Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 120 of 222
Found at i:38966097 original size:20 final size:20
Alignment explanation
Indices: 38966058--38966098 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38966048 CCCTATAGTT
*
38966058 TAAAAATTTTAATCTTTTTC
1 TAAAAATTTTAATCTGTTTC
* *
38966078 TAAAAATTTTTATGTGTTTC
1 TAAAAATTTTAATCTGTTTC
38966098 T
1 T
38966099 GATTTGTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
TAAAAATTTTAATCTGTTTC
Found at i:38967531 original size:14 final size:15
Alignment explanation
Indices: 38967508--38967536 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38967498 TTTTTTTATA
38967508 AAAAATAAATAAAAT
1 AAAAATAAATAAAAT
38967523 AAAAA-AAATAAAAT
1 AAAAATAAATAAAAT
38967537 CACTCACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:38970324 original size:27 final size:28
Alignment explanation
Indices: 38970294--38970411 Score: 129
Period size: 27 Copynumber: 4.4 Consensus size: 28
38970284 ATTAGAGTTC
38970294 GCCACAAAGGCT-A-TCTATACAGAGTAT
1 GCCACAAAGGCTGATTC-ATACAGAGTAT
* *
38970321 GCCA-AAAAGATGATTCATACAGAGTAT
1 GCCACAAAGGCTGATTCATACAGAGTAT
* *
38970348 GCCACAAAGG-TGATTCATACAGACTAC
1 GCCACAAAGGCTGATTCATACAGAGTAT
*
38970375 GCCACAAAGGC-GATTCATTCAGAGTAT
1 GCCACAAAGGCTGATTCATACAGAGTAT
**
38970402 GTTACAAAGG
1 GCCACAAAGG
38970412 ATGACAGGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.06
27 66 0.86
28 6 0.08
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (28 bp):
GCCACAAAGGCTGATTCATACAGAGTAT
Found at i:38971524 original size:16 final size:16
Alignment explanation
Indices: 38971503--38971538 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
38971493 ATGAAGGGCG
38971503 TAATGGAATAGAGGCA
1 TAATGGAATAGAGGCA
*
38971519 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCA
38971535 TAAT
1 TAAT
38971539 AGCAAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.22
Consensus pattern (16 bp):
TAATGGAATAGAGGCA
Found at i:38971850 original size:22 final size:21
Alignment explanation
Indices: 38971825--38971876 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
38971815 TAGATATTCT
*
38971825 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
38971847 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
38971869 TAAT-TTAA
1 TAATATTAA
38971877 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:38971886 original size:121 final size:119
Alignment explanation
Indices: 38971751--38972041 Score: 485
Period size: 120 Copynumber: 2.4 Consensus size: 119
38971741 TTAATCATAT
38971751 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
38971816 -AGATATTCTTAATATTAAATTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAGATATTCTT-ATATGAAATTACTAAAATCAT-A-ATATAATACTATAAAATATAA
38971872 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * *
38971937 AAATATATTCTTATATGGATTTACTAAAATCATAATATAATACTATAAAATATAA
66 -AAGATATTCTTATATGAAATTACTAAAATCATAATATAATACTATAAAATATAA
* *
38971992 TTTAAAATAAATATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
38972042 CTAAAGTTTG
Statistics
Matches: 162, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
120 69 0.43
121 66 0.41
122 18 0.11
123 9 0.06
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (119 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAGATATTCTTATATGAAATTACTAAAATCATAATATAATACTATAAAATATAA
Found at i:38972013 original size:26 final size:27
Alignment explanation
Indices: 38971968--38972035 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
38971958 TACTAAAATC
*
38971968 ATAATATAATACTATAAAATATAATTTA
1 ATAATA-AATATTATAAAATATAATTTA
*
38971996 A-AATAAATATTATTAAATATAATTTA
1 ATAATAAATATTATAAAATATAATTTA
38972022 ATAA-AAATA-TATAA
1 ATAATAAATATTATAA
38972036 TTTAATCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.11
26 25 0.69
27 6 0.17
28 1 0.03
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (27 bp):
ATAATAAATATTATAAAATATAATTTA
Found at i:38989208 original size:105 final size:106
Alignment explanation
Indices: 38989077--38989274 Score: 301
Period size: 105 Copynumber: 1.9 Consensus size: 106
38989067 ATGGATTAAG
* * * *
38989077 ATTTAAGAGGATTTTTGGCTATTTGGTCAAACGAAAAAATCGAAACTCAGCACATTAGGGCACGT
1 ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
38989142 TTCCTCGAAATT-CCAAACGCAAAATATTCTCTTACTCTAAA
66 TTCCTCG-AATTCCCAAACGCAAAATATTCTCTTACTCTAAA
* *
38989183 ATTTAA-AGGATATTTGGCTATTTGGTCGAACGAAAAAATTGAAACCCAACACATTAGAGCACGT
1 ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
* *
38989247 TTTCTCGAATTCCCAAATGCAAAATATT
66 TTCCTCGAATTCCCAAACGCAAAATATT
38989275 GCCTTTATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
104 4 0.05
105 73 0.88
106 6 0.07
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (106 bp):
ATTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAACACATTAGAGCACGT
TTCCTCGAATTCCCAAACGCAAAATATTCTCTTACTCTAAA
Found at i:38989972 original size:10 final size:10
Alignment explanation
Indices: 38989945--38989980 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
38989935 GTAAAAGATA
*
38989945 TATATATTTG
1 TATATATATG
*
38989955 TATGTATATG
1 TATATATATG
38989965 TATATATATG
1 TATATATATG
38989975 TATATA
1 TATATA
38989981 AAAATTGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (10 bp):
TATATATATG
Found at i:38990392 original size:20 final size:20
Alignment explanation
Indices: 38990369--38990445 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 20
38990359 ATAACATAAT
38990369 AAAATAAAATAATATATATA
1 AAAATAAAATAATATATATA
38990389 AAAAGCT-AAATAGATATATA-A
1 AAAA--TAAAATA-ATATATATA
*
38990410 AATAATATAATAATAATAATAGTA
1 AA-AATAAAATAAT-AT-ATA-TA
*
38990434 ATAATAAAATAA
1 AAAATAAAATAA
38990446 CAATAGAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
20 7 0.16
21 14 0.31
22 13 0.29
23 9 0.20
24 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAATAAAATAATATATATA
Found at i:38990417 original size:12 final size:13
Alignment explanation
Indices: 38990396--38990437 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
38990386 ATAAAAAGCT
38990396 AAATAGATAT-ATA
1 AAATA-ATATAATA
38990409 AAATAATATAATA
1 AAATAATATAATA
38990422 ATAATAATAGTAATA
1 A-AATAATA-TAATA
38990437 A
1 A
38990438 TAAAATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.15
13 9 0.35
14 7 0.27
15 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (13 bp):
AAATAATATAATA
Found at i:38990422 original size:3 final size:3
Alignment explanation
Indices: 38990406--38990450 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
38990396 AAATAGATAT
* *
38990406 ATA A-A ATA AT- ATA ATA ATA ATA ATA GTA ATA ATA A-A ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38990451 GAAAAGGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:38990450 original size:20 final size:20
Alignment explanation
Indices: 38990412--38990451 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38990402 ATATATAAAA
*
38990412 TAATATAATAATAATAATAG
1 TAATATAATAATAACAATAG
38990432 TAATAATAA-AATAACAATAG
1 TAAT-ATAATAATAACAATAG
38990452 AAAAGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
TAATATAATAATAACAATAG
Found at i:38992538 original size:11 final size:11
Alignment explanation
Indices: 38992522--38992547 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38992512 ATTTTTTTAA
38992522 TTTTAAAATAC
1 TTTTAAAATAC
38992533 TTTTAAAATAC
1 TTTTAAAATAC
38992544 TTTT
1 TTTT
38992548 TTTTAAAATT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:38992551 original size:26 final size:26
Alignment explanation
Indices: 38992522--38992575 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
38992512 ATTTTTTTAA
38992522 TTTTAAAATACTTTT-AAAATACTTTT
1 TTTTAAAAT-CTTTTAAAAATACTTTT
*
38992548 TTTTAAAATTTTTTAAAAATACTTTT
1 TTTTAAAATCTTTTAAAAATACTTTT
38992574 TT
1 TT
38992576 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTTAAAATCTTTTAAAAATACTTTT
Found at i:38992607 original size:40 final size:45
Alignment explanation
Indices: 38992547--38992643 Score: 134
Period size: 40 Copynumber: 2.2 Consensus size: 45
38992537 AAAATACTTT
38992547 TTTTTAAAAT-TTTTTAAAAATAC-TTTTTTAA-TTTT-TTTTAA
1 TTTTTAAAATATTTTTAAAAATACTTTTTTTAATTTTTGTTTTAA
38992588 -TTTTAAAATATTTTT-AAAATACTTTTTTTTTAATTTTTGTTTTAA
1 TTTTTAAAATATTTTTAAAAATAC--TTTTTTTAATTTTTGTTTTAA
38992633 TTTTTAAAATA
1 TTTTTAAAATA
38992644 AATTTTTGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
40 16 0.33
41 5 0.10
43 8 0.16
44 4 0.08
45 6 0.12
46 10 0.20
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (45 bp):
TTTTTAAAATATTTTTAAAAATACTTTTTTTAATTTTTGTTTTAA
Found at i:38993704 original size:6 final size:6
Alignment explanation
Indices: 38993693--38993717 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
38993683 TTATGTAGCT
38993693 AGGTAC AGGTAC AGGTAC AGGTAC A
1 AGGTAC AGGTAC AGGTAC AGGTAC A
38993718 AAACACAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (6 bp):
AGGTAC
Found at i:39004872 original size:57 final size:56
Alignment explanation
Indices: 39004771--39004886 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 56
39004761 ATCGAAATGG
* * *
39004771 TGAAAATGGAGAAATGCGAAACATTTGAAAATTATTATGGTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAAT-CGAAAAATTTGAAAATGATAATGGTTTCTCCAAAATAAAAA
* *
39004828 TGAAAATGGAGAAAT-GAAATAATTTGGAAATGATAATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATCGAAA-AATTTGAAAATGATAATGG-TTTCTCCAAAATAAAAA
39004885 TG
1 TG
39004887 GAGAAATAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
55 4 0.08
56 15 0.29
57 33 0.63
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (56 bp):
TGAAAATGGAGAAATCGAAAAATTTGAAAATGATAATGGTTTCTCCAAAATAAAAA
Found at i:39004886 original size:51 final size:51
Alignment explanation
Indices: 39004824--39004937 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 51
39004814 CTCCAAAATA
* * *
39004824 AAAATGAAAATGGAGAAAT-GAAATAATTTGGAAATG-ATAATGGTTTTCTCC
1 AAAATGAAAATGGAGAAATAG-AACAATTTGGAAATGAAT-ATGGTTTCCCCC
* *
39004875 AAAATGAAAATGGAGAAATAGAACCATTTGGAAATGAATGTGGTTTCCCCC
1 AAAATGAAAATGGAGAAATAGAACAATTTGGAAATGAATATGGTTTCCCCC
*
39004926 AAACTGAAAATG
1 AAAATGAAAATG
39004938 AAATTGATCT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAATAGAACAATTTGGAAATGAATATGGTTTCCCCC
Found at i:39005212 original size:20 final size:20
Alignment explanation
Indices: 39005187--39005228 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
39005177 TCAAATTATA
39005187 AAGTATTGAATTAAAAGTCT
