Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 128 of 189
Found at i:36704365 original size:12 final size:12
Alignment explanation
Indices: 36704336--36704366 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
36704326 TCATAAATTT
36704336 ATATATTCTTTG
1 ATATATTCTTTG
36704348 -TATATTCTTTG
1 ATATATTCTTTG
36704359 ATATATTC
1 ATATATTC
36704367 CCTCATAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (12 bp):
ATATATTCTTTG
Found at i:36709457 original size:44 final size:44
Alignment explanation
Indices: 36709401--36709501 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
36709391 TCTTATCTTC
* ** **
36709401 CTGAGGTTGCAGTGGAGCAAATTGAAGTCGCTA-ATCCTATCTCT
1 CTGAAGTTGCAGTGGAGCAAATT-AAAACAATAGATCCTATCTCT
* *
36709445 CTGAAGTTGCAGTGGAGCGAATTAAAACAATAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAAATTAAAACAATAGATCCTATCTCT
36709489 CTGAAGTTGCAGT
1 CTGAAGTTGCAGT
36709502 AGAGTAGATC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 5 0.10
44 44 0.90
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAAATTAAAACAATAGATCCTATCTCT
Found at i:36709787 original size:44 final size:42
Alignment explanation
Indices: 36709737--36710248 Score: 157
Period size: 44 Copynumber: 11.7 Consensus size: 42
36709727 ATCGCATCAG
*
36709737 GTCTTATCTCCCTGAGCTTGCAGCGGAGCAGACTGAGAAAGCAA
1 GTCTTATCTCCCTGAG-TTGCAGTGGAGCAGA-TGAGAAAGCAA
* * * **
36709781 GTCTTATC-CCCTTGAATTTGAAGTGGAACAGATCGAAGATGGCAA
1 GTCTTATCTCCC-TG-AGTTGCAGTGGAGCAGAT-G-AGAAAGCAA
* *
36709826 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGAT-TG-AAGCCACTA
1 GTCTTATCTCCCTGA-GTTGCAGTGGAGCAGATGAGAAAG-CA--A
* * * * * * *
36709870 ATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACAACAA
1 GTCTTATCTCCCTG-AGTTGCAGTGGAGCAGATGAGAA-AGCAA
* * * * * * *
36709914 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT-CG-CATCAA
1 GTCTTATCTCCCTG-AGTTGCAGTGGAGCAGATGAGAAAGCAA
* *
36709955 TTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAGAAAGCAA
1 GTCTTATCTCCCTGA-GTTGCAGTGGAGCAGA-TGAGAAAGCAA
** * ** *
36709999 GTCTTATC-CCCTTGAAGTTAAAGTGGGGCAGACTGAAGATGGTGAA
1 GTCTTATCTCCC-TG-AGTTGCAGTGGAGCAGA-TG-AGAAAG-CAA
* * *
36710045 -TCTTATCTCCCTGAGTTTACAGTGGAGTAGAT--TAAAGCCAGTA
1 GTCTTATCTCCCTGAG-TTGCAGTGGAGCAGATGAGAAAG-CA--A
* ** * * ** **
36710088 ATCCAATCTCCCTAAAGTTGCAGTGGAGCGGAT-TCAAATAATA
1 GTCTTATCTCCCT-GAGTTGCAGTGGAGCAGATGAGAAAGCA-A
* * * * * * * *
36710131 GATCCTATCTCTCTGAAGTTGCAGTAGAGTAGAT-CG-CATCAG
1 G-TCTTATCTCCCTG-AGTTGCAGTGGAGCAGATGAGAAAGCAA
* * *
36710173 GTCTTATTTCCCTGAGGTTGCAGCGGAGCAGACTAAGAAAGCAA
1 GTCTTATCTCCCTGA-GTTGCAGTGGAGCAGA-TGAGAAAGCAA
* * *
36710217 GTCTTATCCCCCTGAAGTTGAAGTGGGGCAGA
1 GTCTTATCTCCCTG-AGTTGCAGTGGAGCAGA
36710249 CTGAAGATGG
Statistics
Matches: 346, Mismatches: 87, Indels: 70
0.69 0.17 0.14
Matches are distributed among these distances:
40 2 0.01
41 56 0.16
42 6 0.02
43 15 0.04
44 191 0.55
45 64 0.18
46 11 0.03
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (42 bp):
GTCTTATCTCCCTGAGTTGCAGTGGAGCAGATGAGAAAGCAA
Found at i:36710703 original size:218 final size:218
Alignment explanation
Indices: 36709072--36710688 Score: 2052
Period size: 218 Copynumber: 7.4 Consensus size: 218
36709062 ACAGATCGTT
* * * * *
36709072 GATCACATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACCGAAGAATAG-TAGATCTTAT
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTG-AGAA-AGCAAG-TCTTAT
* ** * * * * * * *
36709136 CTCCCT-AAGCAGGAGTGGAGTAGA-TCGAAGATGGAAAATCCTATCTCCCTGAGGTTGCAGTGG
63 CCCCCTGAAGTTGAAGTGGGGCAGACT-GAAGATGGTAAATCTTATCTCTCTGAGTTTGCAGTGG
* * * * * * * * * *
36709199 AGCAGATTGATGCCAATAATCCTATCTTCCTGAAGTTGTAGTGGAGAGGATTGAAATAACAGATC
127 AGTAGATTAAAGCCAGTAATCCCATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATC
* *
36709264 TTATCTCTCTGAAGTTACAGTAGAGTA
192 CTATCTCTCTGAAGTTGCAGTAGAGTA
* * * *
36709291 GATCGCATCAGGTCTTATCTCCCTGAAGTTACAGCGGAGTAGACCGA-AGAAGC-AGATCTTATC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGA-AAGCAAG-TCTTATC
* * * * * * *
36709354 TCCCT-AAGTAGTAGTAGAGCAGA-TCGAAGATGGCAAATCTTATCT-TCCTGAGGTTGCAGTGG
64 CCCCTGAAGTTGAAGTGGGGCAGACT-GAAGATGGTAAATCTTATCTCT-CTGAGTTTGCAGTGG
* * * * * * * * *
36709416 AGCAAATTGAAGTC-GCTAATCCTATCTCTCTGAAGTTGCAGTGGAGCGAATTAAAACAATAGAT
127 AGTAGATTAAAGCCAG-TAATCCCATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGAT
*
36709480 CTTATCTCTCTGAAGTTGCAGTAGAGTA
191 CCTATCTCTCTGAAGTTGCAGTAGAGTA
*
36709508 GATCGCATCAGGTCTTATCTTCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* * *
36709573 CCTAAAGTTGAAGTGGGGCAGACTAAAGATGGTGAATCTTATCT-TCATGAGTTTGCAGTGGAGT
66 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCTC-TGAGTTTGCAGTGGAGT
* * *
36709637 AGATTAAAGTCAGTAATCCCATCTCCCTGAAGTTACAGTAGAGCGGATTCAAATAATAGATCCTA
130 AGATTAAAGCCAGTAATCCCATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTA
*
36709702 TCTCTCTGAAGTTGCAGTAGAGTG
195 TCTCTCTGAAGTTGCAGTAGAGTA
*
36709726 GATCGCATCAGGTCTTATCTCCCTGAGCTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* * ** * * * *
36709791 CTTGAATTTGAAGTGGAACAGA-TCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGC
66 CCTGAAGTTGAAGTGGGGCAGACT-GAAGATGGTAAATCTTATCTCTCTGAGTTTGCAGTGGAGT
* * * * * * * * *
36709855 AGATTGAAGCCACTAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACAACAAATCTTA
130 AGATTAAAGCCAGTAATCCCATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTA
36709920 TCTCTCTGAAGTTGCAGTAGAGTA
195 TCTCTCTGAAGTTGCAGTAGAGTA
** * *
36709944 GATCGCATCAATTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* * * * *
36710009 CTTGAAGTTAAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGTA
66 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCTCTGAGTTTGCAGTGGAGTA
* *
36710074 GATTAAAGCCAGTAATCCAATCTCCCTAAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
131 GATTAAAGCCAGTAATCCCATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
36710139 CTCTCTGAAGTTGCAGTAGAGTA
196 CTCTCTGAAGTTGCAGTAGAGTA
* *
36710162 GATCGCATCAGGTCTTATTTCCCTGAGGTTGCAGCGGAGCAGACTAAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* *
36710227 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTGAATCTTATCTCTCTGAGTTTACAGTGGAGTA
66 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCTCTGAGTTTGCAGTGGAGTA
*
36710292 GATTAAAGCCAGTAATCCCGTCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
131 GATTAAAGCCAGTAATCCCATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
* *
36710357 CTCTCTGAAGTTGCAATAGAGTG
196 CTCTCTGAAGTTGCAGTAGAGTA
* * *
36710380 GACCGCATCAGGTCTTATCTCCTTGAGGTTGCAGCGGAGCAGACTGAGAAAGTAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
* *
36710445 CCTGAAGTTGAAGTAGGGCAGACTGAAGATGGTGAATCTTATCTCTCTGAGTTTGCAGTGGAGTA
66 CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCTCTGAGTTTGCAGTGGAGTA
* *
36710510 GATTAAAGCCAATAATCCCATTTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
131 GATTAAAGCCAGTAATCCCATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
* * * *
36710575 CTCTATGAAGTCGCAGTAGTGTG
196 CTCTCTGAAGTTGCAGTAGAGTA
* * * * * *
36710598 GATCGCATCAGCTCTTATTTCCCTGAGGTTGCAACAGAGCAAACTAAGAAAGCAAGTCTTATCCC
1 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
*
36710663 CCTAAAGTTGCAA-TGGGGCAGACTGA
66 CCTGAAGTTG-AAGTGGGGCAGACTGA
36710689 GAATAGCAAA
Statistics
Matches: 1247, Mismatches: 137, Indels: 29
0.88 0.10 0.02
Matches are distributed among these distances:
217 204 0.16
218 993 0.80
219 50 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (218 bp):
GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAAGTCTTATCCC
CCTGAAGTTGAAGTGGGGCAGACTGAAGATGGTAAATCTTATCTCTCTGAGTTTGCAGTGGAGTA
GATTAAAGCCAGTAATCCCATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCCTAT
CTCTCTGAAGTTGCAGTAGAGTA
Found at i:36717173 original size:19 final size:21
Alignment explanation
Indices: 36717151--36717196 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
36717141 TTAAAAATAT
*
36717151 TAAAAATATT-T-AATTTTTA
1 TAAAAATATTGTAAAATTTTA
36717170 TAAAAA-ATTGTAAAATTTTA
1 TAAAAATATTGTAAAATTTTA
36717190 TAAAAAT
1 TAAAAAT
36717197 CGTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 7 0.30
20 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAAATATTGTAAAATTTTA
Found at i:36717204 original size:20 final size:20
Alignment explanation
Indices: 36717165--36717203 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
36717155 AATATTTAAT
*
36717165 TTTTATAAAAAATTGTAAAA
1 TTTTATAAAAAATCGTAAAA
36717185 TTTTAT-AAAAATCGTAAAA
1 TTTTATAAAAAATCGTAAAA
36717204 AAAATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTTATAAAAAATCGTAAAA
Found at i:36719314 original size:29 final size:29
Alignment explanation
Indices: 36719282--36719352 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
36719272 TTTTTTATGC
36719282 ATTTTATAATTTTTTCTA-ATTTTTAGTAA
1 ATTTTATAATTTTTT-TATATTTTTAGTAA
*
36719311 ATTTTA-AATATTTTTTATATTTTTATTAA
1 ATTTTATAAT-TTTTTTATATTTTTAGTAA
*
36719340 AGTTTAATAATTT
1 A-TTTTATAATTT
36719353 CTATAACTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 5 0.14
29 22 0.61
30 6 0.17
31 3 0.08
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTTTATAATTTTTTTATATTTTTAGTAA
Found at i:36719357 original size:28 final size:29
Alignment explanation
Indices: 36719294--36719357 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
36719284 TTTATAATTT
* *
36719294 TTTCTA-ATTTTTAGTAAATTTTAAATAT
1 TTTCTATATTTTTAGTAAAGTTTAAATAA
* *
36719322 TTTTTATATTTTTATTAAAGTTT-AATAA
1 TTTCTATATTTTTAGTAAAGTTTAAATAA
36719350 TTTCTATA
1 TTTCTATA
36719358 ACTTTAAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTCTATATTTTTAGTAAAGTTTAAATAA
Found at i:36719640 original size:91 final size:89
Alignment explanation
Indices: 36719531--36719720 Score: 227
Period size: 91 Copynumber: 2.1 Consensus size: 89
36719521 GCAAAAAAAC
* * ** ** * *
36719531 AAAAAAAAAGCAATGGCTTAATTGTTTTTTTTTTAAATTTTTTAAGGTCTTTTTTATGCATTTTG
1 AAAAAAAAAGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGGT-TTTTTGATGCATTTTG
** *
36719596 GCAGTTCAAGTACCCAATTGAGTGGA
65 AAAGTTCAAGTACCCAA-TGAGTGCA
* *
36719622 AAAAAAAAAGCAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGTTTTTTGATGCATTTTGA
1 AAAAAAAAAGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGGTTTTTTGATGCATTTTGA
* *
36719687 AAGTTTAAGTATCCAATGAGTGCA
66 AAGTTCAAGTACCCAATGAGTGCA
36719711 AAAAAAAAAG
1 AAAAAAAAAG
36719721 AAGCACAGGC
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
89 17 0.20
90 28 0.33
91 39 0.46
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.37
Consensus pattern (89 bp):
AAAAAAAAAGCAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGGTTTTTTGATGCATTTTGA
AAGTTCAAGTACCCAATGAGTGCA
Found at i:36719743 original size:90 final size:90
Alignment explanation
Indices: 36719580--36719768 Score: 206
Period size: 93 Copynumber: 2.1 Consensus size: 90
36719570 TTTTAAGGTC
** * **
36719580 TTTTTTATGCATTTTGGCAGTTCAAGTACCCAATTGAGTGGAAAAAAAAAAGCAGGGGCTTAATT
1 TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAAAGCACAGGCTTAATT
**
36719645 GC--TTTTTTTGAAAAAGTTTGAGGG
66 -CAATTTTTTAAAAAAAGTTTGAGGG
* *
36719669 TTTTTTGATGCATTTTGAAAGTTTAAGTATCCAA-TGAGTGCAAAAAAAAAAGAAGCACAGGCTT
1 TTTTTT-ATGCATTTTGAAAGTTCAAGTACCCAATTGAGTG--AAAAAAAAA-AAGCACAGGCTT
36719733 AATT-AATTTTTTTAAAAAAAGTTTGAGGG
62 AATTCAA-TTTTTTAAAAAAAGTTTGAGGG
*
36719762 CTTTTTA
1 TTTTTTA
36719769 CACCCTTAAG
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
89 12 0.14
90 23 0.28
91 8 0.10
92 15 0.18
93 25 0.30
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (90 bp):
TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAAAGCACAGGCTTAATT
CAATTTTTTAAAAAAAGTTTGAGGG
Found at i:36724488 original size:21 final size:18
Alignment explanation
Indices: 36724443--36724485 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
36724433 ACCACTGCCC
*
36724443 CTTCTTCCTCACCTACAT
1 CTTCTTCCTCACCGACAT
36724461 CTTCTTCCTCACCGACAT
1 CTTCTTCCTCACCGACAT
36724479 CTTCTTC
1 CTTCTTC
36724486 TTCAATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.44, G:0.02, T:0.40
Consensus pattern (18 bp):
CTTCTTCCTCACCGACAT
Found at i:36727572 original size:12 final size:12
Alignment explanation
Indices: 36727555--36727579 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36727545 TTAACTTTTT
36727555 TATTTAATTTAA
1 TATTTAATTTAA
36727567 TATTTAATTTAA
1 TATTTAATTTAA
36727579 T
1 T
36727580 GGCACGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTAATTTAA
Found at i:36729102 original size:17 final size:17
Alignment explanation
Indices: 36729080--36729113 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36729070 TATGCAAAAC
