Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 33
Found at i:4488614 original size:3 final size:3
Alignment explanation
Indices: 4488606--4488657 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
4488596 TTTTAATTGT
* * * *
4488606 TTA TTA TTAA TTA TTA TCA TTA CTA TTT TTA TTA TTA ATA TTA TT-
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4488651 TTA TTA T
1 TTA TTA T
4488658 GATTTTCAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4495259 original size:25 final size:24
Alignment explanation
Indices: 4495219--4495281 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
4495209 TGGCAATATT
*
4495219 TTTTTCAAAACTTTTT-ATTAAACA
1 TTTTTCAAAATTTTTTAATT-AACA
* *
4495243 TTTTTCAAAATTCTTTTAATTGATA
1 TTTTTCAAAATT-TTTTAATTAACA
4495268 TTTTTCAAAATTTT
1 TTTTTCAAAATTTT
4495282 AAAAATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.38
25 18 0.53
26 3 0.09
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTTCAAAATTTTTTAATTAACA
Found at i:4497841 original size:102 final size:99
Alignment explanation
Indices: 4497735--4498067 Score: 389
Period size: 102 Copynumber: 3.3 Consensus size: 99
4497725 ACATAAGCCT
* * * *
4497735 TTGAGATTGTGTCTCTCAAAACAAACTTAATCTCGCTTGAGATAATTTTCAATTGAAACACAAAT
1 TTGAGATTGTTTCTCTAAAAACAAA-TTCATCTCGCTTGAGATAATTTTC-CTTGAAACACAAAT
4497800 TTTGAAATTGTTTCACTTGAAACAAAATTAATCTCAC
64 TTTGAAATTGTTTCACTTGAAA-AAAATTAATCTCAC
* * * * *
4497837 TTGAGATTGTTTCTCTTAAAACAAATCTCACCTTGCTTGAGACAATTGTCCCTCT-AAACACAAA
1 TTGAGATTGTTTCTCTAAAAACAAAT-TCATCTCGCTTGAGATAATT-TTCCT-TGAAACACAAA
*
4497901 TTTTGAAATTGTTTCACTTGAAAAAAATTGATCTCAC
63 TTTTGAAATTGTTTCACTTGAAAAAAATTAATCTCAC
* * * *
4497938 TTGAGATTGTTTATCCTAAAAACAAAATTCGTCTCACTTGAGATAATTTTCCTCGAAACACAAAT
1 TTGAGATTGTTTCT-CTAAAAAC-AAATTCATCTCGCTTGAGATAATTTTCCTTGAAACACAAAT
* *
4498003 TTTGATATTGTTTCACTTGAAATAAAATTTTATCTCAC
64 TTTGAAATTGTTTCACTTGAAA-AAAA-TTAATCTCAC
* * * *
4498041 TTGAGATAGCTTCTGTAGAAACAAATT
1 TTGAGATTGTTTCTCTAAAAACAAATT
4498068 TCTTTCCACT
Statistics
Matches: 198, Mismatches: 25, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
101 67 0.34
102 104 0.53
103 27 0.14
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (99 bp):
TTGAGATTGTTTCTCTAAAAACAAATTCATCTCGCTTGAGATAATTTTCCTTGAAACACAAATTT
TGAAATTGTTTCACTTGAAAAAAATTAATCTCAC
Found at i:4498649 original size:3 final size:3
Alignment explanation
Indices: 4498643--4498719 Score: 75
Period size: 3 Copynumber: 25.3 Consensus size: 3
4498633 CAAATTTTTT
* *
4498643 TTA TTA TTTA TTA TTA ATA TTA TTA TTA TT- TTAA TTA TTA TCA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * * *
4498689 TTA TTT TTA GTA TTA ATA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4498720 GATTTTCATG
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
2 2 0.03
3 52 0.88
4 5 0.08
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4500268 original size:59 final size:59
Alignment explanation
Indices: 4500176--4500294 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
4500166 CCATATTTTC
4500176 ATTTGGTGGATAAGTTTTTCCTAGGCAAGATTTAATTGGCTTAACTGATACTACTGATG
1 ATTTGGTGGATAAGTTTTTCCTAGGCAAGATTTAATTGGCTTAACTGATACTACTGATG
*
4500235 ATTTGGTGGATAAGTTTTTCCTAGGCAAGATTTATTTGGCTTAACTGATACTACTGATG
1 ATTTGGTGGATAAGTTTTTCCTAGGCAAGATTTAATTGGCTTAACTGATACTACTGATG
4500294 A
1 A
4500295 GGAAGGTTCT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (59 bp):
ATTTGGTGGATAAGTTTTTCCTAGGCAAGATTTAATTGGCTTAACTGATACTACTGATG
Found at i:4508006 original size:160 final size:152
Alignment explanation
Indices: 4507703--4508015 Score: 529
Period size: 160 Copynumber: 2.0 Consensus size: 152
4507693 TAAGCATGAT
*
4507703 TCTTGAATTCCATGTAGAGAAGGATTTGGAGGTTAAAGATGTGATAAATGAATATGATGGGTTTA
1 TCTTGAATTCCATGTAGAGAAGGATTTGGAGGTTAAAGATGTGATAAATGAATATAATGGGTTTA
4507768 AGTATAGGTGGTGTTAAGTATATAAAGGGGTGAAATATGAAGCATTGAGATGAAATGAAGTAATT
66 AGTATAGGTGGTGTTAAGTATATAAAGGGGTGAAATATGAAGCATTGAGATGAAATGAAGTAATT
4507833 TTTGGGTTTAACAAGTGATTTC
131 TTTGGGTTTAACAAGTGATTTC
4507855 TCTTGAATTCCATGTAGAGAATAGGATTTGGAGGTTAAAGATGTGATAAATGAATATTAATGGGT
1 TCTTGAATTCCATGTAGAG-A-AGGATTTGGAGGTTAAAGATGTGATAAATGAATA-TAATGGGT
4507920 TTAAGTAT-GTGTAGGTGAGTTAAGTATATGAAAGGGGTGAAATATGAAGCATTTGAGATGAAAT
63 TTAAGTATAG-GT-GGT--GTTAAGTATAT-AAAGGGGTGAAATATGAAGCA-TTGAGATGAAAT
4507984 GAAGTAATTTTTGGGTTTAACAAGTGATTTC
122 GAAGTAATTTTTGGGTTTAACAAGTGATTTC
4508015 T
1 T
4508016 GGGCAAGGGG
Statistics
Matches: 151, Mismatches: 1, Indels: 10
0.93 0.01 0.06
Matches are distributed among these distances:
152 19 0.13
153 1 0.01
154 35 0.23
155 17 0.11
156 3 0.02
158 11 0.07
159 21 0.14
160 44 0.29
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (152 bp):
TCTTGAATTCCATGTAGAGAAGGATTTGGAGGTTAAAGATGTGATAAATGAATATAATGGGTTTA
AGTATAGGTGGTGTTAAGTATATAAAGGGGTGAAATATGAAGCATTGAGATGAAATGAAGTAATT
TTTGGGTTTAACAAGTGATTTC
Found at i:4508557 original size:18 final size:19
Alignment explanation
Indices: 4508519--4508557 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4508509 ATATGAGTGT
*
4508519 ATGTGTTATATGGTATTGC
1 ATGTGTTATATAGTATTGC
*
4508538 ATGTGTTATA-AGTTTTGC
1 ATGTGTTATATAGTATTGC
4508556 AT
1 AT
4508558 AAATATATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (19 bp):
ATGTGTTATATAGTATTGC
Found at i:4508994 original size:18 final size:18
Alignment explanation
Indices: 4508971--4509005 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4508961 GTTCTTAATG
4508971 AGTGGTCCTTCCGGACAT
1 AGTGGTCCTTCCGGACAT
*
4508989 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCCGGACA
4509006 AATCTAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCCGGACAT
Found at i:4514016 original size:55 final size:55
Alignment explanation
Indices: 4513932--4514042 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
4513922 AAAGAATTCC
4513932 TTGCAGTAGTATTTGCTTTTGATAAGTTTAGGCCATATCTTATAGGAACTAAGGT
1 TTGCAGTAGTATTTGCTTTTGATAAGTTTAGGCCATATCTTATAGGAACTAAGGT
4513987 TTGCAGTAGTATTTGCTTTTGATAAGTTTAGGCCATATCTTATAGGAACTAAGGT
1 TTGCAGTAGTATTTGCTTTTGATAAGTTTAGGCCATATCTTATAGGAACTAAGGT
4514042 T
1 T
4514043 ATAATACATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.41
Consensus pattern (55 bp):
TTGCAGTAGTATTTGCTTTTGATAAGTTTAGGCCATATCTTATAGGAACTAAGGT
Found at i:4522796 original size:30 final size:30
Alignment explanation
Indices: 4522757--4522841 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 30
4522747 ATAAAATATG
*
4522757 AATTGATATTTTATCTAAAGTTTAAGGATT-
1 AATTAATATTTTATCTAAAGTTTAAGG-TTC
4522787 AATTAATATTTTAGT-TAAAGTTT-AGGTTCC
1 AATTAATATTTTA-TCTAAAGTTTAAGGTT-C
* *
4522817 AATCAATATTTTATCTAAAATTTAA
1 AATTAATATTTTATCTAAAGTTTAA
4522842 TCATTTTTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 2 0.04
29 4 0.09
30 39 0.83
31 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (30 bp):
AATTAATATTTTATCTAAAGTTTAAGGTTC
Found at i:4527406 original size:21 final size:22
Alignment explanation
Indices: 4527358--4527407 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4527348 GGAAGAATTG
*
4527358 GGGAA-TGAAGTATGAGGGTTA
1 GGGAATTGAAGTATGAGGATTA
*
4527379 GGG-ATTGAAG-ATGAGGATTT
1 GGGAATTGAAGTATGAGGATTA
4527399 GGGAATTGA
1 GGGAATTGA
4527408 GGCACGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.32, C:0.00, G:0.42, T:0.26
Consensus pattern (22 bp):
GGGAATTGAAGTATGAGGATTA
Found at i:4532996 original size:24 final size:24
Alignment explanation
Indices: 4532969--4533020 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4532959 AACGGATATA
*
4532969 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
4532993 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
4533017 TCAA
1 TCAA
4533021 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:4533107 original size:24 final size:24
Alignment explanation
Indices: 4532992--4533107 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
4532982 CATAAATCAG
* *
4532992 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* *
4533016 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
4533040 GTCAAGTATCAGATCAAAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
4533064 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
4533088 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
4533108 TCAAATCGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 5 0.06
24 75 0.91
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:4533123 original size:48 final size:48
Alignment explanation
Indices: 4533025--4533125 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
4533015 GGTCAAGTAA
** *
4533025 CAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCATGTCAGATAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCAAATCAGAAAT
* * *
4533073 CAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATC-GAAAAT
1 CAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCAAATCAG-AAAT
4533121 CAGAT
1 CAGAT
4533126 AAAATATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.23
Consensus pattern (48 bp):
CAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCAAATCAGAAAT
Found at i:4533123 original size:72 final size:71
Alignment explanation
Indices: 4532998--4533130 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 71
4532988 TCAGGTCAAG
* * *
4532998 TATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCA
1 TATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAATCAAGAATCAGAT-AAAATCCA
4533063 TGTCAGA
65 TGTCAGA
* * *
