Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 129 of 259
Found at i:41755637 original size:46 final size:46
Alignment explanation
Indices: 41755506--41755763 Score: 199
Period size: 46 Copynumber: 5.5 Consensus size: 46
41755496 TTTGTGTGCT
* ** *
41755506 AGTGTAAGACATGTCTGGAACATGCATCGGCC-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGAGAGCC
* * *
41755552 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGAGAGCC
* *
41755600 AGTATAAGACATGTCTAGGACATGCATCGGCCTTGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATG-AGAGCC
* * * *
41755646 AGTGTAAGACATGTTTGGGATATGCATCGG-C-T-ACGA-GACGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGA-GAGCC
* * * *
41755690 AGTGTAAGACCATGTCTGGGAGATGACATCGG-CAT-ATATAGAGGTGCC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTTGAGAT-GA-GAGCC
*
41755738 AGTGTAAGACCATGTCTAGGACATGC
1 AGTGTAAGA-CATGTCTGGGACATGC
41755764 CATTGGCACG
Statistics
Matches: 175, Mismatches: 25, Indels: 23
0.78 0.11 0.10
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 14 0.08
45 14 0.08
46 61 0.35
47 30 0.17
48 52 0.30
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAGAGCC
Found at i:41762043 original size:49 final size:47
Alignment explanation
Indices: 41761831--41762504 Score: 1046
Period size: 47 Copynumber: 14.2 Consensus size: 47
41761821 AATTCTAAAT
41761831 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
41761878 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
41761925 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41761973 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
41762022 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
41762069 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATA
* *
41762118 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41762165 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
41762214 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41762259 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
41762306 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
41762355 TGTGATAAGGCTTAACGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
41762402 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
41762449 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
41762496 TGTGATAAG
1 TGTGATAAG
41762505 TCCCGAAGGG
Statistics
Matches: 578, Mismatches: 38, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
45 44 0.08
47 312 0.54
48 45 0.08
49 177 0.31
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:41762081 original size:96 final size:94
Alignment explanation
Indices: 41761831--41762504 Score: 1055
Period size: 96 Copynumber: 7.1 Consensus size: 94
41761821 AATTCTAAAT
*
41761831 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
41761896 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
* * * *
41761925 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
1 TGTG-ATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
41761990 GCCGATGTGATGAATGTGAAAGTGTATATATA
65 GCCGATGTGATGAATGTGAAAGTG--TATATA
41762022 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
41762087 CCGATGTGATGAATGTGAAAGTGTGTATATA
66 CCGATGTGATGAATGTGAAA--GTGTATATA
* *
41762118 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
41762183 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTG--TATATA
41762214 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
41762277 CCGATGTGATGAATGTGAAAGTGTATATG
66 CCGATGTGATGAATGTGAAAGTGTATATA
* * * *
41762306 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAC
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
*
41762371 GGCCGATGTGATGAATGTGAAAGTGTATATG
64 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
41762402 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
41762467 CCAATGTGATGGATGTGAAAGTGCATAAA
66 CCGATGTGATGAATGTGAAAGTGTATATA
41762496 TGTGATAAG
1 TGTGATAAG
41762505 TCCCGAAGGG
Statistics
Matches: 538, Mismatches: 31, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
92 44 0.08
94 100 0.19
95 81 0.15
96 300 0.56
97 10 0.02
98 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:41762241 original size:22 final size:22
Alignment explanation
Indices: 41762213--41762286 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
41762203 GTGTATATAT
41762213 ATGTGATAAGGCTTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
* * * ***
41762235 ATGTGATGAATG-TGAAAGTGTAT
1 ATGTGAT-AAGGCTTAATG-GCCG
*
41762258 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCTTAATGGCCG
41762280 ATGTGAT
1 ATGTGAT
41762287 GAATGTGAAA
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (22 bp):
ATGTGATAAGGCTTAATGGCCG
Found at i:41762692 original size:37 final size:37
Alignment explanation
Indices: 41762623--41762701 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
41762613 CCGAGTTCTA
* * * *
41762623 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGCGGAGATTATGTCCGGGT
*
41762660 AAGACCCGATAACTTCGTGCGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGCGGAGATTATGTCCGGGT
41762697 AAGAC
1 AAGAC
41762702 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGCGGAGATTATGTCCGGGT
Found at i:41765959 original size:15 final size:15
Alignment explanation
Indices: 41765922--41765953 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
41765912 CTAAGAGCCC
41765922 TCAAAATTAGCCTTT
1 TCAAAATTAGCCTTT
41765937 TCAAAATTAGCCTTT
1 TCAAAATTAGCCTTT
41765952 TC
1 TC
41765954 TGAATTGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (15 bp):
TCAAAATTAGCCTTT
Found at i:41806229 original size:17 final size:17
Alignment explanation
Indices: 41806209--41806256 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
41806199 TTTTACCCAT
*
41806209 TAAATTCTTTTAATTCA
1 TAAATTCTTCTAATTCA
*
41806226 TAAAATTC-ACTAATTCA
1 T-AAATTCTTCTAATTCA
*
41806243 AAAATTCTTCTAAT
1 TAAATTCTTCTAAT
41806257 GTCTTAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.24
17 13 0.52
18 6 0.24
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTCTTCTAATTCA
Found at i:41806753 original size:32 final size:32
Alignment explanation
Indices: 41806712--41806775 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
41806702 AAGCTTTAGG
41806712 GCCATTTATAACCTTGGAAACAAGAAATTGAC
1 GCCATTTATAACCTTGGAAACAAGAAATTGAC
*
41806744 GCCATTTATAACGTTGGAAACAAGAAATTGAC
1 GCCATTTATAACCTTGGAAACAAGAAATTGAC
41806776 TCTTACACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (32 bp):
GCCATTTATAACCTTGGAAACAAGAAATTGAC
Found at i:41809412 original size:40 final size:41
Alignment explanation
Indices: 41809353--41809563 Score: 283
Period size: 40 Copynumber: 5.3 Consensus size: 41
41809343 CATTTGAATG
* * *
41809353 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* *
41809393 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
41809433 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
41809473 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
41809512 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
41809552 ATATCC-GGCTAA
1 ATATCCGGGCTAA
41809564 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 40 0.27
40 108 0.72
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:41809559 original size:79 final size:80
Alignment explanation
Indices: 41809353--41809543 Score: 330
Period size: 79 Copynumber: 2.4 Consensus size: 80
41809343 CATTTGAATG
*
41809353 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
41809418 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
41809433 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
41809497 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
*
41809512 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
41809544 GAGTTGATAT
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 52 0.50
80 52 0.50
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:41817469 original size:40 final size:41
Alignment explanation
Indices: 41817410--41817601 Score: 259
Period size: 40 Copynumber: 4.8 Consensus size: 41
41817400 CATTTGAATG
* *
41817410 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
41817450 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
41817490 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
41817530 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
41817569 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
41817602 TGTGGTGATA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.26
40 94 0.72
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:41817593 original size:79 final size:80
Alignment explanation
Indices: 41817410--41817601 Score: 332
Period size: 79 Copynumber: 2.4 Consensus size: 80
41817400 CATTTGAATG
*
41817410 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
41817475 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGAT
* *
41817490 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
41817554 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGAT
*
41817569 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT
41817602 TGTGGTGATA
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 53 0.50
80 52 0.50
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGAT
Found at i:41825868 original size:40 final size:40
Alignment explanation
Indices: 41825813--41825947 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
41825803 TTAGTTACCG
41825813 GGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAA
1 GGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAA
* *
41825853 GGCATTTGCGCGAGTTACTAAATCTGGGCTAAGTCCCGAA
1 GGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAA
* * * *
41825893 GGCAATTGTGCGAGTTACTCTAA-CCGGGCTATGTCCCAAA
1 GGCATTTGTGCGAGTTACT-AAATCCGGGCTAAGTCCCGAA
*
41825933 GGCATTTGAGCGAGT
1 GGCATTTGTGCGAGT
41825948 AGCTATATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 82 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAA
Found at i:41832904 original size:27 final size:27
Alignment explanation
Indices: 41832873--41833050 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
41832863 TAAATTGTAC
