Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 132 of 345
Found at i:44654623 original size:48 final size:48
Alignment explanation
Indices: 44654539--44654667 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 48
44654529 ATGTCATTAA
* * * * * *
44654539 AAGCTTCAATGATTTAGCTTCGGGCCATGATATTAACACTTCGGGTGC
1 AAGCTTCATTGATTTGGCTTCGGACCATAATATTAACACTTCAGGTAC
* * * *
44654587 AAGCCTCATTGATTTGGCTTTGGACCATAATATTAACATTTCAGGTAT
1 AAGCTTCATTGATTTGGCTTCGGACCATAATATTAACACTTCAGGTAC
* * *
44654635 GAGCTTCATTGATTTGGCTTCGGGCCATGATAT
1 AAGCTTCATTGATTTGGCTTCGGACCATAATAT
44654668 GGGCACCTAG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (48 bp):
AAGCTTCATTGATTTGGCTTCGGACCATAATATTAACACTTCAGGTAC
Found at i:44665126 original size:25 final size:25
Alignment explanation
Indices: 44665087--44665180 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
44665077 ATTCTAACCC
*
44665087 ACAGCTCGTGTGAGCATACCGATTT
1 ACAGCTCATGTGAGCATACCGATTT
* * * *
44665112 ATAGCTCATGAGAGCATACCAATCT
1 ACAGCTCATGTGAGCATACCGATTT
*
44665137 ACAGCTCGA-GTGAGCATACCGATTC
1 ACAGCTC-ATGTGAGCATACCGATTT
* * *
44665162 ACAACTCGTATGAGCATAC
1 ACAGCTCATGTGAGCATAC
44665181 ATGTACATGA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (25 bp):
ACAGCTCATGTGAGCATACCGATTT
Found at i:44673150 original size:52 final size:52
Alignment explanation
Indices: 44673090--44673195 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
44673080 AACCCTTCAA
44673090 ATTTCAAGATTTCAATAATTTAGCCCTTAACTTCAAAAACCAACTCACAACT
1 ATTTCAAGATTTCAATAATTTAGCCCTTAACTTCAAAAACCAACTCACAACT
44673142 ATTTCAAGATTTCAATAATTTAGCCCTTAACTTCAAAAACCAACTCACAACT
1 ATTTCAAGATTTCAATAATTTAGCCCTTAACTTCAAAAACCAACTCACAACT
44673194 AT
1 AT
44673196 GTTACTAGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.31
Consensus pattern (52 bp):
ATTTCAAGATTTCAATAATTTAGCCCTTAACTTCAAAAACCAACTCACAACT
Found at i:44684430 original size:5 final size:5
Alignment explanation
Indices: 44684420--44684457 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
44684410 GGAGTCCCAC
44684420 CCTCA CCTCA CCTCA CCTCA CCTCA CCTCA CCTCA CCT
1 CCTCA CCTCA CCTCA CCTCA CCTCA CCTCA CCTCA CCT
44684458 AGGAAGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.61, G:0.00, T:0.21
Consensus pattern (5 bp):
CCTCA
Found at i:44686307 original size:17 final size:17
Alignment explanation
Indices: 44686281--44686314 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44686271 TTTTTCCATT
* *
44686281 ATATATATATATATAAG
1 ATATACATATACATAAG
44686298 ATATACATATACATAAG
1 ATATACATATACATAAG
44686315 CACATGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
ATATACATATACATAAG
Found at i:44687873 original size:38 final size:38
Alignment explanation
Indices: 44687831--44687904 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
44687821 TTTTGAAACA
* *
44687831 AAATTGAACATTAAAATTAAATTTAGGTATCAAATATC
1 AAATTGAACATTAAAATTAAATTTAAGTATAAAATATC
44687869 AAATTGAACATTAAAATTAAATTTAAGTATAAAATA
1 AAATTGAACATTAAAATTAAATTTAAGTATAAAATA
44687905 ATATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (38 bp):
AAATTGAACATTAAAATTAAATTTAAGTATAAAATATC
Found at i:44687901 original size:18 final size:18
Alignment explanation
Indices: 44687842--44687903 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
44687832 AATTGAACAT
*
44687842 TAAAATTAAATTTAGGTA
1 TAAAATTAAATTTAAGTA
* * *
44687860 TCAAATATCAAATTGAA-CA
1 T-AAA-ATTAAATTTAAGTA
44687879 TTAAAATTAAATTTAAGTA
1 -TAAAATTAAATTTAAGTA
44687898 TAAAAT
1 TAAAAT
44687904 AATATATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
18 16 0.48
19 8 0.24
20 9 0.27
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (18 bp):
TAAAATTAAATTTAAGTA
Found at i:44688857 original size:39 final size:39
Alignment explanation
Indices: 44688790--44688873 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 39
44688780 CTAATATACA
*
44688790 AAAATTAATTAATTTATTTTTTTTATAGATA-AATAAAAT
1 AAAA-TAATTAATTTATTTTTTTAATAGATACAATAAAAT
*
44688829 AAAATAATTTATTTATTTATTTTAATAGATACAATAAAAT
1 AAAATAATTAATTTATTT-TTTTAATAGATACAATAAAAT
44688869 AAAAT
1 AAAAT
44688874 CTAACTCTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
38 13 0.32
39 15 0.37
40 13 0.32
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (39 bp):
AAAATAATTAATTTATTTTTTTAATAGATACAATAAAAT
Found at i:44691981 original size:25 final size:23
Alignment explanation
Indices: 44691942--44691994 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 23
44691932 TCATTTAATC
*
44691942 AAAT-AAATTATTAAAAAAATCATA
1 AAATAAAAATATTAAAAAAAT-A-A
44691966 AAATAAAAATATTAAAAAAATAA
1 AAATAAAAATATTAAAAAAATAA
44691989 AAATAA
1 AAATAA
44691995 TCGATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 7 0.26
24 5 0.19
25 15 0.56
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (23 bp):
AAATAAAAATATTAAAAAAATAA
Found at i:44700456 original size:12 final size:12
Alignment explanation
Indices: 44700439--44700463 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44700429 CGTCGTAGTT
44700439 ATCATCATAATC
1 ATCATCATAATC
44700451 ATCATCATAATC
1 ATCATCATAATC
44700463 A
1 A
44700464 AGTCCATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCATCATAATC
Found at i:44701872 original size:22 final size:24
Alignment explanation
Indices: 44701835--44701890 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
44701825 TTCTAAATTT
**
44701835 ATATTATAAATCTTAA-AATGC-C
1 ATATTATAAAAATTAATAATGCGC
*
44701857 ATATTATAAAAATTAATCATGCGC
1 ATATTATAAAAATTAATAATGCGC
*
44701881 ATTTTATAAA
1 ATATTATAAA
44701891 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 14 0.50
23 4 0.14
24 10 0.36
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (24 bp):
ATATTATAAAAATTAATAATGCGC
Found at i:44713491 original size:33 final size:33
Alignment explanation
Indices: 44713446--44713622 Score: 139
Period size: 33 Copynumber: 5.4 Consensus size: 33
44713436 CAGTGTTTAT
*
44713446 ATGTAAGACCATAGTTGGGCTATGACACT-CTG
1 ATGTAAGACCATAGCTGGGCTATGACACTACTG
* * * *
44713478 ATGATAAGACCATAACTGGGTTATAACATTAC-G
1 ATG-TAAGACCATAGCTGGGCTATGACACTACTG
* * * *
44713511 AATGTAAGACCATGGCTGAGCTATGACAATGCATG
1 -ATGTAAGACCATAGCTGGGCTATGACACTAC-TG
* *
44713546 -TGTAAGACCATAGTTGGGCTATGGCACT-CTG
1 ATGTAAGACCATAGCTGGGCTATGACACTACTG
* * * *
44713577 ATGATAAGACCATAACTGGGTTATAACATTAC-G
1 ATG-TAAGACCATAGCTGGGCTATGACACTACTG
44713610 AATGTAAGACCAT
1 -ATGTAAGACCAT
44713623 GACTATGGCA
Statistics
Matches: 113, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
31 2 0.02
32 6 0.05
33 96 0.85
34 8 0.07
35 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
ATGTAAGACCATAGCTGGGCTATGACACTACTG
Found at i:44715345 original size:12 final size:12
Alignment explanation
Indices: 44715328--44715365 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
44715318 GATTACTATT
44715328 ACGTCCTCGACC
1 ACGTCCTCGACC
*
44715340 ACGTCCTCCACC
1 ACGTCCTCGACC
*
44715352 ACGTCCACGACC
1 ACGTCCTCGACC
44715364 AC
1 AC
44715366 AGCCGTGACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.53, G:0.13, T:0.13
Consensus pattern (12 bp):
ACGTCCTCGACC
Found at i:44715716 original size:26 final size:26
Alignment explanation
Indices: 44715665--44715714 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
44715655 TACTTTAATT
44715665 TTATTATTAATTGATATTTAATTTTG
1 TTATTATTAATTGATATTTAATTTTG
*
44715691 TTATTAATT-ATT-ATATTTATTTTT
1 TTATT-ATTAATTGATATTTAATTTT
44715715 TGAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 8 0.36
27 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (26 bp):
TTATTATTAATTGATATTTAATTTTG
Found at i:44719682 original size:14 final size:14
Alignment explanation
Indices: 44719641--44719686 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
44719631 TATTTATTAT
44719641 TAAAATATTAAT-A
1 TAAAATATTAATAA
* * *
44719654 GAAATTATTATTAA
1 TAAAATATTAATAA
44719668 TAAAATATTAATAA
1 TAAAATATTAATAA
44719682 TAAAA
1 TAAAA
44719687 AGTATAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAATATTAATAA
Found at i:44719733 original size:19 final size:20
Alignment explanation
Indices: 44719671--44719746 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 20
44719661 TTATTAATAA
*
44719671 AATATTAATAATAAAA-AGT
1 AATATTAATAATAAAATTGT
*
44719690 -ATAATTAATATTAAAATT-T
1 AAT-ATTAATAATAAAATTGT
*
44719709 ATTATTAA-AATAAAATTGT
1 AATATTAATAATAAAATTGT
*
44719728 AATATTAAGTAATTAAATT
1 AATATTAA-TAATAAAATT
44719747 ATAGTAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 10 0.22
19 26 0.58
20 1 0.02
21 8 0.18
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
AATATTAATAATAAAATTGT
Found at i:44723842 original size:18 final size:18