4533070 TATCAGATCAG-AATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAGATAAAAT
1 TATCAGATCAGAAAT-CAGGTCAAGTAACAGATCAGAATCCAAATC-AAGAATCAGATAAAAT
4533131 ATTCATGTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
71 8 0.15
72 43 0.81
73 2 0.04
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.23
Consensus pattern (71 bp):
TATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAATCAAGAATCAGATAAAATCCAT
GTCAGA
Found at i:4535634 original size:7 final size:7
Alignment explanation
Indices: 4535621--4535660 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
4535611 TGGTCAACGC
4535621 CGGTCAA
1 CGGTCAA
*
4535628 TGGTCAA
1 CGGTCAA
4535635 CGGGTCAA
1 C-GGTCAA
4535643 CGGTCAA
1 CGGTCAA
4535650 CGGGTCAA
1 C-GGTCAA
4535658 CGG
1 CGG
4535661 GTCGGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 15 0.52
8 14 0.48
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:4535642 original size:8 final size:8
Alignment explanation
Indices: 4535629--4535663 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
4535619 GCCGGTCAAT
4535629 GGTCAACG
1 GGTCAACG
4535637 GGTCAAC-
1 GGTCAACG
4535644 GGTCAACG
1 GGTCAACG
4535652 GGTCAACG
1 GGTCAACG
4535660 GGTC
1 GGTC
4535664 GGGGTCGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:4535658 original size:15 final size:15
Alignment explanation
Indices: 4535612--4535660 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
4535602 TCAAAGTTTT
*
4535612 GGTCAACGCCGGTCAAT
1 GGTCAACG--GGTCAAC
4535629 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
4535644 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
4535659 GG
1 GG
4535661 GTCGGGGTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 23 0.74
17 8 0.26
ACGTcount: A:0.24, C:0.27, G:0.35, T:0.14
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:4536991 original size:273 final size:273
Alignment explanation
Indices: 4536495--4537041 Score: 1078
Period size: 273 Copynumber: 2.0 Consensus size: 273
4536485 TGGCAAGTCC
4536495 TTTTCATTCAACTTCTCGATTTTCTAGAAGCAAACTTTCGAACACTGTTTGCGATGGTCTGATCT
1 TTTTCATTCAACTTCTCGATTTTCTAGAAGCAAACTTTCGAACACTGTTTGCGATGGTCTGATCT
4536560 TTGTTTTCCGATTCGTGATGCAGTAGAATCCCGAAAAAGAGATGGGCAGATGTCTGCTTGTGAGG
66 TTGTTTTCCGATTCGTGATGCAGTAGAATCCCGAAAAAGAGATGGGCAGATGTCTGCTTGTGAGG
4536625 TAGCTCTTGTACATTATGAAGACATGGGGATCCCGAAAGATGTGGCGAAATTGGGTGTTCGTCAT
131 TAGCTCTTGTACATTATGAAGACATGGGGATCCCGAAAGATGTGGCGAAATTGGGTGTTCGTCAT
4536690 GGGATGTGGGGAACTGTTAAGAAATTACACTCTGGCATGA-GGCATACCAGAATGCGAGGAGAAC
196 GGGATGTGGGGAACTGTTAAGAAATTACACTCTGGCATGAGGGCATACCAGAATGCGAGGAGAAC
4536754 CGACACTACCTTG
261 CGACACTACCTTG
4536767 TTTTCATTCAAACTTCTCGATTTTCTAGAAGCAAACTTTCGAACACTGTTTGCGATGGTCTGATC
1 TTTTCATTC-AACTTCTCGATTTTCTAGAAGCAAACTTTCGAACACTGTTTGCGATGGTCTGATC
4536832 TTTGTTTTCCGATTCGTGATGCAGTAGAATCCCGAAAAAGAGATGGGCAGATGTCTGCTTGTGAG
65 TTTGTTTTCCGATTCGTGATGCAGTAGAATCCCGAAAAAGAGATGGGCAGATGTCTGCTTGTGAG
4536897 GTAGCTCTTGTACATTATGAAGACATGGGGATCCCGAAAGATGTGGCGAAATTGGGTGTTCGTCA
130 GTAGCTCTTGTACATTATGAAGACATGGGGATCCCGAAAGATGTGGCGAAATTGGGTGTTCGTCA
4536962 TGGGATGTGGGGAACTGTTAAGAAATTACACTCTGGCATGAGGGCATACCAGAATGCGAGGAGAA
195 TGGGATGTGGGGAACTGTTAAGAAATTACACTCTGGCATGAGGGCATACCAGAATGCGAGGAGAA
4537027 CCGACACTACCTTG
260 CCGACACTACCTTG
4537041 T
1 T
4537042 CAAGATGCAC
Statistics
Matches: 273, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
272 9 0.03
273 226 0.83
274 38 0.14
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (273 bp):
TTTTCATTCAACTTCTCGATTTTCTAGAAGCAAACTTTCGAACACTGTTTGCGATGGTCTGATCT
TTGTTTTCCGATTCGTGATGCAGTAGAATCCCGAAAAAGAGATGGGCAGATGTCTGCTTGTGAGG
TAGCTCTTGTACATTATGAAGACATGGGGATCCCGAAAGATGTGGCGAAATTGGGTGTTCGTCAT
GGGATGTGGGGAACTGTTAAGAAATTACACTCTGGCATGAGGGCATACCAGAATGCGAGGAGAAC
CGACACTACCTTG
Found at i:4539014 original size:29 final size:28
Alignment explanation
Indices: 4538927--4539021 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 28
4538917 ATTGGTCTGT
* *
4538927 AAACTTTTAAATATTTTAATTTCATCCCC
1 AAACTTTT-AACATTTTAATTTCATCCTC
* * * *
4538956 TAAACTATGATTATCATTCTAAATTAATCCTC
1 -AAACT-T--TTAACATTTTAATTTCATCCTC
*
4538988 AAACTTTTGAACATTTTAATTTCATCCTA
1 AAACTTTT-AACATTTTAATTTCATCCTC
4539017 AAACT
1 AAACT
4539022 ATGACCTTTG
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
28 2 0.04
29 20 0.40
30 6 0.12
31 6 0.12
32 14 0.28
33 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (28 bp):
AAACTTTTAACATTTTAATTTCATCCTC
Found at i:4539322 original size:60 final size:60
Alignment explanation
Indices: 4539257--4539388 Score: 171
Period size: 60 Copynumber: 2.2 Consensus size: 60
4539247 AATAAATGTC
* *
4539257 ATAGTTTAGGGATGC-AATT-AGAATGTTCAAAAGTTTAAGGACTAATTTAGA-ATGAGAGTT
1 ATAGTTTAGGGAT-CAAATTGA-AATGTTCAAAAGTTGAAGGACCAATTT-GACATGAGAGTT
* *
4539317 ATAGTTTCGGGATCAAATTGAAATGTTCAAAAGTTGAAGGACCAATTTGACATGAGGGTT
1 ATAGTTTAGGGATCAAATTGAAATGTTCAAAAGTTGAAGGACCAATTTGACATGAGAGTT
*
4539377 ATAATTTAGGGA
1 ATAGTTTAGGGA
4539389 CATTTGATGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
59 3 0.05
60 59 0.94
61 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (60 bp):
ATAGTTTAGGGATCAAATTGAAATGTTCAAAAGTTGAAGGACCAATTTGACATGAGAGTT
Found at i:4541224 original size:21 final size:19
Alignment explanation
Indices: 4541200--4541273 Score: 68
Period size: 21 Copynumber: 3.9 Consensus size: 19
4541190 TCATGTCATC
4541200 TTTTAATATTATTCATTTTTA
1 TTTTAAT-TTATT-ATTTTTA
4541221 TTTT-ATTTATTTATTTATTTA
1 TTTTAATTTA-TTA-TT-TTTA
4541242 TTTTAATTTATTA-TTTTA
1 TTTTAATTTATTATTTTTA
4541260 --TTAATTT-TTATTTT
1 TTTTAATTTATTATTTT
4541274 CTTTGATATC
Statistics
Matches: 48, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.06
16 10 0.21
18 4 0.08
19 5 0.10
20 6 0.12
21 15 0.31
22 5 0.10
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTAATTTATTATTTTTA
Found at i:4541245 original size:26 final size:26
Alignment explanation
Indices: 4541216--4541266 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4541206 TATTATTCAT
* *
4541216 TTTTATTTTATT-TATTTATTTATTTA
1 TTTTAATTTATTAT-TTTATTAATTTA
4541242 TTTTAATTTATTATTTTATTAATTT
1 TTTTAATTTATTATTTTATTAATTT
4541267 TTATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTAATTTATTATTTTATTAATTTA
Found at i:4541259 original size:22 final size:21
Alignment explanation
Indices: 4541217--4541272 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
4541207 ATTATTCATT
4541217 TTTATTTTATTTATTTATTTA
1 TTTATTTTATTTATTTATTTA
4541238 TTTATTTTAATTTA-TTATTTTA
1 TTTATTTT-ATTTATTTA-TTTA
*
4541260 TTAATTTTTATTT
1 TTTA-TTTTATTT
4541273 TCTTTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 11 0.35
22 16 0.52
23 4 0.13
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTATTTTATTTATTTATTTA
Found at i:4541291 original size:49 final size:47
Alignment explanation
Indices: 4541205--4541321 Score: 119
Period size: 49 Copynumber: 2.4 Consensus size: 47
4541195 TCATCTTTTA
* *
4541205 ATATTATTCATTTTTATTTTATTTATTTATTTATTTATTTTAATTTATT
1 ATATTATTAATTTTTATTTTATTTA-TTATCTATTTATTTT-ATTTATT
* * *
4541254 ATTTTATTAATTTTTATTTTCTTTGA-TATCTATTTTATTTTTTTTATT
1 ATATTATTAATTTTTATTTTATTT-ATTATCTA-TTTATTTTATTTATT
* * *
4541302 ATATTAATATTTTTTCTTTT
1 ATATTATTAATTTTTATTTT
4541322 TTTCTTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
48 27 0.47
49 29 0.51
50 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (47 bp):
ATATTATTAATTTTTATTTTATTTATTATCTATTTATTTTATTTATT
Found at i:4541346 original size:8 final size:8
Alignment explanation
Indices: 4541215--4541348 Score: 63
Period size: 8 Copynumber: 15.2 Consensus size: 8
4541205 ATATTATTCA
4541215 TTTTTATT
1 TTTTTATT
4541223 TTATTTATT
1 TT-TTTATT
*
4541232 TATTTATT
1 TTTTTATT
*
4541240 TATTTTAAT
1 T-TTTTATT
*
4541249 TTATTATT
1 TTTTTATT
* *
4541257 TTATTA-A
1 TTTTTATT
4541264 TTTTTATT
1 TTTTTATT
4541272 TTCTTTGATAT
1 TT-TTT-AT-T
4541283 CTATTTTATTT
1 -T-TTTTA-TT
4541294 TTTTTATT
1 TTTTTATT
* *
4541302 ATATTAATAT
1 -TTTTTAT-T
*
4541312 TTTTTCTT
1 TTTTTATT
*
4541320 TTTTTCTTT
1 TTTTT-ATT
4541329 TTTTCATATT
1 TTTT--TATT
4541339 TTTTTATT
1 TTTTTATT
4541347 TT
1 TT
4541349 ACAATCAAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
7 5 0.05
8 36 0.37
9 36 0.37
10 10 0.10
11 4 0.04
12 5 0.05
13 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (8 bp):
TTTTTATT
Found at i:4541348 original size:26 final size:26
Alignment explanation
Indices: 4541215--4541348 Score: 87
Period size: 27 Copynumber: 5.0 Consensus size: 26
4541205 ATATTATTCA
*
4541215 TTTTTATTT--TATTTATTTATTTATT
1 TTTTTATTTAATATTTTTTTATTT-TT
* *
4541240 TATTTTAATTTATTATTTTATTAATTTTT
1 T-TTTT-ATTTAATATTTT-TTTATTTTT
* * * *
4541269 ATTTTCTTTGATATCTATTTTATTTTT
1 TTTTTATTTAATAT-TTTTTTATTTTT
4541296 TTTATTATATTAATATTTTTTCT-TTTTT
1 TTT-TTAT-TTAATATTTTTT-TATTTTT
*
4541324 TCTTTT-TTTCATATTTTTTTATTTT
1 T-TTTTATTTAATATTTTTTTATTTT
4541349 ACAATCAAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
25 2 0.02
26 19 0.22
27 21 0.25
28 21 0.25
29 16 0.19
30 6 0.07
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (26 bp):
TTTTTATTTAATATTTTTTTATTTTT
Found at i:4544409 original size:21 final size:21
Alignment explanation
Indices: 4544385--4544426 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4544375 AGTTTATTTT
4544385 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
* *
4544406 TAAACTTTGTTTTAATTATCG
1 TAAACTTTATTTCAATTATCG
4544427 AACTTGGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:4544463 original size:33 final size:33
