAGTTGCAGTG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCAA-GATCCTATCTCCCTGAAGTTGCAGTG
* *
44490355 GAGTGAGTTAAAACCTTAGATCT
65 GAGTGAGTTAAAA-CTGAGATCC
* *
44490378 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC-A-ATCCTATCTCCCTGAAGTTGCAGTGG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCAAGATCCTATCTCCCTGAAGTTGCAGTGG
44490441 AGCTGA-TTAAAA-TGATGAATCC
66 AG-TGAGTTAAAACTGA-G-ATCC
44490463 TATAC-CTCTGAAGTTGCAGTAG
1 TAT-CTCTCTGAAGTTGCAGTAG
44490485 GTCGGATTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
83 2 0.02
84 1 0.01
85 56 0.59
86 4 0.04
87 1 0.01
88 31 0.33
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (86 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCAAGATCCTATCTCCCTGAAGTTGCAGTGG
AGTGAGTTAAAACTGAGATCC
Found at i:44491120 original size:21 final size:21
Alignment explanation
Indices: 44491087--44491143 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
44491077 AACCGCCCCA
44491087 ACGTCGCCCCCGCACGTTGCGC
1 ACGTCG-CCCCGCACGTTGCGC
44491109 ACGTCGCCCCGCACGTTGCGC
1 ACGTCGCCCCGCACGTTGCGC
44491130 ACGTCGCCCCGCAC
1 ACGTCGCCCCGCAC
44491144 CCACCATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 29 0.83
22 6 0.17
ACGTcount: A:0.11, C:0.51, G:0.26, T:0.12
Consensus pattern (21 bp):
ACGTCGCCCCGCACGTTGCGC
Found at i:44491389 original size:21 final size:22
Alignment explanation
Indices: 44491365--44491405 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
44491355 TTCCTTTCAT
44491365 TTTTTCTTCG-TACATTTTTCC
1 TTTTTCTTCGTTACATTTTTCC
* *
44491386 TTTTTTTTCGTTTCATTTTT
1 TTTTTCTTCGTTACATTTTT
44491406 TATGATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.07, C:0.17, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTTCTTCGTTACATTTTTCC
Found at i:44491389 original size:22 final size:22
Alignment explanation
Indices: 44491359--44491405 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
44491349 ATTTTTTTCC
44491359 TTTCATTTTTTCTTCG-TACATT
1 TTTCATTTTTT-TTCGTTACATT
* *
44491381 TTTCCTTTTTTTTCGTTTCATT
1 TTTCATTTTTTTTCGTTACATT
44491403 TTT
1 TTT
44491406 TATGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.09, C:0.17, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTCATTTTTTTTCGTTACATT
Found at i:44491416 original size:34 final size:37
Alignment explanation
Indices: 44491350--44491425 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
44491340 AGGTGGTTCA
* *
44491350 TTTTTTTCCTTTCATTTTTTCTTCGTACATTTTTCCT
1 TTTTTTTCCTTTCATTTTTTCATCGTACATTTTTACT
* *
44491387 TTTTTTTCGTTTCATTTTTT-AT-G-ATATTTTTACT
1 TTTTTTTCCTTTCATTTTTTCATCGTACATTTTTACT
44491421 TTTTT
1 TTTTT
44491426 AAAAAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 14 0.40
35 1 0.03
36 1 0.03
37 19 0.54
ACGTcount: A:0.11, C:0.14, G:0.04, T:0.71
Consensus pattern (37 bp):
TTTTTTTCCTTTCATTTTTTCATCGTACATTTTTACT
Found at i:44502587 original size:18 final size:19
Alignment explanation
Indices: 44502557--44502592 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
44502547 TAAAATTCGA
44502557 AATAAATAATTAATAAATT
1 AATAAATAATTAATAAATT
44502576 AATAAA-AATTAATAAAT
1 AATAAATAATTAATAAAT
44502593 ACAATATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAATAATTAATAAATT
Found at i:44506724 original size:40 final size:40
Alignment explanation
Indices: 44506669--44506751 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
44506659 TGCACAATTC
44506669 TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
1 TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
44506709 TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
1 TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
44506749 TGT
1 TGT
44506752 GCTGGACAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (40 bp):
TGTCTGTGTATCCAACTTAGTGGCATTCTTATCTAGAACA
