Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 31 of 144
Found at i:9399123 original size:14 final size:14
Alignment explanation
Indices: 9399104--9399135 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9399094 AGGTCATTTA
9399104 GCCCAACCAAACTG
1 GCCCAACCAAACTG
9399118 GCCCAACCAAACTG
1 GCCCAACCAAACTG
9399132 GCCC
1 GCCC
9399136 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:9402757 original size:20 final size:21
Alignment explanation
Indices: 9402732--9402773 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
9402722 TAAAAATTCT
*
9402732 TTAAAAA-TAATTTTAATCCC
1 TTAAAAATTAATTTCAATCCC
9402752 TTAAAAATTTAATTTCAATCCC
1 TTAAAAA-TTAATTTCAATCCC
9402774 ACACATGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAAATTAATTTCAATCCC
Found at i:9403410 original size:6 final size:6
Alignment explanation
Indices: 9403399--9403424 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9403389 ATTTTTACTA
9403399 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
9403425 TTAAATCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:9410180 original size:16 final size:16
Alignment explanation
Indices: 9410159--9410210 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
9410149 TTTGGTTCGT
9410159 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9410175 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
9410191 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
9410207 TGTA
1 TGTA
9410211 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9410257 original size:45 final size:44
Alignment explanation
Indices: 9410191--9410285 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
9410181 GGATTAGAGG
* *
9410191 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGATTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGATTGAA
* ** *
9410236 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGATTGAA
9410280 TGTAAT
1 TGTAAT
9410286 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGATTGAA
Found at i:9410615 original size:18 final size:17
Alignment explanation
Indices: 9410594--9410628 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9410584 TTATTATTAA
*
9410594 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9410612 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9410629 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9410640 original size:147 final size:149
Alignment explanation
Indices: 9410366--9410640 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
9410356 ATGATTATTG
*
9410366 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
9410431 ACATAATTATTATTTAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
9410496 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
9410515 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
9410578 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
9410641 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:9410691 original size:17 final size:16
Alignment explanation
Indices: 9410669--9410715 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
9410659 ACTCAAATCA
9410669 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
9410686 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
9410700 TAAATATATGATTTAA
1 T-AATATATGATTTAA
9410716 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:9410716 original size:17 final size:17
Alignment explanation
Indices: 9410688--9410721 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9410678 ATTATAACTA
*
9410688 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
9410705 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
9410722 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:9410864 original size:93 final size:92
Alignment explanation
Indices: 9410754--9410948 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
9410744 GATTATAGTT
* * *
9410754 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
9410817 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
9410847 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
9410912 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
9410939 TATGAATTTA
1 TATGAATTTA
9410949 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:9413311 original size:88 final size:88
Alignment explanation
Indices: 9413162--9413338 Score: 327
Period size: 88 Copynumber: 2.0 Consensus size: 88
9413152 ATATCACATG
9413162 ACATAAAACCTTGAATTAGAATACTAATTTAAATCTAAATCAACTAAATGTTGTTGAAGCTATAT
1 ACATAAAACCTTGAATTAGAATACTAATTTAAATCTAAATCAACTAAATGTTGTTGAAGCTATAT
9413227 ATAAAACTCAGTCTAATACCTTA
66 ATAAAACTCAGTCTAATACCTTA
* * *
9413250 ACATAAAACCTTGAGTTAGAATACTAATTTAAATCTAAATCAAGTTAATGTTGTTGAAGCTATAT
1 ACATAAAACCTTGAATTAGAATACTAATTTAAATCTAAATCAACTAAATGTTGTTGAAGCTATAT
9413315 ATAAAACTCAGTCTAATACCTTA
66 ATAAAACTCAGTCTAATACCTTA
9413338 A
1 A
9413339 ACCATTTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (88 bp):
ACATAAAACCTTGAATTAGAATACTAATTTAAATCTAAATCAACTAAATGTTGTTGAAGCTATAT
ATAAAACTCAGTCTAATACCTTA
Found at i:9415028 original size:12 final size:12
Alignment explanation
Indices: 9415011--9415038 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9415001 CATACAAAAA
9415011 ACAGAAGCTGCT
1 ACAGAAGCTGCT
9415023 ACAGAAGCTGCT
1 ACAGAAGCTGCT
9415035 ACAG
1 ACAG
9415039 CAATAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:9416256 original size:88 final size:88
Alignment explanation
Indices: 9416107--9416321 Score: 430
Period size: 88 Copynumber: 2.4 Consensus size: 88
9416097 TTACCTATTG
9416107 ACAGAATATTTCCAGCAATGAAATTGATTGAGATTAAGAATGCTTCACACTTTAATGTGAGCACA
1 ACAGAATATTTCCAGCAATGAAATTGATTGAGATTAAGAATGCTTCACACTTTAATGTGAGCACA
9416172 TAAATCCTCACATAAACCGCTTC
66 TAAATCCTCACATAAACCGCTTC
9416195 ACAGAATATTTCCAGCAATGAAATTGATTGAGATTAAGAATGCTTCACACTTTAATGTGAGCACA
1 ACAGAATATTTCCAGCAATGAAATTGATTGAGATTAAGAATGCTTCACACTTTAATGTGAGCACA
9416260 TAAATCCTCACATAAACCGCTTC
66 TAAATCCTCACATAAACCGCTTC
9416283 ACAGAATATTTCCAGCAATGAAATTGATTGAGATTAAGA
1 ACAGAATATTTCCAGCAATGAAATTGATTGAGATTAAGA
9416322 TTAATGTTTT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 127 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (88 bp):
ACAGAATATTTCCAGCAATGAAATTGATTGAGATTAAGAATGCTTCACACTTTAATGTGAGCACA
TAAATCCTCACATAAACCGCTTC
Found at i:9416285 original size:42 final size:42
Alignment explanation
Indices: 9416148--9416285 Score: 109
Period size: 42 Copynumber: 3.2 Consensus size: 42
9416138 GATTAAGAAT
9416148 GCTTCACACTTTAATGTGAGCACATAAATCCTCACATAAACC
1 GCTTCACACTTTAATGTGAGCACATAAATCCTCACATAAACC
*** * * ** * * **
9416190 GCTTCACAGAAT-ATTTCCAGCA-ATGAAATTGATTGAGATTAAGAAT
1 GCTTCACACTTTAATGT-GAGCACAT-AAA-T-CCTCACA-TAA-ACC
9416236 GCTTCACACTTTAATGTGAGCACATAAATCCTCACATAAACC
1 GCTTCACACTTTAATGTGAGCACATAAATCCTCACATAAACC
9416278 GCTTCACA
1 GCTTCACA
9416286 GAATATTTCC
Statistics
Matches: 66, Mismatches: 22, Indels: 16
0.63 0.21 0.15
Matches are distributed among these distances:
41 5 0.08
42 25 0.38
43 4 0.06
44 6 0.09
45 4 0.06
46 17 0.26
47 5 0.08
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (42 bp):
GCTTCACACTTTAATGTGAGCACATAAATCCTCACATAAACC
Found at i:9417230 original size:24 final size:24
Alignment explanation
Indices: 9417203--9417253 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
9417193 TGGGAAAAAC
9417203 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
*
9417227 ATTGGTAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
9417251 ATT
1 ATT
9417254 TAAAATTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:9418623 original size:23 final size:24
Alignment explanation
Indices: 9418580--9418624 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
9418570 CTGCGTTTAA
*
9418580 TTCACTACTCCCACTTTTCTTCCT
1 TTCACTACTCCCACTTGTCTTCCT
9418604 TTCACT-CTCCC-CTCTGTCTTC
1 TTCACTACTCCCACT-TGTCTTC
9418625 GAAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 11 0.58
24 6 0.32
ACGTcount: A:0.09, C:0.44, G:0.02, T:0.44
Consensus pattern (24 bp):
TTCACTACTCCCACTTGTCTTCCT
Found at i:9418860 original size:25 final size:24
Alignment explanation
Indices: 9418826--9418874 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
9418816 ATTCTCGAGT
9418826 TTTTTGTTTTCCGCTTTTTTTATATG
1 TTTTTGTTTT-CG-TTTTTTTATATG
*
9418852 TTTTT-TTTTCGTTTTTTTTTATG
1 TTTTTGTTTTCGTTTTTTTATATG
9418875 ATTTATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 2 0.09
25 4 0.18
26 5 0.23
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.76
Consensus pattern (24 bp):
TTTTTGTTTTCGTTTTTTTATATG
Found at i:9426236 original size:16 final size:17
Alignment explanation
Indices: 9426203--9426237 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9426193 ATACACACTT
9426203 TATTCAAAAAATATATA
1 TATTCAAAAAATATATA
*
9426220 TATTCAAAAGATA-ATA
1 TATTCAAAAAATATATA
9426236 TA
1 TA
9426238 GCCTATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (17 bp):
TATTCAAAAAATATATA
