Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_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: 4603428
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 19
Found at i:850953 original size:22 final size:22
Alignment explanation
Indices: 850928--850991 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
850918 ACCGAGTCGC
* *
850928 CTGACCGAGTCGACTTAGCCGT
1 CTGACCGAGACGACTGAGCCGT
*
850950 CTGACCGAGACGACTGAGTCGT
1 CTGACCGAGACGACTGAGCCGT
* *
850972 CTGACCAAGACGAATGAGCC
1 CTGACCGAGACGACTGAGCC
850992 AGCCGATTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (22 bp):
CTGACCGAGACGACTGAGCCGT
Found at i:851090 original size:21 final size:21
Alignment explanation
Indices: 851066--851113 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
851056 TTGACTGGTT
851066 GTTGACCGCCGTTAACCAGTC
1 GTTGACCGCCGTTAACCAGTC
* *
851087 GTTGATCGCCGTTGACCAGTC
1 GTTGACCGCCGTTAACCAGTC
*
851108 ATTGAC
1 GTTGAC
851114 TTTTTTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (21 bp):
GTTGACCGCCGTTAACCAGTC
Found at i:851437 original size:2 final size:2
Alignment explanation
Indices: 851430--851457 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
851420 GCATGGTTGA
851430 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
851458 GGTTATGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:853055 original size:32 final size:31
Alignment explanation
Indices: 853012--853105 Score: 102
Period size: 30 Copynumber: 3.1 Consensus size: 31
853002 CCTAAGGTGA
* *
853012 TCTTGGGTAGGCTCTGAGGCCCCAATACTTC
1 TCTTGGGTAGGCTCTAAGGCCCCAATACTAC
* **
853043 TCTTTGGGTAGGCTCTAAGGCCTC-ATGGTAC
1 TC-TTGGGTAGGCTCTAAGGCCCCAATACTAC
* *
853074 TCTTGTGTAGGCTCTTAGGCCCCAATA-TAC
1 TCTTGGGTAGGCTCTAAGGCCCCAATACTAC
853104 TC
1 TC
853106 CTTAGGTTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
30 23 0.44
31 10 0.19
32 19 0.37
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (31 bp):
TCTTGGGTAGGCTCTAAGGCCCCAATACTAC
Found at i:854330 original size:129 final size:129
Alignment explanation
Indices: 854126--854384 Score: 464
Period size: 129 Copynumber: 2.0 Consensus size: 129
854116 CCGACTCCTA
*
854126 ACCTAGAATTGAGTTTTGGTTATCTCTAAATGTTATGTGCTAATAAGCTTGTAACCAAACTTTAT
1 ACCTAGAATTGAGTTTTGGTTATCTCTAAATGTTATGTGCTAATAAGCTCGTAACCAAACTTTAT
* *
854191 AAGTAAAGTTCGTGATCAAGAACTGTTACCTAAGTGGATCAAAGAACAAGGTAATTGGTCTAAG
66 AAGTAAAGTTCGAGATCAAGAACTGTTACCCAAGTGGATCAAAGAACAAGGTAATTGGTCTAAG
* *
854255 ACCTAGAATTGAGTTTTGGTTATCTCTAAATGTTTTGTGCTAATAAGCTCGTAACCAATCTTTAT
1 ACCTAGAATTGAGTTTTGGTTATCTCTAAATGTTATGTGCTAATAAGCTCGTAACCAAACTTTAT
*
854320 AAGTAAAGTTCGAGATCAAGAACTGTTACCCAAGTGGATCGAAGAACAAGGTAATTGGTCTAAG
66 AAGTAAAGTTCGAGATCAAGAACTGTTACCCAAGTGGATCAAAGAACAAGGTAATTGGTCTAAG
854384 A
1 A
854385 TTTGACAAGG
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 124 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (129 bp):
ACCTAGAATTGAGTTTTGGTTATCTCTAAATGTTATGTGCTAATAAGCTCGTAACCAAACTTTAT
AAGTAAAGTTCGAGATCAAGAACTGTTACCCAAGTGGATCAAAGAACAAGGTAATTGGTCTAAG
Found at i:861147 original size:21 final size:21
Alignment explanation
Indices: 861121--861173 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
861111 GTTTCTAGAT
861121 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
861142 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
861163 TCGCAATGCGA
1 TCGCAACGCGA
861174 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:861193 original size:19 final size:20