Found at i:44521319 original size:13 final size:13
Alignment explanation
Indices: 44521301--44521325 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44521291 ATTTATGATG
44521301 TCAAGTTCAATTT
1 TCAAGTTCAATTT
44521314 TCAAGTTCAATT
1 TCAAGTTCAATT
44521326 ACCCATTGGG
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:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:44524776 original size:28 final size:25
Alignment explanation
Indices: 44524729--44524795 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 25
44524719 ATCACTTGTA
*
44524729 TAATAACATATATATTGATTC-ATT
1 TAATAAAATATATATTGATTCAATT
44524753 TCAATAAAATCATATATTAAGATTCAATT
1 T-AATAAAAT-ATATATT--GATTCAATT
44524782 TAATCAAAAT-TATA
1 TAAT-AAAATATATA
44524796 CATAATAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 1 0.03
25 7 0.19
26 7 0.19
27 4 0.11
28 8 0.22
29 9 0.25
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (25 bp):
TAATAAAATATATATTGATTCAATT
Found at i:44525012 original size:5 final size:5
Alignment explanation
Indices: 44525004--44525039 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
44524994 AACCTTTTGT
44525004 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
44525040 CAAATTACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:44532723 original size:40 final size:40
Alignment explanation
Indices: 44532666--44532949 Score: 408
Period size: 40 Copynumber: 7.1 Consensus size: 40
44532656 AACTATTAGT
* * * * *
44532666 TTCAGGGTTACCAAAGTACAAATAGGGGAACGTATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
* *
44532706 TTCAGGGGTATCGAAGTACAAATAGGGGCACATATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
*
44532746 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
* * *
44532786 TTCAAGGGTACCGACGTTCAAACAGGGGCACATATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
*
44532826 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
* * *
44532866 TTCAAGGGTATCGACA-TTCAAACAGGGGCACATATGTGCA
1 TTCAGGGGTACCGA-AGTACAAACAGGGGCACATATGTGCA
*
44532906 TTCAGGGGTACCGAAGAACAAACAGGGGCACATATGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
44532946 TTCA
1 TTCA
44532950 ACAATAATTA
Statistics
Matches: 218, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
39 1 0.00
40 216 0.99
41 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (40 bp):
TTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
Found at i:44532752 original size:20 final size:20
Alignment explanation
Indices: 44532729--44532869 Score: 93
Period size: 20 Copynumber: 7.0 Consensus size: 20
44532719 AAGTACAAAT
*
44532729 AGGGGCACATATGTGCATTC
1 AGGGGCACCTATGTGCATTC
* * * * **
44532749 AGGGGTACCGAAGTACAAAC
1 AGGGGCACCTATGTGCATTC
44532769 AGGGGCACCTATGTGCATTC
1 AGGGGCACCTATGTGCATTC
* * * * * **
44532789 AAGGGTACCGACGTTCAAAC
1 AGGGGCACCTATGTGCATTC
*
44532809 AGGGGCACATATGTGCATTC
1 AGGGGCACCTATGTGCATTC
* * * * **
44532829 AGGGGTACCGAAGTACAAAC
1 AGGGGCACCTATGTGCATTC
44532849 AGGGGCACCTATGTGCATTC
1 AGGGGCACCTATGTGCATTC
44532869 A
1 A
44532870 AGGGTATCGA
Statistics
Matches: 80, Mismatches: 41, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (20 bp):
AGGGGCACCTATGTGCATTC
Found at i:44532813 original size:80 final size:80
Alignment explanation
Indices: 44532666--44532950 Score: 453
Period size: 80 Copynumber: 3.6 Consensus size: 80
44532656 AACTATTAGT
* * * * * * * * *
44532666 TTCAGGGTTACCAAAGTACAAATAGGGGAACGTATGTGCATTCAGGGGTATCGAAGTACAAATAG
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTCAAGGGTATCGACGTTCAAACAG
44532731 GGGCACATATGTGCA
66 GGGCACATATGTGCA
*
44532746 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTCAAGGGTACCGACGTTCAAACAG
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTCAAGGGTATCGACGTTCAAACAG
44532811 GGGCACATATGTGCA
66 GGGCACATATGTGCA
*