41832873 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
41832900 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41832926 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
41832954 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
41832982 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41833009 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
41833036 AGTACTGAGTGTGCG
1 AGCACTAAGTGTGCG
41833051 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:41832987 original size:82 final size:81
Alignment explanation
Indices: 41832874--41833029 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41832864 AAATTGTACA
* *
41832874 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
41832938 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
41832955 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
41833020 TGCGAGTTGA
65 TGCGAATTGA
41833030 TTATATAGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:41837210 original size:25 final size:25
Alignment explanation
Indices: 41837176--41837229 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
41837166 TGTGCGGTTG
**
41837176 ACACAGCCTTGGACGTAGGCGTGTT
1 ACACAGCCTTGGACACAGGCGTGTT
*
41837201 ACACAGCCTTGGACACGGGCGTGTT
1 ACACAGCCTTGGACACAGGCGTGTT
41837226 ACAC
1 ACAC
41837230 GGCCGTGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (25 bp):
ACACAGCCTTGGACACAGGCGTGTT
Found at i:41855481 original size:40 final size:40
Alignment explanation
Indices: 41855426--41855649 Score: 290
Period size: 40 Copynumber: 5.5 Consensus size: 40
41855416 TATTCGGATG
41855426 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
41855466 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
41855509 ATACCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** *
41855549 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAA-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACT
* * *
41855589 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
41855629 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
41855650 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 14 0.09
40 108 0.68
41 2 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:41855569 original size:83 final size:80
Alignment explanation
Indices: 41855430--41855649 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
41855420 CGGATGATAT
* **
41855430 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
41855495 TGCGAGTAGTTG-CTATAC
66 TGC---TA-ATGACTATAC
* *
41855513 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
41855578 TGCTAATGACTATAT
66 TGCTAATGACTATAC
* * *
41855593 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
41855650 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.13
80 43 0.35
81 2 0.02
83 63 0.51
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAATGACTATAC
Found at i:41858139 original size:9 final size:8
Alignment explanation
Indices: 41858114--41858138 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41858104 ACTATCTCTC
41858114 TCTTTTTT
1 TCTTTTTT
41858122 TCTTTTTT
1 TCTTTTTT
41858130 TCTTTTTT
1 TCTTTTTT
41858138 T
1 T
41858139 TTTACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:41870422 original size:25 final size:25
Alignment explanation
Indices: 41870394--41870444 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
41870384 TTATTCAACA
41870394 TGGTATATCATTTCATGCATACATG
1 TGGTATATCATTTCATGCATACATG
41870419 TGGTATATCATTTCATGCATACATG
1 TGGTATATCATTTCATGCATACATG
41870444 T
1 T
41870445 CTATAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (25 bp):
TGGTATATCATTTCATGCATACATG
Found at i:41871573 original size:58 final size:56
Alignment explanation
Indices: 41871435--41871575 Score: 140
Period size: 57 Copynumber: 2.4 Consensus size: 56
41871425 ATGTATACAA
** * * *
41871435 CAGGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAGGAGCTTGAT
1 CAGGATTACC-GTCCAGGCTAAATCCCATCTATAACATATGCTCGAAGGAGCTTGAT
* * * * *
41871492 CTGGATTACACGTTCGGGCTAAATCCCATCTATAACATGTGCTCGAGAGGA-CTTATAT
1 CAGGATTAC-CGTCCAGGCTAAATCCCATCTATAACATATGCTCGA-AGGAGCTT-GAT
41871550 CAGGATTACCTGTCCAGGCTAAATCC
1 CAGGATTACC-GTCCAGGCTAAATCC
41871576 TTGTCTGTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
57 39 0.58
58 28 0.42
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (56 bp):
CAGGATTACCGTCCAGGCTAAATCCCATCTATAACATATGCTCGAAGGAGCTTGAT
Found at i:41874096 original size:9 final size:9
Alignment explanation
Indices: 41874082--41874106 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
41874072 TGCTTGCTGT
41874082 AGAGAAATA
1 AGAGAAATA
41874091 AGAGAAATA
1 AGAGAAATA
41874100 AGAGAAA
1 AGAGAAA
41874107 ATGATGCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (9 bp):
AGAGAAATA
Found at i:41874508 original size:21 final size:21
Alignment explanation
Indices: 41874467--41874508 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41874457 TGAGTCTATT
**
41874467 TTCAAGAGAAACAAATGGAAA
1 TTCAAGAGAAACAAACAGAAA
*
41874488 TTCAAGATAAACAAACAGAAA
1 TTCAAGAGAAACAAACAGAAA
41874509 CATCATCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.14, T:0.14
Consensus pattern (21 bp):
TTCAAGAGAAACAAACAGAAA
Found at i:41874884 original size:18 final size:18
Alignment explanation
Indices: 41874861--41874917 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
41874851 CAAGTGGACC
41874861 ACACGGGTGTGTGGGCCT
1 ACACGGGTGTGTGGGCCT
*
41874879 ACACGGGTAG-AT----C-
1 ACACGGGT-GTGTGGGCCT
41874892 ACACGGGTGTGTGGGCCT
1 ACACGGGTGTGTGGGCCT
41874910 ACACGGGT
1 ACACGGGT
41874918 AGATCACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 1 0.03
13 9 0.30
14 1 0.03
17 1 0.03
18 17 0.57
19 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.40, T:0.19
Consensus pattern (18 bp):
ACACGGGTGTGTGGGCCT
Found at i:41874897 original size:31 final size:31
Alignment explanation
Indices: 41874860--41874935 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
41874850 CCAAGTGGAC
41874860 CACACGGGTGTGTGGGCCTACACGGGTAGAT
1 CACACGGGTGTGTGGGCCTACACGGGTAGAT
41874891 CACACGGGTGTGTGGGCCTACACGGGTAGAT
1 CACACGGGTGTGTGGGCCTACACGGGTAGAT
**
41874922 CACATAGGTGTGTG
1 CACACGGGTGTGTG
41874936 AGCCCATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.20, C:0.21, G:0.38, T:0.21
Consensus pattern (31 bp):
CACACGGGTGTGTGGGCCTACACGGGTAGAT
Found at i:41875309 original size:23 final size:24
Alignment explanation
Indices: 41875283--41875327 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
41875273 ATATCCCAAC
*
41875283 ATGGAGTGTAG-GGTTGGATGGAA
1 ATGGAGTGTAGAGGCTGGATGGAA
*
41875306 ATGGCGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
41875328 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.24
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAA
Found at i:41875447 original size:34 final size:34
Alignment explanation
Indices: 41875401--41875468 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
41875391 GCATTTTTGG
*
41875401 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAGAAGGGCTAAGGCCCAAGACTGT
* *
41875434 CACTGATATTGAGAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAGAAGGGCTAAGGCCCAAGACTGT
41875469 TCAACTATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (34 bp):
CACTGTACTGAGAAGGGCTAAGGCCCAAGACTGT
Found at i:41894704 original size:17 final size:17
Alignment explanation
Indices: 41894661--41894715 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
41894651 GTAAATAATA
*
41894661 ATTCAACACTATATTGTAT
1 ATTCAACACTA-ATAG-AT
*
41894680 ATTTAACACTAATAGAT
1 ATTCAACACTAATAGAT
*
41894697 ATTCAACACTAATAAAT
1 ATTCAACACTAATAGAT
41894714 AT
1 AT
41894716 AAACTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 19 0.59
18 3 0.09
19 10 0.31
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (17 bp):
ATTCAACACTAATAGAT
Found at i:41902277 original size:61 final size:60
Alignment explanation
Indices: 41902207--41902384 Score: 161
Period size: 61 Copynumber: 3.0 Consensus size: 60
41902197 TTGTTAAATT
*
41902207 ATATTTAATAATAATAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAATAATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAAGA
* * * * * *
41902268 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAATAATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAAGA
* * *
41902328 ATTATTTTA-AATTAT-ATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATAATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
41902385 TTTTATCAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 17 0.18
61 44 0.47
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (60 bp):
ATATTTAATAATAATAATTTTATATATTATATATTATGATTTTAATAAATTCATATAAGA
Found at i:41902337 original size:26 final size:25
Alignment explanation
Indices: 41902299--41902357 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
41902289 ATTAAATTAT
*
41902299 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
41902325 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
41902351 ATATTAT
1 ATATTAT
41902358 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:41902356 original size:15 final size:15
Alignment explanation
Indices: 41902312--41902367 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
41902302 TTTTTGTTAA
*
41902312 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
41902327 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
41902338 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
41902353 ATTATATATTATAAT
1 ATTATATTTTATAAT
41902368 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:41902383 original size:24 final size:22
Alignment explanation
Indices: 41902338--41902406 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
41902328 ATTATTTTAA
41902338 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
41902360 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
41902379 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
41902401 ATTATA
1 ATTATA
41902407 AAAAAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:41902402 original size:17 final size:17