*
36729080 AATTTAAAGTAAATAAT
1 AATTTAAAATAAATAAT
36729097 AATTTAAAATAAATAAT
1 AATTTAAAATAAATAAT
36729114 TTACAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATAAT
Found at i:36729373 original size:28 final size:29
Alignment explanation
Indices: 36729341--36729402 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
36729331 ACAATAAATG
*
36729341 ATAAATAAAAATTTTAAA-ACAAATAATA
1 ATAAATAAAAATTTTAAATAAAAATAATA
* **
36729369 ATAAA-AGAGTTTTTAAATAAAAATAATA
1 ATAAATAAAAATTTTAAATAAAAATAATA
36729397 ATAAAT
1 ATAAAT
36729403 TAAATGGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (29 bp):
ATAAATAAAAATTTTAAATAAAAATAATA
Found at i:36731023 original size:129 final size:128
Alignment explanation
Indices: 36730829--36731104 Score: 403
Period size: 129 Copynumber: 2.1 Consensus size: 128
36730819 CATGGGGATG
* * * * * *
36730829 AGATTTGTGGTTTTAGTCTGCTCTACTGCAACTTCAAGGTGATAAGACTTGGTTTCTTTTTTCTG
1 AGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAAGACTTGGTTTCTTTTTTCTG
36730894 CTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGAGAGATA
66 CTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGAGAGATA
* *
36730957 AGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGA-TTGGTTT-TTCTTCTGT
1 AGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAAGACTTGGTTTCTT-TT-T-T
* * * *
36731020 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCATTACTGCTTAGGGAGAT
63 CTGCTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGAGAGAT
36731085 A
128 A
36731086 AGATCTGTGGTTTTAATCC
1 AGATCTGTGGTTTTAATCC
36731105 TTTTAATTGT
Statistics
Matches: 133, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
126 2 0.02
127 9 0.07
128 40 0.30
129 82 0.62
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (128 bp):
AGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAAGACTTGGTTTCTTTTTTCTG
CTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGAGAGATA
Found at i:36731074 original size:40 final size:41
Alignment explanation
Indices: 36730890--36731088 Score: 163
Period size: 40 Copynumber: 4.7 Consensus size: 41
36730880 GTTTCTTTTT
*
36730890 TCTGCTCCACTACTGCTTAAGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGA
* * * ***
36730930 TCTACTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGATGCGA
* ** * * *
36730973 TCCGCTCCACTACAACTTCAGGGAGATAGGA-TTGGTTTTTCTTCTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG-----ATGC-GA
36731019 TCTGCTCCACTACTGCTTAGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGA
*
36731059 TCTGCTCCATTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
36731089 TCTGTGGTTT
Statistics
Matches: 124, Mismatches: 23, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.01
40 58 0.47
41 5 0.04
42 2 0.02
43 17 0.14
44 10 0.08
45 12 0.10
46 19 0.15
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGATGCGA
Found at i:36731376 original size:100 final size:100
Alignment explanation
Indices: 36731100--36732258 Score: 1462
Period size: 100 Copynumber: 11.8 Consensus size: 100
36731090 CTGTGGTTTT
* * * * * * * * *
36731100 AATCCTTTTAATTGTAATGTCGAGGAA-CACGATTCGCCATTGTAGCTTCAATCAGATCCACTAC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* * *
36731164 ACCACCAAGGAAGTAAGATTCGCCGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* *
36731199 AATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC-GCGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* *
36731263 ATCACCAGGGAAGTAAGATTCGCCGTTGCGGTTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * *
36731298 AATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTTGTCATCGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* *
36731363 ATCGCCAGGGAAGTAAGATTCGCCATTACGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* ** *
36731398 AATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCATCGTCGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* * *
36731463 ATCGCCAAGGAAGTAAGATTCACCATTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * * * * *
36731498 AATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGTTTTAATCTACTCCAATGT
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* *
36731563 ATCGCCAAGGAAGTAAGATTCGTCGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * * *
36731598 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGA
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* *
36731663 ATCGCCATGGAAGTAAGATTCGCCGTTGCAGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * * *
36731698 AATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCACCATTGTAGCTTCAATCTGATCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
*
36731762 ATCGCCACGGAAGTAAGATTCGCCGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* **
36731797 AATC---TT--TT-CAATGTCAGGGAAGCAAGATTCGCTGTCGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* * *
36731856 ACCGCCAGGGAAGTAAGATTCGCCATTGTGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * *
36731891 AATC-TTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* **
36731954 ATCGCCATGGAAGTAAGATAT-GTTGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGAT-TCGCCGTTGCGGCTTC
* ** *
36731989 AATC----T--TTGCAATGTCAGGGAAGCAAGATTCGCTGTCATAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* * *
36732048 ACCGCCAGGGAAGTAAGATTCGCCATTGTGGCTTC
66 ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
* * *
36732083 AATC-TTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
* **
36732146 ATCGCCATGGAAGTAAGATAT-GTTGTTGCGGCTTC
66 ATCGCCAGGGAAGTAAGAT-TCGCCGTTGCGGCTTC
* * *
36732181 AATCTTTTAAATTGCAATGTCTGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
36732246 A-CTGCCAGGGAAG
66 ATC-GCCAGGGAAG
36732259 GTAACTTCAT
Statistics
Matches: 928, Mismatches: 112, Indels: 39
0.86 0.10 0.04
Matches are distributed among these distances:
93 28 0.03
94 130 0.14
95 1 0.00
96 4 0.00
97 1 0.00
98 127 0.14
99 229 0.25
100 408 0.44
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (100 bp):
AATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGC
ATCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTC
Found at i:36731968 original size:192 final size:196
Alignment explanation
Indices: 36731100--36732258 Score: 1525
Period size: 192 Copynumber: 5.9 Consensus size: 196
36731090 CTGTGGTTTT
* * * * * *
36731100 AATCCTTTTAATTGTAATGTCGAGGAACACGATTCGCCATTGTAGCTTCAATCAGATCCACTACA
1 AATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCA
* * *
36731165 CCACCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAA
66 TCGCCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATC-TTT--ATTGCAATGTCAGGGAAGCAA
* * *
36731230 GATTCGCCG-CGTAGCTTTAATCTGCTCCACTGCATCACCAGGGAAGTAAGATTCGCCGTTGCGG
128 GATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCATTGCGG
*
36731294 TTTC
193 CTTC
* * * * * *
36731298 AATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTTGTCATCGTAGCTTTAATCTGCTCCACTGC
1 AATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGC
* * *
36731363 ATCGCCAGGGAAGTAAGATTCGCCATTACGGCTTCAATCTTTTTAATTGCAATGTC-GAGGAAGC
65 ATCGCCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATC--TTT-ATTGCAATGTCAG-GGAAGC
** * * *
36731427 AAGATTCATCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAAGGAAGTAAGATTCACCATTGC
126 AAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCATTGC
36731492 GGCTTC
191 GGCTTC
* * * * * *
36731498 AATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTCGTAGTTTTAATCT-ACTCCAATG
1 AATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCATTGTAGCTTCAATCTGA-TCCACTG
* * *
36731562 TATCGCCAAGGAAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
64 CATCGCCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATC--TTT-ATTGCAATGTCAGGGAAGC
* * * * * *
36731627 AAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGAATCGCCATGGAAGTAAGATTCGCCGTTGC
126 AAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCATTGC
*
36731692 AGCTTC
191 GGCTTC
*
36731698 AATCTTTTTAATTGCAATGTCGGGGAACAAGATTCACCATTGTAGCTTCAATCTGATCCACTGCA
1 AATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCA
*
36731763 TCGCCACGGAAGTAAGATTCGCCGTTGCGGCTTCAATC-TT-TT-CAATGTCAGGGAAGCAAGAT
66 TCGCCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTATTGCAATGTCAGGGAAGCAAGAT
* *
36731825 TCGCTGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCATTGTGGCTT
131 TCGCCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCATTGCGGCTT
36731890 C
196 C
36731891 AATC-TTTTAATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCA
1 AATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCA
* **
36731955 TCGCCATGGAAGTAAGATAT-GTTGTTGCGGCTTCAATC--T-TTGCAATGTCAGGGAAGCAAGA
66 TCGCCAAGGAAGTAAGAT-TCGCCGTTGCGGCTTCAATCTTTATTGCAATGTCAGGGAAGCAAGA
* * *
36732016 TTCGCTGTCATAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCATTGTGGCT
130 TTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCATTGCGGCT
36732081 TC
195 TC
36732083 AATC-TTTTAATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCA
1 AATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCA
* ** *
36732147 TCGCCATGGAAGTAAGATAT-GTTGTTGCGGCTTCAATCTTTTAAATTGCAATGTCTGGGAAGCA
66 TCGCCAAGGAAGTAAGAT-TCGCCGTTGCGGCTTCAATC-TTT--ATTGCAATGTCAGGGAAGCA
* * *
36732211 AGATTCGCCATTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAG
127 AGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAG
36732259 GTAACTTCAT
Statistics
Matches: 873, Mismatches: 73, Indels: 30
0.89 0.07 0.03
Matches are distributed among these distances:
191 3 0.00
192 279 0.32
193 81 0.09
194 2 0.00
195 1 0.00
196 2 0.00
198 87 0.10
199 155 0.18
200 262 0.30
201 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (196 bp):
AATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCA
TCGCCAAGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTATTGCAATGTCAGGGAAGCAAGAT
TCGCCGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCATTGCGGCTT
C
Found at i:36732257 original size:50 final size:50
Alignment explanation
Indices: 36731130--36732258 Score: 534
Period size: 50 Copynumber: 22.9 Consensus size: 50
36731120 CGAGGAACAC
* * * * *** * *
36731130 GATTCGCCATTGTAGCTTCAATCAGATCCACTACACCACCAAGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
** * ** * * *
36731180 GATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * * *
36731230 GATTCGCCG-CGTAGCTTTAATCTGCTCCACTGC-ATCACCAGGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCAGGGAAGCAA
** * * ** * * * *
36731279 GATTCGCCGTTGCGGTTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * * * * *
36731329 GATTTGTCATCGTAGCTTTAATCTGCTCCACTGC-ATCGCCAGGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCAGGGAAGCAA
* *** * ** * *
36731379 GATTCGCCATTACGGCTTCAATCTTTTTAATTGCAATGTC-GAGGAAGCAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAG-GGAAGCAA
** * * * * *
36731429 GATTCATCGTCGTAGCTTTAATCTGCTCCACTGC-ATCGCCAAGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCAGGGAAGCAA
* * ** * ** * *
36731479 GATTCACCATTGCGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * ** * * * *
36731529 GATTCGCCGTCGTAGTTTTAATCTACTCCAATG-TATCGCCAAGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCAGGGAAGCAA
* ** * ** * * *
36731579 GATTCGTCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * * *
36731629 GATTCACCGTTGTAGCTTTAATCTGCTCCACTG-AATCGCCATGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCAGGGAAGCAA
* * ** * * *
36731679 GATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * * *
36731728 GATTCACCATTGTAGCTTCAATCTGATCCACTGC-ATCGCCACGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCAGGGAAGCAA
** *
36731778 GATTCGCCGTTGCGGCTTCAATCT-TT----T-CAATGTCAGGGAAGCAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * * ** *
36731822 GATTCGCTGTCGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * ** * * *
36731872 GATTCGCCATTGTGGCTTCAATCT-TTTAATTGCAATGTCGGGGAA-CAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * *
36731920 GATTCGCCATTGTAGCTTCAATCTGATCCACTGC-ATCGCCATGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCAGGGAAGCAA
** ** *
36731970 GATAT-GTTGTTGCGGCTTCAATC--TT----TGCAATGTCAGGGAAGCAA
1 GAT-TCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* ** * * ** *
36732014 GATTCGCTGTCATAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * ** * * *
36732064 GATTCGCCATTGTGGCTTCAATCT-TTTAATTGCAATGTCGGGGAA-CAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * *
36732112 GATTCGCCATTGTAGCTTCAATCTGATCCACTGC-ATCGCCATGGAAGTAA
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAAT-GCCAGGGAAGCAA
** ** * ** * * *
36732162 GATAT-GTTGTTGCGGCTTCAATCTTTTAAATTGCAATGTCTGGGAAGCAA