Found at i:9429544 original size:20 final size:20
Alignment explanation
Indices: 9429482--9429544 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
9429472 ATACTAATAT
9429482 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
* *
9429502 ATTGATATTA--TTCAA-ATAATA
1 A-T-A-ATTATGTTCAACCT-TTA
9429523 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
9429543 AT
1 AT
9429545 TATGTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 12 0.38
21 10 0.31
22 1 0.03
23 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAATTATGTTCAACCTTTA
Found at i:9430266 original size:15 final size:15
Alignment explanation
Indices: 9430246--9430291 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
9430236 ATTTTTTTGC
9430246 TTCGTGTGTTCTAAA
1 TTCGTGTGTTCTAAA
*
9430261 TTCGTGAGTT-TAAA
1 TTCGTGTGTTCTAAA
9430275 CTAT-GTGTGTTCTAAA
1 -T-TCGTGTGTTCTAAA
9430291 T
1 T
9430292 GTTGCAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.15
15 17 0.65
16 5 0.19
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.46
Consensus pattern (15 bp):
TTCGTGTGTTCTAAA
Found at i:9430709 original size:217 final size:217
Alignment explanation
Indices: 9430334--9430767 Score: 868
Period size: 217 Copynumber: 2.0 Consensus size: 217
9430324 ACAAAGTGTG
9430334 AGGCGTAAAAGAATTGGTATTGCTGTGACAATATGGTTGGAAATCTGTAGAATCGCGATTTGGTT
1 AGGCGTAAAAGAATTGGTATTGCTGTGACAATATGGTTGGAAATCTGTAGAATCGCGATTTGGTT
9430399 CTTATTTAGAATGGGCGTTAGCCTTAGCCTACATAGACCAAGGATTAGGTCCTATACCGTAGATT
66 CTTATTTAGAATGGGCGTTAGCCTTAGCCTACATAGACCAAGGATTAGGTCCTATACCGTAGATT
9430464 TTTATGCAAAACGGGATTATGTGAAGAGGCTTGTATATGCTAGTGACGAGACCTGTATTGAACAA
131 TTTATGCAAAACGGGATTATGTGAAGAGGCTTGTATATGCTAGTGACGAGACCTGTATTGAACAA
9430529 GTTAGGATGAATAGAACTACCT
196 GTTAGGATGAATAGAACTACCT
9430551 AGGCGTAAAAGAATTGGTATTGCTGTGACAATATGGTTGGAAATCTGTAGAATCGCGATTTGGTT
1 AGGCGTAAAAGAATTGGTATTGCTGTGACAATATGGTTGGAAATCTGTAGAATCGCGATTTGGTT
9430616 CTTATTTAGAATGGGCGTTAGCCTTAGCCTACATAGACCAAGGATTAGGTCCTATACCGTAGATT
66 CTTATTTAGAATGGGCGTTAGCCTTAGCCTACATAGACCAAGGATTAGGTCCTATACCGTAGATT
9430681 TTTATGCAAAACGGGATTATGTGAAGAGGCTTGTATATGCTAGTGACGAGACCTGTATTGAACAA
131 TTTATGCAAAACGGGATTATGTGAAGAGGCTTGTATATGCTAGTGACGAGACCTGTATTGAACAA
9430746 GTTAGGATGAATAGAACTACCT
196 GTTAGGATGAATAGAACTACCT
9430768 TTTTTAAACT
Statistics
Matches: 217, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 217 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (217 bp):
AGGCGTAAAAGAATTGGTATTGCTGTGACAATATGGTTGGAAATCTGTAGAATCGCGATTTGGTT
CTTATTTAGAATGGGCGTTAGCCTTAGCCTACATAGACCAAGGATTAGGTCCTATACCGTAGATT
TTTATGCAAAACGGGATTATGTGAAGAGGCTTGTATATGCTAGTGACGAGACCTGTATTGAACAA
GTTAGGATGAATAGAACTACCT
Found at i:9430998 original size:60 final size:60
Alignment explanation
Indices: 9430914--9431032 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
9430904 TAGAAGGTCT
9430914 GGGGAAACAGTTAGCAGAGCATTTCATAGTGTTTTAAATGCTGTCATACGCTTAGAAGAC
1 GGGGAAACAGTTAGCAGAGCATTTCATAGTGTTTTAAATGCTGTCATACGCTTAGAAGAC
*
9430974 GGGGAAACTGTTAGCAGAGCATTTCATAGTGTTTTAAATGCTGTCATACGCTTAGAAGA
1 GGGGAAACAGTTAGCAGAGCATTTCATAGTGTTTTAAATGCTGTCATACGCTTAGAAGA
9431033 TGTATTATTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (60 bp):
GGGGAAACAGTTAGCAGAGCATTTCATAGTGTTTTAAATGCTGTCATACGCTTAGAAGAC
Found at i:9431991 original size:11 final size:11
Alignment explanation
Indices: 9431975--9432001 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9431965 TAGAAATTAG
9431975 TTTGTGAAACT
1 TTTGTGAAACT
9431986 TTTGTGAAACT
1 TTTGTGAAACT
9431997 TTTGT
1 TTTGT
9432002 ATTGATTTTT
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:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:9436146 original size:43 final size:42
Alignment explanation
Indices: 9436070--9436167 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
9436060 CCCGGTATCG
* *
9436070 CACACTTAGTGCCCGTTATTCAACATCTCCATTTTAATTTCA
1 CACACTTAGTGCCCGTTATTCAACACCTCCATTTTAATTCCA
* * * *
9436112 CACACTTAGTGCCCTTTTATTCAACCCCAT-CATTTTAGTTCCG
1 CACACTTAGTGCCC-GTTATTCAACACC-TCCATTTTAATTCCA
9436155 CACACTTAGTGCC
1 CACACTTAGTGCC
9436168 GTTTATATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 14 0.29
43 33 0.69
44 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (42 bp):
CACACTTAGTGCCCGTTATTCAACACCTCCATTTTAATTCCA
Found at i:9440983 original size:12 final size:12
Alignment explanation
Indices: 9440966--9440992 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9440956 GATTAGTCAA
9440966 TGGCTAATTTTG
1 TGGCTAATTTTG
9440978 TGGCTAATTTTG
1 TGGCTAATTTTG
9440990 TGG
1 TGG
9440993 GGCTGAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (12 bp):
TGGCTAATTTTG
Found at i:9442891 original size:16 final size:16
Alignment explanation
Indices: 9442858--9442891 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9442848 ACCTTTTGTT
* *
9442858 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
9442874 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
9442890 AA
1 AA
9442892 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:9445718 original size:21 final size:21
Alignment explanation
Indices: 9445692--9445732 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9445682 AGACGAGCAA
* *
9445692 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9445713 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9445733 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9448666 original size:40 final size:43
Alignment explanation
Indices: 9448579--9448670 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 43
9448569 GATTAGTACC
9448579 GGATGATCTTTTACTCATGACAACTTCAAGAGGTGGGTACAAATAT
1 GGATGATCTTTTACTCATGACAAC-TC-A-AGGTGGGTACAAATAT
9448625 GGATGATCTTTTACTCATGACAA-TC-A-GTGGGTACAAATAT
1 GGATGATCTTTTACTCATGACAACTCAAGGTGGGTACAAATAT
9448665 GGATGA
1 GGATGA
9448671 GTAAAAGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
40 20 0.43
41 1 0.02
44 2 0.04
46 23 0.50
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (43 bp):
GGATGATCTTTTACTCATGACAACTCAAGGTGGGTACAAATAT
Found at i:9451781 original size:108 final size:108
Alignment explanation
Indices: 9451646--9451863 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
9451636 ATTAGAGTTG
9451646 ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
1 ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
9451711 TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
66 TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
9451754 ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
1 ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
9451819 TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
66 TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
9451862 AC
1 AC
9451864 CATGTTGTAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (108 bp):
ACAATGAAGTGTTCACTGATTGATTTCTCATGCTTTGTTTCTCAAGTTCAAATATTTTCTTCTAA
TTTCCTTTTAAGTCAAAATTTTCTTTAATAGATTGATGTCATT
Found at i:9463701 original size:34 final size:33
Alignment explanation
Indices: 9463658--9463766 Score: 134
Period size: 34 Copynumber: 3.3 Consensus size: 33
9463648 AGAAAATATA
*
9463658 AAAATAAAATATTTGAAATATTTTAATATATTTT
1 AAAATAAAATATTT-AAATATTTTAATATAATTT
*
9463692 AAAATAAAATATTT---TATTTCAAAATATAATTT
1 AAAATAAAATATTTAAATATTT--TAATATAATTT
9463724 AAAATAAAATATTCTAAATATTTTAATATAATTT
1 AAAATAAAATATT-TAAATATTTTAATATAATTT
*
9463758 AATATAAAA
1 AAAATAAAA
9463767 ATAATTATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
30 5 0.08
32 22 0.34
33 1 0.02
34 32 0.49
36 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (33 bp):
AAAATAAAATATTTAAATATTTTAATATAATTT
Found at i:9463702 original size:17 final size:17
Alignment explanation
Indices: 9463682--9463735 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
9463672 GAAATATTTT
9463682 AATATATTTTAAAAT-A
1 AATATATTTTAAAATAA
**
9463698 AA-ATATTTT-ATTTCAA
1 AATATATTTTAAAAT-AA
*
9463714 AATATAATTTAAAATAA
1 AATATATTTTAAAATAA
9463731 AATAT
1 AATAT
9463736 TCTAAATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 2 0.07
15 7 0.24
16 5 0.17
17 13 0.45
18 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATATTTTAAAATAA
Found at i:9463705 original size:15 final size:15
Alignment explanation
Indices: 9463685--9463741 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
9463675 ATATTTTAAT
9463685 ATATTTTAAAATAAA
1 ATATTTTAAAATAAA
**
9463700 ATATTTT-ATTTCAAA
1 ATATTTTAAAAT-AAA
9463715 ATATAATTTAAAATAAA
1 ATAT--TTTAAAATAAA
*
9463732 ATATTCTAAA
1 ATATTTTAAA
9463742 TATTTTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 2 0.06
15 19 0.58
17 10 0.30
18 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATTTTAAAATAAA
Found at i:9463795 original size:21 final size:22
Alignment explanation
Indices: 9463769--9463838 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 22
9463759 ATATAAAAAT
9463769 AATTATATTA-AAAATTTATTA
1 AATTATATTATAAAATTTATTA