Alignment explanation
Indices: 41902284--41902424 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
41902274 AATACTAAGA
*
41902284 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
41902301 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
41902317 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
41902331 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
41902350 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
41902366 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
41902384 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
* *
41902401 ATTATAA-AAA-AATAT
1 ATTTTAATAAATTATAT
41902416 A-TTTAATAA
1 ATTTTAATAA
41902425 TAATTATGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
13 2 0.02
14 10 0.11
15 15 0.16
16 15 0.16
17 24 0.25
18 24 0.25
19 1 0.01
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:41902673 original size:16 final size:16
Alignment explanation
Indices: 41902652--41902719 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
41902642 GATTTGCTAT
41902652 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
41902668 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
41902684 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
41902700 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
41902716 TACA
1 TACA
41902720 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:41905130 original size:36 final size:35
Alignment explanation
Indices: 41905074--41905142 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
41905064 ATCCTTGCTG
**
41905074 TTTACTTATTTGAATTGTGTCAAGAATCTTTATGA
1 TTTACTTATTTGAAGGGTGTCAAGAATCTTTATGA
41905109 TTTACTTTATTTGAAGGGTGTCAAGAATCTTTAT
1 TTTAC-TTATTTGAAGGGTGTCAAGAATCTTTAT
41905143 TGTATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 5 0.16
36 26 0.84
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.48
Consensus pattern (35 bp):
TTTACTTATTTGAAGGGTGTCAAGAATCTTTATGA
Found at i:41910099 original size:63 final size:63
Alignment explanation
Indices: 41909997--41910116 Score: 213
Period size: 63 Copynumber: 1.9 Consensus size: 63
41909987 CTAAGCCAGT
* *
41909997 AGATTATCCATCAGATCCATTCAGTAAAAAGCCATAAGAAAGAGATTAACCAGGCAAGCTAGC
1 AGATTATCCATCAGATCCATTCAGTAAAAAGCCAAAAGAAAGAGATTAACAAGGCAAGCTAGC
*
41910060 AGATTATCCATCAGATCCATTCAGTAAAAAGCCAAAAGAAAGAGATTTACAAGGCAA
1 AGATTATCCATCAGATCCATTCAGTAAAAAGCCAAAAGAAAGAGATTAACAAGGCAA
41910117 TTTATAGAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (63 bp):
AGATTATCCATCAGATCCATTCAGTAAAAAGCCAAAAGAAAGAGATTAACAAGGCAAGCTAGC
Found at i:41911525 original size:25 final size:25
Alignment explanation
Indices: 41911493--41911542 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
41911483 TCACTTTCCT
41911493 TTCCTTAGCTTTTCCCTCAAATTGG
1 TTCCTTAGCTTTTCCCTCAAATTGG
41911518 TTCCTTAGCTTTTCCCTCAAATTGG
1 TTCCTTAGCTTTTCCCTCAAATTGG
41911543 GGTAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (25 bp):
TTCCTTAGCTTTTCCCTCAAATTGG
Found at i:41916332 original size:28 final size:29
Alignment explanation
Indices: 41916280--41916335 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
41916270 TTAATATTAT
* *
41916280 TTAATTTATTTTAATATTAAAAAAATAAA
1 TTAATCTATTTTAATAATAAAAAAATAAA
*
41916309 TTAATCTA-TTTAATAATAATAAAATAA
1 TTAATCTATTTTAATAATAAAAAAATAA
41916336 TTTAGTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAATCTATTTTAATAATAAAAAAATAAA
Found at i:41916911 original size:24 final size:25
Alignment explanation
Indices: 41916855--41916911 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
41916845 CTTACGAAAT
*
41916855 AATTAAAGAATATAAAAAATTGATT
1 AATTAAAGAATATAAAAAATTGATC
*
41916880 AA-AAAAGAATATAAAAAATT-ATC
1 AATTAAAGAATATAAAAAATTGATC
*
41916903 AATTTAAGA
1 AATTAAAGA
41916912 TTTAGTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 21 0.78
25 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (25 bp):
AATTAAAGAATATAAAAAATTGATC
Found at i:41916992 original size:32 final size:32
Alignment explanation
Indices: 41916956--41917020 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
41916946 TTAATAATGT
41916956 TAAAAATAATTATAACTAATCTATTTAAGACG
1 TAAAAATAATTATAACTAATCTATTTAAGACG
41916988 TAAAAATAATTATAACTAATCTATTTAAGACG
1 TAAAAATAATTATAACTAATCTATTTAAGACG
41917020 T
1 T
41917021 CATTCTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (32 bp):
TAAAAATAATTATAACTAATCTATTTAAGACG
Found at i:41920351 original size:22 final size:22
Alignment explanation
Indices: 41920326--41920378 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
41920316 GCGTAGCAGG
41920326 CTTAGTGCCGGTGTTATTCAAA
1 CTTAGTGCCGGTGTTATTCAAA
* ** **
41920348 CTTATTTTCGGTGTTATTCAGG
1 CTTAGTGCCGGTGTTATTCAAA
41920370 CTTAGTGCC
1 CTTAGTGCC
41920379 TAGCAAGCTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (22 bp):
CTTAGTGCCGGTGTTATTCAAA
Found at i:41920436 original size:22 final size:22
Alignment explanation
Indices: 41920411--41920454 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
41920401 ATTCAGGATT
41920411 AGTGCCTA-GTAGGCTTAGTGCC
1 AGTG-CTATGTAGGCTTAGTGCC
* *
41920433 AGTGTTATTTAGGCTTAGTGCC
1 AGTGCTATGTAGGCTTAGTGCC
41920455 TAGCAGGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (22 bp):
AGTGCTATGTAGGCTTAGTGCC
Found at i:41920476 original size:38 final size:38
Alignment explanation
Indices: 41920358--41920487 Score: 179
Period size: 38 Copynumber: 3.4 Consensus size: 38
41920348 CTTATTTTCG
*
41920358 GTGTTATTCAGGCTTAGTGCCTAGCAAGCTTAGTGCCA
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCA
* * *
41920396 ATGTTATTCAGGATTAGTGCCTAGTAGGCTTAGTGCCA
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCA
* * *
41920434 GTGTTATTTAGGCTTAGTGCCTAGCAGGCTTAGTACCG
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCA
* *
41920472 GTGTTTTTCAGACTTA
1 GTGTTATTCAGGCTTA
41920488 TTACCGGTGT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (38 bp):
GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCA
Found at i:41921838 original size:42 final size:43
Alignment explanation
Indices: 41921720--41921886 Score: 130
Period size: 43 Copynumber: 3.9 Consensus size: 43
41921710 TAAACGTTGT
* * *
41921720 CATCGAT-CTGAGA-TATCATGTAAGACCGTGTCTGGGACACAGG
1 CATCGATACTGA-ATTA-CATGTAAGACCCTGTCTGGGACAGAGA
* * * * * **
41921763 CCTTGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCGA
1 CATCGATACTGA-A-TTACATGTAAGACCCTGTCTGGGACAGAGA
* *
41921807 CATCG-TATCTGAATT-CATGTAAGACCCTGTCTGGAACAGAGG
1 CATCGATA-CTGAATTACATGTAAGACCCTGTCTGGGACAGAGA
41921849 CATCGATACTGAATTACATGTAAGACCAC-GTCTGGGAC
1 CATCGATACTGAATTACATGTAAGACC-CTGTCTGGGAC
41921887 GTAGGTATTG
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
42 33 0.33
43 34 0.34
44 27 0.27
45 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (43 bp):
CATCGATACTGAATTACATGTAAGACCCTGTCTGGGACAGAGA
Found at i:41921882 original size:43 final size:43
Alignment explanation
Indices: 41921777--41921883 Score: 121
Period size: 42 Copynumber: 2.5 Consensus size: 43
41921767 GATTTGAGAT
* * * **
41921777 TTACGTGTAAGACCATGTCTGGGACATCGACATCGTATCTGAA
1 TTACATGTAAGACCACGTCTGGAACAGAGACATCGTATCTGAA
*
41921820 TT-CATGTAAGACC-CTGTCTGGAACAGAGGCATCG-ATACTGAA
1 TTACATGTAAGACCAC-GTCTGGAACAGAGACATCGTAT-CTGAA
41921862 TTACATGTAAGACCACGTCTGG
1 TTACATGTAAGACCACGTCTGG
41921884 GACGTAGGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.04
42 32 0.59
43 19 0.35
44 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
TTACATGTAAGACCACGTCTGGAACAGAGACATCGTATCTGAA
Found at i:41922169 original size:32 final size:32
Alignment explanation
Indices: 41922132--41922198 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
41922122 TGAACTATTC
41922132 TGTGAAATGACTATGAATTCTTGCTGTTGATT
1 TGTGAAATGACTATGAATTCTTGCTGTTGATT
*
41922164 TGTGAAATGGCTATGAATTCTTGCTGTTGATT
1 TGTGAAATGACTATGAATTCTTGCTGTTGATT
41922196 TGT
1 TGT
41922199 ACTTTATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.45
Consensus pattern (32 bp):
TGTGAAATGACTATGAATTCTTGCTGTTGATT
Found at i:41924137 original size:12 final size:12
Alignment explanation
Indices: 41924103--41924141 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
41924093 TCAGAGGGTT
*
41924103 ACATGGCCTAAC
1 ACATGGCCTAGC
* *
41924115 ACACGGTCTAGC
1 ACATGGCCTAGC
41924127 ACATGGCCTAGC
1 ACATGGCCTAGC
41924139 ACA
1 ACA
41924142 CAAGCATGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:41929974 original size:15 final size:16
Alignment explanation
Indices: 41929954--41929983 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41929944 TGGTGCCTTG
41929954 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
41929969 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
41929984 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:41934885 original size:21 final size:22
Alignment explanation
Indices: 41934843--41934885 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
41934833 ATTGAAATGA
* *
41934843 TAATTTTATTTTTTTATGATAT
1 TAATTTTATTATTTAATGATAT
41934865 TAATTTTATTATTTAAT-ATAT
1 TAATTTTATTATTTAATGATAT
41934886 AAGCTAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TAATTTTATTATTTAATGATAT
Found at i:41938565 original size:16 final size:17
Alignment explanation
Indices: 41938544--41938581 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
41938534 AATTTAAAAA
41938544 AAAACAAA-ACAAGCCC
1 AAAACAAATACAAGCCC
*
41938560 AAAACAAATTACAATCCC
1 AAAACAAA-TACAAGCCC
41938578 AAAA
1 AAAA
41938582 GTCCAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.63, C:0.26, G:0.03, T:0.08
Consensus pattern (17 bp):
AAAACAAATACAAGCCC
Found at i:41944546 original size:25 final size:25
Alignment explanation
Indices: 41944492--41944553 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
41944482 ACGTTAGCAC
*
41944492 GCTCTCTGATTAATAGCATGATAGT
1 GCTCTCTGATTAATAGCACGATAGT
* *
41944517 CCTCTCTGATTATTAGCACG-TCAGT
1 GCTCTCTGATTAATAGCACGAT-AGT
*
41944542 GCTCTCCGATTA
1 GCTCTCTGATTA
41944554 GTACATTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (25 bp):
GCTCTCTGATTAATAGCACGATAGT