Alignment explanation
Indices: 861169--861216 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
861159 ACTATCGCAA
861169 TGCGATTTTCCAAATT-CGT
1 TGCGATTTTCCAAATTCCGT
** *
861188 TGCGATAGTCCAAGTTCGCGT
1 TGCGATTTTCCAAATTC-CGT
861209 TGCGATTT
1 TGCGATTT
861217 ATTCTAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
TGCGATTTTCCAAATTCCGT
Found at i:864006 original size:18 final size:18
Alignment explanation
Indices: 863983--864026 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
863973 AACCAACATC
*
863983 TTGTAATTAGGTTGATAT
1 TTGTAACTAGGTTGATAT
*
864001 TTGTAACTGGGTTGATAT
1 TTGTAACTAGGTTGATAT
*
864019 TTCTAACT
1 TTGTAACT
864027 GGGCCTAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (18 bp):
TTGTAACTAGGTTGATAT
Found at i:864027 original size:18 final size:18
Alignment explanation
Indices: 863992--864029 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
863982 CTTGTAATTA
*
863992 GGTTGATATTTGTAACTG
1 GGTTGATATTTCTAACTG
864010 GGTTGATATTTCTAACTG
1 GGTTGATATTTCTAACTG
864028 GG
1 GG
864030 CCTAGTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (18 bp):
GGTTGATATTTCTAACTG
Found at i:864404 original size:73 final size:73
Alignment explanation
Indices: 864285--864424 Score: 217
Period size: 73 Copynumber: 1.9 Consensus size: 73
864275 GATCGATTTG
* * * *
864285 CTTCACTACTCTTTGGTGAAGGCTTAAAATAGACTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
1 CTTCACAACTCTTCGGTGAAGGCTTAAAATAGACTTACTTCACTACTCTTCAGTGAAGGCTTAAG
864350 ATTGATCA
66 ATTGATCA
* * *
864358 CTTCACAACTCTTCGGTGAAGGCTTAAGATGGATTTACTTCACTACTCTTCAGTGAAGGCTTAAG
1 CTTCACAACTCTTCGGTGAAGGCTTAAAATAGACTTACTTCACTACTCTTCAGTGAAGGCTTAAG
864423 AT
66 AT
864425 GGCCTAAAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (73 bp):
CTTCACAACTCTTCGGTGAAGGCTTAAAATAGACTTACTTCACTACTCTTCAGTGAAGGCTTAAG
ATTGATCA
Found at i:864425 original size:37 final size:37
Alignment explanation
Indices: 864274--864426 Score: 200
Period size: 37 Copynumber: 4.2 Consensus size: 37
864264 ATAGGACTCG
* * *
864274 AGATCGATTTGCTTCACTACTCTTTGGTGAAGGCTTA
1 AGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTA
* * * *
864311 AAATAGACTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 AGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTA
* * *
864348 AGATTGA-TCACTTCACAACTCTTCGGTGAAGGCTTA
1 AGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTA
*
864384 AGATGGATTTACTTCACTACTCTTCAGTGAAGGCTTA
1 AGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTA
864421 AGATGG
1 AGATGG
864427 CCTAAAGGAC
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
36 32 0.31
37 70 0.69
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (37 bp):
AGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTA
Found at i:864543 original size:42 final size:42
Alignment explanation
Indices: 864496--864603 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
864486 CGAAAGACTT
* * *
864496 ATCATCTTGCTCAAAAGGCTTA-TAGATGACCCAAAGGATTTA
1 ATCATCATGCTCGAAAGACTTACTA-ATGACCCAAAGGATTTA
* * *
864538 ATCATCATGCTCGAAAGACTTACTAATGTCCCGAAGGATTTC
1 ATCATCATGCTCGAAAGACTTACTAATGACCCAAAGGATTTA
864580 ATCATCATGCTCGAAAGACTTACT
1 ATCATCATGCTCGAAAGACTTACT
864604 GATGGATTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGACTTACTAATGACCCAAAGGATTTA
Found at i:864852 original size:22 final size:22
Alignment explanation
Indices: 864827--865103 Score: 98
Period size: 22 Copynumber: 13.1 Consensus size: 22