Alignment explanation
Indices: 4544421--4544524 Score: 183
Period size: 33 Copynumber: 3.2 Consensus size: 33
4544411 TTTGTTTTAA
4544421 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
4544454 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* *
4544487 TTATCGAACTTGGAAGTATTTAAGTATTTCAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
4544519 TTATCG
1 TTATCG
4544525 TAAACTTTGT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 6 0.09
33 63 0.91
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:4544585 original size:14 final size:14
Alignment explanation
Indices: 4544566--4544596 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4544556 TTTAATAATA
*
4544566 TTATAATCGGTTTT
1 TTATAACCGGTTTT
4544580 TTATAACCGGTTTT
1 TTATAACCGGTTTT
4544594 TTA
1 TTA
4544597 AAAAACTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.55
Consensus pattern (14 bp):
TTATAACCGGTTTT
Found at i:4545095 original size:20 final size:20
Alignment explanation
Indices: 4545070--4545162 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
4545060 TTTTCCCAAT
4545070 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
4545090 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
4545110 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
4545131 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
4545152 TCGCAATGCGA
1 TCGCAATGCGA
4545163 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:4545112 original size:41 final size:41
Alignment explanation
Indices: 4545067--4545162 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
4545057 CGATTTTCCC
4545067 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
4545108 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
4545149 AAATCGCAATGCGA
1 AATTCGCAATGCGA
4545163 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:4545116 original size:21 final size:20
Alignment explanation
Indices: 4545070--4545162 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
4545060 TTTTCCCAAT
*
4545070 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
4545090 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
4545110 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
4545131 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
4545152 TCGCAATGCGA
1 TCGCAATGCGA
4545163 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:4545176 original size:20 final size:20
Alignment explanation
Indices: 4545151--4545244 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
4545141 AATTGGGAAA
*
4545151 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
4545171 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
4545192 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
4545212 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
4545232 TTCGCAACGCGAT
1 ATCGCAACGCGAT
4545245 TTACATAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4545225 original size:41 final size:41
Alignment explanation
Indices: 4545148--4545225 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
4545138 GCGAATTGGG
* * **
4545148 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
4545189 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
4545226 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:4545819 original size:19 final size:19
Alignment explanation
Indices: 4545795--4545839 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
4545785 TCGCAACGAT
*
4545795 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
4545814 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
4545833 AATCGCA
1 AATCGCA
4545840 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:4545819 original size:31 final size:31
Alignment explanation
Indices: 4545764--4545823 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4545754 CAAGAATGAG
* **
4545764 AATCGCAACGCGAAATGACTATCGCAACGAT
1 AATCGCAACGCGAAATAAAAATCGCAACGAT
4545795 AATCGCAACGCGAAATAAAAATCGCAACG
1 AATCGCAACGCGAAATAAAAATCGCAACG
4545824 CGAAACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.25, G:0.18, T:0.13
Consensus pattern (31 bp):
AATCGCAACGCGAAATAAAAATCGCAACGAT
Found at i:4545857 original size:19 final size:19
Alignment explanation
Indices: 4545835--4546016 Score: 147
Period size: 19 Copynumber: 10.1 Consensus size: 19
4545825 GAAACCAAAA
*
4545835 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4545854 TCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
4545872 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
4545891 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
4545911 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
4545927 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
4545944 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
4545958 -CTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
4545976 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
4545996 ATCTCG-TGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
4546015 TC
1 TC
4546017 AACCAAAAGA
Statistics
Matches: 133, Mismatches: 15, Indels: 31
0.74 0.08 0.17
Matches are distributed among these distances:
13 9 0.07
14 10 0.08
15 3 0.02
16 1 0.01
17 3 0.02
18 21 0.16
19 49 0.37
20 36 0.27
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4545919 original size:39 final size:37
Alignment explanation
Indices: 4545835--4545923 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
4545825 GAAACCAAAA
* *
4545835 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTCATT
1 TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTCATT
4545872 TCGCGTTGCGATTTTAATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGC-GTTGCGA-TTTCATT
4545911 TCGCGTTGCGATT
1 TCGCGTTGCGATT
4545924 GTCTGGTCGC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
37 21 0.44
38 7 0.15
39 20 0.42
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (37 bp):
TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTCATT
Found at i:4545943 original size:33 final size:32
Alignment explanation
Indices: 4545906--4545990 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 32
4545896 GTTGCGATTT
* *
4545906 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATT-CCTCGTCGCGATAG
*
4545939 TCATTTCGCGTTGCGATTCCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCCTCGTCGCGATAG
4545971 TCATTTCCGCGTTGCGATTC
1 TCATTT-CGCGTTGCGATTC
4545991 TCATTATCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
32 17 0.35
33 31 0.65
ACGTcount: A:0.12, C:0.25, G:0.26, T:0.38
Consensus pattern (32 bp):
TCATTTCGCGTTGCGATTCCTCGTCGCGATAG
Found at i:4545994 original size:20 final size:20
Alignment explanation
Indices: 4545955--4546016 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
4545945 CGCGTTGCGA
**
4545955 TTCCTCGTTGCGATAGTCAT
1 TTCCTCGTTGCGATTCTCAT
*
4545975 TTCCGCGTTGCGATTCTCAT
1 TTCCTCGTTGCGATTCTCAT
*
4545995 TAT-CTCG-TGCGATTTTCAT
1 T-TCCTCGTTGCGATTCTCAT
4546014 TTC
1 TTC
4546017 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.03
19 12 0.34
20 21 0.60
21 1 0.03
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.44
Consensus pattern (20 bp):
TTCCTCGTTGCGATTCTCAT
Found at i:4547736 original size:21 final size:21
Alignment explanation
Indices: 4547712--4547778 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4547702 TCATTCCTCG
4547712 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
4547733 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
4547754 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
4547775 AGAG
1 AGAG
4547779 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:4547738 original size:42 final size:42
Alignment explanation
Indices: 4547685--4547778 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
4547675 TCCATCCTAT
* *
4547685 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * *
4547727 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
4547769 CATTCAAGAG
1 CGTTCAAGAG
4547779 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:4548483 original size:211 final size:206
Alignment explanation
Indices: 4548124--4548539 Score: 771
Period size: 211 Copynumber: 2.0 Consensus size: 206
4548114 TATATTTTCA
4548124 TTGATTAATTTGTTTAAAAAATTAATGAATTCACTAATATATGTATTTTTTTGTAAAACAGCAAT
1 TTGATTAATTTGTTTAAAAAATTAATGAATTCACTAATATATGTATTTTTTTGTAAAACAGCAAT
4548189 CGATGGTGGGGTCAGTCTACTAATAATAGGAAACTTAAGGAAAATAAAAGAAATACACGGTATAC
66 CGATGGTGGGGTCAGTCTACTAATAATAGGAAACTTAAGGAAAATAAAAGAAATACACGGTATAC
4548254 AATAATGCCGACGGCTTTTAATGCAGTTCACTTGAAGAATCAACGAGATGAATCATTTGCGTTGG
131 AATAATGCCGACGGCTTTTAATGCAGTTCACTTGAAGAATCAACGAGATGAATCATTTGCGTTGG
4548319 GCAATGGACAT
196 GCAATGGACAT
4548330 TTGATTAATTTGTTT-AAAAATTAATGTAATTCACTAATATATGTATTTTTTTGTAAAACAGCAT
1 TTGATTAATTTGTTTAAAAAATTAATG-AATTCACTAATATATGTATTTTTTTGTAAAACAGCA-
4548394 ATCGATGCGTGGGTGTCACGTCTACTAATAATTAGGAAACTTAAGGAAAATAAAAGAAATACACG
64 ATCGATG-GTGGG-GTCA-GTCTACTAATAA-TAGGAAACTTAAGGAAAATAAAAGAAATACACG
4548459 GTATACAATAATGCCGACGGCTTTTAATGCAGTTCACTTGAAGAATCAACGAGATGAATCATTTG
125 GTATACAATAATGCCGACGGCTTTTAATGCAGTTCACTTGAAGAATCAACGAGATGAATCATTTG
4548524 CGTTGGGCAATGGACA
190 CGTTGGGCAATGGACA
4548540 AGCTAAACTT
Statistics
Matches: 204, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
205 11 0.05
206 51 0.25
207 7 0.03
208 5 0.02
209 4 0.02
210 12 0.06
211 114 0.56
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (206 bp):
