Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008341.1 Hibiscus syriacus cultivar Beakdansim tig00111067_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: 1248125
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:8341 original size:2 final size:2
Alignment explanation
Indices: 8334--8380 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
8324 TATACTTTAA
* *
8334 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8376 AT AT A
1 AT AT A
8381 CGATATAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8393 original size:20 final size:17
Alignment explanation
Indices: 8333--8387 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 17
8323 TTATACTTTA
8333 AATATATATATACATATAT
1 AATATATATATAC--ATAT
8352 ATATATATATATACATAT
1 A-ATATATATATACATAT
8370 -ATATATATATACGATAT
1 AATATATATATAC-ATAT
8387 A
1 A
8388 GCATATGCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 12 0.36
17 4 0.12
18 4 0.12
19 1 0.03
20 12 0.36
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (17 bp):
AATATATATATACATAT
Found at i:10205 original size:3 final size:3
Alignment explanation
Indices: 10187--10236 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
10177 GCAAATGTAA
* *
10187 AAT AAT AAAT ATT AAT AAT AAT AAT AAT AAT AAT AAC AAT -AT AATT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
10233 AAT A
1 AAT A
10237 TTTATAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12716 original size:9 final size:9
Alignment explanation
Indices: 12702--12749 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
12692 AAGGAAAAAG
12702 TGACCGGTT
1 TGACCGGTT
12711 TGACCGGTTT
1 TGACCGG-TT
* *
12721 TGGAACTGTTT
1 T-G-ACCGGTT
12732 TGACCGGTT
1 TGACCGGTT
12741 TGACCGGTT
1 TGACCGGTT
12750 ACCCCGACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 21 0.66
10 4 0.12
11 4 0.12
12 3 0.09
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (9 bp):
TGACCGGTT
Found at i:12773 original size:18 final size:18
Alignment explanation
Indices: 12752--12814 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
12742 GACCGGTTAC
*
12752 CCCGACCCGACCCGTTTA
1 CCCGACCCGACCCGTTCA
**
12770 CCCGATTCGACCCGTTCA
1 CCCGACCCGACCCGTTCA
* * *
12788 CCCGACCCGAACTGTTGA
1 CCCGACCCGACCCGTTCA
12806 CCCGACCCG
1 CCCGACCCG
12815 TTGACCGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.17, C:0.48, G:0.19, T:0.16
Consensus pattern (18 bp):
CCCGACCCGACCCGTTCA
Found at i:17708 original size:138 final size:137
Alignment explanation
Indices: 17529--18211 Score: 767
Period size: 137 Copynumber: 5.0 Consensus size: 137
17519 GGTAAATTTA
* * * *
17529 GAGACAACACGGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACGCTGCTCCTACGTG
1 GAGATAACACAGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACGCTGCTCCTACGTG
* * * *
17594 ATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTAATGAGGACATTTAGCCATCTTTAGG
66 ATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGG
*
17659 GGTAAATG
131 GAT-AATG
** * * * ** * * *
17667 GAGATAACATGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATAATACGGCTTCTACATG
1 GAGATAACACAGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACGCTGCTCCTACGTG
* *** * ** *
17732 ATGAGGAGATTTGGTTAATGGATGACA-CGATTCCTATATGATGAGGACGTCTGGCCATATTTAG
66 ATGAGGAGATCTGGTCGGTGGATGACATTG-TTCCTACGTGATGAGGACGTCTGGCCATCTTTAG
17796 GGATAATG
130 GGATAATG
* * * * * * *
17804 GAGATAACACAATTCCTACGTGATGAGGAAGTCTAGCTATCTAAGGATTACGCTGCTCCTGCATT
1 GAGATAACACAGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACGCTGCTCCTACGTG
* * * * *
17869 ATGAGAAGATGTGCTCGGTGGATGACAATGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGG
66 ATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGG
17934 GATAAATG
131 GAT-AATG
* * * * * *
17942 GAGATAAAATAATTCCTATGTGAAGAGGAAGTCTGGTTATCTAAGGTTGACGCTGCTCCTACGTG
1 GAGATAACACAGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACGCTGCTCCTACGTG
* * * *
18007 ATGAGGAGATCT-GTCAGTGGATGACATTATTCCTATGTGATGAGGACATCTGGCCATCTTTAGG
66 ATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGG
*
18071 GATAATA
131 GATAATG
* ** * *
18078 GAGATAACACAGTTCCTATGCAATGAGGAAGTCTGGTTATCTAAGGTTGATGCTGCTCCTACGTG
1 GAGATAACACAGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACGCTGCTCCTACGTG
* * * * * * *
18143 ATAAAGAGATCTAGTCGGTGGATTACACTGTTCCTACGTGATAAAGACGTCTGGCCATCTTTAGG
66 ATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGG
18208 GATA
131 GATA
18212 GTTTAGTTTC
Statistics
Matches: 455, Mismatches: 86, Indels: 9
0.83 0.16 0.02
Matches are distributed among these distances:
136 71 0.16
137 209 0.46
138 175 0.38
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (137 bp):
GAGATAACACAGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACGCTGCTCCTACGTG
ATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGG
GATAATG
Found at i:18332 original size:36 final size:36
Alignment explanation
Indices: 18285--18410 Score: 136
Period size: 36 Copynumber: 3.6 Consensus size: 36
18275 ATTATCTTTA
* *
18285 TGTTTCAAGAGAAACTGTATCAAGAGAGAAAAAACT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACT
* ****
18321 TGTTTCAAGAGAAACAATCTC-A-A-AGATTTTAC-
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACT
*
18353 -GTTTCAAGAGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACT
*
18388 TGTTTCAAGAGAAAATATCTCAA
1 TGTTTCAAGAGAAACTATCTCAA
18411 ATGTTTGTGT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
31 19 0.26
32 1 0.01
33 6 0.08
34 6 0.08
35 1 0.01
36 39 0.54
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACT
Found at i:18380 original size:69 final size:66
Alignment explanation
Indices: 18213--18411 Score: 274
Period size: 67 Copynumber: 2.9 Consensus size: 66
18203 TTAGGGATAG
* * **
18213 TTTAGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTTCAAGGGAAATAATCTCAATT
1 TTTAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTG-TTTCAAGAGAAA-AATCTCAAAG
18278 ATC
64 ATC
* *
18281 TTTATGTTTCAAGAGAAACTGTATCAAGAGAGAAAAAACTTGTTTCAAGAGAAACAATCTCAAAG
1 TTTA-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAA-AATCTCAAAG
18346 AT-
64 ATC
*
18348 TTTACGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTGTTTCAAGAGAAAATATCTCAAA
1 TTTA-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAAA-ATCTCAAA
18412 TGTTTGTGTC
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
66 1 0.01
67 58 0.49
68 25 0.21
69 34 0.29
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (66 bp):
TTTAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAAAATCTCAAAGAT
C
Found at i:18650 original size:37 final size:37
Alignment explanation
Indices: 18563--18660 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
18553 AATTTGGTTT
* *
18563 GAGAGAAATTGTCTAAAGTGAGACAAAATTTATTTTTA
1 GAGA-AAATTGTCTCAAGTGAGACAAAATTGATTTTTA
* * *
18601 GATAAAACTGTCTCAAGTGAGACAAAATTGGTTTTTA
1 GAGAAAATTGTCTCAAGTGAGACAAAATTGATTTTTA
* *
18638 -AGGAAAATTGTCTCTAGCGAGAC
1 GA-GAAAATTGTCTCAAGTGAGAC
18661 GACACTTTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
36 1 0.02
37 46 0.92
38 3 0.06
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (37 bp):
GAGAAAATTGTCTCAAGTGAGACAAAATTGATTTTTA
Found at i:20263 original size:26 final size:24
Alignment explanation
Indices: 20212--20275 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
20202 TTTTATTTTC
* *
20212 AAAACTTTGAAAAATATCAATTAA
1 AAAATTTTGAAAAATATCAATCAA
* *
20236 AAGAATTTTGAAAAATGTTTAATCAA
1 AA-AATTTTGAAAAAT-ATCAATCAA
*
20262 AAATTTTTGAAAAA
1 AAAATTTTGAAAAA
20276 ATTGCCCCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 2 0.06
25 23 0.70
26 8 0.24
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.33
Consensus pattern (24 bp):
AAAATTTTGAAAAATATCAATCAA
Found at i:26211 original size:75 final size:75
Alignment explanation
Indices: 26085--26233 Score: 262
Period size: 75 Copynumber: 2.0 Consensus size: 75
26075 TAATCAGAGA
26085 TGAGTATAAGTGATGGGAAAAAAGTATGTGAACATTAAAGAAAAGACATGATTTGTGTATAAGGA
1 TGAGTATAAGTGATGGGAAAAAAGTATGTGAACATTAAAGAAAAGACATGATTTGTGTATAAGGA
26150 GATTTTGATG
66 GATTTTGATG
* * * *
26160 TGAGTATAAGTGATGGGCAAAGAGTATGTGAACATTAAAGAAAATATATGATTTGTGTATAAGGA
1 TGAGTATAAGTGATGGGAAAAAAGTATGTGAACATTAAAGAAAAGACATGATTTGTGTATAAGGA
26225 GATTTTGAT
66 GATTTTGAT
26234 ATTGAATGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (75 bp):
TGAGTATAAGTGATGGGAAAAAAGTATGTGAACATTAAAGAAAAGACATGATTTGTGTATAAGGA
GATTTTGATG
Found at i:37342 original size:15 final size:15
Alignment explanation
Indices: 37324--37361 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
37314 AATATGTCAT
37324 TGATGAACATGTTCC
1 TGATGAACATGTTCC
*
37339 TGATGAACTTGTTCC
1 TGATGAACATGTTCC
37354 TGATGAAC
1 TGATGAAC
37362 CGATAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (15 bp):
TGATGAACATGTTCC
Found at i:44139 original size:3 final size:3
Alignment explanation
Indices: 44126--44160 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
44116 TTAAAATGTT
*
44126 ATA AGTA ATA ATA ATA ATA ATA ATA GTA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44161 ATTAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:46719 original size:29 final size:29
Alignment explanation
Indices: 46677--46743 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
46667 TTCGACGATC
46677 AAACGAACGAACGGACATGGATCCATCGT
1 AAACGAACGAACGGACATGGATCCATCGT
* *
46706 AAACGAACGAACGGGCATTGATCCATCGT
1 AAACGAACGAACGGACATGGATCCATCGT
46735 AAAC-AACGA
1 AAACGAACGA
46744 TGGCAACTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.13
Consensus pattern (29 bp):
AAACGAACGAACGGACATGGATCCATCGT
Found at i:47346 original size:20 final size:19
Alignment explanation
Indices: 47281--47347 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
47271 GGTTCCTACA
*
47281 AAAAAATAA-AATAAAAA-
1 AAAATATAATAATAAAAAT
47298 AAAATATTAATAATAATAAAT