44532826 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTCAAGGGTATCGACATTCAAACAG
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTCAAGGGTATCGACGTTCAAACAG
44532891 GGGCACATATGTGCA
66 GGGCACATATGTGCA
* *
44532906 TTCAGGGGTACCGAAGAACAAACAGGGGCACATATGTGCATTCAA
1 TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTCAA
44532951 CAATAATTAT
Statistics
Matches: 191, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 191 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (80 bp):
TTCAGGGGTACCGAAGTACAAACAGGGGCACCTATGTGCATTCAAGGGTATCGACGTTCAAACAG
GGGCACATATGTGCA
Found at i:44539243 original size:80 final size:80
Alignment explanation
Indices: 44539138--44539306 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 80
44539128 CAGGGTCACA
* * * * * *
44539138 TATGTGCATTCATGGGTACCGAAGTACAAACAGGGGCATGTATGTGTATTCAGGGGTACCGAAGT
1 TATGTGCATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATATGCATTCAGGGGTACCGAAGA
* *
44539203 ACAAATAGGGGCATG
66 ACAAATAGCGACATG
* *
44539218 TATGTGCATTCAAGGGTATCAAAGTACAAACAGGGGCACGTATATGCATTCAGGGGTACTGAAGA
1 TATGTGCATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATATGCATTCAGGGGTACCGAAGA
*
44539283 ATAAATAGCGACATG
66 ACAAATAGCGACATG
44539298 TATGTGCAT
1 TATGTGCAT
44539307 ACAACAAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (80 bp):
TATGTGCATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATATGCATTCAGGGGTACCGAAGA
ACAAATAGCGACATG
Found at i:44539306 original size:40 final size:40
Alignment explanation
Indices: 44539122--44539306 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
44539112 GTTACCAAAT
* ** *
44539122 TACAAACAGGGTCACATATGTGCATTCATGGGTACCGAAG
1 TACAAACAGGGGCATGTATGTGCATTCAGGGGTACCGAAG
*
44539162 TACAAACAGGGGCATGTATGTGTATTCAGGGGTACCGAAG
1 TACAAACAGGGGCATGTATGTGCATTCAGGGGTACCGAAG
* * * *
44539202 TACAAATAGGGGCATGTATGTGCATTCAAGGGTATCAAAG
1 TACAAACAGGGGCATGTATGTGCATTCAGGGGTACCGAAG
* * *
44539242 TACAAACAGGGGCACGTATATGCATTCAGGGGTACTGAAG
1 TACAAACAGGGGCATGTATGTGCATTCAGGGGTACCGAAG
* * * * *
44539282 AATAAATAGCGACATGTATGTGCAT
1 TACAAACAGGGGCATGTATGTGCAT
44539307 ACAACAAAAA
Statistics
Matches: 121, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.23
Consensus pattern (40 bp):
TACAAACAGGGGCATGTATGTGCATTCAGGGGTACCGAAG
Found at i:44549018 original size:10 final size:10
Alignment explanation
Indices: 44548986--44549042 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
44548976 CCTTTGTGCT
*
44548986 AATTAATTAA
1 AATTAATCAA
*
44548996 AAATAATCAA
1 AATTAATCAA
44549006 AATTAATCAA
1 AATTAATCAA
44549016 AATTTGAAT-AA
1 AA-TT-AATCAA
*
44549027 AATTAATTAA
1 AATTAATCAA
44549037 AATTAA
1 AATTAA
44549043 ACATATTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 3 0.07
10 29 0.71
11 6 0.15
12 3 0.07
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (10 bp):
AATTAATCAA
Found at i:44553803 original size:25 final size:24
Alignment explanation
Indices: 44553749--44553804 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
44553739 TTAATCAGTA
* *
44553749 TAAAATATTAATAATTCAATAATT
1 TAAAATATTAATAATTAAATAAAT
44553773 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATT-AATAATTAAAT-AAAT
44553799 TAAAAT
1 TAAAAT
44553805 TTAGGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAATATTAATAATTAAATAAAT
Found at i:44554488 original size:16 final size:15
Alignment explanation
Indices: 44554463--44554497 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
44554453 AAAGTTGATA
*
44554463 ATAATTAATATATATT
1 ATAATAAATATA-ATT
44554479 ATAATAAATATAATT
1 ATAATAAATATAATT
44554494 ATAA
1 ATAA
44554498 ACTAGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:44558237 original size:30 final size:29
Alignment explanation
Indices: 44558203--44558287 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
