Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 116 of 433
Found at i:35403927 original size:13 final size:13
Alignment explanation
Indices: 35403896--35403932 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
35403886 ATTATATTTA
35403896 AAATTTAAAA-A-
1 AAATTTAAAATAT
*
35403907 ATATTTAAAATAT
1 AAATTTAAAATAT
35403920 AAATTTAAAATAT
1 AAATTTAAAATAT
35403933 TATAAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTAAAATAT
Found at i:35404005 original size:14 final size:13
Alignment explanation
Indices: 35403988--35404070 Score: 53
Period size: 10 Copynumber: 6.9 Consensus size: 13
35403978 TATATTTTAA
35403988 ATAATTTCAAAATC
1 ATAATTT-AAAATC
35404002 ATAATTT-AAA--
1 ATAATTTAAAATC
35404012 ATAATTTAAAAATC
1 ATAATTT-AAAATC
35404026 ATAA-TTAAAA--
1 ATAATTTAAAATC
35404036 A-AATTATAAAA-C
1 ATAATT-TAAAATC
35404048 A-AA-TTAAAAT-
1 ATAATTTAAAATC
35404058 ATACATTTAAAAT
1 ATA-ATTTAAAAT
35404071 ATTATAAAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 23
0.72 0.00 0.28
Matches are distributed among these distances:
9 2 0.03
10 15 0.26
11 7 0.12
12 14 0.24
13 9 0.16
14 11 0.19
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATTTAAAATC
Found at i:35404013 original size:24 final size:24
Alignment explanation
Indices: 35403967--35404046 Score: 99
Period size: 24 Copynumber: 3.3 Consensus size: 24
35403957 ATGTCATATC
* *
35403967 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATCATA-ATTTAAAATAA
*
35403992 TTTCAAAATCATAATTTAAAATAA
1 TTTAAAAATCATAATTTAAAATAA
*
35404016 TTTAAAAATCATAA-TTAAAAAAA
1 TTTAAAAATCATAATTTAAAATAA
35404039 TTATAAAA
1 TT-TAAAA
35404047 CAAATTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.20
24 28 0.57
25 11 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
TTTAAAAATCATAATTTAAAATAA
Found at i:35404035 original size:13 final size:13
Alignment explanation
Indices: 35403996--35404036 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
35403986 AAATAATTTC
*
35403996 AAAATCATAATTT
1 AAAATCATAATTA
*
35404009 AAAAT-A-ATTTA
1 AAAATCATAATTA
35404020 AAAATCATAATTA
1 AAAATCATAATTA
35404033 AAAA
1 AAAA
35404037 AATTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 13 0.57
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATCATAATTA
Found at i:35404152 original size:21 final size:21
Alignment explanation
Indices: 35404128--35404175 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
35404118 TAAACGTTTT
35404128 ATATTATTAAAAAT-ATATTTA
1 ATATT-TTAAAAATAATATTTA
*
35404149 ATATTTAAAAAATAATATTTA
1 ATATTTTAAAAATAATATTTA
35404170 A-ATTTT
1 ATATTTT
35404176 TAAACAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTTTAAAAATAATATTTA
Found at i:35404153 original size:18 final size:21
Alignment explanation
Indices: 35404136--35404174 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
35404126 TTATATTATT
35404136 AAAAAT-ATATTTAATATTTA
1 AAAAATAATATTTAATATTTA
35404156 AAAAATAATATTTAA-ATTT
1 AAAAATAATATTTAATATTT
35404175 TTAAACAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAAATAATATTTAATATTTA
Found at i:35404199 original size:140 final size:139
Alignment explanation
Indices: 35403870--35404199 Score: 333
Period size: 140 Copynumber: 2.4 Consensus size: 139
35403860 AATTTTAAAA
* * *
35403870 TTAATAATTTATAAAAATTATATTTAAA-ATTTAAAAAATATTTAAAAT-ATA-AATTTAAAATA
1 TTAATAATTTA-AAAAATAATATTTAAATTTTTAAACAATATTTAAAATAATATAATTTAAAATA
* * *
35403932 TTATAAAACAAATAATAAATTTGAAATGTCATATCTTTAAAAATAATATATTTTAAATAATTTCA
65 TTATAAAACAAATAATAAATTTGAAAAGTCATATCTTTAAAAATAATACATTTTAAATAATTTAA
35403997 AAATCATAAT
130 AAATCATAAT
*** * * *
35404007 TTAAAATAATTTAAAAATCATAATTAAAAAAATTATAAAACAA-A-TTAAAAT-ATA-CATTTAA
1 TT--AATAATTTAAAAA--ATAA-TATTTAAATTTTTAAACAATATTTAAAATAATATAATTTAA
* * *
35404068 AATATTATAAAACTAATAATAAATTTGAAAAGTCATATCTTTAAAATATTTAA-ACGTTTTATAT
61 AATATTATAAAACAAATAATAAATTTGAAAAGTCATATCTTTAAAA-A--TAATACATTTTAAAT
*
35404132 TA-TTAAAAAT-AT-AT
123 AATTTAAAAATCATAAT
35404146 TTAAT-ATTTAAAAAATAATATTTAAATTTTTAAACAATGATTTAAAAATAATAT
1 TTAATAATTTAAAAAATAATATTTAAATTTTTAAACAAT-ATTT-AAAATAATAT
35404200 TTAAAATTTA
Statistics
Matches: 157, Mismatches: 21, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
133 14 0.09
134 4 0.03
135 1 0.01
136 11 0.07
137 10 0.06
138 7 0.04
139 13 0.08
140 65 0.41
141 14 0.09
142 15 0.10
143 3 0.02
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (139 bp):
TTAATAATTTAAAAAATAATATTTAAATTTTTAAACAATATTTAAAATAATATAATTTAAAATAT
TATAAAACAAATAATAAATTTGAAAAGTCATATCTTTAAAAATAATACATTTTAAATAATTTAAA
AATCATAAT
Found at i:35404207 original size:34 final size:34
Alignment explanation
Indices: 35404151--35404251 Score: 118
Period size: 33 Copynumber: 3.0 Consensus size: 34
35404141 TATATTTAAT
* * *
35404151 ATTTAAAAAATAATATTTAAATTTTTA-AACAATG
1 ATTTAAAAAATAATATTTAAA-ATTTAGAAAAATA
35404185 ATTT-AAAAATAATATTTAAAATTTAGAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTAGAAAAATA
* *
35404218 ATTTCAAATATATATATTTAAAATTTA-AAAAATA
1 ATTTAAAAAATA-ATATTTAAAATTTAGAAAAATA
35404252 TATATTATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
32 4 0.07
33 25 0.42
34 17 0.28
35 14 0.23
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (34 bp):
ATTTAAAAAATAATATTTAAAATTTAGAAAAATA
Found at i:35404208 original size:20 final size:20
Alignment explanation
Indices: 35404185--35404263 Score: 53
Period size: 20 Copynumber: 4.0 Consensus size: 20
35404175 TTAAACAATG
35404185 ATTTAAAAATAATATTTAAA
1 ATTTAAAAATAATATTTAAA
* *
35404205 ATTTAGAAA-AATAATTTCAA
1 ATTTAAAAATAAT-ATTTAAA
*
35404225 A--T--ATAT-ATATTTAAA
1 ATTTAAAAATAATATTTAAA
35404240 ATTTAAAAAATATATATTATAAA
1 ATTT-AAAAATA-ATATT-TAAA
35404263 A
1 A
35404264 CATTTCAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 17
0.67 0.08 0.26
Matches are distributed among these distances:
15 7 0.16
16 4 0.09
17 1 0.02
18 1 0.02
19 3 0.07
20 18 0.41
22 5 0.11
23 5 0.11
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (20 bp):
ATTTAAAAATAATATTTAAA
Found at i:35404243 original size:22 final size:24
Alignment explanation
Indices: 35404217--35404276 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 24
35404207 TTAGAAAAAT
35404217 AATTTCAAATATATATATT-T-AA
1 AATTTCAAATATATATATTATAAA
* *
35404239 AATTTAAAAAATATATATTATAAA
1 AATTTCAAATATATATATTATAAA
35404263 ACATTTCAAATATA
1 A-ATTTCAAATATA
35404277 CATTTCAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 17 0.55
23 1 0.03
24 3 0.10
25 10 0.32
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTCAAATATATATATTATAAA
Found at i:35404435 original size:12 final size:12
Alignment explanation
Indices: 35404418--35404466 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
35404408 TTAATGTTTA
35404418 AAAAATAATATT
1 AAAAATAATATT
35404430 AAAAAT--T-TT
1 AAAAATAATATT
35404439 AAAAATAA-ATT
1 AAAAATAATATT
35404450 -AAAATAATATT
1 AAAAATAATATT
*
35404461 TAAAAT
1 AAAAAT
35404467 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 8 0.25
10 8 0.25
11 5 0.16
12 11 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAAATAATATT
Found at i:35404549 original size:22 final size:21
Alignment explanation
Indices: 35404519--35404560 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35404509 AAATTTTTTA
*
35404519 AAATTAATAACAAAAAATAAAT
1 AAATAAATAA-AAAAAATAAAT
*
35404541 AAATAAATAAACAAAATAAA
1 AAATAAATAAAAAAAATAAA
35404561 ACAAGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAATAAAAAAAATAAAT
Found at i:35404774 original size:14 final size:15
Alignment explanation
Indices: 35404755--35404783 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35404745 TTTAAATATC
35404755 TTTAAAA-ATTATAA
1 TTTAAAATATTATAA
35404769 TTTAAAATATTATAA
1 TTTAAAATATTATAA
35404784 AATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAAATATTATAA
Found at i:35404849 original size:17 final size:15
Alignment explanation
Indices: 35404827--35404884 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 15
35404817 CTAATAATAA
35404827 ATTTAAAAGTTTAAAAT
1 ATTTAAAA-TTT-AAAT
35404844 ATTTAAATATTTAAAT
1 ATTTAAA-ATTTAAAT
* **
35404860 ATTAAAAAAAT-AAT
1 ATTTAAAATTTAAAT
35404874 ATTTAAAATTT
1 ATTTAAAATTT
35404885 TAAAAAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 11 0.32
15 2 0.06
16 10 0.29
17 10 0.29
18 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTTAAAATTTAAAT
Found at i:35404861 original size:16 final size:17
Alignment explanation
Indices: 35404827--35404866 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
35404817 CTAATAATAA
35404827 ATTTAAAAGTTTAAAAT
1 ATTTAAAAGTTTAAAAT
35404844 ATTTAAATA-TTT-AAAT
1 ATTTAAA-AGTTTAAAAT
35404860 A-TTAAAA
1 ATTTAAAA
35404867 AAATAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 5 0.23
16 5 0.23
17 10 0.45
18 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTTAAAAGTTTAAAAT
Found at i:35404962 original size:58 final size:56
Alignment explanation
Indices: 35404867--35404976 Score: 125
Period size: 58 Copynumber: 1.9 Consensus size: 56
35404857 AATATTAAAA
* * *
35404867 AAATAATATTTAAAATTTTAAAAAGTAAATTCAAAATATATATTAATAAAATATTTC
1 AAATAATATTTAAAATTTTAAAAAGTAAATTAAAAATAAATA-AAATAAAATATTTC
* *
35404924 AAATATATATTTCAAAATTTT-TAAAGTTAA-TAATAAATAAATAAAATAAAATA