1 AAAATA-TAATAATAA-AAAT
*
47319 AAATTATAATAATAAAAAT
1 AAAATATAATAATAAAAAT
47338 ATAAATATAA
1 A-AAATATAA
47348 AACCCGGTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.12
18 3 0.07
19 10 0.24
20 19 0.45
21 5 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATATAATAATAAAAAT
Found at i:47781 original size:67 final size:67
Alignment explanation
Indices: 47669--47889 Score: 182
Period size: 72 Copynumber: 3.2 Consensus size: 67
47659 GAAGGTTTGG
* * * ** * * *
47669 TGTTTCAAGAGAAACATTTTTCAAAGGTTTTTTTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAA
1 TGTTTCAAGAGAAACACTATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
47734 TTT
66 -TT
* *
47737 TGTTTCAAGAGAAAC-CTATTCAAAGATTGGTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA
1 TGTTTCAAGAGAAACACTATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
47801 TT
66 TT
* * * *
47803 TGTTTTAAG-GAAA-ACTGTCTCAAGAGAGACAAAATT--TGTTTCAAGGGAAACTATCTCAAGA
1 TGTTTCAAGAGAAACACTAT-TC-A-A-AG-----ATTGGTGTTTCAAGAGAAACTGTCTCAAGA
*
47864 GAGACACAATT
57 GAGACAAAATT
47875 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
47890 GATCTCAAGA
Statistics
Matches: 125, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
65 7 0.06
66 12 0.10
67 40 0.32
68 16 0.13
69 2 0.02
72 41 0.33
73 4 0.03
74 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (67 bp):
TGTTTCAAGAGAAACACTATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
TT
Found at i:47846 original size:21 final size:21
Alignment explanation
Indices: 47822--47886 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 21
47812 GAAAACTGTC
47822 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* * *
47843 TCAAG-G-G---AAA-CTATC
1 TCAAGAGAGACAAAATTTGTT
*
47858 TCAAGAGAGACACAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
47879 TCAAGAGA
1 TCAAGAGA
47887 AACGATCTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 12
0.62 0.14 0.24
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
17 1 0.03
19 1 0.03
20 3 0.10
21 15 0.48
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:47860 original size:72 final size:72
Alignment explanation
Indices: 47767--47933 Score: 239
Period size: 72 Copynumber: 2.3 Consensus size: 72
47757 CAAAGATTGG
* * *
47767 TGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTTAAG-GAAAACTG-TCTCAAGAGA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAG-AAAC-GATCTCAAGAGA
47830 GACAAAATT
64 GACAAAATT
*
47839 TGTTTCAAGGGAAACTATCTCAAGAGAGACACAATTTGTTTCAAGAGAAACGATCTCAAGAGAGA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACGATCTCAAGAGAGA
*
47904 CATAATT
66 CAAAATT
* *
47911 TGTTTCAAGAGAAACCATCTCAA
1 TGTTTCAAGGGAAACTATCTCAA
47934 AGGAGTCGAT
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 1 0.01
72 84 0.98
73 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (72 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACGATCTCAAGAGAGA
CAAAATT
Found at i:47925 original size:36 final size:36
Alignment explanation
Indices: 47767--47933 Score: 214
Period size: 36 Copynumber: 4.6 Consensus size: 36
47757 CAAAGATTGG
* *
47767 TGTTTCAAGGGAAACTG-TCTCAAGAGAGATAAAATT
1 TGTTTCAAGAGAAAC-GATCTCAAGAGAGACAAAATT
*
47803 TGTTTTAAG-GAAAACTG-TCTCAAGAGAGACAAAATT
1 TGTTTCAAGAG-AAAC-GATCTCAAGAGAGACAAAATT
* * *
47839 TGTTTCAAGGGAAACTATCTCAAGAGAGACACAATT
1 TGTTTCAAGAGAAACGATCTCAAGAGAGACAAAATT
*
47875 TGTTTCAAGAGAAACGATCTCAAGAGAGACATAATT
1 TGTTTCAAGAGAAACGATCTCAAGAGAGACAAAATT
*
47911 TGTTTCAAGAGAAACCATCTCAA
1 TGTTTCAAGAGAAACGATCTCAA
47934 AGGAGTCGAT
Statistics
Matches: 119, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
35 1 0.01
36 117 0.98
37 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACGATCTCAAGAGAGACAAAATT
Found at i:48472 original size:106 final size:101
Alignment explanation
Indices: 48344--48593 Score: 342
Period size: 100 Copynumber: 2.4 Consensus size: 101
48334 GTATTGTTCT
* * *
48344 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTTTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAA-T--GAAA-TTTTT-TTGACAA
48409 TCAGCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTATCTC
61 TCAGCCGCCCCTTCGTC-GTGAAGTTGAGCTTGTGCTATCTC
* * *
48450 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTCT-GAATGAAATTTTTTTGACAATCAGC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAATGAAATTTTTTTGACAATCAGC
* * *
48514 CGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
66 CGCCCCTTCGTCGTGAAGTTGAGCTTGTGCTATCTC
*
48550 GGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAAT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAAT
48594 TAGGAAGCCC
Statistics
Matches: 129, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
100 77 0.60
101 10 0.08
102 4 0.03
104 1 0.01
105 3 0.02
106 34 0.26
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (101 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAATGAAATTTTTTTGACAATCAGC
CGCCCCTTCGTCGTGAAGTTGAGCTTGTGCTATCTC
Found at i:49321 original size:33 final size:31
Alignment explanation
Indices: 49230--49319 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 31
49220 ATTCCCGTCA
* * * *
49230 TGATATTGAATTCCCAAAGATGCCCTAATATT
1 TGATGTTGAA-TCTCAAAGATGCCCCAACATT
* *
49262 TTATGTTGAATCTCAAAAAATGCCCCAACATT
1 TGATGTTGAATCTC-AAAGATGCCCCAACATT
49294 TGATGTTGAATCTTCAAAGATGCCCC
1 TGATGTTGAATC-TCAAAGATGCCCC
49320 CATTGTTCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 3 0.06
32 43 0.90
33 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (31 bp):
TGATGTTGAATCTCAAAGATGCCCCAACATT
Found at i:50857 original size:26 final size:26
Alignment explanation
Indices: 50821--50877 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
50811 GTCTTAGAAG
50821 AATGCTCATGTTCAAATGAACAACTC
1 AATGCTCATGTTCAAATGAACAACTC
50847 AATGCTCATGTTCAAATGAACAACTC
1 AATGCTCATGTTCAAATGAACAACTC
50873 AATGC
1 AATGC
50878 CTTGTGACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (26 bp):
AATGCTCATGTTCAAATGAACAACTC
Found at i:53979 original size:29 final size:28
Alignment explanation
Indices: 53934--54000 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 28
53924 TTCGACGATC
53934 AAACAAACGAACAGGCATGGATCCATCGT
1 AAAC-AACGAACAGGCATGGATCCATCGT
*
53963 AAACGAACGAACGGGCATGGATCCATCGT
1 AAAC-AACGAACAGGCATGGATCCATCGT
53992 AAACAACGA
1 AAACAACGA
54001 TGGCAACTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.42, C:0.24, G:0.22, T:0.12
Consensus pattern (28 bp):
AAACAACGAACAGGCATGGATCCATCGT
Found at i:54637 original size:22 final size:22
Alignment explanation
Indices: 54608--54662 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
54598 GGTTCCTACA
54608 AAAAATAAAAAATATTAT-TAAT
1 AAAAATAAAAAA-ATTATATAAT
* *
54630 AATAATAAATAAATTATATAAT
1 AAAAATAAAAAAATTATATAAT
*
54652 AAAAATTAAAA
1 AAAAATAAAAA
54663 TATAAAATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAATAAAAAAATTATATAAT
Found at i:54666 original size:19 final size:19
Alignment explanation
Indices: 54628--54666 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
54618 AATATTATTA
*
54628 ATAATAATAAATAAATTAT
1 ATAATAATAAATAAAATAT
54647 ATAATAA-AAATTAAAATAT
1 ATAATAATAAA-TAAAATAT
54666 A
1 A
54667 AAATTCGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATAATAAATAAAATAT
Found at i:54927 original size:31 final size:31
Alignment explanation
Indices: 54892--55007 Score: 214
Period size: 31 Copynumber: 3.7 Consensus size: 31
54882 AGTATTGCTA
*
54892 AGCTCGACTCGACTCGAAAACTCTGAAATGG
1 AGCTCGACTCGACTCAAAAACTCTGAAATGG
54923 AGCTCGACTCGACTCAAAAACTCTGAAATGG
1 AGCTCGACTCGACTCAAAAACTCTGAAATGG
54954 AGCTCGACTCGACTCAAAAACTCTGAAATGG
1 AGCTCGACTCGACTCAAAAACTCTGAAATGG
*
54985 AGCTCGACTCGACTCGAAAACTC
1 AGCTCGACTCGACTCAAAAACTC
55008 GCGAGCTTAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.19
Consensus pattern (31 bp):
AGCTCGACTCGACTCAAAAACTCTGAAATGG
Found at i:59888 original size:14 final size:14
Alignment explanation
Indices: 59869--59897 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59859 TGTTCAATAG
59869 TTGAAAAATATTTT
1 TTGAAAAATATTTT
59883 TTGAAAAATATTTT
1 TTGAAAAATATTTT
59897 T
1 T
59898 CTAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTGAAAAATATTTT
Found at i:65211 original size:18 final size:18
Alignment explanation
Indices: 65176--65218 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
65166 AAAGATATTA
**
65176 AAAT-AATAAAAGTGATT
1 AAATAAATAAAAGCAATT
65193 AAATAAATAAAAGCAATT
1 AAATAAATAAAAGCAATT
65211 AAAGTAAA
1 AAA-TAAA
65219 AATAAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAGCAATT
Found at i:66428 original size:29 final size:27
Alignment explanation
Indices: 66376--66430 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
66366 ATGGCAGGTG
*
66376 TGCTAAATTGTTTTTTTCAAGTTCAAC
1 TGCTAAATTGTTTTTTTAAAGTTCAAC
66403 TGCTAAATTGATTTTTTTAAAAGTTCAA
1 TGCTAAATTG-TTTTTTT-AAAGTTCAA
66431 GGGTGTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
28 7 0.28
29 8 0.32
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (27 bp):
TGCTAAATTGTTTTTTTAAAGTTCAAC
Found at i:68141 original size:54 final size:54
Alignment explanation
Indices: 68077--68194 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
68067 AATGGTGCAT
* * * * **
68077 TTTCGACACTAAATGTGTAACCCATGTAATTTATAATGTGTTTATGAATGACCA
1 TTTCAACACTAAATGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCA
* * * * **
68131 TTTCTACACTAAGTGTGCAATCCATGGAATTCATAATAAGTTTGTGAATTTCCA
1 TTTCAACACTAAATGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCA
68185 TTTCAACACT
1 TTTCAACACT
68195 TTGCAATGCA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (54 bp):
TTTCAACACTAAATGTGCAACCCATGGAATTCATAATAAGTTTATGAATGACCA
Found at i:69253 original size:16 final size:16
Alignment explanation
Indices: 69215--69246 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
69205 TTGATCCTAA
