Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 65
Found at i:8167262 original size:12 final size:12
Alignment explanation
Indices: 8167245--8167272 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8167235 AAAACTAAAT
8167245 AAAATAATATAA
1 AAAATAATATAA
8167257 AAAATAATATAA
1 AAAATAATATAA
8167269 AAAA
1 AAAA
8167273 ATTTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:8167268 original size:22 final size:21
Alignment explanation
Indices: 8167235--8167283 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
8167225 TTAGTTGAAT
* *
8167235 AAAACTAAATAAAATAATATA
1 AAAAATAAATAAAAAAATATA
*
8167256 AAAAATAATATAAAAAAATTTA
1 AAAAATAA-ATAAAAAAATATA
8167278 AAAAAT
1 AAAAAT
8167284 TCCACGTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAATAAATAAAAAAATATA
Found at i:8171331 original size:15 final size:15
Alignment explanation
Indices: 8171311--8171361 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
8171301 ACATTATCCA
*
8171311 CATCTCCACCACCAT
1 CATCTCCACCACCAC
8171326 CATCTCCACCACCAC
1 CATCTCCACCACCAC
*
8171341 CATCTTCACCACCAC
1 CATCTCCACCACCAC
*
8171356 CGTCTC
1 CATCTC
8171362 GGCTTGTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.24, C:0.55, G:0.02, T:0.20
Consensus pattern (15 bp):
CATCTCCACCACCAC
Found at i:8171339 original size:18 final size:18
Alignment explanation
Indices: 8171316--8171356 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8171306 ATCCACATCT
*
8171316 CCACCACCATCATCTCCA
1 CCACCACCATCATCACCA
*
8171334 CCACCACCATCTTCACCA
1 CCACCACCATCATCACCA
8171352 CCACC
1 CCACC
8171357 GTCTCGGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.59, G:0.00, T:0.15
Consensus pattern (18 bp):
CCACCACCATCATCACCA
Found at i:8174267 original size:145 final size:145
Alignment explanation
Indices: 8174036--8174462 Score: 461
Period size: 145 Copynumber: 2.9 Consensus size: 145
8174026 GACGATCAGG
* * * * * *
8174036 CGGCGGATCGGAGAAAATAAGCCAAACAGTTTTTGGTCTCTTGCCGGCGATCAGGATCTCCGATC
1 CGGCAGATCAGAGAAAATAAGCCGAACGGTTTTTGGACT-TTGCCGGCGATCGGGATCTCCGATC
* * * * * *
8174101 AACATTCTGAATGGTCAAAAGTTGCGCGAGACCAGCACAAACAACATACTGAAAATTCAGGACGA
65 AACATTCCGAACGGTCAAAAGTTGCGCGAG-TCAACACGAACAACATACTGAAATTTCAGGACGA
8174166 TCGGACAGTGGAC-G-A
129 TCGGACAGTGGACGGTA
*
8174181 CGGCAGATCAGAGAAAATAAGCCGAACGGTTTTTGGACTATTGCCGGCGTTCGGGATCTCCGATC
1 CGGCAGATCAGAGAAAATAAGCCGAACGGTTTTTGGACT-TTGCCGGCGATCGGGATCTCCGATC
* * * * * * *
8174246 AATATTCCAAACAGTGAAAAGTTGTGTC-ATGTCAACATGAACAGCATACTGAAATTTCAGGACG
65 AACATTCCGAACGGTCAAAAGTTGCG-CGA-GTCAACACGAACAACATACTGAAATTTCAGGACG
*
8174310 AACGGACAGTGGACGGTA
128 ATCGGACAGTGGACGGTA
* * * * * *
8174328 -GTG-A-ATCAGAGAAAATAAATCCGGACGGTTTTTGGCCTTTCGCCGGTGATCGAGACCTCCGA
1 CG-GCAGATCAGAGAAAAT-AAGCCGAACGGTTTTTGGACTTT-GCCGGCGATCGGGATCTCCGA
* *
8174390 TCAACATTCCGAACGGTCAAAAGTTGCCCGAGGTCAACACGAACAACATACTGATATTTCAGGAC
63 TCAACATTCCGAACGGTCAAAAGTTGCGCGA-GTCAACACGAACAACATACTGAAATTTCAGGAC
*
8174455 AATCGGAC
127 GATCGGAC
8174463 GATGGCACGA
Statistics
Matches: 233, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
145 132 0.57
146 99 0.42
147 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (145 bp):
CGGCAGATCAGAGAAAATAAGCCGAACGGTTTTTGGACTTTGCCGGCGATCGGGATCTCCGATCA
ACATTCCGAACGGTCAAAAGTTGCGCGAGTCAACACGAACAACATACTGAAATTTCAGGACGATC
GGACAGTGGACGGTA
Found at i:8174625 original size:29 final size:29
Alignment explanation
Indices: 8174593--8174657 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
8174583 TGAATATATT
**
8174593 TGTTTTTTTGATTTT-GACACTTTAGTTTC
1 TGTTTTTTT-ATTTTAGACACTCAAGTTTC
* *
8174622 TGTTATTTTATTTTAGTCACTCAAGTTTC
1 TGTTTTTTTATTTTAGACACTCAAGTTTC
8174651 TGTTTTT
1 TGTTTTT
8174658 GCTATTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.15, C:0.11, G:0.12, T:0.62
Consensus pattern (29 bp):
TGTTTTTTTATTTTAGACACTCAAGTTTC
Found at i:8174665 original size:29 final size:30
Alignment explanation
Indices: 8174616--8174694 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
8174606 TTGACACTTT
8174616 AGTTTCTGTTATTT--TATTT-TAGTCACTCA
1 AGTTTCTGTT-TTTGCTATTTAT-GTCACTCA
* *
8174645 AGTTTCTGTTTTTGCTATTTATGTCATTTA
1 AGTTTCTGTTTTTGCTATTTATGTCACTCA
* *
8174675 AATTTCTGTTTTAGCTATTT
1 AGTTTCTGTTTTTGCTATTT
8174695 TAGCCTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 3 0.07
29 10 0.23
30 29 0.67
31 1 0.02
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.58
Consensus pattern (30 bp):
AGTTTCTGTTTTTGCTATTTATGTCACTCA
Found at i:8178943 original size:23 final size:23
Alignment explanation
Indices: 8178917--8178979 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
8178907 AAGGGGCAAT
8178917 ATTTTCAAAACTTTTGATTAA-AC
1 ATTTTCAAAACTTTTG-TTAATAC
*
8178940 ATTTTTCAAAACTCTT-TTAATAC
1 A-TTTTCAAAACTTTTGTTAATAC
8178963 ATTTTCAATAACTTTTG
1 ATTTTCAA-AACTTTTG
8178980 GAAATAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 11 0.32
23 10 0.29
24 13 0.38
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.48
Consensus pattern (23 bp):
ATTTTCAAAACTTTTGTTAATAC
Found at i:8179148 original size:32 final size:32
Alignment explanation
Indices: 8179112--8179183 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
8179102 GCATCTTTAA
*
8179112 AGATTCAACAACAAATGTTGGGGAATAATTGG
1 AGATTCAACAACAAATATTGGGGAATAATTGG
* ** * *
8179144 AGATTCAATAATGAATATTGGGGCATATTTGG
1 AGATTCAACAACAAATATTGGGGAATAATTGG
*
8179176 GGATTCAA
1 AGATTCAA
8179184 TATCCTGATG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (32 bp):
AGATTCAACAACAAATATTGGGGAATAATTGG
Found at i:8179766 original size:43 final size:43
Alignment explanation
Indices: 8179718--8179800 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
8179708 TGAAGGGGCC
*
8179718 ATCCACGATTTCAACTCCACGACGGATGATATCGTACCCATGG
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCATGG
*
8179761 ATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCA
1 ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCA
8179801 CACATCTACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCATGG
Found at i:8179816 original size:43 final size:43
Alignment explanation
Indices: 8179717--8179819 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
8179707 ATGAAGGGGC
* **
8179717 CATCCACGATTTCAACTCCACGACGGATGATATCGTACCCATG
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* *
8179760 GATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* *
8179803 CATCTACGGTTTCAACT
1 CATCCACGATTTCAACT
8179820 TCATGACGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:8180259 original size:36 final size:35
Alignment explanation
Indices: 8180212--8180328 Score: 109
Period size: 36 Copynumber: 3.4 Consensus size: 35
8180202 CTTTGAAAAT
8180212 GTTTCCCTTGAAACAAGTTTCATCTCTCTTGAGACA
1 GTTTCCCTTGAAACAA-TTTCATCTCTCTTGAGACA
** * **
8180248 GTTTCCCTTGAAAC-A-CCCA-C-AT-TTGAGATT
1 GTTTCCCTTGAAACAATTTCATCTCTCTTGAGACA
**
8180278 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACA-ATTTCATCTCTCTTGAGACA
*
8180314 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
8180329 CCAATCTTTG
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
30 20 0.32
31 1 0.02
32 2 0.03
33 2 0.03
34 1 0.02
35 2 0.03
36 34 0.55
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (35 bp):
GTTTCCCTTGAAACAATTTCATCTCTCTTGAGACA
Found at i:8180304 original size:66 final size:65
Alignment explanation
Indices: 8180186--8180391 Score: 220
Period size: 66 Copynumber: 3.1 Consensus size: 65
8180176 GGGCCATCCA
* * * * **
8180186 TCTCTTGAAACA-TAAACTTTGAAAATGTTTCCCTTGAAACAAGTTTCATCTCTCTTGAGACAGT
1 TCTCTTGAAACACCAATCTTTGAGATTGTTTCCCTTGAAACAA-TTTTGTCTCTCTTGAGACAGT
8180250 T
65 T
* *
8180251 TCCCTTGAAACACCCA-CATTTGAGATTGTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACAG
1 TCTCTTGAAACACCAATC-TTTGAGATTGTTTCCCTTGAAACA-ATTTTGTCTCTCTTGAGACAG
8180315 TT
64 TT
* * * * *
8180317 TCTCTTGAAACACCAATCTTTGAGATCG-TTCCTCTTGTAACGGATTTTGTCTCTTTTGAGATAG
1 TCTCTTGAAACACCAATCTTTGAGATTGTTTCC-CTTGAAAC-AATTTTGTCTCTCTTGAGACAG
*
8180381 CT
64 TT
8180383 TCTCTTGAA
1 TCTCTTGAA
8180392 GCATCATCTG
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
65 16 0.13
66 102 0.85
67 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (65 bp):
TCTCTTGAAACACCAATCTTTGAGATTGTTTCCCTTGAAACAATTTTGTCTCTCTTGAGACAGTT
Found at i:8180762 original size:3 final size:3
Alignment explanation
Indices: 8180751--8180779 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8180741 TAAAAAAATA
8180751 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8180780 CTTATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8181353 original size:145 final size:145
Alignment explanation
Indices: 8181089--8181363 Score: 370
Period size: 145 Copynumber: 1.9 Consensus size: 145
8181079 AACCATCAAG
* * * ** * *
8181089 AACAACATACTGAAAATTCAGGACGATCGGGCGGTGGACGGCGGTGGATCGGAGAAAATAAGCTG
1 AACAACATACTGAAAATTCAGGACGATCGGACGGTGAACGACGGCAGATCCGAGAAAATAAGCCG
* * * * **
8181154 AACGATTTTTGGCTTCTTGCCGGTGATAAAGATTTCTGATCAATATTCTGAACGGTCAAAAGTTG
66 AACGATTTTTGGCCTCTTGCCGGCGATAAAGATCTCCGATCAATATTCCAAACGGTCAAAAGTTG
8181219 CGCAAGACTAGCGCA
131 CGCAAGACTAGCGCA
* * *
8181234 AACAATATACTGAAAATTTAGGACGATCGGACGGTGAACGATGGCAGATCCGAGAAAATAAGCCG
1 AACAACATACTGAAAATTCAGGACGATCGGACGGTGAACGACGGCAGATCCGAGAAAATAAGCCG
*** *
8181299 AACGATTTTTGGCCTCTTGCCGGCGATTGGGATCTCCGATCAATATTCCAAACGGTGAAAAGTTG
66 AACGATTTTTGGCCTCTTGCCGGCGATAAAGATCTCCGATCAATATTCCAAACGGTCAAAAGTTG
8181364 TGTCATGTCA
Statistics
Matches: 110, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
145 110 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (145 bp):
AACAACATACTGAAAATTCAGGACGATCGGACGGTGAACGACGGCAGATCCGAGAAAATAAGCCG
AACGATTTTTGGCCTCTTGCCGGCGATAAAGATCTCCGATCAATATTCCAAACGGTCAAAAGTTG
CGCAAGACTAGCGCA
Found at i:8181388 original size:145 final size:145
Alignment explanation
Indices: 8181089--8181411 Score: 362
Period size: 145 Copynumber: 2.2 Consensus size: 145
8181079 AACCATCAAG
* * * * * ** * *
8181089 AACAACATACTGAAAATTCAGGACGATCGGGCGGTGGACGGCGGTGGATCGGAGAAAATAAGCTG
1 AACAATATACTGAAAATTTAGGACGATCGGACGGTGAACGACGGCAGATCCGAGAAAATAAGCCG
* * * * **
8181154 AACGATTTTTGGCTTCTTGCCGGTGATAAAGATTTCTGATCAATATTCTGAACGGTCAAAAGTTG
66 AACGATTTTTGGCCTCTTGCCGGCGATAAAGATCTCCGATCAATATTCCAAACGGTCAAAAGTTG
* *
8181219 CGCAAGACTAGCGCA
131 CGCAAGACTAACACA
*
8181234 AACAATATACTGAAAATTTAGGACGATCGGACGGTGAACGATGGCAGATCCGAGAAAATAAGCCG
1 AACAATATACTGAAAATTTAGGACGATCGGACGGTGAACGACGGCAGATCCGAGAAAATAAGCCG
*** *
8181299 AACGATTTTTGGCCTCTTGCCGGCGATTGGGATCTCCGATCAATATTCCAAACGGTGAAAAGTTG
66 AACGATTTTTGGCCTCTTGCCGGCGATAAAGATCTCCGATCAATATTCCAAACGGTCAAAAGTTG
* * * *
8181364 TGTCATGTC-AACACG