1 AAATA-ATATTT-AAAATTTTAAAAAGTAAATTAA-AAATAAATAAAATAAAATA
35404977 AAGACAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
57 16 0.36
58 21 0.47
59 8 0.18
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (56 bp):
AAATAATATTTAAAATTTTAAAAAGTAAATTAAAAATAAATAAAATAAAATATTTC
Found at i:35405854 original size:28 final size:29
Alignment explanation
Indices: 35405822--35405880 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 29
35405812 TTCACCAATA
35405822 CCCTGTAATTTCTTCTTTCTTTTCC-CTT
1 CCCTGTAATTTCTTCTTTCTTTTCCTCTT
35405850 CCCTGTAATTTCTTCTTTCTTTTCCTCTT
1 CCCTGTAATTTCTTCTTTCTTTTCCTCTT
35405879 CC
1 CC
35405881 TTGATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.07, C:0.34, G:0.03, T:0.56
Consensus pattern (29 bp):
CCCTGTAATTTCTTCTTTCTTTTCCTCTT
Found at i:35406784 original size:132 final size:132
Alignment explanation
Indices: 35406633--35406897 Score: 469
Period size: 132 Copynumber: 2.0 Consensus size: 132
35406623 TACTTTATGA
*
35406633 TCAAGAGCATACTTTTTTTTTCTCTTTGAATGTTGAAATTGATTTACTTGGATCTGTAGTTTATT
1 TCAAGAGCATACTTTTTTTTTCTCTTTGAATGTTGAAATTGATTTACTTGGATCTATAGTTTATT
*
35406698 TCCTAGTCAAAGTTCTCTAGTTCATACAATCAGAGTTTCTATGTTTCAGTGAATTTTTATGAGCT
66 TCCTAGTCAAAGTTCTCTAGTTCATACAATCAAAGTTTCTATGTTTCAGTGAATTTTTATGAGCT
35406763 GT
131 GT
*
35406765 TCAAGAGCATA-TCTTTTTTTTCTTTTTGAATGTTGAAATTGATTTACTTGGATCTATAGTTTAT
1 TCAAGAGCATACT-TTTTTTTTCTCTTTGAATGTTGAAATTGATTTACTTGGATCTATAGTTTAT
* *
35406829 TTCCTGGTCAAAGTTCTCTAGTTCATACAATCAAAGTTTCTGTGTTTCAGTGAATTTTTATGAGC
65 TTCCTAGTCAAAGTTCTCTAGTTCATACAATCAAAGTTTCTATGTTTCAGTGAATTTTTATGAGC
35406894 TGT
130 TGT
35406897 T
1 T
35406898 GACATAGCAG
Statistics
Matches: 127, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
131 1 0.01
132 126 0.99
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (132 bp):
TCAAGAGCATACTTTTTTTTTCTCTTTGAATGTTGAAATTGATTTACTTGGATCTATAGTTTATT
TCCTAGTCAAAGTTCTCTAGTTCATACAATCAAAGTTTCTATGTTTCAGTGAATTTTTATGAGCT
GT
Found at i:35409196 original size:25 final size:26
Alignment explanation
Indices: 35409146--35409196 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
35409136 ATTTTTATTT
* *
35409146 TTATTAAAATATATTGAACAGTAATC
1 TTATTAAAATATAATGAACAATAATC
*
35409172 TTATTAAAATTTAAT-AACAATAATC
1 TTATTAAAATATAATGAACAATAATC
35409197 ATCTATCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (26 bp):
TTATTAAAATATAATGAACAATAATC
Found at i:35409325 original size:44 final size:46
Alignment explanation
Indices: 35409269--35409357 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
35409259 TACAACATCT
35409269 ATTCCATTCAACCAAACACA-TGAATT-CT-ATTACAGCTCTATTCA
1 ATTCCATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTCA
* *
35409313 ATTCTATTCAACCAAATAATTGAATTACTGATTACAGCTCTATTC
1 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTC
35409358 CATTACAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 22 0.55
45 2 0.05
46 15 0.38
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCA
Found at i:35409364 original size:16 final size:16
Alignment explanation
Indices: 35409343--35409397 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
35409333 TGAATTACTG
35409343 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
** *
35409359 ATTACAATTCTATTCA
1 ATTACAGCTCTATTCC
*
35409375 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
35409391 ATTACAG
1 ATTACAG
35409398 TGAACCAAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:35418264 original size:48 final size:47
Alignment explanation
Indices: 35418209--35418442 Score: 188
Period size: 48 Copynumber: 4.9 Consensus size: 47
35418199 TGAGTTGCCA
* *
35418209 ATGCCATGTGCCAAACATGGTATTACACTGGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAAACATGGTATTACACTGGCTCACATATC-AGGCCG
* * * *
35418257 ATGCCATGTTCCAGACATGGTCTTACACTAGTG-T-ACATATCAATGCCG
1 ATGCCATGTCCCAAACATGGTATTACACT-G-GCTCACATATC-AGGCCG
* * * *
35418305 ATGTCATGTCCCAGAA-ATGGTCTTACACTGGCTCTCCTATCATGGCCG
1 ATGCCATGTCCCA-AACATGGTATTACACTGGCTCACATATCA-GGCCG
* * * * **
35418353 ACGCCATGTCCCAAACATGGTATTACACTAGCACTCATAATGTGGCCG
1 ATGCCATGTCCCAAACATGGTATTACACTGGCTCACAT-ATCAGGCCG
* * * *
35418401 ATGCCATG-CCTCAGACATGGTCTTACACTAGCGCACATATCA
1 ATGCCATGTCC-CAAACATGGTATTACACTGGCTCACATATCA
35418443 CCCAAATGTC
Statistics
Matches: 150, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
46 1 0.01
47 9 0.06
48 134 0.89
49 5 0.03
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (47 bp):
ATGCCATGTCCCAAACATGGTATTACACTGGCTCACATATCAGGCCG
Found at i:35427541 original size:21 final size:20
Alignment explanation
Indices: 35427515--35427555 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
35427505 GCCTAAGATG
*
35427515 TGAATTGGATTTAATTGAATA
1 TGAATTGGATTAAATT-AATA
*
35427536 TGAATTGTATTAAATTAATA
1 TGAATTGGATTAAATTAATA
35427556 ATAAATTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
TGAATTGGATTAAATTAATA
Found at i:35428295 original size:25 final size:26
Alignment explanation
Indices: 35428248--35428313 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
35428238 TACAGCCCGG
* *
35428248 ATAAGCTTCCTGTTACATGGCTC-AC
1 ATAAGCTTCCCGTTACATAGCTCGAC
* *
35428273 ATAAGCTTCCCGTTATATAGCTCGAG
1 ATAAGCTTCCCGTTACATAGCTCGAC
*
35428299 AGAGAGCTTCCCGTT
1 ATA-AGCTTCCCGTT
35428314 TATGTGCTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 20 0.59
26 3 0.09
27 11 0.32
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (26 bp):
ATAAGCTTCCCGTTACATAGCTCGAC
Found at i:35431538 original size:23 final size:23
Alignment explanation
Indices: 35431507--35431610 Score: 95
Period size: 23 Copynumber: 4.4 Consensus size: 23
35431497 GCTGATGGAT
*
35431507 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTATTAAGCTGAAAC
* * *
35431530 GGTAAGCTCTGA-TGAGCTGAAAAT
1 AGTAAGCTCT-ATTAAGCTG-AAAC
*
35431554 AGTAAGCT-TTTATAAGCTGAAAC
1 AGTAAGCTCTAT-TAAGCTGAAAC
* *
35431577 AGTAAGCTCTAATAAGCTGAAAAT
1 AGTAAGCTCTATTAAGCTG-AAAC
35431601 AGTAAGCTCT
1 AGTAAGCTCT
35431611 TACAAGCTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
23 35 0.53
24 31 0.47
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (23 bp):
AGTAAGCTCTATTAAGCTGAAAC
Found at i:35431559 original size:47 final size:48
Alignment explanation
Indices: 35431505--35431620 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 48
35431495 GAGCTGATGG
* * * *
35431505 ATAGTAAGCTCTAT-TGAGCTGAAACGGTAAGCTCTGATGAGCTGAAA
1 ATAGTAAGCTCTATATAAGCTGAAACAGTAAGCTCTAATAAGCTGAAA
*
35431552 ATAGTAAGCT-TTTATAAGCTGAAACAGTAAGCTCTAATAAGCTGAAA
1 ATAGTAAGCTCTATATAAGCTGAAACAGTAAGCTCTAATAAGCTGAAA
*
35431599 ATAGTAAGCTCT-TACAAGCTGA
1 ATAGTAAGCTCTATATAAGCTGA
35431621 TATATCGGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
46 2 0.03
47 58 0.95
48 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (48 bp):
ATAGTAAGCTCTATATAAGCTGAAACAGTAAGCTCTAATAAGCTGAAA
Found at i:35431571 original size:24 final size:24
Alignment explanation
Indices: 35431505--35431620 Score: 121
Period size: 24 Copynumber: 4.9 Consensus size: 24
35431495 GAGCTGATGG
*
35431505 ATAGTAAGCTC-TATTGAGCTG-AA
1 ATAGTAAGCTCTTA-TAAGCTGAAA
** * *
35431528 ACGGTAAGCTCTGATGAGCTGAAA
1 ATAGTAAGCTCTTATAAGCTGAAA
*
35431552 ATAGTAAGCTTTTATAAGCTG-AA
1 ATAGTAAGCTCTTATAAGCTGAAA
* *
35431575 ACAGTAAGCTCTAATAAGCTGAAA
1 ATAGTAAGCTCTTATAAGCTGAAA
*
35431599 ATAGTAAGCTCTTACAAGCTGA
1 ATAGTAAGCTCTTATAAGCTGA
35431621 TATATCGGTA
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
23 36 0.47
24 40 0.53
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (24 bp):
ATAGTAAGCTCTTATAAGCTGAAA
Found at i:35435368 original size:14 final size:14
Alignment explanation
Indices: 35435334--35435369 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
35435324 TACATTTCAC
*
35435334 TATTATGTCTTTTG
1 TATTATGTCTTTTA
35435348 TATTTATGTCTTTTA
1 TA-TTATGTCTTTTA
35435363 TATTATG
1 TATTATG
35435370 CATGCATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (14 bp):
TATTATGTCTTTTA
Found at i:35437026 original size:20 final size:18
Alignment explanation
Indices: 35437002--35437053 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
35436992 ATAGTTTTTT
35437002 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
35437020 TTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
35437040 T-TTAATTTAATATT
1 TATTAATTTAATATT
35437054 TATCTTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 4 0.13
20 14 0.47
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:35437089 original size:69 final size:68
Alignment explanation
Indices: 35436961--35437095 Score: 180
Period size: 69 Copynumber: 2.0 Consensus size: 68
35436951 TTTTAATAGT
* ** * * *
35436961 TTAATATTAAATTTAATTAACACTTATTTTAATAGTTTTTTTATTAATTTAATATTAAATTGATT
1 TTAATATTAAATTTAATTAACACTTATCTTAATAAATATTATATTAATTTAAAATTAAATTGATT
35437026 ATC
66 ATC
* * *
35437029 TTAATATTAAATTTAATTTAATATTTATCTTGATAAATATTATATTAATTTAAAATTAAATTGAT
1 TTAATATTAAATTTAA-TTAACACTTATCTTAATAAATATTATATTAATTTAAAATTAAATTGAT
35437094 TA
65 TA
35437096 AGTTTAATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
68 16 0.28
69 41 0.72
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (68 bp):
TTAATATTAAATTTAATTAACACTTATCTTAATAAATATTATATTAATTTAAAATTAAATTGATT