69215 AAGAGCTGAAAAGTTT
1 AAGAGCTGAAAAGTTT
69231 AAGAGCTGAAAAGTTT
1 AAGAGCTGAAAAGTTT
69247 GGGAGCTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
AAGAGCTGAAAAGTTT
Found at i:74582 original size:22 final size:22
Alignment explanation
Indices: 74554--74604 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
74544 TTTACTGGTC
74554 ACTGCTACAATAAGCTACAGTA
1 ACTGCTACAATAAGCTACAGTA
74576 ACTGCTACAATAAGCTACAGTA
1 ACTGCTACAATAAGCTACAGTA
74598 ACTGCTA
1 ACTGCTA
74605 TAGTACTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (22 bp):
ACTGCTACAATAAGCTACAGTA
Found at i:74584 original size:12 final size:12
Alignment explanation
Indices: 74554--74609 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 12
74544 TTTACTGGTC
*
74554 ACTGCTACAATA
1 ACTGCTACAGTA
74566 A--GCTACAGTA
1 ACTGCTACAGTA
*
74576 ACTGCTACAATA
1 ACTGCTACAGTA
74588 A--GCTACAGTA
1 ACTGCTACAGTA
*
74598 ACTGCTATAGTA
1 ACTGCTACAGTA
74610 CTTTCGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 18 0.50
12 18 0.50
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.25
Consensus pattern (12 bp):
ACTGCTACAGTA
Found at i:75082 original size:48 final size:47
Alignment explanation
Indices: 74986--75145 Score: 229
Period size: 48 Copynumber: 3.5 Consensus size: 47
74976 AATTTATTAA
* *
74986 CCATAAGCTCGTAAGCCTATTTTACCAAAATACTTACCATTTAAATT
1 CCATAAGCTCGTAAGCTTATTTTAACAAAATACTTACCATTTAAATT
*
75033 CCATGAGCTCGTAAGCTTATTTTAACAAAAATACTTACCATTTAAATT
1 CCATAAGCTCGTAAGCTTATTTTAAC-AAAATACTTACCATTTAAATT
* * *
75081 CCATAAGCTCGTAAGCTTATTTTATCAATATACTTGCCA-TT--ATT
1 CCATAAGCTCGTAAGCTTATTTTAACAAAATACTTACCATTTAAATT
75125 -CATAAGCTCGTAAGCTTATTT
1 CCATAAGCTCGTAAGCTTATTT
75146 GTATACTTAC
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
43 21 0.20
44 3 0.03
46 2 0.02
47 34 0.32
48 45 0.43
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (47 bp):
CCATAAGCTCGTAAGCTTATTTTAACAAAATACTTACCATTTAAATT
Found at i:76287 original size:29 final size:29
Alignment explanation
Indices: 76223--76288 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
76213 ATAACCCATC
* * **
76223 AATTTTCCAAAATTTACAAATTGATCTTT
1 AATTTTTCAAAACTTACAAATTGATCCCT
*
76252 AACTTTTCAAAACTTACGAAATTG-TCCCT
1 AATTTTTCAAAACTTAC-AAATTGATCCCT
76281 AATTTTTC
1 AATTTTTC
76289 TAAGGCTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (29 bp):
AATTTTTCAAAACTTACAAATTGATCCCT
Found at i:77526 original size:20 final size:20
Alignment explanation
Indices: 77501--77549 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
77491 GGGCTAGGGG
77501 TATCGATACTAGATGAACAA
1 TATCGATACTAGATGAACAA
* *
77521 TATCGATACTGGATGAACAG
1 TATCGATACTAGATGAACAA
77541 TATCGATAC
1 TATCGATAC
77550 CATAAGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (20 bp):
TATCGATACTAGATGAACAA
Found at i:78196 original size:16 final size:16
Alignment explanation
Indices: 78175--78218 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
78165 ATGATATAAG
78175 CTATGTGAA-AAATGAT
1 CTATGTGAATAAATG-T
78191 CTATGTGAATAAATGT
1 CTATGTGAATAAATGT
78207 CTATGTG-ATAAA
1 CTATGTGAATAAA
78219 CTATGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.19
16 17 0.63
17 5 0.19
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (16 bp):
CTATGTGAATAAATGT
Found at i:78340 original size:23 final size:23
Alignment explanation
Indices: 78303--78442 Score: 104
Period size: 23 Copynumber: 6.1 Consensus size: 23
78293 GAGTCGAGAG
**
78303 TTCTACGCAGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* *
78326 TTCTACGTGGACCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
* *
78349 TTCTACGCGGTCCTTTGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* * *
78372 TACTATGTGGTCCTTCGAGAC-A
1 TTCTACGTGGTCCTTCGGGACAA
* * * * * *
78394 TATCTATGTGGTCATTTGGAATAT
1 T-TCTACGTGGTCCTTCGGGACAA
*
78418 TTCTACGTGG-CACTTCGGTACAA
1 TTCTACGTGGTC-CTTCGGGACAA
78441 TT
1 TT
78443 TATATGAGTT
Statistics
Matches: 88, Mismatches: 26, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
22 3 0.03
23 84 0.95
24 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:78370 original size:46 final size:45
Alignment explanation
Indices: 78303--78435 Score: 131
Period size: 46 Copynumber: 2.9 Consensus size: 45
78293 GAGTCGAGAG
* *
78303 TTCTACGCAGTCCTTCGGGACAATTCTACGTGGACCTTCGGGACAT
1 TTCTACGCGGTCCTTTGGGACAATTCTACGTGG-CCTTCGGGACAT
* * *
78349 TTCTACGCGGTCCTTTGGGACAATACTATGTGGTCCTTCGAGACAT
1 TTCTACGCGGTCCTTTGGGACAATTCTACGTGG-CCTTCGGGACAT
* * * * * * *
78395 ATCTATGTGGTCATTTGGAATATTTCTACGTGGCACTTCGG
1 TTCTACGCGGTCCTTTGGGACAATTCTACGTGGC-CTTCGG
78436 TACAATTTAT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
45 1 0.01
46 69 0.99
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (45 bp):
TTCTACGCGGTCCTTTGGGACAATTCTACGTGGCCTTCGGGACAT
Found at i:78915 original size:23 final size:23
Alignment explanation
Indices: 78889--78941 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
78879 TACACTATTA
* *
78889 TATTTATGTAAATTA-TTGAGTTT
1 TATTTAT-CAAATTAGTTGAATTT
78912 TATTT-TCAAATTATGTTGAATTT
1 TATTTATCAAATTA-GTTGAATTT
78935 TATTTAT
1 TATTTAT
78942 TTACTTGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 6 0.24
22 1 0.04
23 17 0.68
24 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (23 bp):
TATTTATCAAATTAGTTGAATTT
Found at i:78923 original size:21 final size:22
Alignment explanation
Indices: 78898--78939 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
78888 ATATTTATGT
*
78898 AAATTA-TTGAGTTTTATTTTC
1 AAATTAGTTGAATTTTATTTTC
78919 AAATTATGTTGAATTTTATTT
1 AAATTA-GTTGAATTTTATTT
78940 ATTTACTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (22 bp):
AAATTAGTTGAATTTTATTTTC
Found at i:83206 original size:48 final size:49
Alignment explanation
Indices: 83153--83306 Score: 175
Period size: 53 Copynumber: 3.1 Consensus size: 49
83143 ATTTAATTAT
* *
83153 CATTAGTGGCACCTTTATGCCAAAAATGCACCATT-TTCATCTAACTTG
1 CATTAGTGGCACCTTTCTGCCAAAAATGCACCATTATGCATCTAACTTG
* * *
83201 CATTAGTGGCACATTTCTGCAAAAACAAAATGCACCATTATGCATTTAACTTG
1 CATTAGTGGCACCTTTCTGC---CA-AAAATGCACCATTATGCATCTAACTTG
* * * * *
83254 CATTAGTGGCACCTTTCTACCAAAAATGCACCGTTATGTATTTAACTTT
1 CATTAGTGGCACCTTTCTGCCAAAAATGCACCATTATGCATCTAACTTG
83303 CATT
1 CATT
83307 TTAGAGTAGT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
48 18 0.20
49 28 0.31
50 1 0.01
51 1 0.01
52 13 0.14
53 29 0.32
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (49 bp):
CATTAGTGGCACCTTTCTGCCAAAAATGCACCATTATGCATCTAACTTG
Found at i:83299 original size:49 final size:49
Alignment explanation
Indices: 83128--83306 Score: 182
Period size: 49 Copynumber: 3.6 Consensus size: 49
83118 TTTATGCCGC
* * * * *
83128 AATGCACCGTTATACATTTAA-TTATCATTAGTGGCACCTTTATGCCAAA
1 AATGCACCATTATGCATTTAACTT-GCATTAGTGGCACCTTTCTACCAAA
* * * **
83177 AATGCACCATT-TTCATCTAACTTGCATTAGTGGCACATTTCTGCAAAAACAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCT---ACCA-AA
83229 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTACCAAA
1 AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTACCAAA
* * *
83278 AATGCACCGTTATGTATTTAACTTTCATT
1 AATGCACCATTATGCATTTAACTTGCATT
83307 TTAGAGTAGT
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
48 23 0.21
49 40 0.37
50 2 0.02
51 1 0.01
52 13 0.12
53 28 0.26
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (49 bp):
AATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTACCAAA
Found at i:89976 original size:49 final size:48
Alignment explanation
Indices: 89870--90129 Score: 288
Period size: 49 Copynumber: 5.3 Consensus size: 48
89860 AACCGTTATA
* ***
89870 CATTTAA-TTGTCATTAGTGGCATCTTTCTGCCAAAAATGCACCATTTTT
1 CATTTAACTTG-CATTAGT-GCACCTTTCTGCCAAAAATGCACCATTAGG
* * *
89919 CATCTAACTTGCATCAGTCGCACCTTTTTGCCAAAAATGCACCATTAGG
1 CATTTAACTTGCATTAGT-GCACCTTTCTGCCAAAAATGCACCATTAGG
* * *
89968 GATTTAACTTGCATTAGTGACACCTTTCTGTCAAAAATGCACCGTTAGG
1 CATTTAACTTGCATTAGTG-CACCTTTCTGCCAAAAATGCACCATTAGG
* * * ***
90017 CATTTAACTTGCATTAGTGGCATCTTTCTGCAAAAAATGTACCATTTTT
1 CATTTAACTTGCATTAGT-GCACCTTTCTGCCAAAAATGCACCATTAGG
* *
90066 CATCTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCACCGTTAGG
1 CATTTAACTTGCATTAGTG-CACCTTTCTGCCAAAAATGCACCATTAGG
*
90115 CATTTAACTTCCATT
1 CATTTAACTTGCATT
90130 TTAGAGTAGT
Statistics
Matches: 174, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
48 2 0.01
49 168 0.97
50 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (48 bp):
CATTTAACTTGCATTAGTGCACCTTTCTGCCAAAAATGCACCATTAGG
Found at i:90108 original size:147 final size:147
Alignment explanation
Indices: 89856--90129 Score: 426
Period size: 147 Copynumber: 1.9 Consensus size: 147
89846 TTTATGCTGG
* *
89856 AATGAACCGTTATACATTTAATTGTCATTAGTGGCATCTTTCTGCCAAAAATGCACCATTTTTCA
1 AATGAACCGTTAGACATTTAATTGTCATTAGTGGCATCTTTCTGCAAAAAATGCACCATTTTTCA
* * *
89921 TCTAACTTGCATCAGTCGCACCTTTTTGCCAAAAATGCACCATTAGGGATTTAACTTGCATTAGT
66 TCTAACTTGCATCAGTCGCACCTTTCTGCCAAAAATGCACCATTAGGCATTTAACTTCCATTAGT
89986 GACACCTTTCTGTCAAA
131 GACACCTTTCTGTCAAA
* * *
90003 AATGCACCGTTAGGCATTTAACTTG-CATTAGTGGCATCTTTCTGCAAAAAATGTACCATTTTTC
1 AATGAACCGTTAGACATTTAA-TTGTCATTAGTGGCATCTTTCTGCAAAAAATGCACCATTTTTC
* *
90067 ATCTAACTTGCATTAGT-GACACCTTTCTGCCAAAAATGCACCGTTAGGCATTTAACTTCCATT
65 ATCTAACTTGCATCAGTCG-CACCTTTCTGCCAAAAATGCACCATTAGGCATTTAACTTCCATT
90130 TTAGAGTAGT
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
146 1 0.01
147 111 0.97
148 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (147 bp):
AATGAACCGTTAGACATTTAATTGTCATTAGTGGCATCTTTCTGCAAAAAATGCACCATTTTTCA
TCTAACTTGCATCAGTCGCACCTTTCTGCCAAAAATGCACCATTAGGCATTTAACTTCCATTAGT
GACACCTTTCTGTCAAA
Found at i:94265 original size:23 final size:23
Alignment explanation
Indices: 94143--94259 Score: 128
Period size: 23 Copynumber: 5.1 Consensus size: 23
94133 GGTTCTACGC
*
94143 GGTCCTTCAGGACATTTCTACGT