44558193 AGAATCAGTT
** * *
44558203 TGGGCCTGAGCCTTATACAGGAGCAGTGTG
1 TGGGCCT-AGCCCAATACAGGAACAGAGTG
*
44558233 TGGGCCATAGCCCAATACAGTAACAGAGTG
1 TGGGCC-TAGCCCAATACAGGAACAGAGTG
*
44558263 TGGGCCTTAGCCCAATACAGTAACA
1 TGGGCC-TAGCCCAATACAGGAACA
44558288 ATGCAAATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 47 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (29 bp):
TGGGCCTAGCCCAATACAGGAACAGAGTG
Found at i:44558430 original size:26 final size:26
Alignment explanation
Indices: 44558401--44558466 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
44558391 AATATTGCAA
* * *
44558401 CAAAGCTGCAAGTAATAGTGACGCAG
1 CAAAGCTGCCAGTAACAGTAACGCAG
*
44558427 CAAAGCTGCCAGTAACAGTAATGCAG
1 CAAAGCTGCCAGTAACAGTAACGCAG
*
44558453 CAGAGCTGCCAGTA
1 CAAAGCTGCCAGTA
44558467 CTACCAGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTAACGCAG
Found at i:44558680 original size:27 final size:27
Alignment explanation
Indices: 44558659--44559060 Score: 354
Period size: 27 Copynumber: 14.9 Consensus size: 27
44558649 CATTTCATCT
*
44558659 CATAG-GGGTATTTTGGTAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* * *
44558685 CATCGAGGGTATTTTGGTAATTTCACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
44558712 CATTA-AGGGTATTTCACTAATTTTACC
1 CA-TAGAGGGTATTTTAGTAATTTTACC
* * *
44558739 CATCGAGGGTATTTTGGTAATTTCACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
44558766 CATTA-AGGGTATTTCACTAATTTTACC
1 CA-TAGAGGGTATTTTAGTAATTTTACC
*
44558793 CATCGAGGGTATTTTAGTAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
44558820 CATTGAGGGTATTTTAGTAATTTTACT
1 CATAGAGGGTATTTTAGTAATTTTACC
*
44558847 CATCAG-GGGTA-TTTCGATAATTTTACC
1 CAT-AGAGGGTATTTTAG-TAATTTTACC
* * * *
44558874 CTTCGAGGGTATTTCAATAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
*
44558901 CATCGAGGGTATTTTAGTAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
44558928 CATCAGA-GGTA-TTTCGATAAATTTACC
1 CAT-AGAGGGTATTTTAG-TAATTTTACC
* * * *
44558955 CTTCGAGGGTATTTTGGTCATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* * * *
44558982 TATCGGGGGTA-TTTCGATAATTTTACC
1 CATAGAGGGTATTTTAG-TAATTTTACC
* * *
44559009 CATCGAGGGTATTTCAATAATTTTACC
1 CATAGAGGGTATTTTAGTAATTTTACC
* *
44559036 TATCA-AGGGTATTTCAGTAATTTTA
1 CAT-AGAGGGTATTTTAGTAATTTTA
44559061 GAGGCCCATT
Statistics
Matches: 306, Mismatches: 54, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
26 21 0.07
27 272 0.89
28 13 0.04
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (27 bp):
CATAGAGGGTATTTTAGTAATTTTACC
Found at i:44558709 original size:54 final size:53
Alignment explanation
Indices: 44558659--44559060 Score: 428
Period size: 54 Copynumber: 7.5 Consensus size: 53
44558649 CATTTCATCT
*** *
44558659 CATAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTCACC
1 CATAGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC
* * *
44558712 CATTAAGGGTATTTCACTAATTTTACCCATCGAGGGTATTTTGGTAATTTCACC
1 CA-TAGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC
* * *
44558766 CATTAAGGGTATTTCACTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
1 CA-TAGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC
* * * * * *
44558820 CATTGAGGGTATTTTAGTAATTTTACTCATC-AGGGGTATTTCGATAATTTTACC
1 CATAG-GGGTATTTCAATAATTTTACCCATCGA-GGGTATTTTGGTAATTTTACC
* * *
44558874 CTTCGAGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
1 CATAG-GGGTATTTCAATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC
* * * * *
44558928 CATCAGAGGTATTTCGATAAATTTACCCTTCGAGGGTATTTTGGTCATTTTACC
1 CAT-AGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC
* * * ***
44558982 TATCGGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAATAATTTTACC
1 CAT-AGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC
* * *
44559036 TATCAAGGGTATTTCAGTAATTTTA