ATC
Found at i:35438294 original size:21 final size:22
Alignment explanation
Indices: 35438251--35438303 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
35438241 AGGCAAAAGC
35438251 GTGCTAAAGAGAGTAGACTAAAT
1 GTGCTAAAGAGAGTAGAC-AAAT
*
35438274 GTGCTACAGAGAGTAGA-AAATT
1 GTGCTAAAGAGAGTAGACAAA-T
*
35438296 GTGATAAA
1 GTGCTAAA
35438304 TGAACTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 7 0.27
23 16 0.62
ACGTcount: A:0.43, C:0.08, G:0.26, T:0.23
Consensus pattern (22 bp):
GTGCTAAAGAGAGTAGACAAAT
Found at i:35438466 original size:18 final size:19
Alignment explanation
Indices: 35438428--35438473 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
35438418 ATAAAGTTGT
* *
35438428 AAAAATTTGGTAGCTGCAA
1 AAAAATTAGGGAGCTGCAA
*
35438447 AAAAATTAGGGAGCTGAAA
1 AAAAATTAGGGAGCTGCAA
35438466 AAAAATTA
1 AAAAATTA
35438474 AAAGCTAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.22
Consensus pattern (19 bp):
AAAAATTAGGGAGCTGCAA
Found at i:35438798 original size:10 final size:8
Alignment explanation
Indices: 35438766--35438795 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
35438756 ATATGACTAT
*
35438766 TAAAAAGA
1 TAAAAATA
35438774 TAAAAATA
1 TAAAAATA
35438782 TAAAAATA
1 TAAAAATA
35438790 TAAAAA
1 TAAAAA
35438796 AATGTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (8 bp):
TAAAAATA
Found at i:35441372 original size:27 final size:26
Alignment explanation
Indices: 35441333--35441383 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
35441323 AATACTCATA
35441333 TTTATATAATTAAAATAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
35441358 TTTATACTAAATTAAAATATGTCATA
1 TTTATA-T-AATTAAAATATGTCATA
35441384 AGTCTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 1 0.04
27 11 0.48
28 5 0.22
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:35442330 original size:3 final size:3
Alignment explanation
Indices: 35442316--35442348 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
35442306 AGTCTCAGTT
*
35442316 TTC TTC TGC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
35442349 AGTGAAGCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:35445614 original size:34 final size:34
Alignment explanation
Indices: 35445571--35445638 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
35445561 ATATATCTAT
35445571 GCAATTATACCAACTTGAGAAGCAAATCATTATA
1 GCAATTATACCAACTTGAGAAGCAAATCATTATA
*
35445605 GCAATTATACTAACTTGAGAAGCAAATCATTATA
1 GCAATTATACCAACTTGAGAAGCAAATCATTATA
35445639 AACTTAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (34 bp):
GCAATTATACCAACTTGAGAAGCAAATCATTATA
Found at i:35450860 original size:29 final size:28
Alignment explanation
Indices: 35450827--35450896 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
35450817 TATTATTTGT
*
35450827 TTTAATTATTTAATTA-AAAAATATTATAA
1 TTTAATTATTGAATTATAAAAAT-TT-TAA
35450856 TTTAATTATTGAATTATTCAAAAATTTTAA
1 TTTAATTATTGAATTA-T-AAAAATTTTAA
35450886 TTTAAGTTATT
1 TTTAA-TTATT
35450897 AGTATGTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 15 0.42
30 8 0.22
31 7 0.19
32 6 0.17
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (28 bp):
TTTAATTATTGAATTATAAAAATTTTAA
Found at i:35456376 original size:16 final size:16
Alignment explanation
Indices: 35456357--35456463 Score: 69
Period size: 16 Copynumber: 6.8 Consensus size: 16
35456347 ATTTTTCAAA
35456357 TTAAATTATTTTAGAT
1 TTAAATTATTTTAGAT
* *
35456373 TTAAA--CTTTTAGGT
1 TTAAATTATTTTAGAT
* * *
35456387 TCAAATTA-CTTAGAG
1 TTAAATTATTTTAGAT
* ** *
35456402 TTAAAGTTGTTTTTTAA
1 TTAAA-TTATTTTAGAT
*
35456419 TTGAATTATTTT-GAAT
1 TTAAATTATTTTAG-AT
*
35456435 TTAAATTTTTTTAGAT
1 TTAAATTATTTTAGAT
35456451 TTAAATTATTTTA
1 TTAAATTATTTTA
35456464 AACTCAGATT
Statistics
Matches: 65, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
14 11 0.17
15 8 0.12
16 38 0.58
17 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (16 bp):
TTAAATTATTTTAGAT
Found at i:35457618 original size:20 final size:20
Alignment explanation
Indices: 35457593--35457630 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35457583 TGTATAACAA
35457593 ATTTTTTTATAATTTTTATG
1 ATTTTTTTATAATTTTTATG
*
35457613 ATTTTTTTATGATTTTTA
1 ATTTTTTTATAATTTTTA
35457631 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
ATTTTTTTATAATTTTTATG
Found at i:35457636 original size:20 final size:20
Alignment explanation
Indices: 35457591--35457636 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
35457581 TTTGTATAAC
35457591 AAATTTTTTTATAATTTTTA
1 AAATTTTTTTATAATTTTTA
** *
35457611 TGATTTTTTTATGATTTTTA
1 AAATTTTTTTATAATTTTTA
35457631 AAATTT
1 AAATTT
35457637 AAAAAGGCTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
AAATTTTTTTATAATTTTTA
Found at i:35460484 original size:16 final size:17
Alignment explanation
Indices: 35460463--35460500 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
35460453 TAAACAAACC
* *
35460463 AAAAAAAGTAAATAAA-
1 AAAAAAAGAAAAGAAAG
35460479 AAAAAAAGAAAAGAAAG
1 AAAAAAAGAAAAGAAAG
35460496 AAAAA
1 AAAAA
35460501 CATTACAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAAGAAAAGAAAG
Found at i:35462716 original size:28 final size:28
Alignment explanation
Indices: 35462684--35462738 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
35462674 ATATTTTGTA
35462684 CTTAATTTTAATTAATATAGCAAATGTT
1 CTTAATTTTAATTAATATAGCAAATGTT
35462712 CTTAATTTTAATTAATATAGCAAATGT
1 CTTAATTTTAATTAATATAGCAAATGT
35462739 CTCATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (28 bp):
CTTAATTTTAATTAATATAGCAAATGTT
Found at i:35462750 original size:28 final size:28
Alignment explanation
Indices: 35462686--35462750 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
35462676 ATTTTGTACT
* *
35462686 TAATTTTAATTAATATAGCAAATGTTCT
1 TAATATTAATTAATATAGCAAATGTTCA
*
35462714 TAATTTTAATTAATATAGCAAATGTCTCA
1 TAATATTAATTAATATAGCAAATGT-TCA
35462743 TAA-ATTAA
1 TAATATTAA
35462751 ATTTTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 29 0.85
29 5 0.15
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (28 bp):
TAATATTAATTAATATAGCAAATGTTCA
Found at i:35471636 original size:40 final size:40
Alignment explanation
Indices: 35471540--35471758 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 40
35471530 CGAATGGTAT
* * * *
35471540 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
35471581 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
35471621 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
35471661 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
35471701 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
35471741 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
35471759 ACAATCGAGC
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 134 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:35471754 original size:120 final size:121
Alignment explanation
Indices: 35471540--35471758 Score: 325
Period size: 120 Copynumber: 1.8 Consensus size: 121
35471530 CGAATGGTAT
* *
35471540 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
35471605 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
35471661 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
35471724 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
35471759 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 1 0.01
120 60 0.69
121 26 0.30
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:35471792 original size:80 final size:80
Alignment explanation
Indices: 35471631--35471798 Score: 178
Period size: 80 Copynumber: 2.1 Consensus size: 80
35471621 CCGGGTTAAG
* * * * * * * *
35471631 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCAC
*
35471696 TAAATCCGGGCTAAT
66 TAAATCCGAGCTAAT
* * * *
35471711 TCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGC
1 TCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCAC
* *
35471776 TATATCC-AGTTAAAT
66 TAAATCCGAGCT-AAT
35471791 T-CCGAAGG
1 TCCCGAAGG
35471799 TACGTGATTC
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
79 9 0.12
80 63 0.88
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (80 bp):
TCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCAC
TAAATCCGAGCTAAT
Found at i:35478287 original size:28 final size:28
Alignment explanation
Indices: 35478232--35478319 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 28
35478222 AGCATGGCTG
* * *
35478232 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAAATATTTGTGGCAGAGCCA
*
35478258 CCAGAAACAAATATTTGTGGCAGGGCCA
1 CCAGAAACAAATATTTGTGGCAGAGCCA
*
35478286 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAAATATTTGTGGCAGAGCCA
35478314 CCAGAA
1 CCAGAA
35478320 CTCTTCCTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.07
27 7 0.13
28 43 0.80
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.17
Consensus pattern (28 bp):
CCAGAAACAAATATTTGTGGCAGAGCCA
Found at i:35478759 original size:8 final size:8
Alignment explanation
Indices: 35478733--35478762 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
35478723 CAAAATACCA
35478733 GCTTTTCG
1 GCTTTTCG
*
35478741 GCATTTCG
1 GCTTTTCG
35478749 GCTTTTCG
1 GCTTTTCG
35478757 GCTTTT
1 GCTTTT