Alignment explanation
Indices: 44723802--44723844 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
44723792 ATGCCGAAAA
*
44723802 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
44723819 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
44723838 TACTTAA
1 TACTTAA
44723845 ACTAAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:44723858 original size:14 final size:15
Alignment explanation
Indices: 44723835--44723870 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
44723825 AAGACACATT
44723835 AATT-ACTTAAACTA
1 AATTAACTTAAACTA
44723849 AA-TAACTTAAACTA
1 AATTAACTTAAACTA
44723863 AATTAACT
1 AATTAACT
44723871 AATATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 14 0.70
15 5 0.25
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTAACTTAAACTA
Found at i:44727524 original size:13 final size:13
Alignment explanation
Indices: 44727506--44727531 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44727496 TTCTCAATAG
44727506 TGTCCCTTATATA
1 TGTCCCTTATATA
44727519 TGTCCCTTATATA
1 TGTCCCTTATATA
44727532 GGTCATCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
TGTCCCTTATATA
Found at i:44727972 original size:18 final size:17
Alignment explanation
Indices: 44727945--44727979 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44727935 TCTGCCCTTG
44727945 TGGGAAAAAAAATGCCA
1 TGGGAAAAAAAATGCCA
44727962 TGGGAAAAAAAATGCCA
1 TGGGAAAAAAAATGCCA
44727979 T
1 T
44727980 TTATAAGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.14
Consensus pattern (17 bp):
TGGGAAAAAAAATGCCA
Found at i:44728143 original size:10 final size:10
Alignment explanation
Indices: 44728128--44728170 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
44728118 CAATTCACCA
44728128 ACCAAATCAT
1 ACCAAATCAT
*
44728138 ACCAAATCGAA
1 ACCAAATC-AT
44728149 ACCAAAATCAT
1 ACC-AAATCAT
*
44728160 ACCAAAGCAT
1 ACCAAATCAT
44728170 A
1 A
44728171 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:44731300 original size:47 final size:47
Alignment explanation
Indices: 44731233--44731533 Score: 476
Period size: 47 Copynumber: 6.4 Consensus size: 47
44731223 CAGCCAAGAC
44731233 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
44731280 AGTGCATATGTGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44731327 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44731374 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44731421 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
44731468 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44731515 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
44731534 TCCCGAAGGG
Statistics
Matches: 233, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 233 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44731707 original size:37 final size:37
Alignment explanation
Indices: 44731655--44731729 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
44731645 AGCTCTAAAG
* *
44731655 CCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAGA
*
44731692 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
44731729 C
1 C
44731730 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:44733642 original size:43 final size:43
Alignment explanation
Indices: 44733594--44733696 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
44733584 TTGGTTTTCA
44733594 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
44733637 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
44733680 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
44733697 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:44733713 original size:29 final size:29
Alignment explanation
Indices: 44733678--44733751 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
44733668 GTTGTGAGAT
* *
44733678 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
44733707 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
44733736 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44733752 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:44734164 original size:39 final size:39
Alignment explanation
Indices: 44734062--44734228 Score: 155
Period size: 39 Copynumber: 4.3 Consensus size: 39
44734052 TCGAATGATG
* *
44734062 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-AAGTGACTATA
* * * *
44734102 TCCGGACTAAGATCCGAAGGCATT-GTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCAAGTGACTATA
*
44734141 TCCGGGCTAAGTCCCG-AGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGT-CCGAAG-GCATTCGTGCAAGTGACTATA
* *
44734180 TCCGGGCTAAGTCCGAGGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCGAAG-GCATTCGTGCAAGTGACTATA
*
44734219 TCCGTGCTAA
1 TCCGGGCTAA
44734229 ACCCCGAAGA
Statistics
Matches: 110, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
38 6 0.05
39 71 0.65
40 30 0.27
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTGACTATA
Found at i:44734222 original size:78 final size:79
Alignment explanation
Indices: 44734062--44734237 Score: 191
Period size: 78 Copynumber: 2.2 Consensus size: 79
44734052 TCGAATGATG
*
44734062 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
*
44734127 TGCGAGTTACTAAA
66 TGCGAGTGACTAAA
* * *
44734141 TCCGGGCTAAGTCCCG-AGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAG-TCCGAGGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTCGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
* *
44734202 TTCGTGCTAGTGA-TATA
63 TT-GTGCGAGTGACTAAA
* **
44734219 TCCGTGCTAAACCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
44734238 AGCAATCATG
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
77 6 0.07
78 36 0.44
79 33 0.40
80 7 0.09
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCTTCGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
TGCGAGTGACTAAA
Found at i:44736105 original size:10 final size:11
Alignment explanation
Indices: 44736077--44736104 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
44736067 CGAATTTTTT
44736077 AAAAAAATAAA
1 AAAAAAATAAA
44736088 AAAAAAATAAA
1 AAAAAAATAAA
44736099 AAAAAA
1 AAAAAA
44736105 TGTGATAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:44738156 original size:47 final size:47
Alignment explanation
Indices: 44738096--44738390 Score: 455
Period size: 47 Copynumber: 6.3 Consensus size: 47
44738086 CAAGACAGTG
44738096 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
44738143 TATGTGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * *
44738190 TATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
44738237 TATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
44738284 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * *
44738331 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGAA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
44738378 TAAATGTGATAAG
1 TATATGTGATAAG
44738391 TCCCGAAGGG
Statistics
Matches: 229, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:44738564 original size:37 final size:37
Alignment explanation
Indices: 44738508--44738586 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
44738498 CCGAGCTCTA
* *
44738508 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
44738545 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44738582 AAGAC
1 AAGAC
44738587 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44740477 original size:44 final size:42
Alignment explanation
Indices: 44740331--44740485 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 42
44740321 CTCGTACAAT
*
44740331 GCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCGAC
*
44740374 GCC-ACTGTCCCAGACAG-GGTCTTACACG-AAATCAAATACGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAAT-CGAC
*
44740416 GCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGTCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCGAC
* *
44740460 GCCAACGTTCCAAACGTGGTCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
44740486 TGATAAGATA
Statistics
Matches: 96, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 34 0.35
44 29 0.30
45 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATCGAC
Found at i:44741199 original size:17 final size:17
Alignment explanation
Indices: 44741169--44741201 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44741159 AGGATACTGT
44741169 GTAACAATTACAAAAAC
1 GTAACAATTACAAAAAC
44741186 GTAA-AATTATCAAAAA
1 GTAACAATTA-CAAAAA
44741202 TTGAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (17 bp):
GTAACAATTACAAAAAC
Found at i:44746973 original size:47 final size:47
Alignment explanation
Indices: 44746912--44747165 Score: 393
Period size: 47 Copynumber: 5.4 Consensus size: 47
44746902 CAGCCAAGAC