131 CG-CAAGACTAACACA
* *
8181379 AACATTATACTG-AAATTTCAGGACAATCGGACG
1 AACAATATACTGAAAATTT-AGGACGATCGGACG
8181412 ATAGTGAATC
Statistics
Matches: 148, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
144 6 0.04
145 138 0.93
146 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (145 bp):
AACAATATACTGAAAATTTAGGACGATCGGACGGTGAACGACGGCAGATCCGAGAAAATAAGCCG
AACGATTTTTGGCCTCTTGCCGGCGATAAAGATCTCCGATCAATATTCCAAACGGTCAAAAGTTG
CGCAAGACTAACACA
Found at i:8184979 original size:9 final size:9
Alignment explanation
Indices: 8184965--8184997 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
8184955 AAAAATAAAC
8184965 AATATTAAT
1 AATATTAAT
8184974 AATATTAAT
1 AATATTAAT
8184983 AATA-TAAT
1 AATATTAAT
8184991 AATATTA
1 AATATTA
8184998 TATCCCGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATATTAAT
Found at i:8185494 original size:35 final size:36
Alignment explanation
Indices: 8185399--8185545 Score: 215
Period size: 36 Copynumber: 4.1 Consensus size: 36
8185389 CAAATGATGC
* * *
8185399 TTCAAGAGAAACTGTCTCAAAAGATATAAAATTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
* *
8185435 TTCAAGGGAAACTGTCTCATGAGAGACAAAATTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
* *
8185471 TTCAAGA-AAAATGTCTCAAGAGAGACGAAATTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
8185506 TTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGT
8185543 TTC
1 TTC
8185546 GTGGATGTCT
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
35 32 0.33
36 58 0.59
37 8 0.08
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (36 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
Found at i:8185503 original size:71 final size:73
Alignment explanation
Indices: 8185399--8185545 Score: 217
Period size: 71 Copynumber: 2.0 Consensus size: 73
8185389 CAAATGATGC
* * * * *
8185399 TTCAAGAGAAACTGTCTCAAAAGATATAAAATTTGTTTCAAGGGAAACTGTCTCATGAGAGACAA
1 TTCAAGAGAAAATGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
8185464 AA-TTTGT
66 AACTTTGT
* *
8185471 TTCAAGA-AAAATGTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 TTCAAGAGAAAATGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
8185535 AACTTTGT
66 AACTTTGT
8185543 TTC
1 TTC
8185546 GTGGATGTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 52 0.78
72 15 0.22
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (73 bp):
TTCAAGAGAAAATGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
AACTTTGT
Found at i:8186180 original size:292 final size:294
Alignment explanation
Indices: 8185640--8186223 Score: 877
Period size: 292 Copynumber: 2.0 Consensus size: 294
8185630 GGTACGATTC
* *
8185640 CCTTCGTCGTGAAGTTGAACCTTAAATTGGATATCATTCGTCGTGAAGTTGAAATCCAAGTTAAG
1 CCTTCATCGTGAAGTTGAACCTTAAATTGAATATCATTCGTCGTGAAGTTGAAATCCAAGTT-AG
* *
8185705 TTGCGTTGTTTCGAGGCCAATATCCTTCGACGTTAAGTTGAAATTGACTCTGAAACTGGAAAGTT
65 TT-CGTTGTTTCGAGGCCAATATCCTTCGACGTGAAGTTAAAATTGACTCTGAAACTGGAAAGTT
*
8185770 TATTGACAAACACTCCTTCTTCGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAG
129 TATTGACAAACACTCCTTCTTCGAGTTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAGAG
** * * * * * *
8185835 ATGGATGTTGCTTGTGTGTATGATTCCCTTCATCGTGAAGTTGAAATCGTGGATGTGTGGGCACG
194 ATAAATGCTGCTTGTGGGTACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGTATGAGCACG
* * *
8185900 ATATCCTCTGTCGTGGAGTTGGAATCATGGATGGCG
259 ATATCCTCCGTCGTAGAGTTGAAATCATGGATGGCG
* * * *
8185936 CCTTCATCGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTT-G
1 CCTTCATCGTGAAGTTGAACCTTAAATTGAATATCATTCGTCGTGAAGTTGAAATCCAAG-TTAG
* * *
8186000 -T-GTTGTTTCGAGTCCAATATCCTTCGCCGTGAAGTTAAAATTGGCTCTGAAACTGGAAAGTTT
65 TTCGTTGTTTCGAGGCCAATATCCTTCGACGTGAAGTTAAAATTGACTCTGAAACTGGAAAGTTT
* *
8186063 ATTGACAGACACTCCTTCTTTGAGTTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAGAGA
130 ATTGACAAACACTCCTTCTTCGAGTTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAGAGA
* *
8186128 TAAATGCTGCTTGTGGGTACGATTTCCTTCGTCGTGAAGTTGAAACCGTGGATGTATGAGCACGA
195 TAAATGCTGCTTGTGGGTACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGTATGAGCACGA
8186193 TATCCTCCGTCGTAGAGTTGAAATCATGGAT
260 TATCCTCCGTCGTAGAGTTGAAATCATGGAT
8186224 CCATTGGTAC
Statistics
Matches: 260, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
292 202 0.78
294 1 0.00
295 1 0.00
296 54 0.21
297 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (294 bp):
CCTTCATCGTGAAGTTGAACCTTAAATTGAATATCATTCGTCGTGAAGTTGAAATCCAAGTTAGT
TCGTTGTTTCGAGGCCAATATCCTTCGACGTGAAGTTAAAATTGACTCTGAAACTGGAAAGTTTA
TTGACAAACACTCCTTCTTCGAGTTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTAGAGAT
AAATGCTGCTTGTGGGTACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGTATGAGCACGAT
ATCCTCCGTCGTAGAGTTGAAATCATGGATGGCG
Found at i:8186259 original size:43 final size:42
Alignment explanation
Indices: 8186143--8186266 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
8186133 GCTGCTTGTG
* * * * * **
8186143 GGTACGATTTCCTTCGTCGTGAAGTTGAAACCGTGGATGTAT
1 GGTACGATATCCTCCGTCGTGGAGTTGAAATCATGGATCCAT
* *
8186185 GAGCACGATATCCTCCGTCGTAGAGTTGAAATCATGGATCCATT
1 G-GTACGATATCCTCCGTCGTGGAGTTGAAATCATGGATCCA-T
*
8186229 GGTACGATATCCTCCGTCGTGGAGTTGAAATTATGGAT
1 GGTACGATATCCTCCGTCGTGGAGTTGAAATCATGGAT
8186267 GGCGCCTTCG
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 65 0.96
44 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
GGTACGATATCCTCCGTCGTGGAGTTGAAATCATGGATCCAT
Found at i:8186485 original size:335 final size:335
Alignment explanation
Indices: 8185897--8186717 Score: 1471
Period size: 335 Copynumber: 2.5 Consensus size: 335
8185887 ATGTGTGGGC
* * * *
8185897 ACGATATCCTCTGTCGTGGAGTTGGAATCATGGATGGCGCCTTCATCGTGAAGTTGAGCCTTGAC
1 ACGATATCCTCCGTCGTGGAGTTGAAATTATGGATGGCGCCTTCGTCGTGAAGTTGAGCCTTGAC
*
8185962 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGTTGTTTCGAGTCCAATATCCTTCGC
66 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTGTTTCGAGTCCAATATCCTTCGC
*
8186027 CGTGAAGTTAAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCCTTCTTTGAGTTGGA
131 CATGAAGTTAAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCCTTCTTTGAGTTGGA
8186092 TATCCTTCGTCGTGAAGTTAAAATCCAATCTAGAGATAAATGCTGCTTGTGGGTACGATTTCCTT
196 TATCCTTCGTCGTGAAGTTAAAATCCAATCTAGAGATAAATGCTGCTTGTGGGTACGATTTCCTT
* *
8186157 CGTCGTGAAGTTGAAACCGTGGATGTATGAGCACGATATCCTCCGTCGTAGAGTTGAAATCATGG
261 CATCGTGAAGTTGAAACCGTGGATATATGAGCACGATATCCTCCGTCGTAGAGTTGAAATCATGG
8186222 ATCCATTGGT
326 ATCCATTGGT
8186232 ACGATATCCTCCGTCGTGGAGTTGAAATTATGGATGGCGCCTTCGTCGTGAAGTTGAGCCTTGAC
1 ACGATATCCTCCGTCGTGGAGTTGAAATTATGGATGGCGCCTTCGTCGTGAAGTTGAGCCTTGAC
8186297 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTGTTTCGAGTCCAATATCCTTCGC
66 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTGTTTCGAGTCCAATATCCTTCGC
8186362 CATGAAGTTAAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCCTTCTTTGAGTTGGA
131 CATGAAGTTAAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCCTTCTTTGAGTTGGA
* * *
8186427 TATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGATGAATGCTGCTTGTGTGTACGATTTCCTT
196 TATCCTTCGTCGTGAAGTTAAAATCCAATCTAGAGATAAATGCTGCTTGTGGGTACGATTTCCTT
* * *
8186492 CATCGTGAAGTTGAAACCGTGGATATATGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGG
261 CATCGTGAAGTTGAAACCGTGGATATATGAGCACGATATCCTCCGTCGTAGAGTTGAAATCATGG
8186557 ATCCATTGGT
326 ATCCATTGGT
*
8186567 ACGATATCCTCCGTCGTGGAGTTGAAATTATGGATGGCGCCTTCGTCTTGAAGTTGAGCCTTGAC
1 ACGATATCCTCCGTCGTGGAGTTGAAATTATGGATGGCGCCTTCGTCGTGAAGTTGAGCCTTGAC
* * *
8186632 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTATTTTGAGTCCAATATCCTTCGT
66 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTGTTTCGAGTCCAATATCCTTCGC
*
8186697 CATGAAGTTGAAATTGGCTCT
131 CATGAAGTTAAAATTGGCTCT
8186718 AAAAGCTGCA
Statistics
Matches: 467, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
335 467 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (335 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATTATGGATGGCGCCTTCGTCGTGAAGTTGAGCCTTGAC
TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGCTTGTGCTGTTTCGAGTCCAATATCCTTCGC
CATGAAGTTAAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCCTTCTTTGAGTTGGA
TATCCTTCGTCGTGAAGTTAAAATCCAATCTAGAGATAAATGCTGCTTGTGGGTACGATTTCCTT
CATCGTGAAGTTGAAACCGTGGATATATGAGCACGATATCCTCCGTCGTAGAGTTGAAATCATGG
ATCCATTGGT
Found at i:8186594 original size:43 final size:43
Alignment explanation
Indices: 8186479--8186594 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
8186469 CTGCTTGTGT
* * * * * *
8186479 GTACGATTTCCTTCATCGTGAAGTTGAAACCGTGGATATATGG
1 GTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATACATGG
* * *
8186522 GCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATCCATTG
1 GTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATACATGG
8186565 GTACGATATCCTCCGTCGTGGAGTTGAAAT
1 GTACGATATCCTCCGTCGTGGAGTTGAAAT
8186595 TATGGATGGC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
GTACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATACATGG
Found at i:8186969 original size:28 final size:30
Alignment explanation
Indices: 8186910--8186966 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
8186900 CAATATTCAA
*
8186910 TGTTGAATCTCTAAATATGCCCAACATTTGT
1 TGTTGAATCTCTAAAGATGCCC-ACATTTGT
* *
8186941 TGTTGAATCTTTAACGATGCCC-CATT
1 TGTTGAATCTCTAAAGATGCCCACATT
8186967 GTTCCTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 4 0.17
31 19 0.83
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (30 bp):
TGTTGAATCTCTAAAGATGCCCACATTTGT
Found at i:8188015 original size:10 final size:9
Alignment explanation
Indices: 8187990--8188025 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
8187980 TTATCGTCCA
*
8187990 TTTTTTCTT
1 TTTTTTCTC
8187999 TTTTTTCTC
1 TTTTTTCTC
8188008 TTTGTTTCTC
1 TTT-TTTCTC
8188018 TTTTTTCT
1 TTTTTTCT
8188026 TTTCTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:8188039 original size:33 final size:33
Alignment explanation
Indices: 8187992--8188056 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
8187982 ATCGTCCATT
**
8187992 TTTTCTTTTTTTTCTCTTTGT-TTCTCTTTTTTC
1 TTTTCTTTAATTTCT-TTTGTATTCTCTTTTTTC
* *
8188025 TTTTCTTTAATTTCTTTTTTATTCTTTTTTTT
1 TTTTCTTTAATTTCTTTTGTATTCTCTTTTTT
8188057 TGCTCTGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (33 bp):
TTTTCTTTAATTTCTTTTGTATTCTCTTTTTTC
Found at i:8188051 original size:10 final size:9
Alignment explanation
Indices: 8187990--8188056 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 9
8187980 TTATCGTCCA
8187990 TTTTTTCTT
1 TTTTTTCTT
8187999 TTTTTTCTCT
1 TTTTTTCT-T
8188009 TTGTTTCTCTT
1 TT-TTT-TCTT
8188020 TTTTCTT-TT
1 TTTT-TTCTT
8188029 CTTTAATTTCTT
1 -TTT--TTTCTT