35478763 GCTGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:35479555 original size:3 final size:3
Alignment explanation
Indices: 35479547--35479600 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
35479537 TATAGAGGAA
*
35479547 AAG AAG AAG AAG AAG AA- ATAG ATG AAG AAAG AAG AA- AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG -AAG AAG AAG AAG AAG AAG
35479592 -AG AA- AAG AA
1 AAG AAG AAG AA
35479601 TTGTCAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
2 7 0.16
3 32 0.74
4 4 0.09
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:35479575 original size:18 final size:17
Alignment explanation
Indices: 35479544--35479592 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
35479534 GGCTATAGAG
35479544 GAAAAGAAGAAGAAGAA
1 GAAAAGAAGAAGAAGAA
*
35479561 GAAATAGATGAAGAAAGAA
1 GAAA-AGAAGAAG-AAGAA
35479580 GAAAAGAAGAAGA
1 GAAAAGAAGAAGA
35479593 GAAAAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
18 14 0.50
19 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (17 bp):
GAAAAGAAGAAGAAGAA
Found at i:35479599 original size:18 final size:17
Alignment explanation
Indices: 35479544--35479600 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
35479534 GGCTATAGAG
*
35479544 GAAAAGAAGAAGAAGAA
1 GAAAAGAAGAAGAAAAA
*
35479561 GAAATAGATGAAGAAAGAA
1 GAAA-AGAAGAAGAAA-AA
35479580 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGA-AAAA
35479598 GAA
1 GAA
35479601 TTGTCAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 4 0.12
18 22 0.65
19 8 0.24
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (17 bp):
GAAAAGAAGAAGAAAAA
Found at i:35485297 original size:46 final size:46
Alignment explanation
Indices: 35485230--35485398 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
35485220 TATGTGTGCT
35485230 AGTGTAAGACATGTCTAGGACATGCATCAGCCACAACATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCACAACATGAGAGCC
* * * * * *
35485276 AGTGTAAGACATGTTTGGGACATGCATCCGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCAC-A-ACA-TGAGAGCC
* * ** * * *
35485324 AGTGTAAGACATGTCTAGGACATACATC-GGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCA-CAACATGAGAGCC
35485370 AGTGTAAGACATGTCT-GAGACATGCATCA
1 AGTGTAAGACATGTCTAG-GACATGCATCA
35485399 ACCTCGCGAT
Statistics
Matches: 98, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.02
46 60 0.61
47 3 0.03
48 31 0.32
49 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCACAACATGAGAGCC
Found at i:35485335 original size:48 final size:46
Alignment explanation
Indices: 35485230--35485535 Score: 194
Period size: 48 Copynumber: 6.5 Consensus size: 46
35485220 TATGTGTGCT
* * *
35485230 AGTGTAAGACATGTCTAGGACATGCATCAGCCAC-A-ACATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAT-A-AGCC
* *
35485276 AGTGTAAGACATGTTTGGGACATGCATCCGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA--TAAGCC
* * * * * * * *
35485324 AGTGTAAGACATGTCTAGGACATACATCGGCATTGAGACGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-TATAAGCC
* * * *
35485370 AGTGTAAGACATGTCTGAGACATGCATCAACCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAT--AAGCC
* * * * * * * *
35485418 AGTGTAAGACTTGTCTGGGACATGGCGTCAG-TTTGTGGTGT--GTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGATATAAGCC
* * *
35485462 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC-ATTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGA-GATAT--AAGCC
35485511 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
35485536 GCGTCGGCGT
Statistics
Matches: 198, Mismatches: 46, Indels: 29
0.73 0.17 0.11
Matches are distributed among these distances:
44 29 0.15
45 4 0.02
46 63 0.32
47 1 0.01
48 68 0.34
49 19 0.10
50 14 0.07
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAAGCC
Found at i:35485379 original size:94 final size:94
Alignment explanation
Indices: 35485230--35485440 Score: 253
Period size: 94 Copynumber: 2.2 Consensus size: 94
35485220 TATGTGTGCT
* * * *
35485230 AGTGTAAGACATGTCTAGGACATGCATCAGCCACAACATGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTAGGACATACATCAGCCACAACACGAGAGCCAGTGTAAGACATGTCTGAG
** **
35485295 ACATGCATCCGCCTCGAGATATTTAAGCC
66 ACATGCATCAACCTCGAGATATACAAGCC
* ** * *
35485324 AGTGTAAGACATGTCTAGGACATACATC-GGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGA
1 AGTGTAAGACATGTCTAGGACATACATCAGCCA-CAACACGAGAGCCAGTGTAAGACATGTCTGA
* *
35485388 GACATGCATCAACCTCGCGATATACAAGCT
65 GACATGCATCAACCTCGAGATATACAAGCC
* *
35485418 AGTGTAAGACTTGTCTGGGACAT
1 AGTGTAAGACATGTCTAGGACAT
35485441 GGCGTCAGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 3 0.03
94 96 0.97
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTAGGACATACATCAGCCACAACACGAGAGCCAGTGTAAGACATGTCTGAG
ACATGCATCAACCTCGAGATATACAAGCC
Found at i:35495879 original size:50 final size:49
Alignment explanation
Indices: 35495757--35495932 Score: 174
Period size: 50 Copynumber: 3.5 Consensus size: 49
35495747 TGAGGTCGCA
*** * **
35495757 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-GTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGA-TAG-G-TCACG
** *
35495808 TGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGAT-AGGTCACG
* * * * * *
35495858 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGATAGGTCACG
35495907 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
35495933 TGCATATCAG
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
49 30 0.29
50 41 0.39
51 32 0.31
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGATAGGTCACG
Found at i:35497897 original size:40 final size:40
Alignment explanation
Indices: 35497794--35497976 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
35497784 AAATTGAATG
* * * * *
35497794 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
*
35497834 ATATCCGGG-TAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35497873 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
35497913 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
35497953 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35497977 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 34 0.28
40 85 0.70
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:35505943 original size:39 final size:40
Alignment explanation
Indices: 35505885--35505985 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
35505875 AAATTGAATG
* *
35505885 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
35505924 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
35505964 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
35505986 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:35505978 original size:40 final size:40
Alignment explanation
Indices: 35505885--35506067 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
35505875 AAATTGAATG
* * * * *
35505885 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35505924 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35505964 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
35506004 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
35506044 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35506068 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:35514043 original size:39 final size:40
Alignment explanation
Indices: 35513985--35514085 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
35513975 AAATTGAATG
* *
35513985 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
35514024 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
35514064 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
35514086 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:35514078 original size:40 final size:40
Alignment explanation
Indices: 35513985--35514167 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
35513975 AAATTGAATG
* * * * *
35513985 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35514024 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35514064 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
35514104 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
35514144 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35514168 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:35518292 original size:4 final size:5
Alignment explanation
Indices: 35518238--35518310 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
35518228 GAAGTATAAG
* * *
35518238 AAAAT AAAAAT AAAAC AAAA- CAACT AAACAT ATAAAT AAACAT AAACAT
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAA-AT A-AAAT AAA-AT AAA-AT
35518287 -AAAT AAAAT AAAAT AAAAGT AAAA
1 AAAAT AAAAT AAAAT AAAA-T AAAA
35518311 AGAAAACAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.07
5 27 0.48
6 23 0.41
7 2 0.04
ACGTcount: A:0.74, C:0.08, G:0.01, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:35518372 original size:77 final size:77
Alignment explanation
Indices: 35518284--35518433 Score: 275
Period size: 77 Copynumber: 1.9 Consensus size: 77
35518274 TAAACATAAA
*
35518284 CATAAATAAAATAAAATAAAAGTAAAAAGAAAACAAATTTAATCAATGATCCTCATCGTCGGAGG
1 CATAAATAAAATAAAATAAAAGTAAAAAGAAAACAAATTAAAT-AATGATCCTCATCGTCGGAGG
35518349 CATTAATAGTAAG
65 CATTAATAGTAAG
35518362 CATAAA-AAAATAAAATAAAAGTAAAAAGAAAACAAATTAAATAATGATCCTCATCGTCGGAGGC