* **
9463790 AATTATA-TATTATTTTTATTA
1 AATTATATTATAAAATTTATTA
9463811 AATTATATTTAATAATAATTATATTA
1 AATTATA-TT-ATAA-AATT-TATTA
9463837 AA
1 AA
9463839 ATACGATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.05
21 22 0.59
23 1 0.03
24 3 0.08
25 2 0.05
26 7 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTATATTATAAAATTTATTA
Found at i:9467802 original size:30 final size:30
Alignment explanation
Indices: 9467766--9467836 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
9467756 AAATTTATCA
*
9467766 ATTCAGTTGTTAAGTGGCTACACTGAATCG
1 ATTCAGTTGTTAAGTGGCTACACTGAACCG
*
9467796 ATTCAGTTATTAAGTGGCTACACTGAACCG
1 ATTCAGTTGTTAAGTGGCTACACTGAACCG
*
9467826 ATTCTGTTGTT
1 ATTCAGTTGTT
9467837 TATTGAGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (30 bp):
ATTCAGTTGTTAAGTGGCTACACTGAACCG
Found at i:9474612 original size:21 final size:21
Alignment explanation
Indices: 9474586--9474627 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9474576 CGGTCAAATG
9474586 ATTGGCTCAAAAAATTAGGGT
1 ATTGGCTCAAAAAATTAGGGT
9474607 ATTGGCTCAAAAAATTAGGGT
1 ATTGGCTCAAAAAATTAGGGT
9474628 GGTGTTGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
ATTGGCTCAAAAAATTAGGGT
Found at i:9479594 original size:6 final size:6
Alignment explanation
Indices: 9479364--9479591 Score: 447
Period size: 6 Copynumber: 38.0 Consensus size: 6
9479354 CTATTTTAAT
9479364 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
9479412 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
9479460 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
9479508 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
9479556 TATACA TATACA TATACA TATACA TATACA CATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA
9479592 CATTTATAAT
Statistics
Matches: 221, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 221 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:9483456 original size:6 final size:6
Alignment explanation
Indices: 9483439--9483480 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
9483429 TCCTGACAAG
*
9483439 GAGAAA GGGAAA GAGAAA GAGAAA GAGAAA GAGAAA GA-AAA G
1 GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA GAGAAA G
9483481 GATACAGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
GAGAAA
Found at i:9489893 original size:3 final size:3
Alignment explanation
Indices: 9489885--9489932 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
9489875 TGGCCTCCCA
9489885 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9489933 GTCGTATCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9502401 original size:5 final size:5
Alignment explanation
Indices: 9502384--9502412 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
9502374 TGTTTAAGTA
9502384 TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
9502413 AATAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:9503184 original size:24 final size:24
Alignment explanation
Indices: 9503157--9503203 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9503147 ATTGAAATGG
9503157 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
9503181 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
9503204 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:9505074 original size:28 final size:29
Alignment explanation
Indices: 9505006--9505078 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
9504996 GGGACTATAG
* * *
9505006 TGCTCACACAAGCTGATAGTTATCACGGT
1 TGCTCACACAAGCTGACAATTATCACAGT
* *
9505035 TGCTCACACAAGCTGACAATTATGA-ATT
1 TGCTCACACAAGCTGACAATTATCACAGT
9505063 TGCTCACACAAGCTGA
1 TGCTCACACAAGCTGA
9505079 AGTCGTATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.44
29 22 0.56
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (29 bp):
TGCTCACACAAGCTGACAATTATCACAGT
Found at i:9508774 original size:16 final size:16
Alignment explanation
Indices: 9508753--9508797 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
9508743 TCGTCTCATA
9508753 TTCATTTCTCATATTT
1 TTCATTTCTCATATTT
*
9508769 TTCATTTC-AATATTT
1 TTCATTTCTCATATTT
9508784 TCTCA--TCTCATATT
1 T-TCATTTCTCATATT
9508798 CATTTATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 2 0.08
15 12 0.48
16 11 0.44
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (16 bp):
TTCATTTCTCATATTT
Found at i:9508793 original size:43 final size:43
Alignment explanation
Indices: 9508739--9508824 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
9508729 TCATATTTCA
* * *
9508739 TTTCTCGTCTCATATTCATTTCTCATATTTTTCATTTCAATAT
1 TTTCTCATCTCATATTCATTTATCATATTTGTCATTTCAATAT
*
9508782 TTTCTCATCTCATATTCATTTATCATCTTTGTCATTTCAATAT
1 TTTCTCATCTCATATTCATTTATCATATTTGTCATTTCAATAT
9508825 CAATCACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.21, G:0.02, T:0.55
Consensus pattern (43 bp):
TTTCTCATCTCATATTCATTTATCATATTTGTCATTTCAATAT
Found at i:9511748 original size:25 final size:26
Alignment explanation
Indices: 9511687--9511748 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
9511677 AGGAGATATC
9511687 AAAGAAGTAAAAAGAAAGAAAGAAAGG
1 AAAGAAG-AAAAAGAAAGAAAGAAAGG
* *
9511714 GAA-AATAAAAAGAAAG-AA-AAAGG
1 AAAGAAGAAAAAGAAAGAAAGAAAGG
9511737 AAAAGAAGAAAA
1 -AAAGAAGAAAA
9511749 TTTTATAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
24 4 0.14
25 16 0.55
26 2 0.07
27 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (26 bp):
AAAGAAGAAAAAGAAAGAAAGAAAGG
Found at i:9520835 original size:16 final size:18
Alignment explanation
Indices: 9520804--9520841 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9520794 TTTTAGAATT
*
9520804 TTTTTTAAAATTTAT-AA
1 TTTTTTAAAATATATAAA
9520821 TTTTTTAAAA-ATATAAA
1 TTTTTTAAAATATATAAA
9520838 TTTT
1 TTTT
9520842 GAAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTTAAAATATATAAA
Found at i:9520839 original size:17 final size:18
Alignment explanation
Indices: 9520803--9520841 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9520793 TTTTTAGAAT
* *
9520803 TTTTTTTAAAATTTATAA
1 TTTTTTAAAAATATATAA
9520821 TTTTTTAAAAATATA-AA
1 TTTTTTAAAAATATATAA
9520838 TTTT
1 TTTT
9520842 GAAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTTAAAAATATATAA
Found at i:9520862 original size:20 final size:21
Alignment explanation
Indices: 9520823--9520883 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
9520813 ATTTATAATT
*
9520823 TTTTAAAAATATAAATTTTGAAA
1 TTTTAAAAA-AT-TATTTTGAAA
*
9520846 TTTTTAAAAA-TATTTTG-AA
1 TTTTAAAAAATTATTTTGAAA
9520865 TTTTAAAAAATTATTTTGA
1 TTTTAAAAAATTATTTTGA
9520884 TTTTCTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 11 0.33
20 13 0.39
22 1 0.03
23 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTAAAAAATTATTTTGAAA
Found at i:9520868 original size:19 final size:20
Alignment explanation
Indices: 9520823--9520887 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
9520813 ATTTATAATT
*
9520823 TTTTAAAAATATAAATTTTGAAA
1 TTTTAAAAA-AT-TATTTTG-AA
*
9520846 TTTTTAAAAA-TATTTTGAA
1 TTTTAAAAAATTATTTTGAA
9520865 TTTTAAAAAATTATTTTG-A
1 TTTTAAAAAATTATTTTGAA
9520884 TTTT
1 TTTT
9520888 CTTTTTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 16 0.42
20 13 0.34
22 1 0.03
23 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAATTATTTTGAA
Found at i:9524104 original size:24 final size:23
Alignment explanation
Indices: 9524065--9524109 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
9524055 CCATTTACCC
9524065 ATATTAATTCGAAGTTTGTAATA
1 ATATTAATTCGAAGTTTGTAATA
*
9524088 ATATTATATTTGAAGTTTGTAA
1 ATATTA-ATTCGAAGTTTGTAA
9524110 ATTCATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (23 bp):
ATATTAATTCGAAGTTTGTAATA
Found at i:9527303 original size:11 final size:11
Alignment explanation
Indices: 9527287--9527318 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
9527277 TCGGTTTTAA
9527287 TTAAATAAATT
1 TTAAATAAATT
9527298 TTAAATAAATT
1 TTAAATAAATT
*
9527309 TTAAAAAAAT
1 TTAAATAAAT
9527319 AATTATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAATAAATT
Found at i:9530793 original size:33 final size:33
Alignment explanation
Indices: 9530751--9530818 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
9530741 ATTTCATTTT
9530751 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
1 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
* * * *
9530784 CGGAGACTTGATCCGTTGCAATGTCTTTGTTTC
1 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
9530817 CG
1 CG
9530819 TCCATGGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (33 bp):
CGGAGACTTGATCCATAGAAATATCTTTGTTTC
Found at i:9531862 original size:33 final size:33
Alignment explanation
Indices: 9531820--9531887 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
9531810 ATTTCATTTT
9531820 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
1 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
* * * *
9531853 CGGAGACTTGATCCGTTGCAATGTCTTTGTTTC
1 CGGAGACTTGATCCATAGAAATATCTTTGTTTC