1 AAGTATTGAATTAAAAGTCT
39005207 AAGTATTGAATTAAAAGTCT
1 AAGTATTGAATTAAAAGTCT
39005227 AA
1 AA
39005229 AAAGTGCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (20 bp):
AAGTATTGAATTAAAAGTCT
Found at i:39018734 original size:17 final size:19
Alignment explanation
Indices: 39018687--39018735 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
39018677 AATAGTATTT
*
39018687 TATTAATTTAATATTAAAG
1 TATTATTTTAATATTAAAG
*
39018706 TGATTATCTTAATATTAAA-
1 T-ATTATTTTAATATTAAAG
39018725 T-TTATTTTAAT
1 TATTATTTTAAT
39018736 GCTTATCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.35
19 2 0.08
20 15 0.58
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (19 bp):
TATTATTTTAATATTAAAG
Found at i:39027889 original size:51 final size:51
Alignment explanation
Indices: 39027813--39027916 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
39027803 CAACCTTTAA
39027813 CTTGATTTTCTCTCTCCTCCAGCTTCAATTTCTTGAATCCAACTTGATATT
1 CTTGATTTTCTCTCTCCTCCAGCTTCAATTTCTTGAATCCAACTTGATATT
39027864 CTTGATTTTCTCTCTCCTCCAGCTTCAATTTCTTGAATCCAACTTGATATT
1 CTTGATTTTCTCTCTCCTCCAGCTTCAATTTCTTGAATCCAACTTGATATT
39027915 CT
1 CT
39027917 AGCTCCCCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.19, C:0.28, G:0.08, T:0.45
Consensus pattern (51 bp):
CTTGATTTTCTCTCTCCTCCAGCTTCAATTTCTTGAATCCAACTTGATATT
Found at i:39038053 original size:39 final size:38
Alignment explanation
Indices: 39037997--39038078 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 38
39037987 AAGGGTTGAA
* *
39037997 GTTTAGGTTTATAGTTTATATATGTTTTATGATTCAGG
1 GTTTAGGTTTAGAGTTTATATATGTTTCATGATTCAGG
* * *
39038035 GTTTAGGGTTTAGGGTTTATATATGTTTCATGGTTTAGG
1 GTTTA-GGTTTAGAGTTTATATATGTTTCATGATTCAGG
39038074 GTTTA
1 GTTTA
39038079 AGGAATATGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 5 0.13
39 33 0.87
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (38 bp):
GTTTAGGTTTAGAGTTTATATATGTTTCATGATTCAGG
Found at i:39038093 original size:21 final size:22
Alignment explanation
Indices: 39038064--39038110 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
39038054 TATATGTTTC
*
39038064 ATGGTTTA-GGGTTTAAGGAAT
1 ATGGGTTAGGGGTTTAAGGAAT
* *
39038085 ATGGGTTAGGGGTTTAGGGATT
1 ATGGGTTAGGGGTTTAAGGAAT
39038107 ATGG
1 ATGG
39038111 TGTAAGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.36
Consensus pattern (22 bp):
ATGGGTTAGGGGTTTAAGGAAT
Found at i:39040633 original size:31 final size:31
Alignment explanation
Indices: 39040595--39040674 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
39040585 AAGGATTTTA
39040595 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
*
39040626 ATTGGTTTTTGCTA-CTAAGATGGTACCTTTT
1 ATTGGTTTTTGC-AGCTAAGATGGTACCTTCT
* *
39040657 ATTGTTTTTTGCTGCTAA
1 ATTGGTTTTTGCAGCTAA
39040675 ATCAACCATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.20, T:0.47
Consensus pattern (31 bp):
ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
Found at i:39041204 original size:15 final size:15
Alignment explanation
Indices: 39041168--39041209 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
39041158 ATAAATATTT
* *
39041168 ATATACATTTTTAAT
1 ATATATATTTTTAAA
39041183 ATATATATTTTTAAA
1 ATATATATTTTTAAA
*
39041198 ATTTATATTTTT
1 ATATATATTTTT
39041210 TTCAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATATATTTTTAAA
Found at i:39041204 original size:17 final size:18
Alignment explanation
Indices: 39041184--39041221 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
39041174 ATTTTTAATA
39041184 TATATATTTTT-AAAATT
1 TATATATTTTTCAAAATT
*
39041201 TATATTTTTTTCAAAATT
1 TATATATTTTTCAAAATT
39041219 TAT
1 TAT
39041222 CAATCATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATATTTTTCAAAATT
Found at i:39041283 original size:12 final size:12
Alignment explanation
Indices: 39041268--39041336 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
39041258 ATCATATCAT
39041268 AACTTATATATA
1 AACTTATATATA
*
39041280 AACTTACATAATACA
1 AACTT--AT-ATATA
*
39041295 TAACTTAAATAATA
1 -AACTTATAT-ATA
* *
39041309 TA-TAATATATA
1 AACTTATATATA
39041320 AACTTATATATA
1 AACTTATATATA
39041332 AACTT
1 AACTT
39041337 GCATAACTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
11 4 0.09
12 22 0.51
13 3 0.07
14 5 0.12
15 4 0.09
16 5 0.12
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (12 bp):
AACTTATATATA
Found at i:39041301 original size:16 final size:16
Alignment explanation
Indices: 39041280--39041313 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39041270 CTTATATATA
*
39041280 AACTTACATAATACAT
1 AACTTAAATAATACAT
*
39041296 AACTTAAATAATATAT
1 AACTTAAATAATACAT
39041312 AA
1 AA
39041314 TATATAAACT
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (16 bp):
AACTTAAATAATACAT
Found at i:39041364 original size:20 final size:19
Alignment explanation
Indices: 39041339--39041413 Score: 61
Period size: 20 Copynumber: 4.1 Consensus size: 19
39041329 ATAAACTTGC
*
39041339 ATAACTTATATAATAACATA
1 ATAACTTACATAAT-ACATA
39041359 ATAACTTACATAATAC---
1 ATAACTTACATAATACATA
* * *
39041375 ATAGCCTACAT-A-ACTTAA
1 ATAACTTACATAATACAT-A
39041393 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
39041412 AT
1 AT
39041414 CTTCCTAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
14 2 0.05
15 1 0.02
16 9 0.21
18 9 0.21
19 6 0.14
20 16 0.37
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:39041440 original size:41 final size:41
Alignment explanation
Indices: 39041395--39041737 Score: 220
Period size: 41 Copynumber: 8.4 Consensus size: 41
39041385 TAACTTAAAT
* *
39041395 AACTTACATAATACATAATCTT-CCTAACTTACATTATACAC
1 AACTTACATAATACATAA-CTTACATAACTTACATAATACAC
*
39041436 AACTTACATAATACATTACTTACATAACTTACATAAT--AC
1 AACTTACATAATACATAACTTACATAACTTACATAATACAC
* * * *
39041475 -A-TTAC-T--TACATAACTTACTTTACTTACAGTACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACA-TA-ATACAC
* *
39041513 AA--TACATAATACATAACTTACATAACATACA-ATATACAT
1 AACTTACATAATACATAACTTACATAACTTACATA-ATACAC
* *
39041552 AACTTACATTACTTACAGT-ACTTACATAA--TACATAACTTACAT
1 AACTTACA-TA-ATACA-TAACTTACATAACTTACATAA--TACAC
* * * *
39041595 AACATACA-ATATACATAACTTACATAACATACATAATATAT
1 AACTTACATA-ATACATAACTTACATAACTTACATAATACAC
* * *
39041636 AACTTACAT-A-ACATACAATATACATAACTTACACAACTTACAT
1 AACTTACATAATACATA-ACT-TACATAACTTACATAA--TACAC
* * *
39041679 AACATACATAATACATAACTTACATAA--TACACAACTTACAT
1 AACTTACATAATACATAACTTACATAACTTACATAA--TACAC
39041720 AACTTACATAATACATAA
1 AACTTACATAATACATAA
39041738 AAATATAGCA
Statistics
Matches: 249, Mismatches: 26, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
34 19 0.08
35 2 0.01
36 2 0.01
37 4 0.02
38 5 0.02
39 17 0.07
40 7 0.03
41 129 0.52
42 3 0.01
43 52 0.21
44 4 0.02
45 5 0.02
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (41 bp):
AACTTACATAATACATAACTTACATAACTTACATAATACAC
Found at i:39041441 original size:16 final size:16
Alignment explanation
Indices: 39041420--39041721 Score: 110
Period size: 16 Copynumber: 18.7 Consensus size: 16
39041410 TAATCTTCCT
*
39041420 AACTTACATTATACAC
1 AACTTACATAATACAC
*
39041436 AACTTACATAATACAT
1 AACTTACATAATACAC
* *
39041452 TACTTACATAACTTACAT
1 AACTTACATAA--TACAC
* *
39041470 AA--TACATTACTTACAT
1 AACTTACA-TA-ATACAC
* * *
39041486 AACTTACTTTACTTACAG
1 AACTTAC-ATA-ATACAC
* *
39041504 TACTTACATAATACAT
1 AACTTACATAATACAC
*
39041520 AA--TACATAACTTACAT
1 AACTTACATAA--TACAC
* *
39041536 AACATACA-ATATACAT
1 AACTTACATA-ATACAC
* *
39041552 AACTTACATTACTTACAG
1 AACTTACA-TA-ATACAC
* *
39041570 TACTTACATAATACAT
1 AACTTACATAATACAC
* *
39041586 AACTTACATAACATAC
1 AACTTACATAATACAC
*
39041602 AA-TATACATAACTTACAT
1 AACT-TACATAA--TACAC
* * *
39041620 AACATACATAATATAT
1 AACTTACATAATACAC
* *
39041636 AACTTACATAACATAC
1 AACTTACATAATACAC
39041652 AA-TATACATAACTTACAC
1 AACT-TACATAA--TACAC
39041670 AACTTAC---ATA-AC
1 AACTTACATAATACAC
*
39041682 -A--TACATAATACAT
1 AACTTACATAATACAC
39041695 AACTTACATAATACAC
1 AACTTACATAATACAC
39041711 AACTTACATAA
1 AACTTACATAA
39041722 CTTACATAAT
Statistics
Matches: 222, Mismatches: 35, Indels: 58
0.70 0.11 0.18
Matches are distributed among these distances:
9 3 0.01
11 1 0.00
12 5 0.02
13 3 0.01
14 8 0.04
15 3 0.01
16 132 0.59
17 7 0.03
18 59 0.27
19 1 0.00
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:39041459 original size:9 final size:9
Alignment explanation
Indices: 39041447--39041578 Score: 92
Period size: 9 Copynumber: 14.6 Consensus size: 9
39041437 ACTTACATAA
39041447 TACATTACT
1 TACATTACT
*
39041456 TACATAACT
1 TACATTACT
*
39041465 TACA-TA-A
1 TACATTACT
39041472 TACATTACT
1 TACATTACT
*
39041481 TACATAACT
1 TACATTACT
*
39041490 TACTTTACT
1 TACATTACT
*
39041499 TACAGTACT
1 TACATTACT
39041508 TACATAATACAT
1 TACAT--TAC-T
*
39041520 AATACATAACT
1 --TACATTACT
* *
39041531 TACATAACA
1 TACATTACT
*
39041540 TACAATA--
1 TACATTACT
*
39041547 TACATAACT
1 TACATTACT
39041556 TACATTACT
1 TACATTACT
*
39041565 TACAGTACT
1 TACATTACT
39041574 TACAT
1 TACAT
39041579 AATACATAAC
Statistics
Matches: 95, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
7 9 0.09
8 3 0.03
9 71 0.75
11 4 0.04
12 3 0.03
14 5 0.05
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (9 bp):
TACATTACT
Found at i:39041485 original size:75 final size:74
Alignment explanation
Indices: 39041359--39041705 Score: 269
Period size: 75 Copynumber: 4.7 Consensus size: 74
39041349 TAATAACATA
* * *
39041359 ATAACTTACATAATACATAGCCTACATAACTTAAATAACTTACA-TA-ATACATAATCTT-CCTA
1 ATAACTTACATAATACATA-CTTACATAACTTACATAA--TACATTACTTACATAA-CTTACCTA
39041421 ACTTACATTATAC
62 ACTTACATTATAC
* * *
39041434 ACAACTTACATAATACATTACTTACATAACTTACATAATACATTACTTACATAACTTACTTTACT
1 ATAACTTACATAATACA-TACTTACATAACTTACATAATACATTACTTACATAACTTACCTAACT
*
39041499 TACAGTACTTAC
65 TACATTA--TAC
* * * *
39041511 ATAA--TACATAATACATAACTTACATAACATACA-ATATACATAACTTACATTACTTACAGT-A
1 ATAACTTACATAATACAT-ACTTACATAACTTACATA-ATACATTACTTACATAACTTAC-CTAA
*
39041572 CTTACATAATAC
63 CTTACATTATAC
* * *
39041584 ATAACTTACAT-A-ACATACAATATACATAACTTACATAACATACA-TA-ATATATAACTTACAT
1 ATAACTTACATAATACATAC--T-TACATAACTTACAT-A-ATACATTACTTACATAACTTACCT
* *
39041645 AACATACAATATAC
61 AACTTACATTATAC
* *
39041659 ATAACTTAC-----ACA-ACTTACATAACATACATAATACATAACTTACATAA
1 ATAACTTACATAATACATACTTACATAACTTACATAATACATTACTTACATAA
39041706 TACACAACTT
Statistics
Matches: 225, Mismatches: 28, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
66 5 0.02
67 2 0.01
