Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 4 of 130
Found at i:937335 original size:2 final size:2
Alignment explanation
Indices: 937328--937355 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
937318 CCACTAAGAC
937328 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
937356 CTATGAATTA
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:943290 original size:14 final size:13
Alignment explanation
Indices: 943249--943291 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
943239 TAGTTTATAT
943249 TTTTTATT-AAAA
1 TTTTTATTAAAAA
*
943261 TTTTTATTGAATAA
1 TTTTTATT-AAAAA
943275 TTTTTAATTAAAAA
1 TTTTT-ATTAAAAA
943289 TTT
1 TTT
943292 CATAAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 8 0.31
14 15 0.58
15 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TTTTTATTAAAAA
Found at i:944220 original size:25 final size:26
Alignment explanation
Indices: 944180--944231 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 26
944170 ATTTTACATA
944180 TTATTAATAAATTAAATAAT-AATATT
1 TTATTAATAAATTAAAT-ATCAATATT
944206 TTATTAATAAA-TAAATATCAATATT
1 TTATTAATAAATTAAATATCAATATT
944231 T
1 T
944232 AAAATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 2 0.08
25 12 0.48
26 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTAATAAATTAAATATCAATATT
Found at i:952513 original size:23 final size:24
Alignment explanation
Indices: 952482--952538 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
952472 TTGATTTTAA
* *
952482 TAAAAATTTAATTTCAA-TTAAAT
1 TAAATATTTAATTTAAATTTAAAT
*
952505 TAAATATTTAATTTAAATTTACAT
1 TAAATATTTAATTTAAATTTAAAT
952529 TAAAT-TTTAA
1 TAAATATTTAA
952539 AATTTATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAATATTTAATTTAAATTTAAAT
Found at i:957352 original size:18 final size:17
Alignment explanation
Indices: 957315--957367 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
957305 TGATACTATT
* *
957315 TTATATTAAATTTAATAA
1 TTATATTATA-TTAAAAA
957333 TTGATAATTA-ATTAAAAA
1 TT-AT-ATTATATTAAAAA
957351 TTATATTATATTAAAAA
1 TTATATTATATTAAAAA
957368 AACATGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.13
17 10 0.32
18 10 0.32
19 3 0.10
20 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TTATATTATATTAAAAA
Found at i:957840 original size:3 final size:3
Alignment explanation
Indices: 957832--957856 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
957822 ATTTTAATTT
957832 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
957857 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:957894 original size:15 final size:15
Alignment explanation
Indices: 957874--957904 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
957864 ATTATTAATT
*
957874 ATATAAAAATATAAA
1 ATATAAAAAAATAAA
957889 ATATAAAAAAATAAA
1 ATATAAAAAAATAAA
957904 A
1 A
957905 AGTAGTGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
ATATAAAAAAATAAA
Found at i:959005 original size:23 final size:23
Alignment explanation
Indices: 958979--959023 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
958969 TGAAAACAAG
*
958979 AAATAATTAAAAATATATATTAA
1 AAATAATAAAAAATATATATTAA
**
959002 AAATGCTAAAAAATATATATTA
1 AAATAATAAAAAATATATATTA
959024 TTATTATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATAATAAAAAATATATATTAA
Found at i:959305 original size:9 final size:8
Alignment explanation
Indices: 959292--959341 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 8
959282 TCCTAGGTTT
959292 CTAAAATC
1 CTAAAATC
959300 TCTAAAATC
1 -CTAAAATC
959309 C-AAAATCTC
1 CTAAAA--TC
959318 CTAAAATC
1 CTAAAATC
959326 C-AAAATC
1 CTAAAATC
959333 CTAAAATC
1 CTAAAATC
959341 C
1 C
959342 AACACCCTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 11 0.30
8 11 0.30
9 11 0.30
10 4 0.11
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (8 bp):
CTAAAATC
Found at i:959315 original size:7 final size:7
Alignment explanation
Indices: 959303--959365 Score: 54
Period size: 7 Copynumber: 8.0 Consensus size: 7
959293 TAAAATCTCT
959303 AAAATCC
1 AAAATCC
959310 AAAATCTCC
1 AAAA--TCC
959319 TAAAATCC
1 -AAAATCC
959327 AAAATCC
1 AAAATCC
959334 TAAAATCC
1 -AAAATCC
*
959342 AACACCCTCC
1 AA-A--ATCC
959352 AAAATCC
1 AAAATCC
959359 AAAATCC
1 AAAATCC
959366 CAAACCTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
7 23 0.49
8 11 0.23
9 4 0.09
10 9 0.19
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAATCC
Found at i:959323 original size:17 final size:17
Alignment explanation
Indices: 959294--959364 Score: 87
Period size: 17 Copynumber: 4.4 Consensus size: 17
959284 CTAGGTTTCT
959294 AAAATCT-CTAAAATCC
1 AAAATCTCCTAAAATCC
959310 AAAATCTCCTAAAATCC
1 AAAATCTCCTAAAATCC
959327 AAAA--TCCTAAAATCC
1 AAAATCTCCTAAAATCC
**
959342 AACACCCTCC-AAAATCC
1 AA-AATCTCCTAAAATCC
959359 AAAATC
1 AAAATC
959365 CCAAACCTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
15 13 0.27
16 10 0.21
17 22 0.46
18 3 0.06
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATCTCCTAAAATCC
Found at i:959337 original size:32 final size:32
Alignment explanation
Indices: 959294--959365 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
959284 CTAGGTTTCT
*
959294 AAAATCTCTAAAATCCAA-AATCTCCTAAAATCC
1 AAAATC-CTAAAATCCAACAACCTCC-AAAATCC
*
959327 AAAATCCTAAAATCCAACACCCTCCAAAATCC
1 AAAATCCTAAAATCCAACAACCTCCAAAATCC
959359 AAAATCC
1 AAAATCC
959366 CAAACCTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 25 0.69
33 11 0.31
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (32 bp):
AAAATCCTAAAATCCAACAACCTCCAAAATCC
Found at i:966464 original size:41 final size:41
Alignment explanation
Indices: 966400--966496 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
966390 TTAAAGTCTT
* *
966400 TGTTTAAGAAGAACCATTCTCAATCAAGATTTCAAAGCCTC
1 TGTTTAAGAGGAACCATTCTCAATCAAGATTTCAAAACCTC
966441 TGTTTAAGAGGAACCAATT-TCAATCAAGATTTCAAAACCTC
1 TGTTTAAGAGGAACC-ATTCTCAATCAAGATTTCAAAACCTC
966482 TGTTT-AGAGGGAACC
1 TGTTTAAGA-GGAACC
966497 TTTGTCAGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
40 3 0.06
41 46 0.88
42 3 0.06
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (41 bp):
TGTTTAAGAGGAACCATTCTCAATCAAGATTTCAAAACCTC
Found at i:966776 original size:22 final size:22
Alignment explanation
Indices: 966748--966809 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
966738 TTGAGATTTG
*
966748 TAAGACCTTCGGGCATAATCTC
1 TAAGACCTCCGGGCATAATCTC
* * * *
966770 TAAGACCTCCAGGTATGATTTC
1 TAAGACCTCCGGGCATAATCTC
*
966792 TAAAACCTCCGGGCATAA
1 TAAGACCTCCGGGCATAA
966810 ATTTGATTCG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAATCTC
Found at i:967063 original size:109 final size:107
Alignment explanation
Indices: 966770--967107 Score: 408
Period size: 110 Copynumber: 3.1 Consensus size: 107
966760 GCATAATCTC
* * * * *
966770 TAAGACCTCCAGGTATGATTTCTAAAACCTCCGGGCATAAATTTGATTCGCGATGTTATCCCGAT
1 TAAGACCTCCA-ATATGATTTCTAAGACCTCC-GACATAAATTTGATTCGTGATGTTATCTCGAT
* * * *
966835 CTATCCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCAATTTCG
64 CGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTT-G
* * * * * * *
966880 TAAGACTTCCAAGCATGATTTTTATGACCTCCGAGCGTAAATTCGATTCGTGATATTATCTCGAT
1 TAAGACCTCCAA-TATGATTTCTAAGACCTCCGA-CATAAATTTGATTCGTGATGTTATCTCGAT
*
966945 CGATTCTTTATCTTTTGACTTGTGGTGTTATCCTAGTCGATTATG
64 CGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATT-TG
* *
966990 TAAGACCTCCGAATATGA-TTCTAAGACCTCCTGACAAAAATTTGATTCGTGGTGTTATCTCGAT
1 TAAGACCTCC-AATATGATTTCTAAGACCTCC-GACATAAATTTGATTCGTGATGTTATCTCGAT
*
967054 CGATTCTTTATCTTTTGACTTGTGATGTTATCCCAGTCGATTCTG
64 CGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATT-TG
967099 TAAGACCTC
1 TAAGACCTC
967108 TGAGCATAAC
Statistics
Matches: 194, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
109 88 0.45
110 103 0.53
111 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (107 bp):
TAAGACCTCCAATATGATTTCTAAGACCTCCGACATAAATTTGATTCGTGATGTTATCTCGATCG
ATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTTG
Found at i:967186 original size:133 final size:133
Alignment explanation
Indices: 966988--968190 Score: 666
Period size: 133 Copynumber: 9.1 Consensus size: 133
966978 TAGTCGATTA
*** * * * * ** *
966988 TGTAAGACCTCCGAATATGA-TTCTAAGACCTCCTGACAAAAATTTGATTCGTGGTGTTATCTCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTCGGACATAAATTTGATTCACGATGTTATCTCG
* *
967052 ATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCTGAGCATAA
66 ATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAGTCGATTCTGTAAGACCTCTGAGCATAA
*
967117 CTC
131 TTC
*
967120 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTCGGACATAATTTTGATTCACGATGTTATCTCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTCGGACATAAATTTGATTCACGATGTTATCTCG
* * *
967185 ATCGATTCTTTATCTTTTGAC-TGTGGTGTTATTTCAGTCGATTCTGTAAGACCT-TCGAACATG
66 ATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAGTCGATTCTGTAAGACCTCT-GAGCATA
*
967248 ATTT
130 ATTC
* * * * * * * *
967252 TATAAGATCTTCAGGCATGATTTCTAAGA-TCTCAGGCCATAAATTCGATTCACGATGTTATCCC
1 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTC-GGACATAAATTTGATTCACGATGTTATCTC
* ** * * *
967316 GATCGA-TCTTTTATTTTTTGACTTACGGTGTTATCTTAGTCAATTCTGTAAGACCTCCG-G-AT
65 GATCGATTC-TTTATCTTTTGACTTGTGGTGTTATCTCAGTCGATTCTGTAAGACCTCTGAGCAT
967378 AATTC
129 AATTC
* * * * * * ** * * *
967383 TGTAAGACCTTCAGACATAATTTTTAAGAC---C--TC-TAAACATGATTC-TGTAAG--ACCTC
1 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTCGGACATAAATTTGATTCACG-ATGTTATCTC
** * ** ** * * * * *
967439 ---CG-GGC-ATA-AATTTGA-TTCACGGTGTTATC-CCGATCGATTCTTTATCTTTTGACTTAT
65 GATCGATTCTTTATCTTTTGACTT-GTGGTGTTATCTCAG-TCGATTCTGTA-----AGACCTCT
* *
967496 GGTATTATCTCAGTCGATTC
123 -G----A--GCA-T-AATTC
* * * * * * * * *
967516 TGTAAGACCTTC-GACATGATTTCTATGACCTCCTGATAGAAATTTGATTCGCGATGTTATCTCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTCGGACATAAATTTGATTCACGATGTTATCTCG
* * * * * * *
967580 ATCTATTTTTTATCTTTTGACTTGTGGTATTATC-CTAGTCGATTATGTAAGATCT-TCGGGTAT
66 ATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTC-AGTCGATTCTGTAAGACCTCT-GAGCAT
*
967643 GATTC
129 AATTC
** * * * * * * *
967648 TGTAAGATATCCGAGCATGATTTTTAAGACCTCCAGG-TATAATTTTGATTCACGGTGTTATCTC
1 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTC-GGACATAAATTTGATTCACGATGTTATCTC
* * * * * * *
967712 GATCGATTCGTTATCTTTTAACTAGTGGTGTTAT-TCCAATTGATTCTGTAAGACCTCAGAGTAT
65 GATCGATTCTTTATCTTTTGACTTGTGGTGTTATCT-CAGTCGATTCTGTAAGACCTCTGAGCAT
*
967776 GATTC
129 AATTC
* * * *
967781 TGTAAGACCTCCGGGCATGACTTCTAAGAC-CTCATGACATAAAATTGATT--CGTAGTGTTAT-
1 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTC-GGACATAAATTTGATTCACG-A-TGTTATC
* * *
967842 TCTGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTTTGTAAGACCT-TCGGG
63 TC-GATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAGTCGATTCTGTAAGACCTCT-GAG
*
967906 CATGATTC
126 CATAATTC
* * * * * ** * *
967914 TGTAAGACCTTCGAGTATGACTTT-TAAGAC-CTCCGAGCATAAATTTGATTCGTGGTGTTATCC
1 TGTAAGACCTCCGGGCATGA-TTTCTAAGACTTTCGGA-CATAAATTTGATTCACGATGTTATCT
* * * *
967977 CGATCGATTTTTTATCTTTTGACTTGTGGTGTTATC-CTAATCGATTCTATAAGACCTC-CAGAC