9531886 CG
1 CG
9531888 TCCATGGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (33 bp):
CGGAGACTTGATCCATAGAAATATCTTTGTTTC
Found at i:9539740 original size:28 final size:29
Alignment explanation
Indices: 9539681--9539742 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
9539671 AAAAGCCATT
*
9539681 TTTTTTTAAAATTTATCGAAATGGGCCGA
1 TTTTTTTAAAATTTATCGAAATGGACCGA
** *
9539710 TTTTTTTATTATTTATCGGAATGGACC-A
1 TTTTTTTAAAATTTATCGAAATGGACCGA
9539738 TTTTT
1 TTTTT
9539743 CGGGAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.50
Consensus pattern (29 bp):
TTTTTTTAAAATTTATCGAAATGGACCGA
Found at i:9540206 original size:124 final size:124
Alignment explanation
Indices: 9539960--9540238 Score: 490
Period size: 123 Copynumber: 2.3 Consensus size: 124
9539950 TTATTTCGAG
*
9539960 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
*
9540024 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
65 GAAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
*
9540084 TTGACGTTTCTGAGCAAATAGTATTAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG-G
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
9540148 AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
* *
9540207 TTTACGTTTCTGAGCATATAGTATAAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
9540239 GCCCTCGTGG
Statistics
Matches: 148, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
123 88 0.59
124 59 0.40
125 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:9540872 original size:28 final size:29
Alignment explanation
Indices: 9540813--9540874 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
9540803 AAAAGCCATT
*
9540813 TTTTTTTAAAATTTATCGAAATGGGCCGA
1 TTTTTTTAAAATTTATCGAAATGGACCGA
** *
9540842 TTTTTTTATTATTTATCGGAATGGACC-A
1 TTTTTTTAAAATTTATCGAAATGGACCGA
9540870 TTTTT
1 TTTTT
9540875 CGGGAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.50
Consensus pattern (29 bp):
TTTTTTTAAAATTTATCGAAATGGACCGA
Found at i:9541338 original size:124 final size:124
Alignment explanation
Indices: 9541092--9541370 Score: 508
Period size: 123 Copynumber: 2.3 Consensus size: 124
9541082 TTATTTCGAG
*
9541092 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
*
9541156 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
65 GAAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
*
9541216 TTGACGTTTCTGAGCAAATAGTATTAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG-G
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
9541280 AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
9541339 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
9541371 GCCCTCGTGG
Statistics
Matches: 150, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
123 90 0.60
124 59 0.39
125 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGAGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:9543132 original size:78 final size:78
Alignment explanation
Indices: 9543003--9543158 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
9542993 GACCTTGAAA
9543003 TGGAACATGTGTACTACAACGGCCGATTGCTACGTGGATGCCAAGTGTTCAAACGCCTATTTTGG
1 TGGAACATGTGTACTACAACGGCCGATTGCTACGTGGATGCCAAGTGTTCAAACGCCTATTTTGG
*
9543068 ACCTTTAAGCAAT
66 ACATTTAAGCAAT
9543081 TGGAACATGTGTACTACAACGGCCGATTGCTACGTGGATGCCAAGTGTTCAAACGCCTATTTTGG
1 TGGAACATGTGTACTACAACGGCCGATTGCTACGTGGATGCCAAGTGTTCAAACGCCTATTTTGG
9543146 ACATTTAAGCAAT
66 ACATTTAAGCAAT
9543159 GCCGAGATGC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (78 bp):
TGGAACATGTGTACTACAACGGCCGATTGCTACGTGGATGCCAAGTGTTCAAACGCCTATTTTGG
ACATTTAAGCAAT
Found at i:9543503 original size:29 final size:29
Alignment explanation
Indices: 9543470--9543640 Score: 265
Period size: 29 Copynumber: 6.0 Consensus size: 29
9543460 CCTAAGACAC
*
9543470 GTTAGGGTTAGAGTTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
*
9543499 GTTAGGGTTAGGGCTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
*
9543528 GTTAGGATTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
* *
9543557 TTTAGGGTTAGGGTTTTTAATTAAATTAA
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
* *
9543586 ATTA-GGTTAGGGCTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAG
9543614 GTTAGGGTTAGGG-TTTTAATTAAATTA
1 GTTAGGGTTAGGGTTTTTAATTAAATTA
9543641 CAATTTTTAT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
28 39 0.30
29 91 0.70
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTAGGGTTTTTAATTAAATTAG
Found at i:9545617 original size:25 final size:25
Alignment explanation
Indices: 9545567--9545622 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
9545557 CTTTTATAAC
*
9545567 AAATAATAAATTAATAATTATCTAA
1 AAATAATAAATTAATAAATATCTAA
*
9545592 AAATACATAAA-TAA-AAATATCT-T
1 AAATA-ATAAATTAATAAATATCTAA
9545615 AAATAATA
1 AAATAATA
9545623 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 3 0.11
23 5 0.18
24 7 0.25
25 8 0.29
26 5 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAAATTAATAAATATCTAA
Found at i:9545759 original size:31 final size:31
Alignment explanation
Indices: 9545713--9545783 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
9545703 GCCATTGTTG
*
9545713 AAAATAT-TAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAAATTTAAAATTATTTTAA
*
9545743 AAAATATAAAAAAAATTTAAATTTATTTTAA
1 AAAATATAAAAAAAATTTAAAATTATTTTAA
9545774 AAAA-ATAAAA
1 AAAATATAAAA
9545784 TTGAATGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 13 0.34
31 25 0.66
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATATAAAAAAAATTTAAAATTATTTTAA
Found at i:9545761 original size:20 final size:20
Alignment explanation
Indices: 9545713--9545763 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9545703 GCCATTGTTG
*
9545713 AAAATATTAAAAAATTTAAAA
1 AAAAT-TTAAAAAATATAAAA
** *
9545734 TTATTTTAAAAAATATAAAA
1 AAAATTTAAAAAATATAAAA
9545754 AAAATTTAAA
1 AAAATTTAAA
9545764 TTTATTTTAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAAAATATAAAA
Found at i:9545838 original size:22 final size:21
Alignment explanation
Indices: 9545813--9545863 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
9545803 TAATATGGAT
*
9545813 TTGAGAGATTTTTGGAAGGAAA
1 TTGAGAGA-TTTTAGAAGGAAA
*
9545835 TTGAGAGGATTTTAGAAGGAAT
1 TTGAGA-GATTTTAGAAGGAAA
9545857 TTGAGAG
1 TTGAGAG
9545864 TTTGAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTAGAAGGAAA
Found at i:9545870 original size:30 final size:30
Alignment explanation
Indices: 9545835--9545893 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
9545825 TGGAAGGAAA
* *
9545835 TTGAGAGGATTTTAGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTAGAAGGAAATTGAGAGT
9545865 TTGAGAGAATTTTAGAAGGAAATTGAGAG
1 TTGAGAGAATTTTAGAAGGAAATTGAGAG
9545894 GATTTTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTAGAAGGAAATTGAGAGT
Found at i:9545870 original size:52 final size:52
Alignment explanation
Indices: 9545812--9545914 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
9545802 TTAATATGGA
* * *
9545812 TTTGAGAGATTTTTGGAAGGAAATTGAGAGGATTTTAGAAGGAATTTGAGAG
1 TTTGAGAGAATTTTAGAAGGAAATTGAGAGGATTTTAGAAGGAAATTGAGAG
*
9545864 TTTGAGAGAATTTTAGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
1 TTTGAGAGAATTTTAGAAGGAAATTGAGAGGATTTTAGAAGGAAATTGAGA
9545915 TAGGATTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (52 bp):
TTTGAGAGAATTTTAGAAGGAAATTGAGAGGATTTTAGAAGGAAATTGAGAG
Found at i:9545890 original size:22 final size:22
Alignment explanation
Indices: 9545865--9545914 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
9545855 ATTTGAGAGT
9545865 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
* *
9545887 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
9545909 TTGAGA
1 TTGAGA
9545915 TAGGATTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:9547141 original size:19 final size:18
Alignment explanation
Indices: 9547099--9547143 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
9547089 AATTATTTTT
* *
9547099 TATTTTATATAATTTTAA
1 TATTTTTTATAATTCTAA
9547117 TAATTTTTTATAATTACTAA
1 T-ATTTTTTATAATT-CTAA
9547137 TATTTTT
1 TATTTTT
9547144 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 18 0.78
20 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTTATAATTCTAA
Found at i:9547143 original size:29 final size:26
Alignment explanation
Indices: 9547084--9547153 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
9547074 TATTTTTATG
*
9547084 TTTTTAATTATTTTTTATTTTATATA
1 TTTTTAATTATTTTTTATATTATATA
* *
9547110 ATTTTAATAATTTTTTATAATTACTAATA
1 TTTTTAATTATTTTTTAT-ATTA-T-ATA
*
9547139 TTTTTATTTATTTTT
1 TTTTTAATTATTTTT
9547154 AATTTTGATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 16 0.46
27 3 0.09
28 1 0.03
29 15 0.43
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTAATTATTTTTTATATTATATA
Found at i:9547156 original size:19 final size:19
Alignment explanation
Indices: 9547074--9547156 Score: 50
Period size: 19 Copynumber: 4.5 Consensus size: 19