8188041 TTTTATTCTT
1 TTTT-TTCTT
8188051 TTTTTT
1 TTTTTT
8188057 TGCTCTGTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
9 13 0.27
10 18 0.37
11 12 0.24
12 6 0.12
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:8188262 original size:2 final size:2
Alignment explanation
Indices: 8188255--8188282 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8188245 ACAACAAGGG
8188255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8188283 GGATAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8195885 original size:30 final size:30
Alignment explanation
Indices: 8195851--8195967 Score: 98
Period size: 30 Copynumber: 3.9 Consensus size: 30
8195841 TCTACAATTT
*
8195851 TATTTTAGTCACTTAAGTTTCTGTTTTTAC
1 TATTTTAGTCATTTAAGTTTCTGTTTTTAC
*
8195881 TA-TTTATGTCATTTAAATTTCTG-TTTTAGC
1 TATTTTA-GTCATTTAAGTTTCTGTTTTTA-C
* * * *
8195911 TATTTTAGCCTTTTGAGTTTATGTTTTTAC
1 TATTTTAGTCATTTAAGTTTCTGTTTTTAC
* * *
8195941 CA-TTTAATCCTTTAAG-TTCATGTTTTT
1 TATTTTAGTCATTTAAGTTTC-TGTTTTT
8195968 GCTAGATTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
28 2 0.03
29 26 0.38
30 32 0.46
31 9 0.13
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (30 bp):
TATTTTAGTCATTTAAGTTTCTGTTTTTAC
Found at i:8196239 original size:15 final size:17
Alignment explanation
Indices: 8196204--8196239 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8196194 GCAGACCAAC
8196204 TTTTATCTTAAAAATGT
1 TTTTATCTTAAAAATGT
*
8196221 TTTT-TCTTAAAATTGT
1 TTTTATCTTAAAAATGT
8196237 TTT
1 TTT
8196240 AAAAGACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTATCTTAAAAATGT
Found at i:8198115 original size:60 final size:60
Alignment explanation
Indices: 8198004--8198118 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
8197994 GTATATACGT
* * *
8198004 ATAGTTTGGGATAATATTAGAATGTTCAAAAAGTTTAGGGACCAATTTAGAATGAATATC
1 ATAGTTTGGGATAATATTAAAATGTTCAAAAAGTTTAAGGACCAATATAGAATGAATATC
*
8198064 ATAGTTTTGGGATGAA-ATTAAAATGTTC-AAAAGTTTAAGGACTAATATAGAATGA
1 ATAG-TTTGGGAT-AATATTAAAATGTTCAAAAAGTTTAAGGACCAATATAGAATGA
8198119 TAGCCATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 28 0.57
61 19 0.39
62 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (60 bp):
ATAGTTTGGGATAATATTAAAATGTTCAAAAAGTTTAAGGACCAATATAGAATGAATATC
Found at i:8201426 original size:8 final size:8
Alignment explanation
Indices: 8201388--8201438 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
8201378 ACCTTTTTAA
8201388 AATTTTATT
1 AATTTT-TT
8201397 AATTTTTT
1 AATTTTTT
8201405 ATATGTTTTT
1 A-AT-TTTTT
8201415 -ATTTTTT
1 AATTTTTT
*
8201422 AATTTTTA
1 AATTTTTT
*
8201430 AATATTTT
1 AATTTTTT
8201438 A
1 A
8201439 GATGACGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
7 5 0.14
8 18 0.50
9 8 0.22
10 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
AATTTTTT
Found at i:8201579 original size:15 final size:16
Alignment explanation
Indices: 8201559--8201588 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8201549 TTTTTTAATT
8201559 TATTAACTTT-ATATA
1 TATTAACTTTGATATA
8201574 TATTAACTTTGATAT
1 TATTAACTTTGATAT
8201589 TTAATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (16 bp):
TATTAACTTTGATATA
Found at i:8204927 original size:2 final size:2
Alignment explanation
Indices: 8204920--8204946 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8204910 TACTTAAACC
8204920 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8204947 TAAGCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8210642 original size:26 final size:26
Alignment explanation
Indices: 8210589--8210640 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
8210579 TTATTTTGAT
* *
8210589 CTCTTAAAATTTTTTAAGTTCGGTCC
1 CTCTTAAAATATTATAAGTTCGGTCC
*
8210615 CTCTTAAAGTATTATAAGTTC-GTCC
1 CTCTTAAAATATTATAAGTTCGGTCC
8210640 C
1 C
8210641 CTAACATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (26 bp):
CTCTTAAAATATTATAAGTTCGGTCC
Found at i:8219636 original size:23 final size:23
Alignment explanation
Indices: 8219618--8219723 Score: 119
Period size: 23 Copynumber: 4.7 Consensus size: 23
8219608 CTCGTATAAA
8219618 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
8219641 TTCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
** *
8219664 TGCACCGAAGTGCCATATA-AAA
1 TGCACCGAAGTGCCACGTAGAAT
*
8219686 TGTC-CCTAAG-GACCACGTAGAAT
1 TG-CACCGAAGTG-CCACGTAGAAT
8219709 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
8219724 TATAAAATGT
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.02
22 15 0.23
23 49 0.74
24 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:8219715 original size:45 final size:45
Alignment explanation
Indices: 8219656--8219752 Score: 194
Period size: 45 Copynumber: 2.2 Consensus size: 45
8219646 CGAAGTGCCG
8219656 CGTAGAATTGCACCGAAGTGCCATATAAAATGTCCCTAAGGACCA
1 CGTAGAATTGCACCGAAGTGCCATATAAAATGTCCCTAAGGACCA
8219701 CGTAGAATTGCACCGAAGTGCCATATAAAATGTCCCTAAGGACCA
1 CGTAGAATTGCACCGAAGTGCCATATAAAATGTCCCTAAGGACCA
8219746 CGTAGAA
1 CGTAGAA
8219753 AATTCCTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (45 bp):
CGTAGAATTGCACCGAAGTGCCATATAAAATGTCCCTAAGGACCA
Found at i:8220248 original size:2 final size:2
Alignment explanation
Indices: 8220243--8220308 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
8220233 TCACACACAC
8220243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8220285 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
8220309 CATTTTACCT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8221423 original size:23 final size:20
Alignment explanation
Indices: 8221372--8221428 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
8221362 TTCCCATTAA
* *
8221372 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATCCTAC
*
8221392 AGTGTATCGATGCATCCCTTAC
1 AGTGCATCGATGCAT-CC-TAC
8221414 ACGTGCATCGATGCA
1 A-GTGCATCGATGCA
8221429 CTACCCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 13 0.43
21 1 0.03
22 4 0.13
23 12 0.40
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:8221503 original size:64 final size:63
Alignment explanation
Indices: 8221416--8221577 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 63
8221406 TCCCTTACAC
* *
8221416 GTGCATCGATGCACTACCC-ATGCATCGATACACAA-AGCACCTTCGATGTTT-TAATCTTAAGG
1 GTGCATCGATGCACT-CCCTATGCATCGATACACAATAGCA--TTCGATATTTCCAATCTTAA-G
8221478 GG
62 GG
* * * * *
8221480 GTGTATCGATGCACTCCCTATGCATCGATGCACTAATTGCATTCGATATTTCCATTTTTAAGGG
1 GTGCATCGATGCACTCCCTATGCATCGATACAC-AATAGCATTCGATATTTCCAATCTTAAGGG
* *
8221544 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCACTCCCTATGCATCGATACACA
8221578 CTGAACAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
63 4 0.05
64 68 0.82
65 8 0.10
66 3 0.04
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCACTCCCTATGCATCGATACACAATAGCATTCGATATTTCCAATCTTAAGGG
Found at i:8221889 original size:25 final size:25
Alignment explanation
Indices: 8221855--8221905 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8221845 TAACTTCTTA
8221855 ATTAGACCATTGACAAGTCAAATTT
1 ATTAGACCATTGACAAGTCAAATTT
8221880 ATTAGACCATTGACAAGTCAAATTT
1 ATTAGACCATTGACAAGTCAAATTT
8221905 A
1 A
8221906 ACTTCCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (25 bp):
ATTAGACCATTGACAAGTCAAATTT
Found at i:8222295 original size:8 final size:8
Alignment explanation
Indices: 8222282--8222306 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8222272 CAATAAGTCA
8222282 TTAACTAT
1 TTAACTAT
8222290 TTAACTAT
1 TTAACTAT
8222298 TTAACTAT
1 TTAACTAT
8222306 T
1 T
8222307 CTACTTTTAT
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:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAACTAT
Found at i:8224917 original size:23 final size:23
Alignment explanation
Indices: 8224891--8224967 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
8224881 AAATGCACCA
* *
8224891 AAGTGCCACGTAGAATTTCACTG
1 AAGTGCCACGTAGAATTGCTCTG
**
8224914 AAGTGGTGA-GTAGAATTGCTCTG
1 AAGT-GCCACGTAGAATTGCTCTG
* *
8224937 AAGTGCCGCGTAGAATTGCTCCG
1 AAGTGCCACGTAGAATTGCTCTG
8224960 AAGTGCCA
1 AAGTGCCA
8224968 TATAAAATGT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
22 1 0.02
23 40 0.93
24 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (23 bp):
AAGTGCCACGTAGAATTGCTCTG
Found at i:8225471 original size:2 final size:2
Alignment explanation
Indices: 8225464--8225501 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
8225454 ACTCATAGTC
8225464 AT AT AT AT AT AGT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
8225502 CATTTTACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8225481 original size:14 final size:14
Alignment explanation
Indices: 8225458--8225500 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
8225448 ATTCCAACTC
*
8225458 ATAGTCATATATAT
1 ATAGTTATATATAT
8225472 ATAGTTATATATAT
1 ATAGTTATATATAT
8225486 ATA--TATATATAT
1 ATAGTTATATATAT
8225498 ATA
1 ATA
8225501 TCATTTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 12 0.43
14 16 0.57
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (14 bp):
ATAGTTATATATAT
Found at i:8226616 original size:23 final size:20
Alignment explanation
Indices: 8226565--8226621 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
8226555 TTCCCATTAA
* *
8226565 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATCCTAC
*
8226585 AGTGTATCGATGCATCCCTTAC
1 AGTGCATCGATGCAT-CC-TAC
8226607 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
8226622 CTACCCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 13 0.43
21 1 0.03
22 4 0.13
23 12 0.40
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:8227313 original size:13 final size:13
Alignment explanation
Indices: 8227295--8227319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8227285 CACGTGAAGA
8227295 AGAAGAAGAAAAG
1 AGAAGAAGAAAAG
8227308 AGAAGAAGAAAA
1 AGAAGAAGAAAA
8227320 CTCTGGAGAA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AGAAGAAGAAAAG
Found at i:8228092 original size:22 final size:20
Alignment explanation
Indices: 8228033--8228096 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
8228023 CCATTAGACA
8228033 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
* *
8228053 GGGGGGAATCTGTTCCCCCT
1 GGGGGGAATCGGTACCCCCT
8228073 GGGGAAGGAATCGGTACCCCCT
1 GGGG--GGAATCGGTACCCCCT
8228095 GG
1 GG
8228097 ACAATCTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 22 0.58
22 16 0.42
ACGTcount: A:0.16, C:0.28, G:0.39, T:0.17
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:8229533 original size:19 final size:20
Alignment explanation
Indices: 8229490--8229537 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
8229480 TCTAAATCCT
*