44746912 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44746959 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44747006 AGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44747053 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AA
* * * * * *
44747101 AGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44747147 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
44747166 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 15 0.08
47 158 0.83
48 17 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44749305 original size:41 final size:42
Alignment explanation
Indices: 44749210--44749310 Score: 186
Period size: 43 Copynumber: 2.4 Consensus size: 42
44749200 TTGGTTTTCA
44749210 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGT-AGATTG
44749253 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGT-GATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTAGATTG
44749294 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
44749311 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
41 22 0.38
43 36 0.62
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.27
Consensus pattern (42 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTAGATTG
Found at i:44749351 original size:29 final size:29
Alignment explanation
Indices: 44749292--44749363 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
44749282 CGGTTGTGAT
** *
44749292 TGGCACTAAGTGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCAAGCTTGAAATACA
*
44749321 TGGCACTAAGTGTGCAAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCAAGCTTGAAA-TACA
44749350 T-GCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44749364 GTGGTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 18 0.47
29 20 0.53
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAATACA
Found at i:44749769 original size:39 final size:38
Alignment explanation
Indices: 44749674--44749816 Score: 138
Period size: 37 Copynumber: 3.8 Consensus size: 38
44749664 ATGATGTCCG
* *
44749674 GGCTAAGTCCCGA-AGC-TTTGTGCTAGTGACCATATCC
1 GGCTAAGTCCCGAGAGCATTCGTGCTAGTGACTA-ATCC
* * *
44749711 GGACTAAG-ACCGA-AGGCATTTGTGCGAGT-ACTAAATCC
1 GG-CTAAGTCCCGAGA-GCATTCGTGCTAGTGACT-AATCC
44749749 GGCTAAGTCCCGAGGAGCATTCGTGCTAGTGA-T-ATCC
1 GGCTAAGTCCCGA-GAGCATTCGTGCTAGTGACTAATCC
*
44749786 GGCTAATTCCCGAGAGCATTCGTGCTAGTGA
1 GGCTAAGTCCCGAGAGCATTCGTGCTAGTGA
44749817 TATACTGCTA
Statistics
Matches: 91, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
36 18 0.20
37 28 0.31
38 19 0.21
39 24 0.26
40 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (38 bp):
GGCTAAGTCCCGAGAGCATTCGTGCTAGTGACTAATCC
Found at i:44749810 original size:36 final size:37
Alignment explanation
Indices: 44749745--44749819 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 37
44749735 CGAGTACTAA
44749745 ATCCGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGAT
1 ATCCGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGAT
*
44749782 ATCCGGCTAATTCCCGA-GAGCATTCGTGCTAGTGAT
1 ATCCGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGAT
44749818 AT
1 AT
44749820 ACTGCTAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 21 0.57
37 16 0.43
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (37 bp):
ATCCGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGAT
Found at i:44749838 original size:36 final size:37
Alignment explanation
Indices: 44749748--44749839 Score: 118
Period size: 36 Copynumber: 2.5 Consensus size: 37
44749738 GTACTAAATC
* *
44749748 CGGCTAAGT-CCCGAGGAGCATTCGTGCTAGTGATATC
1 CGGCTAA-TACCCGAAGAGCATTCGTGCTAGTGATATA
*
44749785 CGGCTAATTCCCG-AGAGCATTCGTGCTAGTGATATA
1 CGGCTAATACCCGAAGAGCATTCGTGCTAGTGATATA
*
44749821 CTGCTAA-ACCCGAAGAGCA
1 CGGCTAATACCCGAAGAGCA
44749840 ATCATGCTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
35 4 0.08
36 34 0.69
37 11 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (37 bp):
CGGCTAATACCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:44751687 original size:11 final size:10
Alignment explanation
Indices: 44751666--44751692 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
44751656 CCGAATTTTT
44751666 AAAAAATAAA
1 AAAAAATAAA
44751676 AAAAAATAAA
1 AAAAAATAAA
44751686 AAAAAAT
1 AAAAAAT
44751693 GTGATAGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:44753753 original size:47 final size:47
Alignment explanation
Indices: 44753689--44753989 Score: 458
Period size: 47 Copynumber: 6.4 Consensus size: 47
44753679 CTGCCAAGAC
44753689 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44753736 AGTGTATATGTGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
44753783 AGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44753830 AGTGTATATATGTAATAAGGCCTAATGGCCGGTGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44753877 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
44753924 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44753971 AGTGAATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
44753990 TCCCGAAGGG
Statistics
Matches: 233, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 233 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44754164 original size:37 final size:37
Alignment explanation
Indices: 44754112--44754186 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
44754102 GCTCTAAAGG
* *
44754112 CCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAGA
*
44754149 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
44754186 C
1 C
44754187 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:44756104 original size:44 final size:42
Alignment explanation
Indices: 44755958--44756112 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 42
44755948 CTCGTACAAT
*
44755958 GCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCGAC
*
44756001 GCC-ACTGTCCCAGACAG-GGTCTTACACG-AAATCAAATACGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAAT-CGAC
*
44756043 GCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGTCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCGAC
* *
44756087 GCCAACGTTCCAAACGTGGTCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
44756113 TGATAAAAGA
Statistics
Matches: 96, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 34 0.35
44 29 0.30
45 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATCGAC
Found at i:44756845 original size:17 final size:18
Alignment explanation
Indices: 44756820--44756853 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44756810 AGGATACTGT
*
44756820 GTAACAATTA-CAAAAAC
1 GTAAAAATTATCAAAAAC
44756837 GTAAAAATTATCAAAAA
1 GTAAAAATTATCAAAAA
44756854 TTGAACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (18 bp):
GTAAAAATTATCAAAAAC
Found at i:44759525 original size:79 final size:82
Alignment explanation
Indices: 44759414--44759598 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
44759404 GCTACTCGTT
* *
44759414 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
44759477 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
44759494 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
44759557 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
44759574 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44759599 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:44759598 original size:40 final size:40
Alignment explanation
Indices: 44759395--44759598 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
44759385 CGGAATTTAA
** *
44759395 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44759435 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
44759475 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44759514 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
44759554 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
44759594 CCGGA
1 CCGGA
44759599 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44761794 original size:18 final size:18
Alignment explanation
Indices: 44761754--44761796 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
44761744 ATGCCGAAAA
*
44761754 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
44761771 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
44761790 TACTTAA
1 TACTTAA
44761797 ACTAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:44761805 original size:18 final size:19
Alignment explanation
Indices: 44761755--44761806 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
44761745 TGCCGAAAAT
*
44761755 ACTT-AGACATATTAATTA
1 ACTTAAGACAAATTAATTA
*
44761773 ACTTAAGACACATTAATT-
1 ACTTAAGACAAATTAATTA
44761791 ACTTAA-ACTAAATTAA
1 ACTTAAGAC-AAATTAA
44761807 CTAATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 2 0.07
18 16 0.53
19 12 0.40