Found at i:41953382 original size:28 final size:28
Alignment explanation
Indices: 41953315--41953384 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
41953305 TGGCAGCAGA
41953315 TAACACACATTAAAAACATGTATTAAAC
1 TAACACACATTAAAAACATGTATTAAAC
* *
41953343 TACCACACATTAATAACATGTATTAAAC
1 TAACACACATTAAAAACATGTATTAAAC
* *
41953371 TAAGACATATTAAA
1 TAACACACATTAAA
41953385 CACTTTAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.27
Consensus pattern (28 bp):
TAACACACATTAAAAACATGTATTAAAC
Found at i:41962982 original size:79 final size:80
Alignment explanation
Indices: 41962822--41963046 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 80
41962812 TTGAATGATG
* * * * * **
41962822 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAGCCCCGAAGGCAT
41962885 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
41962902 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGCCCCGAAGGCAT
*
41962964 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * * *
41962981 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAACCGGGCTATGCCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGCCCCGAAGGCATTT
41963046 G
66 G
41963047 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 68 0.54
80 46 0.37
81 10 0.08
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGCCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:41963010 original size:40 final size:40
Alignment explanation
Indices: 41962822--41963046 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
41962812 TTGAATGATG
* * * *
41962822 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
41962862 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
41962902 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
41962942 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41962981 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41963022 -CCGGGCTATGCCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41963047 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41963038 original size:119 final size:120
Alignment explanation
Indices: 41962822--41963046 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
41962812 TTGAATGATG
*
41962822 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
41962887 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* * * ** *
41962942 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGTAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
41963004 TTGTGCGAGTTACTATAA-CCGGGCTATGCCCCGAAGGCATTTG
64 TTGTGCGAGATACTA-AATCCGGACTAAGACCCGAAGGCATTTG
41963047 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 1 0.01
119 69 0.77
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:41963068 original size:79 final size:79
Alignment explanation
Indices: 41962875--41963081 Score: 206
Period size: 79 Copynumber: 2.6 Consensus size: 79
41962865 GGACTAAGAT
** * * ** *
41962875 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAGTTACCAAATCCGGGTTAA-ATCCCGAAGGTATTTGTGCGAGATACT
*
41962939 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * * *
41962954 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACCAAATCCGGGTTAAATCCCGAAGGTATTTGTGCGAGATACTA
*
41963018 ATAACCGGGCTATGCC
66 AT-ACCGGGCTAAG-C
* *
41963034 CCGAAGGCATTTGAACGAG-TAGCCATATCC-GGTTAAATTCCGAAGGTA
1 CCGAAGGCATTTGAACGAGTTA-CCAAATCCGGGTTAAATCCCGAAGGTA
41963082 CGAGATTTGG
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 83 0.75
80 24 0.22
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACCAAATCCGGGTTAAATCCCGAAGGTATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:41970087 original size:79 final size:79
Alignment explanation
Indices: 41969911--41970135 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
41969901 TTGAATGATG
* * * *
41969911 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGCT-CGAAGGCAT
*
41969974 TTGTGTGAGATACTAAA
63 TTGTGCGAGATACTAAA
*
41969991 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGCTCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGCTCGAAGGCATT
*
41970054 TGTGCGAGTTACTAAA
64 TGTGCGAGATACTAAA
* * * * *
41970070 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGCCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAG-CTCGAAGGCATTT
41970135 G
65 G
41970136 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 67 0.54
80 46 0.37
81 10 0.08
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGCTCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:41970099 original size:40 final size:40
Alignment explanation
Indices: 41969911--41970135 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
41969901 TTGAATGATG
* * * *
41969911 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
41969951 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
41969991 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41970031 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41970070 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41970111 -CCGGGCTATGCCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41970136 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41970127 original size:119 final size:120
Alignment explanation
Indices: 41969911--41970135 Score: 278
Period size: 119 Copynumber: 1.9 Consensus size: 120
41969901 TTGAATGATG
*
41969911 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
41969976 GTGTGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* * * * **
41970031 TCCGGGCTAAG-CTCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
41970093 TTGTGCGAGTTACTATAA-CCGGGCTATGCCCCGAAGGCATTTG
64 TTGTGCGAGATACTA-AATCCGGACTAAGACCCGAAGGCATTTG
41970136 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
118 1 0.01
119 68 0.76
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:41970157 original size:79 final size:79
Alignment explanation
Indices: 41969964--41970168 Score: 193
Period size: 79 Copynumber: 2.6 Consensus size: 79
41969954 GGACTAAGAT
*** * * **
41969964 CCGAAGGCATTTGTGTGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAGTTACCAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATACT
*
41970028 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
* ** * * *
41970043 TCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
41970107 ATAACCGGGCTATGCC
66 AT-ACCGGGCTAAG-C
* *
41970123 CCGAAGGCATTTGAACGAG-TAGCCATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CCAAATCCGGGTTAAATCCCGAAGG
41970169 TACGTGATTT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 80 0.75
80 23 0.22
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACCAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:41975619 original size:48 final size:48
Alignment explanation
Indices: 41975478--41975761 Score: 200
Period size: 48 Copynumber: 5.9 Consensus size: 48
41975468 ACAGCCCACC
* * * * *
41975478 TATGGTCTTACACGA-AGTCTCATAAT-GGTACCGATGCCATGTCCTAGA
1 TATGGTCTTACATGAGA-TCTCAT-ATCGATGCCGATGCCATATCCCAGA
* * * * * * *
41975526 CATGGTGTTATATGGGACCTCATATCGATGCCAATGACATATCCCAGA
1 TATGGTCTTACATGAGATCTCATATCGATGCCGATGCCATATCCCAGA
* * * *
41975574 TATGGTCTTACATGAGATCACATA-CTGATGCCGATGTCATGTCCCAAA
1 TATGGTCTTACATGAGATCTCATATC-GATGCCGATGCCATATCCCAGA
** * * * * * *
41975622 CGTGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAGA
1 TATGGTCTTACATGAGATCTCATATCGATGCCGATGCCATATCCCAGA
* * *
41975670 TATGGTCTTACA-CAGGATCTCATCTCGATGCTGATGCCATATCCCAGA
1 TATGGTCTTACATGA-GATCTCATATCGATGCCGATGCCATATCCCAGA
* * * * *
41975718 TATGGTCTTATACG-GAATCTCTTATAGATGCTGATGCCATATCC
1 TATGGTCTTACATGAG-ATCTCATATCGATGCCGATGCCATATCC
41975762 TATATGTAAC
Statistics
Matches: 180, Mismatches: 49, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
47 4 0.02
48 174 0.97
49 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (48 bp):
TATGGTCTTACATGAGATCTCATATCGATGCCGATGCCATATCCCAGA
Found at i:41975738 original size:96 final size:96
Alignment explanation
Indices: 41975508--41975761 Score: 298
Period size: 96 Copynumber: 2.6 Consensus size: 96
41975498 CATAATGGTA
* * * * * * *
41975508 CCGATGCCATGTCCTAGACATGGTGTTATATGGGACCTCATATCGATGCCAATGACATATCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAG
*
41975573 ATATGGTCTTACATGAGATCACATACTGATG
66 ATATGGTCTTACAAGAGATCACATACTGATG
* * *
41975604 CCGATGTCATGTCCCAAACGTGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAG
*
41975669 ATATGGTCTTACACAG-GATCTCAT-CTCGATG
66 ATATGGTCTTACA-AGAGATCACATACT-GATG
* * * * **
41975700 CTGATGCCATATCCCAGATATGGTCTTATACGGAATCTCTTAT-AGATGCTGATGCCATATCC
1 CCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCTTATCA-ATGCCAATGCCATATCC
41975762 TATATGTAAC
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
95 3 0.02
96 130 0.97
97 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACATGGTCTTATACGGGATCTCTTATCAATGCCAATGCCATATCCCAG
ATATGGTCTTACAAGAGATCACATACTGATG
Found at i:41976974 original size:40 final size:42
Alignment explanation
Indices: 41976903--41977000 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 42
41976893 TGAAAGCATT
41976903 GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTA-TT-A-AA
1 GGCACTAAGTGTGCGA-TTAAACTAGCTTCGGCTAGTTGAGAA
* * *
41976943 GGCACTAAGTGTGCGA-TACGACTTAGTTTCGGCTAGTTGAGAT
1 GGCACTAAGTGTGCGATTA-AAC-TAGCTTCGGCTAGTTGAGAA
41976986 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
41977001 GAATCATTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 2 0.04
39 2 0.04
40 27 0.54
41 2 0.04
42 1 0.02
43 16 0.32
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (42 bp):
GGCACTAAGTGTGCGATTAAACTAGCTTCGGCTAGTTGAGAA
Found at i:41978889 original size:13 final size:14
Alignment explanation
Indices: 41978854--41978892 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
41978844 GAAGATATTT
41978854 ATATATTATATATAA
1 ATATATTAT-TATAA
*
41978869 ATAAATTATTAT-A
1 ATATATTATTATAA
41978882 ATATATTATTA
1 ATATATTATTA
41978893 GTAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTATTATAA
Found at i:41982891 original size:28 final size:28
Alignment explanation
Indices: 41982859--41982929 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