64 CGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTC-AGTCGATTCTGTAAGACCTCTGAG-C
*
968040 ATGATTC
127 ATAATTC
* * * * * * *
968047 TATAAGATCTCCGGGCATGATTTCTAAAACTTTCGGGCATAAATTTGATTCGCGGTGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACTTTCGGACATAAATTTGATTCACGATGTTATCTCG
* * * * * * * * *
968112 ATCGTTTCTTTATCTTTTGACTTATGGTATTATCGCAGTCGATTTTGTAAG-TCTTTCGGGCATG
66 ATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAGTCGATTCTGTAAGACCTCT-GAGCATA
968176 ATTC
130 ATTC
968180 TGTAAGACCTC
1 TGTAAGACCTC
968191 TGAGCATAAA
Statistics
Matches: 824, Mismatches: 179, Indels: 135
0.72 0.16 0.12
Matches are distributed among these distances:
116 3 0.00
117 25 0.03
118 2 0.00
120 3 0.00
122 4 0.00
123 4 0.00
124 1 0.00
125 11 0.01
126 1 0.00
129 1 0.00
131 38 0.05
132 166 0.20
133 502 0.61
134 11 0.01
135 2 0.00
138 11 0.01
139 1 0.00
140 6 0.01
141 3 0.00
143 1 0.00
145 2 0.00
146 23 0.03
147 3 0.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (133 bp):
TGTAAGACCTCCGGGCATGATTTCTAAGACTTTCGGACATAAATTTGATTCACGATGTTATCTCG
ATCGATTCTTTATCTTTTGACTTGTGGTGTTATCTCAGTCGATTCTGTAAGACCTCTGAGCATAA
TTC
Found at i:967288 original size:21 final size:23
Alignment explanation
Indices: 967244--967288 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
967234 GACCTTCGAA
967244 CATGATTTTATAAGATCTTCAGG
1 CATGATTTTATAAGATCTTCAGG
*
967267 CATGA-TTTCTAAGATC-TCAGG
1 CATGATTTTATAAGATCTTCAGG
967288 C
1 C
967289 CATAAATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 10 0.48
23 5 0.24
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (23 bp):
CATGATTTTATAAGATCTTCAGG
Found at i:967436 original size:23 final size:24
Alignment explanation
Indices: 967376--967438 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 24
967366 AGACCTCCGG
*
967376 ATAATTCTGTAAGACCT-TCAGAC
1 ATAATTCTGTAAGACCTCTCAAAC
*
967399 ATAATT-TTTAAGACCTCT-AAAC
1 ATAATTCTGTAAGACCTCTCAAAC
*
967421 ATGATTCTGTAAGACCTC
1 ATAATTCTGTAAGACCTC
967439 CGGGCATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (24 bp):
ATAATTCTGTAAGACCTCTCAAAC
Found at i:967505 original size:154 final size:154
Alignment explanation
Indices: 967225--967525 Score: 403
Period size: 154 Copynumber: 2.0 Consensus size: 154
967215 ATTTCAGTCG
* * ** *
967225 ATTCTGTAAGACCTTCGAACATGATTTTATAAGATCTTCAGGCATGATTTCTAAGATCTCAGGCC
1 ATTCTGTAAGACCTTCGAACATAATTTTATAAGACCTTCAAACATGATTTCTAAGACCTCAGGCC
* * *
967290 ATAAATTCGATTCACGATGTTATCCCGATCGATCTTTTATTTTTTGACTTACGGTGTTATCTTAG
66 ATAAATTCGATTCACGATGTTATCCCGATCGATCTTTTATCTTTTGACTTACGGTATTATCTCAG
967355 TCAATTCTGTAAGACCTCCGGATA
131 TCAATTCTGTAAGACCTCCGGATA
* *
967379 ATTCTGTAAGACCTTC-AGACATAATTTT-TAAGACC-TCTAAACATGATTCTGTAAGACCTCCG
1 ATTCTGTAAGACCTTCGA-ACATAATTTTATAAGACCTTC-AAACATGATT-TCTAAGACCTCAG
* * * *
967441 GGCATAAATTTGATTCACGGTGTTATCCCGATCGAT-TCTTTATCTTTTGACTTATGGTATTATC
63 GCCATAAATTCGATTCACGATGTTATCCCGATCGATCT-TTTATCTTTTGACTTACGGTATTATC
*
967505 TCAGTCGATTCTGTAAGACCT
127 TCAGTCAATTCTGTAAGACCT
967526 TCGACATGAT
Statistics
Matches: 128, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
152 2 0.02
153 16 0.12
154 110 0.86
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (154 bp):
ATTCTGTAAGACCTTCGAACATAATTTTATAAGACCTTCAAACATGATTTCTAAGACCTCAGGCC
ATAAATTCGATTCACGATGTTATCCCGATCGATCTTTTATCTTTTGACTTACGGTATTATCTCAG
TCAATTCTGTAAGACCTCCGGATA
Found at i:967800 original size:23 final size:23
Alignment explanation
Indices: 967752--967814 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
967742 TTATTCCAAT
*
967752 TGATTCTGTAAGACCTCAGAGTA
1 TGATTCTGTAAGACCTCAGAGCA
* *
967775 TGATTCTGTAAGACCTCCGGGCA
1 TGATTCTGTAAGACCTCAGAGCA
967798 TGACTTC--TAAGACCTCA
1 TGA-TTCTGTAAGACCTCA
967815 TGACATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.26
23 23 0.66
24 3 0.09
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (23 bp):
TGATTCTGTAAGACCTCAGAGCA
Found at i:967897 original size:266 final size:264
Alignment explanation
Indices: 967511--968197 Score: 819
Period size: 266 Copynumber: 2.6 Consensus size: 264
967501 TATCTCAGTC
* * * * * *
967511 GATTCTGTAAGACCTTC-GACATGATTTCTATGACCTCCTGATAGAAATTTGATTCGCGATGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCT-CTGACATAAATTTGATTCGAG-TGTTA
* * * *
967575 -TCTCGATCTATTTTTTATCTTTTGACTTGTGGTATTATCCTAGTCGATTATGTAAGATCTTCGG
64 TTCT-GATCGATTCTTTATCTTTTGACTTGTGGTATTATCCCAGTCGATTTTGTAAGATCTTCGG
* * * * *
967639 GTATGATTCTGTAAGATATCCGAGCATGATTTTTAAGACCTCC-AGGTATAATTTTGATTCACGG
128 GCATGATTCTGTAAGACATCCGAGCATGACTTTTAAGACCTCCGA-GCATAAATTTGATTCACGG
* * *
967703 TGTTATCTCGATCGATTCGTTATCTTTTAACTAGTGGTGTTATTCC-AATTGATTCTGTAAGACC
192 TGTTATCCCGATCGATTCGTTATCTTTTAACTAGTGGTGTTA-TCCTAATCGATTCTATAAGACC
*
967767 T-CAGAGTAT
256 TCCAGA-CAT
* *
967776 GATTCTGTAAGACCTCCGGGCATGACTTCTAAGACCTCATGACATAAAATTGATTCGTAGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTC-TGACATAAATTTGATTCG-AGTGTTA
* *
967841 TTCTGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTTTGTAAGACCTTCGGG
64 TTCTGATCGATTCTTTATCTTTTGACTTGTGGTATTATCCCAGTCGATTTTGTAAGATCTTCGGG
* * * **
967906 CATGATTCTGTAAGACCTTCGAGTATGACTTTTAAGACCTCCGAGCATAAATTTGATTCGTGGTG
129 CATGATTCTGTAAGACATCCGAGCATGACTTTTAAGACCTCCGAGCATAAATTTGATTCACGGTG
** * *
967971 TTATCCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTATCCTAATCGATTCTATAAGACCTCC
194 TTATCCCGATCGATTCGTTATCTTTTAACTAGTGGTGTTATCCTAATCGATTCTATAAGACCTCC
968036 AGACAT
259 AGACAT
* * * * * * *
968042 GATTCTATAAGATCTCCGGGCATGATTTCTAAAACTTTCGGGCATAAATTTGATTCGCGGTGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGAC-CTCTGACATAAATTTGATTCG-AGTGTTA
* * * * *
968107 TCCCGATCGTTTCTTTATCTTTTGACTTATGGTATTATCGCAGTCGATTTTGTAAG-TCTTTCGG
64 TTCTGATCGATTCTTTATCTTTTGACTTGTGGTATTATCCCAGTCGATTTTGTAAGATC-TTCGG
* *
968171 GCATGATTCTGTAAGACCTCTGAGCAT
128 GCATGATTCTGTAAGACATCCGAGCAT
968198 AAATTTGATT
Statistics
Matches: 361, Mismatches: 52, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
265 21 0.06
266 329 0.91
267 11 0.03
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.39
Consensus pattern (264 bp):
GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGACATAAATTTGATTCGAGTGTTATT
CTGATCGATTCTTTATCTTTTGACTTGTGGTATTATCCCAGTCGATTTTGTAAGATCTTCGGGCA
TGATTCTGTAAGACATCCGAGCATGACTTTTAAGACCTCCGAGCATAAATTTGATTCACGGTGTT
ATCCCGATCGATTCGTTATCTTTTAACTAGTGGTGTTATCCTAATCGATTCTATAAGACCTCCAG
ACAT
Found at i:967912 original size:23 final size:23
Alignment explanation
Indices: 967886--967953 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
967876 TATCCCAGTC
*
967886 GATTTTGTAAGACCTTCGGGCAT
1 GATTTTGTAAGACCTTCGAGCAT
* *
967909 GATTCTGTAAGACCTTCGAGTAT
1 GATTTTGTAAGACCTTCGAGCAT
* *
967932 GACTTT-TAAGACCTCCGAGCAT
1 GATTTTGTAAGACCTTCGAGCAT
967954 AAATTTGATT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 14 0.37
23 24 0.63
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
GATTTTGTAAGACCTTCGAGCAT
Found at i:968046 original size:399 final size:384
Alignment explanation
Indices: 966981--968520 Score: 1072
Period size: 399 Copynumber: 4.0 Consensus size: 384
966971 GTTATCCTAG
* *** *
966981 TCGATTATGTAAGACCTCCGAATATGATTC-TAAGACCTCCTGA-CA-AAAATTTGATTCGTGGT
1 TCGATTTTGTAAGACCTCCGGGCATGATTCGTAAGACCT-CTGAGCATAAAA-TTGATTCGAGGT
* *
967043 GTTATCTCGATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCAGTCGATTCTGTAAGACC-T
64 ATTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTT
* * * * *
967107 CTGAGCATAACTCTGTAAGACCTCCGGGCATGATTTCTAAGACTTTCG-GACATAATTTTGATTC
129 C-GAG-AT---TCTGTAAGACCTTCGAG-ATGATTT-TAAGACCTCCGAG-CATAAATTTGATTC
** * * * *
967171 ACGATGTTATCTCGATCGATTCTTTATCTTTTGAC-TGTGGTGTTAT-TTCAGTCGATTCTGTAA
186 GTGGTGTTATCCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTATCCT-AGTCGATTCTGTAA
* * * * * * * * * * *
967234 GACCTTCGAACATGATTTTATAAGATCTTCAGGCATGATTTCTAAGATCTCAGGCCATAAATTCG
250 GACCTCCGGACATGATTCTGTAAGATCTCCGGGCATGATTTCTAAGACCTCCGG-TATAATTTTG
* * *
967299 ATTCACGATGTTATCCCGATCGA-TCTTTTATTTTTTGACTTA-CGGTGTTATCTTAGTCAATTC
314 ATTCACGGTGTTAT-CCGATCGATTC-TTTATCTTTTGAC-TAGTGGTGTTA---T--TC----C
*
967362 TGTAAGACCTCCGGATAATTCTGTAAGACC
367 ----A-A--T-----TGATTCTGTAAGACC
* **** * * *
967392 TTCAGACATAATTTTTAAGACCTCTAAACATGATTCTGTAAGACCTCCGGGCATAAATTTGATTC
1 -TC-G--AT--TTTGTAAGACCTCCGGGCATGATTC-GTAAGACCTCTGAGCATAAAATTGATTC
* * * * *
967457 -ACGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTATGGTATTATCTCAGTCGATTCTGTAA
59 GA-GGTATTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAA
* * * *
967521 GACCTTC--GA--C------A---T---GAT--TTCTATGACCTCCTGA-TAGAAATTTGATTCG
123 GACCTTCGAGATTCTGTAAGACCTTCGAGATGATTTTAAGACCTCC-GAGCATAAATTTGATTCG
* * * * * *
967567 CGATGTTATCTCGATCTATTTTTTATCTTTTGACTTGTGGTATTATCCTAGTCGATTATGTAAGA
187 TGGTGTTATCCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTATCCTAGTCGATTCTGTAAGA
* * ** * * *
967632 TCTTCGGGTATGATTCTGTAAGATATCCGAGCATGATTTTTAAGACCTCCAGGTATAATTTTGAT
252 CCTCCGGACATGATTCTGTAAGATCTCCGGGCATGATTTCTAAGACCTCC-GGTATAATTTTGAT
* *
967697 TCACGGTGTTATCTCGATCGATTCGTTATCTTTTAACTAGTGGTGTTATTCCAATTGATTCTGTA
316 TCACGGTGTTATC-CGATCGATTCTTTATCTTTTGACTAGTGGTGTTATTCCAATTGATTCTGTA
967762 AGACC
380 AGACC
967767 TCAGAGTATGATTCTGTAAGACCTCCGGGCATGACTTC-TAAGACCTCATGA-CATAAAATTGAT
1 TC---G-AT--TT-TGTAAGACCTCCGGGCATGA-TTCGTAAGACCTC-TGAGCATAAAATTGAT
* *
967830 TCGTA-GTGTTAT-TCTGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTTTG
57 TCG-AGGTATTATCTC-GATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTG
967893 TAAGACCTTCGGGCATGATTCTGTAAGACCTTCGAGTATGACTTTTAAGACCTCCGAGCATAAAT
120 TAAGACCTTC--G-A-GATTCTGTAAGACCTTCGAG-ATGA-TTTTAAGACCTCCGAGCATAAAT
*
967958 TTGATTCGTGGTGTTATCCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTATCCTAATCGATT
179 TTGATTCGTGGTGTTATCCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTATCCTAGTCGATT
* * * * * * *
968023 CTATAAGACCTCCAGACATGATTCTATAAGATCTCCGGGCATGATTTCTAAAACTTTCGGGCATA
244 CTGTAAGACCTCCGGACATGATTCTGTAAGATCTCCGGGCATGATTTCTAAGAC-CTCCGGTATA
* * *
968088 AATTTGATTCGCGGTGTTATCCCGATCGTTTCTTTATCTTTTGACTTA-T-G-G----T---ATT
308 ATTTTGATTCACGGTGTTAT-CCGATCGATTCTTTATCTTTTGAC-TAGTGGTGTTATTCCAATT
*
968143 -A-TC-G-CAG---
371 GATTCTGTAAGACC
* * * *
968150 TCGATTTTGTAAGTCTTTCGGGCATGATTCTGTAAGACCTCTGAGCATAAATTTGATTCGAGGTA
1 TCGATTTTGTAAGACCTCCGGGCATGATTC-GTAAGACCTCTGAGCATAAAATTGATTCGAGGTA
968215 TTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTTC
65 TTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTTC
* ** *
968280 GA-A--C------A---T---GAT--TTTTAAGACCTCCGCGCATAAATTCAATTCATGGTGTTA
130 GAGATTCTGTAAGACCTTCGAGATGATTTTAAGACCTCCGAGCATAAATTTGATTCGTGGTGTTA
* * * **
968328 TCCCGATCGATTCTTTATCTTTTAACTTGTAGTGTTATTTTAGTCGATTCTGTAAGACCTCCGGA
195 TCCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTATCCTAGTCGATTCTGTAAGACCTCCGGA
* * * * * *
968393 CATAATTTTGTAAGACCTCTGGGCATGATTTCTAAGACCTCCGGATATAATTTTGATTCACGATA
260 CATGATTCTGTAAGATCTCCGGGCATGATTTCTAAGACCTCCGG-TATAATTTTGATTCACGGTG
* * * *
968458 TTATCCGATAGATTCTTTATCTTTTGACTTGTGGTGTTATTCCAGTCGATTCTGTAAGACC
324 TTATCCGATCGATTCTTTATCTTTTGACTAGTGGTGTTATTCCAATTGATTCTGTAAGACC
968519 TC