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (19 bp):
ACTTAAGACAAATTAATTA
Found at i:44772972 original size:14 final size:14
Alignment explanation
Indices: 44772953--44773008 Score: 85
Period size: 14 Copynumber: 4.0 Consensus size: 14
44772943 GACCAATTCA
**
44772953 TTCATACCCCTTCG
1 TTCATACCATTTCG
*
44772967 TTCATACCATTTCA
1 TTCATACCATTTCG
44772981 TTCATACCATTTCG
1 TTCATACCATTTCG
44772995 TTCATACCATTTCG
1 TTCATACCATTTCG
44773009 ACCATTCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.41
Consensus pattern (14 bp):
TTCATACCATTTCG
Found at i:44772984 original size:28 final size:28
Alignment explanation
Indices: 44772944--44773007 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
44772934 ACCTAAACCG
* *
44772944 ACCAATTCATTCATACCCCTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
*
44772972 ACCATTTCATTCATACCATTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
44773000 ACCATTTC
1 ACCATTTC
44773008 GACCATTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (28 bp):
ACCATTTCATTCATACCACTTCGTTCAT
Found at i:44780012 original size:14 final size:13
Alignment explanation
Indices: 44779992--44780023 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
44779982 AATATTTAAC
44779992 TTGTTCTTAATTA
1 TTGTTCTTAATTA
44780005 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
44780019 TTGTT
1 TTGTT
44780024 TTGATACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:44781335 original size:72 final size:71
Alignment explanation
Indices: 44781218--44781405 Score: 225
Period size: 72 Copynumber: 2.6 Consensus size: 71
44781208 ATGTCTGCAT
* * * *
44781218 TTGAGCTACTCACGGGTCTGTACACAAAGTTAGCACCCGGACCCCAAAGCATTATCATG-TAATG
1 TTGAGCTACTCAC-GGTTTATACACAAAGTTAGTACCCGGACCCCAAAGCATTAACATGAT-ATG
44781282 CCCGCTCA
64 CCCGCTCA
* *
44781290 TTGAGCTACTCACAGGTTTATACACAAAGTTAGTACCCAGACCCCAAAGTATTAACATGATATGC
1 TTGAGCTACTCAC-GGTTTATACACAAAGTTAGTACCCGGACCCCAAAGCATTAACATGATATGC
*
44781355 TCGCTCA
65 CCGCTCA
** * * *
44781362 GCGAGTTACTCACGAGTTTATACAAAAAGTCAGTACCCGGACCC
1 TTGAGCTACTCACG-GTTTATACACAAAGTTAGTACCCGGACCC
44781406 ACATTGCATA
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.01
72 98 0.98
73 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (71 bp):
TTGAGCTACTCACGGTTTATACACAAAGTTAGTACCCGGACCCCAAAGCATTAACATGATATGCC
CGCTCA
Found at i:44787722 original size:28 final size:28
Alignment explanation
Indices: 44787682--44787746 Score: 114
Period size: 28 Copynumber: 2.3 Consensus size: 28
44787672 GCTCAATAAG
44787682 AGTTAATTTCTATTTTATTCAGCCTCAA
1 AGTTAATTTCTATTTTATTCAGCCTCAA
44787710 AGTTAATTTCTATTTTATTCAGCCTCAA
1 AGTTAATTTCTATTTTATTCAGCCTCAA
44787738 A-TTCAATTT
1 AGTT-AATTT
44787747 TCACAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (28 bp):
AGTTAATTTCTATTTTATTCAGCCTCAA
Found at i:44788653 original size:30 final size:30
Alignment explanation
Indices: 44788617--44788673 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
44788607 TAAAAATCAT
*
44788617 ATTTTGTAAAAATTACATTTTTGCCCTTAA
1 ATTTTGTAAAAATTACACTTTTGCCCTTAA
* *
44788647 ATTTTGTCATAATTACACTTTTGCCCT
1 ATTTTGTAAAAATTACACTTTTGCCCT
44788674 AGGCTCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (30 bp):
ATTTTGTAAAAATTACACTTTTGCCCTTAA
Found at i:44792378 original size:64 final size:64
Alignment explanation
Indices: 44792230--44792379 Score: 142
Period size: 64 Copynumber: 2.3 Consensus size: 64
44792220 CCGAGGACAT
* * *
44792230 GCCCGTGTGCCAGACCGTGTGAAAATTGGAGGGTATACTGACTTATACAACACCGCCATGTCATA
1 GCCCGTGTG-TAGACCGTGTGAAAATT-GAGGGTATACTGACTTATACAACACCGCCATATCAAA
44792295 C
64 C
* * * ** * * *
44792296 GCCCATATGCTAGGCCGTGTGTGAATT-AGGGATATACTGACTTGTACCACACGGCCA-ATCAAA
1 GCCCGTGTG-TAGACCGTGTGAAAATTGAGGG-TATACTGACTTATACAACACCGCCATATCAAA
44792359 C
64 C
44792360 GCCCGTGTGTGAGACCGTGT
1 GCCCGTGTGT-AGACCGTGT
44792380 AAGGCATACT
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
63 1 0.01
64 24 0.35
65 22 0.32
66 21 0.31
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.23
Consensus pattern (64 bp):
GCCCGTGTGTAGACCGTGTGAAAATTGAGGGTATACTGACTTATACAACACCGCCATATCAAAC
Found at i:44795617 original size:30 final size:30
Alignment explanation
Indices: 44795553--44795625 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
44795543 CATGGCCATG
* *
44795553 TGGCCATCCCGTGGGGATCCCATCGCTGTG
1 TGGCCAGCCCGTGGGGATCCCATCGCTGTA
* *
44795583 TGGCCAGCTCGTGGGGATCCCAT-GGTCGTA
1 TGGCCAGCCCGTGGGGATCCCATCGCT-GTA
44795613 TGGCCAGCCCGTG
1 TGGCCAGCCCGTG
44795626 TGGAATTCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.11, C:0.32, G:0.36, T:0.22
Consensus pattern (30 bp):
TGGCCAGCCCGTGGGGATCCCATCGCTGTA
Found at i:44795960 original size:33 final size:33
Alignment explanation
Indices: 44795911--44796026 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
44795901 ATGGACTTTT
* * * *
44795911 CCTTTTCTAGTTGTACATTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* *
44795944 CCTTTTCAAGTGGTACACACGAAGTGCACATAC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
44795977 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
44796010 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
44796027 ATATAGTGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
32 7 0.10
33 64 0.90
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:44796046 original size:32 final size:31
Alignment explanation
Indices: 44795934--44796053 Score: 107
Period size: 33 Copynumber: 3.7 Consensus size: 31
44795924 TACATTCGAG
* *
44795934 GTGCACATTCCCTTTTCAAGTGGTACACACGAA
1 GTGCACATACCCTTTTCAAGT-GTACACA-TAA
*
44795967 GTGCACATACCCTTTTCAATTTGTACAC-TCAAA
1 GTGCACATACCCTTTTCAA-GTGTACACAT--AA
*
44796000 GTGCACATAACCTTTTCAAGTGTACACATATA
1 GTGCACATACCCTTTTCAAGTGTACACATA-A
* ** *
44796032 GTGTACATTTCCTTTACAAGTG
1 GTGCACATACCCTTTTCAAGTG
44796054 GTATACACGT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
31 1 0.01
32 26 0.36
33 45 0.62
34 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (31 bp):
GTGCACATACCCTTTTCAAGTGTACACATAA
Found at i:44796066 original size:23 final size:23
Alignment explanation
Indices: 44796040--44796084 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
44796030 TAGTGTACAT
44796040 TTCCTTTACA-AGTGGTATACACG
1 TTCCTTTACATA-TGGTATACACG
*
44796063 TTCCTTTTCATATGGTATACAC
1 TTCCTTTACATATGGTATACAC
44796085 AAAGTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (23 bp):
TTCCTTTACATATGGTATACACG
Found at i:44796873 original size:21 final size:22
Alignment explanation
Indices: 44796827--44796874 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
44796817 TGTAAAAGTG
**
44796827 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAAATTTC
44796849 ATTT-TCTATCAA-AAAATTTC
1 ATTTATCTATCAATAAAATTTC
44796869 AATTTA
1 -ATTTA
44796875 CAGCATATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.27
21 12 0.55
22 4 0.18
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAAATTTC
Found at i:44803642 original size:33 final size:33
Alignment explanation
Indices: 44803600--44803724 Score: 85
Period size: 33 Copynumber: 3.8 Consensus size: 33
44803590 CTCAATGCGC
*
44803600 ACATTCCCTTTTCAAGTGGTACACACGAAATGT
1 ACATACCCTTTTCAAGTGGTACACACGAAATGT
* * * * *
44803633 ACATACCCTTTTCCATTTGTACACTC-AAAGTGC
1 ACATACCCTTTTCAAGTGGTACACACGAAA-TGT
* * * *
44803666 ATATAACCTTTTCAAGT-GTACACA-TATAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGA-AATGT
* ** *
44803698 ACCTTTCCTTTTCAAGTGGTATACACG
1 ACATACCCTTTTCAAGTGGTACACACG
44803725 TTCCTTTTCA
Statistics
Matches: 68, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
32 25 0.37
33 43 0.63
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (33 bp):
ACATACCCTTTTCAAGTGGTACACACGAAATGT
Found at i:44803728 original size:23 final size:23
Alignment explanation
Indices: 44803702--44803746 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44803692 TAGTGTACCT
44803702 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
44803725 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
44803747 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:44803763 original size:33 final size:33
Alignment explanation
Indices: 44803716--44803788 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
44803706 TTTTCAAGTG
*
44803716 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
44803750 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
*
44803782 GTGTACA
1 GTATACA
44803789 TAAACTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.47
33 12 0.35
34 6 0.18
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:44807422 original size:33 final size:33
Alignment explanation
Indices: 44807380--44807504 Score: 92