8229490 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
8229510 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
8229529 TTTTCAAAA
1 TTTTCAAAA
8229538 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:8236264 original size:2 final size:2
Alignment explanation
Indices: 8236257--8236284 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8236247 CCCTCCAAAA
8236257 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8236285 GTTTTTCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8253457 original size:31 final size:32
Alignment explanation
Indices: 8253422--8253490 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
8253412 TTATAATAAA
*
8253422 TTATAAAAAAATGAT-AAATTTAATGTTCATT
1 TTATAAAAAAATGATCAAATTTAATGATCATT
***
8253453 TTATAAAATTTTGATCAAATTTAATGATCATT
1 TTATAAAAAAATGATCAAATTTAATGATCATT
*
8253485 TGATAA
1 TTATAA
8253491 TAGTTTGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (32 bp):
TTATAAAAAAATGATCAAATTTAATGATCATT
Found at i:8253476 original size:32 final size:31
Alignment explanation
Indices: 8253433--8253540 Score: 119
Period size: 32 Copynumber: 3.4 Consensus size: 31
8253423 TATAAAAAAA
8253433 TGATAAATTTAATGTTCATTTTATAAAATTT
1 TGATAAATTTAATGTTCATTTTATAAAATTT
* * * *
8253464 TGATCAAATTTAATGATCATTTGATAATAGTT
1 TGAT-AAATTTAATGTTCATTTTATAAAATTT
* * *
8253496 TGATAAATATAATAATT-ATTTTATAACATTTT
1 TGATAAATTTAAT-GTTCATTTTATAA-AATTT
8253528 TGATAAATTTAAT
1 TGATAAATTTAAT
8253541 AATAATTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
31 20 0.32
32 42 0.68
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (31 bp):
TGATAAATTTAATGTTCATTTTATAAAATTT
Found at i:8253541 original size:32 final size:32
Alignment explanation
Indices: 8253433--8253557 Score: 116
Period size: 32 Copynumber: 4.0 Consensus size: 32
8253423 TATAAAAAAA
* *
8253433 TGATAAATTTAAT-GTTCATTTTATAA-AATTT
1 TGATAAATTTAATAATT-ATTTTATAACATTTT
* * * * *
8253464 TGATCAAATTTAATGATCATTTGATAATA-GTT
1 TGAT-AAATTTAATAATTATTTTATAACATTTT
*
8253496 TGATAAATATAATAATTATTTTATAACATTTT
1 TGATAAATTTAATAATTATTTTATAACATTTT
*
8253528 TGATAAATTTAATAA-TAATTTATAAC-TTTT
1 TGATAAATTTAATAATTATTTTATAACATTTT
8253558 AAAAATTCAA
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
30 4 0.05
31 33 0.42
32 39 0.50
33 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (32 bp):
TGATAAATTTAATAATTATTTTATAACATTTT
Found at i:8255680 original size:20 final size:21
Alignment explanation
Indices: 8255643--8255681 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
8255633 TCTCATTCCT
8255643 ACTCAATAATCACTTCCTTAA
1 ACTCAATAATCACTTCCTTAA
8255664 ACTCAA-AATC-CTATCCTT
1 ACTCAATAATCACT-TCCTT
8255682 TATATGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 9 0.53
21 6 0.35
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTCAATAATCACTTCCTTAA
Found at i:8276388 original size:32 final size:32
Alignment explanation
Indices: 8276347--8276410 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
8276337 TTCATTCATG
8276347 CATGACTAATACTTTCCAACATTTTACAAACC
1 CATGACTAATACTTTCCAACATTTTACAAACC
8276379 CATGACTAATACTTTCCAACATTTTACAAACC
1 CATGACTAATACTTTCCAACATTTTACAAACC
8276411 AATTACTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (32 bp):
CATGACTAATACTTTCCAACATTTTACAAACC
Found at i:8280976 original size:16 final size:16
Alignment explanation
Indices: 8280953--8281013 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
8280943 GGGTCTTCAA
8280953 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
8280969 CATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
8280985 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
8281001 CGTTTATGTTCGT
1 CGTTTATGTTCGT
8281014 TTATTTGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:8281104 original size:16 final size:16
Alignment explanation
Indices: 8281083--8281115 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8281073 AAAAAAAATT
*
8281083 TGTTCGTTTATGTTCG
1 TGTTCGTTTAAGTTCG
8281099 TGTTCGTTTAAGTTCG
1 TGTTCGTTTAAGTTCG
8281115 T
1 T
8281116 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.24, T:0.55
Consensus pattern (16 bp):
TGTTCGTTTAAGTTCG
Found at i:8282012 original size:18 final size:18
Alignment explanation
Indices: 8281951--8282012 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
8281941 GTGTTGGATT
*
8281951 CTTCCTCTGCTCGGAAAC
1 CTTCCTCCGCTCGGAAAC
*
8281969 CTTCCTCCTCTCGGAAAC
1 CTTCCTCCGCTCGGAAAC
*
8281987 CTTCCTCCGCTCTGAAAC
1 CTTCCTCCGCTCGGAAAC
8282005 CTTCCTCC
1 CTTCCTCC
8282013 TCCTGAGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.15, C:0.45, G:0.11, T:0.29
Consensus pattern (18 bp):
CTTCCTCCGCTCGGAAAC
Found at i:8284974 original size:2 final size:2
Alignment explanation
Indices: 8284969--8285004 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8284959 TTTGAATCTA
8284969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8285005 TGAGCTTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8285367 original size:60 final size:61
Alignment explanation
Indices: 8285268--8285393 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 61
8285258 GTTTTGGGCT
* * *
8285268 AATCATACATCAAGTCCTTCATGTCTAGTATATTTCACG-TTAGTTAC-TAGTTTAA-GGGTA
1 AATCATACATCAAGTCCTCCATATCTAGTATATTACACGTTTAGTTACATA--TTAATGGGTA
* * * *
8285328 AATCATGCATCAAGTCCTCCGTATTTAGTGTATTACACGTTTAGTTACATATTAATGGGTA
1 AATCATACATCAAGTCCTCCATATCTAGTATATTACACGTTTAGTTACATATTAATGGGTA
8285389 AATCA
1 AATCA
8285394 CGCGTAAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 36 0.64
61 18 0.32
62 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (61 bp):
AATCATACATCAAGTCCTCCATATCTAGTATATTACACGTTTAGTTACATATTAATGGGTA
Found at i:8285586 original size:51 final size:49
Alignment explanation
Indices: 8285496--8285608 Score: 113
Period size: 51 Copynumber: 2.2 Consensus size: 49
8285486 AGTCACTGTA
* * *
8285496 ATTTCTGATTTAGCTACTATTATTTTAATTTTTGCATTTTGGTCACTTTTT
1 ATTTCTTATTTAGCTACTA-TATTTTAATTTTTGCATTTTAGTCA-TTATT
* * *
8285547 ATTTCTTATTTAGTTACTA-ACTTTTATTTTATTGTATTTTAGTCATTATT
1 ATTTCTTATTTAGCTACTATA-TTTTAATTT-TTGCATTTTAGTCATTATT
8285597 ATTT-TATATTTA
1 ATTTCT-TATTTA
8285609 TGCAATTAGG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
49 2 0.04
50 22 0.42
51 29 0.55
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (49 bp):
ATTTCTTATTTAGCTACTATATTTTAATTTTTGCATTTTAGTCATTATT
Found at i:8291697 original size:36 final size:36
Alignment explanation
Indices: 8291650--8291719 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
8291640 TTACTCAAAA
8291650 AAGTTTCGTCTCACTAAAGACAATTTCCCTTGAAAC
1 AAGTTTCGTCTCACTAAAGACAATTTCCCTTGAAAC
* * **
8291686 AAGTTTTGTCTCTCTTGAGACAATTTCCCTTGAA
1 AAGTTTCGTCTCACTAAAGACAATTTCCCTTGAA
8291720 CAAAATTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (36 bp):
AAGTTTCGTCTCACTAAAGACAATTTCCCTTGAAAC
Found at i:8291958 original size:39 final size:39
Alignment explanation
Indices: 8291902--8292264 Score: 411
Period size: 39 Copynumber: 9.5 Consensus size: 39
8291892 GATTTTTTAA
*
8291902 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
* * * * *
8291941 ATAAGATTTTGTCTCGCTTGAGATAGCTTCGCTCGAAAA
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
* * *
8291980 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
* * *
8292019 AAAATATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAT
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
* *
8292058 ATAAGATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
* * *
8292097 ATAAGATTTTATCTCACTTGAGATGGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
* * *
8292136 AGAATATTTTGTCTCACTTGAGATAGTTTCCCTTGAAAT
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
8292175 AGAAGATTTTGTCT--C-------AGTTTCCCTCGAAAC
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
* * * **
8292205 AGAAGATTTTGTCTCTCTTGAAACAAATTCCCTCGAAAC
1 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
* * *
8292244 ATAAAATTTTGTCTCTCTTGA
1 AGAAGATTTTGTCTCACTTGA
8292265 AACAAATTTT
Statistics
Matches: 279, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
30 27 0.10
32 1 0.00
37 1 0.00
39 250 0.90
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (39 bp):
AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
Found at i:8292196 original size:30 final size:30
Alignment explanation
Indices: 8292160--8292219 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
8292150 CACTTGAGAT
* *
8292160 AGTTTCCCTTGAAATAGAAGATTTTGTCTC
1 AGTTTCCCTCGAAACAGAAGATTTTGTCTC
8292190 AGTTTCCCTCGAAACAGAAGATTTTGTCTC
1 AGTTTCCCTCGAAACAGAAGATTTTGTCTC
8292220 TCTTGAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (30 bp):
AGTTTCCCTCGAAACAGAAGATTTTGTCTC
Found at i:8292236 original size:69 final size:69
Alignment explanation
Indices: 8292122--8292258 Score: 184
Period size: 69 Copynumber: 2.0 Consensus size: 69
8292112 ACTTGAGATG
* * * ** * * *
8292122 GTTTCCCTCGAAACAGAATATTTTGTCTCACTTGAGATAGTTTCCCTTGAAATAGAAGATTTTGT
1 GTTTCCCTCGAAACAGAAGATTTTGTCTCACTTGAAACAAATTCCCTCGAAACAGAAAATTTTGT
8292187 CTCA
66 CTCA
* *
8292191 GTTTCCCTCGAAACAGAAGATTTTGTCTCTCTTGAAACAAATTCCCTCGAAACATAAAATTTTGT
1 GTTTCCCTCGAAACAGAAGATTTTGTCTCACTTGAAACAAATTCCCTCGAAACAGAAAATTTTGT
8292256 CTC
66 CTC
8292259 TCTTGAAACA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (69 bp):
GTTTCCCTCGAAACAGAAGATTTTGTCTCACTTGAAACAAATTCCCTCGAAACAGAAAATTTTGT
CTCA
Found at i:8292273 original size:21 final size:21
Alignment explanation
Indices: 8292247--8292306 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
8292237 TCGAAACATA
8292247 AAATTTTGTCTCTCTTGAAAC
1 AAATTTTGTCTCTCTTGAAAC
8292268 AAATTTTGTCTCTCTTGAAAC
1 AAATTTTGTCTCTCTTGAAAC
* *
8292289 GAATTTTGTCTGTCTTGA
1 AAATTTTGTCTCTCTTGA
8292307 GACAGTTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (21 bp):
AAATTTTGTCTCTCTTGAAAC
Found at i:8292325 original size:36 final size:36
Alignment explanation
Indices: 8292278--8292640 Score: 372
Period size: 36 Copynumber: 10.0 Consensus size: 36
8292268 AAATTTTGTC
*
8292278 TCTCTTGAAACGAATTTTGTCTGTCTTGAGACAGTT
1 TCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
* *
8292314 TCTCTTGAAACGAATTTTTTCTCTCTTGAGACAGCT
1 TCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
* * * *
8292350 TCCCTTGAAAC-AAGTTTTATCTATATTGAGACAGTT
1 TCTCTTGAAACGAA-TTTTGTCTCTCTTGAGACAGTT
*
8292386 TCTCTTGAAACGAATTTTGTCTCTCTTGAGACGGTT
1 TCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
* * *
8292422 TTTCTTGAAACAAATTTTGTCTCTCTTGAGTCAGTT
1 TCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
* * *
8292458 TCTCTTGAAACAAATTTTGTCTGTCTTAAGACAGTT
1 TCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