9547064 TTAAATAAAA
* *
9547074 TATTTTT-ATGTTTTTAAT
1 TATTTTTAATATTTTTATT
*
9547092 TATTTTT--TA-TTTTATA
1 TATTTTTAATATTTTTATT
*
9547108 TAATTTTAATAATTTTT-TAT
1 TATTTTTAAT-ATTTTTAT-T
* **
9547128 AATTACTAATATTTTTATT
1 TATTTTTAATATTTTTATT
9547147 TATTTTTAAT
1 TATTTTTAAT
9547157 TTTGATTGTT
Statistics
Matches: 47, Mismatches: 12, Indels: 11
0.67 0.17 0.16
Matches are distributed among these distances:
16 11 0.23
17 1 0.02
18 8 0.17
19 16 0.34
20 11 0.23
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (19 bp):
TATTTTTAATATTTTTATT
Found at i:9565997 original size:9 final size:9
Alignment explanation
Indices: 9565976--9566037 Score: 88
Period size: 9 Copynumber: 6.9 Consensus size: 9
9565966 TGGTTAAAAA
*
9565976 TTAACCGAC
1 TTAACCGAT
*
9565985 TTAACTGAT
1 TTAACCGAT
*
9565994 TTAACCGAC
1 TTAACCGAT
9566003 TTAACCGAT
1 TTAACCGAT
9566012 TTAACCGAT
1 TTAACCGAT
*
9566021 TTAACCGAC
1 TTAACCGAT
9566030 TTAACCGA
1 TTAACCGA
9566038 GAAATTGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (9 bp):
TTAACCGAT
Found at i:9565999 original size:18 final size:18
Alignment explanation
Indices: 9565976--9566037 Score: 97
Period size: 18 Copynumber: 3.4 Consensus size: 18
9565966 TGGTTAAAAA
*
9565976 TTAACCGACTTAACTGAT
1 TTAACCGACTTAACCGAT
9565994 TTAACCGACTTAACCGAT
1 TTAACCGACTTAACCGAT
* *
9566012 TTAACCGATTTAACCGAC
1 TTAACCGACTTAACCGAT
9566030 TTAACCGA
1 TTAACCGA
9566038 GAAATTGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
TTAACCGACTTAACCGAT
Found at i:9566006 original size:27 final size:27
Alignment explanation
Indices: 9565976--9566037 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
9565966 TGGTTAAAAA
*
9565976 TTAACCGACTTAACTGATTTAACCGAC
1 TTAACCGACTTAACCGATTTAACCGAC
*
9566003 TTAACCGATTTAACCGATTTAACCGAC
1 TTAACCGACTTAACCGATTTAACCGAC
9566030 TTAACCGA
1 TTAACCGA
9566038 GAAATTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (27 bp):
TTAACCGACTTAACCGATTTAACCGAC
Found at i:9571365 original size:21 final size:22
Alignment explanation
Indices: 9571336--9571382 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9571326 CAGAAGGAGT
*
9571336 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
9571358 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
9571379 GAGT
1 GAGT
9571383 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:9573759 original size:109 final size:109
Alignment explanation
Indices: 9573603--9573997 Score: 639
Period size: 109 Copynumber: 3.6 Consensus size: 109
9573593 AGAAATCAAA
* * * * *
9573603 ACCCAGCACATTAGGGCACG-CTCCTCGAATTTCTAAACGCAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* * * *
9573667 TTTAAAAGGATATTTAGCCATTTGGTTGGATGAAAAAAATCGAC
66 TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
* *
9573711 ACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACACAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
9573776 TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
66 TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
*
9573820 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACCCAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
9573885 TTTAAAAGGATATTAAGCAATTTGGTTGAACGAGAAAAATCGAC
66 TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
* *
9573929 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTTCAAACGCAAAACATTGCCTTATTTTAAAAT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAAT
9573994 TTTT
65 TTTT
9573998 CGTCTTTGAT
Statistics
Matches: 268, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
108 17 0.06
109 216 0.81
110 35 0.13
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (109 bp):
ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
TTTAAAAGGATATTAAGCAATTTGGTTGAATGAGAAAAATCGAC
Found at i:9574137 original size:18 final size:17
Alignment explanation
Indices: 9574106--9574141 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9574096 ATATATAATG
*
9574106 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
9574123 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
9574141 A
1 A
9574142 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:9574639 original size:16 final size:16
Alignment explanation
Indices: 9574604--9574675 Score: 55
Period size: 16 Copynumber: 4.8 Consensus size: 16
9574594 AAAGAAAAGA
* *
9574604 TATATATATATATAAG
1 TATATATATAAACAAG
*
9574620 TATATATATAAACAAT
1 TATATATATAAACAAG
*
9574636 TATATA-ATAAAAATAG
1 TATATATATAAACA-AG
9574652 TATA-ATA-AAAC-A-
1 TATATATATAAACAAG
*
9574664 TATATATCTAAA
1 TATATATATAAA
9574676 ACTTTCATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 4 0.09
13 3 0.07
14 3 0.07
15 10 0.22
16 25 0.56
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (16 bp):
TATATATATAAACAAG
Found at i:9574669 original size:14 final size:13
Alignment explanation
Indices: 9574605--9574769 Score: 59
Period size: 14 Copynumber: 12.0 Consensus size: 13
9574595 AAGAAAAGAT
*
9574605 ATATATATATATAA
1 ATATATA-ATAAAA
*
9574619 GTATATATATAAACA
1 ATATATA-ATAAA-A
9574634 ATTATATAATAAAA
1 A-TATATAATAAAA
9574648 ATAGTATAATAAAA
1 ATA-TATAATAAAA
*
9574662 CATATATATCTAAAA
1 -ATATATA-ATAAAA
* * * *
9574677 CTTTCATAAGTGAAT
1 ATAT-ATAA-TAAAA
* *
9574692 ATAAATAA-AAAC
1 ATATATAATAAAA
* *
9574704 ATAACAATAATAACA
1 AT-A-TATAATAAAA
*
9574719 ATA-ATATTAATAA
1 ATATATAATAA-AA
*
9574732 ATATACTAATAACA
1 ATATA-TAATAAAA
*
9574746 ATA-ATAATAATA
1 ATATATAATAAAA
9574758 ATA-ATAATAAAA
1 ATATATAATAAAA
9574770 TTGCTAAATA
Statistics
Matches: 116, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
12 28 0.24
13 8 0.07
14 44 0.38
15 30 0.26
16 6 0.05
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (13 bp):
ATATATAATAAAA
Found at i:9574724 original size:3 final size:3
Alignment explanation
Indices: 9574704--9574767 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
9574694 AAATAAAAAC
* * * * *
9574704 ATA ACA ATA ATA ACA ATA ATA TTA ATA A-A TATA CTA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
9574749 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
9574768 AATTGCTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 1 0.02
3 47 0.96
4 1 0.02
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9579544 original size:21 final size:20
Alignment explanation
Indices: 9579499--9579542 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
9579489 ATTCCAATCC
9579499 AAATTTTTTTATTTAATTTAT
1 AAATTTTTTTATTT-ATTTAT
9579520 AAATTTTTTTAATTT-TTTAT
1 AAATTTTTTT-ATTTATTTAT
9579540 AAA
1 AAA
9579543 ATAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 10 0.45
22 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
AAATTTTTTTATTTATTTAT
Found at i:9581875 original size:23 final size:22
Alignment explanation
Indices: 9581849--9581894 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
9581839 TCAAAGTCTC
9581849 TAACTCGAAAAAAAATTTCATAT
1 TAACTCGAAAAAAAATTT-ATAT
* * *
9581872 TAACTTGTATAAAAATTTATAT
1 TAACTCGAAAAAAAATTTATAT
9581894 T
1 T
9581895 TCGCAGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (22 bp):
TAACTCGAAAAAAAATTTATAT
Found at i:9582213 original size:15 final size:17
Alignment explanation
Indices: 9582188--9582219 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9582178 TATTTCATTG
9582188 ATGATATATCT-CTTTT
1 ATGATATATCTACTTTT
9582204 ATGA-ATATCTACTTTT
1 ATGATATATCTACTTTT
9582220 CGATTGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
ATGATATATCTACTTTT
Found at i:9585932 original size:18 final size:18
Alignment explanation
Indices: 9585909--9585951 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9585899 GTTCAAGGTG
9585909 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
9585927 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
9585945 TAATTAA
1 TAATTAA
9585952 AAAACCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:9589368 original size:24 final size:24
Alignment explanation
Indices: 9589320--9589364 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
9589310 AATACTCATA
**
9589320 TTTATATTATTAAAACGTTTATAT
1 TTTATATTATTAAAACACTTATAT
9589344 TTTATATTA-TAAAACACTTAT
1 TTTATATTATTAAAACACTTAT
9589365 TATTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTATATTATTAAAACACTTATAT
Found at i:9590042 original size:6 final size:6
Alignment explanation
Indices: 9590031--9590062 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
9590021 TAATTTTAAA
9590031 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
9590063 ATAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:9590347 original size:23 final size:23
Alignment explanation
Indices: 9590309--9590353 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9590299 TCAATCGGTA
* * *
9590309 AATATTATTTTTATTTTATTTAG
1 AATATTAATTTGATTTGATTTAG
9590332 AATATTAATTTGATTTGATTTA
1 AATATTAATTTGATTTGATTTA
9590354 ATTTAATTTA
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:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