1 TC
968521 CGGGCATAAA
Statistics
Matches: 917, Mismatches: 133, Indels: 199
0.73 0.11 0.16
Matches are distributed among these distances:
352 1 0.00
353 27 0.03
354 144 0.16
355 1 0.00
357 2 0.00
358 1 0.00
359 1 0.00
361 1 0.00
362 1 0.00
363 1 0.00
364 3 0.00
365 1 0.00
366 2 0.00
369 2 0.00
370 1 0.00
372 1 0.00
374 4 0.00
375 106 0.12
376 39 0.04
377 92 0.10
378 2 0.00
379 2 0.00
380 2 0.00
381 2 0.00
382 1 0.00
383 4 0.00
386 2 0.00
387 2 0.00
388 2 0.00
389 2 0.00
390 3 0.00
391 2 0.00
392 1 0.00
393 2 0.00
395 54 0.06
396 111 0.12
397 6 0.01
398 5 0.01
399 162 0.18
400 5 0.01
405 1 0.00
411 1 0.00
412 2 0.00
413 1 0.00
415 2 0.00
416 1 0.00
417 21 0.02
418 2 0.00
419 78 0.09
420 5 0.01
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (384 bp):
TCGATTTTGTAAGACCTCCGGGCATGATTCGTAAGACCTCTGAGCATAAAATTGATTCGAGGTAT
TATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTTCG
AGATTCTGTAAGACCTTCGAGATGATTTTAAGACCTCCGAGCATAAATTTGATTCGTGGTGTTAT
CCCGATCGATTTTTTATCTTTTGACTTGTGGTGTTATCCTAGTCGATTCTGTAAGACCTCCGGAC
ATGATTCTGTAAGATCTCCGGGCATGATTTCTAAGACCTCCGGTATAATTTTGATTCACGGTGTT
ATCCGATCGATTCTTTATCTTTTGACTAGTGGTGTTATTCCAATTGATTCTGTAAGACC
Found at i:968049 original size:23 final size:23
Alignment explanation
Indices: 968019--968068 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
968009 TATCCTAATC
968019 GATTCTATAAGACCTCCAGACAT
1 GATTCTATAAGACCTCCAGACAT
* * *
968042 GATTCTATAAGATCTCCGGGCAT
1 GATTCTATAAGACCTCCAGACAT
968065 GATT
1 GATT
968069 TCTAAAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (23 bp):
GATTCTATAAGACCTCCAGACAT
Found at i:968287 original size:111 final size:110
Alignment explanation
Indices: 968083--968418 Score: 413
Period size: 111 Copynumber: 3.0 Consensus size: 110
968073 AAACTTTCGG
* * * * *
968083 GCATAAATTTGATTCGCGGTGTTATCCCGATCGTTTCTTTATCTTTTGACTTATGGTATTATCGC
1 GCATAAATTTGATTCGAGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCC
* * * *
968148 AGTCGATTTTGTAAGTCTTTCGGGCATGATTCTGTAAGACCTCTGA
66 AGTCGATTCTGTAAGACCTTCGGACATGATT-TGTAAGACCTCTGA
* *
968194 GCATAAATTTGATTCGAGGTATTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCC
1 GCATAAATTTGATTCGAGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCC
* * * *
968259 AGTCGATTCTGTAAGACCTTCGAACATGATTTTTAAGACCTCCGC
66 AGTCGATTCTGTAAGACCTTCGGACATGATTTGTAAGACCTCTGA
** * * **
968304 GCATAAATTCAATTC-ATGGTGTTATCCCGATCGATTCTTTATCTTTTAACTTGTAGTGTTATTT
1 GCATAAATTTGATTCGA-GGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCC
* * * *
968368 TAGTCGATTCTGTAAGACCTCCGGACATAATTTTGTAAGACCTCTGG
65 CAGTCGATTCTGTAAGACCTTCGGACATGA-TTTGTAAGACCTCTGA
968415 GCAT
1 GCAT
968419 GATTTCTAAG
Statistics
Matches: 193, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
109 1 0.01
110 91 0.47
111 101 0.52
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (110 bp):
GCATAAATTTGATTCGAGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCC
AGTCGATTCTGTAAGACCTTCGGACATGATTTGTAAGACCTCTGA
Found at i:968356 original size:110 final size:110
Alignment explanation
Indices: 968042--968411 Score: 391
Period size: 110 Copynumber: 3.3 Consensus size: 110
968032 CTCCAGACAT
* * * * * * * * * ** *
968042 GATTCTATAAGATCTCCGGGCATGATTTCTAAAACTTTCGGGCATAAATTTGATTCGCGGTGTTA
1 GATTCTGTAAGACCTTCGGACATGATTTTTAAGACCTCCGAGCATAAATTCAATTCGAGGTGTTA
* * * *
968107 TCCCGATCGTTTCTTTATCTTTTGACTTATGGTATTATCGCAGTC
66 TCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTC
* * * * * * ** *
968152 GATTTTGTAAGTCTTTCGGGCATGATTCTGTAAGACCTCTGAGCATAAATTTGATTCGAGGTATT
1 GATTCTGTAAGACCTTCGGACATGATT-TTTAAGACCTCCGAGCATAAATTCAATTCGAGGTGTT
*
968217 ATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTC
65 ATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTC
* *
968263 GATTCTGTAAGACCTTCGAACATGATTTTTAAGACCTCCGCGCATAAATTCAATTC-ATGGTGTT
1 GATTCTGTAAGACCTTCGGACATGATTTTTAAGACCTCCGAGCATAAATTCAATTCGA-GGTGTT
* * ***
968327 ATCCCGATCGATTCTTTATCTTTTAACTTGTAGTGTTATTTTAGTC
65 ATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTC
* *
968373 GATTCTGTAAGACCTCCGGACATAATTTTGTAAGACCTC
1 GATTCTGTAAGACCTTCGGACATGATTTT-TAAGACCTC
968412 TGGGCATGAT
Statistics
Matches: 218, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
109 1 0.00
110 116 0.53
111 101 0.46
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (110 bp):
GATTCTGTAAGACCTTCGGACATGATTTTTAAGACCTCCGAGCATAAATTCAATTCGAGGTGTTA
TCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTC
Found at i:968408 original size:23 final size:23
Alignment explanation
Indices: 968378--968447 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 23
968368 TAGTCGATTC
968378 TGTAAGACCTCCGGACATAATTT
1 TGTAAGACCTCCGGACATAATTT
* * *
968401 TGTAAGACCTCTGGGCATGA-TT
1 TGTAAGACCTCCGGACATAATTT
* *
968423 TCTAAGACCTCCGGATATAATTT
1 TGTAAGACCTCCGGACATAATTT
968446 TG
1 TG
968448 ATTCACGATA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 17 0.46
23 20 0.54
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (23 bp):
TGTAAGACCTCCGGACATAATTT
Found at i:968562 original size:220 final size:220
Alignment explanation
Indices: 968292--968740 Score: 578
Period size: 220 Copynumber: 2.0 Consensus size: 220
968282 ACATGATTTT
* *
968292 TAAGACCTCCGCGCATAAATTCAATTCATGGTGTTATCCCGATCGATTCTTTATCTTTTAACTTG
1 TAAGACCTCCGCGCATAAATTCAATTCATGGTGTTATCCCGATCGATTCTTTATCTTTCAACTTA
* * * *
968357 TAGTGTTATTTTAGTCGATTCTGTAAGACCTCCGGACATAATTTTGTAAGACCTCTGGGCATGAT
66 TAGTGTTATCTCAGTCGATTCTGTAAGACCTCCGGACATAATTCTGTAAGACCTCCGGGCATGAT
* * * * *
968422 TTCTAAGACCTCCGGATATAATTTTGATTC-ACGATATTATCC-GATAGATTCTTTATCTTTTGA
131 GTCTAAAACCTCCGGACATAAATTTGATTCTA-G-TATTATCCTGATAGATTCTTTATCTTTTAA
** * * *
968485 CTTGTGGTGTTATTCCAGTCGATTCTG
194 CTTACGGTATTATCCCAATCGATTCTG
* * * * * *
968512 TAAGACCTCCGGGCATAAATTCGATTCGTGGTGTTATCTCGATTGATTCTTTATCTTTCGACTTA
1 TAAGACCTCCGCGCATAAATTCAATTCATGGTGTTATCCCGATCGATTCTTTATCTTTCAACTTA
* * * *
968577 TGGTGTTATCTCAGTTGATTCTGTAAGACCTTCGGACATGATTCTGTAAGACCTCCGGGCATGAT
66 TAGTGTTATCTCAGTCGATTCTGTAAGACCTCCGGACATAATTCTGTAAGACCTCCGGGCATGAT
* * * *
968642 GTCTAAAACCTCCGGGCATAAATTTGATTCTTAGTGTTATCCTGATTGATTCTTTATTTTTTAAC
131 GTCTAAAACCTCCGGACATAAATTTGATTC-TAGTATTATCCTGATAGATTCTTTATCTTTTAAC
*
968707 TTACGGTATTATCCCAATTGATTCTG
195 TTACGGTATTATCCCAATCGATTCTG
968733 TAAGACCT
1 TAAGACCT
968741 TCGGATATGA
Statistics
Matches: 195, Mismatches: 31, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
220 146 0.75
221 48 0.25
222 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (220 bp):
TAAGACCTCCGCGCATAAATTCAATTCATGGTGTTATCCCGATCGATTCTTTATCTTTCAACTTA
TAGTGTTATCTCAGTCGATTCTGTAAGACCTCCGGACATAATTCTGTAAGACCTCCGGGCATGAT
GTCTAAAACCTCCGGACATAAATTTGATTCTAGTATTATCCTGATAGATTCTTTATCTTTTAACT
TACGGTATTATCCCAATCGATTCTG
Found at i:968622 original size:23 final size:23
Alignment explanation
Indices: 968592--968641 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
968582 TTATCTCAGT
*
968592 TGATTCTGTAAGACCTTCGGACA
1 TGATTCTGTAAGACCTCCGGACA
*
968615 TGATTCTGTAAGACCTCCGGGCA
1 TGATTCTGTAAGACCTCCGGACA
968638 TGAT
1 TGAT
968642 GTCTAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
TGATTCTGTAAGACCTCCGGACA
Found at i:968635 original size:111 final size:111
Alignment explanation
Indices: 968080--968638 Score: 403
Period size: 111 Copynumber: 5.1 Consensus size: 111
968070 CTAAAACTTT
* * * * *
968080 CGGGCATAAATTTGATTCGCGGTGTTATCCCGATCGTTTCTTTATCTTTTGACTTATGGTATTAT
1 CGGGCATAAATTCGATTCGTGGTGTTATCTCGATCGATTCTTTATCTTTTGACTTATGGTGTTAT
* * * * *
968145 CGCAGTCGATTTTGTAAGTCTTTCGGGCATGATTCTGTAAGACCTC
66 CTCAGTCGATTCTGTAAGACCTTCGGACATGATTCTGTAAGACCTC
* * * * * *
968191 TGAGCATAAATTTGATTCGAGGTATTATCTCGATCGATTCTTTATCTTTTGACTTGTGGTGTTAT
1 CGGGCATAAATTCGATTCGTGGTGTTATCTCGATCGATTCTTTATCTTTTGACTTATGGTGTTAT
* * *
968256 CCCAGTCGATTCTGTAAGACCTTCGAACATGATT-TTTAAGACCTC
66 CTCAGTCGATTCTGTAAGACCTTCGGACATGATTCTGTAAGACCTC
* * * * * * *
968301 CGCGCATAAATTCAATTCATGGTGTTATCCCGATCGATTCTTTATCTTTTAACTTGTAGTGTTAT
1 CGGGCATAAATTCGATTCGTGGTGTTATCTCGATCGATTCTTTATCTTTTGACTTATGGTGTTAT
* * * * *
968366 TTTAGTCGATTCTGTAAGACCTCCGGACATAATTTTGTAAGACCTC
66 CTCAGTCGATTCTGTAAGACCTTCGGACATGATTCTGTAAGACCTC
* * * * * * * * * * * *
968412 TGGGCATGATTTCTAAGACCTCCG-GATATAATTTTGATTCACGA-T-ATTATC---CGA-TAGA
1 CGGGCATAAATTC---GA--TTCGTGGTGTTATCTCGA-T--CGATTCTTTATCTTTTGACT-TA
** * * * ***
968470 TTCT-TTATCT--TTTGACTTGTGGT--GTTATTC---CAGTCGATTCTGTAAGACCTC
57 TGGTGTTATCTCAGTCGA-TTCT-GTAAGACCTTCGGACA-T-GATTCTGTAAGACCTC
* *
968521 CGGGCATAAATTCGATTCGTGGTGTTATCTCGATTGATTCTTTATCTTTCGACTTATGGTGTTAT
1 CGGGCATAAATTCGATTCGTGGTGTTATCTCGATCGATTCTTTATCTTTTGACTTATGGTGTTAT
*
968586 CTCAGTTGATTCTGTAAGACCTTCGGACATGATTCTGTAAGACCTC
66 CTCAGTCGATTCTGTAAGACCTTCGGACATGATTCTGTAAGACCTC
968632 CGGGCAT
1 CGGGCAT
968639 GATGTCTAAA
Statistics
Matches: 338, Mismatches: 81, Indels: 58
0.71 0.17 0.12
Matches are distributed among these distances:
102 2 0.01
103 1 0.00
104 9 0.03
105 8 0.02
106 2 0.01
107 8 0.02
108 10 0.03
109 27 0.08
110 107 0.32
111 130 0.38
112 9 0.03
113 5 0.01
114 1 0.00
115 7 0.02
116 8 0.02
117 1 0.00
118 3 0.01
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (111 bp):
CGGGCATAAATTCGATTCGTGGTGTTATCTCGATCGATTCTTTATCTTTTGACTTATGGTGTTAT
CTCAGTCGATTCTGTAAGACCTTCGGACATGATTCTGTAAGACCTC
Found at i:969036 original size:10 final size:10
Alignment explanation
Indices: 969018--969047 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
969008 AATTATTAAT
*
969018 TATATAAAAA
1 TATAAAAAAA
969028 TATAAAAAAA
1 TATAAAAAAA
969038 TATAAAAAAA
1 TATAAAAAAA
969048 AACAAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
TATAAAAAAA
Found at i:970458 original size:16 final size:15
Alignment explanation
Indices: 970440--970622 Score: 133
Period size: 17 Copynumber: 11.7 Consensus size: 15
970430 TAGATTTCTA
970440 AAAACCCTAAAATCC
1 AAAACCCTAAAATCC
*
970455 AAAATCTACTAAAATCC
1 AAAA-C-CCTAAAATCC
*
970472 AAAATCCTAAAATCC
1 AAAACCCTAAAATCC
*
970487 GAAACCCCTAAAAATCC
1 -AAAACCCT-AAAATCC
* *
970504 AAACCCCTAAAAATTCG
1 AAAACCCT-AAAA-TCC
*
970521 AAACCCCTAAAATCC
1 AAAACCCTAAAATCC
970536 AAAACCCTCCAAAATCC
1 AAAACCCT--AAAATCC
970553 AAAATCCC--AAA-CC
1 AAAA-CCCTAAAATCC
* ** *
970566 TTTAAATTCTTAAATCC
1 --AAAACCCTAAAATCC
970583 -AAACCCTAAAATCC
1 AAAACCCTAAAATCC
970597 AAAATCCCTAAAAT-C
1 AAAA-CCCTAAAATCC
970612 AAAACCCTAAA
1 AAAACCCTAAA
970623 CCTTTTATAT
Statistics
Matches: 139, Mismatches: 14, Indels: 31
0.76 0.08 0.17
Matches are distributed among these distances:
13 2 0.01
14 22 0.16
15 33 0.24
16 36 0.26
17 43 0.31
18 3 0.02
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (15 bp):
AAAACCCTAAAATCC
Found at i:970460 original size:7 final size:8
Alignment explanation
Indices: 970440--970611 Score: 58
Period size: 8 Copynumber: 21.8 Consensus size: 8
970430 TAGATTTCTA
*
970440 AAAACCCT
1 AAAATCCT
970448 AAAATCC-
1 AAAATCCT
970455 AAAATCTACT
1 AAAATC--CT
970465 AAAATCC-
1 AAAATCCT
970472 AAAATCCT
1 AAAATCCT
*
970480 AAAATCCG
1 AAAATCCT
**
970488 AAACCCCT
1 AAAATCCT
970496 AAAAATCC-
1 -AAAATCCT
**
970504 AAACCCCT
1 AAAATCCT
* *
970512 AAAAATTCG