1 GGTCCTTCAGGACATTTCTATGT
*
94166 GGTCCTTCAGGACAATTCTATGT
1 GGTCCTTCAGGACATTTCTATGT
* * * *
94189 GGTCATTCGGGACAATACTATGT
1 GGTCCTTCAGGACATTTCTATGT
* *
94212 GGTCCTTCGGGATATATT-TATGT
1 GGTCCTTCAGGACAT-TTCTATGT
* *
94235 GGTCCTTCTGGACATTTCTACGT
1 GGTCCTTCAGGACATTTCTATGT
94258 GG
1 GG
94260 CACTTCGGTG
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
22 2 0.03
23 77 0.96
24 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (23 bp):
GGTCCTTCAGGACATTTCTATGT
Found at i:94266 original size:46 final size:46
Alignment explanation
Indices: 94143--94267 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
94133 GGTTCTACGC
*
94143 GGTCCTTCAGGACATTTCTACGTGGTCCTTCAGGACAATTCTATGT
1 GGTCCTTCAGGACATTTCTACGTGGTCCTTCGGGACAATTCTATGT
* * * * * *
94189 GGTCATTCGGGACAATACTATGTGGTCCTTCGGGATATATT-TATGT
1 GGTCCTTCAGGACATTTCTACGTGGTCCTTCGGGACA-ATTCTATGT
*
94235 GGTCCTTCTGGACATTTCTACGTGG-CACTTCGG
1 GGTCCTTCAGGACATTTCTACGTGGTC-CTTCGG
94268 TGCAATTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 1 0.02
46 61 0.94
47 3 0.05
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (46 bp):
GGTCCTTCAGGACATTTCTACGTGGTCCTTCGGGACAATTCTATGT
Found at i:97459 original size:155 final size:159
Alignment explanation
Indices: 97157--97487 Score: 429
Period size: 155 Copynumber: 2.1 Consensus size: 159
97147 ATAACAACAT
* *
97157 AATTCAGTAATATAACAGACCATAGAATGATGTTTTTGACAAATTTTAATGAAAAATGTCTTTTT
1 AATTCAGTGATATATCAGACCATAGAATGATGTTTTTGACAAATTTTAATGAAAAATGTCTTTTT
* * *
97222 TATTTTCTTTTCAGTGACCATTGAATAAACAATGACAAAATATTTTTAGTGCCCAATCACTTTAT
66 TATTTTCATTTCAGTGACCATTGAATAAACAATGACAAAATACTTTTAGTGCCCAATCACTTCAT
* *
97287 TTCTGATCTTTTCAGTGATATATCCCCTC
131 TTCTGAACTTTTCAGTGATATATCACCTC
* * * *
97316 GATTCAGTGATATATCAGACCATTGAATGAT-TTTTTGATAATTTTTAATGAAAAATGT-TTTTT
1 AATTCAGTGATATATCAGACCATAGAATGATGTTTTTGACAAATTTTAATGAAAAATGTCTTTTT
* * * * * *
97379 CT-TTTTCATTT-ATTGACCATTGAATGAAGAATGACAAAGT-CTTTTAGTTCCCAATTACTTCA
66 -TATTTTCATTTCAGTGACCATTGAATAAACAATGACAAAATACTTTTAGTGCCCAATCACTTCA
* *
97441 TTTCTGAACTTTTTAGTGATGTATCACCTC
130 TTTCTGAACTTTTCAGTGATATATCACCTC
* *
97471 AATTTAGTGTTATATCA
1 AATTCAGTGATATATCA
97488 TACCCTATCA
Statistics
Matches: 149, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
155 58 0.39
156 25 0.17
157 13 0.09
158 26 0.17
159 27 0.18
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (159 bp):
AATTCAGTGATATATCAGACCATAGAATGATGTTTTTGACAAATTTTAATGAAAAATGTCTTTTT
TATTTTCATTTCAGTGACCATTGAATAAACAATGACAAAATACTTTTAGTGCCCAATCACTTCAT
TTCTGAACTTTTCAGTGATATATCACCTC
Found at i:100091 original size:83 final size:83
Alignment explanation
Indices: 99952--100118 Score: 316
Period size: 83 Copynumber: 2.0 Consensus size: 83
99942 TTGCTTTCTT
*
99952 TTTCAACAATTGGGTGTGACCCTGTAGGTTCCTCTAACGTTAGTAGTAATAGTTAGAACTATTCT
1 TTTCAACAATTGGGTATGACCCTGTAGGTTCCTCTAACGTTAGTAGTAATAGTTAGAACTATTCT
100017 AATATTACAAAGAATGAG
66 AATATTACAAAGAATGAG
*
100035 TTTCAACAATTGGGTATGACCTTGTAGGTTCCTCTAACGTTAGTAGTAATAGTTAGAACTATTCT
1 TTTCAACAATTGGGTATGACCCTGTAGGTTCCTCTAACGTTAGTAGTAATAGTTAGAACTATTCT
100100 AATATTACAAAGAATGAG
66 AATATTACAAAGAATGAG
100118 T
1 T
100119 GACATCTAGC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (83 bp):
TTTCAACAATTGGGTATGACCCTGTAGGTTCCTCTAACGTTAGTAGTAATAGTTAGAACTATTCT
AATATTACAAAGAATGAG
Found at i:104590 original size:2 final size:2
Alignment explanation
Indices: 104583--104616 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
104573 CAAATCAAAC
104583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104617 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104621 original size:2 final size:2
Alignment explanation
Indices: 104616--104674 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
104606 TATATATATA
104616 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
104658 TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG T
104675 TTACGTATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:105039 original size:16 final size:16
Alignment explanation
Indices: 105018--105054 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
105008 AAGTTCATTA
105018 AATATATTAA-CATATT
1 AATATATTAACCA-ATT
105034 AATATATTAACCAATT
1 AATATATTAACCAATT
105050 AATAT
1 AATAT
105055 TTGTTATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATATTAACCAATT
Found at i:115604 original size:54 final size:54
Alignment explanation
Indices: 115503--115653 Score: 216
Period size: 54 Copynumber: 2.8 Consensus size: 54
115493 CAAAATGGAA
* * * *
115503 ATTCACAAACTTATTATGAA-TCCAT-GGATTGCACACATAGTGCCGATACGGTC
1 ATTCAAAAACTCATTATAAATTCCATCGG-TTGCACACATAGTGTCGATACGGTC
115556 ATTCAAAAACTCATTATAAATTCCATCGGTTGCACACATAGTGTCGATACGGTC
1 ATTCAAAAACTCATTATAAATTCCATCGGTTGCACACATAGTGTCGATACGGTC
* * *
115610 ATTCATAAACTCATTACAAATTCCGTCGGTTGCACACATAGTGT
1 ATTCAAAAACTCATTATAAATTCCATCGGTTGCACACATAGTGT
115654 TGAAAGTACA
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 17 0.19
54 70 0.79
55 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (54 bp):
ATTCAAAAACTCATTATAAATTCCATCGGTTGCACACATAGTGTCGATACGGTC
Found at i:120878 original size:19 final size:19
Alignment explanation
Indices: 120854--120945 Score: 98
Period size: 19 Copynumber: 4.6 Consensus size: 19
120844 ATCTAATTTT
120854 GGTATCGATACCGGTAGAG
1 GGTATCGATACCGGTAGAG
120873 GGTATCGATACCGGTAGAG
1 GGTATCGATACCGGTAGAG
* *
120892 GGTATCAATACC-ATAGTAGG
1 GGTATCGATACCGGTAG-A-G
120912 GTAGTATCGATACCACGGTA-AG
1 G--GTATCGATA-C-CGGTAGAG
120934 GGTATCGATACC
1 GGTATCGATACC
120946 AGACAATATC
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
18 4 0.06
19 32 0.52
20 11 0.18
22 10 0.16
23 2 0.03
24 1 0.02
25 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (19 bp):
GGTATCGATACCGGTAGAG
Found at i:120913 original size:38 final size:40
Alignment explanation
Indices: 120854--120946 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 40
120844 ATCTAATTTT
*
120854 GGTATCGATACCGGTAGA-GG-GTATCGATA-C-CGGTAGAG
1 GGTATCGATACC-ATAGAGGGAGTATCGATACCACGGTA-AG
*
120892 GGTATCAATACCATAGTAGGGTAGTATCGATACCACGGTAAG
1 GGTATCGATACCATAG-AGGG-AGTATCGATACCACGGTAAG
120934 GGTATCGATACCA
1 GGTATCGATACCA
120947 GACAATATCG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
37 3 0.07
38 12 0.26
39 2 0.04
41 9 0.20
42 15 0.33
43 5 0.11
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (40 bp):
GGTATCGATACCATAGAGGGAGTATCGATACCACGGTAAG
Found at i:121809 original size:45 final size:45
Alignment explanation
Indices: 121490--121796 Score: 420
Period size: 45 Copynumber: 6.8 Consensus size: 45
121480 AAAGGATGCC
* *
121490 ATAGTTGAAATGTATATGGGCACATTATCAATAGAAAAGTATACG
1 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACT
* *
121535 ATAGTTGAAATGTATATGGGTACATTATCAA-AAAAAAGTATACA
1 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACT
* * * *
121579 ATAGTTGAAATGCATATGGGTGCATTGTCAATAGAAAAGTATGCT
1 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACT
*
121624 AGAGTTGAAATGTATATGGGTACATTATCAACT-GAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAA-TAGAAAAGTATACT
* * *
121669 ATAGTTGAAATGTATATGTGTACGTTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACT
* * * *
121714 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATATT
1 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACT
* * *
121759 ATAGTTGAAATGCATATGGGTGCAATATCAATAGAAAA
1 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAA
121797 ATATGTTATA
Statistics
Matches: 234, Mismatches: 25, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
44 39 0.17
45 194 0.83
46 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (45 bp):
ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACT
Found at i:121809 original size:135 final size:134
Alignment explanation
Indices: 121490--121796 Score: 463
Period size: 135 Copynumber: 2.3 Consensus size: 134
121480 AAAGGATGCC
* *
121490 ATAGTTGAAATGTATATGGGCACATTATCAATAGAAAAGTATACGATAGTTGAAATGTATATGGG
1 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACTATAGTTGAAATGTATATGGG
* *
121555 TACATTATCAAAAAAAAGTATACAATAGTTGAAATGCATATGGGTGCATTGTCAATAGAAAAGTA
66 TACATTATCAAAAAAAAGTATACAATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTA
*
121620 TGCT
131 TACT
* *
121624 AGAGTTGAAATGTATATGGGTACATTATCAACT-GAAAAGTATACTATAGTTGAAATGTATATGT
1 ATAGTTGAAATGTATATGGGTACATTATCAA-TAGAAAAGTATACTATAGTTGAAATGTATATGG
* * *
121688 GTACGTTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
65 GTACATTATCAA-AAAAAAGTATACAATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG
*
121753 TATATT
129 TATACT
* * *
121759 ATAGTTGAAATGCATATGGGTGCAATATCAATAGAAAA
1 ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAA
121797 ATATGTTATA
Statistics
Matches: 155, Mismatches: 15, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
134 70 0.45
135 85 0.55
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (134 bp):
ATAGTTGAAATGTATATGGGTACATTATCAATAGAAAAGTATACTATAGTTGAAATGTATATGGG
TACATTATCAAAAAAAAGTATACAATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTA
TACT
Found at i:127486 original size:69 final size:69
Alignment explanation
Indices: 127404--127539 Score: 272
Period size: 69 Copynumber: 2.0 Consensus size: 69
127394 ACGCGTGAAA
127404 GAAACACACGTTAAGTATTTACTTAGTGAGATATAATACTGCAAGGATATTACTATTATATGCCA
1 GAAACACACGTTAAGTATTTACTTAGTGAGATATAATACTGCAAGGATATTACTATTATATGCCA
127469 ATCT
66 ATCT
127473 GAAACACACGTTAAGTATTTACTTAGTGAGATATAATACTGCAAGGATATTACTATTATATGCCA
1 GAAACACACGTTAAGTATTTACTTAGTGAGATATAATACTGCAAGGATATTACTATTATATGCCA
127538 AT
66 AT
127540 ATCTTATATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (69 bp):
GAAACACACGTTAAGTATTTACTTAGTGAGATATAATACTGCAAGGATATTACTATTATATGCCA
ATCT
Found at i:128111 original size:29 final size:29
Alignment explanation