41982849 TTGGCAGTAG
41982859 CTAAGACACATTAAAAACATGTACTAAA
1 CTAAGACACATTAAAAACATGTACTAAA
* * *
41982887 CTAAGACACATTAATAACATGTATTAGA
1 CTAAGACACATTAAAAACATGTACTAAA
*
41982915 TTAAGACACATTAAA
1 CTAAGACACATTAAA
41982930 CATTTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.25
Consensus pattern (28 bp):
CTAAGACACATTAAAAACATGTACTAAA
Found at i:41990314 original size:38 final size:38
Alignment explanation
Indices: 41990268--41990366 Score: 114
Period size: 38 Copynumber: 2.6 Consensus size: 38
41990258 GAAATCCTTG
*
41990268 TTATAATTATTGTAATTATAATTTACGAT-AGAATATTA
1 TTATAATTATTGTAATTATAATTTACGATCA-AACATTA
* *
41990306 TTATAATTATTGTAATTGA-AATTTTCGGTCAAACATTA
1 TTATAATTATTGTAATT-ATAATTTACGATCAAACATTA
*
41990344 CTATAATTA-TGATAATTATAATT
1 TTATAATTATTG-TAATTATAATT
41990367 ATTATATTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
37 3 0.06
38 48 0.91
39 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.46
Consensus pattern (38 bp):
TTATAATTATTGTAATTATAATTTACGATCAAACATTA
Found at i:41996790 original size:32 final size:32
Alignment explanation
Indices: 41996754--41996814 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
41996744 AATAAAATAA
41996754 TAAATTTACTTTTTAATTTAATATAAATCAAC
1 TAAATTTACTTTTTAATTTAATATAAATCAAC
41996786 TAAATTTACTTTTTAATTTAATATAAATC
1 TAAATTTACTTTTTAATTTAATATAAATC
41996815 TATTACCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (32 bp):
TAAATTTACTTTTTAATTTAATATAAATCAAC
Found at i:41998417 original size:20 final size:20
Alignment explanation
Indices: 41998382--41998434 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
41998372 TTATGTTGCT
* *
41998382 TAAAATTTT-ATTTGTTTTA
1 TAAAATTTTCTTTTGTTTAA
**
41998401 TATTATTTTCTTTTGTTTAA
1 TAAAATTTTCTTTTGTTTAA
41998421 TAAAATTTTCTTTT
1 TAAAATTTTCTTTT
41998435 CTTTCGTGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (20 bp):
TAAAATTTTCTTTTGTTTAA
Found at i:42010349 original size:13 final size:13
Alignment explanation
Indices: 42010331--42010387 Score: 75
Period size: 13 Copynumber: 4.6 Consensus size: 13
42010321 AATTTTAAAT
42010331 TATTTAGAGATAA
1 TATTTAGAGATAA
42010344 TATTTAGA-AT--
1 TATTTAGAGATAA
*
42010354 TATTTAGTGATAA
1 TATTTAGAGATAA
*
42010367 TATTTAGTGATAA
1 TATTTAGAGATAA
42010380 TATTTAGA
1 TATTTAGA
42010388 AAAAATCTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 7 0.18
11 2 0.05
12 2 0.05
13 28 0.72
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (13 bp):
TATTTAGAGATAA
Found at i:42010354 original size:23 final size:23
Alignment explanation
Indices: 42010324--42010373 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
42010314 ATTTTTAAAT
42010324 TTTA-AATTATTTAGAGATAATA
1 TTTAGAATTATTTAGAGATAATA
*
42010346 TTTAGAATTATTTAGTGATAATA
1 TTTAGAATTATTTAGAGATAATA
42010369 TTTAG
1 TTTAG
42010374 TGATAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (23 bp):
TTTAGAATTATTTAGAGATAATA
Found at i:42017709 original size:18 final size:19
Alignment explanation
Indices: 42017676--42017711 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
42017666 TCTTAGAGTA
*
42017676 AAATAATGTGTATTAAATC
1 AAATAAAGTGTATTAAATC
42017695 AAATAAAGT-TATTAAAT
1 AAATAAAGTGTATTAAAT
42017712 TTTTGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (19 bp):
AAATAAAGTGTATTAAATC
Found at i:42023025 original size:28 final size:28
Alignment explanation
Indices: 42022950--42023045 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 28
42022940 TATCTAGGAT
* *
42022950 ATGACATTGTGCTAAGTGAAATAAGACC
1 ATGACAATGTGCTAAGTGAAATAAGTCC
* *
42022978 ATGGC-A--T-CTAAATGAAATAAGTCC
1 ATGACAATGTGCTAAGTGAAATAAGTCC
42023002 ATGACAATGTGCTAAGTGAAATAAGTCC
1 ATGACAATGTGCTAAGTGAAATAAGTCC
* *
42023030 ATGGCATTGTGCTAAG
1 ATGACAATGTGCTAAG
42023046 CGAGAAATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
24 19 0.34
25 2 0.04
27 1 0.02
28 34 0.61
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (28 bp):
ATGACAATGTGCTAAGTGAAATAAGTCC
Found at i:42023148 original size:51 final size:51
Alignment explanation
Indices: 42023072--42023220 Score: 237
Period size: 51 Copynumber: 2.9 Consensus size: 51
42023062 TGAACCTTAA
* *
42023072 GAATAAAATAGCTTTGGACACAAGTGTGTTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
42023123 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
42023174 GAATAAAAGAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
42023221 GTGAAACCGT
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 90 0.99
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:42024200 original size:25 final size:25
Alignment explanation
Indices: 42024166--42024218 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
42024156 ATTATTTACA
42024166 TACCAACTTACTAAGCTATATATCT
1 TACCAACTTACTAAGCTATATATCT
42024191 TACCAACTTACTAAGCTATATATCT
1 TACCAACTTACTAAGCTATATATCT
42024216 TAC
1 TAC
42024219 TCCTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (25 bp):
TACCAACTTACTAAGCTATATATCT
Found at i:42028801 original size:40 final size:40
Alignment explanation
Indices: 42028702--42028932 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
42028692 TGGATGATAA
* ** * * **
42028702 CCGGGCTAAGTCCCGAAGGCATCTACGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
42028742 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
42028781 CCGGGCTAAGTCCAGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
42028821 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
42028861 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
42028901 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
42028933 ACCTATATCC
Statistics
Matches: 175, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 32 0.18
40 141 0.81
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:42036858 original size:40 final size:40
Alignment explanation
Indices: 42036759--42036949 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
42036749 TGGATGATAA
* * * * **
42036759 CCGGGCTAAGTCCCGAAGGCATCTATGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
42036799 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
42036838 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
42036878 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
*
42036919 -CGGGCTATGTCCCGAAGGCATTT-TAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGT-GCGAGT
42036950 AGCTATATCC
Statistics
Matches: 138, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.25
40 101 0.73
41 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:42039385 original size:48 final size:47
Alignment explanation
Indices: 42039267--42039781 Score: 426
Period size: 48 Copynumber: 10.7 Consensus size: 47
42039257 GGTAAGATGT
* * *
42039267 CGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATATATCG-GTGC
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAGC-C-CACA-ATCGAG-GC
*
42039317 CGATACCATGTTCCAAACATGGTCTTACACTAGCCCACAAGTCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACAA-TCGAGGC
* * * * ** *
42039365 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCTA-TATAAATGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGC--CCACAATCGAGGC
* * ** *
42039413 CGATGCCATGTTCCAAACATGGTCATACACTGGCTCTCGTATATCG-GTGT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACA-ATCGAG-GC
* ** * * * *
42039463 TGATGCCATGTTCCGGACATGGTCTTACACTACCCCACATGTTGAGGT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACA-ATCGAGGC
*
42039511 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACA-ATCGAGGC
* * * * ** *
42039559 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACA-ATCGAGGC
* * * * *
42039607 CGATGCCATATTCCAATCATGGTTTTACACTAGCCCACATGTTGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACA-ATCGAGGC
* *
42039655 CCATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACA-ATCGAGGC
* * * * * ** *
42039703 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACA-ATCGAGGC
42039751 CGATGCCATGTTCCAAACATGGTCTTACACT
1 CGATGCCATGTTCCAAACATGGTCTTACACT
42039782 GGCTCACATA
Statistics
Matches: 379, Mismatches: 76, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
47 3 0.01
48 308 0.81
49 5 0.01
50 60 0.16
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACAATCGAGGC
Found at i:42039671 original size:144 final size:144
Alignment explanation
Indices: 42039267--42039790 Score: 681
Period size: 144 Copynumber: 3.6 Consensus size: 144
42039257 GGTAAGATGT
* * ** *
42039267 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATACCATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTCCA
* * * *
42039332 AACATGGTCTTACACTAGCCCACAAGTCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTA
64 AACATGGTCTTACACTAGCCCACATGTTGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTA
* * * ** *
42039397 GCTTC-TATATAAATGC
129 GC-CCACATGTCGAGGC
* * * * *** ** *
42039413 CGATGCCATGTTCCAAACATGGTCATACACTGGCTCTCGTATATCGGTGTTGATGCCATGTTCCG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATAAATGCCGATGCCATGTTCCA
* * *
42039478 GACATGGTCTTACACTACCCCACATGTTGAGGTCGATGCCATGTTCCAAACATGGTCTTACACTA
64 AACATGGTCTTACACTAGCCCACATGTTGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTA
42039543 GCCCACATGTCGAGGC
129 GCCCACATGTCGAGGC
* *
42039559 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATATTCCAAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAA
* *
42039624 CATGGTTTTACACTAGCCCACATGTTGAGGCCCATGCCATGTTCCAAACATGGTCTTACACTAGC
66 CATGGTCTTACACTAGCCCACATGTTGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC
42039689 CCACATGTCGAGGC
131 CCACATGTCGAGGC
*
42039703 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAA
* *
42039768 CATGGTCTTACACTGGCTCACAT
66 CATGGTCTTACACTAGCCCACAT
42039791 AACCCTACTA
Statistics
Matches: 330, Mismatches: 45, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
144 175 0.53
145 1 0.00
146 150 0.45
148 4 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAA
CATGGTCTTACACTAGCCCACATGTTGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC
CCACATGTCGAGGC
Found at i:42039790 original size:96 final size:96