1 CATAAATAAAATAAAATAAAAGTAAAAAGAAAACAAATTAAATAATGATCCTCATCGTCGGAGGC
35518426 ATTAATAG
66 ATTAATAG
35518434 GGTGTGTCAC
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 30 0.42
77 35 0.49
78 6 0.08
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (77 bp):
CATAAATAAAATAAAATAAAAGTAAAAAGAAAACAAATTAAATAATGATCCTCATCGTCGGAGGC
ATTAATAGTAAG
Found at i:35521747 original size:43 final size:43
Alignment explanation
Indices: 35521694--35521855 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 43
35521684 ATCGGGATGT
* *
35521694 ATTACATGTAAGACCATGTATGGGACATTGGCATTGTATTATG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTATG
* * *
35521737 ATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTATTATT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTATG
* * * * *
35521780 ATTTCGTGTAAGACCCTTTCTGGGACAGTGGCATCG-ATATATG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TATG
* * *
35521823 ATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCAT
35521856 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 8 0.08
43 93 0.92
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTATG
Found at i:35522127 original size:19 final size:19
Alignment explanation
Indices: 35522105--35522160 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
35522095 GGAAATAGTC
35522105 ATATGATGACTTTATTTGT
1 ATATGATGACTTTATTTGT
* *
35522124 ATATG--G-C-TTA-CT-A
1 ATATGATGACTTTATTTGT
35522137 ATATGATGACTTTATTTGT
1 ATATGATGACTTTATTTGT
35522156 ATATG
1 ATATG
35522161 GCTTACTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
13 5 0.19
14 1 0.04
15 4 0.15
16 2 0.07
17 4 0.15
18 1 0.04
19 10 0.37
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (19 bp):
ATATGATGACTTTATTTGT
Found at i:35522142 original size:32 final size:32
Alignment explanation
Indices: 35522105--35522169 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
35522095 GGAAATAGTC
35522105 ATATGATGACTTTATTTGTATATGGCTTACTA
1 ATATGATGACTTTATTTGTATATGGCTTACTA
35522137 ATATGATGACTTTATTTGTATATGGCTTACTA
1 ATATGATGACTTTATTTGTATATGGCTTACTA
35522169 A
1 A
35522170 GCTTTTAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.46
Consensus pattern (32 bp):
ATATGATGACTTTATTTGTATATGGCTTACTA
Found at i:35524413 original size:10 final size:10
Alignment explanation
Indices: 35524398--35524424 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35524388 ATGAATGATG
35524398 GAATTTGCTT
1 GAATTTGCTT
35524408 GAATTTGCTT
1 GAATTTGCTT
35524418 GAATTTG
1 GAATTTG
35524425 AATGCTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (10 bp):
GAATTTGCTT
Found at i:35532489 original size:4 final size:4
Alignment explanation
Indices: 35532480--35532573 Score: 54
Period size: 4 Copynumber: 23.2 Consensus size: 4
35532470 CTAAAATGGG
* * *
35532480 ATAA ATAA ATAA ATGAA ATAA ACATA A-AA AGAA ATAAA ATAA ATTA ATAA
1 ATAA ATAA ATAA AT-AA ATAA ATA-A ATAA ATAA AT-AA ATAA ATAA ATAA
* *
35532530 ATAA TTAA AAAA ATAA GA-AA ATAA GA-AA ATAA GA-AA AT-A ATAA A
1 ATAA ATAA ATAA ATAA -ATAA ATAA -ATAA ATAA -ATAA ATAA ATAA A
35532574 GAATTAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
3 8 0.11
4 50 0.70
5 13 0.18
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:35532538 original size:21 final size:21
Alignment explanation
Indices: 35532483--35532543 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
35532473 AAATGGGATA
* *
35532483 AATAAATAAATGAAATAAACAT
1 AATAAATAAATAAAATAAA-TT
*
35532505 AA-AAAGAAATAAAATAAATT
1 AATAAATAAATAAAATAAATT
*
35532525 AATAAATAATTAAAA-AAAT
1 AATAAATAAATAAAATAAAT
35532544 AAGAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 7 0.21
21 24 0.73
22 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (21 bp):
AATAAATAAATAAAATAAATT
Found at i:35532558 original size:16 final size:16
Alignment explanation
Indices: 35532539--35532569 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35532529 AATAATTAAA
35532539 AAAATAAGAAAATAAG
1 AAAATAAGAAAATAAG
35532555 AAAATAAGAAAATAA
1 AAAATAAGAAAATAA
35532570 TAAAGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (16 bp):
AAAATAAGAAAATAAG
Found at i:35537074 original size:30 final size:30
Alignment explanation
Indices: 35537038--35537168 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
35537028 GACAAGATTG
* * * * *
35537038 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
35537068 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
35537096 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35537126 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35537155 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35537169 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:35537129 original size:58 final size:58
Alignment explanation
Indices: 35537038--35537168 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
35537028 GACAAGATTG
* * * * * *
35537038 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
35537096 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
35537155 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35537169 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:35544960 original size:30 final size:30
Alignment explanation
Indices: 35544924--35545054 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
35544914 GACAAGATTG
* * * * *
35544924 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
35544954 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
35544982 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35545012 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35545041 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35545055 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:35545015 original size:58 final size:58
Alignment explanation
Indices: 35544924--35545054 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
35544914 GACAAGATTG
* * * * * *
35544924 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
35544982 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
35545041 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35545055 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:35552369 original size:30 final size:30
Alignment explanation
Indices: 35552333--35552463 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
35552323 GACAAGATTG
* * * * *
35552333 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
35552363 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
35552391 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35552421 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
35552450 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35552464 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:35552424 original size:58 final size:58
Alignment explanation
Indices: 35552333--35552463 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
35552323 GACAAGATTG
* * * * * *
35552333 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
35552391 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
35552450 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35552464 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:35558509 original size:20 final size:21
Alignment explanation
Indices: 35558473--35558512 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
35558463 ATTTCAACAT
*
35558473 ATAAATAAAGATAAAAATAAA
1 ATAAAAAAAGATAAAAATAAA
35558494 ATAAAAAAAG-TAAAAATAA
1 ATAAAAAAAGATAAAAATAA
35558513 TAGGTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (21 bp):
ATAAAAAAAGATAAAAATAAA
Found at i:35564552 original size:64 final size:64
Alignment explanation
Indices: 35564447--35564653 Score: 188
Period size: 67 Copynumber: 3.1 Consensus size: 64
35564437 CATCATGTGT
* *
35564447 ACAAGAAAGCTACGAGACATTATAATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TA-AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
35564512 TAG
62 TAG
* * * * * * *
35564515 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
35564580 AG
63 AG
* * *
35564582 ACAAGAGAGCTATGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGCT-CACCATGT-
1 ACAAGAGAGCTACGAGATAAA-TGTAGCTAGGTCGCATGGGTGGTACTATGTG-TACACCATGTA
35564643 G
64 G
35564644 TACAAGAGAG
1 -ACAAGAGAG
35564654 TCGAACTATA
Statistics
Matches: 114, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 25 0.22
65 2 0.02
66 22 0.19
67 30 0.26
68 16 0.14
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:35564989 original size:28 final size:27
Alignment explanation
Indices: 35564951--35565103 Score: 123
Period size: 28 Copynumber: 5.6 Consensus size: 27
35564941 AAACGAACGG
* *
35564951 CACTTAGTGTGCGAAGTATTGAGGATGG
1 CACTTAGTGTGCGAAGTATCGA-GATGA
* *
35564979 CACTTAGTGTGC-AAGACATCCGAAATGA
1 CACTTAGTGTGCGAAG-TAT-CGAGATGA
* ** *
35565007 CAC--AATGTATGAAGTATTGATGATGA
1 CACTTAGTGTGCGAAGTATCGA-GATGA
** *
35565033 CACTTAGTGTGCGAAACATCCGAAATGA
1 CACTTAGTGTGCGAAGTAT-CGAGATGA
*
35565061 CACTTAGTGTGCGAAGTATCGAGGATGG
1 CACTTAGTGTGCGAAGTATCGA-GATGA
35565089 CACTTAGTGTGCGAA
1 CACTTAGTGTGCGAA
35565104 ACATCCGGTA
Statistics
Matches: 96, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
25 2 0.02
26 13 0.14
27 9 0.09
28 68 0.71
29 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (27 bp):