864817 AGATGGCCAG
*
864827 AAGGATTTATCATCTTGCTCGA
1 AAGGATTTATCATCATGCTCGA
* *
864849 AAGG-CTTA-CAT-ATGACCCG-
1 AAGGATTTATCATCATG-CTCGA
*
864868 AATGATTTAATCATCATGCTCGA
1 AAGGATTT-ATCATCATGCTCGA
* *
864891 AA-GACTTA-CA-GATGGCTCG-
1 AAGGATTTATCATCAT-GCTCGA
864910 AAGGATTTAATCATCATGCTCGA
1 AAGGATTT-ATCATCATGCTCGA
* * *
864933 AA-GACTTA-C-TGATGTCCCG-
1 AAGGATTTATCATCATG-CTCGA
864952 AAGGATTTAATCATCATGCTCGA
1 AAGGATTT-ATCATCATGCTCGA
* * *
864975 AA-GACTTA-C-TGATGGCCCG-
1 AAGGATTTATCATCAT-GCTCGA
864994 AAGGATTTAATCATCATGCTCGA
1 AAGGATTT-ATCATCATGCTCGA
* * *
865017 AA-GACTTA-C-TGATGTCCCGA
1 AAGGATTTATCATCATG-CTCGA
*
865037 AA-GATTTAATCATCATGCTTGA
1 AAGGATTT-ATCATCATGCTCGA
* * **
865059 AAGG-CTTAT-A-GATGAC-CCT
1 AAGGATTTATCATCATG-CTCGA
865078 AAGGATTTAATCATCATGCTCGA
1 AAGGATTT-ATCATCATGCTCGA
865101 AAG
1 AAG
865104 ACTTACTGAT
Statistics
Matches: 182, Mismatches: 38, Indels: 69
0.63 0.13 0.24
Matches are distributed among these distances:
19 31 0.17
20 51 0.28
21 16 0.09
22 52 0.29
23 32 0.18
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (22 bp):
AAGGATTTATCATCATGCTCGA
Found at i:864888 original size:42 final size:42
Alignment explanation
Indices: 864826--865121 Score: 427
Period size: 42 Copynumber: 7.1 Consensus size: 42
864816 TAGATGGCCA
* *
864826 GAAGGATTT-ATCATCTTGCTCGAAAGGCTTACAT-ATGACCC
1 GAAGGATTTAATCATCATGCTCGAAAGACTTAC-TGATGACCC
* * * *
864867 GAATGATTTAATCATCATGCTCGAAAGACTTACAGATGGCTC
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCC
*
864909 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGTCCC
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCC
*
864951 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCC
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCC
*
864993 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGTCCC
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCC
* * *
865035 GAAAGATTTAATCATCATGCTTGAAAGGCTTA-TAGATGACCC
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACT-GATGACCC
* *
865077 TAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCC
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCC
865119 GAA
1 GAA
865122 AGACTTACTA
Statistics
Matches: 229, Mismatches: 22, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
41 9 0.04
42 219 0.96
43 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (42 bp):
GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCC
Found at i:864910 original size:20 final size:20
Alignment explanation
Indices: 864885--865040 Score: 57
Period size: 20 Copynumber: 7.5 Consensus size: 20
864875 TAATCATCAT
864885 GCTCGAAAGACTTACAGATG
1 GCTCGAAAGACTTACAGATG
* * *
864905 GCTCGAAGGATTTAATCATCAT-
1 GCTCGAAAGACTT-A-CA-GATG
*
864927 GCTCGAAAGACTTACTGATG
1 GCTCGAAAGACTTACAGATG
* * * * *
864947 TCCCGAAGGATTTAATCATCAT-
1 GCTCGAAAGACTT-A-CA-GATG
*
864969 GCTCGAAAGACTTACTGATG
1 GCTCGAAAGACTTACAGATG
* * * *
864989 GCCCGAAGGATTTAATCATCAT-
1 GCTCGAAAGACTT-A-CA-GATG
*
865011 GCTCGAAAGACTTACTGATG
1 GCTCGAAAGACTTACAGATG
* *
865031 TCCCGAAAGA
1 GCTCGAAAGA
865041 TTTAATCATC
Statistics
Matches: 93, Mismatches: 31, Indels: 24
0.63 0.21 0.16
Matches are distributed among these distances:
19 6 0.06
20 41 0.44
21 6 0.06
22 34 0.37
23 6 0.06
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
GCTCGAAAGACTTACAGATG
Found at i:865310 original size:216 final size:210
Alignment explanation
Indices: 864636--865559 Score: 737