Period size: 33 Copynumber: 3.8 Consensus size: 33
44807370 CTCAATGCGC
*
44807380 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGAAGTGT
* * * * * *
44807413 ACATACCCTTTTCCATTTGTACACTCAAAGTGC
1 ACATACCCTTTTCAAGTGGTACACACGAAGTGT
* * * *
44807446 ATATAACTTTTTCAAGT-GTACACA-TATAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGA-AGTGT
* ** *
44807478 ACCTTTCCTTTTCAAGTGGTATACACG
1 ACATACCCTTTTCAAGTGGTACACACG
44807505 TTCCTTTTCA
Statistics
Matches: 67, Mismatches: 22, Indels: 5
0.71 0.23 0.05
Matches are distributed among these distances:
31 1 0.01
32 22 0.33
33 44 0.66
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (33 bp):
ACATACCCTTTTCAAGTGGTACACACGAAGTGT
Found at i:44807508 original size:23 final size:23
Alignment explanation
Indices: 44807482--44807526 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44807472 TAGTGTACCT
44807482 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
44807505 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
44807527 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:44807543 original size:33 final size:33
Alignment explanation
Indices: 44807496--44807568 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
44807486 TTTTCAAGTG
*
44807496 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
44807530 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
*
44807562 GTGTACA
1 GTATACA
44807569 TAAACTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.47
33 12 0.35
34 6 0.18
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:44811196 original size:33 final size:33
Alignment explanation
Indices: 44811154--44811278 Score: 92
Period size: 33 Copynumber: 3.8 Consensus size: 33
44811144 CTCAATGCGC
*
44811154 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGAAGTGT
* * * * * *
44811187 ACATACCCTTTTCCATTTGTACACTCAAAGTGC
1 ACATACCCTTTTCAAGTGGTACACACGAAGTGT
* * * *
44811220 ATATAACTTTTTCAAGT-GTACACA-TATAGTGT
1 ACATACCCTTTTCAAGTGGTACACACGA-AGTGT
* ** *
44811252 ACCTTTCCTTTTCAAGTGGTATACACG
1 ACATACCCTTTTCAAGTGGTACACACG
44811279 TTCCTTTTCA
Statistics
Matches: 67, Mismatches: 22, Indels: 5
0.71 0.23 0.05
Matches are distributed among these distances:
31 1 0.01
32 22 0.33
33 44 0.66
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (33 bp):
ACATACCCTTTTCAAGTGGTACACACGAAGTGT
Found at i:44811282 original size:23 final size:23
Alignment explanation
Indices: 44811256--44811300 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44811246 TAGTGTACCT
44811256 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
44811279 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
44811301 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:44811317 original size:33 final size:33
Alignment explanation
Indices: 44811270--44811342 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
44811260 TTTTCAAGTG
*
44811270 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
44811304 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
*
44811336 GTGTACA
1 GTATACA
44811343 TAAACTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.47
33 12 0.35
34 6 0.18
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:44814955 original size:33 final size:33
Alignment explanation
Indices: 44814906--44815021 Score: 119
Period size: 33 Copynumber: 3.5 Consensus size: 33
44814896 ATGGACTTTT
* * *
44814906 CCTTTTCTAGTTGTACACTCAATGTGCACATTC
1 CCTTTTCAAGTGGTACACTCAATGTGCACATAC
* *
44814939 CCTTTTCAAGTGGTACACATGAA-GTGTACATAC
1 CCTTTTCAAGTGGTACAC-TCAATGTGCACATAC
* * * * *
44814972 CCTTTTCAATTTGTACACTCAAAGTGCATATAA
1 CCTTTTCAAGTGGTACACTCAATGTGCACATAC
44815005 CCTTTTCAAGT-GTACAC
1 CCTTTTCAAGTGGTACAC
44815022 ATATAGTGTA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
32 9 0.13
33 57 0.83
34 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACTCAATGTGCACATAC
Found at i:44814991 original size:66 final size:65
Alignment explanation
Indices: 44814906--44815047 Score: 178
Period size: 66 Copynumber: 2.2 Consensus size: 65
44814896 ATGGACTTTT
* * **
44814906 CCTTTTCTAGTTGTACACTCAATGTGCACATTCCCTTTTCAAGTGGTACACATGA-AGTGTACAT
1 CCTTTTCAAGTTGTACACTCAAAGTGCACATAACCTTTTCAAGT-GTACACAT-ATAGTGTACAT
44814970 AC
64 AC
* * * **
44814972 CCTTTTCAATTTGTACACTCAAAGTGCATATAACCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTTGTACACTCAAAGTGCACATAACCTTTTCAAGTGTACACATATAGTGTACATAC
44815037 CCTTTTCAAGT
1 CCTTTTCAAGT
44815048 GGTATACACG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
64 1 0.02
65 26 0.40
66 38 0.58
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (65 bp):
CCTTTTCAAGTTGTACACTCAAAGTGCACATAACCTTTTCAAGTGTACACATATAGTGTACATAC
Found at i:44815061 original size:23 final size:23
Alignment explanation
Indices: 44815035--44815079 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
44815025 TAGTGTACCT
44815035 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
44815058 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
44815080 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:44815096 original size:33 final size:33
Alignment explanation
Indices: 44815049--44815121 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
44815039 TTTTCAAGTG
*
44815049 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
44815083 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
*
44815115 GTGTACA
1 GTATACA
44815122 TAAACTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.47
33 12 0.35
34 6 0.18
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:44823387 original size:175 final size:175
Alignment explanation
Indices: 44823096--44823453 Score: 716
Period size: 175 Copynumber: 2.0 Consensus size: 175
44823086 ATTCAATCAT
44823096 AACCACAAGCTACTGCATTTAAATATAATTCTTTTTGGAACTAGCCACATGGTAAACCATTTTAA
1 AACCACAAGCTACTGCATTTAAATATAATTCTTTTTGGAACTAGCCACATGGTAAACCATTTTAA
44823161 TAGGAATTACATAATTTAAACCTTACCACCCTTTCATGATCACAAGCATATTTCCATTTAGGCAT
66 TAGGAATTACATAATTTAAACCTTACCACCCTTTCATGATCACAAGCATATTTCCATTTAGGCAT
44823226 TTACCATTACAATGCATAACTTATAAGTTTAACGTGGTATAATCC
131 TTACCATTACAATGCATAACTTATAAGTTTAACGTGGTATAATCC
44823271 AACCACAAGCTACTGCATTTAAATATAATTCTTTTTGGAACTAGCCACATGGTAAACCATTTTAA
1 AACCACAAGCTACTGCATTTAAATATAATTCTTTTTGGAACTAGCCACATGGTAAACCATTTTAA
44823336 TAGGAATTACATAATTTAAACCTTACCACCCTTTCATGATCACAAGCATATTTCCATTTAGGCAT
66 TAGGAATTACATAATTTAAACCTTACCACCCTTTCATGATCACAAGCATATTTCCATTTAGGCAT
44823401 TTACCATTACAATGCATAACTTATAAGTTTAACGTGGTATAATCC
131 TTACCATTACAATGCATAACTTATAAGTTTAACGTGGTATAATCC
44823446 AACCACAA
1 AACCACAA
44823454 TACACTAACC
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 183 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (175 bp):
AACCACAAGCTACTGCATTTAAATATAATTCTTTTTGGAACTAGCCACATGGTAAACCATTTTAA
TAGGAATTACATAATTTAAACCTTACCACCCTTTCATGATCACAAGCATATTTCCATTTAGGCAT
TTACCATTACAATGCATAACTTATAAGTTTAACGTGGTATAATCC
Found at i:44823512 original size:29 final size:29
Alignment explanation
Indices: 44823477--44823534 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
44823467 TTAGTCATGT
44823477 AAATTCATATATGAATTAACAATCATGGA
1 AAATTCATATATGAATTAACAATCATGGA
*
44823506 AAATTCATATATGAATTAATAATCATGGA
1 AAATTCATATATGAATTAACAATCATGGA
44823535 TGAACTCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (29 bp):
AAATTCATATATGAATTAACAATCATGGA
Found at i:44823832 original size:25 final size:25
Alignment explanation
Indices: 44823770--44823835 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
44823760 ATACATGTAT
* *
44823770 GCTCATACAAGCTATGAATCGGTAC
1 GCTCATACAAGCTGTGAATCGGTAA
44823795 GCTC-TCACAAGCTGTGAATCGGTAA
1 GCTCAT-ACAAGCTGTGAATCGGTAA
44823820 GCTCATA-AGAGCTGTG
1 GCTCATACA-AGCTGTG
44823836 GTGTGTCCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 2 0.06
25 33 0.92
26 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (25 bp):
GCTCATACAAGCTGTGAATCGGTAA
Found at i:44826863 original size:27 final size:27
Alignment explanation
Indices: 44826833--44826920 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
44826823 CCCTAATTGA
* * *
44826833 TAAAATTAATATTTTTCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* *
44826860 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGAGG
*
44826887 TAAAATGACTATTTTG-CCTT-TTATGG
1 TAAAATGACTATTTTGCCCTTATGA-GG
44826913 TAAAATGA
1 TAAAATGA
44826921 TTGTTTTACC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
25 1 0.02
26 14 0.27
27 37 0.71
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGAGG
Found at i:44828988 original size:21 final size:21
Alignment explanation
Indices: 44828946--44828989 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