AATATTAATTTGATTTGATTTAG
Found at i:9592271 original size:25 final size:23
Alignment explanation
Indices: 9592243--9592345 Score: 100
Period size: 25 Copynumber: 4.2 Consensus size: 23
9592233 AAGCTCTTGC
*
9592243 GAGCCAGTTATCGGGAAGCTCATA
1 GAGCCA-TTAACGGGAAGCTCATA
*
9592267 TGAGCCATAAACGGGAAGCTCA-A
1 -GAGCCATTAACGGGAAGCTCATA
9592290 GAAAGCCATTAATCGGGAAGCTCATGA
1 G--AGCCATTAA-CGGGAAGCTCAT-A
*
9592317 GAGCCATATAACGGGATGCTCATAA
1 GAGCCAT-TAACGGGAAGCTCAT-A
9592342 GAGC
1 GAGC
9592346 TAAATAACGG
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 21 0.31
25 39 0.58
26 3 0.04
27 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.17
Consensus pattern (23 bp):
GAGCCATTAACGGGAAGCTCATA
Found at i:9592297 original size:49 final size:50
Alignment explanation
Indices: 9592244--9592338 Score: 142
Period size: 49 Copynumber: 1.9 Consensus size: 50
9592234 AGCTCTTGCG
9592244 AGCCAGTT-ATCGGGAAGCTCAT-ATGAGCCATA-AACGGGAAGCTCAAGAA
1 AGCCA-TTAATCGGGAAGCTCATGA-GAGCCATATAACGGGAAGCTCAAGAA
*
9592293 AGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGGGATGCTCA
1 AGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGGGAAGCTCA
9592339 TAAGAGCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
48 2 0.05
49 27 0.64
50 13 0.31
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (50 bp):
AGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGGGAAGCTCAAGAA
Found at i:9592352 original size:25 final size:25
Alignment explanation
Indices: 9592254--9592362 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 25
9592244 AGCCAGTTAT
* *
9592254 CGGGAAGCTCATATGAGCCATA-AA
1 CGGGAAGCTCATAAGAGCCAAATAA
* *
9592278 CGGGAAGCTCA-AGAAAGCC-ATTAA
1 CGGGAAGCTCATA-AGAGCCAAATAA
* *
9592302 TCGGGAAGCTCATGAGAGCCATATAA
1 -CGGGAAGCTCATAAGAGCCAAATAA
* *
9592328 CGGGATGCTCATAAGAGCTAAATAA
1 CGGGAAGCTCATAAGAGCCAAATAA
*
9592353 CGGGACGCTC
1 CGGGAAGCTC
9592363 TTGCTAGCTG
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.01
24 17 0.25
25 46 0.69
26 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.17
Consensus pattern (25 bp):
CGGGAAGCTCATAAGAGCCAAATAA
Found at i:9594507 original size:48 final size:47
Alignment explanation
Indices: 9594436--9594560 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 47
9594426 TAGGACGCCA
* * * * * *
9594436 ATGCCATATCCCAGATATGGTCTTACA-TGGGATCACATATCGGTGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCA-CACATAT-GGAGACG
* * *
9594484 ATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATCTTGAGACG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATGGAGACG
*
9594531 ATGTCATGTCCTAGACATGGTCTTACACTG
1 ATGCCATGTCCTAGACATGGTCTTACACTG
9594561 ACTCTCCTCT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
47 33 0.50
48 29 0.44
49 4 0.06
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATGGAGACG
Found at i:9594604 original size:50 final size:49
Alignment explanation
Indices: 9594478--9594669 Score: 237
Period size: 50 Copynumber: 3.9 Consensus size: 49
9594468 TCACATATCG
*
9594478 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATC-T-T
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACTCATCGTCT
* * * * *
9594525 GAGACGATGTCATGTCCTAGACATGGTCTTACACTGACTCTCCTCTGTCT
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACTCATC-GTCT
*
9594575 GTGCCGATGCCATGT-CTCAGACATGGTCTTACACTAACACTCATCGGTCT
1 GTGCCGATGCCATGTCCT-AGACATGGTCTTACACTGACACTCATC-GTCT
* *
9594625 GTGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACTCA
1 GTGCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACTCA
9594670 CTGCCATGAT
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
47 39 0.32
49 3 0.02
50 72 0.59
51 1 0.01
52 7 0.06
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACTCATCGTCT
Found at i:9594688 original size:100 final size:97
Alignment explanation
Indices: 9594478--9594674 Score: 227
Period size: 97 Copynumber: 2.0 Consensus size: 97
9594468 TCACATATCG
* ** * *
9594478 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATCTTGAGACGATGTCATGTCCT
1 GTGCCGATACCATGTCCTAGACATGGTCTTACACTAACACTCATCTTGAGACGATGCCATGTCCC
* * *
9594543 AGACATGGTCTTACACTGACTCTCCTCTGTCT
66 AGACATGGTCTTACACTGACACTCCACTGCCT
* * *
9594575 GTGCCGATGCCATGT-CTCAGACATGGTCTTACACTAACACTCATCGGTCTGTGTCGATGCCATG
1 GTGCCGATACCATGTCCT-AGACATGGTCTTACACTAACACTCATC--T-TGAGACGATGCCATG
9594639 TCCCAGACATGGTCTTACACTAGCACACT-CACTGCC
62 TCCCAGACATGGTCTTACACT-G-ACACTCCACTGCC
9594675 ATGATCCAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
96 2 0.02
97 40 0.47
99 1 0.01
100 32 0.38
101 6 0.07
102 4 0.05
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.28
Consensus pattern (97 bp):
GTGCCGATACCATGTCCTAGACATGGTCTTACACTAACACTCATCTTGAGACGATGCCATGTCCC
AGACATGGTCTTACACTGACACTCCACTGCCT
Found at i:9595116 original size:42 final size:42
Alignment explanation
Indices: 9595067--9595163 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
9595057 CTTGGTAACG
** *
9595067 CACACTTAGTGCCCGTTATTTGACATCGCCATTTTTGTTT-T
1 CACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCT
* *
9595108 GTACACTTAGTGCCCGTTATTCAACATCGTCATTTTAGTTTCT
1 -CACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCT
9595151 CACACTTAGTGCC
1 CACACTTAGTGCC
9595164 ATTCGTATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (42 bp):
CACACTTAGTGCCCGTTATTCAACATCGCCATTTTAGTTTCT
Found at i:9597426 original size:38 final size:38
Alignment explanation
Indices: 9597376--9597451 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
9597366 AATTGGAAAT
*
9597376 TAATAATTTTAATACTTTTATATTTCAAAAAAATAATA
1 TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
*
9597414 TAATAATTTTAATAATTTTATATTTCAAAAAGATAATA
1 TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
9597452 AGTTTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (38 bp):
TAATAATTTTAATAATTTTATATTTCAAAAAAATAATA
Found at i:9597764 original size:7 final size:7
Alignment explanation
Indices: 9597752--9597785 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
9597742 AATAAATATA
9597752 TATTTTT
1 TATTTTT
9597759 TA-TTTT
1 TATTTTT
9597765 TATTTTT
1 TATTTTT
9597772 TATTTTT
1 TATTTTT
*
9597779 TAATTTT
1 TATTTTT
9597786 AAAATACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TATTTTT
Found at i:9597768 original size:13 final size:13
Alignment explanation
Indices: 9597752--9597778 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9597742 AATAAATATA
9597752 TATTTTTTATTTT
1 TATTTTTTATTTT
9597765 TATTTTTTATTTT
1 TATTTTTTATTTT
9597778 T
1 T
9597779 TAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:9599206 original size:28 final size:28
Alignment explanation
Indices: 9599151--9599206 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
9599141 CTATATTAAC
* *
9599151 TATTTAACTAATTAATAACATCATAAAA
1 TATTAAACTAATTAATAACATCAAAAAA
*
9599179 TATTAAACTAATTAATAACATTAAAAAA
1 TATTAAACTAATTAATAACATCAAAAAA
9599207 ATATCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (28 bp):
TATTAAACTAATTAATAACATCAAAAAA
Found at i:9602274 original size:23 final size:22
Alignment explanation
Indices: 9602248--9602291 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9602238 TATTATAAAA
*
9602248 TATTCAATAAATTTATTTATCTT
1 TATTCAA-AAAATTATTTATCTT
*
9602271 TATTTAAAAAATTATTTATCT
1 TATTCAAAAAATTATTTATCT
9602292 ATTTCCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTCAAAAAATTATTTATCTT
Found at i:9602912 original size:165 final size:161
Alignment explanation
Indices: 9602624--9603092 Score: 723
Period size: 160 Copynumber: 3.0 Consensus size: 161
9602614 TTTTATCTAC
* *
9602624 TAATTCATTTGTTGTGTGTTTCCTGGATTTTGATTCTTTCGTTTTGTTCGTGGTTACTGTTTC-C
1 TAATCCATTTGTT-TGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCTC
* *
9602688 -T-TTTTTTATTTTTATAATTTGATGTTTTAGGATCTTATTTGCATTTTTATTTTAATTTCGAAG
65 TTCTTTTTTTTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAG
9602751 ATCTATATGATGTTTATTTTTTGAATTGTGATT
130 ATCTATATGATGTTTATTTTTTGAATT-TGATT
* *
9602784 TAATCCATTTGTTTGTGTTTCCTAGATTTTGAATCTTTCGTTTTGTTCGTTGTTACTGTTTCCTC
1 TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTT-CTC
9602849 TTCTTTTTTTTCTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGA
65 TTC-TTTTTTT-TTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGA
9602914 AGATCTATATGATGTTTATTTTTT--A--TGATT
128 AGATCTATATGATGTTTATTTTTTGAATTTGATT
*
9602944 TAATCCATTTGTTTGTATTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTC-CT
1 TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCTCT
*
9603008 TC-----TTTTTTT-TAATTTGATGTTTTAGGATTTTATTTGCAATTTTATTTTAATTTCGAAGA
66 TCTTTTTTTTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGA
9603067 TCTATATGATGTTTATTTTTTGAATT
131 TCTATATGATGTTTATTTTTTGAATT
9603093 ATGTAGTTCC
Statistics
Matches: 289, Mismatches: 10, Indels: 26
0.89 0.03 0.08
Matches are distributed among these distances:
150 70 0.24
151 5 0.02
152 3 0.01
158 4 0.01
159 46 0.16
160 76 0.26
161 1 0.00
162 1 0.00
163 1 0.00
164 6 0.02
165 76 0.26
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (161 bp):
TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCTCT
TCTTTTTTTTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGA
TCTATATGATGTTTATTTTTTGAATTTGATT
Found at i:9603024 original size:150 final size:154
Alignment explanation
Indices: 9602624--9603092 Score: 694
Period size: 165 Copynumber: 3.0 Consensus size: 154
9602614 TTTTATCTAC
* *
9602624 TAATTCATTTGTTGTGTGTTTCCTGGATTTTGATTCTTTCGTTTTGTTCGTGGTTACTGTTTCCT
1 TAATCCATTTGTT-TGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCC-
* *
9602689 TTTTTTATTTTTATAATTTGATGTTTTAGGATCTTATTTGCATTTTTATTTTAATTTCGAAGATC
64 -TTCTTATTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGATC
9602754 TATATGATGTTTATTTTTTGAATTGTGATT
128 TATATGATGTTTATTTTTT-AA-T-TGATT
* *
9602784 TAATCCATTTGTTTGTGTTTCCTAGATTTTGAATCTTTCGTTTTGTTCGTTGTTACTGTTTCCTC
1 TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTT-C-C
*
9602849 TTCTTTTTTTTCTTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGA
64 TTC------TTATTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGA
9602914 AGATCTATATGATGTTTATTTTTT-A-TGATT
123 AGATCTATATGATGTTTATTTTTTAATTGATT
*
9602944 TAATCCATTTGTTTGTATTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCCTT
1 TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCCTT
*
9603009 CTT-TTTTT-TAATTTGATGTTTTAGGATTTTATTTGCAATTTTATTTTAATTTCGAAGATCTAT
66 CTTATTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGATCTAT
9603072 ATGATGTTTATTTTTTGAATT
131 ATGATGTTTATTTTTT-AATT
9603093 ATGTAGTTCC
Statistics
Matches: 287, Mismatches: 11, Indels: 29
0.88 0.03 0.09
Matches are distributed among these distances:
150 70 0.24
151 5 0.02
152 3 0.01
153 1 0.00
158 4 0.01
159 48 0.17
160 76 0.26
161 1 0.00
163 1 0.00
165 78 0.27
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (154 bp):
TAATCCATTTGTTTGTGTTTCCTGGATTTTGAATCTTTCGTTTTGTTCGTGGTTACTGTTTCCTT
CTTATTTTTATAATTTGATGTTTTAGGATTTTATTTGCATTTTTATTTTAATTTCGAAGATCTAT
ATGATGTTTATTTTTTAATTGATT
Found at i:9603470 original size:13 final size:13
Alignment explanation
Indices: 9603431--9603469 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
9603421 CTATTTAGAG
9603431 TTTTTGTTTTTAATC
1 TTTTTGTTTTT--TC
9603446 TTTTTGTTTTTTC
1 TTTTTGTTTTTTC
9603459 TTTTT-TTTTTT
1 TTTTTGTTTTTT
9603470 TTGCATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.25
13 7 0.29
15 11 0.46
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.85
Consensus pattern (13 bp):
TTTTTGTTTTTTC
Found at i:9607231 original size:12 final size:12
Alignment explanation
Indices: 9607214--9607256 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
9607204 ATGATGATGT
9607214 AAGCAGTGACAA
1 AAGCAGTGACAA
*
9607226 AAGCAGCCGTGACAC
1 AAGCA---GTGACAA
9607241 AAGCAGTGACAA
1 AAGCAGTGACAA
9607253 AAGC
1 AAGC
9607257 GGTCATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 15 0.58
15 11 0.42
ACGTcount: A:0.44, C:0.23, G:0.26, T:0.07
Consensus pattern (12 bp):
AAGCAGTGACAA
Found at i:9614732 original size:68 final size:68
Alignment explanation
Indices: 9614603--9614728 Score: 236
Period size: 67 Copynumber: 1.9 Consensus size: 68
9614593 ATCAGCTGGA
*
9614603 CTTCCATTAATGAATATACAAATACTGCTGAAGTAGAAATAAAATAGATTAATAATAAATTACAA
1 CTTCCATTAATGAATATACAAATACTGCTGAAGTAGAAATAAAAGAGATTAATAATAAATTACAA
9614668 TCG
66 TCG
9614671 CTTCCATTAATGAATATAC-AATACTGCTGAAGTAGAAATAAAAGAGATTAATAATAAA
1 CTTCCATTAATGAATATACAAATACTGCTGAAGTAGAAATAAAAGAGATTAATAATAAA
9614729 ATTATTGAAC
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
67 38 0.67
68 19 0.33
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (68 bp):
CTTCCATTAATGAATATACAAATACTGCTGAAGTAGAAATAAAAGAGATTAATAATAAATTACAA
TCG
Found at i:9616642 original size:75 final size:75
Alignment explanation
Indices: 9616519--9616668 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
9616509 ACACTCTTCT
*
9616519 ATTAGAGGATCTGTAATGGAAATAAAGTAATTTGGTTTAACTTTAAATCCTATTACTCCTGTATG
1 ATTAGAGGATCTGTAATGGAAATAAAGTAATTTGGTTTAACTTTAAATCCTATTACACCTGTATG
9616584 TAAATTAGAC
66 TAAATTAGAC
9616594 ATTAGAGGATCTGTAATGGAAATAAAGTAATTTGGTTTAACTTTAAATCCTATTACACCTGTATG
1 ATTAGAGGATCTGTAATGGAAATAAAGTAATTTGGTTTAACTTTAAATCCTATTACACCTGTATG
9616659 TAAATTAGAC
66 TAAATTAGAC
9616669 CGAATACCTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (75 bp):
ATTAGAGGATCTGTAATGGAAATAAAGTAATTTGGTTTAACTTTAAATCCTATTACACCTGTATG
TAAATTAGAC
Found at i:9624021 original size:11 final size:11
Alignment explanation
Indices: 9624005--9624032 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9623995 ATTTATCATC
9624005 TTTTTTTTATG
1 TTTTTTTTATG
9624016 TTTTTTTTATG
1 TTTTTTTTATG
9624027 TTTTTT
1 TTTTTT
9624033 ATAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (11 bp):
TTTTTTTTATG
Found at i:9633467 original size:6 final size:6
Alignment explanation
Indices: 9633456--9633497 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
9633446 AATAATTATA
9633456 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
9633498 AAATCACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:9635990 original size:106 final size:104
Alignment explanation
Indices: 9635804--9636218 Score: 412
Period size: 106 Copynumber: 3.9 Consensus size: 104
9635794 TGTTCCTGTT
* * * * *
9635804 CATCGCCTAGGAAGGGGCACATC-AGGTTCGCATACCCATTATTGCCTACTCGATGTGGACAACA
1 CATCGCCTAGGAA-GGGTACATCAAGGTTTGCATACTCATTATTGCTTACTCGATGTAGACAACA
* *
9635868 TGACCAAAGCATTATATTTCTTTATGTCATTGCTTACTTGTG
65 TGA-CAAAGCATTATATTTCTTCATGTTATTGCTTACTT-TG
* * * * * *
9635910 CATCGCCTAGGAAGGTGTTCGTC-AGTTTTGTATACTCATTACTT-CTTACTTGATGTAGATAAC
1 CATCGCCTAGGAAGG-GTACATCAAGGTTTGCATACTCATTA-TTGCTTACTCGATGTAGACAAC
*
9635973 ATGACAAATGCATTATATTTCTTCATGTTATTGCTTACTCATG
64 ATGACAAA-GCATTATATTTCTTCATGTTATTGCTTACT-TTG
* * * * *
9636016 CATCACCTAGCAAGGGTACATCAAGGTTTGCATGCTCATTATTGCTTACTCAATGTAGACAGCAT
1 CATCGCCTAGGAAGGGTACATCAAGGTTTGCATACTCATTATTGCTTACTCGATGTAGACAACAT
* *
9636081 GACCAAGACATTATATTTCTTCATGTTACTGCTTACTCTTG
66 GACAAAG-CATTATATTTCTTCATGTTATTGCTTACT-TTG
* * * ** *
9636122 GACCGCCTAGGAAGGGATACATTACA--TTTGCATACTCATTGCTGTTTACTC-ATGCT-GACAA
1 CATCGCCTAGGAAGGG-TACATCA-AGGTTTGCATACTCATTATTGCTTACTCGATG-TAGACAA
*
9636183 CATGACCAAGGCATTATATTTCTTCATGTTATTGCT
63 CATGA-CAAAGCATTATATTTCTTCATGTTATTGCT
9636219 CGAGAGTAAG
Statistics
Matches: 257, Mismatches: 41, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
105 50 0.19
106 198 0.77
107 8 0.03
108 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (104 bp):
CATCGCCTAGGAAGGGTACATCAAGGTTTGCATACTCATTATTGCTTACTCGATGTAGACAACAT
GACAAAGCATTATATTTCTTCATGTTATTGCTTACTTTG
Found at i:9642084 original size:25 final size:25
Alignment explanation
Indices: 9642039--9642091 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
9642029 TTTTTTCTGT
* *
9642039 AAAATTTATAAATGTAATATA-TTC
1 AAAATTTACAAATATAATATATTTC
*
9642063 AAAATATTACAAATATATTATATTTC
1 AAAAT-TTACAAATATAATATATTTC
9642089 AAA
1 AAA
9642092 TAATTTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 13 0.54
26 6 0.25
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAATTTACAAATATAATATATTTC
Found at i:9643835 original size:31 final size:31
Alignment explanation
Indices: 9643792--9643852 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
9643782 ATTAACGGCG
*
9643792 AGTGACTAAAATGATAAAAGTATGTAACAAT
1 AGTGACTAAAATGATAAAAGAATGTAACAAT
* *
9643823 AGTGGCTAAAATGATAAGAGAATGTAACAA
1 AGTGACTAAAATGATAAAAGAATGTAACAA
9643853 CAATGCCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.23
Consensus pattern (31 bp):
AGTGACTAAAATGATAAAAGAATGTAACAAT
Found at i:9643863 original size:31 final size:31
Alignment explanation
Indices: 9643797--9643863 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
9643787 CGGCGAGTGA
* * * *
9643797 CTAAAATGATAAAAGTATGTAACAATAGTGG
1 CTAAAATGATAAAAGAATGTAACAACAATGC
*
9643828 CTAAAATGATAAGAGAATGTAACAACAATGC
1 CTAAAATGATAAAAGAATGTAACAACAATGC
9643859 CTAAA
1 CTAAA
9643864 TTGCATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.22
Consensus pattern (31 bp):
CTAAAATGATAAAAGAATGTAACAACAATGC
Found at i:9644640 original size:18 final size:18
Alignment explanation
Indices: 9644617--9644651 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9644607 TTAATATATA
9644617 ATATAATATTTAA-AATTT
1 ATATAAT-TTTAACAATTT
9644635 ATATAATTTTAACAATT
1 ATATAATTTTAACAATT
9644652 ATTTAACTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAATTTTAACAATTT
Found at i:9651110 original size:3 final size:3
Alignment explanation
Indices: 9651102--9651146 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
9651092 AATTATTTTT
9651102 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9651147 AACACGTGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9657134 original size:15 final size:16