68 19 0.08
69 1 0.00
71 2 0.01
72 5 0.02
73 15 0.07
74 10 0.04
75 150 0.67
76 4 0.02
77 12 0.05
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (74 bp):
ATAACTTACATAATACATACTTACATAACTTACATAATACATTACTTACATAACTTACCTAACTT
ACATTATAC
Found at i:39041511 original size:109 final size:108
Alignment explanation
Indices: 39041387--39041737 Score: 416
Period size: 109 Copynumber: 3.2 Consensus size: 108
39041377 AGCCTACATA
* * * * *
39041387 ACTTAAATAACTTACATAATACATAATCTTCCTAACTTACATTATACACAACT-TACATAA-TAC
1 ACTTACATAACTTACATAATACATAAT-TTCATAACTTACATAACATACAA-TATACATAACTAC
* **
39041450 ATTACTTACATAACTTACATAATACATTACTTACATAACTTACTTT
64 ATTACTTACATAACTTACATAATACATAACTTACATAAC-TACAAT
*
39041496 ACTTACAGT-ACTTACATAATACATAA-TACATAACTTACATAACATACAATATACATAACTTAC
1 ACTTACA-TAACTTACATAATACATAATTTCATAACTTACATAACATACAATATACATAAC-TAC
39041559 ATTACTTACAGT-ACTTACATAATACATAACTTACATAACATACAAT
64 ATTACTTACA-TAACTTACATAATACATAACTTACATAAC-TACAAT
*
39041605 A--TACATAACTTACATAACATACATAATAT-ATAACTTACATAACATACAATATACATAACTTA
1 ACTTACATAACTTACAT-A-ATACATAATTTCATAACTTACATAACATACAATATACATAAC-TA
** *
39041667 CACAACTTACATAACATACATAATACATAACTTACATAA-TACACA-
63 CATTACTTACATAACTTACATAATACATAACTTACATAACTACA-AT
39041712 ACTTACATAACTTACATAATACATAA
1 ACTTACATAACTTACATAATACATAA
39041738 AAATATAGCA
Statistics
Matches: 214, Mismatches: 15, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
106 2 0.01
107 50 0.23
108 4 0.02
109 156 0.73
110 2 0.01
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (108 bp):
ACTTACATAACTTACATAATACATAATTTCATAACTTACATAACATACAATATACATAACTACAT
TACTTACATAACTTACATAATACATAACTTACATAACTACAAT
Found at i:39041722 original size:25 final size:25
Alignment explanation
Indices: 39041332--39041737 Score: 220
Period size: 25 Copynumber: 16.4 Consensus size: 25
39041322 CTTATATATA
*
39041332 AACTTGCATAACTT--AT-ATA-AT
1 AACTTACATAACTTACATAATACAT
*
39041353 AACATA-ATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* * *
39041377 AGCCTACATAACTTAAATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
39041404 AA--TACATAATCTT-CCTAACTTACAT
1 AACTTACATAA-CTTACATAA--TACAT
* *
39041429 TA--TACACAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
*
39041452 TACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* * *
39041477 TACTTACATAACTTACTTTACTTACAGT
1 AACTTACATAACTTAC-ATA-ATACA-T
39041505 -ACTTACATAA--TACATAATACAT
1 AACTTACATAACTTACATAATACAT
*
39041527 AACTTACATAACATACA-ATATACAT
1 AACTTACATAACTTACATA-ATACAT
* *
39041552 AACTTACATTACTTACAGTACTTACAT
1 AACTTACATAACTTACA-TA-ATACAT
39041579 AA--TACATAACTTACAT-A-ACAT
1 AACTTACATAACTTACATAATACAT
*
39041600 ACAATATACATAACTTACATAACATACAT
1 A-ACT-TACATAACTTACAT-A-ATACAT
*
39041629 AA--TATATAACTTACAT-A-ACAT
1 AACTTACATAACTTACATAATACAT
* *
39041650 ACAATATACATAACTTACACAACTTACAT
1 A-ACT-TACATAACTTACATAA--TACAT
*
39041679 AACATACATAA--TACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
39041704 AA--TACACAACTTACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
39041729 AA--TACATAA
1 AACTTACATAA
39041738 AAATATAGCA
Statistics
Matches: 317, Mismatches: 30, Indels: 72
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.02
21 14 0.04
22 6 0.02
23 30 0.09
24 13 0.04
25 192 0.61
26 6 0.02
27 35 0.11
28 4 0.01
29 10 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:39041755 original size:50 final size:50
Alignment explanation
Indices: 39041346--39041737 Score: 283
Period size: 50 Copynumber: 7.7 Consensus size: 50
39041336 TGCATAACTT
* * * *
39041346 ATATA-ATAACATA-ATAACTTACATAATACATAGCCTACATAACTTA-A
1 ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* * * *
39041393 ATAACTTACATAA--TACATAATCTT-CCTAACTTACAT--TATACACAACTTAC-
1 AT-A--TACATAACTTACATAA-CTTACATAA--TACATAACATACATAACATACA
* * * * *
39041443 ATAATACATTACTTACATAACTTACATAATACATTACTTACATAACTTACT
1 AT-ATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* *
39041494 TTACTTACAGT-ACTTACATAA--TACATAATACATAACTTACATAACATACA
1 ATA--TACA-TAACTTACATAACTTACATAATACATAACATACATAACATACA
*
39041544 ATATACATAACTTACATTACTTACAGTACTTACATAATACATAACTTACATAACATACA
1 ATATACATAACTTAC---A--T--A--ACTTACATAATACATAACATACATAACATACA
* * *
39041603 ATATACATAACTTACATAACATACATAATATATAACTTACATAACATACA
1 ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
* *
39041653 ATATACATAACTTACACAACTTACATAACATACAT-A-ATACATAACTTAC-
1 ATATACATAACTTACATAACTTACAT-A-ATACATAACATACATAACATACA
*
39041702 ATAATACACAACTTACATAACTTACATAATACATAA
1 AT-ATACATAACTTACATAACTTACATAATACATAA
39041738 AAATATAGCA
Statistics
Matches: 288, Mismatches: 23, Indels: 66
0.76 0.06 0.18
Matches are distributed among these distances:
47 3 0.01
48 28 0.10
49 9 0.03
50 162 0.56
51 11 0.04
52 25 0.09
53 2 0.01
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
59 44 0.15
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (50 bp):
ATATACATAACTTACATAACTTACATAATACATAACATACATAACATACA
Found at i:39044567 original size:42 final size:42
Alignment explanation
Indices: 39044371--39044563 Score: 255
Period size: 42 Copynumber: 4.5 Consensus size: 42
39044361 AATAGCGACA
39044371 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
1 TTTGT-GGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
* *
39044414 TTTGTTGGAAAAGCACCGCTAAAAGTCATGTTCTTTAGCGGCA
1 TTTG-TGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
*
39044457 TTTGTGGGAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
1 TTTGTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
* * * **
39044499 TTCGTAGAAAAAGCGCCGCT-AAAGAACATG-AGTTTAGCGGCG
1 TTTGT-GGAAAAGCGCCGCTAAAAG-TCATGTTCTTTAGCGGCG
39044541 TTTGTGGAAAAAGCGCCGCTAAA
1 TTTGTGG-AAAAGCGCCGCTAAA
39044564 GAACGTGACC
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 69 0.52
43 61 0.46
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (42 bp):
TTTGTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
Found at i:39044585 original size:85 final size:85
Alignment explanation
Indices: 39044363--39044563 Score: 271
Period size: 85 Copynumber: 2.4 Consensus size: 85
39044353 CACCAAACAA
* * * *
39044363 TAGCGACATTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTTGGAAAAGC
1 TAGCGGCATTTGT-GGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGC
* *
39044428 ACCGCTAAAAGTCATGTTCTT
65 ACCGCTAAAAGACATGTACTT
* *
39044449 TAGCGGCATTTGTGGGAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCG
1 TAGCGGCATTTGTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCA
*
39044514 CCGCT-AAAGAACATG-AGTT
66 CCGCTAAAAG-ACATGTACTT
*
39044533 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAA
1 TAGCGGCATTTGTGG-AAAAGCGCCGCTAAA
39044564 GAACGTGACC
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
84 20 0.20
85 70 0.69
86 12 0.12
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (85 bp):
TAGCGGCATTTGTGGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTCGTAGAAAAAGCA
CCGCTAAAAGACATGTACTT
Found at i:39053815 original size:12 final size:13
Alignment explanation
Indices: 39053798--39053829 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
39053788 TATTTGTTCA
39053798 TTATTTTTATT-T
1 TTATTTTTATTAT
39053810 TTATTTTTATTAT
1 TTATTTTTATTAT
39053823 TT-TTTTT
1 TTATTTTT
39053830 GAAACGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:39061806 original size:29 final size:29
Alignment explanation
Indices: 39061733--39061972 Score: 248
Period size: 29 Copynumber: 8.2 Consensus size: 29
39061723 GTGTGCTAAA
* * *
39061733 CGATGGTCGAAACCATCCCTTTTCTTTAAT
1 CGATGGTCGTAACCATCCCTTTTC-ATATT
* *
39061763 CGATGGTTGTTACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* *
39061792 CGATGGTCGTCACCATCCCTTTCCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* **
39061821 CGATGGTCATCCCCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
** * * *
39061850 CGATGGTCAAAACCATCTCTTTTCTCTAAT
1 CGATGGTCGTAACCATCCCTTTTC-ATATT
* * *
39061880 CAATGGTTG-AAGCCATCCTTTTTCATATT
1 CGATGGTCGTAA-CCATCCCTTTTCATATT
*
39061909 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
* * *
39061938 CGATGATCGAAACCATTCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATATT
39061967 CGATGG
1 CGATGG
39061973 GCGTCGATAC
Statistics
Matches: 174, Mismatches: 33, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
29 133 0.76
30 41 0.24
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCCTTTTCATATT
Found at i:39061939 original size:117 final size:117
Alignment explanation
Indices: 39061733--39061972 Score: 349
Period size: 117 Copynumber: 2.1 Consensus size: 117
39061723 GTGTGCTAAA
* * * *
39061733 CGATGGTCGAAACCATCCCTTTTCTTTAATCGATGGTTGTTACCATCCCTTTTCATATTCGATGG
1 CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAACCATCCCTTTTCATATTCGATGG
* **
39061798 TCGTCACCATCCCTTTCCATATTCGATGGTC-ATCCCCATCCCTTTTCATATT
66 TCGTCACCATCCCTTTCCATATTCGATGATCGA-AACCATCCCTTTTCATATT
* *
39061850 CGATGGTCAAAACCATCTCTTTTCTCTAATCAATGGTTG-AAGCCATCCTTTTTCATATTCGATG
1 CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAA-CCATCCCTTTTCATATTCGATG
* *
39061914 GTCGTCACCATCCCTTTTCATATTCGATGATCGAAACCATTCCTTTTCATATT
65 GTCGTCACCATCCCTTTCCATATTCGATGATCGAAACCATCCCTTTTCATATT
39061967 CGATGG
1 CGATGG
39061973 GCGTCGATAC
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
116 1 0.01
117 108 0.98
118 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (117 bp):
CGATGGTCAAAACCATCCCTTTTCTCTAATCAATGGTTGTAACCATCCCTTTTCATATTCGATGG
TCGTCACCATCCCTTTCCATATTCGATGATCGAAACCATCCCTTTTCATATT
Found at i:39065657 original size:20 final size:20
Alignment explanation
Indices: 39065634--39065677 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
39065624 AAATACAGAC
39065634 AAAACCACTAAAATCTTTTT
1 AAAACCACTAAAATCTTTTT
* * * *
39065654 AAAACTACTTATATTTTTTT
1 AAAACCACTAAAATCTTTTT
39065674 AAAA
1 AAAA
39065678 GATGGGAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAACCACTAAAATCTTTTT
Found at i:39065908 original size:4 final size:4
Alignment explanation
Indices: 39065901--39065928 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
39065891 CATGTTATTT
39065901 CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC
39065929 AATTTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:39067530 original size:110 final size:110
Alignment explanation
Indices: 39067392--39067640 Score: 292
Period size: 110 Copynumber: 2.3 Consensus size: 110
39067382 TATTCGGGCA
* * *