1 GAT-TCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
* * * *
36732212 GATTCGCCATTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAG
1 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAG
36732259 GTAACTTCAT
Statistics
Matches: 750, Mismatches: 289, Indels: 80
0.67 0.26 0.07
Matches are distributed among these distances:
43 1 0.00
44 58 0.08
45 6 0.01
46 1 0.00
48 59 0.08
49 128 0.17
50 482 0.64
51 15 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (50 bp):
GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAGGGAAGCAA
Found at i:36733644 original size:20 final size:17
Alignment explanation
Indices: 36733609--36733664 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
36733599 CCCGGTAGAG
36733609 GTTTTT-TTTTTGTTTTT
1 GTTTTTGTTTTT-TTTTT
36733626 GCTTGTGTTGTTTTTTTTTT
1 G-TT-T-TTGTTTTTTTTTT
*
36733646 GTTTTTGCTTTTTTTTT
1 GTTTTTGTTTTTTTTTT
36733663 GT
1 GT
36733665 CTCCACTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 15 0.44
18 3 0.09
19 3 0.09
20 8 0.24
21 5 0.15
ACGTcount: A:0.00, C:0.04, G:0.16, T:0.80
Consensus pattern (17 bp):
GTTTTTGTTTTTTTTTT
Found at i:36738346 original size:40 final size:40
Alignment explanation
Indices: 36738207--36738428 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
36738197 TTGAATGATG
* * * *
36738207 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
36738247 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
36738285 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36738324 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36738364 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36738404 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36738429 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 8, Indels: 16
0.87 0.04 0.08
Matches are distributed among these distances:
36 1 0.01
37 23 0.14
38 10 0.06
39 44 0.27
40 80 0.48
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36738435 original size:79 final size:78
Alignment explanation
Indices: 36738207--36738461 Score: 295
Period size: 79 Copynumber: 3.3 Consensus size: 78
36738197 TTGAATGATG
* * * * * * *
36738207 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
36738271 TGTGCGAGTACT-AA
64 TGTGCGAGTACTAAA
*
36738285 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
36738348 TGTGCGAGTTACTAAA
64 TGTGCGAG-TACTAAA
*
36738364 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
** *
36738429 AACGAGTAGCTATA
66 TGCGAGTA-CTAAA
* *
36738443 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36738462 TACGTGATTT
Statistics
Matches: 155, Mismatches: 14, Indels: 16
0.84 0.08 0.09
Matches are distributed among these distances:
76 2 0.01
77 47 0.30
78 32 0.21
79 57 0.37
80 17 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTACTAAA
Found at i:36746425 original size:40 final size:40
Alignment explanation
Indices: 36746187--36746411 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
36746177 TTGAATGATG
* * * *
36746187 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36746227 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
36746267 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36746306 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36746346 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36746387 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36746412 AACAAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36746433 original size:119 final size:119
Alignment explanation
Indices: 36746187--36746444 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
36746177 TTGAATGATG
* *
36746187 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
36746252 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAA
* * * **
36746306 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
36746369 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACAAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACAAGTTA-CTAAA
* *
36746426 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36746445 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAA
Found at i:36748757 original size:17 final size:17
Alignment explanation
Indices: 36748735--36748768 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36748725 TATGCAAAAC
*
36748735 AATTTAAAGTAAATAAT
1 AATTTAAAATAAATAAT
36748752 AATTTAAAATAAATAAT
1 AATTTAAAATAAATAAT
36748769 TTACAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATAAT
Found at i:36749008 original size:26 final size:25
Alignment explanation
Indices: 36748978--36749056 Score: 61
Period size: 26 Copynumber: 3.1 Consensus size: 25
36748968 AAAAAGCATG
* * * *
36748978 TAAAACAGTTTACAATAAATGATAAA
1 TAAAAAAGTTTAAAACAAATAAT-AA
*
36749004 TAAAAAATTTTAAAACAAATAATAA
1 TAAAAAAGTTTAAAACAAATAATAA
* * *
36749029 TAAAAGAGTTTTTAAA-TAATAATAA
1 TAAAAAAG-TTTAAAACAAATAATAA
36749054 TAA
1 TAA
36749057 TAAATTAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
25 19 0.44
26 24 0.56
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (25 bp):
TAAAAAAGTTTAAAACAAATAATAA
Found at i:36752611 original size:102 final size:102
Alignment explanation
Indices: 36752437--36752622 Score: 277
Period size: 102 Copynumber: 1.8 Consensus size: 102
36752427 AGTAATGTAT
* *
36752437 CAAATAATTTTTCTATTTTTTAAATATTTTACTATACCCTATAGAATACTTGTCAACCCCTAACT
1 CAAATAATTTTTCTATTTTTAAAATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACT
*
36752502 TTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
66 CTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
* * *
36752539 CAAATAA-TTTTCTATTTTTAAAATATTTTACTATACCATTATAGGACATTTGTCAACCGCCTAA
1 CAAATAATTTTTCTATTTTTAAAATATTTTACTATACC-CTATAGAACACTTGTCAACC-CCTAA
*
36752603 CTCT-CTTGTGGTGTCTAAAA
64 CTCTGCTTGTGGAGTCTAAAA
36752623 ACTCCACTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
101 29 0.39
102 38 0.51
103 8 0.11
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (102 bp):
CAAATAATTTTTCTATTTTTAAAATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACT
CTGCTTGTGGAGTCTAAAACCTTCACCGACCATGTGC
Found at i:36752651 original size:101 final size:100
Alignment explanation
Indices: 36752357--36752651 Score: 274
Period size: 102 Copynumber: 2.9 Consensus size: 100
36752347 ATATTTTTTT
** * * * * * * * * * *
36752357 ATATTTTACTATAGCTTTATAGGATACTTGTCAACCCTTAATTTTACTTATGCAATCTAAAATCT
1 ATATTTTACTATA-CCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACT
*
36752422 CCACTAGTAATGTATCAAATAATTTTTCTATTTTTTAA
65 CCACTAGTAATGTA-CAAATAA-TTTTCTATTTTTAAA
* * * *
36752460 ATATTTTACTATACCCTATAGAATACTTGTCAACCCCTAACTTTGCTTGTGGAGTCTAAAACCTT
1 ATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACTC
* *
36752525 CAC-CG-ACCATGTGCCAAATAATTTTCTATTTTTAAA
66 CACTAGTA--ATGT-ACAAATAATTTTCTATTTTTAAA
* * * *
36752561 ATATTTTACTATACCATTATAGGACATTTGTCAACCGCCTAACTCT-CTTGTGGTGTCTAAAAAC
1 ATATTTTACTATACC-CTATAGAACACTTGTCAACC-CCTAACTCTGCTTGTGGAGTCTAAAAAC
36752625 TCCACTAGTAATGTACAAA-ATATTTTC
64 TCCACTAGTAATGTACAAATA-ATTTTC
36752652 CCTTAATTTA
Statistics
Matches: 160, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
100 2 0.01
101 40 0.25
102 95 0.59
103 22 0.14
104 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (100 bp):
ATATTTTACTATACCCTATAGAACACTTGTCAACCCCTAACTCTGCTTGTGGAGTCTAAAAACTC
CACTAGTAATGTACAAATAATTTTCTATTTTTAAA
Found at i:36758647 original size:29 final size:29
Alignment explanation
Indices: 36758598--36758654 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
36758588 CAATGGTGCC
* *
36758598 TTCGAACCAATAACTCAGATATCACTTGG
1 TTCGAACCAACAACTCAGATACCACTTGG
* *
36758627 TTCGAACCAACAGCTCGGATACCACTTG
1 TTCGAACCAACAACTCAGATACCACTTG
36758655 TCACGGGGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (29 bp):
TTCGAACCAACAACTCAGATACCACTTGG
Found at i:36759959 original size:39 final size:39
Alignment explanation
Indices: 36759827--36759959 Score: 130
Period size: 39 Copynumber: 3.4 Consensus size: 39
36759817 CCGAATTTAA
* * * *
36759827 ACATACTTAAAA--CATGTATTAAAGATGTCCTAAACTATG
1 ACATAATTAAAACTCATG-ATTAATGATGTTC-AAATTATG
* * *
36759866 ACATAATTAAAAC-CCTGATTAATGTTGTTCAGATTATG
1 ACATAATTAAAACTCATGATTAATGATGTTCAAATTATG
*
36759904 ACATAATTAAAAACTCAT-ATTTATGATGTTCAAATTATG
1 ACATAATT-AAAACTCATGATTAATGATGTTCAAATTATG
36759943 ACATAATTAAAGACTCA
1 ACATAATTAAA-ACTCA
36759960 AACTAAATTA
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
38 17 0.22
39 57 0.72
40 5 0.06
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.34
Consensus pattern (39 bp):
ACATAATTAAAACTCATGATTAATGATGTTCAAATTATG
Found at i:36763879 original size:20 final size:21
Alignment explanation
Indices: 36763854--36763892 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36763844 TTTAGTTACA
36763854 AATAATTA-AATATAAATATT
1 AATAATTATAATATAAATATT
*
36763874 AATAATTATATTATAAATA
1 AATAATTATAATATAAATA
36763893 AAATAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTATAATATAAATATT
Found at i:36763897 original size:20 final size:20
Alignment explanation
Indices: 36763853--36763898 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
36763843 TTTTAGTTAC
36763853 AAATAATTAAATATAAATAT
1 AAATAATTAAATATAAATAT
* *
36763873 TAATAATTATATTATAAATA-
1 AAATAATTA-AATATAAATAT
36763893 AAATAA
1 AAATAA
36763899 ATACTCACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAATTAAATATAAATAT
Found at i:36771583 original size:19 final size:19
Alignment explanation
Indices: 36771543--36771583 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
36771533 CTTCATTCCT
* **
36771543 TTGGAATCTTTTACCCTTG
1 TTGGAATCTTCTACCCAAG
36771562 TTGGAATCTTCTACCCAAG
1 TTGGAATCTTCTACCCAAG
36771581 TTG
1 TTG
36771584 CAAACATGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (19 bp):
TTGGAATCTTCTACCCAAG
Found at i:36777815 original size:37 final size:37
Alignment explanation
Indices: 36777756--36777955 Score: 169
Period size: 37 Copynumber: 5.5 Consensus size: 37
36777746 TGATCTAGCG
*
36777756 TGTT-TCGGTTGGATTAGCTCTTATGAGCAATTGGCA
1 TGTTATCGGGTGGATTAGCTCTTATGAGCAATTGGCA
* *
36777792 TGTTATCGGGTGGATTAACTCTTATGAGC-ATTGACATA
1 TGTTATCGGGTGGATTAGCTCTTATGAGCAATTGGC--A
* * * *
36777830 TTATTATCAGGTGGATTAGCTCTTATGAGCGACT-G-A
1 -TGTTATCGGGTGGATTAGCTCTTATGAGCAATTGGCA
* * * * *
36777866 TGTGTTTTGGTTGGATTAGTTCTTATGAGCGATTGGCA
1 TGT-TATCGGGTGGATTAGCTCTTATGAGCAATTGGCA
* * *
36777904 TGTTATCGAGTGGATTAACTCTTATGAGCAACTGGC-
1 TGTTATCGGGTGGATTAGCTCTTATGAGCAATTGGCA
* *
36777940 -GTTTTCGGTTGGATTA
1 TGTTATCGGGTGGATTA
36777956 CTTGTGTACT
Statistics
Matches: 130, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
35 15 0.12
36 34 0.26
37 48 0.37
38 5 0.04
39 26 0.20
40 2 0.02
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.39
Consensus pattern (37 bp):
TGTTATCGGGTGGATTAGCTCTTATGAGCAATTGGCA
Found at i:36780171 original size:56 final size:58
Alignment explanation
Indices: 36780055--36780175 Score: 156
Period size: 56 Copynumber: 2.1 Consensus size: 58
36780045 TAGAAATGGA
* *
36780055 GAAAATGGGGAAATGGGAATAAATTGAAAATGATTATGGTTTTCTCCAAAATAAAAAT
1 GAAAATGGAGAAATGGGAATAAATTGAAAATGAATATGGTTTTCTCCAAAATAAAAAT
* * * * * *
36780113 GAAAATGGAGAAAT-GGAATCATTTGGAAATGAATGTGG-TTTCTCCAAGATGAAAAT
1 GAAAATGGAGAAATGGGAATAAATTGAAAATGAATATGGTTTTCTCCAAAATAAAAAT
36780169 GAAAATG
1 GAAAATG
36780176 AAAATAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 23 0.42
57 19 0.35
58 13 0.24
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (58 bp):
GAAAATGGAGAAATGGGAATAAATTGAAAATGAATATGGTTTTCTCCAAAATAAAAAT
Found at i:36780172 original size:6 final size:6
Alignment explanation
Indices: 36780161--36780191 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
36780151 TTTCTCCAAG
*
36780161 ATGAAA ATGAAA ATGAAA ATAAAA ATGAAA A
1 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA A
36780192 AAGAAAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (6 bp):
ATGAAA
Found at i:36781671 original size:12 final size:14
Alignment explanation
Indices: 36781641--36781672 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
36781631 TTTTAGGTGA
36781641 ATTTTGTAATTTAT
1 ATTTTGTAATTTAT
36781655 ATTTTGTAATTTAT
1 ATTTTGTAATTTAT
36781669 -TTTT
1 ATTTT
36781673 CTAGGATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (14 bp):
ATTTTGTAATTTAT
Found at i:36784236 original size:12 final size:12
Alignment explanation
Indices: 36784210--36784248 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36784200 CGCTTCTTCT
* *
36784210 TTACTTACTTTC
1 TTACTTGCTTAC
*
36784222 TTACTTGTTTAC
1 TTACTTGCTTAC
36784234 TTACTTGCTTAC
1 TTACTTGCTTAC
36784246 TTA