1 -AAAATCCT
**
970521 AAACCCCT
1 AAAATCCT
970529 AAAATCC-
1 AAAATCCT
*
970536 AAAACCCT
1 AAAATCCT
970544 CCAAAATCC-
1 --AAAATCCT
970553 AAAATCC-
1 AAAATCCT
*
970560 CAAA-CCTT
1 AAAATCC-T
* *
970568 TAAATTCT
1 AAAATCCT
*
970576 TAAATCC-
1 AAAATCCT
*
970583 -AAACCCT
1 AAAATCCT
970590 AAAATCC-
1 AAAATCCT
970597 AAAATCCCT
1 AAAAT-CCT
970606 AAAATC
1 AAAATC
970612 AAAACCCTAA
Statistics
Matches: 120, Mismatches: 27, Indels: 34
0.66 0.15 0.19
Matches are distributed among these distances:
6 7 0.06
7 39 0.32
8 46 0.38
9 16 0.13
10 12 0.10
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (8 bp):
AAAATCCT
Found at i:970481 original size:32 final size:32
Alignment explanation
Indices: 970440--970556 Score: 121
Period size: 32 Copynumber: 3.6 Consensus size: 32
970430 TAGATTTCTA
**
970440 AAAACCCT-AAAATCCAAAATCTACTAAAATCC
1 AAAACCCTCAAAATCCAAAA-CCCCTAAAATCC
* *
970472 AAAATCCT-AAAATCCGAAACCCCTAAAAATCC
1 AAAACCCTCAAAATCCAAAACCCCT-AAAATCC
* * * *
970504 AAACCCCTAAAAATTCGAAACCCCTAAAATCC
1 AAAACCCTCAAAATCCAAAACCCCTAAAATCC
970536 AAAACCCTCCAAAATCCAAAA
1 AAAACCCT-CAAAATCCAAAA
970557 TCCCAAACCT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
31 3 0.04
32 44 0.62
33 24 0.34
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (32 bp):
AAAACCCTCAAAATCCAAAACCCCTAAAATCC
Found at i:970596 original size:14 final size:14
Alignment explanation
Indices: 970577--970622 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
970567 TTAAATTCTT
970577 AAATCCAAACCCTA
1 AAATCCAAACCCTA
970591 AAATCCAAAATCCCTA
1 AAATCC-AAA-CCCTA
*
970607 AAATCAAAACCCTA
1 AAATCCAAACCCTA
970621 AA
1 AA
970623 CCTTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 13 0.45
15 6 0.21
16 10 0.34
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.15
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:973419 original size:8 final size:8
Alignment explanation
Indices: 973408--973434 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
973398 ATGTCATCCC
973408 TCAATATT
1 TCAATATT
973416 TCAATATT
1 TCAATATT
973424 TCAATATT
1 TCAATATT
973432 TCA
1 TCA
973435 TCTCATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (8 bp):
TCAATATT
Found at i:980291 original size:2 final size:2
Alignment explanation
Indices: 980284--980316 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
980274 CAAATGATAC
980284 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
980317 TACTCATTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:984591 original size:30 final size:30
Alignment explanation
Indices: 984557--984662 Score: 99
Period size: 30 Copynumber: 3.5 Consensus size: 30
984547 TTATTATATT
* *
984557 TAAATAAGTCC-TATTTCTTTAATTTGTATC
1 TAAATAAGTCCTTAATT-ATTAATTTGTATC
**
984587 TAAATAAACCCTTAATTATTAATTTGTATC
1 TAAATAAGTCCTTAATTATTAATTTGTATC
* * * *
984617 AAAATAAGTTCTTAACTT-TTAATTTATATT
1 TAAATAAGTCCTTAA-TTATTAATTTGTATC
*
984647 TAAATAAGTTCTTAAT
1 TAAATAAGTCCTTAAT
984663 ATAAATTAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
29 1 0.02
30 56 0.89
31 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (30 bp):
TAAATAAGTCCTTAATTATTAATTTGTATC
Found at i:984744 original size:30 final size:30
Alignment explanation
Indices: 984684--984768 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 30
984674 TTTCATTTAA
* * *
984684 AATAAAATTTTATTTGAATATAAATCAAAT
1 AATAAAAATTTATTTGAATACAAATAAAAT
*
984714 AATAAAAATTTATTTGAGTAC-AATAAAA-
1 AATAAAAATTTATTTGAATACAAATAAAAT
** *
984742 ATATAATGATTTATTTAAATA-AAATAA
1 A-ATAAAAATTTATTTGAATACAAATAA
984769 TAAAATATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
28 1 0.02
29 26 0.58
30 18 0.40
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (30 bp):
AATAAAAATTTATTTGAATACAAATAAAAT
Found at i:985823 original size:102 final size:103
Alignment explanation
Indices: 985634--985829 Score: 295
Period size: 102 Copynumber: 1.9 Consensus size: 103
985624 TATTTTTAGA
* *
985634 TACAAAAGTAACGGTAACGATGAGATGGATTATAATAAAAATAAAAAATGACCATTAAATATATT
1 TACAAAAGTAACGGTAACGATGAGATGAATTATAATAAAAATAAAAAATAACCATTAAATATATT
*
985699 AATTTAAAAATAACTTACAAATTATTTTTTATCTATAT
66 AATTTAAAAATAACTAACAAATTATTTTTTATCTATAT
** * * **
985737 TACAAAAGTAGTGGTAATGATGCGATGAATTATAATAAAAAT-AAAAATAATTATTAAATATATT
1 TACAAAAGTAACGGTAACGATGAGATGAATTATAATAAAAATAAAAAATAACCATTAAATATATT
*
985801 AATTTAAAAATAACTAATAAATTATTTTT
66 AATTTAAAAATAACTAACAAATTATTTTT
985830 ATTTGTATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
102 46 0.55
103 37 0.45
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.35
Consensus pattern (103 bp):
TACAAAAGTAACGGTAACGATGAGATGAATTATAATAAAAATAAAAAATAACCATTAAATATATT
AATTTAAAAATAACTAACAAATTATTTTTTATCTATAT
Found at i:987944 original size:24 final size:24
Alignment explanation
Indices: 987917--987976 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
987907 GAGGTGGATA
*
987917 TGGTAGTGGTGG-GGGTGCTGGGGG
1 TGGTAGTGGTGGTGGG-GCTGGCGG
987941 TGGTTA-TGGTGGTGGGGCTGGCGG
1 TGG-TAGTGGTGGTGGGGCTGGCGG
*
987965 TGGTGGTGGTGG
1 TGGTAGTGGTGG
987977 AGGAGGTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 1 0.03
24 25 0.81
25 5 0.16
ACGTcount: A:0.03, C:0.05, G:0.63, T:0.28
Consensus pattern (24 bp):
TGGTAGTGGTGGTGGGGCTGGCGG
Found at i:988024 original size:9 final size:9
Alignment explanation
Indices: 987917--988026 Score: 55
Period size: 9 Copynumber: 12.2 Consensus size: 9
987907 GAGGTGGATA
*
987917 TGGTAGTGG
1 TGGTGGTGG
* *
987926 TGGGGGTGC
1 TGGTGGTGG
*
987935 TGGGGGTGG
1 TGGTGGTGG
**
987944 TTATGGTGG
1 TGGTGGTGG
987953 TGG-GGCTGG
1 TGGTGG-TGG
*
987962 CGGTGGTGG
1 TGGTGGTGG
*
987971 TGGTGGAGG
1 TGGTGGTGG
* *
987980 AGGTGGCT-C
1 TGGTGG-TGG
*
987989 TGGTGGCGG
1 TGGTGGTGG
* *
987998 CGGTGGCGG
1 TGGTGGTGG
988007 TGG-GTGTGG
1 TGGTG-GTGG
988016 TGGTGGTGG
1 TGGTGGTGG
988025 TG
1 TG
988027 AACATGGGAG
Statistics
Matches: 74, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
8 3 0.04
9 68 0.92
10 3 0.04
ACGTcount: A:0.04, C:0.07, G:0.63, T:0.26
Consensus pattern (9 bp):
TGGTGGTGG
Found at i:1010103 original size:2 final size:2
Alignment explanation
Indices: 1010096--1010120 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1010086 AGGGACCGGC
1010096 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1010121 CTTTAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1010349 original size:3 final size:3
Alignment explanation
Indices: 1010341--1010366 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1010331 TTAATTAAAA
1010341 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1010367 AACAGAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1011411 original size:22 final size:20
Alignment explanation
Indices: 1011386--1011432 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
1011376 ATAAAACATT
1011386 TAAAATAATTCAATGATCAAAA
1 TAAAATAATT-AATGA-CAAAA
* *
1011408 TAAAAAAATTAATTACAAAA
1 TAAAATAATTAATGACAAAA
1011428 -AAAAT
1 TAAAAT
1011433 CAAATCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 4 0.18
22 9 0.41
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAAATAATTAATGACAAAA
Found at i:1013299 original size:19 final size:19
Alignment explanation
Indices: 1013275--1013317 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1013265 GTACATTATT
*
1013275 ATTTTTATTTTATTTTAAA
1 ATTTTTAATTTATTTTAAA
*
1013294 ATTTTTAATTTATTTTTAA
1 ATTTTTAATTTATTTTAAA
1013313 ATTTT
1 ATTTT
1013318 GTTATTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTAATTTATTTTAAA
Found at i:1013540 original size:28 final size:30
Alignment explanation
Indices: 1013485--1013540 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
1013475 AAATAAAATT
* *
1013485 ATTTTGAAAATATATTAGTATAATATTATC
1 ATTTTAAAAATATATTAGTATAAGATTATC
*
1013515 ATTTTAAAAAT-TA-TAGTATGAGATTA
1 ATTTTAAAAATATATTAGTATAAGATTA
1013541 AAAAATGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 2 0.09
30 10 0.43
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (30 bp):
ATTTTAAAAATATATTAGTATAAGATTATC
Found at i:1024607 original size:17 final size:17
Alignment explanation
Indices: 1024587--1024635 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
1024577 AATATTATTT
1024587 TTAATATAAATATAAAA
1 TTAATATAAATATAAAA
*
1024604 TTAA-ATACATATAAAA
1 TTAATATAAATATAAAA
*
1024620 AT-ATATAATATATAAA
1 TTAATATAA-ATATAAA
1024636 TATAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 15 0.56
17 11 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAATATAAATATAAAA
Found at i:1024641 original size:23 final size:24
Alignment explanation
Indices: 1024594--1024642 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
1024584 TTTTTAATAT
*
1024594 AAATATAAAATTAAATACATATAA
1 AAATATAAAATTAAATAAATATAA
* *
1024618 AAATATATAA-TATATAAATATAA
1 AAATATAAAATTAAATAAATATAA
1024641 AA
1 AA
1024643 TTAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATATAAAATTAAATAAATATAA
Found at i:1024648 original size:27 final size:27
Alignment explanation
Indices: 1024618--1024673 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
1024608 ATACATATAA
*
1024618 AAATATATAATATATAAATATAAAATT
1 AAATAAATAATATATAAATATAAAATT
* * *
1024645 AAATAAATAATTTATATATATCAAATT
1 AAATAAATAATATATAAATATAAAATT
1024672 AA
1 AA
1024674 TATGAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATAAATAATATATAAATATAAAATT
Found at i:1030773 original size:14 final size:13
Alignment explanation
Indices: 1030755--1030779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1030745 AATTAATTAA
1030755 AAAAAAATTTTAT
1 AAAAAAATTTTAT
1030768 AAAAAAATTTTA
1 AAAAAAATTTTA
1030780 AATTTAAATT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAAAATTTTAT
Found at i:1032341 original size:24 final size:25
Alignment explanation
Indices: 1032297--1032343 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1032287 GATTTTAAAA
*
1032297 AATAAAATATAAAAAACTAAGTTAC
1 AATAAAATAAAAAAAACTAAGTTAC
*
1032322 AATAAAA-AAAAAAAATTAAGTT
1 AATAAAATAAAAAAAACTAAGTT
1032344 TAAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (25 bp):
AATAAAATAAAAAAAACTAAGTTAC
Found at i:1039121 original size:19 final size:19
Alignment explanation
Indices: 1039097--1039133 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1039087 AAAAAAAAGT
* *
1039097 TCATTATATTAAATTGTTG
1 TCATTAGATTAAAATGTTG
1039116 TCATTAGATTAAAATGTT
1 TCATTAGATTAAAATGTT
1039134 TAGAATAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (19 bp):
TCATTAGATTAAAATGTTG
Found at i:1040598 original size:6 final size:6
Alignment explanation
Indices: 1040587--1040619 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1040577 CTTCTCAGAG
1040587 ATATAA ATATAA ATATAA ATAT-- ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
1040620 TTTATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.16
6 21 0.84
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:1040604 original size:12 final size:11
Alignment explanation
Indices: 1040587--1040619 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
1040577 CTTCTCAGAG
1040587 ATATAAATATAA
1 ATATAAATAT-A
1040599 ATATAAATAT-
1 ATATAAATATA
1040609 ATATAAATATA