39067392 ATGGATTGTGGATCC-TCACTAGACCATATAGGGATACTACATCCCGATA-TACTGGGGATAACC
1 ATGGATTGTGGATCCTTC-CTAGACCATATAGGGATACTACATCCC-ACACCACTAGGGATAACC
*
39067455 CCAAAT-GACCATCCCACTTGAAACGATAGATGATTCCTCTTCT-AGCT
64 CC-AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGA-CT
* * * * *
39067502 ATGGATTGTGGATCCTTCCTAGATCATATTGGGATCCTATATTCCACACCACTAGGGATAACCCC
1 ATGGATTGTGGATCCTTCCTAGACCATATAGGGATACTACATCCCACACCACTAGGGATAACCCC
** *
39067567 AATCAACCATCCCACTTGAATTGATAGATGATTCTTCTTCTGACT
66 AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGACT
* *
39067612 GTGGATCGTGGATCCTTCCT-GAACCATAT
1 ATGGATTGTGGATCCTTCCTAG-ACCATAT
39067641 TGGGTTAACC
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
109 6 0.05
110 110 0.92
111 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (110 bp):
ATGGATTGTGGATCCTTCCTAGACCATATAGGGATACTACATCCCACACCACTAGGGATAACCCC
AATCAACCATCCCACTTGAAACGATAGATGATTCCTCTTCTGACT
Found at i:39067728 original size:20 final size:20
Alignment explanation
Indices: 39067703--39067744 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
39067693 AGACTGCCAA
*
39067703 GGGATCGCATATCCTCCTTG
1 GGGATCGCATATCCTCCCTG
39067723 GGGATCGCATATCCTCCCTG
1 GGGATCGCATATCCTCCCTG
39067743 GG
1 GG
39067745 ATTAGCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (20 bp):
GGGATCGCATATCCTCCCTG
Found at i:39071858 original size:17 final size:17
Alignment explanation
Indices: 39071836--39071868 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
39071826 ATATTTAATA
39071836 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
39071853 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
39071869 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:39079873 original size:6 final size:6
Alignment explanation
Indices: 39079862--39079892 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
39079852 AATGATTCTT
39079862 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA A
1 ATGTGA ATGTGA ATGTGA ATGTGA ATGTGA A
39079893 GGATGCAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
ATGTGA
Found at i:39082481 original size:36 final size:36
Alignment explanation
Indices: 39082426--39082496 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
39082416 CCCAAGGCTG
39082426 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
1 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
* * *
39082462 AGCACCACCCAGAATTCCTAGAAGAGGAAAAATAT
1 AGCACCACCCAAAAATCCTAGAAAAGGAAAAATAT
39082497 GCAAGGTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.51, C:0.23, G:0.14, T:0.13
Consensus pattern (36 bp):
AGCACCACCCAAAAATCCTAGAAAAGGAAAAATATA
Found at i:39095232 original size:12 final size:12
Alignment explanation
Indices: 39095203--39095275 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
39095193 TCTTCACTCG
*
39095203 TTTCTTTTGCAA
1 TTTCTTTTTCAA
**
39095215 ACTCTTTTTCAA
1 TTTCTTTTTCAA
*
39095227 TTTCTTTTTCCACTC
1 TTTCTTTTT-CA--A
39095242 TTTCTTTTTC--
1 TTTCTTTTTCAA
*
39095252 -TTCTCTTTCAA
1 TTTCTTTTTCAA
39095263 TTTCTTTTTCAA
1 TTTCTTTTTCAA
39095275 T
1 T
39095276 CCCTTTTTGC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 8 0.17
12 27 0.57
13 2 0.04
14 1 0.02
15 9 0.19
ACGTcount: A:0.14, C:0.23, G:0.01, T:0.62
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:39095340 original size:21 final size:23
Alignment explanation
Indices: 39095316--39095362 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
39095306 TGAAATCTCA
* *
39095316 TTTCCATTTTTTTTTC-AT-TTC
1 TTTCAATTTATTTTTCAATGTTC
39095337 TTTCAATTTATTTTTCAATGTTC
1 TTTCAATTTATTTTTCAATGTTC
39095360 TTT
1 TTT
39095363 TCTCGCTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 2 0.09
23 6 0.27
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTCAATTTATTTTTCAATGTTC
Found at i:39097545 original size:20 final size:20
Alignment explanation
Indices: 39097520--39097564 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
39097510 TAAATTCAAG
39097520 TAATTAAAAC-AAGACAC-AAT
1 TAATT-AAACTAAGAC-CTAAT
39097540 TAATTAAACTAAGACCTAAT
1 TAATTAAACTAAGACCTAAT
39097560 TAATT
1 TAATT
39097565 CGGTTAGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.29
Consensus pattern (20 bp):
TAATTAAACTAAGACCTAAT
Found at i:39099531 original size:33 final size:32
Alignment explanation
Indices: 39099474--39099567 Score: 93
Period size: 33 Copynumber: 2.9 Consensus size: 32
39099464 TTCAAACTCG
*
39099474 TTTTCTCTTCTTTC-T-TCAATTTCTTTTTTGA
1 TTTTCTCTT-TTTCATCTCAATTTCTTTTTTCA
*
39099505 TTTTCTCTTTTTCAATCTCAATTTCTTTTTTCT
1 TTTTCTCTTTTTC-ATCTCAATTTCTTTTTTCA
** * *
39099538 TTTTCTCACTCTCACTCTCATTTTCTTTTT
1 TTTTCTCTTTTTCA-TCTCAATTTCTTTTT
39099568 CAATTTGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
30 4 0.08
31 9 0.17
32 2 0.04
33 38 0.72
ACGTcount: A:0.11, C:0.23, G:0.01, T:0.65
Consensus pattern (32 bp):
TTTTCTCTTTTTCATCTCAATTTCTTTTTTCA
Found at i:39099561 original size:27 final size:26
Alignment explanation
Indices: 39099504--39099568 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
39099494 TTCTTTTTTG
*
39099504 ATTTTCTCTTTT-TCAATCTCAATTTC
1 ATTTTCT-TTTTCTCAATCTCAATCTC
* * *
39099530 TTTTTTCTTTTTCTCACTCTCACTCTC
1 -ATTTTCTTTTTCTCAATCTCAATCTC
39099557 ATTTTCTTTTTC
1 ATTTTCTTTTTC
39099569 AATTTGTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 15 0.47
27 17 0.53
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTCTTTTTCTCAATCTCAATCTC
Found at i:39100848 original size:41 final size:41
Alignment explanation
Indices: 39100816--39100897 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
39100806 ATATTTTATT
39100816 TTATCTTTTAGTAGTTTATTAAAATAACGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAAAATAACGGAATTATTTTCC
*
39100857 TTATCTTTTAGTAGTTTATTAGAATAA-GAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAAAATAACG-GAATTATTTTCC
39100898 CAATTAAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAAAATAACGGAATTATTTTCC
Found at i:39104355 original size:41 final size:41
Alignment explanation
Indices: 39104308--39104387 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
39104298 ATATTTTATT
39104308 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
* *
39104349 TTATCTTTTTGTAGTTTATTAGAATAAGGGAATTATTTT
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTT
39104388 TCCAATTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
Found at i:39108714 original size:13 final size:13
Alignment explanation
Indices: 39108696--39108722 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39108686 TTGAAATTTT
39108696 ATGAAAATAAGAA
1 ATGAAAATAAGAA
39108709 ATGAAAATAAGAA
1 ATGAAAATAAGAA
39108722 A
1 A
39108723 ATATTTGATA
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:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAATAAGAA
Found at i:39117700 original size:17 final size:17
Alignment explanation
Indices: 39117650--39117692 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
39117640 TATCTTAATT
* *
39117650 AATTATATAATCATTTTA
1 AATTATTTAAT-ATATTA
*
39117668 AATTATTTATTATATTA
1 AATTATTTAATATATTA
39117685 AATTATTT
1 AATTATTT
39117693 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTAATATATTA
Found at i:39118142 original size:22 final size:22
Alignment explanation
Indices: 39118072--39118142 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
39118062 AAATTCAATA
*
39118072 TCAATTTCCTTCAAAAATTCTC
1 TCAAATTCCTTCAAAAATTCTC
39118094 TC-AATTCCGTTCAAAAATTCTC
1 TCAAATTCC-TTCAAAAATTCTC
* *
39118116 TCAAATTCCTTCCAAAATTTTC
1 TCAAATTCCTTCAAAAATTCTC
39118138 TCAAA
1 TCAAA
39118143 CTCTCAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 5 0.11
22 33 0.75
23 6 0.14
ACGTcount: A:0.34, C:0.27, G:0.01, T:0.38
Consensus pattern (22 bp):
TCAAATTCCTTCAAAAATTCTC
Found at i:39118170 original size:30 final size:30
Alignment explanation
Indices: 39118113--39118171 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
39118103 TTCAAAAATT
**
39118113 CTCTCAAATTCCTTCCAAAATTTTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
39118143 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
39118172 TTTCCTTCAA
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:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:39118182 original size:21 final size:22
Alignment explanation
Indices: 39118143--39118184 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
39118133 TTTTCTCAAA
39118143 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
39118165 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
39118185 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:39118283 original size:29 final size:29
Alignment explanation
Indices: 39118223--39118283 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
39118213 AATTTCATTA
* *
39118223 TTTTAAGAAAATTTTAAAATTTTTTATTT
1 TTTTAAGAAAATTTTAAAATTTTTAATAT
*
39118252 TTTTAA-AATAATTTTAATATTTTTAATAT
1 TTTTAAGAA-AATTTTAAAATTTTTAATAT
39118281 TTT
1 TTT
39118284 CAACAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTAAGAAAATTTTAAAATTTTTAATAT
Found at i:39118403 original size:14 final size:15
Alignment explanation
Indices: 39118374--39118407 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
39118364 AAATTTTAAA
39118374 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
39118389 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
39118403 TTTTA
1 TTTTA
39118408 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:39119943 original size:29 final size:28
Alignment explanation
Indices: 39119943--39120585 Score: 442
Period size: 29 Copynumber: 22.9 Consensus size: 28
39119933 TGAAAACCCT
*
39119943 AACCCTAACCCTAACCTATTTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
*
39119972 ATCCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
* *** *
39120001 AACCCTTACCCTATTTTAATTTAAT-TA
1 AACCCTAACCCTAACCTAATTTAATAAA
*
39120028 AA----AACCCTAACCTAATTTAGTTAAA
1 AACCCTAACCCTAACCTAATTTA-ATAAA
* *
39120053 AACCCTAACCCTAACCTATTTTACATGAA
1 AACCCTAACCCTAACCTAATTTA-ATAAA
* *
39120082 AACTCTAACCCTAACCTATTTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
* *
39120111 ATCCCTAACCCTAACCTAATTTAATTAA
1 AACCCTAACCCTAACCTAATTTAATAAA
* **
39120139 AACTCTAA-CCTAATTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
* **
39120167 AACTCTAA-CCTAATTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
* ***
39120195 AACCCTTACCCTATTTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
* *** *
39120224 AACCCTTACCCTATTTTAATTTAAT-TA
1 AACCCTAACCCTAACCTAATTTAATAAA