Indices: 128062--128122 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
128052 AGTCCATTAT
* *
128062 TCTTTAACTCAACGGTGTTTAATCGTTCA
1 TCTTTAACTCAACAGTATTTAATCGTTCA
*
128091 TCTTTTACTCAACAGTATTTAATCGTTCA
1 TCTTTAACTCAACAGTATTTAATCGTTCA
128120 TCT
1 TCT
128123 AACTGGCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (29 bp):
TCTTTAACTCAACAGTATTTAATCGTTCA
Found at i:128523 original size:47 final size:47
Alignment explanation
Indices: 128464--128792 Score: 495
Period size: 47 Copynumber: 7.0 Consensus size: 47
128454 TTAATTTCAC
128464 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGCAT
*
128511 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCA-TCTTTTCATGTAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTC-TTTCATGCAT
*
128558 TTTTAGTTATGGCATCCTTTCATGCCTTAATGTA-TCATTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTC-TTTCATGCAT
* *
128605 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGTATT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGCA-T
*
128653 TTTATAGTTATGGCATCCTTTCATGCCTTAAAGCATAT-TTTCATGCAT
1 TTT-TAGTTATGGCATCCTTTCATGCCTTAATGCAT-TCTTTCATGCAT
* * *
128701 TTTTAGTTATGGCATTCTTTCATGCCTTAATTCATCCTTTCATGCAT
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGCAT
*
128748 TTTTAGTTATGGCATCCTTTCATGCCTTAATACA-TCTTTTCATGC
1 TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTC-TTTCATGC
128793 CAATAATGCA
Statistics
Matches: 258, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
46 3 0.01
47 207 0.80
48 9 0.03
49 39 0.15
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (47 bp):
TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGCAT
Found at i:128641 original size:20 final size:20
Alignment explanation
Indices: 128475--128648 Score: 87
Period size: 20 Copynumber: 7.7 Consensus size: 20
128465 TTTAGTTATG
128475 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
128495 GCATTCTTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
128521 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* **
128542 GCATCTTTTCATGTATTTTTAGTTAT
1 GCATCCTTTCATG---CCTTA---AT
128568 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* * *
128589 GTATCATTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
128615 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
128636 GCATCCTTTCATG
1 GCATCCTTTCATG
128649 TATTTTTATA
Statistics
Matches: 117, Mismatches: 16, Indels: 42
0.67 0.09 0.24
Matches are distributed among these distances:
20 50 0.43
21 6 0.05
23 9 0.08
24 9 0.08
26 6 0.05
27 37 0.32
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.46
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:129333 original size:20 final size:20
Alignment explanation
Indices: 129308--129363 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
129298 CGATGTTTTC
*
129308 TGGTATCGATACCCTTACTA
1 TGGTATCGATACCCATACTA
*
129328 TGGTATCAATACTACCATACTA
1 TGGTATCGATAC--CCATACTA
*
129350 TGGTACCGATACCC
1 TGGTATCGATACCC
129364 CCTTCTGGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (20 bp):
TGGTATCGATACCCATACTA
Found at i:129378 original size:95 final size:95
Alignment explanation
Indices: 129249--129438 Score: 274
Period size: 95 Copynumber: 2.0 Consensus size: 95
129239 CGATACTTCA
* * **
129249 ATACTATGGTACTGATACCCCCTTCCAGTATCAATACCAATTTTAGGTTCGATG-TTTTCTGGTA
1 ATACTATGGTACCGATACCCCCTTCCAGTATCAATACCAATTTTAGCTTCGATGATGCT-TGGTA
*
129313 TCGATACCCTTACTATGGTATCAATACTACC
65 TCGATACCCTTACCATGGTATCAATACTACC
** *
129344 ATACTATGGTACCGATACCCCCTTCTGGTGTCAATACCAATTTTAGCTTCGATGATGCTTGGTAT
1 ATACTATGGTACCGATACCCCCTTCCAGTATCAATACCAATTTTAGCTTCGATGATGCTTGGTAT
* *
129409 CGATACCTTTACCATGGTATCGATACTACC
66 CGATACCCTTACCATGGTATCAATACTACC
129439 TCGTCGGTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 82 0.98
96 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (95 bp):
ATACTATGGTACCGATACCCCCTTCCAGTATCAATACCAATTTTAGCTTCGATGATGCTTGGTAT
CGATACCCTTACCATGGTATCAATACTACC
Found at i:132817 original size:30 final size:31
Alignment explanation
Indices: 132761--132819 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
132751 AACCATTCAC
* *
132761 AACTTTTCCAAAATTATCAAATTGGTCCCTT
1 AACTTTTCAAAAATTATCAAAATGGTCCCTT
132792 AACTTTTCAAAAATTA-CAAAATGGTCCC
1 AACTTTTCAAAAATTATCAAAATGGTCCC
132820 CAAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (31 bp):
AACTTTTCAAAAATTATCAAAATGGTCCCTT
Found at i:132830 original size:31 final size:31
Alignment explanation
Indices: 132761--132828 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
132751 AACCATTCAC
* * **
132761 AACTTTTCCAAAATTATCAAATTGGTCCCTT
1 AACTTTTCAAAAATTATCAAAATGGTCCCCA
132792 AACTTTTCAAAAATTA-CAAAATGGTCCCCA
1 AACTTTTCAAAAATTATCAAAATGGTCCCCA
*
132822 AATTTTT
1 AACTTTT
132829 TCTAAGGCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (31 bp):
AACTTTTCAAAAATTATCAAAATGGTCCCCA
Found at i:133553 original size:31 final size:31
Alignment explanation
Indices: 133518--133579 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
133508 TAATTACCAT
* *
133518 CAAACCAAGACATCTCAATCTTATCATCTTC
1 CAAACCAAGACAACTCAACCTTATCATCTTC
133549 CAAACCAAGACAACTCAACCTTATCATCTTC
1 CAAACCAAGACAACTCAACCTTATCATCTTC
133580 TTAAAGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.34, G:0.03, T:0.26
Consensus pattern (31 bp):
CAAACCAAGACAACTCAACCTTATCATCTTC
Found at i:134187 original size:56 final size:56
Alignment explanation
Indices: 134094--134215 Score: 154
Period size: 56 Copynumber: 2.2 Consensus size: 56
134084 CTAAAGTGTT
* * * * *
134094 TTGTTACATTGGTAGATCAAAGTTCGAATATCGTTGTAGTGTCTTAACTTATCCAAG
1 TTGTTACA-TGATAGATCAAAGTTCGAATAGCATTGTAATGTCTTAACTTATCCAAA
** * *
134151 TTGTTACATGATAGATTGAAGTTTGAATAGCATTGTAATTTCTTAACTTATCCAAA
1 TTGTTACATGATAGATCAAAGTTCGAATAGCATTGTAATGTCTTAACTTATCCAAA
134207 TTGTTACAT
1 TTGTTACAT
134216 TCAACGCCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
56 48 0.86
57 8 0.14
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (56 bp):
TTGTTACATGATAGATCAAAGTTCGAATAGCATTGTAATGTCTTAACTTATCCAAA
Found at i:134466 original size:93 final size:93
Alignment explanation
Indices: 134353--134600 Score: 286
Period size: 93 Copynumber: 2.7 Consensus size: 93
134343 ACTTGGACAA
* ** * *
134353 GTTAAGACATTACAACGTTATTCAAACTTTTACCTATTAATATAACAACTTGGATAAGTTAAACT
1 GTTAAGACATTACAATGTTATTCAAACTTCCACATATCAATATAACAACTTGGATAAGTTAAACT
*
134418 CTTTAGTTCATAAACAGCAAAGTT-TTTC
66 CTTTAATTCATAAACAGCAAA-TTATTTC
* * * * *
134446 GTTAAAACATTACAATGTTATTAAAACTTCCATATATCAATGTAACAACTTGGATAAGTTAAATT
1 GTTAAGACATTACAATGTTATTCAAACTTCCACATATCAATATAACAACTTGGATAAGTTAAACT
* * *
134511 CTTTAATTCGTAAACATCAAATTATTTT
66 CTTTAATTCATAAACAGCAAATTATTTC
* * * *
134539 GTTAAGACATTACAAT-TCTATTCAAAATTCCATCA-ATCAATGTAATAACTTCGATAAGTTAA
1 GTTAAGACATTACAATGT-TATTCAAACTTCCA-CATATCAATATAACAACTTGGATAAGTTAA
134601 GACATTACAG
Statistics
Matches: 132, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
92 3 0.02
93 128 0.97
94 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (93 bp):
GTTAAGACATTACAATGTTATTCAAACTTCCACATATCAATATAACAACTTGGATAAGTTAAACT
CTTTAATTCATAAACAGCAAATTATTTC
Found at i:134721 original size:84 final size:85
Alignment explanation
Indices: 134613--134781 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 85
134603 CATTACAGTG
134613 ATATTCAAACGTCCATCTATCAATATAGCAACTAGGAAGTTTGAATATCATTGTAATGTTTTAAA
1 ATATTCAAACGTCCATCTATCAATATAGCAACTAGGAAGTTTGAATATCATTGTAATGTTTTAAA
134678 TTATCCAAATGTAACAAATT
66 TTATCCAAATGTAACAAATT
134698 ATATTC-AACGTCCATCTATCAATATAGCAACTAGGAAGTTTGAATATCATTGTAATGTTTTAAA
1 ATATTCAAACGTCCATCTATCAATATAGCAACTAGGAAGTTTGAATATCATTGTAATGTTTTAAA
134762 TTATCCAAATGTAACAAATT
66 TTATCCAAATGTAACAAATT
134782 GGATGAATTA
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 78 0.93
85 6 0.07
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (85 bp):
ATATTCAAACGTCCATCTATCAATATAGCAACTAGGAAGTTTGAATATCATTGTAATGTTTTAAA
TTATCCAAATGTAACAAATT
Found at i:137832 original size:57 final size:57
Alignment explanation
Indices: 137756--137949 Score: 203
Period size: 57 Copynumber: 3.4 Consensus size: 57
137746 TTATCTTTGG
* * * * * *
137756 ATGTAACAAGTTGGATAAG-TAAAATCATTACAATGGTATTGAAACTTCAATCTATCA
1 ATGTAACAACTTGGATAAGTTAAGA-CATTACAAAGCTATTAAAACTTCCATCTATCA
* * *
137813 ATGTAACAACTTGGGTAAGTTAAGACATTACAACA-CTATTTAAACTTCCATCAATCA
1 ATGTAACAACTTGGATAAGTTAAGACATTACAA-AGCTATTAAAACTTCCATCTATCA
* * * * * *
137870 ATGTATCTACTTGGATAAGTTAAGACATTACAAAGTTATTAAAACATCCATCTTTGA
1 ATGTAACAACTTGGATAAGTTAAGACATTACAAAGCTATTAAAACTTCCATCTATCA
* *
137927 ATATAACAACTTGGATAGGTTAA
1 ATGTAACAACTTGGATAAGTTAA
137950 ACTCTTATGT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
56 1 0.01
57 108 0.96
58 4 0.04
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (57 bp):
ATGTAACAACTTGGATAAGTTAAGACATTACAAAGCTATTAAAACTTCCATCTATCA
Found at i:138047 original size:93 final size:93
Alignment explanation
Indices: 137888--138135 Score: 304
Period size: 93 Copynumber: 2.7 Consensus size: 93
137878 ACTTGGATAA
* * * * * * *
137888 GTTAAGACATTACAAAGTTATTAAAACATCCATCTTTGAATATAACAACTTGGATAGGTTAAACT
1 GTTAAGACATTACAACGTTATTCAAACTTACATCTTTGAATGTAAGAACTTGGATAAGTTAAACT
* ** *
137953 C-TTATGTTCCTAAACATCAAAGTGTTTT
66 CTTTA-CTTAATAAACATCAAAGTATTTT
* * *
137981 GTTAAGACATTACAACGTTGTTCAAACTTTCATCTTTGAATGTAAGAACTTGGATAAGTTGAACT
1 GTTAAGACATTACAACGTTATTCAAACTTACATCTTTGAATGTAAGAACTTGGATAAGTTAAACT
138046 CTTTACTTAATAAACATCAAAGTATTTT
66 CTTTACTTAATAAACATCAAAGTATTTT
* *
138074 GTTAAGACATTACAACGCTATTCAAACTTACAT-TTATCAATGTAAGAACTCTGG-TAAGTTAA
1 GTTAAGACATTACAACGTTATTCAAACTTACATCTT-TGAATGTAAGAACT-TGGATAAGTTAA
138136 GACCTTACAA
Statistics
Matches: 134, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
92 2 0.01
93 126 0.94
94 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (93 bp):