1 CAT-AGGGGTATTTCAATAATTTTA
44559061 GAGGCCCATT
Statistics
Matches: 301, Mismatches: 43, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
53 4 0.01
54 295 0.98
55 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (53 bp):
CATAGGGGTATTTCAATAATTTTACCCATCGAGGGTATTTTGGTAATTTTACC
Found at i:44558775 original size:81 final size:81
Alignment explanation
Indices: 44558664--44559060 Score: 469
Period size: 81 Copynumber: 4.9 Consensus size: 81
44558654 CATCTCATAG
* * * * * *
44558664 GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTCACCCATTAAGGGTATTTCAC
1 GGGTATTTTGGTAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATTGAGGGTATTTCAG
44558729 TAATTTTACCCATCGA
66 TAATTTTACCCATCGA
* * * *
44558745 GGGTATTTTGGTAATTTCACCCATTAAGGGTATTTC-ACTAATTTTACCCATCGAGGGTATTTTA
1 GGGTATTTTGGTAATTTTACCCATCAAGGGTATTTCGA-TAATTTTACCCATTGAGGGTATTTCA
*
44558809 GTAATTTTACCCATTGA
65 GTAATTTTACCCATCGA
* * *
44558826 GGGTATTTTAGTAATTTTACTCATCAGGGGTATTTCGATAATTTTACCC-TTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATT-GAGGGTATTTCA
*
44558890 ATAATTTTACCCATCGA
65 GTAATTTTACCCATCGA
* * *
44558907 GGGTATTTTAGTAATTTTACCCATC-AGAGGTATTTCGATAAATTTACCC-TTCGAGGGTATTTT
1 GGGTATTTTGGTAATTTTACCCATCAAG-GGTATTTCGATAATTTTACCCATT-GAGGGTATTTC
* * * *
44558970 GGTCATTTTACCTATCGG
64 AGTAATTTTACCCATCGA
* * * * * **
44558988 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAATAATTTTACCTATCAAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATTGAGGGTATTTCAG
44559053 TAATTTTA
66 TAATTTTA
44559061 GAGGCCCATT
Statistics
Matches: 270, Mismatches: 40, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.01
81 264 0.98
82 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATTGAGGGTATTTCAG
TAATTTTACCCATCGA
Found at i:44564980 original size:16 final size:16
Alignment explanation
Indices: 44564954--44564995 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
44564944 TAACCCAAAC
44564954 TAAATTGAATTAAAATTA
1 TAAATT-AATT-AAATTA
*
44564972 -AAATTAATTATATTA
1 TAAATTAATTAAATTA
44564987 TAAATTAAT
1 TAAATTAAT
44564996 ACACATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TAAATTAATTAAATTA
Found at i:44565173 original size:22 final size:22
Alignment explanation
Indices: 44565129--44565174 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
44565119 CGAAAAAAAT
**
44565129 TAAAATTAATAAAAATTTGATA
1 TAAAATTAATAAAAATTCAATA
*
44565151 TAAAATTAATTAAAATTCAATA
1 TAAAATTAATAAAAATTCAATA
44565173 TA
1 TA
44565175 TTCATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAATTAATAAAAATTCAATA
Found at i:44568832 original size:26 final size:26
Alignment explanation
Indices: 44568784--44568849 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
44568774 CACGACAGAT
*
44568784 AAAGAAAGCCTTTGTGCCATAATATG
1 AAAGAAAGCCTTTGTGCCATAATATA
* ***
44568810 AAAGAAAGGCTTTGTGGTGTAATATA
1 AAAGAAAGCCTTTGTGCCATAATATA
44568836 AAATGAAAGCCTTT
1 AAA-GAAAGCCTTT
44568850 CTGACAAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 24 0.73
27 9 0.27
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (26 bp):
AAAGAAAGCCTTTGTGCCATAATATA
Found at i:44571234 original size:53 final size:54
Alignment explanation
Indices: 44571143--44571271 Score: 161
Period size: 53 Copynumber: 2.4 Consensus size: 54
44571133 GTTATGATCG
* * * * * *
44571143 AAATACCCCCATAAGGTAGAATGGCCGAAATACACCTATAGGGT-AAATAACCA
1 AAATACCCTCATAGGGTAAAATGACCAAAATACACCTATAAGGTGAAATAACCA
* * * *
44571196 GAATACCCTCATAGGGTAAAATGACCAAAATACCCCTATAAGGTGAAATGACTA
1 AAATACCCTCATAGGGTAAAATGACCAAAATACACCTATAAGGTGAAATAACCA
44571250 AAATACCCTCATAGGGTAAAAT
1 AAATACCCTCATAGGGTAAAAT
44571272 ACTTGATTTG
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
53 36 0.56
54 28 0.44
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.19
Consensus pattern (54 bp):