* *
39120251 AA----AGCCCTAACCTAATTTAGTTAAA
1 AACCCTAACCCTAACCTAATTTA-ATAAA
* *
39120276 AACCCTAACCCTAACCTATTTTACATGAA
1 AACCCTAACCCTAACCTAATTTA-ATAAA
* *
39120305 AACCCTAACCTTAACCTATTTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
* *
39120334 ATCCCTAACCCTAACCTAATTTAATTAA
1 AACCCTAACCCTAACCTAATTTAATAAA
** *
39120362 AACCCTAA-CCTAATTTAATATAATTAAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
* * *** *
39120390 AACCATTACCCTATTTTAATTTAAT-TA
1 AACCCTAACCCTAACCTAATTTAATAAA
*
39120417 AA----AACCCTAACCTAATTTAGTTAAA
1 AACCCTAACCCTAACCTAATTTA-ATAAA
* * *
39120442 AACCCTAACCCTAACTTATTTTATATGAA
1 AACCCTAACCCTAACCTAATTTA-ATAAA
39120471 AACCCTAACCCTAACCT-ATCTTAATTAAA
1 AACCCTAACCCTAACCTAAT-TTAA-TAAA
* *
39120500 ATCCCTAACCCTAACCTAATTTAATTGAA
1 AACCCTAACCCTAACCTAATTTAA-TAAA
* ** * *
39120529 AACCCTTACCCTAATTTATCATTTTATTTGAA
1 AACCCTAACCCTAACCTA--A-TTTA-ATAAA
*
39120561 ATCCCTAACCCTAACCTAATTTAAT
1 AACCCTAACCCTAACCTAATTTAAT
39120586 TAATGTAAAA
Statistics
Matches: 496, Mismatches: 87, Indels: 63
0.77 0.13 0.10
Matches are distributed among these distances:
23 38 0.08
24 3 0.01
25 9 0.02
27 34 0.07
28 73 0.15
29 313 0.63
30 3 0.01
31 1 0.00
32 22 0.04
ACGTcount: A:0.40, C:0.24, G:0.01, T:0.34
Consensus pattern (28 bp):
AACCCTAACCCTAACCTAATTTAATAAA
Found at i:39119955 original size:35 final size:35
Alignment explanation
Indices: 39119909--39119987 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
39119899 CCAGACATTC
39119909 ACCCTAACCCTAACCTATTTTACATGAAAA-CCCTA
1 ACCCTAACCCTAACCTATTTTA-ATGAAAATCCCTA
*
39119944 ACCCTAACCCTAACCTATTTTAATTAAAATCCCTA
1 ACCCTAACCCTAACCTATTTTAATGAAAATCCCTA
39119979 ACCCTAACC
1 ACCCTAACC
39119988 TAATTTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 6 0.14
35 36 0.86
ACGTcount: A:0.37, C:0.35, G:0.01, T:0.27
Consensus pattern (35 bp):
ACCCTAACCCTAACCTATTTTAATGAAAATCCCTA
Found at i:39120013 original size:35 final size:34
Alignment explanation
Indices: 39119909--39120013 Score: 130
Period size: 35 Copynumber: 3.2 Consensus size: 34
39119899 CCAGACATTC
* *
39119909 ACCCTAACCCTAACCTATTTTACATGAAAACCCTA
1 ACCCTAACCCTAACCTATTTTA-ATTAAAACCCTT
39119944 ACCCTAACCCTAACCTATTTTAATTAAAA----T
1 ACCCTAACCCTAACCTATTTTAATTAAAACCCTT
*
39119974 -CCCTAACCCTAACCTAATTTAATTAAAAACCCTT
1 ACCCTAACCCTAACCTATTTTAATT-AAAACCCTT
39120008 ACCCTA
1 ACCCTA
39120014 TTTTAATTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
29 23 0.38
30 4 0.07
34 7 0.11
35 27 0.44
ACGTcount: A:0.38, C:0.32, G:0.01, T:0.29
Consensus pattern (34 bp):
ACCCTAACCCTAACCTATTTTAATTAAAACCCTT
Found at i:39120147 original size:22 final size:23
Alignment explanation
Indices: 39120121--39120186 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 23
39120111 ATCCCTAACC
39120121 CTAACCTAATTTAATT-AAAACT
1 CTAACCTAATTTAATTAAAAACT
39120143 CTAACCTAATTTAATTTAATTAAAAACT
1 CTAACC-----TAATTTAATTAAAAACT
39120171 CTAACCTAATTTAATT
1 CTAACCTAATTTAATT
39120187 TAATTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
22 6 0.16
23 10 0.26
27 10 0.26
28 12 0.32
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (23 bp):
CTAACCTAATTTAATTAAAAACT
Found at i:39120336 original size:223 final size:219
Alignment explanation
Indices: 39119962--39120588 Score: 823
Period size: 223 Copynumber: 2.8 Consensus size: 219
39119952 CCTAACCTAT
* *
39119962 TTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATT
1 TTTAATTAAAAACCCTTACCCT-A--TAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATT
*
39120027 AAAAACCCTAACCTAATTTAGTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACTCTAACC
63 -AAAACCCTAACCTAATTTAGTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACC
*
39120092 CTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAACTCTAACCTAATTTAA
127 CTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAACCCTAACCTAATTTAA
*
39120157 TTTAATTAAAAACTC-TAACCTAATTTAA
192 TATAATTAAAAAC-CATAACCTAATTTAA
39120185 TTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATT
1 TTTAATTAAAAACCCTTACCCTA---TAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATT
39120250 AAAAGCCCTAACCTAATTTAGTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACC
63 AAAA-CCCTAACCTAATTTAGTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACC
*
39120315 TTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAACCCTAACCTAATTTAA
127 CTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAACCCTAACCTAATTTAA
* *
39120380 TATAATTAAAAACCATTACCCTATTTTAA
192 TATAATTAAAAACCA-TAACCTAATTTAA
* * * ** * *
39120409 TTTAATTAAAAACCC-TAACC--TAATTTAGTTAAAAACCCTAACCCTAACTTATTTTATATGAA
1 TTTAATTAAAAACCCTTACCCTATAATTTAATTAAAAACCCTTACCCTATTTTAATTTA-ATTAA
* * *
39120471 AACCCTAACCCTAACCTATCTTAATTAAAATCCCTAACCCTAACCTAATTTA-ATTGAAAACCCT
65 AACCCTAA-CCT-A---AT-TTAGTTAAAAACCCTAACCCTAACCTATTTTACA-TGAAAACCCT
* ** * *
39120535 TACCCTAATTTATCATTTTATTTGAAATCCCTAACCCTAACCTAATTTAATTAA
123 AACCCTAA--CCT-ATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAA
39120589 TGTAAAACCC
Statistics
Matches: 363, Mismatches: 26, Indels: 26
0.87 0.06 0.06
Matches are distributed among these distances:
218 37 0.10
219 9 0.02
220 1 0.00
222 6 0.02
223 200 0.55
224 71 0.20
226 1 0.00
227 38 0.10
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.35
Consensus pattern (219 bp):
TTTAATTAAAAACCCTTACCCTATAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAA
ACCCTAACCTAATTTAGTTAAAAACCCTAACCCTAACCTATTTTACATGAAAACCCTAACCCTAA
CCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAACCCTAACCTAATTTAATATA
ATTAAAAACCATAACCTAATTTAA
Found at i:39120391 original size:166 final size:165
Alignment explanation
Indices: 39119943--39120546 Score: 722
Period size: 166 Copynumber: 3.6 Consensus size: 165
39119933 TGAAAACCCT
* *
39119943 AACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCTT
1 AACCCTAACCCTAACCTATTTTAATGAAAA-CCCTAACCCTAACCTAATTTAATTAAAAACCCTA
*** * *
39120008 ACCCTATTTTAATTTAATTAAAAACCC-TAACCTAATTTAGTTAA--AAACCCTAACCC-TAACC
65 ACCCTAACCTAATTTAATTAAAAACCCTTAACCTAATTTAATTAATTAAA----AACCCTTACCC
** * ** * *
39120069 TATTTTACATGAAAACTCTAACCCTAACCTATTTTAATTAAA
126 TATTTTA-AT-TTAATTAAAACCCTAACCTAATTTAGTTAAA
* * * * ** *
39120111 ATCCCTAACCCTAACCTAATTTAATTAAAACTCTAA-CCTAATTTAATTTAATTAAAAACTCTAA
1 AACCCTAACCCTAACCTATTTTAATGAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
** * *
39120175 -CCTAATTTAATTTAATTAAAAACCCTTACCCTATTTTAATTTAATTAAAAACCCTTACCCTATT
66 CCCTAACCTAATTTAATTAAAAACCCTTAACCTAATTTAA-TTAATTAAAAACCCTTACCCTATT
39120239 TTAATTTAATTAAAAGCCCTAACCTAATTTAGTTAAA
130 TTAATTTAATTAAAA-CCCTAACCTAATTTAGTTAAA
* * *
39120276 AACCCTAACCCTAACCTATTTTACATGAAAACCCTAACCTTAACCTATTTTAATTAAAATCCCTA
1 AACCCTAACCCTAACCTATTTTA-ATGAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
*
39120341 ACCCTAACCTAATTTAATT-AAAACCC-TAACCTAATTTAATATAATTAAAAACCATTACCCTAT
65 ACCCTAACCTAATTTAATTAAAAACCCTTAACCTAATTTAAT-TAATTAAAAACCCTTACCCTAT
39120404 TTTAATTTAATTAAAAACCCTAACCTAATTTAGTTAAA
129 TTTAATTTAATT-AAAACCCTAACCTAATTTAGTTAAA
* *
39120442 AACCCTAACCCTAACTTATTTTATATGAAAACCCTAACCCTAACCT-ATCTTAATTAAAATCCCT
1 AACCCTAACCCTAACCTATTTTA-ATGAAAACCCTAACCCTAACCTAAT-TTAATTAAAAACCCT
* *
39120506 AACCCTAACCTAATTTAATTGAAAACCCTTACCCTAATTTA
64 AACCCTAACCTAATTTAATTAAAAACCCTTAACCTAATTTA
39120547 TCATTTTATT
Statistics
Matches: 383, Mismatches: 39, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
164 5 0.01
165 73 0.19
166 199 0.52
167 49 0.13
168 54 0.14
169 3 0.01
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.34
Consensus pattern (165 bp):
AACCCTAACCCTAACCTATTTTAATGAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
CCCTAACCTAATTTAATTAAAAACCCTTAACCTAATTTAATTAATTAAAAACCCTTACCCTATTT
TAATTTAATTAAAACCCTAACCTAATTTAGTTAAA
Found at i:39120424 original size:23 final size:23
Alignment explanation
Indices: 39120406--39120451 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
39120396 TACCCTATTT
39120406 TAATTTAATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
*
39120429 TAATTTAGTTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
39120452 CTAACTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (23 bp):
TAATTTAATTAAAAACCCTAACC
Found at i:39125721 original size:27 final size:27
Alignment explanation
Indices: 39125682--39125736 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
39125672 ACAAGTATCA
*
39125682 ACTTGGAAAAAAAATAATTTAAATACC
1 ACTTGGAAAAAAAAAAATTTAAATACC
* * *
39125709 ACTTGTAACAAAAAAAATTTAAGTACC
1 ACTTGGAAAAAAAAAAATTTAAATACC
39125736 A
1 A
39125737 AAATGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.55, C:0.13, G:0.07, T:0.25
Consensus pattern (27 bp):
ACTTGGAAAAAAAAAAATTTAAATACC
Found at i:39126420 original size:31 final size:31
Alignment explanation
Indices: 39126385--39126450 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
39126375 GAAATAGATA
* *
39126385 CATGTGGCAAATGGAGTAATATTTTT-GCAAG
1 CATGTGACAAAAGGAGTAAT-TTTTTAGCAAG
39126416 CATGTGACAAAAGGAGTAATTTTTTAGCAAG
1 CATGTGACAAAAGGAGTAATTTTTTAGCAAG
39126447 CATG
1 CATG
39126451 GTCAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (31 bp):
CATGTGACAAAAGGAGTAATTTTTTAGCAAG
Found at i:39128649 original size:100 final size:101
Alignment explanation
Indices: 39128470--39128698 Score: 361
Period size: 100 Copynumber: 2.3 Consensus size: 101
39128460 TCTATATTCG
*
39128470 TAGTGCCATAACCCAGTTATGGTCTTATCATAAAAATACCATAGCCCAACTATGGTCTTACATAT
1 TAGTGCCATAACCCAATTATGGTCTTATCATAAAAATACCATAGCCCAACTATGGTCTTACATAT
39128535 AAACACTGCCATGGTCCAAACATGGTCTTACCTTCA
66 AAACACTGCCATGGTCCAAACATGGTCTTACCTTCA
* * * * * * *
39128571 TA-TGTCATAACCCATTTATGGTCTTATCATCAGAATGCCATAGCCTAATTATGGTCTTACATAT
1 TAGTGCCATAACCCAATTATGGTCTTATCATAAAAATACCATAGCCCAACTATGGTCTTACATAT
* *
39128635 AAACACTGCCATGGTCCAACCATGGTCTTACGTTCA
66 AAACACTGCCATGGTCCAAACATGGTCTTACCTTCA
39128671 TAGTGCCATAACCCAATTATGGTCTTAT
1 TAGTGCCATAACCCAATTATGGTCTTAT
39128699 TCGTCAATCC
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
100 91 0.78
101 25 0.22
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (101 bp):
TAGTGCCATAACCCAATTATGGTCTTATCATAAAAATACCATAGCCCAACTATGGTCTTACATAT
AAACACTGCCATGGTCCAAACATGGTCTTACCTTCA
Found at i:39128693 original size:33 final size:31
Alignment explanation
Indices: 39128556--39128697 Score: 86
Period size: 33 Copynumber: 4.3 Consensus size: 31
39128546 TGGTCCAAAC
* *
39128556 ATGGTCTTACCTTCATATGTCATAACCCATTT