44828936 TTGCTTGTCC
*
44828946 TTAGGTACATTTAGTAGCATT
1 TTAGGTACATTTACTAGCATT
*
44828967 TTAGG-ACATTTCACTAGTATT
1 TTAGGTACATTT-ACTAGCATT
44828988 TT
1 TT
44828990 TATCATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (21 bp):
TTAGGTACATTTACTAGCATT
Found at i:44831345 original size:6 final size:6
Alignment explanation
Indices: 44831334--44831360 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44831324 ATTATTAATT
44831334 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
44831361 GCTTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:44842902 original size:71 final size:71
Alignment explanation
Indices: 44842774--44842914 Score: 237
Period size: 71 Copynumber: 2.0 Consensus size: 71
44842764 TATACAACTT
*
44842774 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAATTTTCTATGGTGCTAAG
1 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCTAAG
44842839 AGAGCA
66 AGAGCA
* * * *
44842845 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACGAAATTTTTTTATGGTGCTGAG
1 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCTAAG
44842910 AGAGC
66 AGAGC
44842915 TCGTCACAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (71 bp):
TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCTAAG
AGAGCA
Found at i:44847869 original size:20 final size:19
Alignment explanation
Indices: 44847839--44847878 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
44847829 GAAAAAGCGA
*
44847839 GAAAGAAAAAGTTTTGGGG
1 GAAAGAAAAAGGTTTGGGG
44847858 GAAAGTAAAAAGGTTTGGGG
1 GAAAG-AAAAAGGTTTGGGG
44847878 G
1 G
44847879 TTTGGAGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (19 bp):
GAAAGAAAAAGGTTTGGGG
Found at i:44850035 original size:15 final size:14
Alignment explanation
Indices: 44850015--44850053 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
44850005 AACATTTTAA
*
44850015 AAATTATAAAGATAT
1 AAATTATAAAAAT-T
44850030 AAATTATAAAAATT
1 AAATTATAAAAATT
44850044 ATAATTATAA
1 A-AATTATAA
44850054 TTTTACTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
AAATTATAAAAATT
Found at i:44857409 original size:38 final size:39
Alignment explanation
Indices: 44857327--44857436 Score: 159
Period size: 38 Copynumber: 2.8 Consensus size: 39
44857317 AATGCTGTCC
*
44857327 CATGCATGCTTTTTTTAATACCCGCACATTAAATTCGGT
1 CATGCATGCTTTCTTTAATACCCGCACATTAAATTCGGT
**
44857366 CATGCATGCTTTCTTTAATACTTGCACATT-AATTCGGT
1 CATGCATGCTTTCTTTAATACCCGCACATTAAATTCGGT
* * *
44857404 CATGCATGCTTGCTTTAATGCCCACACATTAAA
1 CATGCATGCTTTCTTTAATACCCGCACATTAAA
44857437 AATCAACAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 33 0.53
39 29 0.47
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (39 bp):
CATGCATGCTTTCTTTAATACCCGCACATTAAATTCGGT
Found at i:44859231 original size:17 final size:17
Alignment explanation
Indices: 44859204--44859236 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44859194 CATTTGTTTA
44859204 TTTTCTTATTT-TTTTG
1 TTTTCTTATTTATTTTG
44859220 TTTTCGTTATTTATTTT
1 TTTTC-TTATTTATTTT
44859237 TATCCCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTCTTATTTATTTTG
Found at i:44864912 original size:50 final size:50
Alignment explanation
Indices: 44864831--44864950 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
44864821 TAGGGTTACT
* **
44864831 GATTCTCAGCTCGTATGAGCTTATCAATTTACAACTCTTGAAAG-ATTATC
1 GATTCTTAGCTCGTATGAGCTTATCAATTTACAACTAATGAAAGCA-TATC
* ** * *
44864881 GATTCTTAGCTCATATGAGCTTA-CTGGTTTACAGCTAATGAGAGCATATC
1 GATTCTTAGCTCGTATGAGCTTATC-AATTTACAACTAATGAAAGCATATC
*
44864931 GATTCATAGCTCGTATGAGC
1 GATTCTTAGCTCGTATGAGC
44864951 ATACATGTAC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
49 1 0.02
50 56 0.97
51 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (50 bp):
GATTCTTAGCTCGTATGAGCTTATCAATTTACAACTAATGAAAGCATATC
Found at i:44871245 original size:12 final size:12
Alignment explanation
Indices: 44871228--44871252 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44871218 ATATATGTGA
44871228 TCTTGATGATTT
1 TCTTGATGATTT
44871240 TCTTGATGATTT
1 TCTTGATGATTT
44871252 T
1 T
44871253 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:44871606 original size:30 final size:30
Alignment explanation
Indices: 44871567--44871627 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44871557 ATTGATTTTC
* *
44871567 AGGCATAGGGGTAAAATGGTCATTTTGCCA
1 AGGCATAGGGGCAAAATGGTCATTTTACCA
* *
44871597 AGGCCTAGGGGCAAAATGGTCGTTTTACCA
1 AGGCATAGGGGCAAAATGGTCATTTTACCA
44871627 A
1 A
44871628 AGTTGTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (30 bp):
AGGCATAGGGGCAAAATGGTCATTTTACCA
Found at i:44872107 original size:48 final size:46
Alignment explanation
Indices: 44872016--44872282 Score: 218
Period size: 47 Copynumber: 5.7 Consensus size: 46
44872006 GATTTGTACT
* * *
44872016 AGTGTAAGACATGTCTGGGACATGCATCAGCATGCATAAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGAGCC
* *
44872064 AGTGTAAGACCATGTCTGGGACATGGCAGCGGCACAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGAGCC
* * * * * *
44872112 AGAGTAAGACATGTTTGGGACATGCATCGACCTCAACAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCAC-AGAGATGAGAGCC
* * ** * * *
44872159 AGTGTATGACCTGTCTGGGACACACATCGGCTA-AGAG-T-TGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGAGCC
* * *
44872203 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGAGCC
44872251 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
44872283 TAATATTTCC
Statistics
Matches: 169, Mismatches: 37, Indels: 24
0.73 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 28 0.17
45 3 0.02
46 8 0.05
47 44 0.26
48 44 0.26
49 28 0.17
50 13 0.08
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGAGCC
Found at i:44872222 original size:91 final size:92
Alignment explanation
Indices: 44871969--44872282 Score: 341
Period size: 93 Copynumber: 3.4 Consensus size: 92
44871959 TGATTTGTGT
* * * * *
44871969 GCCAGTGTAAGACTTGTCTGGGACACGGATCAGCTAAGATTTGTACTAGTGTAAGACATGTCTGG
1 GCCAGTGTAAGACCTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGG
44872034 GACATGCATCAGCATGCATAAATGAGA
66 GACATGCATCAGCATGCATAAATGAGA
* * * * *
44872061 GCCAGTGTAAGACCATGTCTGGGACATGGCAGCGGC-ACAGAGATGAGTGCCAGAGTAAGACATG
1 GCCAGTGTAAGACC-TGTCTGGGACA-CGCATCGGCTA-AGAG-T-TGTGCTAGTGTAAGACATG
* * *
44872125 TTTGGGACATGCATC-GACCT-CA-ACAGA-GATA
61 TCTGGGACATGCATCAG-CATGCATA-A-ATGAGA
* *
44872156 GCCAGTGTATGACCTGTCTGGGACACACATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGG
1 GCCAGTGTAAGACCTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGG
* *
44872221 GACATGCATCAGCACGCATATATGAGA
66 GACATGCATCAGCATGCATAAATGAGA
*
44872248 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGACC-TGTCTGGGACA-CGCATCGG
44872283 TAATATTTCC
Statistics
Matches: 179, Mismatches: 28, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
91 32 0.18
92 33 0.18
93 34 0.19
94 27 0.15
95 21 0.12
96 32 0.18
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (92 bp):
GCCAGTGTAAGACCTGTCTGGGACACGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGG
GACATGCATCAGCATGCATAAATGAGA
Found at i:44874127 original size:44 final size:44
Alignment explanation
Indices: 44874064--44874149 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
44874054 TTTTTTCACA
44874064 TGTCTATGTTACGACGGTATCGATTTGATCCTTAACATATTAGT
1 TGTCTATGTTACGACGGTATCGATTTGATCCTTAACATATTAGT
* *
44874108 TGTCTATGTTATGACGGTATCGATTTGATCCTTCACATATTA
1 TGTCTATGTTACGACGGTATCGATTTGATCCTTAACATATTA
44874150 TTTCCTCGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (44 bp):
TGTCTATGTTACGACGGTATCGATTTGATCCTTAACATATTAGT
Found at i:44875645 original size:49 final size:50
Alignment explanation
Indices: 44875562--44875685 Score: 157
Period size: 49 Copynumber: 2.5 Consensus size: 50
44875552 GTCATTAAGG
* * *
44875562 TTACCGATTCTCAACTCGTATGAGCTTATCAATTTGTAGCTAT-TGAGAGC
1 TTACCGATTCTCAGCTCGTATGAGCTTACCAATTTATAGCT-TGTGAGAGC
44875612 TTACCGATTCTCAGCTC-TATGAGC-TACCAAATTTATAGCTTGTGAGAGC
1 TTACCGATTCTCAGCTCGTATGAGCTTACC-AATTTATAGCTTGTGAGAGC
*
44875661 ATACCGATTCAT-AGCTCGTATGAGC
1 TTACCGATTC-TCAGCTCGTATGAGC
44875686 ATACATGTAC
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
48 4 0.06
49 38 0.58
50 24 0.36
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (50 bp):
TTACCGATTCTCAGCTCGTATGAGCTTACCAATTTATAGCTTGTGAGAGC
Found at i:44880772 original size:13 final size:13
Alignment explanation
Indices: 44880750--44880782 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44880740 AAGGGTTTGT
44880750 TTAT-TAAACTAA
1 TTATCTAAACTAA
44880762 TTATCTAAACTAA
1 TTATCTAAACTAA
*
44880775 TTAACTAA
1 TTATCTAA
44880783 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:44883715 original size:5 final size:5