Period size: 216 Copynumber: 4.3 Consensus size: 210
864626 TCCATGAAGA
* * * *
864636 CTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTGACTGATGACCCGAAGGACTT
1 CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* * * * * *
864701 GCTGAGTGTGAAAATTTGGAAATTGCCTTCTTAGTTTTCAAATATTTCATTTTCT-TAAAACATC
66 -CT-A--ATCAAATTTTGGAAATCGCCTTCTTAGTTTTAAAAGATTTCATTTTCTATAAAA-A-C
* * * *
864765 ACTTTCTCATTTTTCAACTTAATGTGAAAACATCCTACCCCGAATGTCTTATAGATGGCCAGAAG
125 ACTTTCTCATTTTTCAA-TGAATGTGAAAACATCCTA-CCCGAAAGTCTTATGGATGGCCCGAAG
864830 GATTTATCATCTTGCTCGAAAGG
188 GATTTATCATCTTGCTCGAAAGG
* * * *
864853 CTTACATATGACCCGAATGATTTAATCATCATGCTCGAAAGACTTACAGATGGCTCGAAGGA-TT
1 CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* ** * * * **** * * ** * ** *
864917 -TAATCATCATGCTCGAAA--GACTTACTGATGTCCCGAAGGATTTAATCATCATGCTCGAAAGA
66 CTAATCA-AATTTTGGAAATCGCCTT-CTTA-GTTTTAAAAGATTTCATTTTC-T-ATAAAAACA
* * **** * * * * * * * * *
864979 CTTACTGATGGCCCGAA-GGAT-T-TAATCATCATGCTCGAAAGACTTACT-GATGTCCCGAAAG
126 CTTTCTCATTTTTC-AATGAATGTGAAAACATCCTACCCGAAAGTCTTA-TGGATGGCCCGAAGG
* *
865040 ATTTAATCATCATGCTTGAAAGG
189 ATTT-ATCATCTTGCTCGAAAGG
* * *
865063 CTTATAGATGACCCTAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTT
1 CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
*
865128 ACTAAGTGCGAAATTTTGGAAATCGCCTTCTTAGTTTTTAAAGATTTCATTTTCT-TAAAACATC
66 -CTAA-T-C-AAATTTTGGAAATCGCCTTCTTAGTTTTAAAAGATTTCATTTTCTATAAAA-A-C
* * * *
865192 ACTTTCTCATTTTTCAACTTAATGTGAATACATCCTACCCGAAGGTCTTATGGATGGCTCGAAGG
125 ACTTTCTCATTTTTCAA-TGAATGTGAAAACATCCTACCCGAAAGTCTTATGGATGGCCCGAAGG
*
865257 -TCTTATCATCTTGCTCTAAAGG
189 AT-TTATCATCTTGCTCGAAAGG
865279 CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG---T
1 CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* * * * * *
865341 CTTAT-AAATTTTGGAAATCACTTTCTTACTTTTCAAAAATTCTGAATTTCATATTTATATGAGA
66 CTAATCAAATTTTGGAAATCGCCTTCTTAGTTTT--AAAA----G-ATTTCAT-TTTCTAT-AAA
* * * * *
865405 AAC-CTTTCTCATATTTCGATAGACATTTGAAAACATCCTACCCAAAAGTCTTATGGATGACCCG
122 AACACTTTCTCATTTTTCAAT-GA-ATGTGAAAACATCCTACCCGAAAGTCTTATGGATGGCCCG
*
865469 AAGGATTTATCATCTTGCTCGAAATG
185 AAGGATTTATCATCTTGCTCGAAAGG
* *
865495 CTTACAGATGACCCGAAGGGTTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
1 CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
865560 ATGGATGACC
Statistics
Matches: 549, Mismatches: 117, Indels: 80
0.74 0.16 0.11
Matches are distributed among these distances:
208 25 0.05
209 24 0.04
210 86 0.16
211 9 0.02
212 26 0.05
213 18 0.03
214 17 0.03
215 48 0.09
216 202 0.37
217 90 0.16
218 3 0.01
219 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (210 bp):
CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
CTAATCAAATTTTGGAAATCGCCTTCTTAGTTTTAAAAGATTTCATTTTCTATAAAAACACTTTC
TCATTTTTCAATGAATGTGAAAACATCCTACCCGAAAGTCTTATGGATGGCCCGAAGGATTTATC
ATCTTGCTCGAAAGG
Found at i:865541 original size:42 final size:41
Alignment explanation
Indices: 865460--865556 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 41
865450 AAGTCTTATG
* *
865460 GATGACCCGAAGGATTTATCATCTTGCTCGAAATGCTTACA
1 GATGACCCGAAGGATTTAGCATCATGCTCGAAATGCTTACA
* *
865501 GATGACCCGAAGGGTTTAAGCATCATGCTCGAAA-GACTTACT
1 GATGACCCGAAGGATTT-AGCATCATGCTCGAAATG-CTTACA
*
865543 GATGGCCCGAAGGA
1 GATGACCCGAAGGA
865557 CTTATGGATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 17 0.35
42 31 0.65
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.24
Consensus pattern (41 bp):