1 ATATAAATATA
1040620 TTTATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
12 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAAATATA
Found at i:1040614 original size:16 final size:16
Alignment explanation
Indices: 1040593--1040629 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1040583 AGAGATATAA
1040593 ATATAAATATAAATAT
1 ATATAAATATAAATAT
**
1040609 ATATAAATATATTTAT
1 ATATAAATATAAATAT
1040625 ATATA
1 ATATA
1040630 TATCATGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAAATATAAATAT
Found at i:1040620 original size:12 final size:12
Alignment explanation
Indices: 1040587--1040632 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1040577 CTTCTCAGAG
*
1040587 ATATAAATATAA
1 ATATAAATATAT
1040599 ATAT-AA-ATAT
1 ATATAAATATAT
1040609 ATATAAATATAT
1 ATATAAATATAT
* *
1040621 TTATATATATAT
1 ATATAAATATAT
1040633 CATGCAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 7 0.24
11 4 0.14
12 18 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:1044798 original size:20 final size:20
Alignment explanation
Indices: 1044773--1044810 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1044763 TAATTTATAT
1044773 AATAAAAAGTAAAATATAAA
1 AATAAAAAGTAAAATATAAA
* *
1044793 AATAAAAATTCAAATATA
1 AATAAAAAGTAAAATATA
1044811 TATTTATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (20 bp):
AATAAAAAGTAAAATATAAA
Found at i:1047340 original size:579 final size:579
Alignment explanation
Indices: 1045837--1048737 Score: 5582
Period size: 579 Copynumber: 5.0 Consensus size: 579
1045827 GACTCACTTT
1045837 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1045902 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
66 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
1045967 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAAACAG-ACAGGCTACTCAATGCTT
131 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAG-AAAACAGCACAGGCTACTCAATGCTT
*
1046031 GAGACCAGGCTAATAAATTTAAGGAGACAAGCCACACTCTCTAGTATCTCTTCCTCTCTACCTTT
195 GAGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTT
1046096 TTCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAA
260 TTCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAA
1046161 CTCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGCT
325 CTCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGC-
1046226 TTTGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTTGCCTTTG-ATCAAGCAAAGTGTTG
389 TTTGGTTTCACAAACTTCAACCATCATTCCAGAAGTAAC-TGCCTTTGAATCAAGCAAAGTGTTG
*
1046290 GAATTTAATGTTTTATGGGTATTACAAGATACCGGTGATGCAGATATACTTTGACTTGACTTTCC
453 GAATTTAATGTTTTATGGGTATTACAAGATACCGGCGATGCAGATATACTTTGACTTGACTTTCC
1046355 AGGCA-GGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
518 AGG-AGGGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
1046417 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1046482 ATAAAAAAATTAAATAC-T-TCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
66 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
1046545 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
131 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
1046610 AGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTTT
196 AGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTTT
*
1046675 TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAAATGAACCAAC
261 TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAAC
*
1046740 TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGTTCCCAAGAAGAAGCTT
326 TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGCTT
1046805 TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGTGTTGGAA
391 TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGTGTTGGAA
1046870 TTTAATGTTTTATGGGTATTACAAGATACCGGCGATGCAGATATACTTTGACTTGACTTTCCAGG
456 TTTAATGTTTTATGGGTATTACAAGATACCGGCGATGCAGATATACTTTGACTTGACTTTCCAGG
* * *
1046935 AGGGAGCAAATTCTCAGAAGCAGACACGGCTGGAATCTGTCCCGAGCAGTGAGACCTCT
521 AGGGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
*
1046994 TTTCTCTCTGCAGGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1047059 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
66 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
1047124 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
131 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
*
1047189 AGACCAGGCTAATAAATTTAAGGAGACAAGCCACACTCTCTAGTATCTCTTCCTCTCTACCTTTT
196 AGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTTT
1047254 TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAAC
261 TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAAC
1047319 TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGCTT
326 TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGCTT
1047384 TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGTGTTGGAA
391 TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGTGTTGGAA
*
1047449 TTTAATGTTTTATGGGTATTACAAGATACCGGTGATGCAGATATACTTTGACTTGACTTTCCAGG
456 TTTAATGTTTTATGGGTATTACAAGATACCGGCGATGCAGATATACTTTGACTTGACTTTCCAGG
1047514 AGGGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
521 AGGGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
1047573 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1047638 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
66 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
1047703 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
131 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
1047768 AGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTTT
196 AGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTTT
1047833 TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAAC
261 TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAAC
*
1047898 TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGTTCCCAAGAAGAAGCTT
326 TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGCTT
*
1047963 TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGAGTTGGAA
391 TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGTGTTGGAA
*
1048028 TTTAATGTTTTATGGGTATTACAAGTTACCGGCGATGCAGATATACTTTGACTTGACTTTCCAGG
456 TTTAATGTTTTATGGGTATTACAAGATACCGGCGATGCAGATATACTTTGACTTGACTTTCCAGG
1048093 AGGGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
521 AGGGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
1048152 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1 TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
1048217 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
66 ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
1048282 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
131 GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
1048347 AGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTTT
196 AGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTTT
1048412 TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAAC
261 TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAAC
1048477 TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGCTT
326 TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGCTT
1048542 TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGTGTTGGAA
391 TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGTGTTGGAA
*
1048607 TTTAATGTTTTATGGGTATTACAAGTTACCGGCGATGCAGATATACTTTGACTTGACTTTCCAGG
456 TTTAATGTTTTATGGGTATTACAAGATACCGGCGATGCAGATATACTTTGACTTGACTTTCCAGG
*
1048672 AGGGAGCAAATTCTCAGAAGCAGACACGGCTGGAATCTGTCCTGAGCAGTGAGACCTC-
521 AGGGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
1048730 TTTC-CTCT
1 TTTCTCTCT
1048738 AAATACACCC
Statistics
Matches: 2292, Mismatches: 24, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
576 9 0.00
577 268 0.12
578 297 0.13
579 1636 0.71
580 82 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (579 bp):
TTTCTCTCTGCAAGAAACACTACATCATCAGTAGTTGGCCTCTAGTCATCAAAACCAAAACAGAT
ATAAAAAAATTAAATACTTATCGTAGGAGCTAAAACAGCAAAAGTATGTAAGCAACCAAAGCAAT
GTTTCATCAGTGAGAACATTATACATGGACATCAAAAGAAAACAGCACAGGCTACTCAATGCTTG
AGACCAGGCTAATAAATTTAAGGAGACAAGCCACAGTCTCTAGTATCTCTTCCTCTCTACCTTTT
TCCTTTTTAATGGACAGATATCAACAAACAAGTTGAAGCAAAAAATTTACCTGAGATGAACCAAC
TCTGCCCACTTGCTGACTACAACTTGTTTGTAAATCTAGGGGTTTCTGCTCCCAAGAAGAAGCTT
TGGTTTCACAAACTTCAACCATCATTCCAGAAGTAACTGCCTTTGAATCAAGCAAAGTGTTGGAA
TTTAATGTTTTATGGGTATTACAAGATACCGGCGATGCAGATATACTTTGACTTGACTTTCCAGG
AGGGAGCAAATTCTCAGAAGCAGACACGGCTGCAATCTGTCCTGAGCAGTGAGACCTCG
Found at i:1051632 original size:2 final size:2
Alignment explanation
Indices: 1051620--1051655 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1051610 ACATACATAC
1051620 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1051656 ATTCACCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1055758 original size:13 final size:11
Alignment explanation
Indices: 1055730--1055756 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1055720 TTATTAATGT
1055730 AATATTTAAAA
1 AATATTTAAAA
1055741 AATATTTAAAA
1 AATATTTAAAA
1055752 AATAT
1 AATAT
1055757 ATATTATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATTTAAAA
Found at i:1065520 original size:14 final size:14
Alignment explanation
Indices: 1065479--1065520 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1065469 ATTAATGAAA
*
1065479 ATAATATAATTT-G
1 ATAATTTAATTTAG
1065492 ATTAATTTAATTTTAG
1 A-TAATTTAA-TTTAG
1065508 ATAATTTAATTTA
1 ATAATTTAATTTA
1065521 AAATTACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 11 0.44
15 11 0.44
16 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (14 bp):
ATAATTTAATTTAG
Found at i:1074194 original size:27 final size:28
Alignment explanation
Indices: 1074141--1074199 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
1074131 ATAATGCTTG
* *
1074141 AATCTAGACTATACCCATATAAGGAATCA
1 AATCTAGAC-ATACCAATATAAAGAATCA
1074170 AATCTAGAC-TACCAATATAAAGAATCA
1 AATCTAGACATACCAATATAAAGAATCA
1074197 AAT
1 AAT
1074200 ACGACGTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 19 0.68
29 9 0.32
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (28 bp):
AATCTAGACATACCAATATAAAGAATCA
Found at i:1074209 original size:27 final size:26
Alignment explanation
Indices: 1074152--1074212 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
1074142 ATCTAGACTA
* *
1074152 TACCCATATAAGGAATCAAATCTAGAC
1 TACCAATATAAAGAATCAAATC-AGAC
1074179 TACCAATATAAAGAATCAAAT-ACGAC
1 TACCAATATAAAGAATCAAATCA-GAC
1074205 GTACCAAT
1 -TACCAAT
1074213 GATTGAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.03
26 3 0.10
27 26 0.87
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (26 bp):
TACCAATATAAAGAATCAAATCAGAC
Found at i:1092352 original size:13 final size:13
Alignment explanation
Indices: 1092334--1092358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1092324 TTCGTAGTTA
1092334 AAGAAAGGAAAAT
1 AAGAAAGGAAAAT
1092347 AAGAAAGGAAAA
1 AAGAAAGGAAAA
1092359 AAATTTCTTA
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:0.24, T:0.04
Consensus pattern (13 bp):
AAGAAAGGAAAAT
Found at i:1099402 original size:2 final size:2
Alignment explanation
Indices: 1099395--1099431 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1099385 TTTGCTTTTG