1 TTA
36784249 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.05, T:0.56
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:36784506 original size:50 final size:50
Alignment explanation
Indices: 36784447--36784690 Score: 256
Period size: 50 Copynumber: 4.8 Consensus size: 50
36784437 TGATAGTAAC
* * * **
36784447 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGTAGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
36784497 ATGCCAATGCCATGTCCTAGATATGGTCTTACATGGGA-GTCCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATATCG
* * ** *
36784547 ATGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * * *
36784597 GTGCCAACGCCATGTCCCAGACATGGTCTTACGTGGAACCTCTCATAACCTCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TCG
36784650 ATAAAGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 AT---GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
36784691 TCTCATTCCC
Statistics
Matches: 162, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 124 0.77
51 1 0.01
53 3 0.02
56 33 0.20
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:36799252 original size:50 final size:50
Alignment explanation
Indices: 36799177--36799466 Score: 277
Period size: 50 Copynumber: 5.9 Consensus size: 50
36799167 CATTTGGGTA
* ** *
36799177 AAGAGATCCCGTGTAAGACCATGTCTAAGACATAGCGTTGGCACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
36799227 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * *
36799277 GAGAGATCCCATGTAAGACCATTTCTGGGACATGGCGTTGACACCGAGAT
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * * * *
36799327 GAGAGGTCCC--GTAAGACCATGTCTGGGACATGGCATGGGCACCTATAT
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * * * * *
36799375 GAGA-ACTCTCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACA-
1 AAGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* * * * *
36799423 AGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 A-AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
36799467 TGTTATATTC
Statistics
Matches: 201, Mismatches: 33, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
48 39 0.19
49 34 0.17
50 128 0.64
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:36799388 original size:98 final size:99
Alignment explanation
Indices: 36799178--36799410 Score: 299
Period size: 98 Copynumber: 2.4 Consensus size: 99
36799168 ATTTGGGTAA
* * ** * *
36799178 AGAGATCCCGTGTAAGACCATGTCTAAGACATAGCGTTGGCACCGAGATAAGAGGTCCCATGTAA
1 AGAGATCCCATGTAAGACCATATCTGGGACATGGCGTTGACACCGAGATAAGAGGTCCCA-GTAA
* *
36799243 GACCATGTCTGGGACATGGCGTTGGCACCGAGATG
65 GACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
36799278 AGAGATCCCATGTAAGACCATTTCTGGGACATGGCGTTGACACCGAGATGAGAGGTCCC-GTAAG
1 AGAGATCCCATGTAAGACCATATCTGGGACATGGCGTTGACACCGAGATAAGAGGTCCCAGTAAG
* *
36799342 ACCATGTCTGGGACATGGCATGGGCACCTATATG
66 ACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
36799376 AGA-ACTCTCATGTAAGACCATATATGGGATATGGC
1 AGAGA-TCCCATGTAAGACCATATCTGGGACATGGC
36799411 ATTGGCAGTA
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
97 1 0.01
98 64 0.55
100 52 0.44
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (99 bp):
AGAGATCCCATGTAAGACCATATCTGGGACATGGCGTTGACACCGAGATAAGAGGTCCCAGTAAG
ACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:36804436 original size:8 final size:8
Alignment explanation
Indices: 36804414--36804452 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
36804404 TTAGCCTCTC
36804414 CATTTTTT
1 CATTTTTT
* *
36804422 TACTTTTT
1 CATTTTTT
36804430 CATTTTTT
1 CATTTTTT
36804438 CA-TTTTT
1 CATTTTTT
36804445 CATTTTTT
1 CATTTTTT
36804453 TGACTTAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (8 bp):
CATTTTTT
Found at i:36804437 original size:15 final size:15
Alignment explanation
Indices: 36804414--36804452 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
36804404 TTAGCCTCTC
*
36804414 CATTTTTTTACTTTTT
1 CATTTTTTCA-TTTTT
36804430 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
36804445 CATTTTTT
1 CATTTTTT
36804453 TGACTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:36804490 original size:6 final size:6
Alignment explanation
Indices: 36804482--36804515 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
36804472 TTTTCTTCTT
* *
36804482 TTTTGT TTTTGA TTTTGA TTTTAA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
36804516 TTTGATTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:36809525 original size:20 final size:20
Alignment explanation
Indices: 36809484--36809532 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
36809474 ATACATATAT
*
36809484 ATATAAAT-AGATAAATAAA
1 ATATAAATAACATAAATAAA
* *
36809503 ATATAAATAACATAATTACA
1 ATATAAATAACATAAATAAA
*
36809523 ATATCAATAA
1 ATATAAATAA
36809533 GGCTAGTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
ATATAAATAACATAAATAAA
Found at i:36810428 original size:7 final size:7
Alignment explanation
Indices: 36810403--36810435 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
36810393 AAAAGATGTA
36810403 TTTTTC-
1 TTTTTCT
36810409 TTTTTCT
1 TTTTTCT
36810416 TCTTTTCT
1 T-TTTTCT
36810424 TTTTTCT
1 TTTTTCT
36810431 TTTTT
1 TTTTT
36810436 TGCTGCCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:36810436 original size:15 final size:14
Alignment explanation
Indices: 36810403--36810436 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
36810393 AAAAGATGTA
36810403 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
*
36810417 CTTTTCTTTTTTCTT
1 TTTTTC-TTTTTCTT
36810432 TTTTT
1 TTTTT
36810437 GCTGCCGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:36817383 original size:4 final size:4
Alignment explanation
Indices: 36817374--36817405 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
36817364 TGGATATTCG
36817374 AAAT AAAT -AAT AAAT AAAT -AAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
36817406 GAGTTACTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.23
4 20 0.77
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:36817390 original size:11 final size:11
Alignment explanation
Indices: 36817374--36817405 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
36817364 TGGATATTCG
36817374 AAATAAATAAT
1 AAATAAATAAT
36817385 AAATAAATAAT
1 AAATAAATAAT
36817396 AAATAAATAA
1 AAATAAATAA
36817406 GAGTTACTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:36821641 original size:27 final size:28
Alignment explanation
Indices: 36821584--36821653 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
36821574 AGCCCCGTGA
36821584 CAAGTGGTATCCGAGCCAAGTTTTAAGC
1 CAAGTGGTATCCGAGCCAAGTTTTAAGC
36821612 CAAGTGGTATCCGAG-CAAGTTTTGAA-C
1 CAAGTGGTATCCGAGCCAAGTTTT-AAGC
* *
36821639 CAAGTGATATTCGAG
1 CAAGTGGTATCCGAG
36821654 TTGGTTTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
CAAGTGGTATCCGAGCCAAGTTTTAAGC
Found at i:36825775 original size:41 final size:41
Alignment explanation
Indices: 36825714--36825970 Score: 390
Period size: 41 Copynumber: 6.3 Consensus size: 41
36825704 TTTTCAGTTT
* *
36825714 TCGGGGCTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
36825755 TCGGGTCTTTAGCGGTGTTTTTAAAGAAGCGCTGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* * *
36825796 TCTGGTCTTTAGCGACGTTTTTAAAGAAGCGTCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
36825837 TCGGGTCTTTAGCGGCGTTTTTAAAGAGGCACCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
36825878 TTGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
36825919 TCGGGCCTTTAGCGGC-TTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
36825959 TCGGGTCTTTAG
1 TCGGGTCTTTAG
36825971 GAGCGTCTTT
Statistics
Matches: 195, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
40 34 0.17
41 161 0.83
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.31
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
Found at i:36831265 original size:43 final size:43
Alignment explanation
Indices: 36831198--36831425 Score: 278
Period size: 43 Copynumber: 5.3 Consensus size: 43
36831188 AGATTATGTT
* ** *
36831198 TTTAGCGGCGTTTTTGTTAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGGTC
* * * *
36831241 TATAGCGGCGTTTGTGATAAAAGCGCCTCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGGTC
* * * *
36831284 TTTAGCGGTGTTTGT-AGGAAAAGCGCTGCTAAAGGGCTTGGTC
1 TTTAGCGGCGTTTGTGA-GAGAAGCGCCGCTAAAGGTCTTGGTC
* *
36831327 TTTAGTGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGGTC
* * **
36831370 TTTAGCGGCGTTTGTGGGAGAAGAGCCGCTAAAGGTCCCGGTC
1 TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGGTC
36831413 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
36831426 TTTTTGCGCT
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 160 0.99
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTCTTGGTC
Found at i:36834091 original size:18 final size:17
Alignment explanation
Indices: 36834070--36834111 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
36834060 AAAAATCATT
36834070 AAAATATTA-AAATATAAA
1 AAAATA-TAGAAAT-TAAA
36834088 AAAATATAGAAATTAAA
1 AAAATATAGAAATTAAA
36834105 AAGAATA
1 AA-AATA
36834112 AAAGAGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAATATAGAAATTAAA
Found at i:36837217 original size:24 final size:24
Alignment explanation
Indices: 36837185--36837243 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
36837175 CTACACGAAT
**
36837185 CAGAGTTTAAGTGGGAAACTAAAA
1 CAGAGTTTAACCGGGAAACTAAAA
36837209 CAGAGTTTAACCGGGAAACTAAAA
1 CAGAGTTTAACCGGGAAACTAAAA
*
36837233 TAGAGTTTAAC
1 CAGAGTTTAAC
36837244 TGAGAGAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (24 bp):
CAGAGTTTAACCGGGAAACTAAAA
Found at i:36839547 original size:19 final size:20
Alignment explanation
Indices: 36839523--36839560 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36839513 ACATCCAAAA
36839523 TCATCACC-ATGTACCATAT
1 TCATCACCTATGTACCATAT
36839542 TCATCACCTATGTACCATA
1 TCATCACCTATGTACCATA
36839561 CAAGGTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (20 bp):
TCATCACCTATGTACCATAT
Found at i:36841292 original size:24 final size:25
Alignment explanation
Indices: 36841265--36841312 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
36841255 TTAAGTTGAT
*
36841265 AAGAATT-CTCTTTGAGTTT-TTTTC
1 AAGAATTACT-TTTAAGTTTCTTTTC
36841289 AAGAATTACTTTTAAGTTTCTTTT
1 AAGAATTACTTTTAAGTTTCTTTT
36841313 AGAGTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (25 bp):
AAGAATTACTTTTAAGTTTCTTTTC
Found at i:36843259 original size:95 final size:97
Alignment explanation
Indices: 36843096--36843285 Score: 312
Period size: 95 Copynumber: 2.0 Consensus size: 97
36843086 GGAGGAATAG
* * *
36843096 GATTGAGCTATCACATTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
36843161 GTCCAATTAAA-ATCCAAATAGAG-AGAAAAC
66 GTCCAATTAAATATCCAAATAGAGAAGAAAAC
* *
36843191 GATTGAGCTATCACCTTTTATGAAATGTTATTAGTGTAGTTCACAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
36843256 GTCCAATTAAATATCCAACTAGAGAAGAAA
66 GTCCAATTAAATATCCAAATAGAGAAGAAA
36843286 GTAAGTATGA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
95 71 0.82
96 11 0.13
97 5 0.06
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (97 bp):
GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
GTCCAATTAAATATCCAAATAGAGAAGAAAAC
Found at i:36843786 original size:24 final size:24
Alignment explanation
Indices: 36843754--36843806 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
36843744 TCCAATTATA
36843754 TTACTCTACCATCGATCGACACTT
1 TTACTCTACCATCGATCGACACTT
36843778 TTACTCTACCATCGATCGACACTT
1 TTACTCTACCATCGATCGACACTT
36843802 TTACT
1 TTACT
36843807 TGTGGGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.36
Consensus pattern (24 bp):
TTACTCTACCATCGATCGACACTT
Found at i:36847888 original size:43 final size:43
Alignment explanation
Indices: 36847808--36847889 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
36847798 AAATATTGGG
*
36847808 GCACACATAGTGCACCATCAGATAAGCTGTAGAAATTATACTT
1 GCACACATAGTGCACCATCAGATAAGCTGAAGAAATTATACTT
* * *
36847851 GCACACATAGTGCATCATCGGATTAA-CTGAAGTAATTAT
1 GCACACATAGTGCACCATCAGA-TAAGCTGAAGAAATTAT
36847890 GTTGGCACGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 31 0.91
44 3 0.09
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (43 bp):
GCACACATAGTGCACCATCAGATAAGCTGAAGAAATTATACTT
Found at i:36847938 original size:42 final size:42
Alignment explanation
Indices: 36847892--36847996 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
36847882 GTAATTATGT
* *
36847892 TGGCACGTAAGTGCATCATTGGACGTACCGAAGAAAATATAC
1 TGGCACGTAAGTGCATCATTAGACATACCGAAGAAAATATAC
* * * * *
36847934 TGGCATGTAAGTGCATCATCAGATATACCGAAGAAATTATTC