CACTTAGTGTGCGAAGTATCGAGATGA
Found at i:35565052 original size:54 final size:55
Alignment explanation
Indices: 35564962--35565110 Score: 212
Period size: 54 Copynumber: 2.7 Consensus size: 55
35564952 ACTTAGTGTG
35564962 CGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAATGACAC-AATGTA
1 CGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAATGACACTAATGTA
* * * * *
35565016 TGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAATGACACTTAGTGTG
1 CGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATGACAC-TAATGTA
*
35565072 CGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCG
1 CGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCG
35565111 GTATAGCAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
54 42 0.51
55 2 0.02
56 39 0.47
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (55 bp):
CGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAATGACACTAATGTA
Found at i:35565123 original size:28 final size:27
Alignment explanation
Indices: 35565033--35565111 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
35565023 TTGATGATGA
*
35565033 CACTTAGTGTGCGAAACATCCGAAATG
1 CACTTAGTGTGCGAAACATCCGGAATG
** *
35565060 ACACTTAGTGTGCGAAGTAT-CGAGGATGG
1 -CACTTAGTGTGCGAAACATCCG-GAAT-G
35565089 CACTTAGTGTGCGAAACATCCGG
1 CACTTAGTGTGCGAAACATCCGG
35565112 TATAGCAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.05
28 37 0.88
29 3 0.07
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (27 bp):
CACTTAGTGTGCGAAACATCCGGAATG
Found at i:35570666 original size:33 final size:33
Alignment explanation
Indices: 35570629--35570723 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 33
35570619 CTATAGGCCA
* *
35570629 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGT-T
1 TACTGTTATCTGAAAA-GGGCTTAGGCCCAGTAC
* * *
35570662 TACTG-TATTTTGAAAAGGGCTTCGGCCTAGTAC
1 TACTGTTA-TCTGAAAAGGGCTTAGGCCCAGTAC
* *
35570695 CACTGTTATCTGAATAGGGCTTAGGCCCA
1 TACTGTTATCTGAAAAGGGCTTAGGCCCA
35570724 ATGGGTTTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
32 14 0.29
33 33 0.67
34 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGCTTAGGCCCAGTAC
Found at i:35573320 original size:28 final size:28
Alignment explanation
Indices: 35573278--35573347 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
35573268 TTTAAAACCC
*
35573278 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
35573305 TAGGGGTAATTTCGGTAATTTTATTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
35573333 TAAGGGTAATTTCGG
1 TAGGGGTAATTTCGG
35573348 GTTCTACGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:35575153 original size:71 final size:71
Alignment explanation
Indices: 35575069--35575232 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
35575059 CGATTTGTCT
*
35575069 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGAAATCACGCATGCGACCTAGCTACATTTAT
35575134 CTTTCA
66 CTTTCA
35575140 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGAAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGAAATCACGCATGCGACCTAGCTACATTTAT
35575205 CTTTCA
66 CTTTCA
35575211 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35575233 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGAAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35575270 original size:71 final size:70
Alignment explanation
Indices: 35575069--35575266 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
35575059 CGATTTGTCT
* * * * *
35575069 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTCGAAATCACACATGCGACCTAGCTACATTTAT
35575134 CTTTCA
65 CTTTCA
* * * *
35575140 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGAAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTCGAAATCACACATGCGACCTAGCTACATTTAT
35575205 CTTTCA
65 CTTTCA
* *
35575211 CGTAGCTCTCTTGTCTACATGG-GATACAT-CTCG-TATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTCGAAATCACACATGCGACCTAGCTAC
35575267 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 20 0.17
69 3 0.03
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTCGAAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35577768 original size:20 final size:20
Alignment explanation
Indices: 35577745--35577782 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35577735 CACATCCAAA
*
35577745 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
35577765 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
35577783 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:35584034 original size:27 final size:25
Alignment explanation
Indices: 35584004--35584064 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 25
35583994 TTTAAAACCC
35584004 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTT--TCTT
*
35584031 TAGGGGTAATTTCGGTAATTTTTCTT
1 TAGGGGT-ATATCGGTAATTTTTCTT
35584057 TAGGGGTA
1 TAGGGGTA
35584065 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 1 0.03
26 11 0.34
27 7 0.22
28 13 0.41
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (25 bp):
TAGGGGTATATCGGTAATTTTTCTT
Found at i:35584063 original size:26 final size:27
Alignment explanation
Indices: 35584004--35584070 Score: 102
Period size: 26 Copynumber: 2.5 Consensus size: 27
35583994 TTTAAAACCC
*
35584004 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTT-CTCTT
35584031 TAGGGGTAATTTCGGTAATTTT-TCTT
1 TAGGGGTAATTTCGGTAATTTTCTCTT
35584057 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
35584071 TGATCTACGC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 18 0.47
27 7 0.18
28 13 0.34
ACGTcount: A:0.19, C:0.09, G:0.27, T:0.45
Consensus pattern (27 bp):
TAGGGGTAATTTCGGTAATTTTCTCTT
Found at i:35586735 original size:40 final size:39
Alignment explanation
Indices: 35586669--35586814 Score: 147
Period size: 40 Copynumber: 3.8 Consensus size: 39
35586659 AAATTGAATG
* *
35586669 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* * * **
35586708 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* *
35586748 ATATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGAGTTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GAGATT
*
35586786 CTATCCGGGCTAAGACCCGAAGGC-ATTTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTTG
35586815 TGCACGTGAT
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
37 1 0.01
38 31 0.35
39 16 0.18
40 41 0.46
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAGATT
Found at i:35594712 original size:40 final size:40
Alignment explanation
Indices: 35594646--35594812 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
35594636 AAATTGAATG
* * *
35594646 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35594685 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
35594725 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
35594765 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
35594805 ATATCCGG
1 ATATCCGG
35594813 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35597692 original size:40 final size:40
Alignment explanation
Indices: 35597591--35597781 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
35597581 CGAATGGTGT
* * * * *
35597591 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTC-AAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTAC-CAAAA
* *
35597632 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
35597672 CCAGGTTAAGTCCCGAAGGCACTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
35597712 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * *
35597752 CTGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
35597782 ATCACTATAA
Statistics
Matches: 128, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.80
41 24 0.19
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:35597740 original size:80 final size:80
Alignment explanation
Indices: 35597594--35597823 Score: 223
Period size: 80 Copynumber: 2.9 Consensus size: 80
35597584 ATGGTGTCCG
** * * * *
35597594 GGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTCAATCCGGGTCAATTCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCAATTGTGC-GAGTGACTCAAACCGGGTCAAGTCCCGAAGGCATTCGTG
35597659 CGAGTTACCAAAACCA
65 CGAGTTACCAAAACCA
* * * *
35597675 GGTTAAGTCCCGAAGGCACTTGTGCGAGTTAC-CAAAACCGGGTTAAGTCCCGAAGGCATTCGTG
1 GGCTAAGTCCCGAAGGCAATTGTGCGAGTGACTC-AAACCGGGTCAAGTCCCGAAGGCATTCGTG
* * **
35597739 CGAGTTACTAAATCTG
65 CGAGTTACCAAAACCA
* * * * * *
35597755 GGCTAATTCCCGAAGGCAATTGTGCGAATCACT-ATAACCGGG-CAATGTCCCGAAGACAATCGA
1 GGCTAAGTCCCGAAGGCAATTGTGCGAGTGACTCA-AACCGGGTCAA-GTCCCGAAGGCATTCGT
35597818 GCGAGT
64 GCGAGT
35597824 CGCTATATCC
Statistics
Matches: 123, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
79 4 0.03
80 97 0.79
81 22 0.18
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCAATTGTGCGAGTGACTCAAACCGGGTCAAGTCCCGAAGGCATTCGTGC
GAGTTACCAAAACCA
Found at i:35597806 original size:40 final size:40
Alignment explanation
Indices: 35597632--35597823 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 40
35597622 GTGACTCAAT
*
35597632 CCGGGTCAAT-TCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGG-CAATGTCCCGAAGGCAATTGTGCGAGTTACCAAAA
** *
35597672 CCAGGTTAA-GTCCCGAAGGCACTTGTGCGAGTTACCAAAA
1 CC-GGGCAATGTCCCGAAGGCAATTGTGCGAGTTACCAAAA
* * *
35597712 CCGGGTTAA-GTCCCGAAGGC-ATTCGTGCGAGTTACTAAAT