TTGATTAATTTGTTTAAAAAATTAATGAATTCACTAATATATGTATTTTTTTGTAAAACAGCAAT
CGATGGTGGGGTCAGTCTACTAATAATAGGAAACTTAAGGAAAATAAAAGAAATACACGGTATAC
AATAATGCCGACGGCTTTTAATGCAGTTCACTTGAAGAATCAACGAGATGAATCATTTGCGTTGG
GCAATGGACAT
Found at i:4549356 original size:14 final size:14
Alignment explanation
Indices: 4549337--4549372 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4549327 ATTGTTTAAT
4549337 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
4549351 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
4549365 TGATTTGT
1 TGATTTGT
4549373 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:4549552 original size:19 final size:19
Alignment explanation
Indices: 4549530--4549647 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
4549520 CGAAATTAAA
4549530 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
4549549 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
4549564 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
4549582 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
4549597 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
4549615 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
4549634 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
4549648 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:4549576 original size:33 final size:33
Alignment explanation
Indices: 4549534--4549627 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
4549524 ATTAAATTCG
4549534 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
4549567 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
4549600 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
4549628 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:4553113 original size:20 final size:20
Alignment explanation
Indices: 4553088--4553143 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
4553078 ATTCATTTGA
*
4553088 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGCGAAAATGG
4553108 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
4553128 TTATCGCAACGCGAAA
1 CTATCGCAACGCGAAA
4553144 TGAAAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:4553152 original size:19 final size:20
Alignment explanation
Indices: 4553090--4553154 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
4553080 TCATTTGACT
* ***
4553090 ATCGCAACGTGAAAATGGCT
1 ATCGCAACGCGAAAATGAAA
***
4553110 ATCGCAACGCGAAAATGGTT
1 ATCGCAACGCGAAAATGAAA
4553130 ATCGCAACGCG-AAATGAAA
1 ATCGCAACGCGAAAATGAAA
4553149 ATCGCA
1 ATCGCA
4553155 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 11 0.28
20 29 0.73
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGAAA
Found at i:4553174 original size:14 final size:15
Alignment explanation
Indices: 4553154--4553226 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
4553144 TGAAAATCGC
4553154 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
4553169 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC---TCG
*
4553186 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
4553204 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
4553220 -TTGCGAT
1 ATTGCGAT
4553227 AGCCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.37
16 4 0.08
17 3 0.06
18 14 0.29
19 9 0.18
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:4553191 original size:19 final size:19
Alignment explanation
Indices: 4553150--4553216 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
4553140 GAAATGAAAA
4553150 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
4553166 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
4553183 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
4553201 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
4553217 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
18 18 0.40
19 10 0.22
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:4555267 original size:20 final size:19
Alignment explanation
Indices: 4555232--4555298 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
4555222 GAAACTTAAA
4555232 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
4555251 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
4555271 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
4555290 ATCGCAACG
1 ATCGCAACG
4555299 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:4555306 original size:14 final size:14
Alignment explanation
Indices: 4555287--4555344 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4555277 ATGCGAAATG
4555287 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4555301 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
4555317 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
4555333 AAAATCGCAACG
1 AAAATCGCAACG
4555345 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4555329 original size:32 final size:33
Alignment explanation
Indices: 4555271--4555349 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
4555261 GGAAATGGCT
*
4555271 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
4555304 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
4555336 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
4555350 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:4555437 original size:20 final size:19
Alignment explanation
Indices: 4555403--4555457 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
4555393 TTGCGATTTT
*
4555403 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
4555422 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
4555442 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
4555458 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:4555955 original size:18 final size:18
Alignment explanation
Indices: 4555929--4555973 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4555919 GTCGATCAGA
*
4555929 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
4555947 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
4555965 TGATGGCTC
1 TGATGGCTC
4555974 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:4557558 original size:22 final size:22
Alignment explanation
Indices: 4557533--4557576 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4557523 GATTTAGATA
4557533 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
4557555 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
4557577 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:4557789 original size:20 final size:20
Alignment explanation
Indices: 4557764--4557857 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
4557754 GATTATGTAT
4557764 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4557784 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
4557804 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
4557825 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4557845 TATCGCATTGCGA
1 TATCGCGTTGCGA
4557858 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:4557829 original size:41 final size:41
Alignment explanation
Indices: 4557784--4557861 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
4557774 CGAAAGTCAG
* * *
4557784 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
4557825 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
4557862 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:4557858 original size:20 final size:20
Alignment explanation
Indices: 4557744--4557858 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
4557734 CGCTTTGAAA
*
4557744 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
4557765 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
4557785 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
4557805 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
4557826 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
4557846 ATCGCATTGCGAT
1 ATCGCATTGCGAT
4557859 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:4557876 original size:21 final size:21
Alignment explanation
Indices: 4557847--4557943 Score: 133
Period size: 21 Copynumber: 4.7 Consensus size: 21
4557837 ATAGTCAGTA
*
4557847 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
4557868 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
* **
4557889 TCGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
* *
4557909 TCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
4557930 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
4557944 ACTTATTCGC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 16 0.25
21 49 0.75
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:4557877 original size:41 final size:41
Alignment explanation
Indices: 4557784--4557879 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
4557774 CGAAAGTCAG
* * * ** *
4557784 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
* *
4557825 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
4557867 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
4557880 TTTCCCAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:4557899 original size:62 final size:62
Alignment explanation
Indices: 4557827--4557960 Score: 166
Period size: 62 Copynumber: 2.2 Consensus size: 62
4557817 TTTTTTATTA
*
4557827 TCGCATTGCGATAGTCA-GTA-TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTTCCCAAT
1 TCGCATTGCGAT--TCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTCCCAAT
* * * * **
4557889 TCGCGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTCCCAAT
4557950 TCGCATTGCGA
1 TCGCATTGCGA
4557961 ATTGGGAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