Alignment explanation
Indices: 42039267--42039791 Score: 538
Period size: 96 Copynumber: 5.4 Consensus size: 96
42039257 GGTAAGATGT
* * *
42039267 CGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCCGATACCATGTTC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATATA--GAG-GCCGATGCCATGTTC
42039330 CAAACATGGTCTTACACTAGCCCACA-AGTCGAGGC
62 CAAACATGGTCTTACACTAGCCCACATA-TCGAGGC
* * * *
42039365 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTC-TATATAAATGCCGATGCCATGTTCCAA
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGC-TCACATATAGAGGCCGATGCCATGTTCCAA
* * ** *
42039429 ACATGGTCATACACTGGCTCTCGTATATCG-GTGT
65 ACATGGTCTTACACTAGC-C-CACATATCGAG-GC
* * * * * * *
42039463 TGATGCCATGTTCCGGACATGGTCTTACACTACCCCACATGTTGAGGTCGATGCCATGTTCCAAA
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATAGAGGCCGATGCCATGTTCCAAA
*
42039528 CATGGTCTTACACTAGCCCACATGTCGAGGC
66 CATGGTCTTACACTAGCCCACATATCGAGGC
* * * * * *
42039559 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATATTCCAAT
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATAGAGGCCGATGCCATGTTCCAAA
* * *
42039624 CATGGTTTTACACTAGCCCACATGTTGAGGC
66 CATGGTCTTACACTAGCCCACATATCGAGGC
* * * * * * * *
42039655 CCATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCTGATGCCATGTCCCAGA
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATAGAGGCCGATGCCATGTTCCAAA
* * ** *
42039720 CATGGTCTTACACTAGCTCTCATATAAATGC
66 CATGGTCTTACACTAGCCCACATATCGAGGC
* *
42039751 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATA
42039792 ACCCTACTAT
Statistics
Matches: 350, Mismatches: 68, Indels: 20
0.80 0.16 0.05
Matches are distributed among these distances:
96 233 0.67
97 5 0.01
98 107 0.31
99 5 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATAGAGGCCGATGCCATGTTCCAAA
CATGGTCTTACACTAGCCCACATATCGAGGC
Found at i:42042987 original size:28 final size:27
Alignment explanation
Indices: 42042920--42043008 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 27
42042910 ATATGACATC
* *
42042920 GTGCTAAGGGAAATAAGACCATGGCA-
1 GTGCTAAGTGAAATAAGTCCATGGCAT
42042946 -T-CTAAGTGAAATAAGTCCATGGCAAT
1 GTGCTAAGTGAAATAAGTCCATGGC-AT
*
42042972 GTGCTAAGTGAAATAAGTCCATGGCTTT
1 GTGCTAAGTGAAATAAGTCCATGGC-AT
42043000 GTGCTAAGT
1 GTGCTAAGT
42043009 TAGAAATTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
24 20 0.36
25 2 0.04
27 1 0.02
28 32 0.58
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (27 bp):
GTGCTAAGTGAAATAAGTCCATGGCAT
Found at i:42043210 original size:51 final size:51
Alignment explanation
Indices: 42043034--42043202 Score: 284
Period size: 51 Copynumber: 3.3 Consensus size: 51
42043024 TGAACCTTAG
*
42043034 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * ** *
42043085 GAATATAATAGCTTTGAACACAAGTGTGACACTATGTGAAGGTCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
42043136 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
42043187 GAATAAAATAGCTTTG
1 GAATAAAATAGCTTTG
42043203 CCTACAAGGG
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 107 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:42043223 original size:51 final size:51
Alignment explanation
Indices: 42043034--42043231 Score: 274
Period size: 51 Copynumber: 3.9 Consensus size: 51
42043024 TGAACCTTAG
* *
42043034 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGCTACTATGTGAAGGCCACTTTGT
* * *
42043085 GAATATAATAGCTTTGAACACAAGTGTGAC-ACTATGTGAAGGTCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTG-CTACTATGTGAAGGCCACTTTGT
*
42043136 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGCTACTATGTGAAGGCCACTTTGT
* * * *
42043187 GAATAAAATAGCTTT-GCCTACAAGGGTGCTAATATGTGAATGCCA
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGCTACTATGTGAAGGCCA
42043232 TTGTGTATCC
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
50 2 0.02
51 128 0.98
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGCTACTATGTGAAGGCCACTTTGT
Found at i:42043223 original size:102 final size:102
Alignment explanation
Indices: 42043034--42043226 Score: 309
Period size: 102 Copynumber: 1.9 Consensus size: 102
42043024 TGAACCTTAG
*
42043034 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGTGAATATAATAGCTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGTGAATAAAATAGCTT
* *
42043099 TGAACACAAGTGTGACACTATGTGAAGGTCACTTTGT
66 TGAACACAAGGGTGACAATATGTGAAGGTCACTTTGT
*
42043136 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGTGAATAAAATAGCTT
*
42043201 TG-CCTACAAGGGTG-CTAATATGTGAA
66 TGAAC-ACAAGGGTGAC-AATATGTGAA
42043227 TGCCATTGTG
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
101 2 0.02
102 82 0.98
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (102 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGTGAATAAAATAGCTT
TGAACACAAGGGTGACAATATGTGAAGGTCACTTTGT
Found at i:42045858 original size:42 final size:43
Alignment explanation
Indices: 42045700--42045858 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 43
42045690 CTTAGGAAAA
* * * * * *
42045700 TCGCACACTTAGTGCCAAATAAATAGCTGAAGCTGTATCAATC
1 TCGCACACTAAGTGCCAAATAAATAGCAGAAGCTATCTCGATT
42045743 TCGCACACTAAGTGCCAATATGTATATATAGCAGAAGCTATCTCGATCT
1 TCGCACACTAAGTGCCAA-A--TA-A-ATAGCAGAAGCTATCTCGAT-T
* * *
42045792 T-GCACACTAAGCG-CAAATATATAGCCGAAGCTATCTCGATT
1 TCGCACACTAAGTGCCAAATAAATAGCAGAAGCTATCTCGATT
*
42045833 TCGCACACTAAGTGCC-CATAAATAGC
1 TCGCACACTAAGTGCCAAATAAATAGC
42045859 TGAATCATCG
Statistics
Matches: 96, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
41 2 0.02
42 38 0.40
43 18 0.19
44 3 0.03
46 3 0.03
47 4 0.04
48 27 0.28
49 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
TCGCACACTAAGTGCCAAATAAATAGCAGAAGCTATCTCGATT
Found at i:42047819 original size:17 final size:17
Alignment explanation
Indices: 42047797--42047830 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42047787 CGTGTGGTTG
42047797 GCTGTGTGCGAGACACA
1 GCTGTGTGCGAGACACA
42047814 GCTGTGTGCGAGACACA
1 GCTGTGTGCGAGACACA
42047831 TGCATGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.35, T:0.18
Consensus pattern (17 bp):
GCTGTGTGCGAGACACA
Found at i:42050918 original size:18 final size:18
Alignment explanation
Indices: 42050866--42050918 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
42050856 CAAATCCTAT
*
42050866 TCTTTCAATTCTTTCTAA
1 TCTTTCAATTCTTTCAAA
* *
42050884 TCTCTT-AACTCTCTCAAA
1 TCT-TTCAATTCTTTCAAA
*
42050902 TCTTTCAATTTTTTCAA
1 TCTTTCAATTCTTTCAA
42050919 GTTTTTGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTTTCAATTCTTTCAAA
Found at i:42058553 original size:29 final size:27
Alignment explanation
Indices: 42058462--42058576 Score: 95
Period size: 29 Copynumber: 4.1 Consensus size: 27
42058452 TTCACATACC
* * * *
42058462 TTATCTGGCCCATTAAGCCCATTCATA
1 TTATATGGCCCATTAGGCCCAATCACA
* * *
42058489 TTCATATGGCCTATTAGGCTCAAATCACC
1 TT-ATATGGCCCATTAGGC-CCAATCACA
42058518 TGTATATGGCCCATTAGGCCCAAATCACA
1 T-TATATGGCCCATTAGGCCC-AATCACA
* * *
42058547 TTAATATAGCCCGTTAGGCCCAGTCACA
1 TT-ATATGGCCCATTAGGCCCAATCACA
42058575 TT
1 TT
42058577 CATAATCATG
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.03
28 23 0.33
29 44 0.63
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (27 bp):
TTATATGGCCCATTAGGCCCAATCACA
Found at i:42069376 original size:80 final size:79
Alignment explanation
Indices: 42069244--42069424 Score: 292
Period size: 80 Copynumber: 2.3 Consensus size: 79
42069234 TATTCGGATG
* *
42069244 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCGT
1 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAT
42069309 TTGTGCGAGTTGCT
66 TTGTGCGAGTTGCT
* * *
42069323 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGC-ATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
42069388 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGCT
*
42069403 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
42069425 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
79 37 0.39
80 57 0.61
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:42069424 original size:39 final size:40
Alignment explanation
Indices: 42069244--42069424 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
42069234 TATTCGGATG
* *
42069244 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
42069283 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * *
42069323 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
42069363 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
*
42069403 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
42069425 TACTTGGGTT
Statistics
Matches: 126, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 40 0.32
40 82 0.65
41 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:42072793 original size:33 final size:32
Alignment explanation
Indices: 42072738--42072818 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
42072728 TTTTTTACAT
*
42072738 ATATATATTATATA-AAACATGA-CCTTGAAATGC
1 ATATATATTATATATAAACATGACCCAT-AAA--C
**
42072771 ATATATATTATATATTTA-ATGACCCATAAAC
1 ATATATATTATATATAAACATGACCCATAAAC
42072802 ATATATATTATATATAA
1 ATATATATTATATATAA
42072819 CAAATATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
31 16 0.39
33 21 0.51
34 4 0.10
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (32 bp):
ATATATATTATATATAAACATGACCCATAAAC
Found at i:42072825 original size:18 final size:18
Alignment explanation
Indices: 42072799--42072839 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
42072789 ATGACCCATA
*
42072799 AACATATATATTATATAT
1 AACAAATATATTATATAT
*
42072817 AACAAATATTTTATATAT
1 AACAAATATATTATATAT
42072835 AACAA
1 AACAA
42072840 GATGCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AACAAATATATTATATAT
Found at i:42073094 original size:31 final size:30
Alignment explanation
Indices: 42072995--42073094 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 30
42072985 CAACACGCAT
* *
42072995 ATATATATTGTATATATAACATAACCATGACGC
1 ATATATATTATATATATAACA-AA-C-TCACGC
* * *
42073028 ATATATTTTATATATATAACAAAATC-CAC
1 ATATATATTATATATATAACAAACTCACGC
*
42073057 ACATATATTATATATATAACGAAACTCACGC
1 ATATATATTATATATATAAC-AAACTCACGC