* *
8292494 TCTCTTGAAACGAATTTTGTCTCTTTTGAGATAGTT
1 TCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
* * * * *
8292530 TAC-CTTGAAATGAGTTTTGTCTGTATTGAGATAGTT
1 T-CTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
* * * * **
8292566 TCTCTTGGAATAAGAAATGTATCT-TACTTGAGATGGTT
1 TCTCTT-GAA-ACGAATTTTGTCTCT-CTTGAGACAGTT
* * * * *
8292604 TTTCTTAAAACTAATTTCGTCTCGCTTGAGACAGTT
1 TCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
8292640 T
1 T
8292641 TCCCCTGAAA
Statistics
Matches: 271, Mismatches: 48, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
35 3 0.01
36 236 0.87
37 9 0.03
38 23 0.08
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (36 bp):
TCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTT
Found at i:8292411 original size:21 final size:21
Alignment explanation
Indices: 8292386--8292450 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
8292376 TGAGACAGTT
8292386 TCTCTTGAAACGAATTTTGTC
1 TCTCTTGAAACGAATTTTGTC
* *
8292407 TCTCTTGAGACG---GTT-T-
1 TCTCTTGAAACGAATTTTGTC
*
8292423 T-TCTTGAAACAAATTTTGTC
1 TCTCTTGAAACGAATTTTGTC
8292443 TCTCTTGA
1 TCTCTTGA
8292451 GTCAGTTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
15 8 0.24
16 1 0.03
17 1 0.03
18 4 0.12
19 1 0.03
20 1 0.03
21 17 0.52
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (21 bp):
TCTCTTGAAACGAATTTTGTC
Found at i:8292641 original size:36 final size:36
Alignment explanation
Indices: 8291907--8292640 Score: 290
Period size: 36 Copynumber: 19.7 Consensus size: 36
8291897 TTTAAAGAAG
* * *
8291907 ATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACATAA
1 ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC--AA
* * * * *
8291945 GATTTTGTCTCGCTTGAGATAGCTTCGCTCGAAAAAGAA
1 -ATTTTGTCTCGCTTGAGACAGTTTCTCTTG--AAACAA
* * *
8291984 GATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAA
1 -ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC--AA
* * * * *
8292023 TATTTTGTCTCACTTGAGATAGTTTCCCTCGAAATATAA
1 -ATTTTGTCTCGCTTGAGACAGTTTCTCTTG-AA-ACAA
* * * *
8292062 GATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACATAA
1 -ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC--AA
* * ** * *
8292101 GATTTTATCTCACTTGAGATGGTTTCCCTCGAAACAGAA
1 -ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC--AA
* * * *
8292140 TATTTTGTCTCACTTGAGATAGTTTCCCTTGAAATAGAA
1 -ATTTTGTCTCGCTTGAGACAGTTTCTCTTG-AA-ACAA
* * *
8292179 GATTTTG--T--C-T----CAGTTTCCCTCGAAACAGAAG
1 -ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC---AA
* * ** * *
8292210 ATTTTGTCTCTCTTGAAACAAATTCCCTCGAAACATAAA
1 ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAAC---AA
* * * *
8292249 ATTTTGTCTCTCTTGAAACAAATTTTGTCTCTCTTGAAACGA
1 ATTTTGTCTCGCTTGAGAC--A----GTTTCTCTTGAAACAA
*
8292291 ATTTTGTCT-GTCTTGAGACAGTTTCTCTTGAAACGA
1 ATTTTGTCTCG-CTTGAGACAGTTTCTCTTGAAACAA
* * * *
8292327 ATTTTTTCTCTCTTGAGACAGCTTCCCTTGAAACAA
1 ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAA
* * *** *
8292363 GTTTTATCTATATTGAGACAGTTTCTCTTGAAACGA
1 ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAA
* * *
8292399 ATTTTGTCTCTCTTGAGACGGTTTTTCTTGAAACAA
1 ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAA
* *
8292435 ATTTTGTCTCTCTTGAGTCAGTTTCTCTTGAAACAA
1 ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAA
* *
8292471 ATTTTGTCT-GTCTTAAGACAGTTTCTCTTGAAACGA
1 ATTTTGTCTCG-CTTGAGACAGTTTCTCTTGAAACAA
** * **
8292507 ATTTTGTCTCTTTTGAGATAGTTTAC-CTTGAAATGA
1 ATTTTGTCTCGCTTGAGACAGTTT-CTCTTGAAACAA
* * *
8292543 GTTTTGTCT-GTATTGAGATAGTTTCTCTTGGAATA-AGA
1 ATTTTGTCTCG-CTTGAGACAGTTTCTCTT-GAA-ACA-A
* * * ** ** * * *
8292581 AATGTATCTTACTTGAGATGGTTTTTCTTAAAACTA
1 ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAA
*
8292617 ATTTCGTCTCGCTTGAGACAGTTT
1 ATTTTGTCTCGCTTGAGACAGTTT
8292641 TCCCCTGAAA
Statistics
Matches: 559, Mismatches: 96, Indels: 83
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.00
29 2 0.00
30 16 0.03
31 1 0.00
32 1 0.00
34 2 0.00
35 3 0.01
36 236 0.42
37 11 0.02
38 24 0.04
39 225 0.40
40 5 0.01
41 6 0.01
42 17 0.03
45 9 0.02
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (36 bp):
ATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAA
Found at i:8293471 original size:262 final size:261
Alignment explanation
Indices: 8292996--8293775 Score: 996
Period size: 262 Copynumber: 3.0 Consensus size: 261
8292986 TCAATTATTT
* * *
8292996 GCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGTTAGATTCCATCACAGAATG
1 GCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGCTCGATTCCATCACAGAAGG
* *
8293061 AGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCAGCGTCAATTTTTTT
66 AGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAA-CTTTTT
* * * * *
8293126 GCGCGGTTCTATCACATAAGGAGATAGAT-AAGCACCAACAG-CTCATTCGA-TTCCATCACAGA
130 GCTCGATTCTATCA-A-AAGGAGGTAGATCAA-CACCAAC-GTATCGTTCGATTTCCATCACAGA
* *
8293188 AGGAGGTGGATCGATATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCTTCAA
191 AGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAA
8293252 CTTTTA
256 CTTTTA
* ** * *
8293258 GCTTGATTCTATCACAGAAAAAGGTAGCTCAACACCAACATTTCGCTCGATTCCATCACAGAAGG
1 GCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGCTCGATTCCATCACAGAAGG
* ** *
8293323 AGGTGGATCGACATTTGTTCACTCAAATCCATCGCAGAAGGAGTT-GATTCAGCGTTTACTTTTA
66 AGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTGGA-TCAGCGTCAACTTTTT
* * * *
8293387 GCTTGATTCTATCATAGAAGGAGGTAGATCAACATCGACGTATCGTTTGATTTCCATCACAGAAG
130 GCTCGATTCTATCA-A-AAGGAGGTAGATCAACACCAACGTATCGTTCGATTTCCATCACAGAAG
* * * *
8293452 GAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCACAGAAGAAGTTGGATCAACGTCAACT
193 GAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACT
*
8293517 TTTT
258 TTTA
* * * *
8293521 GCTCGTTTCTATCACAGAATGAGTTAGATCAGCACCAACATTTCACTCGATTTCCATAACAGAAG
1 GCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGCTCGA-TTCCATCACAGAAG
* * * *
8293586 GAGGAGGATCAACATTTTTATATTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAACGTCAACT
65 GAGGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACT
* * * * *
8293651 TTTTGCTCGTTTCTATC-ACAGGAGGTAGATCAGCACCAACATTTCGTTCGATTTCCATCACAGA
126 TTTTGCTCGATTCTATCAAAAGGAGGTAGATCAACACCAACGTATCGTTCGATTTCCATCACAGA
* *
8293715 AGAAGGTGGATCGACATTTTTATTTTCGTTCAAATCCATCGCAGAAGGAGTTGGATCAGCG
191 AGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCG
8293776 CCGACATTTT
Statistics
Matches: 443, Mismatches: 64, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
260 1 0.00
261 40 0.09
262 143 0.32
263 84 0.19
264 25 0.06
265 94 0.21
266 1 0.00
267 2 0.00
268 51 0.12
269 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (261 bp):
GCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGCTCGATTCCATCACAGAAGG
AGGTGGATCGACATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTG
CTCGATTCTATCAAAAGGAGGTAGATCAACACCAACGTATCGTTCGATTTCCATCACAGAAGGAG
GTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTT
A
Found at i:8293531 original size:134 final size:133
Alignment explanation
Indices: 8292993--8293775 Score: 937
Period size: 134 Copynumber: 5.9 Consensus size: 133
8292983 TGTTCAATTA
* * *
8292993 TTTGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGTTAGATTCCATCACAGA
1 TTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGA
* * *
8293058 ATGAGGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCAGCGTCAA
66 AGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAA
*
8293119 TTTT
131 -CTT
* * * * ** *
8293123 TTTGCGCGGTTCTATCACATAAGGAGATAGAT-AAGCACCAACAGCTCATTCGATTCCATCACAG
1 TTTGCTCGATTCTATCACAGAAGGAGGTAGATCAA-CACCAACATTTCGTTCGATTCCATCACAG
* *
8293187 AAGGAGGTGGATCGATATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCTTCA
65 AAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCA
8293251 ACTT
130 ACTT
* * ** * *
8293255 TTAGCTTGATTCTATCACAGAAAAAGGTAGCTCAACACCAACATTTCGCTCGATTCCATCACAGA
1 TTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGA
* * **
8293320 AGGAGGTGGATCGACA---TT-TGTTCACTCAAATCCATCGCAGAAGGAGTT-GATTCAGCGTTT
66 AGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA-TCAGCGTCA
8293380 ACTT
130 ACTT
* * * * * * * *
8293384 TTAGCTTGATTCTATCATAGAAGGAGGTAGATCAACATCGACGTATCGTTTGATTTCCATCACAG
1 TTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGA-TTCCATCACAG
* * * *
8293449 AAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCACAGAAGAAGTTGGATCAACGTCA
65 AAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCA
8293514 ACTT
130 ACTT
* * * * ** *
8293518 TTTGCTCGTTTCTATCACAGAATGAGTTAGATCAGCACCAACATTTCACTCGATTTCCATAACAG
1 TTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGA-TTCCATCACAG
* * * *
8293583 AAGGAGGAGGATCAACATTTTTATATTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAACGTCA
65 AAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCA
8293648 ACTT
130 ACTT
* *
8293652 TTTGCTCGTTTCTATCAC---AGGAGGTAGATCAGCACCAACATTTCGTTCGATTTCCATCACAG
1 TTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGA-TTCCATCACAG
* *
8293714 AAGAAGGTGGATCGACATTTTTATTTTCGTTCAAATCCATCGCAGAAGGAGTTGGATCAGCG
65 AAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCG
8293776 CCGACATTTT
Statistics
Matches: 554, Mismatches: 85, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
128 2 0.00
129 83 0.15
130 95 0.17
131 95 0.17
132 66 0.12
133 45 0.08
134 166 0.30
135 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (133 bp):
TTTGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGTTCGATTCCATCACAGA
AGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAA
CTT
Found at i:8293535 original size:44 final size:44
Alignment explanation
Indices: 8293221--8293731 Score: 144
Period size: 44 Copynumber: 11.6 Consensus size: 44
8293211 TTCGCTCAAA
* * * * * *
8293221 TCCATCGCAGAAGGAGTTGGATCAGCTTCAACTTTTAGCTTGAT
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTTTTTGCTCGTT
* ** * * * * * * *
8293265 TCTATCACAGAAAAAGGTAGCTCAACACCAACATTTCGCTCGAT
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTTTTTGCTCGTT
* * ** ***
8293309 TCCATCACAGAAGGAGGTGGATCGACAT----TTGTTCACTCAAA
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTT-TTTGCTCGTT
* * * ** * * *
8293350 TCCATCGCAGAAGGAGTT-GATTCAGCGTTTACTTTTAGCTTGAT
1 TCCATCACAGAAGGAGTTGGA-TCAACATCAACTTTTTGCTCGTT
* * * * * * * * * *
8293394 TCTATCATAGAAGGAGGTAGATCAACATCGACGTATCGTTTGATT
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTTTTTGCTCG-TT
* * ** ***
8293439 TCCATCACAGAAGGAGGTGGATCGACATTTTTA-TTTTTGCTCAAA
1 TCCATCACAGAAGGAGTTGGATCAACA--TCAACTTTTTGCTCGTT
* *
8293484 TCCATCACAGAAGAAGTTGGATCAACGTCAACTTTTTGCTCGTT
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTTTTTGCTCGTT
* * * * * * **
8293528 TCTATCACAGAATGAGTTAGATCAGCACCAACATTTCACTCGATT
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTTTTTGCTCG-TT
* ** ** ***
8293573 TCCATAACAGAAGGAGGAGGATCAACAT--TTTTATATTCGCTCAAA
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTT-T-TT-GCTCGTT
* *
8293618 TCCATCGCAGAAGGAGTTGGATCAACGTCAACTTTTTGCTCGTT
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTTTTTGCTCGTT
* * * * * * * *
8293662 TCTATCAC---AGGAGGTAGATCAGCACCAACATTTCGTTCGATT
1 TCCATCACAGAAGGAGTTGGATCAACATCAACTTTTTGCTCG-TT
* * *
8293704 TCCATCACAGAAGAAGGTGGATCGACAT
1 TCCATCACAGAAGGAGTTGGATCAACAT
8293732 TTTTATTTTC
Statistics
Matches: 324, Mismatches: 122, Indels: 41
0.67 0.25 0.08
Matches are distributed among these distances:
40 3 0.01
41 50 0.15
42 9 0.03
43 3 0.01
44 136 0.42
45 111 0.34
46 8 0.02
47 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCCATCACAGAAGGAGTTGGATCAACATCAACTTTTTGCTCGTT
Found at i:8293760 original size:45 final size:45
Alignment explanation
Indices: 8293704--8293822 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 45
8293694 TCGTTCGATT
* * * *
8293704 TCCATCACAGAAGAAGGTGGATCGACATTTTTATTTTCGTTCAAA
1 TCCATCGCAGAAGGAGTTGGATCGACATTTTTATTTTCGCTCAAA
8293749 TCCATCGCAGAAGGAGTTGGATCAGCGCCGACATTTTTATTTTCGCTCAAA
1 TCCATCGCAGAAGGAGTTGGAT------CGACATTTTTATTTTCGCTCAAA
8293800 TCCATCGCAGAAGGAGTTGGATC
1 TCCATCGCAGAAGGAGTTGGATC
8293823 AGCATCAACT
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
45 20 0.31
51 44 0.69
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (45 bp):
TCCATCGCAGAAGGAGTTGGATCGACATTTTTATTTTCGCTCAAA
Found at i:8293784 original size:51 final size:51
Alignment explanation
Indices: 8293726--8293825 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
8293716 GAAGGTGGAT
*
8293726 CGACATTTTTATTTTCGTTCAAATCCATCGCAGAAGGAGTTGGATCAGCGC
1 CGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGC
8293777 CGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGC
1 CGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGC
8293826 ATCAACTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (51 bp):
CGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGC
Found at i:8294144 original size:133 final size:132
Alignment explanation
Indices: 8293858--8294283 Score: 543
Period size: 133 Copynumber: 3.2 Consensus size: 132
8293848 TCACAGAAAG
* * * * * *
8293858 AGAATGAGTTGGATCAGCGTCAACTTTTTTGCGCGGTTTTCTCACAGAAAGAGATAGATCAGCAC
1 AGAAGGAGTTGGATCAGCGTCAAC-TTTTAGCTCGATTTTATCACAGAAAGAGGTAGATCAGCAC
** *
8293923 CAACATCTCATTCGATTCCATCACAGAAGGAGATGGATCGATATTTTTATTTT-GCTCAAATCCA
65 TGACATCTCGTTCGATTCCATCACAGAAGGAGATGGATCGATATTTTTATTTTCG-TCAAATCCA
8293987 TCGC
129 TCGC
* *
8293991 AGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGATTTTATTACAGAAAGAGGTAGATCAGCACT
1 AGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTTTATCACAGAAAGAGGTAGATCAGCACT
** *
8294056 GGTATCTCGTTCGATTCCATTTA-AGAAGGAGATGGATCGATATTTTTATTTTCAGTCAAATCCA
66 GACATCTCGTTCGATTCCA-TCACAGAAGGAGATGGATCGATATTTTTATTTTC-GTCAAATCCA
8294120 TCGC
129 TCGC
* * * * *
8294124 AAAAGGAGTTGGATAAGCGTCAACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACA-T
1 AGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTTTATCACAGAAAGAGGTAGATCAGCACT
* * * * *
8294188 CGACATGTCGTTCGATTTCCATCACAGAATGAGGTGGATCAATATTTTTATTTTCTCTCAAATCC
66 -GACATCTCGTTCGA-TTCCATCACAGAAGGAGATGGATCGATATTTTTATTTTC-GTCAAATCC
8294253 ATCGC
128 ATCGC
*
8294258 AGAAGGAGTTGGATCAGTGTCAACTT
1 AGAAGGAGTTGGATCAGCGTCAACTT
8294284 CTTTCTCGAT
Statistics
Matches: 254, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
132 78 0.31
133 107 0.42
134 69 0.27
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (132 bp):
AGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTTTATCACAGAAAGAGGTAGATCAGCACT
GACATCTCGTTCGATTCCATCACAGAAGGAGATGGATCGATATTTTTATTTTCGTCAAATCCATC
GC
Found at i:8294642 original size:28 final size:28
Alignment explanation
Indices: 8294600--8294682 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
8294590 CTGTAAACAC
*
8294600 CATTTTTCAAACATCAACACCCACCATCT
1 CATTTTTC-AACATCAACACCCACCATCA
*
8294629 CATTTTTCAACATCAATACCCACCA-CA
1 CATTTTTCAACATCAACACCCACCATCA
* *
8294656 CTATTTTTCAACACCAAC-CCCATCATC
1 C-ATTTTTCAACATCAACACCCACCATC
8294683 CCTTGTTCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.17
28 31 0.66
29 8 0.17
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.28
Consensus pattern (28 bp):
CATTTTTCAACATCAACACCCACCATCA
Found at i:8294990 original size:2 final size:2
Alignment explanation
Indices: 8294983--8295026 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
8294973 TTTGAATCTA
8294983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8295025 AT
1 AT
8295027 TTGAGCTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8295607 original size:51 final size:49
Alignment explanation
Indices: 8295517--8295629 Score: 113
Period size: 51 Copynumber: 2.2 Consensus size: 49
8295507 AGTCACTGTA
* * *
8295517 ATTTCTGATTTAGCTACTATTATTTTAATTTTTGCATTTTGGTCACTTTTT
1 ATTTCTTATTTAGCTACTA-TATTTTAATTTTTGCATTTTAGTCA-TTATT
* * *
8295568 ATTTCTTATTTAGTTACTA-ACTTTTATTTTATTGTATTTTAGTCATTATT
1 ATTTCTTATTTAGCTACTATA-TTTTAATTT-TTGCATTTTAGTCATTATT
8295618 ATTT-TATATTTA
1 ATTTCT-TATTTA
8295630 TGCAATTAGG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
49 2 0.04
50 22 0.42
51 29 0.55
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (49 bp):
ATTTCTTATTTAGCTACTATATTTTAATTTTTGCATTTTAGTCATTATT
Found at i:8299004 original size:24 final size:24
Alignment explanation
Indices: 8298975--8299028 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
8298965 TTCATGATTG
8298975 ATTTTTTGAAATATTTTTAGTTTT
1 ATTTTTTGAAATATTTTTAGTTTT
8298999 ATTTTTTGAAATATTTTTAGTTTT
1 ATTTTTTGAAATATTTTTAGTTTT
8299023 ATTTTT
1 ATTTTT
8299029 AATAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (24 bp):
ATTTTTTGAAATATTTTTAGTTTT
Found at i:8299025 original size:12 final size:12
Alignment explanation
Indices: 8298986--8299029 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
8298976 TTTTTTGAAA
8298986 TATTTTTAGTTT
1 TATTTTTAGTTT
* ***
8298998 TATTTTTTGAAA
1 TATTTTTAGTTT
8299010 TATTTTTAGTTT
1 TATTTTTAGTTT
8299022 TATTTTTA
1 TATTTTTA
8299030 ATAAAATATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TATTTTTAGTTT
Found at i:8299093 original size:41 final size:41
Alignment explanation
Indices: 8299022--8299121 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 41
8299012 TTTTTAGTTT
** *
8299022 TATTT-TTAATAAAATATTA-ATTATTAAAATATTTAAAATA
1 TATTTATTAATATTATATTATATTATTAAAATA-ATAAAATA
*
8299062 TATTTATTAATATTATATTATATT-TTTAAATAATAAAATA
1 TATTTATTAATATTATATTATATTATTAAAATAATAAAATA
* *
8299102 -ATATATTCA-ATTATATTATA
1 TATTTATTAATATTATATTATA
8299122 ATAATATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
38 11 0.21
39 7 0.13
40 12 0.23
41 19 0.37
42 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (41 bp):
TATTTATTAATATTATATTATATTATTAAAATAATAAAATA
Found at i:8299137 original size:23 final size:23
Alignment explanation
Indices: 8299098--8299141 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8299088 TAAATAATAA
*
8299098 AATAATATATTCAATTATATTAT
1 AATAATATAATCAATTATATTAT
8299121 AATAATATAAT-ATATTATATT
1 AATAATATAATCA-ATTATATT
8299142 CTTATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATAATATAATCAATTATATTAT
Found at i:8299277 original size:23 final size:23
Alignment explanation
Indices: 8299251--8299302 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
8299241 AATAGTCAGT
8299251 AATAT-TTTAATAAAATTATTTAA
1 AATATATTTAATAAAATT-TTTAA
* *
8299274 AATATATTTATTAATATTTTTAA
1 AATATATTTAATAAAATTTTTAA
8299297 AATATA
1 AATATA
8299303 ATATAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATATTTAATAAAATTTTTAA
Found at i:8299283 original size:11 final size:11
Alignment explanation
Indices: 8299261--8299302 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
8299251 AATATTTTAA
8299261 TAAAAT-TATT
1 TAAAATATATT
8299271 TAAAATATATT
1 TAAAATATATT
* *
8299282 TATTAATATTTT
1 TA-AAATATATT
8299294 TAAAATATA
1 TAAAATATA
8299303 ATATAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 6 0.23
11 11 0.42
12 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAAAATATATT
Found at i:8299314 original size:21 final size:21
Alignment explanation
Indices: 8299258--8299314 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
8299248 AGTAATATTT
*
8299258 TAATA-AAATTATTTAAAATA
1 TAATATAAATTTTTTAAAATA
* *
8299278 TATTTATTAATATTTTTAAAATA
1 TA-ATATAAAT-TTTTTAAAATA
8299301 TAATATAAATTTTT
1 TAATATAAATTTTT
8299315 ATTTTAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.07
21 6 0.21
22 9 0.31
23 12 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATATAAATTTTTTAAAATA
Found at i:8300205 original size:19 final size:21
Alignment explanation
Indices: 8300171--8300210 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8300161 CACGGAATGT
*
8300171 AAGATTACCAGTGGAA-ATAA
1 AAGATTACCAGAGGAATATAA
8300191 AAGATTACCA-AGGAATATAA
1 AAGATTACCAGAGGAATATAA
8300211 TTACTGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (21 bp):
AAGATTACCAGAGGAATATAA
Found at i:8301156 original size:2 final size:2
Alignment explanation
Indices: 8301149--8301191 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
8301139 AACTTGTTAA
*
8301149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8301191 A
1 A
8301192 AGAATGACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8305387 original size:2 final size:2
Alignment explanation
Indices: 8305380--8305436 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
8305370 AATAATTGAA
8305380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8305422 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
8305437 CTAATCCATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8306987 original size:3 final size:3
Alignment explanation
Indices: 8306969--8307053 Score: 111
Period size: 3 Copynumber: 28.3 Consensus size: 3
8306959 CAAATAGTTT
*
8306969 TAA TAAA TAT TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* *
8307016 TAA TAA TAT TAA TAA TAA TCA T-A TAA T-A TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8307054 TATTATTATT
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
2 4 0.05
3 63 0.86
4 6 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8307407 original size:52 final size:52
Alignment explanation
Indices: 8307338--8307786 Score: 763
Period size: 52 Copynumber: 8.6 Consensus size: 52
8307328 TCGTTCTCTA
*
8307338 TTTCTTCAGGGAGTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * *
8307390 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
8307442 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* *
8307494 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTATGAGACTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * *
8307546 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* * * *
8307598 TTTTTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
8307650 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
* *
8307702 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
8307754 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
8307787 CCAACGATCG
Statistics
Matches: 374, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 374 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (52 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
Found at i:8307841 original size:55 final size:55
Alignment explanation
Indices: 8307782--8308061 Score: 447
Period size: 55 Copynumber: 5.1 Consensus size: 55
8307772 CTCGAACAAT
* *
8307782 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAGC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
8307837 AATCTCCAACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
8307892 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
8307945 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
8308000 AATCTTCAACGATCGCGTCTGCCCCCAATTTCTTCAAAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
8308055 AATCTTC
1 AATCTTC
8308062 TTTTGCTTCA
Statistics
Matches: 207, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 48 0.23
54 4 0.02
55 155 0.75
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:8307995 original size:108 final size:109
Alignment explanation
Indices: 8307782--8308061 Score: 454
Period size: 108 Copynumber: 2.6 Consensus size: 109
8307772 CTCGAACAAT
* * *
8307782 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTCCAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAAC
8307847 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
65 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
* *
8307892 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TCCACAATCTTCATCA
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACA
* *
8307956 ATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
66 ATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
* *
8308000 AATCTTCAACGATCGCGTCTGCCCCCAATTTCTTCAAAGAGTATAAGACTCGAACAATCTTC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTC
8308062 TTTTGCTTCA
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
108 98 0.62
109 4 0.03
110 56 0.35
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (109 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACA
ATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
Found at i:8309231 original size:9 final size:9
Alignment explanation
Indices: 8309214--8309345 Score: 74
Period size: 9 Copynumber: 14.3 Consensus size: 9
8309204 TGAACCCCCC
8309214 TTTTATTTT
1 TTTTATTTT
*
8309223 TTTTGTTTT
1 TTTTATTTT
8309232 TTTCT-TCTTT
1 TTT-TAT-TTT
*
8309242 TTTTCTTCTT
1 TTTTATT-TT
*
8309252 CTTTTTTATTT
1 -TTTTAT-TTT
8309263 TTTTATTTT
1 TTTTATTTT
**
8309272 TTCCATTTT
1 TTTTATTTT
*
8309281 TTCTA-TTT
1 TTTTATTTT
* *
8309289 TTATATTTC
1 TTTTATTTT
*
8309298 ATTT-TTTT
1 TTTTATTTT
*
8309306 TTTCA-TTT
1 TTTTATTTT
8309314 TTTTATTTTT
1 TTTTA-TTTT
8309324 TTTTCATTTT
1 TTTT-ATTTT
*
8309334 TTTCATTTT
1 TTTTATTTT
8309343 TTT
1 TTT
8309346 ATCTTTAAGC
Statistics
Matches: 97, Mismatches: 15, Indels: 22
0.72 0.11 0.16
Matches are distributed among these distances:
8 19 0.20
9 40 0.41
10 29 0.30
11 8 0.08
12 1 0.01
ACGTcount: A:0.09, C:0.09, G:0.01, T:0.81
Consensus pattern (9 bp):
TTTTATTTT
Found at i:8309242 original size:11 final size:10
Alignment explanation
Indices: 8309219--8309351 Score: 63
Period size: 11 Copynumber: 12.2 Consensus size: 10
8309209 CCCCCTTTTA
*
8309219 TTTTTTTTGT
1 TTTTTTTTCT
8309229 TTTTTTCTTCT
1 TTTTTT-TTCT
8309240 TTTTTTCTTCT
1 TTTTTT-TTCT
* *
8309251 TCTTTTTTAT
1 TTTTTTTTCT
*
8309261 TTTTTTATTTT
1 TTTTTT-TTCT
8309272 TTCCATTTTTTCTAT
1 TT---TTTTTTC--T
8309287 TTTTATATTTCAT
1 TTTT-T-TTTC-T
8309300 TTTTTTTT-T
1 TTTTTTTTCT
* *
8309309 CATTTTTTTAT
1 -TTTTTTTTCT
8309320 TTTTTTTTC-
1 TTTTTTTTCT
*
8309329 ATTTTTTTCAT
1 TTTTTTTTC-T
*
8309340 TTTTTTATCT
1 TTTTTTTTCT
8309350 TT
1 TT
8309352 AAGCAAAACC
Statistics
Matches: 98, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
9 9 0.09
10 31 0.32
11 35 0.36
12 3 0.03
13 9 0.09
14 8 0.08
15 3 0.03
ACGTcount: A:0.09, C:0.10, G:0.01, T:0.80
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:8309324 original size:8 final size:8
Alignment explanation
Indices: 8309214--8309347 Score: 85
Period size: 8 Copynumber: 15.8 Consensus size: 8
8309204 TGAACCCCCC
8309214 TTTTATTTT
1 TTTTA-TTT
*
8309223 TTTTGTTT
1 TTTTATTT
*
8309231 TTTTCTTCT
1 TTTTATT-T
8309240 TTTT-TTCT
1 TTTTATT-T
* *
8309248 TCTT-CTT
1 TTTTATTT
8309255 TTTTATTT
1 TTTTATTT
8309263 TTTTATTT
1 TTTTATTT
*
8309271 TTTCCATTT
1 TTT-TATTT
8309280 TTTCTATTT
1 TTT-TATTT
*
8309289 TTATATTT
1 TTTTATTT
8309297 CATTTT-TTT
1 --TTTTATTT
*
8309306 TTTCATTT
1 TTTTATTT
8309314 TTTTATTTTT
1 TTTTA--TTT
8309324 TTTTCATTT
1 TTTT-ATTT
8309333 TTTTCATTT
1 TTTT-ATTT
8309342 TTTTAT
1 TTTTAT
8309348 CTTTAAGCAA
Statistics
Matches: 104, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
7 7 0.07
8 44 0.42
9 42 0.40
10 10 0.10
11 1 0.01
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTATTT
Found at i:8316437 original size:2 final size:2
Alignment explanation
Indices: 8316430--8316472 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
8316420 AATAATTGAA
8316430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8316472 A
1 A
8316473 CTAATCCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8318016 original size:3 final size:3
Alignment explanation
Indices: 8317998--8318061 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
8317988 CAAATAGTTG
* * *
8317998 TAA TAAA TAT TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TCA TCA
1 TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
8318045 T-A TAA T-A TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
8318062 TATTATTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
2 4 0.07
3 44 0.81
4 6 0.11
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8318020 original size:19 final size:19
Alignment explanation
Indices: 8317998--8318066 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
8317988 CAAATAGTTG
8317998 TAATAAATATTAATAATAA
1 TAATAAATATTAATAATAA
*
8318017 TAATAAATAATAATAATAA
1 TAATAAATATTAATAATAA
*
8318036 TAAT-CATCATATAAT-ATAA
1 TAATAAAT-AT-TAATAATAA
*
8318055 TAATAATTATTA
1 TAATAAATATTA
8318067 TTATTATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.10
19 33 0.79
20 5 0.12
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAAATATTAATAATAA
Found at i:8318028 original size:22 final size:22
Alignment explanation
Indices: 8318003--8318061 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
8317993 AGTTGTAATA
8318003 AATATTAATAATAATAAT-AAAT
1 AATA-TAATAATAATAATCAAAT
* *
8318025 AATAATAATAATAATCATCATAT
1 AAT-ATAATAATAATAATCAAAT
8318048 AATATAATAATAAT
1 AATATAATAATAAT
8318062 TATTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 26 0.79
23 7 0.21
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (22 bp):
AATATAATAATAATAATCAAAT
Found at i:8323492 original size:16 final size:17
Alignment explanation
Indices: 8323462--8323495 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8323452 AAACATATTA
8323462 ATTAATAATAAAAATTT
1 ATTAATAATAAAAATTT
*
8323479 ATTAA-AATATAAATTT
1 ATTAATAATAAAAATTT
8323495 A
1 A
8323496 AGAAATTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATAATAAAAATTT
Found at i:8326621 original size:15 final size:16
Alignment explanation
Indices: 8326603--8326642 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
8326593 TATTTTTTAT
*
8326603 ATTTTTAAA-CAATTA
1 ATTTTTAAATCAAATA
*
8326618 ATTTTTAAATTAAATA
1 ATTTTTAAATCAAATA
8326634 ATTTTTAAA
1 ATTTTTAAA
8326643 AAAATATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTTAAATCAAATA
Found at i:8326647 original size:15 final size:15
Alignment explanation
Indices: 8326603--8326648 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
8326593 TATTTTTTAT
* *
8326603 ATTTTTAAACAATTA
1 ATTTTTAAAAAAATA
*
8326618 ATTTTTAAATTAAATA
1 ATTTTTAAA-AAAATA
8326634 ATTTTTAAAAAAATA
1 ATTTTTAAAAAAATA
8326649 TATGAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTTTAAAAAAATA
Found at i:8328826 original size:24 final size:24
Alignment explanation
Indices: 8328799--8328887 Score: 117
Period size: 24 Copynumber: 3.5 Consensus size: 24
8328789 AAATTGAACG
*
8328799 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTTACCGGATAAAAA
8328823 ACCGGTTTTTTTTCAAACCGGATAAAAA
1 ACCGG-TTTTTTT---ACCGGATAAAAA
8328851 ACCGG-TTTTTTATCCGGATAAAAA
1 ACCGGTTTTTTTA-CCGGATAAAAA
8328875 ACCGGTTTTTTTA
1 ACCGGTTTTTTTA
8328888 AAAAACTGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
23 1 0.02
24 21 0.36
25 14 0.24
26 6 0.10
28 16 0.28
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (24 bp):
ACCGGTTTTTTTACCGGATAAAAA
Found at i:8328891 original size:40 final size:40
Alignment explanation
Indices: 8328845--8328942 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
8328835 TCAAACCGGA
8328845 TAAAAAACCGGTTTTTTATCCGGATAAAAAACCGG-TTTTTT
1 TAAAAAACCGGTTTTTTATCC-GA-AAAAAACCGGTTTTTTT
* ** **
8328886 TAAAAAACTGAATTTTTATCCGAAAAAATTCGGTTTTTTT
1 TAAAAAACCGGTTTTTTATCCGAAAAAAACCGGTTTTTTT
**
8328926 TTTAAAACCGGTTTTTT
1 TAAAAAACCGGTTTTTT
8328943 GCAAACCGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 8 0.17
40 20 0.43
41 18 0.39
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (40 bp):
TAAAAAACCGGTTTTTTATCCGAAAAAAACCGGTTTTTTT
Found at i:8328941 original size:39 final size:40
Alignment explanation
Indices: 8328845--8328941 Score: 99
Period size: 41 Copynumber: 2.4 Consensus size: 40
8328835 TCAAACCGGA
8328845 TAAAAAACCGGTTTTTTATCCGGATAAAAAACCGGTTTTTT
1 TAAAAAACCGG-TTTTTATCCGGATAAAAAACCGGTTTTTT
* * **
8328886 TAAAAAACTGAATTTTTATCC-GA-AAAAATTCGGTTTTTTT
1 TAAAAAACCG-GTTTTTATCCGGATAAAAAACCGG-TTTTTT
**
8328926 TTTAAAACCGGTTTTT
1 TAAAAAACCGGTTTTT
8328942 TGCAAACCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
39 13 0.28
40 15 0.33
41 18 0.39
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (40 bp):
TAAAAAACCGGTTTTTATCCGGATAAAAAACCGGTTTTTT
Found at i:8342897 original size:20 final size:19
Alignment explanation