Alignment explanation
Indices: 44883692--44883768 Score: 59
Period size: 5 Copynumber: 14.4 Consensus size: 5
44883682 AAATTAAAAT
* *
44883692 AATAA AATTGA AATGAA AATAAA AATAA AA-AA GAAGAAA AATAA AA-ATA
1 AATAA AA-TAA AAT-AA AAT-AA AATAA AATAA -AA-TAA AATAA AATA-A
44883741 AATAA AATAA AATAA AATAA GAATAA AA
1 AATAA AATAA AATAA AATAA -AATAA AA
44883769 AGATAGGAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
4 3 0.05
5 34 0.57
6 21 0.35
7 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:44883758 original size:10 final size:10
Alignment explanation
Indices: 44883692--44883768 Score: 59
Period size: 11 Copynumber: 7.2 Consensus size: 10
44883682 AAATTAAAAT
*
44883692 AATAAAATTGA
1 AATAAAA-TAA
44883703 AATGAAAATAAA
1 AAT-AAAAT-AA
44883715 AATAAAA-AA
1 AATAAAATAA
*
44883724 GAAGAAAAATAA
1 -AA-TAAAATAA
44883736 AA-ATAAATAA
1 AATA-AAATAA
44883746 AATAAAATAA
1 AATAAAATAA
44883756 AATAAGAATAA
1 AATAA-AATAA
44883767 AA
1 AA
44883769 AGATAGGAGG
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
9 3 0.05
10 21 0.38
11 22 0.39
12 10 0.18
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (10 bp):
AATAAAATAA
Found at i:44889087 original size:13 final size:13
Alignment explanation
Indices: 44889065--44889097 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44889055 AAGGGTTTGT
44889065 TTAT-TAAACTAA
1 TTATCTAAACTAA
44889077 TTATCTAAACTAA
1 TTATCTAAACTAA
*
44889090 TTAACTAA
1 TTATCTAA
44889098 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:44894679 original size:10 final size:11
Alignment explanation
Indices: 44894634--44894688 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
44894624 AAATATTATC
44894634 TTATTAATATT
1 TTATTAATATT
*
44894645 TTGACTTGATA-T
1 TT-A-TTAATATT
*
44894657 TTATTTATATT
1 TTATTAATATT
44894668 TTATTAAT-TT
1 TTATTAATATT
44894678 TTAGTTAATAT
1 TTA-TTAATAT
44894689 ATAAGGAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 10 0.28
11 16 0.44
12 5 0.14
13 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (11 bp):
TTATTAATATT
Found at i:44895212 original size:37 final size:37
Alignment explanation
Indices: 44895162--44895234 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
44895152 TCGTAAAAGA
44895162 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
1 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
44895199 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAA
1 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAA
44895235 ATGATTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (37 bp):
TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
Found at i:44896423 original size:26 final size:26
Alignment explanation
Indices: 44896355--44896424 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
44896345 ATTCCGACCT
*
44896355 ACAGCTTGTGTGAGCAGACCCATTTC
1 ACAGCTTGTGTGAGCATACCCATTTC
* *
44896381 ACAGCTTTTGTGAGCATACTCATTTC
1 ACAGCTTGTGTGAGCATACCCATTTC
* *
44896407 ATAGCTCGTGTGAGCATA
1 ACAGCTTGTGTGAGCATA
44896425 TATGTACAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (26 bp):
ACAGCTTGTGTGAGCATACCCATTTC
Found at i:44900009 original size:22 final size:21
Alignment explanation
Indices: 44899984--44900045 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
44899974 TTTAGCATGC
44899984 TTACCATGTTGCACTT-TTGCAT
1 TTACCAT-TTGCACTTCTTGC-T
* *
44900006 TTACTATTTTGTACTTCGTTGCT
1 TTACCA-TTTGCACTTC-TTGCT
44900029 TTACCATTCTGCACTTC
1 TTACCATT-TGCACTTC
44900046 GGTACCTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 14 0.44
23 14 0.44
24 4 0.12
ACGTcount: A:0.16, C:0.24, G:0.11, T:0.48
Consensus pattern (21 bp):
TTACCATTTGCACTTCTTGCT
Found at i:44900031 original size:23 final size:24
Alignment explanation
Indices: 44899984--44900046 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
44899974 TTTAGCATGC
44899984 TTACCATGT-TGCACTT--TTGCAT
1 TTACCAT-TCTGCACTTCGTTGCAT
* * *
44900006 TTACTATTTTGTACTTCGTTGC-T
1 TTACCATTCTGCACTTCGTTGCAT
44900029 TTACCATTCTGCACTTCG
1 TTACCATTCTGCACTTCG
44900047 GTACCTACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.36
23 16 0.48
24 4 0.12
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.48
Consensus pattern (24 bp):
TTACCATTCTGCACTTCGTTGCAT
Found at i:44900093 original size:22 final size:22
Alignment explanation
Indices: 44900038--44900099 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
44900028 TTTACCATTC
* * *
44900038 TGCACTTCGGTACCTACTGTTT
1 TGCACTTCGGTGCTTACTGATT
* *
44900060 TGCACTTTGGTGCTTAGTGATT
1 TGCACTTCGGTGCTTACTGATT
44900082 TGCACTTCGGTGCTTACT
1 TGCACTTCGGTGCTTACT
44900100 ATTCTATTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.42
Consensus pattern (22 bp):
TGCACTTCGGTGCTTACTGATT
Found at i:44903218 original size:25 final size:24
Alignment explanation
Indices: 44903190--44903246 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
44903180 TATACTTCCG
*
44903190 TCTTGCGAACCCAGCTCACATCTTT
1 TCTTGCGAACCCAGCTCACATC-TA
* *
44903215 TCTTGCGAACCCAGTTCGCATCTA
1 TCTTGCGAACCCAGCTCACATCTA
44903239 TCTTGCGA
1 TCTTGCGA
44903247 CCCCTACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.19, C:0.33, G:0.16, T:0.32
Consensus pattern (24 bp):
TCTTGCGAACCCAGCTCACATCTA
Found at i:44905831 original size:47 final size:47
Alignment explanation
Indices: 44905771--44905942 Score: 184
Period size: 47 Copynumber: 3.5 Consensus size: 47
44905761 TTACACGGAT
* *
44905771 CACATATCACACTGATGCTATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGAAG
* *
44905818 CACATATCACACTGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGAAG
* * * *
44905865 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACAGAAAT
1 CACATATCACA---CT--GATGCCATATCCCAGATATGGTCTTATACAG-AAG
* *
44905918 CACATTTCACA-TGCTGCCATGATCC
1 CACATATCACACTGATGCCAT-ATCC
44905943 AACCATGGTC
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
47 60 0.58
48 3 0.03
49 1 0.01
50 2 0.02
52 26 0.25
53 12 0.12
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:44912965 original size:12 final size:12
Alignment explanation
Indices: 44912944--44912972 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44912934 TACTGTTGGG
44912944 ATTT-TGAAACA
1 ATTTATGAAACA
44912955 ATTTATGAAACA
1 ATTTATGAAACA
44912967 ATTTAT
1 ATTTAT
44912973 CCGAAGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (12 bp):
ATTTATGAAACA
Found at i:44918472 original size:33 final size:33
Alignment explanation
Indices: 44918430--44918527 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
44918420 AAAAATTATT
44918430 TTTTTTTAAAAATTATGTAAGAGTTATTAATTA
1 TTTTTTTAAAAATTATGTAAGAGTTATTAATTA
** *
44918463 TTTTTTTAAAGTTTATAT-A-A---A--AATTA
1 TTTTTTTAAAAATTATGTAAGAGTTATTAATTA
44918489 TTTTTTTAAAAATTATGTAAGAGTTATTAATTA
1 TTTTTTTAAAAATTATGTAAGAGTTATTAATTA
44918522 TTTTTT
1 TTTTTT
44918528 ATTTACTTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
26 20 0.38
27 1 0.02
28 2 0.04
31 2 0.04
32 1 0.02
33 26 0.50
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (33 bp):
TTTTTTTAAAAATTATGTAAGAGTTATTAATTA
Found at i:44918517 original size:59 final size:60
Alignment explanation
Indices: 44918406--44918527 Score: 228
Period size: 59 Copynumber: 2.0 Consensus size: 60
44918396 GAAAAAATAA
44918406 TTTAAAGTTTATATAAAAATTATTTTTTTTTAAAAATTATGTAAGAGTTATTAATTATTTT
1 TTTAAAGTTTATATAAAAATTA-TTTTTTTTAAAAATTATGTAAGAGTTATTAATTATTTT
44918467 TTTAAAGTTTATATAAAAATTA-TTTTTTTAAAAATTATGTAAGAGTTATTAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTTTTTTAAAAATTATGTAAGAGTTATTAATTATTTT
44918526 TT
1 TT
44918528 ATTTACTTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 39 0.64
61 22 0.36
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (60 bp):
TTTAAAGTTTATATAAAAATTATTTTTTTTAAAAATTATGTAAGAGTTATTAATTATTTT
Found at i:44922388 original size:48 final size:48
Alignment explanation
Indices: 44922332--44922643 Score: 473
Period size: 48 Copynumber: 6.5 Consensus size: 48
44922322 TGATCCCGTA
* * * *
44922332 TAAGACCATGTCTGGGACATTGCATCGACATCGTTATTTGAGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
*
44922380 TAAGACCATGTCTGGGACATGGCATCGGCAT-GTTATGTGAGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
*
44922427 TAAGACCATGTCTAGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* *
44922475 TAAGACCATGTTTGGGACATGGAATCGGCATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* * **
44922523 TAAGACCATGTCTGGGACTTGGCATCGACATTATTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* * *
44922571 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATATGACCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