AAATACCCTCATAGGGTAAAATGACCAAAATACACCTATAAGGTGAAATAACCA
Found at i:44571271 original size:27 final size:27
Alignment explanation
Indices: 44571143--44571271 Score: 129
Period size: 27 Copynumber: 4.8 Consensus size: 27
44571133 GTTATGATCG
* * * * *
44571143 AAATACCCCCATAAGGTAGAATGGCCG
1 AAATACCCTCATAGGGTAAAATGACCA
*
44571170 AAATACACCT-ATAGGGT-AAATAACCA
1 AAATAC-CCTCATAGGGTAAAATGACCA
*
44571196 GAATACCCTCATAGGGTAAAATGACCA
1 AAATACCCTCATAGGGTAAAATGACCA
* * *
44571223 AAATACCC-CTATAAGGTGAAATGACTA
1 AAATACCCTC-ATAGGGTAAAATGACCA
44571250 AAATACCCTCATAGGGTAAAAT
1 AAATACCCTCATAGGGTAAAAT
44571272 ACTTGATTTG
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.04
26 18 0.22
27 59 0.71
28 3 0.04
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATGACCA
Found at i:44584448 original size:9 final size:9
Alignment explanation
Indices: 44584434--44584458 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44584424 TATAGTTTGA
44584434 TATTCGAAT
1 TATTCGAAT
44584443 TATTCGAAT
1 TATTCGAAT
44584452 TATTCGA
1 TATTCGA
44584459 GTTTTCTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:44584543 original size:9 final size:9
Alignment explanation
Indices: 44584526--44584556 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44584516 TCGAGTTGAT
44584526 TCGAATAAC
1 TCGAATAAC
*
44584535 TCGATTAAC
1 TCGAATAAC
44584544 TCGAATAAC
1 TCGAATAAC
44584553 TCGA
1 TCGA
44584557 TTTGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:44585025 original size:62 final size:61
Alignment explanation
Indices: 44584897--44585142 Score: 245
Period size: 62 Copynumber: 4.2 Consensus size: 61
44584887 TTTACCTAAA
* *
44584897 TTAATAATAATTATATTAAAA-ATGTAATTAAATTA---A--ATTA-TTTTATTAAATTGTA-
1 TTAATAATAATTATGTTAAAATATG--ATTAAATTATTTATTATTATTTTTATTAAATTATAT
*
44584952 TT--TAATAATTATGTTAAAATATGATTAAATTATTTATTATGATTTTTATT-AATTCATAT
1 TTAATAATAATTATGTTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATT-ATAT
* * *
44585011 TCTAATAATAATTATATTAAGAT-TGTTATTAAATTA--TA-TATTA-TTTTATTAAATTGTAT
1 T-TAATAATAATTATGTTAAAATATG--ATTAAATTATTTATTATTATTTTTATTAAATTATAT
* *
44585070 TTAATAATAATAATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATAT
1 TTAATAATAATTATGTTAAAATATGATTAAATTATTT-ATTATTATTTTTATTAAATTATAT
44585132 TTAATAATAAT
1 TTAATAATAAT
44585143 CTTATTAAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 35
0.77 0.06 0.17
Matches are distributed among these distances:
52 9 0.06
53 16 0.10
54 3 0.02
55 3 0.02
57 16 0.10
58 27 0.17
59 15 0.09
60 10 0.06
61 8 0.05
62 42 0.27
63 9 0.06
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
TTAATAATAATTATGTTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATTATAT
Found at i:44585071 original size:117 final size:117
Alignment explanation
Indices: 44584897--44585152 Score: 378
Period size: 120 Copynumber: 2.2 Consensus size: 117
44584887 TTTACCTAAA
44584897 TTAATAATAATTATATTAAAAATGTAATTAAATTAAATTATTTTATTAAATTGTATTTAATAAT-
1 TTAATAATAATTATATTAAAAATGTAATTAAATTAAATTATTTTATTAAATTGTATTTAATAATA
44584961 T-ATGTTAAAATATGATTAAATTATTT-ATTATGATTTTTATT-AATTCATAT
66 TAATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATT-ATAT
* * *
44585011 TCTAATAATAATTATATTAAGATTGTTATTAAATTATATATTATTTTATTAAATTGTATTTAATA
1 T-TAATAATAATTATATTAAAAATGTAATTAAATTA-A-ATTATTTTATTAAATTGTATTTAATA
* *
44585076 ATAATAATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATAT
63 AT-ATAATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATAT
44585132 TTAATAATAATCT-TATTAAAA
1 TTAATAATAAT-TATATTAAAA
44585153 TTTAATAAAA
Statistics
Matches: 127, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
114 1 0.01
115 31 0.24
116 1 0.01
117 28 0.22
119 1 0.01
120 42 0.33
121 19 0.15
122 4 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (117 bp):