60 2 0.03
61 18 0.29
62 42 0.68
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (62 bp):
TCGCATTGCGATTCACGTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTCCCAAT
Found at i:4557911 original size:41 final size:41
Alignment explanation
Indices: 4557866--4557963 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
4557856 GATTTTCCCA
* *
4557866 ATTCGCGTTGCGATTTTCCCAATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTT
4557907 ATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTT
4557948 ATTCGCATTGCGAATT
1 ATTCGCATTGCGAATT
4557964 GGGAAAATCG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (41 bp):
ATTCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTT
Found at i:4557912 original size:20 final size:20
Alignment explanation
Indices: 4557847--4557960 Score: 111
Period size: 21 Copynumber: 5.5 Consensus size: 20
4557837 ATAGTCAGTA
* *
4557847 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGA-TTTACCAAT
*
4557868 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGA-TTTACCAAT
**
4557889 TCGCGTTGCGATTTACTTAT
1 TCGCGTTGCGATTTACCAAT
* *
4557909 TCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCG-ATTTACCAAT
**
4557930 TCGCGTTGCGATTTACTTAT
1 TCGCGTTGCGATTTACCAAT
*
4557950 TCGCATTGCGA
1 TCGCGTTGCGA
4557961 ATTGGGAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 32 0.41
21 47 0.59
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTACCAAT
Found at i:4557975 original size:62 final size:62
Alignment explanation
Indices: 4557827--4557975 Score: 147
Period size: 62 Copynumber: 2.4 Consensus size: 62
4557817 TTTTTTATTA
* * ** * *
4557827 TCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTTCCCAAT
1 TCGCATTGCGATTGACAAAATCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTACCAAT
* * ** * **
4557889 TCGCGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTGACAAAATCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTACCAAT
**
4557950 TCGCATTGCGAATTGGGAAAATCGCA
1 TCGCATTGCG-ATTGACAAAATCGCA
4557976 ACGATACTGT
Statistics
Matches: 67, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
61 15 0.22
62 52 0.78
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (62 bp):
TCGCATTGCGATTGACAAAATCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTTACCAAT
Found at i:4561118 original size:3 final size:3
Alignment explanation
Indices: 4561110--4561228 Score: 202
Period size: 3 Copynumber: 39.7 Consensus size: 3
4561100 TTTTTATCCA
*
4561110 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
4561158 TAT TAC TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4561206 TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
4561229 AATATATATT
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 108 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:4561725 original size:12 final size:12
Alignment explanation
Indices: 4561708--4561746 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
4561698 AAAAAAAAAT
4561708 AGACAGAAACAG
1 AGACAGAAACAG
*
4561720 AGACAGAAACGG
1 AGACAGAAACAG
*
4561732 AGACAGAACCAG
1 AGACAGAAACAG
4561744 AGA
1 AGA
4561747 AAAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.54, C:0.18, G:0.28, T:0.00
Consensus pattern (12 bp):
AGACAGAAACAG
Found at i:4561775 original size:18 final size:19
Alignment explanation
Indices: 4561741--4561779 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
4561731 GAGACAGAAC
4561741 CAGAGAAAAAGAAAAAAAA
1 CAGAGAAAAAGAAAAAAAA
*
4561760 CAGAGAAAGA-AAAAAAAA
1 CAGAGAAAAAGAAAAAAAA
4561778 CA
1 CA
4561780 AACAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (19 bp):
CAGAGAAAAAGAAAAAAAA
Found at i:4563424 original size:28 final size:27
Alignment explanation
Indices: 4563393--4563446 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
4563383 TAATTCTTTC
* *
4563393 TTTTTAAAATTTTTATATATATTTATTA
1 TTTTCAAAATATTTATATAT-TTTATTA
* *
4563421 TTTTCATAATATTTATATGTTTTATT
1 TTTTCAAAATATTTATATATTTTATT
4563447 TTATTTGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATTTTATTA
Found at i:4563432 original size:18 final size:19
Alignment explanation
Indices: 4563401--4563436 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4563391 TCTTTTTAAA
*
4563401 ATTTTTATATATATTTATT
1 ATTTTCATATATATTTATT
4563420 ATTTTCATA-ATATTTAT
1 ATTTTCATATATATTTAT
4563437 ATGTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTCATATATATTTATT
Found at i:4574081 original size:4 final size:4
Alignment explanation
Indices: 4574072--4574124 Score: 58
Period size: 4 Copynumber: 13.5 Consensus size: 4
4574062 ATGCTTGAAG
*
4574072 AAGA AAGA AA-A AAGA AAGAA AAGA AAGA AA-A CAGA AA-A AAGA AAGAA
1 AAGA AAGA AAGA AAGA AAG-A AAGA AAGA AAGA AAGA AAGA AAGA AAG-A
4574119 AAGA AA
1 AAGA AA
4574125 AAAAATAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
3 8 0.19
4 26 0.62
5 8 0.19
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:4574085 original size:7 final size:7
Alignment explanation
Indices: 4574069--4574161 Score: 66
Period size: 7 Copynumber: 13.1 Consensus size: 7
4574059 ATTATGCTTG
*
4574069 AAGAAGA
1 AAGAAAA
4574076 AAGAAAA
1 AAGAAAA
*
4574083 AAGAAAG
1 AAGAAAA
*
4574090 AA-AAGA
1 AAGAAAA
4574096 AAGAAAA
1 AAGAAAA
*
4574103 CAGAAAA
1 AAGAAAA
4574110 AAGAAAGA
1 AAGAAA-A
*
4574118 AA-AGAA
1 AAGAAAA
4574124 AA-AAAA
1 AAGAAAA
*
4574130 TAGAAAA
1 AAGAAAA
*
4574137 TGAAAAAAA
1 --AAGAAAA
4574146 ATAGAAAA
1 A-AGAAAA
4574154 AAGAAAA
1 AAGAAAA
4574161 A
1 A
4574162 GGGGGTCAAG
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
6 11 0.16
7 42 0.63
8 9 0.13
9 5 0.07
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.03
Consensus pattern (7 bp):
AAGAAAA
Found at i:4574088 original size:11 final size:11
Alignment explanation
Indices: 4574072--4574159 Score: 67
Period size: 11 Copynumber: 7.5 Consensus size: 11
4574062 ATGCTTGAAG
4574072 AAGAAAGAAAA
1 AAGAAAGAAAA
4574083 AAGAAAGAAAAGA
1 AAGAAAG-AAA-A
4574096 AAGAAAACAGAAAA
1 AAG--AA-AGAAAA
4574110 AAGAAAG--AA
1 AAGAAAGAAAA
4574119 AAGAAA-AAAA
1 AAGAAAGAAAA
4574129 ATAGAAAATGAAAA
1 A-AG-AAA-GAAAA
4574143 AA-AATAGAAAA
1 AAGAA-AGAAAA
4574154 AAGAAA
1 AAGAAA
4574160 AAGGGGGTCA
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
9 8 0.12
10 3 0.05
11 21 0.33
12 11 0.17
13 5 0.08
14 9 0.14
15 5 0.08
16 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.03
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:4574095 original size:9 final size:9
Alignment explanation
Indices: 4574081--4574159 Score: 67
Period size: 9 Copynumber: 8.9 Consensus size: 9
4574071 GAAGAAAGAA
4574081 AAAAGAAAG
1 AAAAGAAAG
4574090 AAAAGAAAG
1 AAAAGAAAG
*
4574099 AAAACAGAA-
1 AAAAGA-AAG
4574108 AAAAGAAAG
1 AAAAGAAAG
4574117 AAAAGAAA-
1 AAAAGAAAG
*
4574125 AAAA-ATAG
1 AAAAGAAAG
*
4574133 AAAATGAAAA
1 AAAA-GAAAG
*
4574143 AAAATAGAA-
1 AAAAGA-AAG
4574152 AAAAGAAA
1 AAAAGAAA
4574160 AAGGGGGTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
7 2 0.04
8 12 0.21
9 33 0.58
10 10 0.18
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:4574096 original size:16 final size:16
Alignment explanation
Indices: 4574075--4574153 Score: 73
Period size: 16 Copynumber: 5.2 Consensus size: 16
4574065 CTTGAAGAAG
4574075 AAAGAAAAAAGAAAGA
1 AAAGAAAAAAGAAAGA
4574091 AAAG---AAAG-AA-A
1 AAAGAAAAAAGAAAGA
*
4574102 ACAGAAAAAAGAAAGA
1 AAAGAAAAAAGAAAGA
4574118 AAAGAAAAAA-AATAGA
1 AAAGAAAAAAGAA-AGA
4574134 AAATGAAAAAA-AATAGA
1 AAA-GAAAAAAGAA-AGA
4574151 AAA
1 AAA
4574154 AAGAAAAAGG
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
11 4 0.07
12 2 0.04
13 4 0.07
14 4 0.07
15 4 0.07
16 20 0.37
17 16 0.30
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAGAAAAAAGAAAGA
Found at i:4574102 original size:18 final size:17
Alignment explanation
Indices: 4574081--4574162 Score: 80
Period size: 17 Copynumber: 4.8 Consensus size: 17
4574071 GAAGAAAGAA
4574081 AAAAGAAAGAAAAGAAAG
1 AAAAGAAA-AAAAGAAAG
*
4574099 AAAACAGAAAAAAGAAAG
1 AAAAGA-AAAAAAGAAAG
*
4574117 AAAAGAAAAAAA-ATAG
1 AAAAGAAAAAAAGAAAG
*
4574133 AAAATGAAAAAAA-ATAG
1 AAAA-GAAAAAAAGAAAG
4574150 AAAA-AAGAAAAAG
1 AAAAGAA-AAAAAG
4574163 GGGGTCAAGG
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.04
16 12 0.21
17 22 0.39
18 19 0.33
19 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAGAAAAAAAGAAAG
Found at i:4574107 original size:27 final size:26
Alignment explanation
Indices: 4574069--4574161 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 26
4574059 ATTATGCTTG
4574069 AAGAAGAAAGAAAAAAGAAAGAAAAGA
1 AAGAA-AAAGAAAAAAGAAAGAAAAGA
4574096 AAGAAAACAGAAAAAAGAAAGAAAAGA
1 AAGAAAA-AGAAAAAAGAAAGAAAAGA
* *
4574123 AA-AAAAATAGAAAATGAAA-AAAA-A
1 AAGAAAAAGA-AAAAAGAAAGAAAAGA
*
4574147 TAGAAAAAAGAAAAA
1 AAG-AAAAAGAAAAA
4574162 GGGGGTCAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
24 2 0.03
25 10 0.17
26 20 0.34
27 26 0.45
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.03
Consensus pattern (26 bp):
AAGAAAAAGAAAAAAGAAAGAAAAGA
Found at i:4574128 original size:44 final size:43
Alignment explanation
Indices: 4574075--4574159 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 43
4574065 CTTGAAGAAG
*
4574075 AAAGAAAAAAGAAAGAAAA-GAAAGAAAACAGAAAAAAGAAAGA
1 AAAGAAAAAA-AAAGAAAATGAAAAAAAACAGAAAAAAGAAAGA
*
4574118 AAAGAAAAAAAATAGAAAATGAAAAAAAATAGAAAAAAGAAA
1 AAAGAAAAAAAA-AGAAAATGAAAAAAAACAGAAAAAAGAAA
4574160 AAGGGGGTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 2 0.05