1 ATGGTCTTA-CTTCATATGCCATAACCCAATT
* * * *
39128588 ATGGTCTTATCATCAGAATGCCATAGCCTAATT
1 ATGGTCTTA-CTTCA-TATGCCATAACCCAATT
* * *** **
39128621 ATGGTCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTAC-T-T-CATA-TGCCATAACCCAATT
39128656 ATGGTCTTACGTTCATAGTGCCATAACCCAATT
1 ATGGTCTTAC-TTCATA-TGCCATAACCCAATT
39128689 ATGGTCTTA
1 ATGGTCTTA
39128698 TTCGTCAATC
Statistics
Matches: 81, Mismatches: 24, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
32 14 0.17
33 42 0.52
34 3 0.04
35 22 0.27
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (31 bp):
ATGGTCTTACTTCATATGCCATAACCCAATT
Found at i:39137074 original size:17 final size:17
Alignment explanation
Indices: 39137048--39137085 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
39137038 TTTTAGTTTT
39137048 CTAA-AATTAAAATAAAA
1 CTAACAATTAAAA-AAAA
39137065 -TAACAATTAAAAAAAA
1 CTAACAATTAAAAAAAA
39137081 CTAAC
1 CTAAC
39137086 TTTTGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (17 bp):
CTAACAATTAAAAAAAA
Found at i:39143134 original size:87 final size:87
Alignment explanation
Indices: 39142899--39143137 Score: 347
Period size: 87 Copynumber: 2.7 Consensus size: 87
39142889 ATTTGAATTA
* * *
39142899 AGTGAAT-TCATCAAGTCCATCTTAATAGGACCACCTAAACTTTGGGATATGAACTCATTAAGAG
1 AGTGAATAT-ATCAAGTCCGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAGAG
*
39142963 TAATAAATTCAATCTCACATGTT
65 TAATAAATTCAATCTCACATGTC
* *
39142986 GGTGAATATATCAAGTCCGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTAATTAAGAGT
1 AGTGAATATATCAAGTCCGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAGAGT
39143051 AATAAATTCAATCTCACATGTC
66 AATAAATTCAATCTCACATGTC
* * * * *
39143073 AGTGAATATATCAAGTCCGTCTGAATAAGACCACCCAAA-TCCTGGGATATGAATTCGTTAAGAG
1 AGTGAATATATCAAGTCCGTCTCAATAGGACCACCCAAACT-TTGGGATATGAACTCATTAAGAG
39143137 T
65 T
39143138 GAGAACTCAA
Statistics
Matches: 137, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
86 1 0.01
87 135 0.99
88 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (87 bp):
AGTGAATATATCAAGTCCGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAGAGT
AATAAATTCAATCTCACATGTC
Found at i:39144586 original size:26 final size:25
Alignment explanation
Indices: 39144557--39144609 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
39144547 ATCCGCTTAT
39144557 GGTCCTCCGACCAACTCAAACTCTAA
1 GGTCCTCCGACCAACTCAAACTC-AA
* * *
39144583 GGTCTTCGGACCCACTCAAACTCAA
1 GGTCCTCCGACCAACTCAAACTCAA
39144608 GG
1 GG
39144610 GACCTTCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (25 bp):
GGTCCTCCGACCAACTCAAACTCAA
Found at i:39165690 original size:69 final size:67
Alignment explanation
Indices: 39165572--39165703 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 67
39165562 ATAGACAATA
* * * * *
39165572 TAATGGTTTTGCCTTTTAACTTAATAAGTAAACATTTATCAAAATGACGTAATTTTGTCTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAATTTTGCCTTTTAA
39165637 CT
66 CT
*
39165639 TAATGATTTTGACTTTTAACTTTAAAAAGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTTT
1 TAATGATTTTGACTTTTAAC-TTAAAAA-GTAAACATTTATCAAAACGACGTAATTTTGCCTTTT
39165704 CTTATTTGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 18 0.32
68 6 0.11
69 33 0.58
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAATTTTGCCTTTTAA
CT
Found at i:39170422 original size:23 final size:23
Alignment explanation
Indices: 39170394--39170510 Score: 78
Period size: 23 Copynumber: 5.1 Consensus size: 23
39170384 AATTACTAAT
39170394 TTGCACCGAAGTGTCACTTTCAA
1 TTGCACCGAAGTGTCACTTTCAA
* * *
39170417 TTGCA-CTAGAGTGTCACTGTCAG
1 TTGCACCGA-AGTGTCACTTTCAA
* *
39170440 TTGCACCGGAGTGTCTCTGTT-AA
1 TTGCACCGAAGTGTCACT-TTCAA
* * *
39170463 TTGCATCGAAGTGCCA-TGATCAA
1 TTGCACCGAAGTGTCACT-TTCAA
** * *
39170486 TTGCACAAAAGTTTCACTTTAAA
1 TTGCACCGAAGTGTCACTTTCAA
39170509 TT
1 TT
39170511 TGCGTGTTGA
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
22 5 0.07
23 61 0.88
24 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (23 bp):
TTGCACCGAAGTGTCACTTTCAA
Found at i:39174697 original size:133 final size:131
Alignment explanation
Indices: 39174272--39174769 Score: 401
Period size: 132 Copynumber: 3.8 Consensus size: 131
39174262 ATTTGTATTT
* * ** * *
39174272 TGAAAGAGTGACGAAAGTGGCGTTTT-AGCCACAATGGTCACTTC-TCTATTGAGTATTTGTATT
1 TGAAAGAGTGATGAAAGTGGCGTTTTGA-CCACAATGGTGACTTCTTCGCTAGGGTATTTGTATT
* * * * *
39174335 TTGGGATAGTGGCAGAAGTGATGTTTTGACCACAACGATTGACTTCTCCATCAAAATAA--TTTA
65 TTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGAATTCTCTAT-AAAAGAATTTTTA
39174398 TAG
129 TAG
* ** * ** * * * * * * *
39174401 TTTGAGAGAGCCATAAAAGTGATGTTTTGACCATAACAGTTGACTTATTTGCTATGGTATTTATA
1 --TGAAAGAGTGATGAAAGTGGCGTTTTGACCACAA-TGGTGACTTCTTCGCTAGGGTATTTGTA
* * **
39174466 TTTTGAGAGTGTGACAGAAGTGATG-TTTGACCACAACGATAAAATTCT-TCATTAAAAGAATTT
63 TTTTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGAATTCTCT-A-TAAAAGAATTT
* **
39174529 ATATTC
126 TTATAG
*
39174535 TGAAAGAGTGATGAAAGTGGC-TCTTTGACCAAAATGGTTGACTTCTTCGCTAGGGTATTTGTAT
1 TGAAAGAGTGATGAAAGTGGCGT-TTTGACCACAATGG-TGACTTCTTCGCTAGGGTATTTGTAT
* * * * *
39174599 TTTGGGAGAATGACAGAAATGATGTTTTGACCACCACAATTGATTTCTCTACTAAGAA-AATTTT
64 TTTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGAATTCTCTA-TAA-AAGAATTTT
39174663 TATAG
127 TATAG
* * **
39174668 TGATAGAGTGATGAAAGTGGCGTTTTGACCACAA---CGACCAACTTCGCTAGGGTATTTGTATT
1 TGAAAGAGTGATGAAAGTGGCGTTTTGACCACAATGGTGA-CTTCTTCGCTAGGGTATTTGTATT
* * *
39174730 TTGGAAGAGTGAC--AAGTGATTTTTTGACCACAATGATTGA
65 TTGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGA
39174770 CTCATCCTGT
Statistics
Matches: 284, Mismatches: 69, Indels: 31
0.74 0.18 0.08
Matches are distributed among these distances:
128 22 0.08
129 2 0.01
130 33 0.12
131 26 0.09
132 101 0.36
133 92 0.32
134 8 0.03
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (131 bp):
TGAAAGAGTGATGAAAGTGGCGTTTTGACCACAATGGTGACTTCTTCGCTAGGGTATTTGTATTT
TGGGAGAGTGACAGAAGTGATGTTTTGACCACAACGATTGAATTCTCTATAAAAGAATTTTTATA
G
Found at i:39179623 original size:10 final size:10
Alignment explanation
Indices: 39179589--39179634 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
39179579 TGTTAACATA
39179589 TTTTAACACAT
1 TTTTAACAC-T
*
39179600 GTTTAACACT
1 TTTTAACACT
* *
39179610 TTTTTACGCT
1 TTTTAACACT
39179620 TTTTAACACT
1 TTTTAACACT
39179630 TTTTA
1 TTTTA
39179635 CCTTATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.26, C:0.17, G:0.04, T:0.52
Consensus pattern (10 bp):
TTTTAACACT
Found at i:39179643 original size:20 final size:20
Alignment explanation
Indices: 39179566--39179645 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
39179556 TGAAGAAAAT
*
39179566 ACTTTTTACCTTATGTTAAC
1 ACTTTTTACCTTATTTTAAC
* **
39179586 A-TATTTTAACACATGTTTAAC
1 ACT-TTTTACCTTAT-TTTAAC
39179607 ACTTTTTTACGC-T-TTTTAAC
1 AC-TTTTTAC-CTTATTTTAAC
39179627 ACTTTTTACCTTATTTTAA
1 ACTTTTTACCTTATTTTAA
39179646 TTAAATAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
18 1 0.02
19 9 0.19
20 23 0.49
21 7 0.15
22 5 0.11
23 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.51
Consensus pattern (20 bp):
ACTTTTTACCTTATTTTAAC
Found at i:39180712 original size:20 final size:20
Alignment explanation
Indices: 39180674--39180712 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39180664 GTAAATTGGT
*
39180674 AAATAAAAGAAAAACTAAAC
1 AAATAAAACAAAAACTAAAC
39180694 AAATAAAACACAAAA-TAAA
1 AAATAAAACA-AAAACTAAA
39180713 GATGATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (20 bp):
AAATAAAACAAAAACTAAAC
Found at i:39184042 original size:79 final size:81
Alignment explanation
Indices: 39183933--39184115 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
39183923 CACTCGTTCA
* *
39183933 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCGG
* *
39183996 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
39184013 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
39184076 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
39184092 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39184116 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:39184115 original size:40 final size:40
Alignment explanation
Indices: 39183912--39184115 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
39183902 CGGAATTTAA
** ** *
39183912 CCGGATATAGCCACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
39183952 CCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39183992 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39184031 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39184071 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39184111 CCGGA
1 CCGGA
39184116 CATCATTCGA
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39185320 original size:56 final size:56
Alignment explanation
Indices: 39185253--39185372 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39185243 TATTAGTTTA
39185253 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
39185309 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
39185365 TTGCCCAT
1 TTGCCCAT
39185373 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:39191917 original size:79 final size:81
Alignment explanation
Indices: 39191808--39191990 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
39191798 CACTCGTTCA
* *
39191808 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCGG
* *
39191871 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
39191888 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
39191951 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
39191967 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39191991 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:39191990 original size:40 final size:40
Alignment explanation
Indices: 39191787--39191990 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
39191777 CGGAATTTAA
** ** *
39191787 CCGGATATAGCCACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
39191827 CCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39191867 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39191906 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39191946 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39191986 CCGGA
1 CCGGA
39191991 CATCATTCGA
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39193612 original size:30 final size:30
Alignment explanation
Indices: 39193570--39193632 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
39193560 TTTTGGAGTC