TTAATAATAATTATATTAAAAATGTAATTAAATTAAATTATTTTATTAAATTGTATTTAATAATA
TAATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATAT
Found at i:44593854 original size:14 final size:15
Alignment explanation
Indices: 44593837--44593873 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
44593827 AGCTGGCAGT
44593837 GAGGAGAAAA-AAGA
1 GAGGAGAAAAGAAGA
44593851 GAGG-GAAAAGAAGA
1 GAGGAGAAAAGAAGA
44593865 GAGGAGAAA
1 GAGGAGAAA
44593874 GAAAAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 12 0.57
15 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
GAGGAGAAAAGAAGA
Found at i:44594078 original size:15 final size:15
Alignment explanation
Indices: 44594058--44594090 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44594048 AACAAAGGGA
*
44594058 AGGAAAGGAGGGAGG
1 AGGAAAGGAGGGAAG
44594073 AGGAAAGGAGGGAAG
1 AGGAAAGGAGGGAAG
44594088 AGG
1 AGG
44594091 GGCGAAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (15 bp):
AGGAAAGGAGGGAAG
Found at i:44594521 original size:41 final size:40
Alignment explanation
Indices: 44594446--44594522 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
44594436 GAGTATGATA
*
44594446 AATTTGAATAATTAATTAGACCCAAAATTATTATTTGAAT
1 AATTTGAATAATTAAATAGACCCAAAATTATTATTTGAAT
*
44594486 AATTTGAATAATTAAATAGGTCCCAAAATTATTATTT
1 AATTTGAATAATTAAATA-GACCCAAAATTATTATTT
44594523 TAGAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 17 0.50
41 17 0.50
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (40 bp):
AATTTGAATAATTAAATAGACCCAAAATTATTATTTGAAT
Found at i:44594584 original size:17 final size:17
Alignment explanation
Indices: 44594530--44594613 Score: 57
Period size: 17 Copynumber: 4.9 Consensus size: 17
44594520 TTTTAGAAAA
44594530 TTTTAAAATTTTA-ATTT
1 TTTTAAAATTTTATA-TT
* *
44594547 TTTTATAACTTTTTTTGATT
1 TTTTA-AA-ATTTTAT-ATT
*
44594567 TTTTTAAATTTTATATT
1 TTTTAAAATTTTATATT
* **
44594584 TTTTAAAA-TATA-AAA
1 TTTTAAAATTTTATATT
44594599 TTTTAAAATTTTATA
1 TTTTAAAATTTTATA
44594614 AATATTCTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
15 9 0.18
16 6 0.12
17 16 0.31
18 7 0.14
19 6 0.12
20 6 0.12
21 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (17 bp):
TTTTAAAATTTTATATT
Found at i:44595346 original size:167 final size:168
Alignment explanation
Indices: 44595069--44595403 Score: 516
Period size: 167 Copynumber: 2.0 Consensus size: 168
44595059 GATAAAATAT
* *
44595069 TTTTTATTGGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTATTA
1 TTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTAATA
*
44595134 ATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATATAG
66 ATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATAGAG
* *
44595199 ATT-AAATCTTAAGTTTCACCATAGTATAAAATACAAAA
131 ATTAAAAT-TTAAGTTTCAACATAGTATAAAAGACAAAA
* * *
44595237 TTTTTATTAGAATAATTTTCTCAAG-AAAAAAATAATG-CAAGTATTTTGATTGAAATATTTAAT
1 TTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAA-CATTTTCATTGAAATATTTAAT
* *
44595300 AATATTTAACTATTTAAACTAACTAATGATAGATG-ATCAAATTATATTAGAAATTAAAGTATAG
65 AATATTTAACTATTTAAACTAACTAATGAAAGA-GAATCAAATTATATTAAAAATTAAAGTATAG
*
44595364 AGATTAAAATTTAAGTTTCAACATAGTATAGAAGACAAAA
129 AGATTAAAATTTAAGTTTCAACATAGTATAAAAGACAAAA
44595404 CTGAAATTTG
Statistics
Matches: 153, Mismatches: 11, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
166 3 0.02
167 122 0.80
168 28 0.18
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (168 bp):
TTTTTATTAGAATAATGTTCTCAAGAAAAAAAATAATGTCAACATTTTCATTGAAATATTTAATA
ATATTTAACTATTTAAACTAACTAATGAAAGAGAATCAAATTATATTAAAAATTAAAGTATAGAG
ATTAAAATTTAAGTTTCAACATAGTATAAAAGACAAAA
Found at i:44595557 original size:16 final size:17
Alignment explanation
Indices: 44595536--44595572 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
44595526 ATGTTTTTTT