*
44922619 TAAGACCATGTTTGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
44922644 TAGCGTGAGG
Statistics
Matches: 243, Mismatches: 20, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
47 45 0.19
48 198 0.81
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
Found at i:44922560 original size:96 final size:95
Alignment explanation
Indices: 44922287--44922643 Score: 481
Period size: 96 Copynumber: 3.8 Consensus size: 95
44922277 ATGCGTAACC
* * * * * *
44922287 GTGTAAGACCATATGTGGGATATGGCATCGGC-----ATGTGATCCCGTATAAGACCATGTCTGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATGTTATGTGAGCCAGTGTAAGACCATGTCTGG
* *
44922347 GACATTGCATCGACATCGTTATTTGAGCCA
66 GACATGGCATCGACATCGTTATGTGAGCCA
* * *
44922377 ATGTAAGACCATGTCTGGGACATGGCATCGGCATGTTATGTGAGCCAATGTAAGACCATGTCTAG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATGTTATGTGAGCCAGTGTAAGACCATGTCTGG
*
44922442 GACATGGCATCGGCATCGTTATGTGAGCCA
66 GACATGGCATCGACATCGTTATGTGAGCCA
* *
44922472 GTGTAAGACCATGTTTGGGACATGGAATCGGCATCGTTATGTGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GTTATGTGAGCCAGTGTAAGACCATGTCTG
* **
44922537 GGACTTGGCATCGACATTATTATGTGAGCCA
65 GGACATGGCATCGACATCGTTATGTGAGCCA
* * *
44922568 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATATGACCCAGTGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGTTATGTGAGCCAGTGTAAGACCATGTCTG
44922633 GGACATGGCAT
65 GGACATGGCAT
44922644 TAGCGTGAGG
Statistics
Matches: 233, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
90 28 0.12
95 81 0.35
96 123 0.53
97 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (95 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATGTTATGTGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCGTTATGTGAGCCA
Found at i:44925691 original size:20 final size:21
Alignment explanation
Indices: 44925653--44925691 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44925643 TTAGATTGGA
*
44925653 TTTAAATTAAAATGGTTAGAT
1 TTTAAATTAAAATGCTTAGAT
*
44925674 TTTAAGTTAAAAT-CTTAG
1 TTTAAATTAAAATGCTTAG
44925692 GGGCATATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (21 bp):
TTTAAATTAAAATGCTTAGAT
Found at i:44928219 original size:3 final size:3
Alignment explanation
Indices: 44928211--44928313 Score: 54
Period size: 3 Copynumber: 34.7 Consensus size: 3
44928201 AAGCATAAAC
* * * *
44928211 AAT AAT AAT AAT GAT GCA- AAT GAT AAT -AT AAGT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * * * *
44928256 CAA- AAT AAT AAT -AT AAAT AGT AAT AAT AAT GAT GAT GAT ATT AAT
1 -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44928301 AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AA
44928314 ATAAAAAACT
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
2 9 0.12
3 61 0.78
4 8 0.10
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44928251 original size:30 final size:33
Alignment explanation
Indices: 44928217--44928289 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 33
44928207 AAACAATAAT
*
44928217 AATAATGATGC-AAATGATAATAT-A-AGTAAC
1 AATAATGATGCAAAATAATAATATAATAGTAAC
* *
44928247 AATAATAAT-CAAAATAATAATATAAATAGTAAT
1 AATAATGATGCAAAATAATAATAT-AATAGTAAC
44928280 AATAATGATG
1 AATAATGATG
44928290 ATGATATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 1 0.03
30 19 0.56
32 1 0.03
33 13 0.38
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (33 bp):
AATAATGATGCAAAATAATAATATAATAGTAAC
Found at i:44935040 original size:21 final size:20
Alignment explanation
Indices: 44934994--44935042 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
44934984 GTTTATGCAT
*
44934994 GTTTGAATGGTGTTTGAATC
1 GTTTGAATGGTGTTTAAATC
** *
44935014 CCTTGAATGTGTGTTTAAATG
1 GTTTGAATG-GTGTTTAAATC
44935035 GTTTGAAT
1 GTTTGAAT
44935043 AGTTATGCAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.22, C:0.06, G:0.27, T:0.45
Consensus pattern (20 bp):
GTTTGAATGGTGTTTAAATC
Found at i:44936304 original size:29 final size:29
Alignment explanation
Indices: 44936254--44936309 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
44936244 ATATTATATC
*
44936254 AAATCTAAAATATATGATAATTTATAAATA
1 AAATCTAAAATATATGA-AAATTATAAATA
*
44936284 AAATTTAAAA-ATATGAAAATTATAAA
1 AAATCTAAAATATATGAAAATTATAAA
44936310 GGGACGACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 6 0.25
30 9 0.38
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (29 bp):
AAATCTAAAATATATGAAAATTATAAATA
Found at i:44940336 original size:53 final size:53
Alignment explanation
Indices: 44940256--44940356 Score: 148
Period size: 53 Copynumber: 1.9 Consensus size: 53
44940246 TAAATAATTA
* * * *
44940256 TTACTTGAATAATTATATTTATTTAAGAGATATTACTTGAATAGTTATATTTC
1 TTACTTGAATAATTATATCTATGTAAGAGATATTAATTGAATAATTATATTTC
* *
44940309 TTACTTTAATAGTTATATCTATGTAAGAGATATTAATTGAATAATTAT
1 TTACTTGAATAATTATATCTATGTAAGAGATATTAATTGAATAATTAT
44940357 GTTTATTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (53 bp):
TTACTTGAATAATTATATCTATGTAAGAGATATTAATTGAATAATTATATTTC
Found at i:44944822 original size:35 final size:35
Alignment explanation
Indices: 44944776--44944850 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
44944766 TCATTCACAT
44944776 ACATTTATGCAATTATCATCTTAAACTATTCTCAA
1 ACATTTATGCAATTATCATCTTAAACTATTCTCAA
*
44944811 ACATTTATGCAATTATTATCTTAAACTATTCTCAA
1 ACATTTATGCAATTATCATCTTAAACTATTCTCAA
44944846 ACATT
1 ACATT
44944851 CACATTGTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.41
Consensus pattern (35 bp):
ACATTTATGCAATTATCATCTTAAACTATTCTCAA
Found at i:44951275 original size:46 final size:46
Alignment explanation
Indices: 44951225--44951393 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
44951215 TGAGCATCTA
*
44951225 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAGTCCG
* * *
44951271 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAAGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AAG--TCCG
* * * *
44951318 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAGTCCG
* *
44951364 AGCTCGTTGAGTTGAGTCCGATTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
44951394 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 55 0.53
47 29 0.28
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAGTCCG
Found at i:44951655 original size:19 final size:20
Alignment explanation
Indices: 44951618--44951655 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44951608 ATAAGGTGGT
44951618 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44951638 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44951656 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44958778 original size:46 final size:46
Alignment explanation
Indices: 44958728--44958900 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
44958718 TGGTTGAGCA
*
44958728 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
44958774 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
44958821 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
44958867 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44958901 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44958884 original size:93 final size:93
Alignment explanation
Indices: 44958725--44958895 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
44958715 GGATGGTTGA
* *
44958725 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44958790 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
44958818 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44958883 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44958896 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44959161 original size:19 final size:20
Alignment explanation
Indices: 44959124--44959161 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44959114 ATAAGGTGGT
44959124 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44959144 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44959162 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44963090 original size:27 final size:27
Alignment explanation
Indices: 44962969--44963094 Score: 143
Period size: 27 Copynumber: 4.7 Consensus size: 27
44962959 TTAGTTTACC
44962969 AAATTACTGAAATATCCC-CAG-TTGTA
1 AAATTACTGAAATA-CCCTCAGTTTGTA
* *
44962995 AAATTACT-AAAGTACCCCCAGTTTATA
1 AAATTACTGAAA-TACCCTCAGTTTGTA
** *
44963022 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACTGAAATACCCTCAG-TTTGTA
*
44963049 AAATTACTGAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTCAGTTTGTA
44963076 AAATTACTGAAATACCCTC
1 AAATTACTGAAATACCCTC
44963095 GATCAATAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
25 6 0.07
26 14 0.16
27 61 0.72
28 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAGTTTGTA
Done.