*
1099395 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1099432 GAAACGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1119215 original size:22 final size:21
Alignment explanation
Indices: 1119157--1119221 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
1119147 TTTTTGTCTT
1119157 TTTTTTTAGATATTCTAAAATTG
1 TTTTTTTA-ATATT-TAAAATTG
* *
1119180 TTTTTTTAACATTTAAAATTT
1 TTTTTTTAATATTTAAAATTG
*
1119201 TTATTTTTTATATTTAAAATT
1 TT-TTTTTAATATTTAAAATT
1119222 ATATTATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 9 0.24
22 20 0.54
23 8 0.22
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTTTTAATATTTAAAATTG
Found at i:1119238 original size:22 final size:22
Alignment explanation
Indices: 1119190--1119233 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
1119180 TTTTTTTAAC
*
1119190 ATTTAAAATTTTTATTTTTTAT
1 ATTTAAAATTTTTATATTTTAT
1119212 ATTTAAAATTATATTATATTTT
1 ATTTAAAATT-T-TTATATTTT
1119234 TTTTACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTAAAATTTTTATATTTTAT
Found at i:1119271 original size:23 final size:23
Alignment explanation
Indices: 1119241--1119288 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
1119231 TTTTTTTACT
1119241 TTTTAATATTAAA-ATTATTAAAA
1 TTTTAATATTAAATA-TATTAAAA
1119264 TTTTAATATTAAATATATTAAAA
1 TTTTAATATTAAATATATTAAAA
1119287 TT
1 TT
1119289 AACTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTAATATTAAATATATTAAAA
Found at i:1129822 original size:52 final size:52
Alignment explanation
Indices: 1129753--1129906 Score: 195
Period size: 52 Copynumber: 3.0 Consensus size: 52
1129743 GGATAAGAAG
* * * *
1129753 ACTTACAA-AAAA-AATTCTAAGAGAAAAAAGATTCTTAATATGTAAGTTTG
1 ACTTACAAGAAAAGAATTCTAAGAGGAAAAAGATTCTTAATAGGCAAGTTTA
** * * * *
1129803 ACTTGTAAGAGAAGAATTCTAAAAGGAAAATGATTTTTAATAGGCAAGTTTA
1 ACTTACAAGAAAAGAATTCTAAGAGGAAAAAGATTCTTAATAGGCAAGTTTA
*
1129855 ACTTACAAGAAAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTTA
1 ACTTACAAGAAAAGAATTCTAAGAGGAAAAAGATTCTTAATAGGCAAGTTTA
1129907 TATGGTTATA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 6 0.07
51 3 0.04
52 76 0.89
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.29
Consensus pattern (52 bp):
ACTTACAAGAAAAGAATTCTAAGAGGAAAAAGATTCTTAATAGGCAAGTTTA
Found at i:1130081 original size:50 final size:50
Alignment explanation
Indices: 1130024--1130124 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
1130014 CGTGTGTATG
*
1130024 TTTGTTTGTGAGTGGGCTAGAGAAGACTGAGAGAGTCCACATAAGTATAA
1 TTTGTTTGTGAGTGGGCTAGAGAAGACTAAGAGAGTCCACATAAGTATAA
*
1130074 TTTGTTTGTGAGTGGGCTAGAGAAGACTAAGAGGGTCCACATAAGTATAA
1 TTTGTTTGTGAGTGGGCTAGAGAAGACTAAGAGAGTCCACATAAGTATAA
1130124 T
1 T
1130125 ATATGGGAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (50 bp):
TTTGTTTGTGAGTGGGCTAGAGAAGACTAAGAGAGTCCACATAAGTATAA
Found at i:1130561 original size:24 final size:25
Alignment explanation
Indices: 1130484--1130579 Score: 115
Period size: 25 Copynumber: 3.9 Consensus size: 25
1130474 TATTAGAATC
* *
1130484 GAAGGTTTGAAATGTGAGAAGAGTT
1 GAAGGTTCGAAATGTGAGAAGAGCT
* * *
1130509 GAAGATTC-AAGATGTGAAAAGAGCC
1 GAAGGTTCGAA-ATGTGAGAAGAGCT
1130534 GAAGGTTCGAAATGTGA-AAGAGCT
1 GAAGGTTCGAAATGTGAGAAGAGCT
*
1130558 GAAGGTTCGAGATGTGAGAAGA
1 GAAGGTTCGAAATGTGAGAAGA
1130580 ACATAGTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
24 24 0.40
25 34 0.57
26 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (25 bp):
GAAGGTTCGAAATGTGAGAAGAGCT
Found at i:1130573 original size:49 final size:50
Alignment explanation
Indices: 1130483--1130579 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 50
1130473 GTATTAGAAT
* *
1130483 CGAAGGTTTGAAATGTGAGAAGAGTTGAAGATTCAAGATGTGAAAAGAGC
1 CGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAAAGAGC
* * *
1130533 CGAAGGTTCGAAATGTGA-AAGAGCTGAAGGTTCGAGATGTGAGAAGA
1 CGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAAAGA
1130580 ACATAGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 25 0.60
50 17 0.40
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (50 bp):
CGAAGGTTCGAAATGTGAGAAGAGCTGAAGATTCAAGATGTGAAAAGAGC
Found at i:1130837 original size:11 final size:11
Alignment explanation
Indices: 1130821--1130858 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1130811 TCTCATAAGA
1130821 GATTTGTTTAG
1 GATTTGTTTAG
1130832 GATTTG-TTAG
1 GATTTGTTTAG
*
1130842 AGATTTGTTTGG
1 -GATTTGTTTAG
1130854 GATTT
1 GATTT
1130859 ATTAGATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 4 0.17
11 17 0.71
12 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (11 bp):
GATTTGTTTAG
Found at i:1130846 original size:22 final size:22
Alignment explanation
Indices: 1130818--1130864 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
1130808 AAATCTCATA
*
1130818 AGAGATTTGTTTAGGATTTGTT
1 AGAGATTTGTTTAGGATTTATT
*
1130840 AGAGATTTGTTTGGGATTTATT
1 AGAGATTTGTTTAGGATTTATT
1130862 AGA
1 AGA
1130865 TATTACTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
AGAGATTTGTTTAGGATTTATT
Found at i:1130973 original size:52 final size:52
Alignment explanation
Indices: 1130885--1131041 Score: 165
Period size: 52 Copynumber: 3.0 Consensus size: 52
1130875 TGGACAAGAA
1130885 GACTTACAAAAGAAGAATTCTAAGA-GAAAGATGATTCTCAATAGGTAAGTTT
1 GACTTACAAAAGAAGAATTCTAAGAGGAAAGA-GATTCTCAATAGGTAAGTTT
* * * * *
1130937 GACTTGCAAAAGAAGAATTCTAAAAGGAAAGGGATTC-CTAATAGGCAAATTT
1 GACTTACAAAAGAAGAATTCTAAGAGGAAAGAGATTCTC-AATAGGTAAGTTT
* * ** * * * *
1130989 AACTTATAGGAGAAGAATTCTAAGAGAAAAAAGATTCTTAATTGGTAAGTTT
1 GACTTACAAAAGAAGAATTCTAAGAGGAAAGAGATTCTCAATAGGTAAGTTT
1131041 G
1 G
1131042 TATGGTTATA
Statistics
Matches: 83, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
51 1 0.01
52 77 0.93
53 5 0.06
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (52 bp):
GACTTACAAAAGAAGAATTCTAAGAGGAAAGAGATTCTCAATAGGTAAGTTT
Found at i:1131161 original size:51 final size:52
Alignment explanation
Indices: 1131099--1131210 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 52
1131089 AGATAAAATG
* * * *
1131099 ATTCTCAATAGGTAAATTTGACTTCA-A-AAGAATAATTCTAAAAGAAAAAAA
1 ATTCTTAATAGGCAAATTTAACTT-ATAGAAGAAGAATTCTAAAAGAAAAAAA
* * * *
1131150 ATTTTTAATAGGCAAATTTAACTTATAGGAGAAGAATTCTAAGAGAAAAAAG
1 ATTCTTAATAGGCAAATTTAACTTATAGAAGAAGAATTCTAAAAGAAAAAAA
1131202 ATTCTTAAT
1 ATTCTTAAT
1131211 GAGTAAGTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
50 1 0.02
51 21 0.42
52 28 0.56
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (52 bp):
ATTCTTAATAGGCAAATTTAACTTATAGAAGAAGAATTCTAAAAGAAAAAAA
Found at i:1131219 original size:180 final size:182
Alignment explanation
Indices: 1130906--1131272 Score: 571
Period size: 180 Copynumber: 2.0 Consensus size: 182
1130896 GAAGAATTCT
* * * ***
1130906 AAGAGAAAGATGATTCTCAATAGGTAAGTTTGACTTGCAAAAGAAGAATTCTAAAAGGAAAGGGA
1 AAGATAAAGATGATTCTCAATAGGTAAATTTGACTTGCAAAAGAAGAATTCTAAAAGAAAAAAAA
1130971 TTCCTAATAGGCAAATTTAACTTATAGGAGAAGAATTCTAAGAGAAAAAAGATTCTTAATTGGTA
66 TTCCTAATAGGCAAATTTAACTTATAGGAGAAGAATTCTAAGAGAAAAAAGATTCTTAATTGGTA
**
1131036 AGTTTGTATGGTTATAAATAGATGGAGT-TTCTACAGGGTTAGGTATGAGAAA
131 AGTTTGTATGGTTATAAATAGATAAAGTCTT-TACAGGGTTAGGTATGAGAAA
*
1131088 AAGATAAA-ATGATTCTCAATAGGTAAATTTGACTT-CAAAAGAATAATTCTAAAAGAAAAAAAA
1 AAGATAAAGATGATTCTCAATAGGTAAATTTGACTTGCAAAAGAAGAATTCTAAAAGAAAAAAAA
**
1131151 TTTTTAATAGGCAAATTTAACTTATAGGAGAAGAATTCTAAGAGAAAAAAGATTCTTAA-TGAGT
66 TTCCTAATAGGCAAATTTAACTTATAGGAGAAGAATTCTAAGAGAAAAAAGATTCTTAATTG-GT
* *
1131215 AAGTTTGTATGGTTATAAATAGATAAAGTCTTTATAGTGTTAGGTATGAGAAA
130 AAGTTTGTATGGTTATAAATAGATAAAGTCTTTACAGGGTTAGGTATGAGAAA
1131268 AAGAT
1 AAGAT
1131273 GTAAGAGAGT
Statistics
Matches: 170, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
179 2 0.01
180 133 0.78
181 28 0.16
182 7 0.04
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (182 bp):
AAGATAAAGATGATTCTCAATAGGTAAATTTGACTTGCAAAAGAAGAATTCTAAAAGAAAAAAAA
TTCCTAATAGGCAAATTTAACTTATAGGAGAAGAATTCTAAGAGAAAAAAGATTCTTAATTGGTA
AGTTTGTATGGTTATAAATAGATAAAGTCTTTACAGGGTTAGGTATGAGAAA
Found at i:1131398 original size:48 final size:48
Alignment explanation
Indices: 1131327--1131418 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
1131317 TATTGGAGCT
* *
1131327 CTACGTCTTATGGGTGTGTATGTTTATTTATGAGTGGACTAGAGAAGA
1 CTACGTCTTATGGATATGTATGTTTATTTATGAGTGGACTAGAGAAGA
* *
1131375 CTACGTCTTATGGATATGTATGTTTGTTTGTGAGTGGACTAGAG
1 CTACGTCTTATGGATATGTATGTTTATTTATGAGTGGACTAGAG
1131419 GAGATTGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.39
Consensus pattern (48 bp):
CTACGTCTTATGGATATGTATGTTTATTTATGAGTGGACTAGAGAAGA
Found at i:1136451 original size:78 final size:78
Alignment explanation
Indices: 1136358--1136514 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
1136348 GGGTACCTCG
*
1136358 AGGAGATCTCTATCCAACATTCATATTCCTTCTTCACTAAACCATAAGTTATACAAGTTTAGTTT
1 AGGAGATCTCTATCCAACATTCACATTCCTTCTTCACTAAACCATAAGTTATACAAGTTTAGTTT
1136423 TCTGATGTTAACT
66 TCTGATGTTAACT
1136436 AGGAGATCTCTATCCAACATTCACATTCCTTCTTCACTAAACCATAAGTTATACAAGTTTAGTTT
1 AGGAGATCTCTATCCAACATTCACATTCCTTCTTCACTAAACCATAAGTTATACAAGTTTAGTTT
1136501 TCTGATGTTAACT
66 TCTGATGTTAACT
1136514 A
1 A
1136515 AACGCTTCAG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (78 bp):
AGGAGATCTCTATCCAACATTCACATTCCTTCTTCACTAAACCATAAGTTATACAAGTTTAGTTT
TCTGATGTTAACT
Found at i:1139003 original size:42 final size:42
Alignment explanation
Indices: 1138944--1139029 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
1138934 AATATCACTG
1138944 ATATAGAACAAATCTTGAAAAGAAACCAAAACATTTTGAGCT
1 ATATAGAACAAATCTTGAAAAGAAACCAAAACATTTTGAGCT
*
1138986 ATATAGAATAAATCTTGAAAAGAAACCAAAACATTTTGAGCT
1 ATATAGAACAAATCTTGAAAAGAAACCAAAACATTTTGAGCT
1139028 AT
1 AT
1139030 GTACAAGAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.26
Consensus pattern (42 bp):
ATATAGAACAAATCTTGAAAAGAAACCAAAACATTTTGAGCT
Found at i:1140294 original size:2 final size:2
Alignment explanation
Indices: 1140282--1140311 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1140272 GCCTATAAAT
*
1140282 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1140312 CATTCAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1141671 original size:22 final size:21
Alignment explanation
Indices: 1141632--1141688 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
1141622 TAATTATATA
1141632 TGAATATTTTTATATTTAATT
1 TGAATATTTTTATATTTAATT
1141653 TGAATAGTTTTTA-ATTTTAA-T
1 TGAATA-TTTTTATA-TTTAATT
1141674 T-AA-ATTTTTATATTT
1 TGAATATTTTTATATTT
1141689 TATTATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 9 0.27
19 2 0.06
20 2 0.06
21 9 0.27
22 11 0.33
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TGAATATTTTTATATTTAATT
Found at i:1141683 original size:18 final size:17
Alignment explanation
Indices: 1141660--1141705 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1141650 ATTTGAATAG
1141660 TTTTTAATTTTAATTAAA
1 TTTTTAATTTT-ATTAAA
*
1141678 TTTTTATATTTTATTATA
1 TTTTTA-ATTTTATTAAA
*
1141696 TTTTAAATTT
1 TTTTTAATTT
1141706 ATGTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 16 0.64
19 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAATTTTATTAAA
Found at i:1141893 original size:18 final size:20
Alignment explanation
Indices: 1141855--1141894 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
1141845 ATTTGAATAG
1141855 TTTATAATTTTAATTAAATT
1 TTTATAATTTTAATTAAATT
*
1141875 TTTAT-ATTTT-ATTATATT
1 TTTATAATTTTAATTAAATT
1141893 TT
1 TT
1141895 AAATTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 5 0.26
20 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATAATTTTAATTAAATT
Found at i:1141893 original size:195 final size:195
Alignment explanation
Indices: 1141561--1141950 Score: 708
Period size: 195 Copynumber: 2.0 Consensus size: 195
1141551 TAATTTTAAA
* *
1141561 TAAATTTGAATTTGATTTGTATTTTTATTTAGTCGAATTTAAAAAATTTAATTTATTGATTTAAT
1 TAAATTTGAATTTGATTTGTATTTCTATTTAGTCGAATTTAAAAAATTTAATTTATTGATTAAAT
* *
1141626 TATATATGAATATTTTTATATTTAATTTGAATAGTTTTTAATTTTAATTAAATTTTTATATTTTA
66 TAGATATGAATATTTTTATATTTAATTTGAATAGTTTATAATTTTAATTAAATTTTTATATTTTA
*
1141691 TTATATTTTAAATTTATGTTAAAATTTAAATACAAATAATTAAATTTTTATTGAATATAAAAATT
131 TTATATTTTAAATTTATGTTAAAATTTAAATACAAATAATTAAAATTTTATTGAATATAAAAATT
*
1141756 TAAATTTGAATTTGATTTGTATTTCTATTTAGTCGAATTTAAATAATTTAATTTATTGATTAAAT
1 TAAATTTGAATTTGATTTGTATTTCTATTTAGTCGAATTTAAAAAATTTAATTTATTGATTAAAT
*
1141821 TAGATATGAATTTTTTTATATTTAATTTGAATAGTTTATAATTTTAATTAAATTTTTATATTTTA
66 TAGATATGAATATTTTTATATTTAATTTGAATAGTTTATAATTTTAATTAAATTTTTATATTTTA
*
1141886 TTATATTTTAAATTTATGTTAAAATTTAAATATAAATAATTAAAATTTTATTGAATATAAAAATT
131 TTATATTTTAAATTTATGTTAAAATTTAAATACAAATAATTAAAATTTTATTGAATATAAAAATT
1141951 AATCTTATTT
Statistics
Matches: 187, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
195 187 1.00
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (195 bp):
TAAATTTGAATTTGATTTGTATTTCTATTTAGTCGAATTTAAAAAATTTAATTTATTGATTAAAT
TAGATATGAATATTTTTATATTTAATTTGAATAGTTTATAATTTTAATTAAATTTTTATATTTTA
TTATATTTTAAATTTATGTTAAAATTTAAATACAAATAATTAAAATTTTATTGAATATAAAAATT
Found at i:1142092 original size:13 final size:14
Alignment explanation
Indices: 1142063--1142094 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1142053 AATTCAAATC
1142063 AAATTTTAAATTTA
1 AAATTTTAAATTTA
1142077 AAATTTTAAA-TTA
1 AAATTTTAAATTTA
1142090 AAATT
1 AAATT
1142095 AAACTCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTTTAAATTTA
Found at i:1142195 original size:3 final size:3
Alignment explanation
Indices: 1142187--1142220 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1142177 ATATATATAT
1142187 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1142221 AATAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1151277 original size:40 final size:43
Alignment explanation
Indices: 1151212--1151292 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 43
1151202 AAATTAAAGA
* *
1151212 AATTGGGCTTTCCCAAAAACATTAAAGTCC-AATTGAAAAACT
1 AATTGGGCTTTACCAAAAACATTAAAGTCCAAACTGAAAAACT
1151254 AATTGGGC-TTACC-AAAACATTAAAGTCCAAACTGAAAAA
1 AATTGGGCTTTACCAAAAACATTAAAGTCCAAACTGAAAAA
1151293 AGAGGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 15 0.42
41 13 0.36
42 8 0.22
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (43 bp):
AATTGGGCTTTACCAAAAACATTAAAGTCCAAACTGAAAAACT
Found at i:1154198 original size:15 final size:13
Alignment explanation
Indices: 1154186--1154226 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 13
1154176 ATTCATTAAC
1154186 AATAAATAAATTA
1 AATAAATAAATTA
1154199 TAATCAAATAAATTTA
1 -AAT-AAATAAA-TTA
1154215 AATAAATAAATT
1 AATAAATAAATT
1154227 TTAAATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 10 0.40
15 10 0.40
16 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
AATAAATAAATTA
Found at i:1154229 original size:15 final size:16
Alignment explanation
Indices: 1154189--1154242 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 16
1154179 CATTAACAAT
*
1154189 AAATAAATTAT-AATC
1 AAATAAATTTTAAATC
1154204 AAATAAA-TTTAAAT-
1 AAATAAATTTTAAATC
*
1154218 AAATAAATTTTAAATG
1 AAATAAATTTTAAATC
1154234 AATATAAAT
1 AA-ATAAAT
1154243 GAAATTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 9 0.26
15 17 0.50
16 2 0.06
17 6 0.18
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATAAATTTTAAATC
Found at i:1154232 original size:25 final size:28
Alignment explanation
Indices: 1154186--1154247 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 28
1154176 ATTCATTAAC
*
1154186 AATAAATAAATTATAATCAAATAAATTTA
1 AATAAATAAATTAT-ATCAAATAAATATA
*
1154215 AATAAATAAATT-T-T-AAATGAATATA
1 AATAAATAAATTATATCAAATAAATATA
1154240 AATGAAAT
1 AAT-AAAT
1154248 TAAAAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 12 0.40
26 5 0.17
28 1 0.03
29 12 0.40
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (28 bp):
AATAAATAAATTATATCAAATAAATATA
Found at i:1159735 original size:2 final size:2
Alignment explanation
Indices: 1159728--1159762 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1159718 ATCAAGGTTT
1159728 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1159763 GCAGTCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1172191 original size:35 final size:34
Alignment explanation
Indices: 1172131--1172201 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
1172121 TACCCAAGGT
* *
1172131 AATGTCAATCATTGTCAAAACCTTCACTAGATGAA
1 AATGTCAATCATTCTCAAAACCTTCACCAGA-GAA
*
1172166 AATGTCAATCATTCTTAGAAA-CTTCACCAGAGAA
1 AATGTCAATCATTCTCA-AAACCTTCACCAGAGAA
1172200 AA
1 AA
1172202 AGCACCAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 5 0.16
35 24 0.75
36 3 0.09
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (34 bp):
AATGTCAATCATTCTCAAAACCTTCACCAGAGAA
Found at i:1174048 original size:18 final size:18
Alignment explanation
Indices: 1173999--1174049 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1173989 GGTTAGTTTT
* * *
1173999 ATTTTCAGCTTCATTTTC
1 ATTTTCAGTTTCGTCTTC
1174017 ATTTTCA-TTGTCGTCTTC
1 ATTTTCAGTT-TCGTCTTC
1174035 ATTTTCAGTTTCGTC
1 ATTTTCAGTTTCGTC
1174050 ATCAAGTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.04
18 25 0.89
19 2 0.07
ACGTcount: A:0.14, C:0.22, G:0.10, T:0.55
Consensus pattern (18 bp):
ATTTTCAGTTTCGTCTTC
Found at i:1175181 original size:15 final size:13
Alignment explanation
Indices: 1175159--1175193 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
1175149 CAGAGAAAAA
1175159 TGTTTTTGTATTTT
1 TGTTTTTGT-TTTT
1175173 TGCTTTTTGTTTTT
1 TG-TTTTTGTTTTT
1175187 TGTTTTT
1 TGTTTTT
1175194 AAATTAGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 8 0.40
15 7 0.35
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.80
Consensus pattern (13 bp):
TGTTTTTGTTTTT
Found at i:1178437 original size:16 final size:16
Alignment explanation
Indices: 1178389--1178428 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
1178379 AATTCGAACC
1178389 AATAATATAATATAAA
1 AATAATATAATATAAA
* *
1178405 AATAATATTATACAAA
1 AATAATATAATATAAA
1178421 AATAATAT
1 AATAATAT
1178429 CATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATATAATATAAA
Found at i:1188483 original size:52 final size:52
Alignment explanation
Indices: 1188394--1188547 Score: 182
Period size: 52 Copynumber: 3.0 Consensus size: 52
1188384 ACAAGAAGAT
*** * *
1188394 TTGCAAAAGAAGAATTCTAAAAGAAAGGGGATCCTTAATAGGTAAGTTTGAC
1 TTGCAAAAGAAGAATTCTAAAAGAAAATAGATTCTTAATAGGCAAGTTTGAC
* * *
1188446 TTGCAAGAGAAAAATTCTAAAAGAAAATAGATTCTTAATAGGCAAGTTTAAC
1 TTGCAAAAGAAGAATTCTAAAAGAAAATAGATTCTTAATAGGCAAGTTTGAC
* * * * * *
1188498 TTACAATAGAAGAATTCTAAGAGGAGATAGATTCTTAATGGGCAAGTTTG
1 TTGCAAAAGAAGAATTCTAAAAGAAAATAGATTCTTAATAGGCAAGTTTG
1188548 TATGGTTATG
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 86 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (52 bp):
TTGCAAAAGAAGAATTCTAAAAGAAAATAGATTCTTAATAGGCAAGTTTGAC
Found at i:1188762 original size:23 final size:23
Alignment explanation
Indices: 1188736--1188784 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1188726 ATAGAAAAGT
1188736 AAATTTACGATAAATAATAAATA
1 AAATTTACGATAAATAATAAATA
1188759 AAATTTACGATAAATAATAAATA
1 AAATTTACGATAAATAATAAATA
1188782 AAA
1 AAA
1188785 GGCCACTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
AAATTTACGATAAATAATAAATA
Found at i:1189709 original size:25 final size:25
Alignment explanation
Indices: 1189680--1189734 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
1189670 TTGAAGATTC
* *
1189680 AAGATATGGAAAGAGCTGAAAGTTT
1 AAGATATAGAAAGAGCTAAAAGTTT
* *
1189705 GAGATGTAGAAAGAGCTAAAAGTTT
1 AAGATATAGAAAGAGCTAAAAGTTT
1189730 AAGAT
1 AAGAT
1189735 GTGGGAAGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.27, T:0.24
Consensus pattern (25 bp):
AAGATATAGAAAGAGCTAAAAGTTT
Found at i:1189735 original size:25 final size:25
Alignment explanation
Indices: 1189688--1189736 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1189678 TCAAGATATG
* *
1189688 GAAAGAGCTGAAAGTTTGAGATGTA
1 GAAAGAGCTAAAAGTTTAAGATGTA
1189713 GAAAGAGCTAAAAGTTTAAGATGT
1 GAAAGAGCTAAAAGTTTAAGATGT
1189737 GGGAAGTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.24
Consensus pattern (25 bp):
GAAAGAGCTAAAAGTTTAAGATGTA
Found at i:1190129 original size:52 final size:52
Alignment explanation
Indices: 1190040--1190195 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
1190030 TAGACAAAAA
* * * *
1190040 GACTTGCAAAAAAAGAATTTTAAGA-GAAATAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAAAGGAAATAG-ATTCTTAATAGGCAAGTTT
1190092 GACTTGCAAGAGAAGAATTTTAAAAGGAAATAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAAAGGAAATAGATTCTTAATAGGCAAGTTT
* * * * **
1190144 AACTTACAAGAGAAGAATTCTAAAAGGAGAGGGATTCTTAAT-GAGCAAGTTT
1 GACTTGCAAGAGAAGAATTTTAAAAGGAAATAGATTCTTAATAG-GCAAGTTT
1190196 ATATGGTTAT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 1 0.01
52 84 0.91
53 7 0.08
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTTTAAAAGGAAATAGATTCTTAATAGGCAAGTTT
Found at i:1194540 original size:29 final size:29
Alignment explanation
Indices: 1194498--1194556 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
1194488 TGTCAAATTT
1194498 GTATAACGCGTAATGGCTATACTTTCCAA
1 GTATAACGCGTAATGGCTATACTTTCCAA
* *
1194527 GTATAGCGCGTAATGGCTATACTTTTCAA
1 GTATAACGCGTAATGGCTATACTTTCCAA
1194556 G
1 G
1194557 AAAAATGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (29 bp):
GTATAACGCGTAATGGCTATACTTTCCAA
Found at i:1200991 original size:11 final size:11
Alignment explanation
Indices: 1200975--1201009 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1200965 AATATTTAAC
1200975 AAAACAAACAA
1 AAAACAAACAA
1200986 AAAACAAA-AA
1 AAAACAAACAA
1200996 ATAAACAAACAA
1 A-AAACAAACAA
1201008 AA
1 AA
1201010 GAAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAACAAACAA
Found at i:1201801 original size:20 final size:19
Alignment explanation
Indices: 1201757--1201801 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1201747 CCGCGCGTCA
*
1201757 ACCCGCGACCCGACCCGGG
1 ACCCGCGACCCGACCCGCG
**
1201776 GTCCGCGCACCCGACCCGCG
1 ACCCGCG-ACCCGACCCGCG
1201796 ACCCGC
1 ACCCGC
1201802 TGCCTTTATC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.13, C:0.56, G:0.29, T:0.02
Consensus pattern (19 bp):