44595536 AAATATTTAA-TATATA
1 AAATATTTAAGTATATA
*
44595552 AAATATTTAAGTATATC
1 AAATATTTAAGTATATA
44595569 AAAT
1 AAAT
44595573 GAATTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATATTTAAGTATATA
Found at i:44597939 original size:12 final size:11
Alignment explanation
Indices: 44597919--44597957 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
44597909 GAAAAGGCAG
44597919 AAAACAAAAAAC
1 AAAA-AAAAAAC
44597931 AAAATAAAAAAC
1 AAAA-AAAAAAC
*
44597943 AAAACAAAAAC
1 AAAAAAAAAAC
44597954 AAAA
1 AAAA
44597958 GGCGCAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:44600748 original size:5 final size:5
Alignment explanation
Indices: 44600728--44600776 Score: 82
Period size: 5 Copynumber: 9.8 Consensus size: 5
44600718 ACTAAAAACG
44600728 AAAAT ATAAA- AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
44600777 AATGGCTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 3 0.07
5 36 0.86
6 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:44606890 original size:51 final size:52
Alignment explanation
Indices: 44606835--44607037 Score: 181
Period size: 51 Copynumber: 4.0 Consensus size: 52
44606825 ATGTGAAAAT
* *
44606835 GAAT-GTGAT-GGTCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACC
1 GAATAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
* * * **
44606885 -AGA-A-TGATAGGTCGCATGTGTAGTACTATGTACAGGCTACTATGCATACC
1 GA-ATAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
* * **
44606935 GAATAGCT--TCA-ATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATT
1 GAATAG-TGAT-AGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
* * * *
44606986 GGATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACC
1 GAATAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
44607037 G
1 G
44607038 GTATCATTAA
Statistics
Matches: 118, Mismatches: 24, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
49 5 0.04
50 37 0.31
51 73 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (52 bp):
GAATAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC
Found at i:44606961 original size:101 final size:102
Alignment explanation
Indices: 44606846--44607030 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
44606836 AATGTGATGG
*
44606846 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
44606909 ACTATGTACAGGCTACTATGCATACCGAATAGCTTCAA
65 ACTATGTACAGGCTACTATGCATACCGAATAGCTTCAA
* ***
44606947 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
**
44607012 CTATGTGTAGGCTACTATG
66 CTATGTACAGGCTACTATG
44607031 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGCATACCGAATAGCTTCAA
Found at i:44615149 original size:19 final size:18
Alignment explanation
Indices: 44615109--44615157 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
44615099 TAATTACCAC
* *
44615109 TTTAATCTATCAATTGATT
1 TTTAATCTAT-AATTAACT
44615128 TTTAATCTATAATTCAACT
1 TTTAATCTATAATT-AACT
*
44615147 TTTACTCTATA
1 TTTAATCTATA
44615158 CGCGATTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTAATCTATAATTAACT
Found at i:44615259 original size:13 final size:13
Alignment explanation
Indices: 44615241--44615265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44615231 ATAGCTTCAT
44615241 AAATATTTATTAA
1 AAATATTTATTAA
44615254 AAATATTTATTA
1 AAATATTTATTA
44615266 GTCTGATTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:44620439 original size:26 final size:26
Alignment explanation
Indices: 44620409--44620470 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
44620399 GCTGTAAGTG
* *
44620409 TTTTGAAACTGATACATGCTATGATA
1 TTTTGAAACTGACACATACTATGATA
* *
44620435 TTTTGAAACTGACATATATTATGATA
1 TTTTGAAACTGACACATACTATGATA
*
44620461 TATTGAAACT
1 TTTTGAAACT
44620471 AGTGTGGGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (26 bp):
TTTTGAAACTGACACATACTATGATA
Done.