GTTAAGACATTACAACGTTATTCAAACTTACATCTTTGAATGTAAGAACTTGGATAAGTTAAACT
CTTTACTTAATAAACATCAAAGTATTTT
Found at i:138188 original size:55 final size:57
Alignment explanation
Indices: 138074--138201 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 57
138064 AAAGTATTTT
*
138074 GTTAAGACATTACAACGCTATTCAAACTTACATTTATCAATGTAAGAACTCTGGTAA
1 GTTAAGACATTACAACGCTATTCAAACTTACATTTATCAATATAAGAACTCTGGTAA
* * * * *
138131 GTTAAGACCTTACAA-GGTATT-AAACTTTCATATT-TGAATATAATAACT-TGGGTAA
1 GTTAAGACATTACAACGCTATTCAAACTTACAT-TTATCAATATAAGAACTCT-GGTAA
*
138186 GTTATGACATTACAAC
1 GTTAAGACATTACAAC
138202 AATGTTTAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
54 1 0.02
55 38 0.63
56 7 0.12
57 14 0.23
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (57 bp):
GTTAAGACATTACAACGCTATTCAAACTTACATTTATCAATATAAGAACTCTGGTAA
Found at i:138337 original size:57 final size:56
Alignment explanation
Indices: 138243--138361 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 56
138233 ACCAAAGAGT
* *
138243 TTAACTTGTCCAAGTTGTTACATTTAAAGATAAAAGTTTGAATAACGTTGTAATGTA
1 TTAACTTATCCAAGTTGTTACATTTAAAGA-AAAAGTTTGAATAACATTGTAATGTA
** * *
138300 TTAACTTATCCAAGTTGTTACATTGATAAAG-GGAAGTTTGAATAGCATTGTAATGTC
1 TTAACTTATCCAAGTTGTTACATT--TAAAGAAAAAGTTTGAATAACATTGTAATGTA
138357 TTAAC
1 TTAAC
138362 CAAACACTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
57 49 0.91
59 5 0.09
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (56 bp):
TTAACTTATCCAAGTTGTTACATTTAAAGAAAAAGTTTGAATAACATTGTAATGTA
Found at i:138726 original size:91 final size:89
Alignment explanation
Indices: 138454--138728 Score: 277
Period size: 93 Copynumber: 3.0 Consensus size: 89
138444 AATGTCTTAA
* * *
138454 CACAAACTAAAGAGTTTAACTTGTCCAAGTTA-ACACAATCAAAGATGGAAGTTTGAATTTCG-T
1 CACAAACTAAAGAGTTTAACTTATCCAAGTTATACAC--TCAAAGAT-GAAATTTGAATTGCGTT
*
138517 AGTAATATCTTAACAAAAGACTCTGATGTT
63 A-TAATATCTTAACAAAA-ACTTTGATG-T
* * * *
138547 TACAAACGAAAGAGTTTAACTTATCCAAG-TAGTTACATTCAAAGATGAAATCTTGAATAGCGTT
1 CACAAACTAAAGAGTTTAACTTATCCAAGTTA--TACACTCAAAGATGAAAT-TTGAATTGCGTT
* *
138611 GTAATATCTTAACAAAAACATTGATGT
63 ATAATATCTTAACAAAAACTTTGATGT
** * * * *
138638 CATGAACTAAAGAGTTTAACTTATCTAAGTTATACACTGATAGATAGAAATTTGAATTGAGTTAT
1 CACAAACTAAAGAGTTTAACTTATCCAAGTTATACACTCAAAGAT-GAAATTTGAATTGCGTTAT
*
138703 AATAACTTAACAAAACACTTTGATGT
65 AATATCTTAACAAAA-ACTTTGATGT
138729 TTATGTTATT
Statistics
Matches: 151, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
90 35 0.23
91 39 0.26
92 15 0.10
93 58 0.38
94 1 0.01
95 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (89 bp):
CACAAACTAAAGAGTTTAACTTATCCAAGTTATACACTCAAAGATGAAATTTGAATTGCGTTATA
ATATCTTAACAAAAACTTTGATGT
Found at i:138988 original size:148 final size:150
Alignment explanation
Indices: 138753--139132 Score: 450
Period size: 148 Copynumber: 2.5 Consensus size: 150
138743 TCAAACATGG
* * * *
138753 AAGTTTGAATAGTGTTGTAATGTCTTAAGAAAATACTTTGATATTTACGAACTAAAA-AGTTTAA
1 AAGTTTGAATAGTGTAGTAATGTCTTAACAAAACACTTTGATGTTTACGAAC-AAAAGAGTTTAA
* * * *
138817 CCTATCTAAGTTGTTACATTCAAAAAT-AGAAGTTAT-AATAGCGTTTTAATGGATTAAGTTATC
65 CTTATCTAAGTTGTTACACTCAAAAATGA-AAGTT-TGAATAGCGTTGTAATGGATTAACTTATC
*
138880 CAAATTGTTACATT-AATAGATAT
128 CAAATTGTTACATTCAA-AGATAC
* * *
138903 AAGTTTGAATAGTGTAGTAATGCCTT-A-AAAACACTTTAATGTTTACGAACAAAAGGGTTTAAC
1 AAGTTTGAATAGTGTAGTAATGTCTTAACAAAACACTTTGATGTTTACGAACAAAAGAGTTTAAC
* * ** *
138966 TTATCTAAGTTGTTACACTCAAAGATGAAAGTTTGAATAGTGTTGTAATGTCTTAACTTATCCTA
66 TTATCTAAGTTGTTACACTCAAAAATGAAAGTTTGAATAGCGTTGTAATGGATTAACTTATCCAA
* *
139031 GTTGTTACATTCAAAGATGC
131 ATTGTTACATTCAAAGATAC
* * * *
139051 AAGTTTGAATAGTGATA-TAATATCTTAACAAAACACTTTGATGCTTACAAACTAAAGAGTTTAA
1 AAGTTTGAATAGTG-TAGTAATGTCTTAACAAAACACTTTGATGTTTACGAACAAAAGAGTTTAA
*
139115 CTTATCCAAGTTGTTACA
65 CTTATCTAAGTTGTTACA
139133 TTCATAGATG
Statistics
Matches: 197, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
147 5 0.03
148 114 0.58
149 7 0.04
150 71 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (150 bp):
AAGTTTGAATAGTGTAGTAATGTCTTAACAAAACACTTTGATGTTTACGAACAAAAGAGTTTAAC
TTATCTAAGTTGTTACACTCAAAAATGAAAGTTTGAATAGCGTTGTAATGGATTAACTTATCCAA
ATTGTTACATTCAAAGATAC
Found at i:139049 original size:57 final size:57
Alignment explanation
Indices: 138961--139079 Score: 177
Period size: 57 Copynumber: 2.1 Consensus size: 57
138951 ACAAAAGGGT
* * *
138961 TTAACTTATCTAAGTTGTTACACTCAAAGATGAAAGTTTGAATAGTGTTGTAATGTC
1 TTAACTTATCTAAGTTGTTACACTCAAAGATGAAAGTTTGAATAGTGATATAATATC
* *
139018 TTAACTTATCCT-AGTTGTTACATTCAAAGATGCAAGTTTGAATAGTGATATAATATC
1 TTAACTTAT-CTAAGTTGTTACACTCAAAGATGAAAGTTTGAATAGTGATATAATATC
139075 TTAAC
1 TTAAC
139080 AAAACACTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 54 0.96
58 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (57 bp):
TTAACTTATCTAAGTTGTTACACTCAAAGATGAAAGTTTGAATAGTGATATAATATC
Found at i:139222 original size:57 final size:57
Alignment explanation
Indices: 139154--139373 Score: 239
Period size: 57 Copynumber: 3.9 Consensus size: 57
139144 AATTTTGAAT
* * *
139154 AATGCAATTCAAACTTTTAACTATCAATGTAACAACTTGGATAAGTTAAGACATTAC
1 AATGCTATTCAAACTTTCAACTATAAATGTAACAACTTGGATAAGTTAAGACATTAC
* * * *
139211 AATGCTATTCAAAC-TTCAATCTATTAATGTAACAACTAGGATAGGTGAAGACATTAC
1 AATGCTATTCAAACTTTCAA-CTATAAATGTAACAACTTGGATAAGTTAAGACATTAC
* * * * * * * *
139268 AACGCTATTCAAACTTCCATA-TTTGAATATAACAAGTTGGATAAGTAAAGAAATTGA-
1 AATGCTATTCAAACTTTCA-ACTATAAATGTAACAACTTGGATAAGTTAAGACATT-AC
* *
139325 AATGCTATTCAAACTTTCATCTTTAAATGTAACAACTTGGATAAGTTAA
1 AATGCTATTCAAACTTTCAACTATAAATGTAACAACTTGGATAAGTTAA
139374 CTCTTTAGTT
Statistics
Matches: 135, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
56 4 0.03
57 126 0.93
58 4 0.03
59 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (57 bp):
AATGCTATTCAAACTTTCAACTATAAATGTAACAACTTGGATAAGTTAAGACATTAC
Found at i:139490 original size:91 final size:91
Alignment explanation
Indices: 139330--139564 Score: 310
Period size: 91 Copynumber: 2.5 Consensus size: 91
139320 ATTGAAATGC
* * *
139330 TATTCAAACTTTCATCTTTAAATGTAACAACTTGGATAAGTTAACTCTTTAGTTCGCAAAATTCA
1 TATTCAAACTTCCATC-TTAAATGTAACAACTTGGATAAGTAAACTCTTTACTTCGCAAAATTCA
139395 AAGTGTTTTGTTAAGACATTACAACGA
65 AAGTGTTTTGTTAAGACATTACAACGA
* ** *
139422 TATTCAAACTTCCATCTTGAATGTAACAACTTGGATAAGTAAAACTCTTTACTTCGTTAAA-TCT
1 TATTCAAACTTCCATCTTAAATGTAACAACTTGGATAAGT-AAACTCTTTACTTCGCAAAATTCA
* *
139486 AAGTGTTTTGTTAAGACATTACAATGC
65 AAGTGTTTTGTTAAGACATTACAACGA
* * * *
139513 TATTCAAACTTCCATATTTATATTTAACAACTTGGATAAGTTAAGCTCTTTA
1 TATTCAAACTTCCAT-CTTAAATGTAACAACTTGGATAAG-TAAACTCTTTA
139565 GTTCATAAAC
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
91 65 0.52
92 60 0.48
93 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (91 bp):
TATTCAAACTTCCATCTTAAATGTAACAACTTGGATAAGTAAACTCTTTACTTCGCAAAATTCAA
AGTGTTTTGTTAAGACATTACAACGA
Found at i:140821 original size:12 final size:13
Alignment explanation
Indices: 140788--140825 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
140778 CTTTTATTAT
140788 TAAATTATATTATAA
1 TAAATTAT-TT-TAA
140803 TAAATTATTTTAA
1 TAAATTATTTTAA
140816 -AAATTATTTT
1 TAAATTATTTT
140826 TTAAACGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 3 0.13
14 2 0.09
15 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAAATTATTTTAA
Found at i:149202 original size:7 final size:7
Alignment explanation
Indices: 149190--149216 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
149180 TTAAATTAGA
149190 CCTAAAC
1 CCTAAAC
149197 CCTAAAC
1 CCTAAAC
149204 CCTAAAC
1 CCTAAAC
149211 CCTAAA
1 CCTAAA
149217 GCATAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAAAC
Found at i:152455 original size:167 final size:166
Alignment explanation
Indices: 152228--152544 Score: 451
Period size: 167 Copynumber: 1.9 Consensus size: 166
152218 TTTATATGTA
* * * *
152228 TAAAAATGCCTTTATAATGGTTTTGTTGAACTGGGAGTTAAATTGGAGATATCTCTAATATTGTA
1 TAAAAATGCATTTATAATGGTTTTGTTGAAAT-GGAGTGAAATTGGAGATATCTCTAATATTATA
* * *
152293 GTGAACATTGA-TGTTTCCTTTTAGTGTGATTCAGTTAAATCCCCTATAGTAAAATTTAGAAACT
65 GTGAACATTGACT-TTTCCTATTAATGTGAATCAGTTAAATCCCCTATAGTAAAATTTAGAAACT
* * *
152357 TCAGTTTTAGATTAGTATCTTCATGTGATATGATTCAGT
129 GCA-ATTTAGATCAGTATCTTCATGTGATATGATTCAGT
152396 TAAACAATGCATTTATAATGGTTTTGTTGAAAT-GAGTGAAATTGGAGATAT-TGCTAATATTAT
1 TAAA-AATGCATTTATAATGGTTTTGTTGAAATGGAGTGAAATTGGAGATATCT-CTAATATTAT
* * *
152459 AGTGTACATTGACTTTTCCTATTAATGTGAATCAGTTAAATCCTCTGTAGTAAAATTTAGAAACT
64 AGTGAACATTGACTTTTCCTATTAATGTGAATCAGTTAAATCCCCTATAGTAAAATTTAGAAACT
152524 GCAATTTAGATCAGTATCTTC
129 GCAATTTAGATCAGTATCTTC
152545 CTGATTAAAA
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
166 17 0.13
167 85 0.64
168 5 0.04
169 26 0.20
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (166 bp):
TAAAAATGCATTTATAATGGTTTTGTTGAAATGGAGTGAAATTGGAGATATCTCTAATATTATAG
TGAACATTGACTTTTCCTATTAATGTGAATCAGTTAAATCCCCTATAGTAAAATTTAGAAACTGC
AATTTAGATCAGTATCTTCATGTGATATGATTCAGT
Found at i:167910 original size:49 final size:50
Alignment explanation
Indices: 167833--167929 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 50
167823 TCCTGATGTG
* * **
167833 ATAAAAATTATATTTTATTGGAATTCGTCTTCTCGATGTGACGAGTTTGA
1 ATAAAAATTATATTTTATTAGAACTCGTCACCTCGATGTGACGAGTTTGA
*
167883 ATAAAAA-TATTTTTTATTAGAACTCGTCACCTCGATGTGACGAGTTT
1 ATAAAAATTATATTTTATTAGAACTCGTCACCTCGATGTGACGAGTTT
167930 CTTGAACACT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 35 0.83
50 7 0.17
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (50 bp):
ATAAAAATTATATTTTATTAGAACTCGTCACCTCGATGTGACGAGTTTGA
Found at i:168980 original size:19 final size:20
Alignment explanation
Indices: 168958--169000 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
168948 CTTGAAAACA
*
168958 CATG-TTTTTAATGAAGATT
1 CATGATTTTTAATGAAGAAT
168977 CATGATTTTTAATGAAGAAT
1 CATGATTTTTAATGAAGAAT