*
39193570 ACATGGTCGTGTGACACACTCGGCCTAGCT
1 ACATGGTCGTGTGACACACACGGCCTAGCT
39193600 ACATGG-CTGTGTGACACACACGGCCTAGCT
1 ACATGGTC-GTGTGACACACACGGCCTAGCT
39193630 ACA
1 ACA
39193633 CGACTCTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (30 bp):
ACATGGTCGTGTGACACACACGGCCTAGCT
Found at i:39201004 original size:16 final size:16
Alignment explanation
Indices: 39200983--39201013 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39200973 CCATTATATG
39200983 CGAGCTATCTGTATTA
1 CGAGCTATCTGTATTA
*
39200999 CGAGCTATGTGTATT
1 CGAGCTATCTGTATT
39201014 GCAAACTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (16 bp):
CGAGCTATCTGTATTA
Found at i:39204602 original size:42 final size:43
Alignment explanation
Indices: 39204519--39204657 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 43
39204509 TCCCAGATGT
* * * * *
39204519 GGTCTTACATGTAATCAAATATCGATGCCACTGCCCCAGACAG
1 GGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGACAG
* *
39204562 GGTCTTACACGAAATCATATA-CGATGCCAATGTCCTAGACAT
1 GGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGACAG
* *
39204604 GGTCTTACACGTAAATC-TCAAATCGATGCCAACGTCCCAGAC-G
1 GGTCTTACACG-AAATCAT-ATATCGATGCCAATGTCCCAGACAG
39204647 TGGTCTTACAC
1 -GGTCTTACAC
39204658 AATAAAACAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 29 0.36
43 25 0.31
44 27 0.33
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAATCATATATCGATGCCAATGTCCCAGACAG
Found at i:39207757 original size:40 final size:40
Alignment explanation
Indices: 39207709--39207935 Score: 384
Period size: 40 Copynumber: 5.7 Consensus size: 40
39207699 GCAAACACCT
* * *
39207709 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39207749 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
39207789 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39207829 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39207869 TTGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39207908 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
39207936 TCCAATGCTC
Statistics
Matches: 176, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 39 0.22
40 137 0.78
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:39216341 original size:40 final size:40
Alignment explanation
Indices: 39216293--39216480 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
39216283 GCAAACACCT
* * *
39216293 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
39216333 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
39216373 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39216413 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
39216453 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
39216481 TCCAATGCTC
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:39220401 original size:42 final size:42
Alignment explanation
Indices: 39220333--39220423 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
39220323 CGAGTTTGGG
* * * *
39220333 CTACCTTGCACCTAACATATTCAGGGCACACGCTCGTGTGGT
1 CTACCCTGTACCTAACACATTCAGGGCACACGCCCGTGTGGT
*
39220375 TTACCCTGTACCTAACACATTCAGGGCACACGCCCGTGTGGT
1 CTACCCTGTACCTAACACATTCAGGGCACACGCCCGTGTGGT
39220417 CTACCCT
1 CTACCCT
39220424 TAATTGACAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (42 bp):
CTACCCTGTACCTAACACATTCAGGGCACACGCCCGTGTGGT
Found at i:39220577 original size:21 final size:21
Alignment explanation
Indices: 39220530--39220571 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
39220520 CTAAACTAAT
*
39220530 TCATAACACATGATCACTAGA
1 TCATAACACATGATCACAAGA
39220551 TCATAACACATGATCACAAGA
1 TCATAACACATGATCACAAGA
39220572 CTATAATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (21 bp):
TCATAACACATGATCACAAGA
Found at i:39228916 original size:5 final size:5
Alignment explanation
Indices: 39228907--39228939 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
39228897 AACAAAAATG
*
39228907 AAACA GAACA AAACA AAACA AAACA AAACA AAA
1 AAACA AAACA AAACA AAACA AAACA AAACA AAA
39228940 AATCTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.18, G:0.03, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:39229154 original size:15 final size:15
Alignment explanation
Indices: 39229136--39229173 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
39229126 CAATAATAGT
39229136 AATAATAAGAATAAA
1 AATAATAAGAATAAA
* *
39229151 AATAAAAATAATAAA
1 AATAATAAGAATAAA
39229166 AATAATAA
1 AATAATAA
39229174 TGATAAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAATAAGAATAAA
Found at i:39229179 original size:15 final size:15
Alignment explanation
Indices: 39229136--39229184 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
39229126 CAATAATAGT
39229136 AATAATAA-GAATAAA
1 AATAATAATG-ATAAA
* *
39229151 AATAAAAATAATAAA
1 AATAATAATGATAAA
*
39229166 AATAATAATGATAAG
1 AATAATAATGATAAA
39229181 AATA
1 AATA
39229185 TGCAGCACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (15 bp):
AATAATAATGATAAA
Found at i:39232433 original size:37 final size:37
Alignment explanation
Indices: 39232373--39232448 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
39232363 TATTACGAAA
* * *
39232373 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
39232410 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
39232447 TC
1 TC
39232449 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:39232647 original size:47 final size:47
Alignment explanation
Indices: 39232569--39232908 Score: 473
Period size: 47 Copynumber: 7.2 Consensus size: 47
39232559 CCCTTCGGGA
* * * * * **
39232569 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
39232616 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
***
39232663 CTTATCATGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
39232710 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
39232757 CTCATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
39232806 CTTATCACACATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
39232853 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
39232900 CTTATCACA
1 CTTATCACA
39232909 ATTTAGAATT
Statistics
Matches: 265, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 223 0.84
49 42 0.16
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:39232825 original size:143 final size:143
Alignment explanation
Indices: 39232624--39232908 Score: 480
Period size: 143 Copynumber: 2.0 Consensus size: 143
39232614 GCCCTGTCAC
**
39232624 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCATGCATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACAT
*
39232689 TCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
39232754 AGCCTCATCACAT
131 AGCCTCATCACAT
* *
39232767 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACAT
* * *
39232832 TCATCACATCGGTCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
39232897 GGCCTTATCACA
131 AGCCTCATCACA
39232909 ATTTAGAATT
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
143 132 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACAT
TCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
AGCCTCATCACAT
Found at i:39234865 original size:43 final size:43
Alignment explanation
Indices: 39234790--39234940 Score: 230
Period size: 43 Copynumber: 3.5 Consensus size: 43
39234780 CATCCCAGAC
** *
39234790 ATGGTCTTACATGGAAATCTCGTATCGCTGCCAATAGCCCAGCT
1 ATGGTCTTACAT-GAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
39234834 ATGGTCTTACACGAAATCTCAAATTGATGCCAATAGCCCAGCT
1 ATGGTCTTACATGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
39234877 ATGGTCTTACATAAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACATGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
39234920 ATGATCTTACATGAAATCTCA
1 ATGGTCTTACATGAAATCTCA
39234941 CCTCAGAAGT
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 86 0.89
44 11 0.11
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACATGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:39235096 original size:31 final size:31
Alignment explanation
Indices: 39235055--39235261 Score: 274
Period size: 31 Copynumber: 6.7 Consensus size: 31
39235045 ATCCAATGCT
* *
39235055 CAAATC-AATTCGGTAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * * *
39235085 CGAATCAAATTCCGCAATGTATATCTACATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
**
39235116 CAAATC-AATTCGATAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
39235146 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
39235177 CAAATCAAATTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
39235208 CAATTCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
39235239 CAAATCAAATTTGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
39235262 AAACATATAC
Statistics
Matches: 153, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
30 30 0.20
31 123 0.80
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:39235281 original size:93 final size:92
Alignment explanation
Indices: 39235055--39235272 Score: 285
Period size: 92 Copynumber: 2.4 Consensus size: 92
39235045 ATCCAATGCT
* * ** * *
39235055 CAAATC-AATTCGGTAATATATATCCATATACGAATCAAATTCCGCAATGTATATCTACATACAA
1 CAAATCAAATTCGGCAATGTATAAACATATACAAATCAAATTCCGCAATGTATATCTACAAACAA
*
39235119 ATCAATTCGATAATGTATATCCATATA
66 ATCAATTCGACAATGTATATCCATATA
* * *
39235146 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATAAACAA
1 CAAATCAAATTCGGCAATGTATAAACATATACAAATCAAATTCCGCAATGTATATCTACAAACAA
* * *
39235211 TTCAAATTCGGCAATGTATATCTATATA
66 ATC-AATTCGACAATGTATATCCATATA
*
39235239 CAAATCAAATTTGGCAATGTATAAAACATATACA
1 CAAATCAAATTCGGCAATGTAT-AAACATATACA
39235273 TTTAAATTCA
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
91 6 0.05
92 53 0.48
93 42 0.38
94 10 0.09
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (92 bp):
CAAATCAAATTCGGCAATGTATAAACATATACAAATCAAATTCCGCAATGTATATCTACAAACAA
ATCAATTCGACAATGTATATCCATATA
Found at i:39237854 original size:16 final size:16
Alignment explanation
Indices: 39237835--39237883 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
39237825 AAACTATCTC
*
39237835 TATTGCGAGCTATGTG
1 TATTGCGAACTATGTG
*
39237851 TATTGCAAACTATGCCT-
1 TATTGCGAACTATG--TG
39237868 TATTGCGAACTATGTG
1 TATTGCGAACTATGTG
39237884 AAATGCAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.44
17 13 0.48
18 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (16 bp):
TATTGCGAACTATGTG
Found at i:39237891 original size:33 final size:32
Alignment explanation