GATGACCCGAAGGATTTAGCATCATGCTCGAAATGCTTACA
Found at i:865558 original size:20 final size:20
Alignment explanation
Indices: 865530--865665 Score: 64
Period size: 20 Copynumber: 6.7 Consensus size: 20
865520 GCATCATGCT
*
865530 CGAAAGACTTACTGATGGCC
1 CGAAGGACTTACTGATGGCC
*
865550 CGAAGGACTTA-TGGATGACC
1 CGAAGGACTTACT-GATGGCC
* * * *
865570 CGAAGGATTTATCAT-CTTGCT
1 CGAAGGACTTA-C-TGATGGCC
* *
865591 CGAAAGG-CTTACAGATGACC
1 CG-AAGGACTTACTGATGGCC
** * *
865611 CGAAGGGTTTAAGCATCAT-GCT
1 CGAAGGACTT-A-C-TGATGGCC
*
865633 CGAAAGACTTACTGATGGCC
1 CGAAGGACTTACTGATGGCC
865653 CGAAGGACTTACT
1 CGAAGGACTTACT
865666 AATTTTTGAA
Statistics
Matches: 81, Mismatches: 24, Indels: 22
0.64 0.19 0.17
Matches are distributed among these distances:
19 8 0.10
20 48 0.59
21 9 0.11
22 13 0.16
23 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (20 bp):
CGAAGGACTTACTGATGGCC
Found at i:865602 original size:61 final size:62
Alignment explanation
Indices: 865501--865616 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 62
865491 AATGCTTACA
* * *
865501 GATGACCCGAAGGGTTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATG
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACAGATGACCCGAAGGACTTATG
* * *
865563 GATGACCCGAAGGATTT-ATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACAGATGACCCGAAGG
865617 GTTTAAGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
61 32 0.67
62 16 0.33
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (62 bp):
GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACAGATGACCCGAAGGACTTATG
Found at i:865633 original size:103 final size:103
Alignment explanation
Indices: 865454--865663 Score: 411
Period size: 103 Copynumber: 2.0 Consensus size: 103
865444 ACCCAAAAGT
*
865454 CTTATGGATGACCCGAAGGATTTATCATCTTGCTCGAAATGCTTACAGATGACCCGAAGGGTTTA
1 CTTATGGATGACCCGAAGGATTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGGTTTA
865519 AGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
66 AGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
865557 CTTATGGATGACCCGAAGGATTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGGTTTA
1 CTTATGGATGACCCGAAGGATTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGGTTTA
865622 AGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
66 AGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
865660 CTTA
1 CTTA
865664 CTAATTTTTG
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (103 bp):
CTTATGGATGACCCGAAGGATTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGGTTTA
AGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGA
Found at i:865644 original size:42 final size:41
Alignment explanation
Indices: 865563--865659 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 41
865553 AGGACTTATG
* * *
865563 GATGACCCGAAGGATTTATCATCTTGCTCGAAAGGCTTACA
1 GATGACCCGAAGGATTTAGCATCATGCTCGAAAGACTTACA
* *
865604 GATGACCCGAAGGGTTTAAGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTT-AGCATCATGCTCGAAAGACTTACA
*
865646 GATGGCCCGAAGGA
1 GATGACCCGAAGGA
865660 CTTACTAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (41 bp):
GATGACCCGAAGGATTTAGCATCATGCTCGAAAGACTTACA
Found at i:867196 original size:125 final size:125
Alignment explanation
Indices: 866974--867235 Score: 391
Period size: 125 Copynumber: 2.1 Consensus size: 125
866964 CTAGTGCCGC
* * **
866974 AACATTATCTTATACTGGTACACACCTTCAAAATTCCCCATTACCTCAAATTATAAGGCTCGTTC
1 AACATTATCTTATACCGGTACACACCTTCAAAATGCCCCATTACCTCAAATTATAAGGCTCACTC