168997 CATG
1 CATG
169001 CCTTGGCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (20 bp):
CATGATTTTTAATGAAGAAT
Found at i:170382 original size:42 final size:42
Alignment explanation
Indices: 170319--170413 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
170309 TTCCCCGAAA
* * * **
170319 TCCCGTGCTTGTTTCATGTAATTCGTTTTTTGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
170361 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
*
170403 TCCAGTGTTTG
1 TCCCGTGTTTG
170414 GTTGGAGGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
Found at i:170671 original size:53 final size:53
Alignment explanation
Indices: 170612--170722 Score: 131
Period size: 53 Copynumber: 2.1 Consensus size: 53
170602 TTTTCATTAA
*
170612 AATATTA-ATTATTAA-ATTAT-TTAAAATATATTC-ATTAATATTTATAATAATAT
1 AATATTATATTATTAATATTATAATAAAATA-A-TCAATT-ATA-TTATAATAATAT
* *
170665 AATATTATATTTTTAATATTATAATAAAATAATCAATTATATTATAGTAATAT
1 AATATTATATTATTAATATTATAATAAAATAATCAATTATATTATAATAATAT
170718 AATAT
1 AATAT
170723 AAGATATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
53 23 0.45
54 12 0.24
55 9 0.18
56 7 0.14
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (53 bp):
AATATTATATTATTAATATTATAATAAAATAATCAATTATATTATAATAATAT
Found at i:170674 original size:22 final size:22
Alignment explanation
Indices: 170649--170690 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
170639 ATATTCATTA
170649 ATATTTATAATAATATAATATT
1 ATATTTATAATAATATAATATT
* *
170671 ATATTTTTAATATTATAATA
1 ATATTTATAATAATATAATA
170691 AAATAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATTTATAATAATATAATATT
Found at i:170743 original size:23 final size:24
Alignment explanation
Indices: 170717--170769 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
170707 TATAGTAATA
*
170717 TAATATAAGATATTAT-ATTTTTT
1 TAATATAAGATATAATAATTTTTT
*
170740 TAATA-AATATATAATAATTTTTT
1 TAATATAAGATATAATAATTTTTT
170763 TATATAT
1 TA-ATAT
170770 TTAATAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 8 0.32
23 14 0.56
24 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TAATATAAGATATAATAATTTTTT
Found at i:170760 original size:22 final size:23
Alignment explanation
Indices: 170717--170768 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
170707 TATAGTAATA
* *
170717 TAATATAAGATATTATATTTTTT
1 TAATATAAGATATAATAATTTTT
*
170740 TAATA-AATATATAATAATTTTT
1 TAATATAAGATATAATAATTTTT
*
170762 TTATATA
1 TAATATA
170769 TTTAATAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TAATATAAGATATAATAATTTTT
Found at i:170855 original size:23 final size:23
Alignment explanation
Indices: 170829--170873 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
170819 AATAATATTT
170829 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
** * *
170852 TAATTTATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
170874 ATATAACACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:171211 original size:14 final size:14
Alignment explanation
Indices: 171177--171217 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
171167 AAATGTAATT
* *
171177 CATTTTACGGAAAA
1 CATTTTCCGAAAAA
171191 CATTTTCCGAAAAA
1 CATTTTCCGAAAAA
171205 CATTTTCCAGAAA
1 CATTTTCC-GAAA
171218 TGTAATTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (14 bp):
CATTTTCCGAAAAA
Found at i:171255 original size:15 final size:15
Alignment explanation
Indices: 171235--171286 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
171225 CATTTTACAG
171235 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
** * *
171250 AATTCATTTTCAATT
1 AATTCAAATTCCAGT
171265 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
171280 AATTCAA
1 AATTCAA
171287 TTTTCAGAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.38
Consensus pattern (15 bp):
AATTCAAATTCCAGT
Found at i:171271 original size:30 final size:30
Alignment explanation
Indices: 171219--171292 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
171209 TTCCAGAAAT
171219 GTAATTCATTTT-ACAGAATTCAAATTCCA
1 GTAATTCATTTTCACAGAATTCAAATTCCA
*
171248 GTAATTCATTTTCA-ATTAATTCAAATTCCA
1 GTAATTCATTTTCACA-GAATTCAAATTCCA
171278 GTAATTCAATTTTCA
1 GTAATTC-ATTTTCA
171293 GAAAACCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 13 0.32
30 21 0.51
31 7 0.17
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (30 bp):
GTAATTCATTTTCACAGAATTCAAATTCCA
Found at i:175301 original size:22 final size:21
Alignment explanation
Indices: 175262--175302 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
175252 TGATTGTTTC
*
175262 ATATGATGTTATCGTGAATAT
1 ATATGATGTTATCATGAATAT
*
175283 ATATGATTTTTATCATGAAT
1 ATATGA-TGTTATCATGAAT
175303 GTTATTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (21 bp):
ATATGATGTTATCATGAATAT
Found at i:175716 original size:46 final size:44
Alignment explanation
Indices: 175597--175748 Score: 225
Period size: 44 Copynumber: 3.4 Consensus size: 44
175587 TGGTATATGG
* * *
175597 TTATGGA-ATAATGGCAAGTGTATTGGTAAAATAAGCTTACGACC
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
175641 TTATGGACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
175685 TTATGGTATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGG-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
175731 TTATGGGATAAATGGTAA
1 TTAT-GGATAAATGGTAA
175749 AAGATTTTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
44 45 0.45
45 12 0.12
46 41 0.41
47 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:190161 original size:13 final size:13
Alignment explanation
Indices: 190143--190167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190133 GGTCAAAGGA
190143 AGTCAACGGTCAC
1 AGTCAACGGTCAC
190156 AGTCAACGGTCA
1 AGTCAACGGTCA
190168 ACGGTCGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (13 bp):
AGTCAACGGTCAC
Found at i:190180 original size:5 final size:5
Alignment explanation
Indices: 190170--190210 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
190160 AACGGTCAAC
*
190170 GGTCG GGTC- GGTCG GGTCG GGTC- GGTC- AGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
190211 AGACTGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 11 0.34
5 21 0.66
ACGTcount: A:0.02, C:0.22, G:0.54, T:0.22
Consensus pattern (5 bp):
GGTCG
Found at i:190183 original size:9 final size:9
Alignment explanation
Indices: 190169--190207 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
190159 CAACGGTCAA
190169 CGGTCGGGT
1 CGGTCGGGT
190178 CGGTCGGGT
1 CGGTCGGGT
190187 CGGGTC-GGT
1 C-GGTCGGGT
*
190196 CAGTCGGGT
1 CGGTCGGGT
190205 CGG
1 CGG
190208 GTCAGACTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 3 0.12
9 19 0.73
10 4 0.15
ACGTcount: A:0.03, C:0.23, G:0.54, T:0.21
Consensus pattern (9 bp):
CGGTCGGGT
Found at i:190201 original size:18 final size:19
Alignment explanation
Indices: 190170--190210 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
190160 AACGGTCAAC
*
190170 GGTCGGGTCGGTCGGGTCG
1 GGTCGGGTCAGTCGGGTCG
190189 GGTC-GGTCAGTCGGGTCG
1 GGTCGGGTCAGTCGGGTCG
190207 GGTC
1 GGTC
190211 AGACTGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.02, C:0.22, G:0.54, T:0.22
Consensus pattern (19 bp):
GGTCGGGTCAGTCGGGTCG
Found at i:190210 original size:14 final size:13
Alignment explanation
Indices: 190171--190212 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
190161 ACGGTCAACG
*
190171 GTCGGGTCGGTCGG
1 GTCGGGTCGGTC-A
190185 GTCGGGTCGGTCA
1 GTCGGGTCGGTCA
190198 GTCGGGTCGGGTCA
1 GTCGGGTC-GGTCA
190212 G
1 G
190213 ACTGGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.05, C:0.21, G:0.52, T:0.21
Consensus pattern (13 bp):
GTCGGGTCGGTCA
Found at i:190233 original size:19 final size:19
Alignment explanation
Indices: 190209--190248 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
190199 TCGGGTCGGG
* *
190209 TCAGACTGGTTAAACCGGT
1 TCAGACCGGTCAAACCGGT
190228 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
190247 TC
1 TC
190249 GAACAAGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:190282 original size:19 final size:20
Alignment explanation
Indices: 190221--190286 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
190211 AGACTGGTTA
* *
190221 AACCGGTTCAGACCGGTCA-
1 AACCGGTTCAAACCAGTCAG
* *
190240 AACCGGTTCGAACAAGTC-G
1 AACCGGTTCAAACCAGTCAG
190259 AAACCGG-TCAAACCAGTCAG
1 -AACCGGTTCAAACCAGTCAG
190279 AACCGGTT
1 AACCGGTT
190287 GAAAATCGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 29 0.78
20 8 0.22
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.15
Consensus pattern (20 bp):
AACCGGTTCAAACCAGTCAG
Found at i:190290 original size:29 final size:29
Alignment explanation
Indices: 190221--190290 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
190211 AGACTGGTTA
* * *
190221 AACCGGTTCAGACCGGTCAAACCGGTTCG
1 AACCGGTTGAAACCGGTCAAACCAGTTCG
** *
190250 AACAAGTCGAAACCGGTCAAACCAG-TCAG
1 AACCGGTTGAAACCGGTCAAACCAGTTC-G
190279 AACCGGTTGAAA
1 AACCGGTTGAAA
190291 ATCGGTCATA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.34, C:0.27, G:0.24, T:0.14
Consensus pattern (29 bp):
AACCGGTTGAAACCGGTCAAACCAGTTCG
Found at i:197439 original size:10 final size:9
Alignment explanation
Indices: 197410--197457 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
197400 AGGAAGTCAA
197410 CGGTC-AAC
1 CGGTCAAAC
197418 CGGTCAAAC
1 CGGTCAAAC
197427 CGGTCAGAAC
1 CGGTCA-AAC
*
197437 CGGTTGAAAAC
1 CGG-T-CAAAC
197448 CGGTCAAAC
1 CGGTCAAAC
197457 C
1 C
197458 AGTTTCCAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
8 5 0.15
9 14 0.41
10 7 0.21
11 7 0.21
12 1 0.03
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.12
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:207959 original size:19 final size:19
Alignment explanation
Indices: 207937--207990 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
207927 CAGTTCAGAA