Indices: 39237821--39237891 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
39237811 AAACCATTAT
* *
39237821 ATGCAAACTATCTCTATTGCGAGCTATGTGTA
1 ATGCAAACTATCTCTATTGCGAACTATGTGAA
*
39237853 TTGCAAACTATGC-CTTATTGCGAACTATGTGAA
1 ATGCAAACTAT-CTC-TATTGCGAACTATGTGAA
39237886 ATGCAA
1 ATGCAA
39237892 GCCATACACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 11 0.33
33 22 0.67
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (32 bp):
ATGCAAACTATCTCTATTGCGAACTATGTGAA
Found at i:39239483 original size:95 final size:95
Alignment explanation
Indices: 39239314--39239504 Score: 321
Period size: 95 Copynumber: 2.0 Consensus size: 95
39239304 CTGAGTTGAA
* *
39239314 TAATAAAATTATTAAATGGACTGAATTTTTCTATTTAGATAAAGATAGACCTCGTACAGATTTAG
1 TAATAAAAGTATTAAATGGACTGAACTTTTCTATTTAGATAAAGATAGACCTCGTACAGATTTAG
39239379 ATCGAGGAAAAGCTAAAGCTTCAAATTAAT
66 ATCGAGGAAAAGCTAAAGCTTCAAATTAAT
* *
39239409 TAATAAAAGTATTAAATGGACTGAACTTTTCTATTTAGATAAAGATAGACCTTGTACGGATTTAG
1 TAATAAAAGTATTAAATGGACTGAACTTTTCTATTTAGATAAAGATAGACCTCGTACAGATTTAG
*
39239474 ATC-AGGGAAAAGCTAAAGCTTCAGATTAAT
66 ATCGA-GGAAAAGCTAAAGCTTCAAATTAAT
39239504 T
1 T
39239505 GACTTCGTTG
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
94 1 0.01
95 89 0.99
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (95 bp):
TAATAAAAGTATTAAATGGACTGAACTTTTCTATTTAGATAAAGATAGACCTCGTACAGATTTAG
ATCGAGGAAAAGCTAAAGCTTCAAATTAAT
Found at i:39239681 original size:20 final size:20
Alignment explanation
Indices: 39239658--39239748 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
39239648 TTGTACTTCG
*
39239658 GTACCCCTGATTGCACATAC
1 GTACCCCTGATTGTACATAC
* * **
39239678 GTACCCCTGTTTGTACTTTG
1 GTACCCCTGATTGTACATAC
*
39239698 GTACCCCTGAATTGTACATAT
1 GTACCCCTG-ATTGTACATAC
* * *
39239719 GTGCCCCTGTTTGTAC-TTC
1 GTACCCCTGATTGTACATAC
39239738 GATACCCCTGA
1 G-TACCCCTGA
39239749 ATTGCACACA
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
19 2 0.04
20 37 0.69
21 15 0.28
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.34
Consensus pattern (20 bp):
GTACCCCTGATTGTACATAC
Found at i:39239778 original size:41 final size:41
Alignment explanation
Indices: 39239624--39239771 Score: 192
Period size: 41 Copynumber: 3.6 Consensus size: 41
39239614 AGAAAATTGA
*
39239624 TGAATTGCACATGA-ATGCCCCTATTTGTACTTCGGTACCCC
1 TGAATTGCACAT-ACATGCCCCTGTTTGTACTTCGGTACCCC
* * *
39239665 TG-ATTGCACATACGTACCCCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* ** *
39239705 TGAATTGTACATATGTGCCCCTGTTTGTACTTCGATACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
*
39239746 TGAATTGCACACACATGCCCCTGTTT
1 TGAATTGCACATACATGCCCCTGTTT
39239772 AGACTTCAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 34 0.37
41 57 0.62
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (41 bp):
TGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
Found at i:39242673 original size:22 final size:22
Alignment explanation
Indices: 39242625--39242673 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
39242615 ACTCATGAAA
* *
39242625 TATTTTTTCTCCTTTTCTTTCT
1 TATTTTCTCTCCTTTTATTTCT
39242647 T-TTTTCTCTCCCTTTTATTT-T
1 TATTTTCTCT-CCTTTTATTTCT
39242668 TATTTT
1 TATTTT
39242674 TTTAATGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTCTCTCCTTTTATTTCT
Found at i:39244690 original size:27 final size:28
Alignment explanation
Indices: 39244652--39244716 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
39244642 CAAAAAAGTT
*
39244652 AAAGCCTTTGTGGAAATCTATGAAA-TG
1 AAAGCCTTTGTGGAAATCTATAAAATTG
* *
39244679 AAAGCCTTTGTGGCAATTTATAAAATTG
1 AAAGCCTTTGTGGAAATCTATAAAATTG
39244707 -AAGCCTTTGT
1 AAAGCCTTTGT
39244717 AGCGATCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (28 bp):
AAAGCCTTTGTGGAAATCTATAAAATTG
Found at i:39244916 original size:27 final size:27
Alignment explanation
Indices: 39244886--39245114 Score: 253
Period size: 27 Copynumber: 8.5 Consensus size: 27
39244876 AGGTATGGTA
* * **
39244886 AACTCTGAAAGAATGGTACATATAACG
1 AACTCTAAAAGAATAGTACATATGGCG
* * *
39244913 AACTATAAAATAATAGTACATATGGAG
1 AACTCTAAAAGAATAGTACATATGGCG
*
39244940 AACTCTGGAAA-AATAGTACATATGGCG
1 AACTCT-AAAAGAATAGTACATATGGCG
**
39244967 AACTCTAAAAGAATAGTATGTATGGCG
1 AACTCTAAAAGAATAGTACATATGGCG
* **
39244994 AACTTTAAAAGAATAGTATTTATGGCG
1 AACTCTAAAAGAATAGTACATATGGCG
*
39245021 AACTCTAAAAGAATAGTACGTATGGCG
1 AACTCTAAAAGAATAGTACATATGGCG
39245048 AACTCTAAAAGAATAGTACATATGGCG
1 AACTCTAAAAGAATAGTACATATGGCG
* * * ** *
39245075 AACTCTGAAGGAATAATATGTATGGCA
1 AACTCTAAAAGAATAGTACATATGGCG
*
39245102 AACTCTAAGAGAA
1 AACTCTAAAAGAA
39245115 ATGGTTCCAT
Statistics
Matches: 172, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.02
27 166 0.97
28 3 0.02
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (27 bp):
AACTCTAAAAGAATAGTACATATGGCG
Found at i:39252103 original size:26 final size:26
Alignment explanation
Indices: 39252073--39252132 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
39252063 ACTAAATTAG
39252073 AATATAT-CTACTACATAA-ACTAACAT
1 AATATATACTACTA-ATAATA-TAACAT
* *
39252099 AATATATACTATTAATAATATAATAT
1 AATATATACTACTAATAATATAACAT
39252125 AATATATA
1 AATATATA
39252133 ATTATTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (26 bp):
AATATATACTACTAATAATATAACAT
Found at i:39252154 original size:26 final size:26
Alignment explanation
Indices: 39252099--39252155 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
39252089 AAACTAACAT
*
39252099 AATATATACTATTAATAATATAATAT
1 AATATATACTATTAATAATATAATAA
* * *
39252125 AATATATAATTATTACTAATA-CATAA
1 AATATAT-ACTATTAATAATATAATAA
39252151 AATAT
1 AATAT
39252156 TATTAATTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATATACTATTAATAATATAATAA
Found at i:39252692 original size:16 final size:17
Alignment explanation
Indices: 39252657--39252694 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
39252647 ATAATTAATA
39252657 TATATATGTACTACTAT
1 TATATATGTACTACTAT
* *
39252674 TATATATG-GCTATTAT
1 TATATATGTACTACTAT
39252690 TATAT
1 TATAT
39252695 TATAGATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (17 bp):
TATATATGTACTACTAT
Found at i:39252830 original size:246 final size:241
Alignment explanation
Indices: 39252413--39252877 Score: 601
Period size: 246 Copynumber: 1.9 Consensus size: 241
39252403 AAACAATAAC
39252413 ATATAATGTACTACTATTATATATAACTATTACATTATAGATTATAATAAAAGATATAGTATTAC
1 ATATAATGTACTACTATTATATATAACTATTACATTATAGATTATAATAAAAGATATAGTATTAC
** * * * * * *
39252478 TTGATATTATAATGTTTAATTATTGATGCATATATGACTATTAATATTTTGTATACTATATGGTA
66 AAGATATTATAATGTTCAATCATTGATGCATATATAACTATTAATATATTATATACTATATGATA
* ** * *
39252543 TGATATAGCATAATATAATATTGAACAAGTGCTAACTTTCAAATGTACGAAAAGTATAGGGACTT
131 TAATATAAAATAATATAATA-T-AACAAGGGCTAACTTTCAAATGTACAAAAAGTATAGGGACTT
39252608 AGAGCATATTTCAATCAATATAATAAACAATAATATATAATAATTAAT
194 AGAGCATATTTCAATCAATATAATAAACAATAATATATAATAATTAAT
* * * *
39252656 ATATATATGTACTACTATTATATATGGCTATTATTATATTATAGATTATAATAAAA-ATGTAGTA
1 ATATA-ATGTACTACTATTATATAT---AACTATTACATTATAGATTATAATAAAAGATATAGTA
* * *
39252720 TTACAAGATATTATAGTGTTCAATCATTGGTGCATACATATAAACTATTAATATATTATATATTA
62 TTACAAGATATTATAATGTTCAATCATTGATGCAT--ATAT-AACTATTAATATATTATATACTA
* ** *
39252785 TATGATATAATATAAAATTATATAATA-AAGGAGGGCTAACTTTCAAATGTGCAAAAAGTATAGG
124 TATGATATAATATAAAATAATATAATATAACAAGGGCTAACTTTCAAATGTACAAAAAGTATAGG
* *
39252849 GACTTAGAGTATATTTCAATCAGTATAAT
189 GACTTAGAGCATATTTCAATCAATATAAT
39252878 GACCGAGCCC
Statistics
Matches: 189, Mismatches: 26, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
243 5 0.03
244 19 0.10
246 95 0.50
247 25 0.13
248 4 0.02
249 41 0.22
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (241 bp):
ATATAATGTACTACTATTATATATAACTATTACATTATAGATTATAATAAAAGATATAGTATTAC
AAGATATTATAATGTTCAATCATTGATGCATATATAACTATTAATATATTATATACTATATGATA
TAATATAAAATAATATAATATAACAAGGGCTAACTTTCAAATGTACAAAAAGTATAGGGACTTAG
AGCATATTTCAATCAATATAATAAACAATAATATATAATAATTAAT
Found at i:39255167 original size:43 final size:43
Alignment explanation
Indices: 39255104--39255503 Score: 455
Period size: 43 Copynumber: 9.3 Consensus size: 43
39255094 TTTTAGAAAT
* * *
39255104 AAACGCCGCTAAA-AGTCATGACCTTTAGCGGCACTTTTGTCAC
1 AAACGCCGCTAAAGA-CCATGACCTTTAGCGGCGCTTTTCTCAC
** * *
39255147 AAATACCGCTAAAGACCATGACCTTTAGCGGCGCTCTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
** *
39255190 AAATACCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * *
39255233 AAACGCTGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* ** *
39255276 AAACGCCGCTAAAGACCATGACCTTCAAAGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* *
39255319 AAACGCCGCTAAAGACCATGACCTTCAACGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * *
39255362 AAATGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
* * * *
39255405 AAACGCCGCTAAAGAACATGACTTTTAGCGACGCTTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCTCAC
* * * * * * *
39255449 AAACGTCGCTATAGAACA-AACCTTTAGCGACGCTTCTCGCA-
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
39255490 AAAGCGCCGCTAAA
1 AAA-CGCCGCTAAA
39255504 AACATATCAT
Statistics
Matches: 315, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
41 3 0.01
42 13 0.04
43 274 0.87
44 25 0.08
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTCAC
Found at i:39255569 original size:5 final size:5
Alignment explanation
Indices: 39255559--39255584 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
39255549 TTATGATAAA
39255559 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
39255585 TAAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:39259818 original size:23 final size:23
Alignment explanation
Indices: 39259776--39259819 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
39259766 AGCTCTCCAT
*
39259776 ATATAAACAAGAAGGAAAGAAAG
1 ATATAAACAAGAAGAAAAGAAAG
39259799 ATATAAA-AAGAAGAAGAAGAA
1 ATATAAACAAGAAGAA-AAGAA
39259820 GAAGGAGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.09
Consensus pattern (23 bp):
ATATAAACAAGAAGAAAAGAAAG
Found at i:39261905 original size:27 final size:27
Alignment explanation
Indices: 39261866--39261920 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
39261856 GCACTTTTTC
*
39261866 AAAAACGCCGCTAAAGGCCCGAGCATT
1 AAAAACACCGCTAAAGGCCCGAGCATT
* *
39261893 AAAAACACGGCTAAAGGCCCGATCATT
1 AAAAACACCGCTAAAGGCCCGAGCATT
39261920 A
1 A
39261921 GCGGTGCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (27 bp):
AAAAACACCGCTAAAGGCCCGAGCATT
Done.