42073088 ATATATA
1 ATATATA
42073095 GGTATTATGT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
29 20 0.36
30 6 0.11
31 8 0.15
32 2 0.04
33 19 0.35
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (30 bp):
ATATATATTATATATATAACAAACTCACGC
Found at i:42076645 original size:79 final size:81
Alignment explanation
Indices: 42076506--42076690 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
42076496 TCGAATGATG
* *
42076506 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATT
*
42076570 TGTGCGAGATACTA-A
66 TGTACGAGATACTATA
* * * **
42076585 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCAAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCA
*
42076647 TTTGTACGAGTTACTATA
64 TTTGTACGAGATACTATA
* * *
42076665 ACCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42076691 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATT
TGTACGAGATACTATA
Found at i:42076696 original size:40 final size:40
Alignment explanation
Indices: 42076506--42076697 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 40
42076496 TCGAATGATG
* * * * * *
42076506 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTAC-GAGTTACTAAA
* * * * *
42076546 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCAAAGGCATTTGTACGAGTTACTAAA
* *
42076586 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTACTAAA
*
42076625 TCCGGGTTAAGTCCCAAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTACTA-AA
* *
42076666 -CCGGGCTATGTCCCAAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCAAAGGCATTTGTACGAGT
42076698 AGCTATATCC
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
39 35 0.27
40 86 0.66
41 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCAAAGGCATTTGTACGAGTTACTAAA
Found at i:42076712 original size:79 final size:79
Alignment explanation
Indices: 42076562--42076713 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
42076552 CTAAGATCCG
* * * **
42076562 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATC
42076627 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * *
42076641 AAGGCATTTGTACGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTACGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-CTAA
42076704 ATCC-GGTTAA
63 ATCCGGGTTAA
42076714 ATTCCGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.58
80 24 0.39
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:42102554 original size:22 final size:22
Alignment explanation
Indices: 42102528--42102575 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
42102518 CAAAGTTAAC
* *
42102528 AAATCAACCGAATAGAAATTTT
1 AAATCAACCAAACAGAAATTTT
42102550 AAATCAACCAAACAGAAATTTT
1 AAATCAACCAAACAGAAATTTT
42102572 AAAT
1 AAAT
42102576 AGCTTGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (22 bp):
AAATCAACCAAACAGAAATTTT
Found at i:42104841 original size:17 final size:17
Alignment explanation
Indices: 42104819--42104854 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
42104809 GCATCATCAC
42104819 GTGCCCATATGAAATTT
1 GTGCCCATATGAAATTT
42104836 GTGCCCATATGAAATTT
1 GTGCCCATATGAAATTT
42104853 GT
1 GT
42104855 TCATACTACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (17 bp):
GTGCCCATATGAAATTT
Found at i:42111228 original size:3 final size:3
Alignment explanation
Indices: 42111215--42111247 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
42111205 TTAGGTAAAG
42111215 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
42111248 GGTAAGTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:42112939 original size:45 final size:45
Alignment explanation
Indices: 42112879--42112966 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
42112869 AAATTATGTA
*
42112879 ATCTGAACTCATTGAGTTGTGGTCTGAGTTTATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTAGTCTGAGTTTATGATATATGTGAC
* *
42112924 ATCTGAACTCGTTGAGTTGTAGTCTGAGTTTGTGATATATGTG
1 ATCTGAACTCATTGAGTTGTAGTCTGAGTTTATGATATATGTG
42112967 GCACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTAGTCTGAGTTTATGATATATGTGAC
Found at i:42114936 original size:35 final size:34
Alignment explanation
Indices: 42114872--42114945 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 34
42114862 AACTTGTCTG
*
42114872 ACTAGTGCTGGGCACACAACCGTTAGTTTATCCA
1 ACTAGCGCTGGGCACACAACCGTTAGTTTATCCA
*
42114906 ACTAGCGCTGGGCACA-ATCACCGTTGGTTTATCCA
1 ACTAGCGCTGGGCACACA--ACCGTTAGTTTATCCA
42114941 ACTAG
1 ACTAG
42114946 AGTTGCGCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 1 0.03
34 15 0.42
35 20 0.56
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (34 bp):
ACTAGCGCTGGGCACACAACCGTTAGTTTATCCA
Found at i:42115068 original size:76 final size:76
Alignment explanation
Indices: 42114928--42115073 Score: 197
Period size: 76 Copynumber: 1.9 Consensus size: 76
42114918 CACAATCACC
* *
42114928 GTTGGTTTATCCAACTAGAGTTGCGCTCACAATTATTACCATCAGTATATCCAACTAGAACTGGG
1 GTTGGGTTATCCAACCAGAGTTGCGCTCACAATTATTACCATCAGTATATCCAACTAGAACTGGG
*
42114993 TGCAAAATATT
66 CGCAAAATATT
* * **
42115004 GTTGGGTTATCCAACCAGAGTTGGGCTCAC-ATTCATTACCATCAGT-TCATCCGACTAGTGCTG
1 GTTGGGTTATCCAACCAGAGTTGCGCTCACAATT-ATTACCATCAGTAT-ATCCAACTAGAACTG
42115067 GGCGCAA
64 GGCGCAA
42115074 CACCTTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
75 4 0.07
76 57 0.93
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (76 bp):
GTTGGGTTATCCAACCAGAGTTGCGCTCACAATTATTACCATCAGTATATCCAACTAGAACTGGG
CGCAAAATATT
Found at i:42132684 original size:29 final size:29
Alignment explanation
Indices: 42132635--42132696 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
42132625 TGCCTAGTCG
*
42132635 TGTGGTTGGCCATGCGCGAGACACGGCCA
1 TGTGGTTGGCCATGCACGAGACACGGCCA
* * *
42132664 TGTGGTTGGCCGTGCATGAGACACGGTCA
1 TGTGGTTGGCCATGCACGAGACACGGCCA
42132693 TGTG
1 TGTG
42132697 TTCGACGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.16, C:0.23, G:0.39, T:0.23
Consensus pattern (29 bp):
TGTGGTTGGCCATGCACGAGACACGGCCA
Found at i:42136219 original size:47 final size:47
Alignment explanation
Indices: 42136178--42136666 Score: 753
Period size: 47 Copynumber: 10.3 Consensus size: 47
42136168 TGTGAGTGTA
42136178 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42136225 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
42136272 TATATATTTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42136321 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42136368 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
42136415 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
42136462 TATATATTTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42136511 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42136558 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
42136605 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42136652 TATAAATGTGATAAG
1 TATATATGTGATAAG
42136667 TCCCGAAGGG
Statistics
Matches: 402, Mismatches: 36, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
47 317 0.79
49 85 0.21
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:42136326 original size:143 final size:141
Alignment explanation
Indices: 42136178--42136666 Score: 753
Period size: 143 Copynumber: 3.4 Consensus size: 141
42136168 TGTGAGTGTA
42136178 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
42136243 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TGTGATAAGGCCTAATGGCCGATGTGAT
42136308 GAATGTGAAAGTG
129 GAATGTGAAAGTG
* *
42136321 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
42136386 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
42136451 ATGTGAAAGTG
131 ATGTGAAAGTG
42136462 TATATATTTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
42136527 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGAT
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
42136592 GAATGTGAAAGTG
129 GAATGTGAAAGTG
* * * * * * * *
42136605 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42136667 TCCCGAAGGG
Statistics
Matches: 314, Mismatches: 30, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
141 88 0.28
143 226 0.72
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTG
Found at i:42136457 original size:190 final size:190
Alignment explanation
Indices: 42136178--42136655 Score: 902
Period size: 190 Copynumber: 2.5 Consensus size: 190
42136168 TGTGAGTGTA
* * *
42136178 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
* * *
42136243 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATGTGAT
66 GAGTGGCCAACGTGATGGATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATGTGAT
42136308 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
131 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
42136368 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
42136433 GAGTGGCCAACGTGATGGATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATGTGAT
66 GAGTGGCCAACGTGATGGATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATGTGAT
42136498 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
131 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
42136558 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
42136623 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA
66 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA
42136656 AATGTGATAA
Statistics
Matches: 282, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 282 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (190 bp):
TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
GAGTGGCCAACGTGATGGATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
Found at i:42139167 original size:40 final size:40
Alignment explanation
Indices: 42138887--42139155 Score: 380
Period size: 40 Copynumber: 6.8 Consensus size: 40
42138877 AAGGTCTCGA
* *
42138887 TGATG-ATCCGGGCTAACTCCCGAAGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
42138926 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * *
42138966 TGATGTACCCGGGGTAAGTCCCGAAGAGCATTCATGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
42139006 TGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
42139046 TGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * * * *
42139086 TAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGG
1 TGATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAG
* * *
42139126 TGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCA
42139156 ATCATGCTGG
Statistics
Matches: 205, Mismatches: 22, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
39 6 0.03
40 197 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
Found at i:42143050 original size:49 final size:49
Alignment explanation
Indices: 42142997--42143497 Score: 765
Period size: 47 Copynumber: 10.4 Consensus size: 49
42142987 TTGTGATGTG
42142997 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
42143046 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42143093 AGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42143142 AGTGTATATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42143193 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
42143242 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42143289 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
42143338 AGTG--TATATATGTGATAAGGCCTAATAGCCGTTGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
42143385 AGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
42143432 AGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
42143479 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
42143498 TCCCGAAGGG
Statistics
Matches: 421, Mismatches: 23, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
47 226 0.54
48 1 0.00
49 146 0.35
51 48 0.11
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:42143122 original size:96 final size:96
Alignment explanation
Indices: 42142997--42143497 Score: 821
Period size: 96 Copynumber: 5.2 Consensus size: 96
42142987 TTGTGATGTG
42142997 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
42143062 AAGGCCGAATGGCCAATGTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
*
42143093 AGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA--TG
* *
42143158 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
62 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
42143193 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
42143258 AAGGCCGAATGGCCAATGTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
42143289 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * **
42143354 AAGGCCTAATAGCCGTTGTGATGAATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
42143385 AGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * * *
42143448 AGGGCCGAGTGGCCAACGTGATGGATGTGAA
66 AAGGCCGAATGGCCAATGTGATGAATGTGAA
42143479 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
42143498 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 21, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
94 93 0.25
95 1 0.00
96 185 0.49
98 12 0.03
100 87 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCGAATGGCCAATGTGATGAATGTGAA
Found at i:42146002 original size:40 final size:40
Alignment explanation
Indices: 42145723--42145990 Score: 378
Period size: 40 Copynumber: 6.7 Consensus size: 40
42145713 AGGTCTCGAC
* *
42145723 GATG-ATCCGGGCTAACTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
42145762 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
42145802 GATGTACCCGGGGTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
42145842 GATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
42145882 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
42145922 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
42145962 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
42145991 ATCATGCTGG
Statistics
Matches: 204, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.02
40 197 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:42150066 original size:96 final size:96
Alignment explanation
Indices: 42149838--42150279 Score: 698
Period size: 96 Copynumber: 4.6 Consensus size: 96
42149828 TGTGAGTGTA
42149838 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
*
42149901 CCGAATGGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
42149932 TATATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 --TATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
42149997 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
62 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42150032 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
42150097 CCTAATGGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42150128 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATGAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
42150191 CCTAATGGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
42150222 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
42150280 AAAGTCCCGA
Statistics
Matches: 325, Mismatches: 15, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
94 91 0.28
95 1 0.00
96 140 0.43
98 47 0.14
100 46 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:42150229 original size:47 final size:47
Alignment explanation
Indices: 42149838--42150279 Score: 695
Period size: 47 Copynumber: 9.2 Consensus size: 47
42149828 TGTGAGTGTA
42149838 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42149885 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
42149932 TATATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
42149983 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42150032 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
42150079 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42150128 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42150175 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
42150222 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42150269 TATAAATGTGA
1 TATATATGTGA
42150280 AAAGTCCCGA
Statistics
Matches: 371, Mismatches: 18, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
47 231 0.62
49 92 0.25
51 48 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:42152916 original size:21 final size:22
Alignment explanation
Indices: 42152890--42152930 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
42152880 CATTAACGAG
42152890 TCAATGTTGTGACA-TCAACAT
1 TCAATGTTGTGACACTCAACAT
42152911 TCAATGTTGTGACACTCAAC
1 TCAATGTTGTGACACTCAAC
42152931 TTTGAGGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (22 bp):
TCAATGTTGTGACACTCAACAT
Found at i:42153529 original size:22 final size:22
Alignment explanation
Indices: 42153504--42153549 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
42153494 TTTAGGTAGA
42153504 TGTGGTCAAAAGAATAGTCTAC
1 TGTGGTCAAAAGAATAGTCTAC
42153526 TGTGGTCAAAAGAATAGTCTAC
1 TGTGGTCAAAAGAATAGTCTAC
42153548 TG
1 TG
42153550 AGCATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (22 bp):
TGTGGTCAAAAGAATAGTCTAC
Found at i:42157266 original size:25 final size:25
Alignment explanation
Indices: 42157200--42157294 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
42157190 AGCTTCTCTT
* * * **
42157200 GAGCCATATAACAAGAAGCTCATGT
1 GAGCTATATAACAGGAAGCTTATCC
*
42157225 GAGCTATATGAA-GGGAAGCTTATCC
1 GAGCTATAT-AACAGGAAGCTTATCC
42157250 GAGCTATATAACAGGAAGCTTATCC
1 GAGCTATATAACAGGAAGCTTATCC
* *
42157275 GGGCTATATAACAGAAAGCT
1 GAGCTATATAACAGGAAGCT
42157295 CATAAGAGCC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.03
25 55 0.93
26 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (25 bp):
GAGCTATATAACAGGAAGCTTATCC
Found at i:42157281 original size:50 final size:51
Alignment explanation
Indices: 42157186--42157283 Score: 117
Period size: 50 Copynumber: 1.9 Consensus size: 51
42157176 GCACATAATC
* * **
42157186 GGGAAGCTTCTCTTGAGCCATATAACAAGAAGCTCATGTGAGCTATATGAA
1 GGGAAGCTTATCTCGAGCCATATAACAAGAAGCTCATCCGAGCTATATGAA
* * * *
42157237 GGGAAGCTTATC-CGAGCTATATAACAGGAAGCTTATCCGGGCTATAT
1 GGGAAGCTTATCTCGAGCCATATAACAAGAAGCTCATCCGAGCTATAT
42157284 AACAGAAAGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
50 28 0.72
51 11 0.28
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (51 bp):
GGGAAGCTTATCTCGAGCCATATAACAAGAAGCTCATCCGAGCTATATGAA
Found at i:42157308 original size:25 final size:25
Alignment explanation
Indices: 42157280--42157334 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
42157270 TATCCGGGCT
42157280 ATATAACAGAAAGCTCATAAGAGCC
1 ATATAACAGAAAGCTCATAAGAGCC
** **
42157305 ATAT-TTAGAAAGCTCATGCGAGCC
1 ATATAACAGAAAGCTCATAAGAGCC
42157329 A-ATAAC
1 ATATAAC
42157335 TGGTAGCTCC
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
23 2 0.09
24 17 0.74
25 4 0.17
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (25 bp):
ATATAACAGAAAGCTCATAAGAGCC
Found at i:42157461 original size:26 final size:26
Alignment explanation
Indices: 42157419--42157468 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
42157409 GGAAGCTTCG
*
42157419 AAGAGTCATTAATTAGGAAGCTCACA
1 AAGAGCCATTAATTAGGAAGCTCACA
*
42157445 AAGAGCCATATAA-TAGGACGCTCA
1 AAGAGCCAT-TAATTAGGAAGCTCA
42157469 TAAGATCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (26 bp):
AAGAGCCATTAATTAGGAAGCTCACA
Found at i:42157937 original size:21 final size:21
Alignment explanation
Indices: 42157913--42157954 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
42157903 TAAATTTATC
*
42157913 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
42157934 TCAATTCAATTCAATTCATAT
1 TCAATTCAATACAATTCATAT
42157955 CCTAGGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:42157942 original size:5 final size:5
Alignment explanation
Indices: 42157913--42157951 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
42157903 TAAATTTATC
* *
42157913 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
42157952 TATCCTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:42160497 original size:14 final size:14
Alignment explanation
Indices: 42160480--42160508 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42160470 TATTATAATC
42160480 ATTAAGTTTAATTA
1 ATTAAGTTTAATTA
42160494 ATTAAGTTTAATTA
1 ATTAAGTTTAATTA
42160508 A
1 A
42160509 ACCTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATTAAGTTTAATTA
Done.