43 16 0.42
44 20 0.53
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (43 bp):
AAAGAAAAAAAAAGAAAATGAAAAAAAACAGAAAAAAGAAAGA
Found at i:4574526 original size:19 final size:18
Alignment explanation
Indices: 4574487--4574532 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
4574477 CTATTTCAAG
4574487 TTCAATTTA--TTTGAAA
1 TTCAATTTATTTTTGAAA
*
4574503 GTCAATTTATTTTTGGAAA
1 TTCAATTTATTTTT-GAAA
4574522 TTCAATTTATT
1 TTCAATTTATT
4574533 CTTTTCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.52
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:4575407 original size:83 final size:83
Alignment explanation
Indices: 4575191--4575830 Score: 1022
Period size: 83 Copynumber: 7.7 Consensus size: 83
4575181 TAAACATTAA
*
4575191 TTAGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTG
1 TTAGAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
* *
4575254 GACAGAA-CGATCATTGAAT
65 G-CAGAACCAATCAATGAAT
* **
4575273 TTGGAAGATGAATGCGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 TTAGAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
4575337 GCAGAACCAATCAATGAAT
65 GCAGAACCAATCAATGAAT
* *
4575356 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGG
1 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
4575421 CAGAACCAATCAATGAAT
66 CAGAACCAATCAATGAAT
4575439 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGG
1 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
* *
4575503 ACAGAACTAATCATTGAAT
66 -CAGAACCAATCAATGAAT
*
4575522 TTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTG
1 TTAGAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
* *
4575586 GACAGAACCAATCATTGAGT
65 G-CAGAACCAATCAATGAAT
* *
4575606 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGG
1 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
4575671 CAGAACCAATCAATGAAT
66 CAGAACCAATCAATGAAT
4575689 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
*
4575754 CAGAACCAATCAGTGAAT
66 CAGAACCAATCAATGAAT
* *
4575772 TTAGAAGATGAATTTGCCAATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
4575831 ATTCAGTAGG
Statistics
Matches: 526, Mismatches: 26, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
82 68 0.13
83 375 0.71
84 83 0.16
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (83 bp):
TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
CAGAACCAATCAATGAAT
Found at i:4575630 original size:250 final size:249
Alignment explanation
Indices: 4575191--4575830 Score: 1110
Period size: 250 Copynumber: 2.6 Consensus size: 249
4575181 TAAACATTAA
*
4575191 TTAGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1 TTAGAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
* * * *
4575255 ACAGAACGATCATTGAATTTGGAAGATGAATGCGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGA
65 ACAGAACAATCATTGAATTTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
4575319 GTTATCTGATCTGGTTTGGCAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATCT
130 GTTATCTGATCTGGTTTGGCAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATCT
4575384 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAAT
195 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAAT
4575439 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
4575504 CAGAACTAATCATTGAATTTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
66 CAGAAC-AATCATTGAATTTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
* *
4575569 GTTATCTGATCTGG-TTGGACAGAACCAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATC
130 GTTATCTGATCTGGTTTGG-CAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATC
4575633 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAAT
194 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAAT
4575689 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGG
* * *
4575754 -CAGAACCAATCAGTGAATTTAGAAGATGAATTTGC-CAATAGCATTTTCTGGAAGTGTTCTTTG
65 ACAGAA-CAATCATTGAATTTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTG
4575817 AGTTATCTGATCTG
129 AGTTATCTGATCTG
4575831 ATTCAGTAGG
Statistics
Matches: 376, Mismatches: 10, Indels: 11
0.95 0.03 0.03
Matches are distributed among these distances:
247 2 0.01
248 67 0.18
249 71 0.19
250 231 0.61
251 5 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (249 bp):
TTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
CAGAACAATCATTGAATTTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTTGGCAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATCTT
CTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAAT
Found at i:4575815 original size:333 final size:331
Alignment explanation
Indices: 4575191--4575830 Score: 1129
Period size: 333 Copynumber: 1.9 Consensus size: 331
4575181 TAAACATTAA
*
4575191 TTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
* *
4575256 CAGAACGATCATTGAATTTGGAAGATGAATGCGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
66 CAGAACAATCATTGAATTTAGAAGATGAATGCGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
* *
4575321 TATCTGATCTGGTTTGGCAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATCTTC
131 TATCTGATCTGATTGGGCAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATCTTC
4575386 TGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAATTTAGAAGATGAA
196 TGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAATTTAGAAGATGAA
*
4575451 TTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACTAATCA
261 TTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACTAATCA
4575516 TTGAAT
326 TTGAAT
4575522 TTAGAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1 TTAGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
* **
4575587 ACAGAACCAATCATTGAGTTTAGAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTG
65 ACAGAA-CAATCATTGAATTTAGAAGATGAATGCGTTC-ATAGCATCTTCTGGAAGTGTTCTTTG
4575651 AGTTATCTGATCTGATTGGGCAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATC
128 AGTTATCTGATCTGATTGGGCAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATC
* * *
4575716 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCAGTGAATTTAGAAGAT
193 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAATTTAGAAGAT
*
4575781 GAATTTGCCAATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
258 GAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
4575831 ATTCAGTAGG
Statistics
Matches: 293, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
331 18 0.06
332 53 0.18
333 222 0.76
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (331 bp):
TTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
CAGAACAATCATTGAATTTAGAAGATGAATGCGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
TATCTGATCTGATTGGGCAGAACCAATCAATGAATTTAGAAGATGAATTTGTCAATAGCATCTTC
TGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGGCAGAACCAATCAATGAATTTAGAAGATGAA
TTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACTAATCA
TTGAAT
Found at i:4576855 original size:114 final size:113
Alignment explanation
Indices: 4576571--4577199 Score: 876
Period size: 114 Copynumber: 5.5 Consensus size: 113
4576561 TCATTTGAAA
* *
4576571 GATTAGCTTTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
4576635 TAATGAGAAGAACTTGTTCAACCTTTTACTTGAATCCATCATTTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATG
* *
4576683 GATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
* *
4576748 TAATGAGAAGAATTTGTTCAACCTTTT-TTCTGAATTCATCAAATTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTGCT-TGAATTCATC-AATTGATG
4576797 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
* *
4576862 TAATGAGAAGAATTTGTTCAACCTTTT-TTCTGAATTCATCAAATTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTGCT-TGAATTCATC-AATTGATG
4576911 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
*
4576976 TAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATC-ATTGGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATT-GATG
* * * * *
4577024 GATCAAT-ATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAA
1 GAT-TATCTTTTCCAGAGAAG-GTTCATAATGAGAAGAAC-C--CATCTGAAGAAGGAAGAAGAA
* *
4577087 GTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATG
61 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATG
* * ** * * *
4577140 GATCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 GATTATCTTTTCCAG-AGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAA
4577200 TTTATTCAAT
Statistics
Matches: 480, Mismatches: 23, Indels: 27
0.91 0.04 0.05
Matches are distributed among these distances:
112 25 0.05
113 117 0.24
114 235 0.49
115 3 0.01
116 78 0.16
117 20 0.04
118 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATG
Found at i:4577026 original size:227 final size:226
Alignment explanation
Indices: 4576571--4577199 Score: 894
Period size: 227 Copynumber: 2.8 Consensus size: 226
4576561 TCATTTGAAA
* *
4576571 GATTAGCTTTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
* *
4576635 TAATGAGAAGAACTTGTTCAACCTTTTACTTGAATCCATCATTTGATGGATCAGCTTTTCCAGAG
66 TAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCATCTTTTCCAGAG
*
4576700 AAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
131 AAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
*
4576765 TCAACCTTTTTTCTGAATTCATCAAATTGATG
196 TCAACCTTTTCTCTGAATTCATC-AATTGATG
4576797 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
* * * *
4576862 TAATGAGAAGAATTTGTTCAACCTTTT-TTCTGAATTCATCAAATTGATGGATTATCTTTTCCAG
66 TAATGAGAAGAACTTGTTCAACCTTTTACT-TGAATTCATC-ATTTGATGGATCATCTTTTCCAG