1 TGGCACGTAAGTGCATCATTAGACATACCGAAGAAAATATAC
**
36847976 TGGCACACACAGTGCATCATT
1 TGGCACGTA-AGTGCATCATT
36847997 TATTAAACCG
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 41 0.80
43 10 0.20
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (42 bp):
TGGCACGTAAGTGCATCATTAGACATACCGAAGAAAATATAC
Found at i:36849570 original size:24 final size:24
Alignment explanation
Indices: 36849543--36849595 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
36849533 AGGATTAGTC
*
36849543 ATGAGGTAATTATATAATGCTTGT
1 ATGAGGTAAGTATATAATGCTTGT
36849567 ATGAGGTAAGTATATAATGCTTGT
1 ATGAGGTAAGTATATAATGCTTGT
36849591 ATGAG
1 ATGAG
36849596 TTATATGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (24 bp):
ATGAGGTAAGTATATAATGCTTGT
Found at i:36851388 original size:22 final size:23
Alignment explanation
Indices: 36851363--36851406 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
36851353 AGTCCAAATA
*
36851363 ATTAACATCTTTAA-CTATTTTG
1 ATTAAAATCTTTAATCTATTTTG
*
36851385 ATTAAAATTTTTAATCTATTTT
1 ATTAAAATCTTTAATCTATTTT
36851407 TTTATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTAAAATCTTTAATCTATTTTG
Found at i:36853445 original size:25 final size:25
Alignment explanation
Indices: 36853417--36853466 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
36853407 TGATTTGTTT
36853417 AAATATTTTTT-TACACTTTTTAAAA
1 AAATATTTTTTATACA-TTTTTAAAA
*
36853442 AAATATTTTTTATATATTTTTAAAA
1 AAATATTTTTTATACATTTTTAAAA
36853467 TTTTATTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATATTTTTTATACATTTTTAAAA
Found at i:36867250 original size:42 final size:41
Alignment explanation
Indices: 36867179--36867314 Score: 123
Period size: 41 Copynumber: 3.2 Consensus size: 41
36867169 TATGTTATCG
* * * ** *
36867179 TGTAAGACCACGTCTAGGACGTTAACATCGACTTGTGTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TTGTGTTACA
*
36867221 TGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGTTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATTGTGTTACA
* *
36867262 TGTAAGACCTTGT-TGGGGACAGTGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCT-GGGACATTGGCATCGAT-TGTG-TTACA
*
36867305 TGAAAGACCA
1 TGTAAGACCA
36867315 CATCCGGGAC
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
40 3 0.04
41 32 0.42
42 29 0.38
43 13 0.17
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTGTGTTACA
Found at i:36885775 original size:27 final size:27
Alignment explanation
Indices: 36885737--36885789 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
36885727 GAATAGACTA
* *
36885737 AGTCTGCCAGGATAATAAACATGGGTT
1 AGTCTGCCAGGACAATAAACACGGGTT
* *
36885764 AGTCTGCTAGGACAGTAAACACGGGT
1 AGTCTGCCAGGACAATAAACACGGGT
36885790 AAGTTTGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (27 bp):
AGTCTGCCAGGACAATAAACACGGGTT
Found at i:36894505 original size:16 final size:16
Alignment explanation
Indices: 36894484--36894516 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36894474 TCAAAATAAT
36894484 ATATAAAAATTCAAAA
1 ATATAAAAATTCAAAA
*
36894500 ATATAAAAATTGAAAA
1 ATATAAAAATTCAAAA
36894516 A
1 A
36894517 AATAGTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
ATATAAAAATTCAAAA
Found at i:36904189 original size:23 final size:24
Alignment explanation
Indices: 36904139--36904189 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
36904129 TAATCTCTCT
**
36904139 ATTTTTATTTTCAAGAATTTAATT
1 ATTTTTATTTTCAAGAATTTAAAA
36904163 ATTTTTACTTTTC-A-AATTTAAAA
1 ATTTTTA-TTTTCAAGAATTTAAAA
36904186 ATTT
1 ATTT
36904190 AGGTCAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
24 8 0.33
25 5 0.21
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTTATTTTCAAGAATTTAAAA
Found at i:36905083 original size:24 final size:24
Alignment explanation
Indices: 36905040--36905085 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
36905030 TTTATGGCCT
*
36905040 AAAATTTCATGGAAAGATTTTGTG
1 AAAATTTCATCGAAAGATTTTGTG
36905064 AAAATTTCATTCGAAA-ATTTTG
1 AAAATTTCA-TCGAAAGATTTTG
36905086 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (24 bp):
AAAATTTCATCGAAAGATTTTGTG
Found at i:36906215 original size:41 final size:41
Alignment explanation
Indices: 36906151--36906301 Score: 214
Period size: 41 Copynumber: 3.7 Consensus size: 41
36906141 CATTGAATGT
*
36906151 AAGGGGTTGCTAAGTGCAAATTCCCCGAATAACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATAACTGATCAAA
* *
36906192 AAGGTGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATAACTGATCAAA
** * *
36906233 AAGGGGTTGCTAAGTATAGATTTCCCGAA-ACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATA-ACTGATCAAA
*
36906274 AAGGGGCTGCTAAGTGCAGATTCCCCGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA
36906302 GGGGTTGCTA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATAACTGATCAAA
Found at i:36906311 original size:26 final size:26
Alignment explanation
Indices: 36906275--36906324 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
36906265 CTGATCAAAA
36906275 AGGGGCTGCTAAGTGCAGATTCCCCG
1 AGGGGCTGCTAAGTGCAGATTCCCCG
* *
36906301 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGCTGCTAAGTGCAGATTCCC
36906325 TGAATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.34, T:0.24
Consensus pattern (26 bp):
AGGGGCTGCTAAGTGCAGATTCCCCG
Found at i:36921816 original size:25 final size:24
Alignment explanation
Indices: 36921788--36921841 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
36921778 TTAAAACAAC
36921788 TTCTAAAAAAAAACTCAAGAGAGAA
1 TTCTAAAAAAAAACTCAAG-GAGAA
** *
36921813 TTCTTGGAGAAAAACTCAAGGAGAA
1 TTC-TAAAAAAAAACTCAAGGAGAA
36921838 TTCT
1 TTCT
36921842 GCACTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.04
25 11 0.44
26 13 0.52
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (24 bp):
TTCTAAAAAAAAACTCAAGGAGAA
Found at i:36922745 original size:14 final size:16
Alignment explanation
Indices: 36922735--36922797 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 16
36922725 TTAATATAAT
36922735 TATTTTTATATTAAAA
1 TATTTTTATATTAAAA
36922751 TATTTTTAT-TTAAAA
1 TATTTTTATATTAAAA
*
36922766 TTATATTTTGAAATT-AAA
1 -TAT-TTTT-ATATTAAAA
36922784 TA-TTTTATATTAAA
1 TATTTTTATATTAAA
36922798 TTATATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 4 0.10
15 12 0.30
16 12 0.30
17 6 0.15
18 4 0.10
19 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TATTTTTATATTAAAA
Found at i:36922790 original size:32 final size:33
Alignment explanation
Indices: 36922719--36922804 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 33
36922709 TAATTTAATT
*
36922719 ATATTTTTA-A-TATAATTAT-TTTTATATTAAA
1 ATATTTTTATATTA-AATTATATTTTAAATTAAA
36922750 ATATTTTTAT-TTAAAATTATATTTTGAAATT-AA
1 ATATTTTTATATT-AAATTATATTTT-AAATTAAA
36922783 ATA-TTTTATATTAAATTATATT
1 ATATTTTTATATTAAATTATATT
36922805 AAAATATTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
31 9 0.19
32 23 0.48
33 12 0.25
34 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (33 bp):
ATATTTTTATATTAAATTATATTTTAAATTAAA
Found at i:36924833 original size:36 final size:36
Alignment explanation
Indices: 36924788--36924909 Score: 139
Period size: 34 Copynumber: 3.6 Consensus size: 36
36924778 ATCCAATGCT
36924788 CAAATCAATTCGGCAATATATATATGTATACATATA
1 CAAATCAATTCGGCAATATATATATGTATACATATA
* *
36924824 CAAATCAATTCGTC-A-ATATATATGTATACACATA
1 CAAATCAATTCGGCAATATATATATGTATACATATA
** * *
36924858 CAAATCAATTCGAAAATGTATATATCTAT--AT-T-
1 CAAATCAATTCGGCAATATATATATGTATACATATA
*
36924890 TAAATCAATTCGGCAATATA
1 CAAATCAATTCGGCAATATA
36924910 AAAAACATAT
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
32 16 0.22
33 1 0.01
34 31 0.42
35 2 0.03
36 23 0.32
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (36 bp):
CAAATCAATTCGGCAATATATATATGTATACATATA
Found at i:36931697 original size:41 final size:42
Alignment explanation
Indices: 36931646--36931724 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
36931636 ATGTTAATGC
* *
36931646 ATATCGATGCCACTATCCCAGACAGGGTCTTATACGAATCAT
1 ATATCGATGCCAATATCCCAGACAGGGTCTTACACGAATCAT
* *
36931688 ATAT-GATGCCAATTTCCCAGACATGGTCTTACACGAA
1 ATATCGATGCCAATATCCCAGACAGGGTCTTACACGAA
36931725 ATCACACCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 29 0.88
42 4 0.12
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
ATATCGATGCCAATATCCCAGACAGGGTCTTACACGAATCAT
Found at i:36931890 original size:36 final size:36
Alignment explanation
Indices: 36931846--36931945 Score: 150
Period size: 34 Copynumber: 2.8 Consensus size: 36
36931836 ATCCAATGCT
36931846 CAAATCAATTCGACAATATATATATGTATACATATA
1 CAAATCAATTCGACAATATATATATGTATACATATA
*
36931882 CAAATCAATTCGTC-A-ATATATATGTATACATATA
1 CAAATCAATTCGACAATATATATATGTATACATATA
* * *
36931916 CAAATCAATTCGGCAATGTATATATCTATA
1 CAAATCAATTCGACAATATATATATGTATA
36931946 TTTAAATCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 32 0.55
35 2 0.03
36 24 0.41
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (36 bp):
CAAATCAATTCGACAATATATATATGTATACATATA
Found at i:36931934 original size:28 final size:30
Alignment explanation
Indices: 36931867--36931980 Score: 93
Period size: 34 Copynumber: 3.6 Consensus size: 30
36931857 GACAATATAT
*
36931867 ATATGTATACATATACAAATCAATTCGTCAATA
1 ATATGTATACATATACAAATCAATTCGGC---A
36931900 TATATGTATACATATACAAATCAATTCGGCA
1 -ATATGTATACATATACAAATCAATTCGGCA
* * ** *
36931931 ATGTATATATCTATATTTAAATCAATTCGGAA
1 ATATGTATA-C-ATATACAAATCAATTCGGCA
* *
36931963 ATATATAAAACATATACA
1 ATATGT-ATACATATACA
36931981 TTTGAATTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
30 7 0.10
31 7 0.10
32 23 0.34
33 2 0.03
34 28 0.42
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (30 bp):
ATATGTATACATATACAAATCAATTCGGCA
Found at i:36934323 original size:41 final size:41
Alignment explanation
Indices: 36934267--36934505 Score: 280
Period size: 41 Copynumber: 5.8 Consensus size: 41
36934257 ACAACACATT
* * * *
36934267 GGCATGAAGACTGCTAGGCTCAAAGCCTGATATAACACACC
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* * * *
36934308 AGCACGAAGCTTGCTAAGCACAAAGCCTAATATAATACACC
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* * **
36934349 GACACAAAGCCTGCTAGGCACAAAGTTTGATATAATACACC
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* * *
36934390 GGAACGAAGCCTGCTAGGCACAAAGCCTCATATAATACACT
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* * * * *
36934431 GGCATGAAGCTTACTAGGCACAAAGCTTGATATAATACAAC
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
* *
36934472 GGTAGGAAGCCTGCTAGGCACAAAGCCTGATATA
1 GGCACGAAGCCTGCTAGGCACAAAGCCTGATATA
36934506 TTATCTCAAG
Statistics
Matches: 162, Mismatches: 36, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 162 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
GGCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACC
Found at i:36936212 original size:17 final size:17
Alignment explanation
Indices: 36936190--36936224 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
36936180 ACCATTTCAC
36936190 TATCAAGAAAAAATATT
1 TATCAAGAAAAAATATT
36936207 TATCAAGAAAAAATATT
1 TATCAAGAAAAAATATT
36936224 T
1 T
36936225 TGTGTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
TATCAAGAAAAAATATT
Found at i:36948954 original size:45 final size:46
Alignment explanation
Indices: 36948894--36949008 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 46
36948884 CTACACGCCT
* * * *
36948894 AAATGACTAAAACCATAGTTGAAAGATGTTATTCCATCAT-G-ACAA
1 AAATGACTAAGACCATAGTTGAAAGACGTCATGCCATCATAGTA-AA
* * *
36948939 AAATGAGTAAGACCATAGCTGAAAGACGTCATGGCATCATAGTAAA
1 AAATGACTAAGACCATAGTTGAAAGACGTCATGCCATCATAGTAAA
*
36948985 CAA-GACTAAGACCATAGTTGAAAG
1 AAATGACTAAGACCATAGTTGAAAG
36949009 TCGCTATGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
45 52 0.90
46 5 0.09
47 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (46 bp):
AAATGACTAAGACCATAGTTGAAAGACGTCATGCCATCATAGTAAA
Found at i:36954800 original size:23 final size:23
Alignment explanation
Indices: 36954731--36954818 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
36954721 TTATTAACAT
* *
36954731 TGTTAGTGAACATGTTCAATTATA
1 TGTTAATGAACATGTTCGATTA-A
* * *
36954755 TGTTCATGAACATGTTTGTTTAA
1 TGTTAATGAACATGTTCGATTAA
**
36954778 TGTTCGTGAACATGTTCGATTAA
1 TGTTAATGAACATGTTCGATTAA
36954801 -GTTAAATGAACATGTTCG
1 TGTT-AATGAACATGTTCG
36954819 TGAACATTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 33 0.62
24 17 0.32
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (23 bp):
TGTTAATGAACATGTTCGATTAA
Found at i:36954828 original size:23 final size:23
Alignment explanation
Indices: 36954784--36954829 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