1 CCGGG-CAATGTCCCGAAGGCAATT-GTGCGAGTTACCAAAA
* * * * *
35597752 CTGGGCTAAT-TCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGC-AATGTCCCGAAGGCAATTGTGCGAGTTACCAAAA
* * *
35597792 CCGGGCAATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCAATGTCCCGAAGGCAATTGTGCGAGT
35597824 CGCTATATCC
Statistics
Matches: 126, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
39 7 0.06
40 114 0.90
41 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (40 bp):
CCGGGCAATGTCCCGAAGGCAATTGTGCGAGTTACCAAAA
Found at i:35597808 original size:120 final size:121
Alignment explanation
Indices: 35597591--35597809 Score: 273
Period size: 120 Copynumber: 1.8 Consensus size: 121
35597581 CGAATGGTGT
* * * *
35597591 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTCAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * **
35597656 GTGCGAGTTACCAAAACCAGGTTAAGTCCCGAAGGCACTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACCAGGGCAAGTCCCGAAGGCACTTGTGCGAGTTACCAAAA
* * * *
35597712 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCTGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
35597775 TGTGCGAATCACTATAACC-GGGCAATGTCCCGAAG
65 TGTGCGAATCACCAAAACCAGGGCAA-GTCCCGAAG
35597810 ACAATCGAGC
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
119 5 0.06
120 52 0.63
121 25 0.30
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACCAGGGCAAGTCCCGAAGGCACTTGTGCGAGTTACCAAAA
Found at i:35599336 original size:20 final size:19
Alignment explanation
Indices: 35599308--35599347 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
35599298 ACTCATTTTT
*
35599308 ATTTCAAATTTCTATTCATC
1 ATTTCAAATTT-TATCCATC
*
35599328 ATTTTAAATTTTATCCATC
1 ATTTCAAATTTTATCCATC
35599347 A
1 A
35599348 ACTTATCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTCAAATTTTATCCATC
Found at i:35606999 original size:44 final size:41
Alignment explanation
Indices: 35606894--35607014 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 41
35606884 GTAATTAAGT
* * *
35606894 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACAAAATCAG
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACAAAATCAA
* * *
35606935 ATACGATGCCTATGTCCCAGACATGGTCTTACATGTAAATCTCAA
1 AT-CGATGCCTATGTCCCAGACACGGTCTTACA--CAAA-ATCAA
* * *
35606980 ATCGAGGCCTGTGTCCCAGACACGATCTTACACAA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACAA
35607015 TATCTCAGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.03
42 30 0.45
44 29 0.44
45 5 0.08
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACAAAATCAA
Found at i:35607009 original size:86 final size:84
Alignment explanation
Indices: 35606855--35607014 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 84
35606845 AACGGGTACA
* * * * * *
35606855 ATGCCGATGTCCTAGACGTGGTTTTACATGTAATTAAGTATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAATTAAG-ATCGAGGCCTCTGTCCCAGACACGAT
35606920 CTTACACAAAATCAGATACG
65 CTTACACAAAATCAGATACG
* *
35606940 ATGCCTATGTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCGAGGCCTGTGTCCCAGACACG
1 ATGCCGATGTCCCAGACATGGTCTTACATGT-AAT-T-AAGATCGAGGCCTCTGTCCCAGACACG
35607004 ATCTTACACAA
63 ATCTTACACAA
35607015 TATCTCAGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
85 27 0.42
86 34 0.53
87 1 0.02
88 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (84 bp):
ATGCCGATGTCCCAGACATGGTCTTACATGTAATTAAGATCGAGGCCTCTGTCCCAGACACGATC
TTACACAAAATCAGATACG
Found at i:35626012 original size:26 final size:26
Alignment explanation
Indices: 35625983--35626038 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
35625973 CGATATATGA
35625983 CTCTCCGTGAGCTTCCTGATTAAAGG
1 CTCTCCGTGAGCTTCCTGATTAAAGG
** *
35626009 CTCTTTGTGAGCTTCCTGATTAATGG
1 CTCTCCGTGAGCTTCCTGATTAAAGG
35626035 CTCT
1 CTCT
35626039 TAAGAGCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (26 bp):
CTCTCCGTGAGCTTCCTGATTAAAGG
Found at i:35626039 original size:26 final size:26
Alignment explanation
Indices: 35625989--35626039 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
35625979 ATGACTCTCC
35625989 GTGAGCTTCCTGATTAAAGGCTCTTT
1 GTGAGCTTCCTGATTAAAGGCTCTTT
*
35626015 GTGAGCTTCCTGATTAATGGCTCTT
1 GTGAGCTTCCTGATTAAAGGCTCTT
35626040 AAGAGCTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.39
Consensus pattern (26 bp):
GTGAGCTTCCTGATTAAAGGCTCTTT
Found at i:35626670 original size:26 final size:26
Alignment explanation
Indices: 35626634--35626693 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
35626624 GAAGCTCTTG
35626634 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* * ** *
35626660 TGAGCCTTTAATCGGGAAGCTCATAA
1 AGAGCCATTAATCAAGAAGCTCACAA
35626686 AGAGCCAT
1 AGAGCCAT
35626694 ATATCGAGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:35626699 original size:26 final size:27
Alignment explanation
Indices: 35626619--35626696 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 27
35626609 AGTGAGCCAT
**
35626619 ATCGGGAAGCTC-TTGAGAGCCAT-TA
1 ATCGGGAAGCTCATAAAGAGCCATATA
** * * *
35626644 ATCAAGAAGCTCACAATGAGCC-TTTA
1 ATCGGGAAGCTCATAAAGAGCCATATA
35626670 ATCGGGAAGCTCATAAAGAGCCATATA
1 ATCGGGAAGCTCATAAAGAGCCATATA
35626697 TCGAGATGTT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
25 11 0.28
26 25 0.64
27 3 0.08
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (27 bp):
ATCGGGAAGCTCATAAAGAGCCATATA
Found at i:35627989 original size:31 final size:31
Alignment explanation
Indices: 35627951--35628013 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 31
35627941 CTTTTCACAC
35627951 TTCATATTTCATAAC-ACTGGGCCGAA-GCCTT
1 TTCATATTTCAT-ACTACTGGGCC-AATGCCTT
35627982 TTCATATTTCATACTACTGGGCCAATGCCTT
1 TTCATATTTCATACTACTGGGCCAATGCCTT
35628013 T
1 T
35628014 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATACTACTGGGCCAATGCCTT
Found at i:35628312 original size:25 final size:24
Alignment explanation
Indices: 35628206--35628351 Score: 188
Period size: 25 Copynumber: 6.0 Consensus size: 24
35628196 GCTTTATCAT
*
35628206 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
35628231 ATAACTAGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
35628254 ATAACTGGGGCACAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
35628278 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
* *
35628303 ATAACTGGGGCATAAACCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
35628328 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
35628352 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
23 17 0.15
24 40 0.36
25 53 0.48
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:35628427 original size:20 final size:20
Alignment explanation
Indices: 35628400--35628466 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
35628390 TTACGAATAC
35628400 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35628420 AACATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
35628440 GTTATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
35628460 ATCATGT
1 ATCATGT
35628467 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:35630458 original size:11 final size:11
Alignment explanation
Indices: 35630442--35630467 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35630432 AATTCCATAG
35630442 CTATTTGATAC
1 CTATTTGATAC
35630453 CTATTTGATAC
1 CTATTTGATAC
35630464 CTAT
1 CTAT
35630468 AGCTACTAGA
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:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (11 bp):
CTATTTGATAC
Found at i:35641238 original size:40 final size:39
Alignment explanation
Indices: 35641177--35641379 Score: 239
Period size: 40 Copynumber: 5.1 Consensus size: 39
35641167 CGGAATTTAG
* * *
35641177 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAT-ACAACACGCACAAATGCCTTCGGGTCTTAAC
* *
35641217 CCGGGTATAGCAACACGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATA-CAACACGCACAAATGCCTTCGGGTCTTAAC
*
35641257 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAT-ACAACACGCACAAATGCCTTCGGGTCTTAAC
* *
35641297 CCGGATATATCAACTCTCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATA-CAACACGCACAAATGCCTTCGGGTCTTAAC
* * *
35641337 CCGGATATA-ATCACTAGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATACAACAC--GCACAAATGCCTTCGGGTCTTAAC
35641376 CCGG
1 CCGG
35641380 GTATCATTCA
Statistics
Matches: 144, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
38 3 0.02
39 11 0.08
40 129 0.90
41 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (39 bp):
CCGGATATACAACACGCACAAATGCCTTCGGGTCTTAAC
Found at i:35641278 original size:80 final size:79
Alignment explanation
Indices: 35641173--35641383 Score: 291
Period size: 80 Copynumber: 2.7 Consensus size: 79
35641163 TCTTCGGAAT
* *
35641173 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCAC
35641237 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * * *
35641252 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCAACTCTCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCAC
35641317 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
35641332 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
35641384 CATTCAATTG
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 17 0.15
80 99 0.85
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCACA
AATGCCTTCGGGTC
Found at i:35649346 original size:40 final size:40
Alignment explanation
Indices: 35649278--35649480 Score: 250
Period size: 40 Copynumber: 5.1 Consensus size: 40
35649268 CGGAATTTAG
* * * *
35649278 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACACGCACAAATGCCTTCGGGTCTTAAC
* * *
35649318 CCGGGTATAGCAACACGTACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACACGCACAAATGCCTTCGGGTCTTAAC
* *
35649358 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACACGCACAAATGCCTTCGGGTCTTAAC
*
35649398 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACACGCACAAATGCCTTCGGGTCTTAAC
* * *
35649438 CCGGATATA--ATCACTAGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGCAACAC--GCACAAATGCCTTCGGGTCTTAAC
35649477 CCGG
1 CCGG
35649481 GTATCATTCA
Statistics
Matches: 144, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 3 0.02
39 9 0.06
40 132 0.92
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAGCAACACGCACAAATGCCTTCGGGTCTTAAC
Found at i:35649379 original size:80 final size:79
Alignment explanation
Indices: 35649274--35649484 Score: 300
Period size: 80 Copynumber: 2.7 Consensus size: 79
35649264 TCTTCGGAAT
* * *
35649274 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACACGTAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCAC
35649338 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
35649353 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCAC
35649418 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
35649433 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
35649485 CATTCAATTG
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
79 17 0.14
80 100 0.85
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCACA
AATGCCTTCGGGTC
Found at i:35650238 original size:2 final size:2
Alignment explanation
Indices: 35650231--35650262 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35650221 ATGTGCAAAC
35650231 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35650263 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35651763 original size:12 final size:12
Alignment explanation
Indices: 35651746--35651777 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
35651736 AGTGCAGGTA
35651746 TTGGGTGAAATT
1 TTGGGTGAAATT
35651758 TTGGGTGAAATT
1 TTGGGTGAAATT
35651770 TTGGGTGA
1 TTGGGTGA
35651778 GAAATGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (12 bp):
TTGGGTGAAATT
Found at i:35654645 original size:29 final size:29
Alignment explanation
Indices: 35654596--35654665 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
35654586 AAAATTGTAC
*
35654596 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTACGAACTGAAAATATAT
*
35654625 AGCACTAAGTGTACGAGCTGAAAATATAT
1 AGCACTAAGTGTACGAACTGAAAATATAT
35654654 AGCACTAAGTGT
1 AGCACTAAGTGT
35654666 GCGGATTCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTACGAACTGAAAATATAT
Found at i:35656395 original size:42 final size:42
Alignment explanation
Indices: 35656314--35656397 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
35656304 TGCTGACTCA
* * *
35656314 ATGTCCTAAACATGGTCTTATACGAGACCTCATATTGATGCC
1 ATGTCCTAAACATGGTCTTATACGAAACCACATAATGATGCC
* *
35656356 ATGTCCTAAACATGGTCTTATACGAAATCACTTAATGATGCC
1 ATGTCCTAAACATGGTCTTATACGAAACCACATAATGATGCC
35656398 GAAGTCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGTCCTAAACATGGTCTTATACGAAACCACATAATGATGCC
Found at i:35664422 original size:40 final size:40
Alignment explanation
Indices: 35664343--35664522 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
35664333 CCAAACCGAG
* * * *
35664343 TGCCTTCGGGATTTAG-CCGGACATAGCT-ACTAGCTCAAA
1 TGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAA
*
35664382 TGCCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
35664422 TGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* *
35664462 TGCCTTCGGGACTTAGCCTGGAAATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
35664502 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
35664523 TTATCATCCG
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 15 0.12
40 113 0.88
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:35674467 original size:49 final size:49
Alignment explanation
Indices: 35674357--35674670 Score: 181
Period size: 48 Copynumber: 6.5 Consensus size: 49
35674347 AATACTGACT
* * ** * *
35674357 CCATATCCCAGACATGGTCTTACACTGGCTAGCATAT-T-AAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCAAGGCCGATG
*
35674405 CCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATG
* * * * * *
35674454 CCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATC-AGTGTCGATA
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAG-GCCGATG
* ** * *
35674503 CTC-TGTCCCAGGCAGGTCTTACACT-AGCTTGT-ATATCCCGAGGCTGATG
1 C-CATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCAAGGCCGATG
* ** *
35674552 -CATGTCCCAGACATGTCTTACACT-AGCTTGT-ATATCCCGAA-GCTGATG
1 CCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATC-AAGGCCGATG
* * * * **
35674600 -CATGTCCCAGACATGTCTTACACT-AGC--TCTTGTCTCAATCCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCAAGGCCGATG
*
35674646 -CATGTCCCAGACATGTCTTACACTG
1 CCATGTCCCAGACAGGTCTTACACTG
35674671 GCACTCATGA
Statistics
Matches: 222, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.01
46 33 0.15
47 20 0.09
48 83 0.37
49 79 0.36
50 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATG
Found at i:35674570 original size:48 final size:48
Alignment explanation
Indices: 35674506--35674719 Score: 233
Period size: 48 Copynumber: 4.5 Consensus size: 48
35674496 GTCGATACTC
* *
35674506 TGTCCCAGGCAGGTCTTACACTAGCTTGTATATCCCGAGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTTGTATATCCCGAGGCTGATGCA
*
35674554 TGTCCCAGACATGTCTTACACTAGCTTGTATATCCCGAAGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTTGTATATCCCGAGGCTGATGCA
* * * * ** *
35674602 TGTCCCAGACATGTCTTACACTAGC-TCT-TGTCTCAATCCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTTGTATATCCCGAGGCTGATGCA
* * * *
35674648 TGTCCCAGACATGTCTTACACTGGCACT-CATGAT---GTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGC-TTGTAT-ATCCCGAGGCTGATGCA
*
35674694 TGTCCCAAACATGTCTTACACTAGCT
1 TGTCCCAGACATGTCTTACACTAGCT
35674720 CACCTACCAC
Statistics
Matches: 141, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
46 66 0.47
47 2 0.01
48 72 0.51
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
TGTCCCAGACATGTCTTACACTAGCTTGTATATCCCGAGGCTGATGCA
Found at i:35679797 original size:42 final size:42
Alignment explanation
Indices: 35679744--35679861 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
35679734 ATGAGCAGAG
* *
35679744 ACACGAGCGTGTGTCTCTGCCGTGTGTACCACATAGCATGGA
1 ACACGGGCGTGTGTCTCTGCCGTGTGTACCACACAGCATGGA
* *
35679786 ACATGGGCGTGTGTCT-TAGCCGTGTGTACCACACAGCCTGGA
1 ACACGGGCGTGTGTCTCT-GCCGTGTGTACCACACAGCATGGA
* *
35679828 ACACGGGCATGTGTCTCAGCCGTGTGTACCACAC
1 ACACGGGCGTGTGTCTCTGCCGTGTGTACCACAC
35679862 GGGCGTGTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 66 0.99
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (42 bp):
ACACGGGCGTGTGTCTCTGCCGTGTGTACCACACAGCATGGA
Found at i:35679862 original size:30 final size:30
Alignment explanation
Indices: 35679828--35679891 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
35679818 ACAGCCTGGA
*
35679828 ACACGGGCATGTGTCTCAGCCGTGTGTACC
1 ACACGGGCATGTGTCTCAACCGTGTGTACC
* *
35679858 ACACGGGCGTGTGTCTTAACCGTGTGTACC
1 ACACGGGCATGTGTCTCAACCGTGTGTACC
35679888 ACAC
1 ACAC
35679892 AGCCTAGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (30 bp):
ACACGGGCATGTGTCTCAACCGTGTGTACC
Found at i:35679922 original size:72 final size:72
Alignment explanation
Indices: 35679790--35679925 Score: 209
Period size: 72 Copynumber: 1.9 Consensus size: 72
35679780 CATGGAACAT
* * *
35679790 GGGCGTGTGTCTTAGCCGTGTGTACCACACAGCCTGGAACACGGGCATGTGTCTCAGCCGTGTGT
1 GGGCGTGTGTCTTAACCGTGTGTACCACACAGCCTAGAACACGGGCATGCGTCTCAGCCGTGTGT
35679855 ACCACAC
66 ACCACAC
** **
35679862 GGGCGTGTGTCTTAACCGTGTGTACCACACAGCCTAGAACACGGGTGTGCGTCTTGGCCGTGTG
1 GGGCGTGTGTCTTAACCGTGTGTACCACACAGCCTAGAACACGGGCATGCGTCTCAGCCGTGTG
35679926 AAACCTGCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (72 bp):
GGGCGTGTGTCTTAACCGTGTGTACCACACAGCCTAGAACACGGGCATGCGTCTCAGCCGTGTGT
ACCACAC
Found at i:35687004 original size:25 final size:25
Alignment explanation
Indices: 35686976--35687032 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
35686966 TATAAGGCCT
35686976 TAATCCTACTCTAATTAATACTTTC
1 TAATCCTACTCTAATTAATACTTTC
35687001 TAATCCTACTCTAATTAATACTTTC
1 TAATCCTACTCTAATTAATACTTTC
35687026 TAA-CCTA
1 TAATCCTA
35687033 ATTAAAATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATCCTACTCTAATTAATACTTTC
Found at i:35687072 original size:22 final size:22
Alignment explanation
Indices: 35687042--35687083 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
35687032 AATTAAAATC
35687042 CAAAAT-AAAAATTTGACAATT
1 CAAAATAAAAAATTTGACAATT
*
35687063 CAAATATAAAAAATTTTACAA
1 CAAA-ATAAAAAATTTGACAA
35687084 CATTTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 2 0.11
23 12 0.67
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
CAAAATAAAAAATTTGACAATT
Done.