4576926 AGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
129 AGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
*
4576991 GTTCAATCTTTTGCT-TGAATTCATC-ATTGGATG
194 GTTCAACCTTTT-CTCTGAATTCATCAATT-GATG
* * * * *
4577024 GATCAAT-ATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAA
1 GAT-TATCTTTTCCAGAGAAG-GTTCATAATGAGAAGAAC-C--CATCTGAAGAAGGAAGAAGAA
* * * **
4577087 GTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCATCATCCC
61 GTTCATAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCATCTTTTC
* * *
4577152 CAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
126 CAG-AGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAA
4577200 TTTATTCAAT
Statistics
Matches: 364, Mismatches: 27, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
226 25 0.07
227 110 0.30
228 108 0.30
229 26 0.07
230 94 0.26
231 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (226 bp):
GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTACTTGAATTCATCATTTGATGGATCATCTTTTCCAGAG
AAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTCTCTGAATTCATCAATTGATG
Found at i:4577344 original size:3 final size:3
Alignment explanation
Indices: 4577336--4577433 Score: 160
Period size: 3 Copynumber: 32.7 Consensus size: 3
4577326 TTTTTATCCA
* *
4577336 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
4577384 TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4577432 TA
1 TA
4577434 AAATATATTA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4577926 original size:12 final size:12
Alignment explanation
Indices: 4577909--4577949 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
4577899 AAAAAAAAAA
4577909 AGAGACAGAAAC
1 AGAGACAGAAAC
4577921 AGAGACAGAAAC
1 AGAGACAGAAAC
* *
4577933 GGAGACAGAACC
1 AGAGACAGAAAC
4577945 AGAGA
1 AGAGA
4577950 AAAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.54, C:0.17, G:0.29, T:0.00
Consensus pattern (12 bp):
AGAGACAGAAAC
Found at i:4577968 original size:19 final size:19
Alignment explanation
Indices: 4577944--4577981 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4577934 GAGACAGAAC
4577944 CAGAGAAAAAGAAAAAAAA
1 CAGAGAAAAAGAAAAAAAA
*
4577963 CAGAGAAAGAGAAAAAAAA
1 CAGAGAAAAAGAAAAAAAA
4577982 AACAAACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.76, C:0.05, G:0.18, T:0.00
Consensus pattern (19 bp):
CAGAGAAAAAGAAAAAAAA
Found at i:4586686 original size:2 final size:2
Alignment explanation
Indices: 4586679--4586708 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4586669 ATGCAAAAAG
4586679 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4586709 GTAGTATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4588091 original size:15 final size:15
Alignment explanation
Indices: 4588071--4588101 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4588061 CAACATATAG
4588071 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
4588086 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
4588101 A
1 A
4588102 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:4588292 original size:20 final size:20
Alignment explanation
Indices: 4588256--4588293 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4588246 ATCCTATTCC
**
4588256 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
4588276 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
4588294 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:4590634 original size:18 final size:18
Alignment explanation
Indices: 4590611--4590646 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4590601 ATTTCTTTGA
*
4590611 TGTATATTAAGTATAAGG
1 TGTATATTAAGTACAAGG
4590629 TGTATATTAAGTACAAGG
1 TGTATATTAAGTACAAGG
4590647 GTCAAGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (18 bp):
TGTATATTAAGTACAAGG
Found at i:4593435 original size:8 final size:8
Alignment explanation
Indices: 4593424--4593530 Score: 53
Period size: 8 Copynumber: 13.2 Consensus size: 8
4593414 AAAAAAATAT
4593424 ATTTTTAA
1 ATTTTTAA
4593432 A-TTTTAA
1 ATTTTTAA
*
4593439 ATATATGTTGA
1 AT-T-T-TTAA
4593450 ATATTTT-A
1 AT-TTTTAA
*
4593458 ATTTATAA
1 ATTTTTAA
*
4593466 ATATTTACA
1 ATTTTTA-A
* *
4593475 ATTTATAC
1 ATTTTTAA
*
4593483 ATATATT-A
1 AT-TTTTAA
4593491 ATTTTTAA
1 ATTTTTAA
* *
4593499 A-TTCTAT
1 ATTTTTAA
4593506 ATTTTTAA
1 ATTTTTAA
4593514 A-TTTTAA
1 ATTTTTAA
4593521 ATTTTTAA
1 ATTTTTAA
4593529 AT
1 AT
4593531 AATTTATTTA
Statistics
Matches: 74, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
7 25 0.34
8 29 0.39
9 11 0.15
10 2 0.03
11 7 0.09
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (8 bp):
ATTTTTAA
Found at i:4593442 original size:19 final size:20
Alignment explanation
Indices: 4593418--4593458 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4593408 AAAATTAAAA
* *
4593418 AAATATATTTTTAA-ATTTT
1 AAATATATGTTGAATATTTT
4593437 AAATATATGTTGAATATTTT
1 AAATATATGTTGAATATTTT
4593457 AA
1 AA
4593459 TTTATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATATATGTTGAATATTTT
Found at i:4593470 original size:16 final size:16
Alignment explanation
Indices: 4593449--4593500 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
4593439 ATATATGTTG
4593449 AATATTTTAATTTATA
1 AATATTTTAATTTATA
*
4593465 AATATTTACAATTTATA
1 AATATTT-TAATTTATA
* * *
4593482 CATATATTAATTTTTA
1 AATATTTTAATTTATA
4593498 AAT
1 AAT
4593501 TCTATATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTTTAATTTATA
Found at i:4593511 original size:15 final size:15
Alignment explanation
Indices: 4593490--4593530 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4593480 TACATATATT
4593490 AATTTTTAAATTCTA
1 AATTTTTAAATTCTA
* *
4593505 TATTTTTAAATTTTA
1 AATTTTTAAATTCTA
4593520 AATTTTTAAAT
1 AATTTTTAAAT
4593531 AATTTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTTTAAATTCTA
Found at i:4595269 original size:17 final size:17
Alignment explanation
Indices: 4595247--4595320 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
4595237 TCAAATATTC
4595247 AAAAAATAAATAAATAT
1 AAAAAATAAATAAATAT
*
4595264 AAAAAA-ATACTAAA-ACT
1 AAAAAATA-AATAAATA-T
* * *
4595281 AAAAATTAAAT-TATTT
1 AAAAAATAAATAAATAT
*
4595297 AAAAAATAAATATATAT
1 AAAAAATAAATAAATAT
*
4595314 TAAAAAT
1 AAAAAAT
4595321 GCTAAATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
16 14 0.32
17 29 0.66
18 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATAAATAAATAT
Found at i:4595299 original size:16 final size:17
Alignment explanation
Indices: 4595280--4595350 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 17
4595270 ATACTAAAAC
4595280 TAAAAATTAAAT-TATT
1 TAAAAATTAAATATATT
*
4595296 TAAAAAATAAATATATAT
1 TAAAAATTAAATATAT-T
*
4595314 TAAAAATGCTAAATATTTT
1 TAAAAAT--TAAATATATT
4595333 TAAAAATTTTAAATATAT
1 TAAAAA--TTAAATATAT
4595351 ATATGATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
16 11 0.24
17 3 0.07
18 7 0.16
19 15 0.33
20 8 0.18
21 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (17 bp):
TAAAAATTAAATATATT
Found at i:4595302 original size:18 final size:18
Alignment explanation
Indices: 4595280--4595319 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
4595270 ATACTAAAAC
*
4595280 TAAAAATTAAAT-TAT-T
1 TAAAAAATAAATATATAT
4595296 TAAAAAATAAATATATAT
1 TAAAAAATAAATATATAT
4595314 TAAAAA
1 TAAAAA
4595320 TGCTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAAATAAATATATAT
Found at i:4595955 original size:21 final size:23
Alignment explanation
Indices: 4595931--4595974 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4595921 AATTTTTGGT
*
4595931 ATTTTTAT-ATT-TATTTTTAAA
1 ATTTTTATAATTGTATATTTAAA
4595952 ATTTTTATAATTGTATATTTAAA
1 ATTTTTATAATTGTATATTTAAA
4595975 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTTTTATAATTGTATATTTAAA
Found at i:4604951 original size:11 final size:11
Alignment explanation
Indices: 4604935--4605010 Score: 59
Period size: 11 Copynumber: 6.6 Consensus size: 11
4604925 AAATTTCAGG
4604935 AGCTCGATTGA
1 AGCTCGATTGA
*
4604946 AGCTCGAGACTCG-
1 AGCTC--GA-TTGA
4604959 AGCTCGATTGA
1 AGCTCGATTGA
4604970 AGCTCGATTTTG-
1 AGCTCGA--TTGA
*
4604982 AGCTCGATTCA
1 AGCTCGATTGA
4604993 AGCTCGATTCGA
1 AGCTCGATT-GA
4605005 A-CTCGA
1 AGCTCGA
4605011 ATTTGAACCT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
10 4 0.08
11 28 0.53
12 9 0.17
13 10 0.19
14 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:4604988 original size:23 final size:23
Alignment explanation
Indices: 4604934--4605010 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
4604924 AAAATTTCAG
**
4604934 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCGATTGAAGCTCGA-TTTC
*
4604958 GAGCTCGATTGAAGCTCGATTTT
1 GAGCTCGATTGAAGCTCGATTTC
*
4604981 GAGCTCGATTCAAGCTCGA-TTC
1 GAGCTCGATTGAAGCTCGATTTC
*
4605003 GAACTCGA
1 GAGCTCGA
4605011 ATTTGAACCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.19
23 19 0.40
24 19 0.40
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCGATTTC
Found at i:4606213 original size:258 final size:259
Alignment explanation
Indices: 4605726--4606228 Score: 857
Period size: 258 Copynumber: 1.9 Consensus size: 259
4605716 AATAGCCAAT
*
4605726 ACCCAGATTTAATACACATTCAAAAGCATATTAGAGCTAAGTAACAACATAGTTGAGTACTAAAA
1 ACCCAGATTTAATACACATTCAAAAGCATATTAGAGCTAACTAACAACATAGTTGAGTACTAAAA
4605791 ACATTCACACTTCCAACAAAATCCGAGAAATGAAAAGGAAAGCAAGATTTAAGATTAAAAAGAAG
66 ACATTCACACTTCCAACAAAATCCGAGAAATGAAAAGGAAAGCAAGATTTAAGATTAAAAAGAAG
* *
4605856 AATAAACGAGTATAAGTATCTAAAACCATACGAATCTTAATGAAAACGAAATGGAAAGGGGCAAA