Indices: 8342851--8342907 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
8342841 CCCATTTTGG
*
8342851 TTTT-ATTTTATTTGTTTTC
1 TTTTAATTTTATTT-TTTAC
*
8342870 TTTTAATTTTATTTTTTAG
1 TTTTAATTTTATTTTTTAC
8342889 TTTTCAATTCATTATTTTT
1 TTTT-AATT--TTATTTTT
8342908 ATTTTTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 11 0.34
20 13 0.41
22 8 0.25
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTAATTTTATTTTTTAC
Found at i:8342942 original size:30 final size:29
Alignment explanation
Indices: 8342881--8342942 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
8342871 TTTAATTTTA
**
8342881 TTTTTTAGTTTTCAATTCATTATTTTTAT
1 TTTTTTAGTTTTCAATTCATTATTTGAAT
*
8342910 TTTTTTACGTTTTTAATTC-TTAATTTGAAT
1 TTTTTTA-GTTTTCAATTCATT-ATTTGAAT
8342940 TTT
1 TTT
8342943 GTAGGTAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.21, C:0.06, G:0.05, T:0.68
Consensus pattern (29 bp):
TTTTTTAGTTTTCAATTCATTATTTGAAT
Found at i:8345691 original size:23 final size:23
Alignment explanation
Indices: 8345658--8345716 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
8345648 GTGATGTGGT
* *
8345658 GCCCAGCCAACAGCTTCTAGAAG
1 GCCCAGTCAACAGCTTCTAGAAA
8345681 GCCCAGTCAACAGCTTCTAGAAA
1 GCCCAGTCAACAGCTTCTAGAAA
**
8345704 ATCCAGTCAACAG
1 GCCCAGTCAACAG
8345717 TGGCTTGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (23 bp):
GCCCAGTCAACAGCTTCTAGAAA
Found at i:8350769 original size:42 final size:42
Alignment explanation
Indices: 8350706--8350806 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
8350696 AGTGAGACCA
* * *
8350706 ACAGATAACCCAAAGGGTTTAATCATCATGCTCGAAAGACTG
1 ACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTG
*
8350748 ACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTT
1 ACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTG
* * *
8350790 ACTGATGGCCCGAAGGA
1 ACAGATGACCCAAAGGA
8350807 CATCCCAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (42 bp):
ACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTG
Found at i:8351056 original size:42 final size:41
Alignment explanation
Indices: 8350963--8351069 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 41
8350953 ACCCGAAGGT
*
8350963 CTTACGGATGACCCGAAGGACTTATCATCTCGCTCGAAAGA
1 CTTACAGATGACCCGAAGGACTTATCATCTCGCTCGAAAGA
* * * *
8351004 CTTACAGATGACCCGAAGGATTTAATTATCAT-GTTTGAAAGA
1 CTTACAGATGACCCGAAGGACTT-ATCATC-TCGCTCGAAAGA
* *
8351046 CTTACTGATGACTCGAAGGACTTA
1 CTTACAGATGACCCGAAGGACTTA
8351070 CCAATTTGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 22 0.39
42 33 0.59
43 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (41 bp):
CTTACAGATGACCCGAAGGACTTATCATCTCGCTCGAAAGA
Found at i:8351306 original size:256 final size:259
Alignment explanation
Indices: 8350713--8351389 Score: 911
Period size: 256 Copynumber: 2.6 Consensus size: 259
8350703 CCAACAGATA
** * * *
8350713 ACCCAAAGGGTTTAATCATCATGCTCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATG
1 ACCCAAAGGACTT-ATCATCCTGCTCGAAAGATTGACAGATGACCCGAAGGATTTAATCATCATG
* * * * *
8350778 CTCAAAAGACTTACTGATGGCCCGAAGGACATCCCAATTTTGGAAATAGTTTAATGGGTAAGAAA
65 CTCGAAAGACTTACTGATGACCCGAAGGACTTACCAATTTTGGAAATAGTTTACTGGGTAAGAAA
** * * *
8350843 CTTTTTAAATCACTTTCTTACTCTTCAAAAATTTCATTTTCTAAAAAGATTTAAATGAGAAAATT
130 CTTTGGAAATCACTTTCTCACTTTTCAAAAATTTCATTTTCTAAAAAGATATAAATGAGAAAATT
*
8350908 TGAGAATTGCTTTCTTATTTTTTGAAAAACATGTGAAAACATCCTACCCGAAGGTCTTACGGATG
195 TGAGAATTGCTTTCTTATTTTTTCAAAAACATGTGAAAACATCCTACCCGAAGGTCTTACGGATG
* *
8350973 ACCCGAAGGACTTATCAT-CTCGCTCGAAAGACTT-ACAGATGACCCGAAGGATTTAATTATCAT
1 ACCCAAAGGACTTATCATCCT-GCTCGAAAGA-TTGACAGATGACCCGAAGGATTTAATCATCAT
* * * * * *
8351036 GTTTGAAAGACTTACTGATGACTCGAAGGACTTACCAATTTGGGAAATAGTTTACCGGGTAAAAA
64 GCTCGAAAGACTTACTGATGACCCGAAGGACTTACCAATTTTGGAAATAGTTTACTGGGTAAGAA
* * * *
8351101 ACTTTGGAAATCACTTTCTCACTTTTCAAAAATTTTATTTTCTGAAAATA-ATAAATGAGAAACT
129 ACTTTGGAAATCACTTTCTCACTTTTCAAAAATTTCATTTTCTAAAAAGATATAAATGAGAAAAT
** *
8351165 TTG-GAAATTGCTTT-TTCA-TTTTTCAAATTCATGTGAAAAC-TGCTACCCGAAGGTCTTACGG
194 TTGAG-AATTGCTTTCTT-ATTTTTTCAAAAACATGTGAAAACATCCTACCCGAAGGTCTTACGG
8351226 ATG
257 ATG
* *
8351229 GCCCAAAGGACTTATCATCCTACTCGAAAGATTGACAGATGACCCGAAGGATTTAATCATCATGC
1 ACCCAAAGGACTTATCATCCTGCTCGAAAGATTGACAGATGACCCGAAGGATTTAATCATCATGC
* *
8351294 TCGAAAGACTTACTAAT-AGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAA
66 TCGAAAGACTTACTGATGA-CCCGAAGGACTTACCAATTTTGGAAATAGTTTACTGGGTAAGAAA
* *
8351358 CTTTGGAAATCGCTTTCTCATTTTTCAAAAAT
130 CTTTGGAAATCACTTTCTCACTTTTCAAAAAT
8351390 CTTGTGGAAA
Statistics
Matches: 365, Mismatches: 45, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
255 3 0.01
256 162 0.44
257 24 0.07
258 26 0.07
259 139 0.38
260 11 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (259 bp):
ACCCAAAGGACTTATCATCCTGCTCGAAAGATTGACAGATGACCCGAAGGATTTAATCATCATGC
TCGAAAGACTTACTGATGACCCGAAGGACTTACCAATTTTGGAAATAGTTTACTGGGTAAGAAAC
TTTGGAAATCACTTTCTCACTTTTCAAAAATTTCATTTTCTAAAAAGATATAAATGAGAAAATTT
GAGAATTGCTTTCTTATTTTTTCAAAAACATGTGAAAACATCCTACCCGAAGGTCTTACGGATG
Found at i:8351466 original size:41 final size:42
Alignment explanation
Indices: 8351419--8351498 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
8351409 TGAAAGTCTT
* * *
8351419 ATAGATGGCCCAAAGGACTT-ATCATCTTGCTTGAAAGAATA
1 ATAGATGACCCAAAGGACTTAATCATCATGCTCGAAAGAATA
* *
8351460 ATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGA
1 ATAGATGACCCAAAGGACTTAATCATCATGCTCGAAAGA
8351499 CTTACTGATG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 17 0.52
42 16 0.48
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (42 bp):
ATAGATGACCCAAAGGACTTAATCATCATGCTCGAAAGAATA
Found at i:8351491 original size:197 final size:195
Alignment explanation
Indices: 8351158--8351563 Score: 578
Period size: 197 Copynumber: 2.1 Consensus size: 195
8351148 ATAATAAATG
* * * * *
8351158 AGAAACTTTGGAAATTGCTTTTTCATTTTTCAAATTCATGTGAAAACTGCTACCCGAAGGTCTTA
1 AGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAATCATGTGAAAACTCCTACCCGAAAGTCTTA
* * *
8351223 CGGATGGCCCAAAGGACTTATCATCCTACTCGAAAGATTGACAGATGACCCGAAGGATTTAATCA
66 CAGATGGCCCAAAGGACTTATCATCCTACTCGAAAGAATAACAGATGACCCGAAGGATTTAATCA
8351288 TCATGCTCGAAAGACTTACTAATAGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTA
131 TCATGCTCGAAAGACTTACTAATAGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTA
* * * *
8351353 AGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCTTGTGGAAACATCCTGCCTGAAAGTCT
1 AGAAACTTTGGAAATCGCTTTCTCATTTTTC-AAAATCATGTGAAAAC-TCCTACCCGAAAGTCT
* * * * *
8351418 TATAGATGGCCCAAAGGACTTATCATCTTGCTTGAAAGAATAATAGATGACCCGAAGGATTTAAT
64 TACAGATGGCCCAAAGGACTTATCATCCTACTCGAAAGAATAACAGATGACCCGAAGGATTTAAT
* * **
8351483 CATCATGCTCGAAAGACTTACTGATGGCTTGAAGGACTTACCAATTTTGGAAATAGTTTACTAGG
129 CATCATGCTCGAAAGACTTACTAATAGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGG
*
8351548 TT
194 TA
* *
8351550 ATAAACTTTAGAAA
1 AGAAACTTTGGAAA
8351564 ACACTTAGTT
Statistics
Matches: 185, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
195 29 0.16
196 13 0.07
197 143 0.77
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (195 bp):
AGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAATCATGTGAAAACTCCTACCCGAAAGTCTTA
CAGATGGCCCAAAGGACTTATCATCCTACTCGAAAGAATAACAGATGACCCGAAGGATTTAATCA
TCATGCTCGAAAGACTTACTAATAGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTA
Found at i:8359009 original size:3 final size:3
Alignment explanation
Indices: 8359001--8359061 Score: 50
Period size: 3 Copynumber: 18.0 Consensus size: 3
8358991 CTAAAAACTT
*
8359001 ATA ATA ATA ATA ATAA ATAA ATAA ATAA ATAA ATA ATA ATAA ATA TTAA
1 ATA ATA ATA ATA AT-A AT-A AT-A AT-A AT-A ATA ATA AT-A ATA AT-A
8359050 ATA ATA ATA ATA
1 ATA ATA ATA ATA
8359062 TAAATAACCC
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
3 29 0.55
4 24 0.45
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8359021 original size:4 final size:4
Alignment explanation
Indices: 8359012--8359068 Score: 61
Period size: 4 Copynumber: 15.2 Consensus size: 4
8359002 TAATAATAAT
*
8359012 AATA AATA AATA AATA AATA AAT- AAT- AATA AAT- ATTA AAT- AAT-
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
8359055 AATA ATATA AATA A
1 AATA A-ATA AATA A
8359069 CCCAAACAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 14 0.30
4 29 0.62
5 4 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (4 bp):
AATA
Found at i:8359035 original size:26 final size:24
Alignment explanation
Indices: 8359004--8359068 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 24
8358994 AAAACTTATA
8359004 ATAATAATAATAAATAAATAAATAA
1 ATAATAATAATAAATAAATAAAT-A
*
8359029 ATAAATAATAATAAAT-ATTAAATA
1 AT-AATAATAATAAATAAATAAATA
8359053 ATAATAAT-ATAAATAA
1 ATAATAATAATAAATAA
8359069 CCCAAACAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 6 0.16
23 7 0.19
24 3 0.08
25 8 0.22
26 13 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
ATAATAATAATAAATAAATAAATA
Found at i:8359042 original size:32 final size:32
Alignment explanation
Indices: 8359001--8359068 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
8358991 CTAAAAACTT
8359001 ATAATAAT-AATAATAAATAAATAAATAA-ATAA
1 ATAATAATAAATAATAAAT-AAT-AATAATATAA
*
8359033 ATAATAATAAATATTAAATAATAATAATATAA
1 ATAATAATAAATAATAAATAATAATAATATAA
8359065 ATAA
1 ATAA
8359069 CCCAAACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 5 0.15
32 19 0.58
33 9 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (32 bp):
ATAATAATAAATAATAAATAATAATAATATAA
Found at i:8359496 original size:19 final size:20
Alignment explanation
Indices: 8359474--8359519 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
8359464 TAAATTTATA
8359474 ATTTTTATAATTT-TGTTTT
1 ATTTTTATAATTTATGTTTT
* *
8359493 ATTTTTATATTTTATTTTTT
1 ATTTTTATAATTTATGTTTT
8359513 ATTTTTA
1 ATTTTTA
8359520 GGGTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
ATTTTTATAATTTATGTTTT
Found at i:8359504 original size:18 final size:19
Alignment explanation
Indices: 8359474--8359510 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8359464 TAAATTTATA
*
8359474 ATTTTTATAATTTTGTTTT
1 ATTTTTATAATTTTATTTT
8359493 ATTTTTAT-ATTTTATTTT
1 ATTTTTATAATTTTATTTT
8359511 TTATTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (19 bp):
ATTTTTATAATTTTATTTT
Found at i:8359505 original size:13 final size:12
Alignment explanation
Indices: 8359484--8359517 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
8359474 ATTTTTATAA
*
8359484 TTTTGTTTTATT
1 TTTTATTTTATT
8359496 TTTATATTTTATT
1 TTT-TATTTTATT
8359509 TTTTATTTT
1 TTTTATTTT
8359518 TAGGGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Done.