Alignment explanation
Indices: 9657114--9657177 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 16
9657104 CTAGCCTAAT
9657114 CCAAT-ACCCACAAAC
1 CCAATAACCCACAAAC
9657129 CCAATAACCCAACTAGCCTAAC
1 CCAATAACCC-AC-A----AAC
9657151 CCAAT-ACCCACAAAC
1 CCAATAACCCACAAAC
9657166 CCAATAACCCAC
1 CCAATAACCCAC
9657178 CTAAACACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
15 13 0.32
16 10 0.24
17 2 0.05
18 1 0.02
19 1 0.02
20 2 0.05
21 4 0.10
22 8 0.20
ACGTcount: A:0.44, C:0.45, G:0.02, T:0.09
Consensus pattern (16 bp):
CCAATAACCCACAAAC
Found at i:9657140 original size:37 final size:37
Alignment explanation
Indices: 9657099--9657176 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
9657089 ACTACCCAGG
*
9657099 CCCAACTAGCCTAATCCAATACCCACAAACCCAATAA
1 CCCAACTAGCCTAACCCAATACCCACAAACCCAATAA
9657136 CCCAACTAGCCTAACCCAATACCCACAAACCCAATAA
1 CCCAACTAGCCTAACCCAATACCCACAAACCCAATAA
9657173 CCCA
1 CCCA
9657177 CCTAAACACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.42, C:0.44, G:0.03, T:0.12
Consensus pattern (37 bp):
CCCAACTAGCCTAACCCAATACCCACAAACCCAATAA
Found at i:9670421 original size:46 final size:45
Alignment explanation
Indices: 9670354--9670644 Score: 173
Period size: 46 Copynumber: 6.7 Consensus size: 45
9670344 ATTATACAGG
*
9670354 TCTTATCTCCCTGAGATTACAGTGGAACATACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAA-TTCAGA
* * * * *
9670400 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTCAGA
* * * * * **
9670444 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG------GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTCAGA
* * * * *
9670483 TCTTATCTCTCTGA-AGTTACAGTAGGGA-AGATC--A-CA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGT-GGAACAGACCAAAGAATTCAGA
9670524 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAA-TTCAGA
* * *** * *
9670570 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAG-AATTCAGA
* *
9670614 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGA
9670645 TCGAAGACAC
Statistics
Matches: 192, Mismatches: 36, Indels: 36
0.73 0.14 0.14
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 21 0.11
40 5 0.03
41 25 0.13
42 1 0.01
43 1 0.01
44 64 0.33
45 1 0.01
46 70 0.36
47 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTCAGA
Found at i:9670664 original size:87 final size:87
Alignment explanation
Indices: 9670573--9671040 Score: 864
Period size: 87 Copynumber: 5.4 Consensus size: 87
9670563 TTTCAGATCT
* * * *** *
9670573 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
9670638 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
9670660 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
9670725 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
9670747 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
9670812 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
9670834 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
9670899 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
9670921 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
9670986 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
*
9671008 TATCTCCCTGAAGTTACGGTGGAGCGGATTAAA
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
9671041 GGATCTTATC
Statistics
Matches: 373, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 373 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCCCCCTGAGATTACAGCG
GAGCAGATCGAAGACACTATCC
Found at i:9676418 original size:56 final size:56
Alignment explanation
Indices: 9676332--9676443 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
9676322 GGGAAAGAGG
*
9676332 CTACTAGATTGTCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTAGA
1 CTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTAGA
9676388 CTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTAGA
1 CTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTAGA
9676444 AAGATCGCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.19
Consensus pattern (56 bp):
CTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTAGA
Found at i:9684197 original size:59 final size:59
Alignment explanation
Indices: 9684130--9684270 Score: 255
Period size: 59 Copynumber: 2.4 Consensus size: 59
9684120 GAACCAAAGT
*
9684130 GAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAACTTTGGAGGGGCTAAGGG
1 GAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAACTTTGGAGAGGCTAAGGG
*
9684189 GAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAACTTTGGAGAGGCTAAGGT
1 GAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAACTTTGGAGAGGCTAAGGG
*
9684248 GAAAACCCGTAAAGGGCACTTTG
1 GAAAACCCGTAAAGGGCGCTTTG
9684271 AGACCAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.19
Consensus pattern (59 bp):
GAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAACTTTGGAGAGGCTAAGGG
Found at i:9685512 original size:46 final size:45
Alignment explanation
Indices: 9685445--9685735 Score: 173
Period size: 46 Copynumber: 6.7 Consensus size: 45
9685435 ATTATACAGG
*
9685445 TCTTATCTCCCTGAGATTACAGTGGAACATACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAA-TTCAGA
* * * * *
9685491 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTCAGA
* * * * * **
9685535 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG------GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTCAGA
* * * * *
9685574 TCTTATCTCTCTGA-AGTTACAGTAGGGA-AGATC--A-CA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGT-GGAACAGACCAAAGAATTCAGA
9685615 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAA-TTCAGA
* * *** * *
9685661 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAG-AATTCAGA
* *
9685705 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGA
9685736 TCGAAGACAC
Statistics
Matches: 192, Mismatches: 36, Indels: 36
0.73 0.14 0.14
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 21 0.11
40 5 0.03
41 25 0.13
42 1 0.01
43 1 0.01
44 64 0.33
45 1 0.01
46 70 0.36
47 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTCAGA
Found at i:9685725 original size:44 final size:43
Alignment explanation
Indices: 9685488--9685895 Score: 222
Period size: 44 Copynumber: 9.6 Consensus size: 43
9685478 AAAGAATTTC
* * * *
9685488 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGAT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
* * * *
9685530 AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG
1 AG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
* * * *
9685572 -GATCTTATCTCTCTGA-AGTTACAGTAGG-GAAGA-TCACATCAG
1 AGATCTTATCTCCCTGAGA-TTACAGT-GGAGCAGATTGA-AGCAG
* *** * *
9685614 -G-TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---G
*
9685658 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAG
* *
9685702 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAG
** * * * **
9685745 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-GAAGCAG
* * *
9685789 AGATCTTATCCCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAG
** * * *
9685832 CTATCCTATCTCCCTGA-AGTTACGGTGGAGCGGATT-AA--AG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCAG
* *
9685872 -GATCTTATCTCTCTGAGGTTACAG
1 AGATCTTATCTCCCTGAGATTACAG
9685896 CAGAGTAGAT
Statistics
Matches: 277, Mismatches: 63, Indels: 55
0.70 0.16 0.14
Matches are distributed among these distances:
38 2 0.01
39 41 0.15
40 5 0.02
41 26 0.09
42 12 0.04
43 57 0.21
44 98 0.35
45 3 0.01
46 32 0.12
47 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
Found at i:9685755 original size:87 final size:83
Alignment explanation
Indices: 9685615--9685907 Score: 338
Period size: 87 Copynumber: 3.4 Consensus size: 83
9685605 TCACATCAGG
* * * * * * *
9685615 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---C-TATCCTATCTCCCTGAAGTT
*
9685679 ACAGTGGAGCAGATTGAAGCCAGAGA
62 ACAGTGGAGCGGATT-AA---AGAGA
9685705 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
9685770 TGGAGCGGATTAAAATAAGAGA
66 TGGAGCGGATT---A-AAGAGA
* *
9685792 TCTTATCCCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACGG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
9685857 TGGAGCGGATTAAAG-GA
66 TGGAGCGGATTAAAGAGA
* * * *
9685874 TCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
9685908 CATCAAGTCT
Statistics
Matches: 183, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
82 31 0.17
83 3 0.02
84 1 0.01
87 110 0.60
88 1 0.01
89 1 0.01
90 35 0.19
91 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (83 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAGAGA
Found at i:9693040 original size:16 final size:16
Alignment explanation
Indices: 9693016--9693047 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9693006 TAAAAAAATA
9693016 TATTATTTTAATTTTT
1 TATTATTTTAATTTTT
*
9693032 TATTCTTTTAATTTTT
1 TATTATTTTAATTTTT
9693048 AGATTTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTATTTTAATTTTT
Done.