131 AATAAACGAGTATAAGTATCTAAAACCAGACGAATCTTAATGAAAACGAAAGGGAAAGGGGCAAA
* ** * *
4605921 CTTGAGGAACGAGAAAGGCGGCAGCAATAGAAAGAAAAGGAGACGAGGAAAGCAAACCCGAGGA
196 CCTGAGGAACGAGAAAGGCGAAAACAATAGAAAGAAAAGAAGACGAGGAAAGCAAACCCGAGGA
*
4605985 ACCCAGATTTAATACACATTCAAAA-CATTTTAGAGCTAACTAACAACATAGTTGAGTACTAAAA
1 ACCCAGATTTAATACACATTCAAAAGCATATTAGAGCTAACTAACAACATAGTTGAGTACTAAAA
*
4606049 ACATTCACACTTCCAACAAAATCCGAGAAATGAAAAGGAAAGCAATATTTAAGATTAAAAAGAAG
66 ACATTCACACTTCCAACAAAATCCGAGAAATGAAAAGGAAAGCAAGATTTAAGATTAAAAAGAAG
* *
4606114 AATAAACGAGTATAAGTATCTAAAATCAGACGGATCTTAATG-AAACGAAAGGGAAAGGGGCAAA
131 AATAAACGAGTATAAGTATCTAAAACCAGACGAATCTTAATGAAAACGAAAGGGAAAGGGGCAAA
* *
4606178 CCTGAGGAGCCGAGAAAGGCGAAAACAATAGAAAGAAAAGAAGATGAGGAA
196 CCTGAGGA-ACGAGAAAGGCGAAAACAATAGAAAGAAAAGAAGACGAGGAA
4606229 TTCGAGGGCT
Statistics
Matches: 229, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
257 28 0.12
258 176 0.77
259 25 0.11
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (259 bp):
ACCCAGATTTAATACACATTCAAAAGCATATTAGAGCTAACTAACAACATAGTTGAGTACTAAAA
ACATTCACACTTCCAACAAAATCCGAGAAATGAAAAGGAAAGCAAGATTTAAGATTAAAAAGAAG
AATAAACGAGTATAAGTATCTAAAACCAGACGAATCTTAATGAAAACGAAAGGGAAAGGGGCAAA
CCTGAGGAACGAGAAAGGCGAAAACAATAGAAAGAAAAGAAGACGAGGAAAGCAAACCCGAGGA
Found at i:4606556 original size:21 final size:22
Alignment explanation
Indices: 4606503--4606562 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
4606493 TTGTTCAAAC
*
4606503 CATAAACCCTACACCCT-AAAT
1 CATAAACCCTAAACCCTAAAAT
* *
4606524 CATACACTCTAAACCCTAAAAT
1 CATAAACCCTAAACCCTAAAAT
*
4606546 -TTAAACCCTAAACCCTA
1 CATAAACCCTAAACCCTA
4606563 TCACATAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (22 bp):
CATAAACCCTAAACCCTAAAAT
Found at i:4607069 original size:11 final size:11
Alignment explanation
Indices: 4606986--4607076 Score: 52
Period size: 11 Copynumber: 8.7 Consensus size: 11
4606976 CATATTTTTA
*
4606986 TTTTATTATAT
1 TTTTAATATAT
4606997 TTTTAA-A-A-
1 TTTTAATATAT
*
4607005 TTTT-ATAGAAT
1 TTTTAATA-TAT
*
4607016 TTTTGATATAT
1 TTTTAATATAT
4607027 TTTTAA-A-AT
1 TTTTAATATAT
4607036 TTTATAAT-TAT
1 TTT-TAATATAT
*** *
4607047 CAATAATGTAT
1 TTTTAATATAT
4607058 TTTTAATATAT
1 TTTTAATATAT
4607069 TTTTAATA
1 TTTTAATA
4607077 ATGTAATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 6 0.10
10 10 0.16
11 36 0.59
12 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:4607604 original size:17 final size:18
Alignment explanation
Indices: 4607572--4607607 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4607562 AACATATGGT
*
4607572 TTTTGAAAATATATATAA
1 TTTTGAAAATAAATATAA
4607590 TTTTGAAAA-AAATATAA
1 TTTTGAAAATAAATATAA
4607607 T
1 T
4607608 ATATGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (18 bp):
TTTTGAAAATAAATATAA
Found at i:4608388 original size:18 final size:18
Alignment explanation
Indices: 4608365--4608423 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
4608355 GCATAGAATT
*
4608365 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
4608383 TGTCCCGAAAGACCACTGTATA
1 TGTCCCGAAGGACCAC----TA
4608405 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
4608423 T
1 T
4608424 AATCCCTCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
18 17 0.50
22 17 0.50
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:4610208 original size:15 final size:15
Alignment explanation
Indices: 4610188--4610218 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4610178 TACATTATAG
4610188 TTTTTGAAAACATAA
1 TTTTTGAAAACATAA
*
4610203 TTTTTGAAAATATAA
1 TTTTTGAAAACATAA
4610218 T
1 T
4610219 GTATGTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (15 bp):
TTTTTGAAAACATAA
Found at i:4610272 original size:5 final size:5
Alignment explanation
Indices: 4610258--4610330 Score: 73
Period size: 5 Copynumber: 15.0 Consensus size: 5
4610248 GTGTATGTGT
* *
4610258 TATT- TATTA TATTA TA-TA TATTA T-GTA TATTA TAGTA TTATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA TATTA
*
4610306 TATTA TTATTA AATTA TATT- TATTA
1 TATTA -TATTA TATTA TATTA TATTA
4610331 ATATGTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
4 15 0.26
5 33 0.58
6 9 0.16
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:4610324 original size:16 final size:16
Alignment explanation
Indices: 4610261--4610330 Score: 95
Period size: 16 Copynumber: 4.2 Consensus size: 16
4610251 TATGTGTTAT
4610261 TTATTATATTATATATA
1 TTATTATATTATAT-TA
*
4610278 TTATGTATATTATAGTA
1 TTAT-TATATTATATTA
4610295 TTATTATATTATATTA
1 TTATTATATTATATTA
*
4610311 TTATTAAATTATATTTA
1 TTATTATATTATA-TTA
4610328 TTA
1 TTA
4610331 ATATGTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
16 23 0.48
17 16 0.33
18 9 0.19
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:4615703 original size:26 final size:26
Alignment explanation
Indices: 4615678--4615766 Score: 160
Period size: 26 Copynumber: 3.4 Consensus size: 26
4615668 GAGCCTTTTT
*
4615678 GAGTTCAAGTTTTAATATTATATTTT
1 GAGTTCAAGTTTTAATATTATATTTC
4615704 GAGTTCAAGTTTTAATATTATATTTC
1 GAGTTCAAGTTTTAATATTATATTTC
4615730 GAGTTCAAGTTTTAATATTATATTTC
1 GAGTTCAAGTTTTAATATTATATTTC
*
4615756 GAGTTCGAGTT
1 GAGTTCAAGTT
4615767 GAACTTGATA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (26 bp):
GAGTTCAAGTTTTAATATTATATTTC
Found at i:4616398 original size:23 final size:22
Alignment explanation
Indices: 4616354--4616400 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4616344 TAAAATGTTA
*
4616354 AATTATAAAGTACTAAACATAT
1 AATTATAAAGTACTAAAAATAT
* *
4616376 AATTATAAATTAGTTAAAAATAT
1 AATTATAAAGTA-CTAAAAATAT
4616399 AA
1 AA
4616401 ATGTAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (22 bp):
AATTATAAAGTACTAAAAATAT
Found at i:4617107 original size:21 final size:21
Alignment explanation
Indices: 4617057--4617107 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 21
4617047 GTGTTTTATT
* *
4617057 TATATT-TTAAATCATTTTAA
1 TATATTATAAAATAATTTTAA
* **
4617077 TAAAAAATAAAATAATTTTAA
1 TATATTATAAAATAATTTTAA
4617098 TATATTATAA
1 TATATTATAA
4617108 TTGAAATATA
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATTATAAAATAATTTTAA
Found at i:4623582 original size:23 final size:23
Alignment explanation
Indices: 4623564--4623647 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
4623554 CTCGTATAAA
4623564 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
4623587 TGCACTGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
**
4623610 TGCACCGAAGTGCTGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
4623633 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
4623648 TATAAGATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:4630422 original size:23 final size:23
Alignment explanation
Indices: 4630404--4630464 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
4630394 CTCGTATAAA
*
4630404 TGCACCGAAGTTCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
4630427 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
4630450 TGCACC-ATAGTGCCA
1 TGCACCGA-AGTGCCA
4630465 TATAAGATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:4633736 original size:17 final size:18
Alignment explanation
Indices: 4633711--4633749 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4633701 TTTTTCTTTC
* *
4633711 TTTTCTTTTGTTTT-ATT
1 TTTTATTTTATTTTGATT
4633728 TTTTATTTTATTTTGATT
1 TTTTATTTTATTTTGATT
4633746 TTTT
1 TTTT
4633750 TTATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTATTTTATTTTGATT
Found at i:4633759 original size:22 final size:22
Alignment explanation
Indices: 4633711--4633756 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
4633701 TTTTTCTTTC
*
4633711 TTTTCTTTTGTTTTATTTTTTA
1 TTTTATTTTGTTTTATTTTTTA
*
4633733 TTTTATTTTG-ATT-TTTTTTA
1 TTTTATTTTGTTTTATTTTTTA
4633753 TTTT
1 TTTT
4633757 TTACTAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 2 0.09
22 9 0.41
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (22 bp):
TTTTATTTTGTTTTATTTTTTA
Found at i:4640581 original size:42 final size:41
Alignment explanation
Indices: 4640496--4640582 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
4640486 TGCCCAAGGT
* * *
4640496 CTTATGGATGGCCCAAATGACTTATAATCTTGCTCGAAAGA
1 CTTATAGATGACCCAAATGACTTATAATCGTGCTCGAAAGA
*
4640537 CTTATAGATGACCCAAATGATTTA-AGCATCGTGCTCGAAAGA
1 CTTATAGATGACCCAAATGACTTATA--ATCGTGCTCGAAAGA
4640579 CTTA
1 CTTA
4640583 CTGGTGGCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 1 0.03
41 21 0.52
42 18 0.45
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (41 bp):
CTTATAGATGACCCAAATGACTTATAATCGTGCTCGAAAGA
Found at i:4642152 original size:4 final size:4
Alignment explanation
Indices: 4642143--4642168 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4642133 ATTTTATTTC
4642143 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
4642169 TTTTTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:4643224 original size:51 final size:51
Alignment explanation
Indices: 4643148--4643249 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
4643138 GAAAGTCAAC
4643148 CTTAGATTTGTGATAGCTGCTACTGCACCTCGTATCCAACTAGTCTTTGCT
1 CTTAGATTTGTGATAGCTGCTACTGCACCTCGTATCCAACTAGTCTTTGCT
4643199 CTTAGATTTGTGATAGCTGCTACTGCACCTCGTATCCAACTAGTCTTTGCT
1 CTTAGATTTGTGATAGCTGCTACTGCACCTCGTATCCAACTAGTCTTTGCT
4643250 TTTACCTACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (51 bp):
CTTAGATTTGTGATAGCTGCTACTGCACCTCGTATCCAACTAGTCTTTGCT
Done.