207937 CTTATTTCCAAATTCATAG
1 CTTATTTCCAAATTCATAG
* *
207956 CTTATTTTCAGATTCATAG
1 CTTATTTCCAAATTCATAG
*
207975 CTTAATTCCAAATTCA
1 CTTATTTCCAAATTCA
207991 AGGCTCAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (19 bp):
CTTATTTCCAAATTCATAG
Found at i:208624 original size:21 final size:20
Alignment explanation
Indices: 208587--208625 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
208577 GAATAGTGAA
* *
208587 TAGTGGGGGATCGGTTCCTG
1 TAGTGGGGAATCAGTTCCTG
208607 TAGTAGGGGAATCAGTTCC
1 TAGT-GGGGAATCAGTTCC
208626 CCTTAAGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.18, C:0.15, G:0.38, T:0.28
Consensus pattern (20 bp):
TAGTGGGGAATCAGTTCCTG
Found at i:209097 original size:44 final size:44
Alignment explanation
Indices: 209027--209133 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
209017 GATAAAATTT
* *
209027 CTTACCATTTATCCCATAAGCTCGTAAGTTTATTTTACCAATATA
1 CTTACCATTTAT-CCATAAGCTCGTAAGCTTATTTTACCAATACA
209072 CTTACCATTTATCCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATCCATAAGCTCGTAAGCTTATTTTACCAATACA
*
209116 CTTGCCA-TTATTCCATAA
1 CTTACCATTTA-TCCATAA
209134 CCATATACCA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 3 0.05
44 43 0.74
45 12 0.21
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (44 bp):
CTTACCATTTATCCATAAGCTCGTAAGCTTATTTTACCAATACA
Found at i:209339 original size:59 final size:58
Alignment explanation
Indices: 209212--209339 Score: 145
Period size: 59 Copynumber: 2.2 Consensus size: 58
209202 CATAATGCAA
* * *
209212 TCCCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGTCCAACATATGTACTAGGTATCCTTAAGTA-AG
* *
209271 TCCCAAATATGACACATAAGGTCGTG-CCTAACATAT-TCACTAGGTATCCTTTAATGT-AT
1 TCCCGAATATGACACATAAGGTCGTGTCC-AACATATGT-ACTAGGTATCC-TTAA-GTAAG
209330 TCCCGAATAT
1 TCCCGAATAT
209340 ACAGCCTGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
58 3 0.05
59 50 0.85
60 4 0.07
61 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (58 bp):
TCCCGAATATGACACATAAGGTCGTGTCCAACATATGTACTAGGTATCCTTAAGTAAG
Found at i:246968 original size:30 final size:31
Alignment explanation
Indices: 246891--246968 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 31
246881 TCAACTATTG
**
246891 AAAAATTACATAATAAT-CCATAACTTTTCC
1 AAAAATTACATAATGGTCCCATAACTTTTCC
* * * *
246921 AAAATTTCCA-ATTTGGTCCCTTAACTTTT-C
1 AAAAATTACATA-ATGGTCCCATAACTTTTCC
246951 AAAAATTACATAATGGTC
1 AAAAATTACATAATGGTC
246969 TCCAAATTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
29 1 0.03
30 24 0.67
31 11 0.31
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (31 bp):
AAAAATTACATAATGGTCCCATAACTTTTCC
Found at i:249895 original size:44 final size:44
Alignment explanation
Indices: 249792--249895 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 44
249782 TGTCAGATTT
*
249792 CCAACTTATTTCTCT-CACTATGTTGGAGATATTACTAACATTAC
1 CCAACTTATTTC-CTAAACTATGTTGGAGATATTACTAACATTAC
* * *
249836 CCAACTTATTCCCTAAACTATGTTGGAGCTATTAC-AAGTATTAC
1 CCAACTTATTTCCTAAACTATGTTGGAGATATTACTAA-CATTAC
249880 CCAACTTATTTCCTAA
1 CCAACTTATTTCCTAA
249896 GATCTTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
43 4 0.08
44 49 0.92
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.37
Consensus pattern (44 bp):
CCAACTTATTTCCTAAACTATGTTGGAGATATTACTAACATTAC
Found at i:253954 original size:66 final size:64
Alignment explanation
Indices: 253878--254053 Score: 183
Period size: 66 Copynumber: 2.7 Consensus size: 64
253868 ACCCATTTCA
** **
253878 AATGCATTTTGTGTATCGATGCACA-AGACATGCATCGATGCACTCTTGAATTTTTTTGAAACAT
1 AATGCATTTTGTGTA-CGATGCACATA-ACATGCATCGATGCACTCCAG-ATTCATTTGAAACAT
253942 CG
63 CG
* *
253944 AATGCATTTTGTGTACTGATGCACATACCATGCATCGATGCACTCCAGGTTCATTTGAAACATCG
1 AATGCATTTTGTGTAC-GATGCACATAACATGCATCGATGCACTCCAGATTCATTTGAAACATCG
* * * * *
254009 AATGTAATTAGTGTACCGATGCACCTTAACTATGCATCAATGCAC
1 AATGCATTTTGTGTA-CGATGCA-CATAAC-ATGCATCGATGCAC
254054 CCCACGCTCC
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
65 33 0.35
66 46 0.49
67 14 0.15
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (64 bp):
AATGCATTTTGTGTACGATGCACATAACATGCATCGATGCACTCCAGATTCATTTGAAACATCG
Found at i:255832 original size:22 final size:22
Alignment explanation
Indices: 255807--255849 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
255797 TAATGGATGG
*
255807 TTGTTTTTCTTTAT-GTTCTTAT
1 TTGTTTTGC-TTATGGTTCTTAT
255829 TTGTTTTGCTTATGGTTCTTA
1 TTGTTTTGCTTATGGTTCTTA
255850 ATGTCTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.67
Consensus pattern (22 bp):
TTGTTTTGCTTATGGTTCTTAT
Found at i:259283 original size:47 final size:45
Alignment explanation
Indices: 259210--259315 Score: 142
Period size: 47 Copynumber: 2.3 Consensus size: 45
259200 ATATGGTTAT
*
259210 GGAAT-AATGGAAAGTATATTGATAAAATAAGCTTATGAGCTTAC
1 GGAATAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTAC
* * *
259254 GGAATTTAAATGGTAAGTATTTTGGTAAAATAAGCTTATGAGCTTAT
1 GGAA--TAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTAC
*
259301 GGGATAAATGGTAAG
1 GGAATAAATGGTAAG
259316 GGATTTTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 4 0.07
45 11 0.20
46 1 0.02
47 38 0.70
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.32
Consensus pattern (45 bp):
GGAATAAATGGTAAGTATATTGATAAAATAAGCTTATGAGCTTAC
Found at i:259737 original size:30 final size:30
Alignment explanation
Indices: 259696--259753 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
259686 TTGGAAGTTA
259696 CTGTAGAAGTTACTATAGTGTATCGATGTT
1 CTGTAGAAGTTACTATAGTGTATCGATGTT
* *
259726 CTGTAGCAGTTACTGTAGTGTATCGATG
1 CTGTAGAAGTTACTATAGTGTATCGATG
259754 CATAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (30 bp):
CTGTAGAAGTTACTATAGTGTATCGATGTT
Found at i:266405 original size:20 final size:20
Alignment explanation
Indices: 266373--266410 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
266363 TGGGCGATTG
266373 TCTATTGTTTATGGTTATTT
1 TCTATTGTTTATGGTTATTT
266393 TCTA-TGTTATATGGTTAT
1 TCTATTGTT-TATGGTTAT
266411 GGAATAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.05, G:0.16, T:0.61
Consensus pattern (20 bp):
TCTATTGTTTATGGTTATTT
Found at i:266933 original size:30 final size:30
Alignment explanation
Indices: 266897--266956 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
266887 TTCGAAAGTT
266897 ATTGTAGTAGTTACTATAGCGTATCGATGC
1 ATTGTAGTAGTTACTATAGCGTATCGATGC
*
266927 ATTGTAGTAGTTACTGTAGCGTATCGATGC
1 ATTGTAGTAGTTACTATAGCGTATCGATGC
266957 GTAATATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (30 bp):
ATTGTAGTAGTTACTATAGCGTATCGATGC
Found at i:281412 original size:12 final size:12
Alignment explanation
Indices: 281395--281426 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
281385 ATGTAATGTT
281395 TACTGTTCATGG
1 TACTGTTCATGG
281407 TACTGTTCATGG
1 TACTGTTCATGG
281419 TACTGTTC
1 TACTGTTC
281427 GTCACTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (12 bp):
TACTGTTCATGG
Found at i:289963 original size:19 final size:20
Alignment explanation
Indices: 289933--289970 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
289923 CAAAGTTTCA
289933 TTTTGTTTTTCAAAATCAAC
1 TTTTGTTTTTCAAAATCAAC
289953 TTTTG-TTTTCAAAATCAA
1 TTTTGTTTTTCAAAATCAA
289971 ATCATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTGTTTTTCAAAATCAAC
Found at i:290476 original size:3 final size:3
Alignment explanation
Indices: 290458--290503 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
290448 TACCTCCTTT
* * *
290458 TTC TTC TTG TTT TTC TTC -TC TTC ATC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
290504 TCTTTACCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:292701 original size:20 final size:21
Alignment explanation
Indices: 292649--292702 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
292639 TACCATAATA
*
292649 GGGTATCGATGCCATAGTATG
1 GGGTATCGATACCATAGTATG
* * *
292670 GTAGTATTGATACCATGGTA-G
1 G-GGTATCGATACCATAGTATG
292691 GGGTATCGATAC
1 GGGTATCGATAC
292703 TAAGGAGTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 9 0.35
21 3 0.12
22 14 0.54
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (21 bp):
GGGTATCGATACCATAGTATG
Found at i:293168 original size:47 final size:47
Alignment explanation
Indices: 293094--293539 Score: 565
Period size: 47 Copynumber: 9.4 Consensus size: 47
293084 TAAATCGAAT
* * * *
293094 CCATGATTTAAACTGCATTAAAGGATGCATTAAGGCATGAAATGATG
1 CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
293141 CCATAATTTAAAATGCATGAAAGGATGCCATAATTTAAAATGCGTGAAAGGATG
1 CCATAATTTAAAATGCATGAAAGGATG-C---A-TT--AAGGCATGAAAGGATG
* ** * *
293195 CCATAATTTAAAATGCATGAAAGAATGCATTAAGATATGAAATGATT
1 CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
** * * * *
293242 TAATAA-ATGATATGCATGAAAGGATTCATTAAGGCATGAAAGGATG
1 CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
293288 TCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
293335 CCATGATTTAAAATGCATGAAATGATTCATTAAGGCATGAAAGGATG
1 CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
293382 CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAATGATG
1 CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
293429 CCATAATTT-AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
1 CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
* * *
293475 CCAAAATTTTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATG
1 CCATAA-TTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
*
293523 ACATAA-TTAAAATGCAT
1 CCATAATTTAAAATGCAT
293540 AAATAAATGG
Statistics
Matches: 346, Mismatches: 43, Indels: 21
0.84 0.10 0.05
Matches are distributed among these distances:
46 88 0.25
47 172 0.50
48 40 0.12
49 2 0.01
50 1 0.00
51 1 0.00
52 2 0.01
53 1 0.00
54 39 0.11
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.26
Consensus pattern (47 bp):
CCATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG
Done.