ACCCGCGACCCGACCCGCG
Found at i:1201877 original size:32 final size:32
Alignment explanation
Indices: 1201832--1201923 Score: 148
Period size: 32 Copynumber: 2.9 Consensus size: 32
1201822 GGTCTGACTG
*
1201832 GACCGAACCGAACCGCCGGACCAAACCAACCA
1 GACCGAACCGAACCGCCGGACCGAACCAACCA
* *
1201864 GATCGAACTGAACCGCCGGACCGAACCAACCA
1 GACCGAACCGAACCGCCGGACCGAACCAACCA
*
1201896 GACCGAACCGAACCGCCGAACCGAACCA
1 GACCGAACCGAACCGCCGGACCGAACCA
1201924 GGAGTTGACC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.36, C:0.41, G:0.21, T:0.02
Consensus pattern (32 bp):
GACCGAACCGAACCGCCGGACCGAACCAACCA
Found at i:1201916 original size:13 final size:15
Alignment explanation
Indices: 1201882--1201924 Score: 65
Period size: 13 Copynumber: 3.1 Consensus size: 15
1201872 TGAACCGCCG
1201882 GACCGAACC-AACCA
1 GACCGAACCGAACCA
1201896 GACCGAACCGAACC-
1 GACCGAACCGAACCA
1201910 G-CCGAACCGAACCA
1 GACCGAACCGAACCA
1201924 G
1 G
1201925 GAGTTGACCG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.44
14 11 0.41
15 4 0.15
ACGTcount: A:0.37, C:0.42, G:0.21, T:0.00
Consensus pattern (15 bp):
GACCGAACCGAACCA
Found at i:1202582 original size:19 final size:17
Alignment explanation
Indices: 1202539--1202584 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
1202529 TTTTTTTAAG
1202539 AATAATAAATAAAAATT
1 AATAATAAATAAAAATT
*
1202556 AATGAATATAATTAAAATT
1 AAT-AATA-AATAAAAATT
1202575 AAGTAATAAA
1 AA-TAATAAA
1202585 AATAAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 6 0.24
19 15 0.60
20 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (17 bp):
AATAATAAATAAAAATT
Found at i:1202721 original size:207 final size:207
Alignment explanation
Indices: 1202163--1202721 Score: 783
Period size: 207 Copynumber: 2.7 Consensus size: 207
1202153 ACTAAAGTAG
* *
1202163 TAAAAAATGA-AAGAAAAGGAAATTTTTATCCGACGATGAGATTCAAAGGTATTCCGAGTAGTGA
1 TAAAAAATAAGAAGAAAA-GAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGA
1202227 TGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTAT
65 TGCCTACGAAATCTCTAGGTGAGAAGA-TTTTTTT-AAATACTACCAGCGTATTGGAGTATTTAT
* *
1202292 AAAAAAATTTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAATAATAAATAAAATTGATTAATA
128 --AAAAATTTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAATAATAAATAAAATTAATGAATA
1202357 AATTAAAATATAACTAA
191 AATTAAAATATAACTAA
*
1202374 TAAAAAATAAG-AGAAGAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGA
1 TAAAAAATAAGAAGAA-AAGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGA
*
1202438 TGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAGTACTACCAGCGTATTGGAGTATTTATAA
65 TGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAATACTACCAGCGTATTGGAGTATTTATAA
* * *
1202503 AAATTTTCAATACAGTAAAGGTTTTCTTTTTT-TAAGAATAATAAATAAAAATTAATGAATATAA
130 AAATTTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAATAATAAAT-AAAATTAATGAATA-AA
*
1202567 TTAAAAT-TAAGTAA
193 TTAAAATATAACTAA
* * * *
1202581 T-AAAAATAAGAAGAAAAGAAA-TTTAATCCAATGATGAGATTCTAAAAGTATTCCGAGTAGAGA
1 TAAAAAATAAGAAGAAAAGAAATTTTTATCCGATGATGAGATTC-AAAGGTATTCCGAGTAGTGA
* * * *
1202644 TGCTTTAAGAAATCTCTA-GTGAGAAGATTTTTTGTAAATATTACC-GCGTATTGGAATATTTAT
65 TGC-CTACGAAATCTCTAGGTGAGAAGATTTTTT-TAAATACTACCAGCGTATTGGAGTATTTAT
*
1202707 AGAAAATCTTCAATA
128 A-AAAATTTTCAATA
1202722 TGATTAAATT
Statistics
Matches: 318, Mismatches: 21, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
205 19 0.06
206 80 0.25
207 89 0.28
208 9 0.03
209 28 0.09
210 7 0.02
211 85 0.27
212 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (207 bp):
TAAAAAATAAGAAGAAAAGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGAT
GCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAATACTACCAGCGTATTGGAGTATTTATAAA
AATTTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAATAATAAATAAAATTAATGAATAAATTA
AAATATAACTAA
Found at i:1202775 original size:18 final size:18
Alignment explanation
Indices: 1202748--1202783 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1202738 TCTTCAAATT
*
1202748 TTAATTAAAATTAATAAA
1 TTAATAAAAATTAATAAA
1202766 TTAATAAAAATTAATAAA
1 TTAATAAAAATTAATAAA
1202784 AATTTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAATAAAAATTAATAAA
Found at i:1202776 original size:10 final size:10
Alignment explanation
Indices: 1202748--1202787 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
1202738 TCTTCAAATT
*
1202748 TTAATTAAAA
1 TTAATAAAAA
1202758 TTAAT--AAA
1 TTAATAAAAA
1202766 TTAATAAAAA
1 TTAATAAAAA
1202776 TTAATAAAAA
1 TTAATAAAAA
1202786 TT
1 TT
1202788 TTTGAATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.29
10 20 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAATAAAAA
Found at i:1203973 original size:10 final size:11
Alignment explanation
Indices: 1203960--1203985 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1203950 CAAAAACATT
1203960 AAAAAAACAAA
1 AAAAAAACAAA
1203971 AAAAAAACAAA
1 AAAAAAACAAA
1203982 AAAA
1 AAAA
1203986 TGTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:1214710 original size:47 final size:47
Alignment explanation
Indices: 1214535--1214956 Score: 722
Period size: 47 Copynumber: 8.9 Consensus size: 47
1214525 TTGAAAACAG
1214535 AAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCC
1214584 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTCC
*
1214633 AAGAAGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
1214681 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
1214728 -AGATGAAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATG-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1214775 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
1214822 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1214869 -AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
*
1214916 AAGATGAATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
1214957 CCTTTCAAAA
Statistics
Matches: 359, Mismatches: 9, Indels: 12
0.94 0.02 0.03
Matches are distributed among these distances:
46 11 0.03
47 236 0.66
48 24 0.07
49 88 0.25
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (47 bp):
AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
Found at i:1215145 original size:11 final size:11
Alignment explanation
Indices: 1215129--1215163 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1215119 AATATTTAAC
1215129 AAAACAAACAA
1 AAAACAAACAA
1215140 AAAACAAA-AA
1 AAAACAAACAA
1215150 ATAAACAAACAA
1 A-AAACAAACAA
1215162 AA
1 AA
1215164 GAAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAACAAACAA
Found at i:1215964 original size:20 final size:19
Alignment explanation
Indices: 1215920--1215964 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1215910 CCGCGCGTCA
*
1215920 ACCCGCGACCCGACCCGGG
1 ACCCGCGACCCGACCCGCG
**
1215939 GTCCGCGCACCCGACCCGCG
1 ACCCGCG-ACCCGACCCGCG
1215959 ACCCGC
1 ACCCGC
1215965 TGCCTTTATC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.13, C:0.56, G:0.29, T:0.02
Consensus pattern (19 bp):
ACCCGCGACCCGACCCGCG
Found at i:1216040 original size:32 final size:32
Alignment explanation
Indices: 1215995--1216086 Score: 148
Period size: 32 Copynumber: 2.9 Consensus size: 32
1215985 GGTCTGACTG
*
1215995 GACCGAACCGAACCGCCGGACCAAACCAACCA
1 GACCGAACCGAACCGCCGGACCGAACCAACCA
* *
1216027 GATCGAACTGAACCGCCGGACCGAACCAACCA
1 GACCGAACCGAACCGCCGGACCGAACCAACCA
*
1216059 GACCGAACCGAACCGCCGAACCGAACCA
1 GACCGAACCGAACCGCCGGACCGAACCA
1216087 GGAGTTGACC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.36, C:0.41, G:0.21, T:0.02
Consensus pattern (32 bp):
GACCGAACCGAACCGCCGGACCGAACCAACCA
Found at i:1216079 original size:13 final size:15
Alignment explanation
Indices: 1216045--1216087 Score: 65
Period size: 13 Copynumber: 3.1 Consensus size: 15
1216035 TGAACCGCCG
1216045 GACCGAACC-AACCA
1 GACCGAACCGAACCA
1216059 GACCGAACCGAACC-
1 GACCGAACCGAACCA
1216073 G-CCGAACCGAACCA
1 GACCGAACCGAACCA
1216087 G
1 G
1216088 GAGTTGACCG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.44
14 11 0.41
15 4 0.15
ACGTcount: A:0.37, C:0.42, G:0.21, T:0.00
Consensus pattern (15 bp):
GACCGAACCGAACCA
Found at i:1216539 original size:19 final size:18
Alignment explanation
Indices: 1216499--1216542 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1216489 TTTAAAAAAA
* *
1216499 TAATAAATAAAAATTGAT
1 TAATAAATAAAAATTAAC
*
1216517 TAATAAATTAAAATATAAC
1 TAATAAATAAAAAT-TAAC
1216536 TAATAAA
1 TAATAAA
1216543 AAATAAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATAAATAAAAATTAAC
Found at i:1216565 original size:213 final size:212
Alignment explanation
Indices: 1216335--1216893 Score: 808
Period size: 213 Copynumber: 2.6 Consensus size: 212
1216325 AAAAAAATGA
*
1216335 AAGAA-AAAGGAAATTTTTATCCGACGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACGA
1 AAGAAGAAAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACGA
1216399 AATCTCTAGGTGAGAAGATTTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAAAT
66 AATCTCTAGGTGAGAAGA-TTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTAT-AAAAAAT
* * *
1216464 TTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAATAATAAATAAAAATTGATTAATA-AAT-TA
129 TTTCAATACAGTAAAGATTTTCTTTTTTAAAAAAATAATAAATAAAAATTAATGAATATAATAAA
1216527 AAATATAACTAATAAAAAAT
194 AAATATAACTAAT-AAAAAT
1216547 AAG-AGAAGAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACG
1 AAGAAGAA-AGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACG
* *
1216611 AAATCTCTAGGTGAGAAGA-TTTTTTT-AAGTACTACCAGCGTATTGGAGTATTTATAAAAATTT
65 AAATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAATT
* ** *
1216674 TTCAATACAGTAAAGGTTTTCTTTTTTTTAAGAATAATAAATAAAAATTAATGAATATAATAAAA
130 TTCAATACAGTAAAGATTTTCTTTTTTAAAAAAATAATAAATAAAAATTAATGAATATAATAAAA
*
1216739 AATATAAGTAATAAAAAT
195 AATATAACTAATAAAAAT
* * * * * * *
1216757 AAGAAGAAAAGAAA-TTTAATCCAATGATGAGATTCTAAAAGTATTCCGAGTAGAGATGCTTTAA
1 AAGAAGAAAGGAAATTTTTATCCGATGATGAGATTC-AAAGGTATTCCGAGTAGTGATGC-CTAC
* * * *
1216821 GAAATCTCTAGGTGAGAAGATTTTTTGTAAAATATTACCAGCGTATTGGAATATTTATAGAAAAT
64 GAAATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAAT
*
1216886 CTTCAATA
129 TTTCAATA
1216894 TGATTAAATT
Statistics
Matches: 313, Mismatches: 25, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
209 77 0.25
210 66 0.21
211 47 0.15
212 11 0.04
213 112 0.36
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (212 bp):
AAGAAGAAAGGAAATTTTTATCCGATGATGAGATTCAAAGGTATTCCGAGTAGTGATGCCTACGA
AATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTATTTATAAAAAATTT
TCAATACAGTAAAGATTTTCTTTTTTAAAAAAATAATAAATAAAAATTAATGAATATAATAAAAA
ATATAACTAATAAAAAT
Found at i:1216733 original size:20 final size:19
Alignment explanation
Indices: 1216701--1216758 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 19
1216691 TTTCTTTTTT
1216701 TTAAGAATAATAAATAAAAA
1 TTAAGAATAAT-AATAAAAA
1216721 TTAATGAAT-ATAATAAAAAA
1 TTAA-GAATAATAAT-AAAAA
*
1216741 TATAAGTAATAAAAATAA
1 T-TAAG-AATAATAATAA
1216759 GAAGAAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
19 3 0.09
20 13 0.41
21 12 0.38
22 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
TTAAGAATAATAATAAAAA
Done.