36954774 TTAATGTTCG
* *
36954784 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
36954807 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
36954830 CAAACGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:36956974 original size:43 final size:43
Alignment explanation
Indices: 36956913--36957173 Score: 297
Period size: 43 Copynumber: 6.1 Consensus size: 43
36956903 CGCTATAGAC
* * *
36956913 AACGCTGCTAAAGACCATGACCTTTAGAGGTGCTTTTATCACA
1 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACA
* * *
36956956 AACGCCGCTAAATACCATGACCTTTAGCGGTGCTTTTAACACA
1 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACA
* * ** ** * *
36956999 AACACCGCTAACGGTCATGGTCTTTAGCGACGTTTTTATCACA
1 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACA
** * *
36957042 AGTGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTGTCACA
1 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACA
* * *
36957085 AACGCCACTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
1 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACA
* * * *
36957128 AATGCCGCAAAAGACCATGACCTTTAGCGACGCTTTTGTCACA
1 AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACA
36957171 AAC
1 AAC
36957174 ACAGCTATTG
Statistics
Matches: 176, Mismatches: 42, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 176 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
AACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCACA
Found at i:36957639 original size:43 final size:43
Alignment explanation
Indices: 36957577--36957667 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
36957567 CACATTGCAA
* *
36957577 GGTAATAAAAAATACAATACATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
* *
36957620 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
36957663 -GTAAT
1 GGTAAT
36957668 GAACTCAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:36961853 original size:7 final size:7
Alignment explanation
Indices: 36961841--36962041 Score: 75
Period size: 7 Copynumber: 27.7 Consensus size: 7
36961831 ACCAATTAAT
36961841 CTAAACC
1 CTAAACC
36961848 CTAAACCC
1 CTAAA-CC
36961856 CT-AACC
1 CTAAACC
*
36961862 CTAATCTC
1 CTAAAC-C
36961870 CTAAACC
1 CTAAACC
*
36961877 CTAAATC
1 CTAAACC
* *
36961884 ATAAAAC
1 CTAAACC
* *
36961891 ATAGACC
1 CTAAACC
*
36961898 TTAAACCC
1 CTAAA-CC
36961906 CT-AACC
1 CTAAACC
*
36961912 CTAATCTC
1 CTAAAC-C
36961920 CTAAACC
1 CTAAACC
*
36961927 CTAAATC
1 CTAAACC
* *
36961934 ATAAAAC
1 CTAAACC
*
36961941 ATAAACC
1 CTAAACC
*
36961948 TTAAACCC
1 CTAAA-CC
*
36961956 CTAACCC
1 CTAAACC
36961963 CTAAACC
1 CTAAACC
36961970 TGCTTAAACC
1 --C-TAAACC
*
36961980 C-CAACC
1 CTAAACC
36961986 CTTAAACC
1 C-TAAACC
*
36961994 ATAAACC
1 CTAAACC
* * *
36962001 ATGATCC
1 CTAAACC
* *
36962008 ATAATCC
1 CTAAACC
36962015 CTAAACAC
1 CTAAAC-C
* *
36962023 ATAATCC
1 CTAAACC
36962030 CTAAACC
1 CTAAACC
*
36962037 TTAAA
1 CTAAA
36962042 ATAGTAACTC
Statistics
Matches: 148, Mismatches: 33, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
6 13 0.09
7 94 0.64
8 34 0.23
9 1 0.01
10 6 0.04
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:36961924 original size:50 final size:50
Alignment explanation
Indices: 36961842--36961962 Score: 224
Period size: 50 Copynumber: 2.4 Consensus size: 50
36961832 CCAATTAATC
*
36961842 TAAACCCTAAACCCCTAACCCTAATCTCCTAAACCCTAAATCATAAAACA
1 TAAACCTTAAACCCCTAACCCTAATCTCCTAAACCCTAAATCATAAAACA
*
36961892 TAGACCTTAAACCCCTAACCCTAATCTCCTAAACCCTAAATCATAAAACA
1 TAAACCTTAAACCCCTAACCCTAATCTCCTAAACCCTAAATCATAAAACA
36961942 TAAACCTTAAACCCCTAACCC
1 TAAACCTTAAACCCCTAACCC
36961963 CTAAACCTGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (50 bp):
TAAACCTTAAACCCCTAACCCTAATCTCCTAAACCCTAAATCATAAAACA
Found at i:36961991 original size:24 final size:25
Alignment explanation
Indices: 36961947--36961993 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
36961937 AAACATAAAC
36961947 CTTAAACCCCTAACCCCTAAACCTG
1 CTTAAACCCCTAACCCCTAAACCTG
*
36961972 CTTAAACCCC-AACCCTTAAACC
1 CTTAAACCCCTAACCCCTAAACC
36961994 ATAAACCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.34, C:0.45, G:0.02, T:0.19
Consensus pattern (25 bp):
CTTAAACCCCTAACCCCTAAACCTG
Found at i:36962027 original size:15 final size:15
Alignment explanation
Indices: 36962007--36962035 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36961997 AACCATGATC
36962007 CATAATCCCTAAACA
1 CATAATCCCTAAACA
36962022 CATAATCCCTAAAC
1 CATAATCCCTAAAC
36962036 CTTAAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCCTAAACA
Found at i:36962041 original size:22 final size:21
Alignment explanation
Indices: 36961988--36962041 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
36961978 CCCCAACCCT
*
36961988 TAAACCATAAACCATGATCCA
1 TAAACCATAAACCATAATCCA
* * *
36962009 TAATCCCTAAACACATAATCCC
1 TAAACCATAAAC-CATAATCCA
*
36962031 TAAACCTTAAA
1 TAAACCATAAA
36962042 ATAGTAACTC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAACCATAAACCATAATCCA
Found at i:36962595 original size:41 final size:41
Alignment explanation
Indices: 36962527--36962684 Score: 235
Period size: 41 Copynumber: 3.9 Consensus size: 41
36962517 TAAAATGTTT
* * * * *
36962527 TTAGTGGCTCTTTTGCAAAAACACCGCTAAATCCCCTAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
36962568 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
* * *
36962609 TTAGCGGCGTTTTTCCAAAAACGCCGCTAAAGACCCAAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
*
36962650 TTAGCGGCGCTTTTGCAAAAACGCCGCTAAAGCCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCC
36962685 AGAAAGGTTA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTAGCA
Found at i:36968630 original size:39 final size:39
Alignment explanation
Indices: 36968573--36968719 Score: 192
Period size: 39 Copynumber: 3.7 Consensus size: 39
36968563 AATAAATATA
* *
36968573 TTTATTTTTTTTAATTTTAAAATATTTTT-ACATACTTT
1 TTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
* *
36968611 TTTAATTTTTTTTAATTTTAAAATCTTTTTAAAATATATTT
1 TTTAA-TTTTTTTAATTTTAAAATATTTTTAAAATA-CTTT
36968652 TTTAA--TTTTTAATTTTTAAAATATTTTTAAAATACTTTT
1 TTTAATTTTTTTAA-TTTTAAAATATTTTTAAAATAC-TTT
*
36968691 TTTAATTTTTTTATTTTTAAAATATTTTT
1 TTTAATTTTTTTAATTTTAAAATATTTTT
36968720 TTAATTTTTT
Statistics
Matches: 95, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
38 11 0.12
39 51 0.54
40 19 0.20
41 14 0.15
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (39 bp):
TTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTT
Found at i:36968690 original size:12 final size:11
Alignment explanation
Indices: 36968663--36968744 Score: 63
Period size: 11 Copynumber: 8.1 Consensus size: 11
36968653 TTAATTTTTA
36968663 ATTTTTAAAAT
1 ATTTTTAAAAT
36968674 ATTTTTAAAAT
1 ATTTTTAAAAT
**
36968685 ACTTTTTTTAAT
1 A-TTTTTAAAAT
36968697 -TTTTT----T
1 ATTTTTAAAAT
36968703 ATTTTTAAAAT
1 ATTTTTAAAAT
**
36968714 ATTTTTTTAAT
1 ATTTTTAAAAT
36968725 -TTTTT-AAA-
1 ATTTTTAAAAT
36968733 ATTTTTAAAAT
1 ATTTTTAAAAT
36968744 A
1 A
36968745 AAAATGGGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
6 1 0.02
7 5 0.09
9 7 0.12
10 13 0.23
11 23 0.40
12 8 0.14
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:36968719 original size:19 final size:21
Alignment explanation
Indices: 36968695--36968738 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
36968685 ACTTTTTTTA
36968695 ATTTTTTT-A-TTTTTAAAAT
1 ATTTTTTTAATTTTTTAAAAT
36968714 ATTTTTTTAATTTTTTAAAAT
1 ATTTTTTTAATTTTTTAAAAT
36968735 -TTTT
1 ATTTT
36968739 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 5 0.22
21 10 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTTTAATTTTTTAAAAT
Found at i:36968720 original size:21 final size:19
Alignment explanation
Indices: 36968657--36968738 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 19
36968647 TATTTTTTAA
36968657 TTTTTAATTTTTAAAATATT
1 TTTTTAATTTTTAAAA-ATT
** ***
36968677 TTTAAAATACTTTTTTTAATT
1 TTTTTAAT--TTTTAAAAATT
36968698 TTTTT-ATTTTTAAAATATT
1 TTTTTAATTTTTAAAA-ATT
*
36968717 TTTTTAATTTTTTAAAATT
1 TTTTTAATTTTTAAAAATT
36968736 TTT
1 TTT
36968739 AAAATAAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
18 5 0.11
19 14 0.30
20 17 0.36
21 6 0.13
22 5 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAATTTTTAAAAATT
Found at i:36972305 original size:71 final size:71
Alignment explanation
Indices: 36972192--36972326 Score: 234
Period size: 71 Copynumber: 1.9 Consensus size: 71
36972182 TTAAAAAAGG
*
36972192 GGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATAATTTAAAACTTGAGA
1 GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAACTTGAGA
36972257 AAAAAA
66 AAAAAA
* **
36972263 GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTCATTCCCGAGATCGTTTAAAACTTGAG
1 GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAACTTGAG
36972327 TTTGAAAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (71 bp):
GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAACTTGAGA
AAAAAA
Found at i:36972793 original size:26 final size:26
Alignment explanation
Indices: 36972763--36972825 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
36972753 AAAATATAAC
**
36972763 AAATATATATGTATATATAAATTATA
1 AAATATATATACATATATAAATTATA
* **
36972789 AAATATATGTACATATATGTATTATA
1 AAATATATATACATATATAAATTATA
*
36972815 AAATGTATATA
1 AAATATATATA
36972826 AGTATACGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (26 bp):
AAATATATATACATATATAAATTATA
Found at i:36972831 original size:26 final size:26
Alignment explanation
Indices: 36972783--36972836 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
36972773 GTATATATAA
* *
36972783 ATTATAAAATATATGTACATATATGT
1 ATTATAAAATATATATACATATACGT
*
36972809 ATTATAAAATGTATATA-AGTATACGT
1 ATTATAAAATATATATACA-TATACGT
36972835 AT
1 AT
36972837 ATTTTAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (26 bp):
ATTATAAAATATATATACATATACGT
Found at i:36972967 original size:56 final size:59
Alignment explanation
Indices: 36972867--36972983 Score: 150
Period size: 56 Copynumber: 2.0 Consensus size: 59
36972857 ATACAAAAAA
* * * *
36972867 AAGAATATATGTATGTATAGATATAGGAGTTATAAAATGTAAAACACATATATAT-TAT
1 AAGAATACATGTATATATAGATATAGAAGTTATAAAATATAAAACACATATATATGTAT
* * *
36972925 AAGAATACATGTATATATATAT-TA-AAGTTATAGAATATAAAACACATATGTATGTAT
1 AAGAATACATGTATATATAGATATAGAAGTTATAAAATATAAAACACATATATATGTAT
36972982 AA
1 AA
36972984 ATATATAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 25 0.49
57 7 0.14
58 19 0.37
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (59 bp):
AAGAATACATGTATATATAGATATAGAAGTTATAAAATATAAAACACATATATATGTAT
Found at i:36974792 original size:44 final size:44
Alignment explanation
Indices: 36974739--36974860 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 44
36974729 TAGCTTCAGT
36974739 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA-TTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-ATACTTCAAC
* * ** *
36974783 CTGCCCCACTGCAACTTCAGGGGGATAAGGTTTGTTACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATACTTCAAC
* *
36974827 CTGCTCTACTGCAACTTCAGAGAGATAAGACTTG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
36974861 TAGCATGTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 2 0.03
44 64 0.97
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATACTTCAAC
Found at i:36975298 original size:51 final size:51
Alignment explanation
Indices: 36975202--36975320 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 51
36975192 ATCTACTCCG
* *
36975202 CTTTAGCTTTAATCTATTCCACAGCAACGCTAGGGAAACAAGATTCGCTAC
1 CTTTAGCTTTAATCTATTCCACAGCAACGCCAGAGAAACAAGATTCGCTAC
* ** * * *
36975253 CTTTAGCTTTAATCTGTTCCATTGCTACGCCAGAGAAATATGATTCGCTA-
1 CTTTAGCTTTAATCTATTCCACAGCAACGCCAGAGAAACAAGATTCGCTAC
*
36975303 -TTGTAGCTTCAATCTATT
1 CTT-TAGCTTTAATCTATT
36975321 TAACTGTAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
49 2 0.04
50 13 0.23
51 42 0.74
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
CTTTAGCTTTAATCTATTCCACAGCAACGCCAGAGAAACAAGATTCGCTAC
Found at i:36975348 original size:50 final size:50
Alignment explanation
Indices: 36975294--36978621 Score: 2692
Period size: 50 Copynumber: 66.6 Consensus size: 50
36975284 AGAGAAATAT
* * * *
36975294 GATTCGCTATTGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* *** * ** * **
36975344 GATTCGCTGTTGTAGCTTCAATCAATCCCACTGTACCGCCAAAGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * *
36975394 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATATCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * **
36975444 GATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCG-CTAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC-AGGGAAGTAA
* * * *
36975494 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAG
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * * * ** ** * *
36975544 GATTCACTATTATAGCTTAAATCTGTTCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * *
36975594 GATTCGCTGTTGTAGTTTCAATCTATTTAACTATAATTTCGGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * ** *
36975644 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
** * ** *
36975694 GATTTACAGTTGTAGCTTCAATCTATTTAACTGCAATGTGGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * ** * *
36975744 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGAGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
36975794 GATTCGTTGTTGTAGCTTCAATCTATTTAACTACAATGTCAGGAAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * * *
36975844 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCT-CCAGGGAGGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCA-ATGTCAGGGAAGTAA
** *
36975894 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * ** *
36975944 GATTTC-CTGTTGTAGCTTCAATCCATTCGACTACACCGCCTA-GGAAGTAA
1 GA-TTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC-AGGGAAGTAA
* * * * *
36975994 GATTCACTGTTATAGTTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
*** * ** *
36976044 GATTTATTGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
** *
36976094 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * *** ** * *
36976144 GATTCGCTGTTATACCTTCAATCTATCCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
*** ** * *
36976194 GATTCGCTGTTGTAGCTTCAATCTATCCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
** * *
36976244 GATTTACTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGAAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** ** * *
36976294 GATTCACTATTGTAGCTTCAATTTATTCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * *
36976344 GATTCGCTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** ** * *
36976394 GATTCACTTTTGTAGCTTCAATCTATTCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * *
36976444 GATTCGCTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
** * * ** ** * *
36976494 GATTAACTATTGTAGCTTCAATCTGTTCCACTGCACCGGCAGGGAGGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * * * ** *
36976544 GATTTGCTGTTGTAGCTTTAGTCTATTTAACTGGAATTTTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** * ** *
36976594 GATTTGTTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
36976644 GATTCGCAGTTGTAGCTTCAATCTATTTAAATGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** * * *
36976694 GATTCACTGTTGTAGCTTCAATATGTTCCACTACACTGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
36976744 GATTCGTTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** ** *
36976794 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGTCAGGGAGGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
36976844 GATTCACTGTTGTAGCTTTAATCTATTTAACTGTAATGTTAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * **
36976894 GATTCACTGTTGTAGCTTCAATCTATTCCA-TCCCACCG-CGAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACT-GCAATGTC-AGGGAAGTAA
* * *
36976944 GATTCACTGTTGTAGCTTCAATCGATTTAACTGCAATGTTAGGGAA-TCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGT-AA
* * * *
36976994 GATTCACTGTTGTAGCTTCAATCTGTTCCACTACTGC-A-CT-AGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATT-TA--ACTGCAATGTCAGGGAAGTAA
* * * * ** *
36977044 GATTCACTGTTGTAACTTCAATCTATCTAACTTCAATGTTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * * *
36977094 GATTCGTTGTTGTAGCTTCAATCTGTTCGACTACACTGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * * *
36977144 GATTCGTTGTTGTAGCTTCAATTTATTTAATTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * *
36977194 GATTCACTGTTGTAGCTTCAATCTGTTCCACTAC-ATCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
* * *
36977244 GAGTCACTCGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGTAA
1 GATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** ** * *
36977295 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* *** * *
36977345 GATTCACTGTTGTAGCTTCAATCTATCCCACTGC-ATCGCCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
* * * *
36977395 GATTTGCTATTGTAGCTTTAATCTATTTAACTGCAATGTCGGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** * * *
36977445 GATTCACTGTTGTCGCTTCAATCTGTTCCACTG-TATCGCCAGGGATGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
* * *
36977495 CATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * * ** * **
36977545 TATTCATTATTGTAGCTTCAATCTGTTCCACTAC-ATCACCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
* * * * *
36977595 GATTCGCTGTTGTAGCTTTAATATATTTAACTGCAATTTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * * *
36977645 GATTCGCTGTCGTAGCTTCAATCTATTCCACTAC-ATCGCCAGGAAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCAGGGAAGTAA
* * * *
36977695 GATTTGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** ** *
36977745 GATTCACTGTTGTTGCTTCAATCTGTTCCACTGCACCGTCAGAGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
36977795 AATTTGCTGTTGTAGCTTCAATCTATTTAACTGCAATTTC-GAGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAG-GGAAGTAA
* * *** ** * **
36977845 AATTCGCTGTTGTAGTTTCAATCTATCCCACTGCACCGCCAAAGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
36977895 GATTCGCTATTGTAGCTTCAATCTATTTAACTGCACTGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
** ** * * *
36977945 GATTCATTGTTGTAGCTTCAATCTATTCT-ACTGCACCGCCTGGAAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATT-TAACTGCAATGTCAGGGAAGTAA
* *
36977995 GATTCGCTGTTGTAGC-TCAAATCTATTTAACTACAATGTCAGGGAAGCAA
1 GATTCGCTGTTGTAGCTTC-AATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** * * *
36978045 GATTCTCTGTTGTAGCTACAATCTGTTCCACTGTACT-ACTAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC-AGGGAAGTAA
** * * *
36978095 GATTTACTGTTGTAACTTCAATTTATTTAACTGCAATGTCAGGGAAGAAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * ** * ** *
36978145 GATTTGCTGTTGTAGCTTCAATCTGTTCGACTACACCGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * *
36978195 GATTCACTGTTGTAGC-TCAATCTATTTAACTGCAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
** * * ** * * ** * **
36978244 GATTCATTATTGTAGCTTCAATCTGTTCCATTGTACCGCCAGAAAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * *
36978294 GATTCGCTATTGTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** ** * *
36978344 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAGGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * * ** *
36978394 GATTCACTGTTGTAGCTTCAATCTATATAATTGCAATGTTGGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* * **** ** *
36978444 GATTC-ATGTTGTAGCTTCAATCTGTTCCTTTGCACA-CCCAGGGAAGTAG
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCA-ATGTCAGGGAAGTAA
*
36978493 GATTTGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
* ** * * *
36978543 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCA-CT-AAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCA--ATGTCAGGGAAGTAA
**
36978593 GATTAACTGTTGTAGCTTCAATCTATTTA
1 GATTCGCTGTTGTAGCTTCAATCTATTTA
36978622 GGGGGATAGG
Statistics
Matches: 2520, Mismatches: 711, Indels: 94
0.76 0.21 0.03
Matches are distributed among these distances:
47 4 0.00
48 1 0.00
49 97 0.04
50 2347 0.93
51 62 0.02
52 4 0.00
53 5 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (50 bp):
GATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAA
Found at i:36975412 original size:100 final size:100
Alignment explanation
Indices: 36975234--36978621 Score: 3091
Period size: 100 Copynumber: 33.9 Consensus size: 100
36975224 AGCAACGCTA
* * * * * * * *
36975234 GGGAAACAAGATTCGCTACCTT-TAGCTTTAATCTGTTCCATTGCTA-CGCCAGAGAAATATGAT
1 GGGAAGCAAGATTCGCT--GTTGTAGCTTCAATCTATTCCACTGC-ACCGCCAGGGAAGTAAGAT
* *
36975297 TCGCTATTGTAGCTTCAATCTATTTAACTGTAATGTCG
63 TCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * **
36975335 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCAATCCCACTGTACCGCCAAAGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
*
36975400 CTGTTGTAGCTTCAATCTATTTAACTGCAATATCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * *
36975435 GGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
*
36975500 CTGTTGTAGCTTCAATCTATTTAACTGTAATGTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * * *
36975535 GGGAAGCAGGATTCACTATTATAGCTTAAATCTGTTCCACTGCACCGCCAAGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* ** *
36975600 CTGTTGTAGTTTCAATCTATTTAACTATAATTTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * **
36975635 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTTA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* *
36975700 CAGTTGTAGCTTCAATCTATTTAACTGCAATGTGG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * *
36975735 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGAGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* * *
36975800 TTGTTGTAGCTTCAATCTATTTAACTACAATGTCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * *
36975835 GGAAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCTCCAGGGAGGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
*
36975900 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTTG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * *
36975935 GGGAAGCAAGATTTC-CTGTTGTAGCTTCAATCCATTCGACTACACCGCCTA-GGAAGTAAGATT
1 GGGAAGCAAGA-TTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCC-AGGGAAGTAAGATT
* * *
36975998 CACTGTTATAGTTTCAATCTATTTAACTGCAATGTCG
64 CGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
*** * *
36976035 GGGAAGCAAGATTTATTGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
*
36976100 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTTG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * *
36976135 GGGAAGCAAGATTCGCTGTTATACCTTCAATCTATCCCACTGCACCGCCAAGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
*** ** * *
36976200 CTGTTGTAGCTTCAATCTATCCCACTGCACCGCCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * ** ** ** * * * *
36976235 AGGAAGTAAGATTTACTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGAAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* * ** ** * *
36976300 CTATTGTAGCTTCAATTTATTCCACTGCACCGCCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * ** * ** * * * *
36976335 AGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* ** ** * *
36976400 CTTTTGTAGCTTCAATCTATTCCACTGCACCGCCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * ** * ** * * * **
36976435 AGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAATTGCAATGTCGGGGAAGCAAGATTAA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* * ** ** * *
36976500 CTATTGTAGCTTCAATCTGTTCCACTGCACCGGCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * ** * ****** * *
36976535 GGGAGGTAAGATTTGCTGTTGTAGCTTTAGTCTATTTAACTGGAATTTTGGGGAAGCAAGATTTG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* * ** * ** * *
36976600 TTGTTGTAGCTTCAATCTGTTCCACTACACCGCCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * ** * ** * * * *
36976635 GGGAAGTAAGATTCGCAGTTGTAGCTTCAATCTATTTAAATGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* * ** * * * *
36976700 CTGTTGTAGCTTCAATATGTTCCACTACACTGCCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * ** * ** * * *
36976735 GGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* ** ** *
36976800 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGTCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * ** * ** ** *
36976835 GGGAGGTAAGATTCACTGTTGTAGCTTTAATCTATTTAACTGTAATGTTAGGGAAGTAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
** * **
36976900 CTGTTGTAGCTTCAATCTATTCCA-TCCCACCG-CG
66 CTGTTGTAGCTTCAATCTATTTAACT-GCAATGTCG
* * * ** ** **
36976934 AGGGAAGTAAGATTCACTGTTGTAGCTTCAATCGATTTAACTGCAATGTTAGGGAA-TCAAGATT
1 -GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGT-AAGATT
* * * * *
36976998 CACTGTTGTAGCTTCAATCTGTTCCACTACTGC-A-CT-A
64 CGCTGTTGTAGCTTCAATCTATT-TA--ACTGCAATGTCG
* * * * * ** *** *
36977035 GGGAAGTAAGATTCACTGTTGTAACTTCAATCTA-TCTAACTTCAATGTTGGGGAAGCAAGATTC
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTC-CACTGCACCGCCAGGGAAGTAAGATTC
* * ** * * * *
36977099 GTTGTTGTAGCTTCAATCTGTTCGACTACACTGCCA
65 GCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * ** * ** * * * *
36977135 GGGAAGTAAGATTCGTTGTTGTAGCTTCAATTTATTTAATTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* ** * * *
36977200 CTGTTGTAGCTTCAATCTGTTCCACTAC-ATCGCCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTCG
* * * ** ** * *
36977235 GGGAAGTAAGAGTCACTCGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGTAAGATTC
1 GGGAAGCAAGATTCGCT-GTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTC
* ** ** * *
36977300 GCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
65 GCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * * *
36977336 AGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATCCCACTGCATCGCCAAGGAAGTAAGATTTG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* *
36977401 CTATTGTAGCTTTAATCTATTTAACTGCAATGTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * * * *
36977436 GGGAAGTAAGATTCACTGTTGTCGCTTCAATCTGTTCCACTGTATCGCCAGGGATGTAACATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
36977501 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* ** * * * * *
36977536 GGGAAGCAATATTCATTATTGTAGCTTCAATCTGTTCCACTACATCACCAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* * *
36977601 CTGTTGTAGCTTTAATATATTTAACTGCAATTTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * *
36977636 GGGAAGCAAGATTCGCTGTCGTAGCTTCAATCTATTCCACTACATCGCCAGGAAAGTAAGATTTG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
*
36977701 TTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * * *
36977736 GGGAAGCAAGATTCACTGTTGTTGCTTCAATCTGTTCCACTGCACCGTCAGAGAAGTAAAATTTG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
*
36977801 CTGTTGTAGCTTCAATCTATTTAACTGCAATTTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * **
36977836 AGGAAGCAAAATTCGCTGTTGTAGTTTCAATCTATCCCACTGCACCGCCAAAGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* *
36977901 CTATTGTAGCTTCAATCTATTTAACTGCACTGTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
** * * *
36977936 GGGAAGCAAGATTCATTGTTGTAGCTTCAATCTATTCTACTGCACCGCCTGGAAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* *
36978001 CTGTTGTAGC-TCAAATCTATTTAACTACAATGTCA
66 CTGTTGTAGCTTC-AATCTATTTAACTGCAATGTCG
* * * * ** * **
36978036 GGGAAGCAAGATTCTCTGTTGTAGCTACAATCTGTTCCACTGTACTACTAGGGAAGTAAGATTTA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* * *
36978101 CTGTTGTAACTTCAATTTATTTAACTGCAATGTCA
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * *
36978136 GGGAAGAAAGATTTGCTGTTGTAGCTTCAATCTGTTCGACTACACCGCCAGGGAAGTAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
36978201 CTGTTGTAGC-TCAATCTATTTAACTGCAATGTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
** * * * * **
36978235 GGGAAGCAAGATTCATTATTGTAGCTTCAATCTGTTCCATTGTACCGCCAGAAAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* *
36978300 CTATTGTAGCTTCAATCTATTTAACTGTAATGTCG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * *
36978335 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAGGTAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
* * *
36978400 CTGTTGTAGCTTCAATCTATATAATTGCAATGTTG
66 CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * ** * *
36978435 GGGAAGCAAGATTC-ATGTTGTAGCTTCAATCTGTTCCTTTGCACAC-CCAGGGAAGTAGGATTT
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCAC-CGCCAGGGAAGTAAGATTC
*
36978498 GCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCA
65 GCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
* * * * * * **
36978534 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACCACTAAGGAAGTAAGATTAA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
36978599 CTGTTGTAGCTTCAATCTATTTA
66 CTGTTGTAGCTTCAATCTATTTA
36978622 GGGGGATAGG
Statistics
Matches: 2848, Mismatches: 410, Indels: 59
0.86 0.12 0.02
Matches are distributed among these distances:
97 4 0.00
99 184 0.06
100 2543 0.89
101 114 0.04
103 2 0.00
104 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (100 bp):
GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAGTAAGATTCG
CTGTTGTAGCTTCAATCTATTTAACTGCAATGTCG
Found at i:36980038 original size:5 final size:5
Alignment explanation
Indices: 36980028--36980066 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
36980018 GCCTCTCTTT
*
36980028 TTTTC TTTTC TTTT- TCTTC TTTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
36980067 TTTCTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 23 0.77
6 4 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:36980047 original size:14 final size:13
Alignment explanation
Indices: 36980025--36980082 Score: 66
Period size: 13 Copynumber: 4.4 Consensus size: 13
36980015 TTGGCCTCTC
36980025 TTTTT-TTCTTTT
1 TTTTTCTTCTTTT
36980037 CTTTTTCTTCTTTT
1 -TTTTTCTTCTTTT
36980051 TCTTTTCTT-TTCTT
1 T-TTTTCTTCTT-TT
*
36980065 TTTTTCTTATTTT
1 TTTTTCTTCTTTT
36980078 TTTTT
1 TTTTT
36980083 GAAATATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
13 22 0.54
14 19 0.46
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTCTTTT
Found at i:36980049 original size:9 final size:9
Alignment explanation
Indices: 36980035--36980078 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
36980025 TTTTTTTCTT
36980035 TTCTTTTTC
1 TTCTTTTTC
36980044 TTCTTTTTC
1 TTCTTTTTC
*
36980053 TTTTCTTTTC
1 TTCT-TTTTC
36980063 TT-TTTTTC
1 TTCTTTTTC
*
36980071 TTATTTTT
1 TTCTTTTT
36980079 TTTTGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 7 0.22
9 18 0.56
10 7 0.22
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:36980061 original size:25 final size:25
Alignment explanation
Indices: 36980028--36980081 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
36980018 GCCTCTCTTT
36980028 TTTTCTTTTCTTTTTCTTCTT-TTTC
1 TTTTCTTTTCTTTTT-TTCTTATTTC
*
36980053 TTTTCTTTTCTTTTTTTCTTATTTT
1 TTTTCTTTTCTTTTTTTCTTATTTC
36980078 TTTT
1 TTTT
36980082 TGAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (25 bp):
TTTTCTTTTCTTTTTTTCTTATTTC
Found at i:36985359 original size:71 final size:71
Alignment explanation
Indices: 36985239--36985380 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 71
36985229 TCTCGGATTT
* *
36985239 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATAATTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAA
36985304 CTTGAG
66 CTTGAG
* **
36985310 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTCATTCCCGAGATCGTTTAAAA
1 AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAA
36985375 CTTGAG
66 CTTGAG
36985381 TTTGAAAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (71 bp):
AAAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAATTTAAAA
CTTGAG
Found at i:36985845 original size:26 final size:26
Alignment explanation
Indices: 36985815--36985877 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
36985805 AAAATATAAC
**
36985815 AAATATATATGTATATATAAATTATA
1 AAATATATATACATATATAAATTATA
* **
36985841 AAATATATGTACATATATGTATTATA
1 AAATATATATACATATATAAATTATA
*
36985867 AAATGTATATA
1 AAATATATATA
36985878 AGTATACTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (26 bp):
AAATATATATACATATATAAATTATA
Found at i:36986162 original size:6 final size:6
Alignment explanation
Indices: 36986147--36986199 Score: 63
Period size: 6 Copynumber: 8.3 Consensus size: 6
36986137 GGTATGAACG
36986147 AAAT-A AAATAA AAATAA AAATAA AAATAA ATAATAAA ACAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA A-AAT-AA A-AATAA A-AATAA
36986198 AA
1 AA
36986200 CAATAAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
5 4 0.09
6 21 0.49
7 12 0.28
8 6 0.14
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:36986163 original size:11 final size:11
Alignment explanation
Indices: 36986147--36986209 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 11
36986137 GGTATGAACG
36986147 AAATAAAATAA
1 AAATAAAATAA
36986158 AAATAAAAATAA
1 AAAT-AAAATAA
36986170 AAAT-AAATAA
1 AAATAAAATAA
*
36986180 TAAA-ACAATAA
1 -AAATAAAATAA
*
36986191 ATAATAAAACAA
1 A-AATAAAATAA
36986203 TAAATAA
1 -AAATAA
36986210 TGATGCAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
10 7 0.16
11 14 0.33
12 21 0.49
13 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:36986172 original size:7 final size:7
Alignment explanation
Indices: 36986151--36986206 Score: 55
Period size: 6 Copynumber: 8.1 Consensus size: 7
36986141 TGAACGAAAT
36986151 AAAAT-A
1 AAAATAA
36986157 AAAAT-A
1 AAAATAA
36986163 AAAAT-A
1 AAAATAA
36986169 AAAATAA
1 AAAATAA
*
36986176 ATAATAA
1 AAAATAA
36986183 AACAATAA
1 AA-AATAA
*
36986191 ATAATAA
1 AAAATAA
36986198 AACAATAA
1 AA-AATAA
36986206 A
1 A
36986207 TAATGATGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 17 0.40
7 14 0.33
8 12 0.28
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAATAA
Found at i:36986219 original size:15 final size:15
Alignment explanation
Indices: 36986148--36986210 Score: 83
Period size: 15 Copynumber: 4.2 Consensus size: 15
36986138 GTATGAACGA
*
36986148 AATAAAATAA-AAAT
1 AATAAAACAATAAAT
* *
36986162 AAAAATAAAAATAAAT
1 AATAA-AACAATAAAT
36986178 AATAAAACAATAAAT
1 AATAAAACAATAAAT
36986193 AATAAAACAATAAAT
1 AATAAAACAATAAAT
36986208 AAT
1 AAT
36986211 GATGCAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
14 4 0.09
15 31 0.72
16 8 0.19
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAAAACAATAAAT
Found at i:37001679 original size:16 final size:17
Alignment explanation
Indices: 37001658--37001691 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37001648 ACATAATTAT
*
37001658 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
37001674 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
37001691 T
1 T
37001692 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:37002145 original size:42 final size:42
Alignment explanation
Indices: 37002090--37002187 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
37002080 ATATGAACGA
* **
37002090 CACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATGGG
1 CACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACAGG
* *
37002132 CACTAAGTGTGCGAGATTAAAATGATGATGTTGAATAACAGG
1 CACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACAGG
37002174 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
37002188 TACCGAGAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (42 bp):
CACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACAGG
Found at i:37005427 original size:22 final size:20
Alignment explanation
Indices: 37005393--37005436 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
37005383 TACCGAATCG
*
37005393 TAAACAATTAAAATTTTAAT
1 TAAACAATTAAAATTATAAT
37005413 TAAACATAGTTAAAATTATAAT
1 TAAACA-A-TTAAAATTATAAT
37005435 TA
1 TA
37005437 TAAATGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAACAATTAAAATTATAAT
Found at i:37009188 original size:14 final size:15
Alignment explanation
Indices: 37009169--37009207 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
37009159 TTATTTATTA
37009169 AATTAATTTAA-ATT
1 AATTAATTTAACATT
37009183 AATTAATTTAATCATT
1 AATTAATTTAA-CATT
*
37009199 AAATAATTT
1 AATTAATTT
37009208 TTTCAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
16 11 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTAATTTAACATT
Found at i:37009806 original size:21 final size:20
Alignment explanation
Indices: 37009758--37009805 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
37009748 CCGTGATTAT
37009758 TTTAAAAAGAAAAATTTTCC
1 TTTAAAAAGAAAAATTTTCC
37009778 TTTAAAAAGAAAAATTTTCC
1 TTTAAAAAGAAAAATTTTCC
37009798 TTTAAAAA
1 TTTAAAAA
37009806 ATGTTCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.35
Consensus pattern (20 bp):
TTTAAAAAGAAAAATTTTCC
Found at i:37010373 original size:4 final size:4
Alignment explanation
Indices: 37010364--37010390 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
37010354 GATAATAGTC
37010364 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
37010391 TTGTAATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:37011887 original size:32 final size:32
Alignment explanation
Indices: 37011846--37011912 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
37011836 TTCTAAAGAC
*
37011846 AAGTATATAAGGTATTTCCATATTATCTTACT
1 AAGTATATAAGGTATTTCCATATTATCGTACT
37011878 AAGTATATAAGGTATTTCCATATTATCGTACT
1 AAGTATATAAGGTATTTCCATATTATCGTACT
37011910 AAG
1 AAG
37011913 CTTTATGCTT
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:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (32 bp):
AAGTATATAAGGTATTTCCATATTATCGTACT
Found at i:37013892 original size:22 final size:22
Alignment explanation
Indices: 37013844--37013895 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
37013834 TTTTTAAATC
*
37013844 ATTTTTATAATTTGTTATCGAAT
1 ATTTTT-TAATTTATTATCGAAT
* *
37013867 -TTTTTTAATTTATTTTGGAAT
1 ATTTTTTAATTTATTATCGAAT
37013888 ATTTTTTA
1 ATTTTTTA
37013896 GAATTATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (22 bp):
ATTTTTTAATTTATTATCGAAT
Done.