867039 TGCATGCCTCCTTGGTCTGAATCATATCATCTCAACATGATGTGGGTTCAGTCATGCCCA
66 TGCATGCCTCCTTGGTCTGAATCATATCATCTCAACATGATGTGGGTTCAGTCATGCCCA
*** *
867099 AACATTATCTTATACCGGTACGGGCCTTCAAAATGCCCCATCT-CCTCAAATTGTAAGGCTCACT
1 AACATTATCTTATACCGGTACACACCTTCAAAATGCCCCAT-TACCTCAAATTATAAGGCTCACT
* * * * *
867163 CTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCC
65 CTGCATGCCTCCTTGGTCTGAATCATATCATCTCAACATGATGTGGGTTCAGTCATGCCCA
867224 AACATTATCTTA
1 AACATTATCTTA
867236 ACTTGAATGT
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
125 122 0.99
126 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (125 bp):
AACATTATCTTATACCGGTACACACCTTCAAAATGCCCCATTACCTCAAATTATAAGGCTCACTC
TGCATGCCTCCTTGGTCTGAATCATATCATCTCAACATGATGTGGGTTCAGTCATGCCCA
Found at i:873277 original size:12 final size:13
Alignment explanation
Indices: 873255--873283 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
873245 CAAATTGAAT
873255 TTTTAAATTTTAA
1 TTTTAAATTTTAA
873268 TTTT-AATTTTAA
1 TTTTAAATTTTAA
873280 TTTT
1 TTTT
873284 CGCTACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:874205 original size:18 final size:18
Alignment explanation
Indices: 874182--874225 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
874172 AACCAACATC
*
874182 TTGTAATTAGGTTGATAT
1 TTGTAACTAGGTTGATAT
*
874200 TTGTAACTGGGTTGATAT
1 TTGTAACTAGGTTGATAT
*
874218 TTCTAACT
1 TTGTAACT
874226 GGGCCCAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (18 bp):
TTGTAACTAGGTTGATAT
Found at i:874226 original size:18 final size:18
Alignment explanation
Indices: 874191--874228 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
874181 CTTGTAATTA
*
874191 GGTTGATATTTGTAACTG
1 GGTTGATATTTCTAACTG
874209 GGTTGATATTTCTAACTG
1 GGTTGATATTTCTAACTG
874227 GG
1 GG
874229 CCCAGTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (18 bp):
GGTTGATATTTCTAACTG
Found at i:874427 original size:26 final size:26
Alignment explanation
Indices: 874398--874447 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
874388 AAATACTTGT
* *
874398 ATCTTGGTATCAAAAATCATCTTTGA
1 ATCTTGATATAAAAAATCATCTTTGA
874424 ATCTTGATATAAAAAATCATCTTT
1 ATCTTGATATAAAAAATCATCTTT
874448 AATTTTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (26 bp):
ATCTTGATATAAAAAATCATCTTTGA
Found at i:874862 original size:37 final size:37
Alignment explanation
Indices: 874811--874884 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
874801 ATAAAGCCAG
*
874811 TTTTTAACTGGTATGGAGTTTCGCCTTGGGGAAAATC
1 TTTTTAACTAGTATGGAGTTTCGCCTTGGGGAAAATC
*
874848 TTTTTAACTAGTATGGAGTTTCTCCTTGGGGAAAATC
1 TTTTTAACTAGTATGGAGTTTCGCCTTGGGGAAAATC
874885 AATGCACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (37 bp):
TTTTTAACTAGTATGGAGTTTCGCCTTGGGGAAAATC
Found at i:876000 original size:19 final size:19
Alignment explanation
Indices: 875973--876018 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
875963 AGCATGTTTA
875973 AAAAT-AAAACTT-AAAATG
1 AAAATGAAAACTTGAAAA-G
875991 AAAATGAAAACTTGAAAAG
1 AAAATGAAAACTTGAAAAG
876010 AAAA-GAAAA
1 AAAATGAAAA
876019 TAACTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.38
19 12 0.46
20 4 0.15
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.15
Consensus pattern (19 bp):
AAAATGAAAACTTGAAAAG
Found at i:880573 original size:220 final size:218
Alignment explanation
Indices: 880128--880577 Score: 819
Period size: 220 Copynumber: 2.0 Consensus size: 218
880118 ATTGTAACTG
880128 TAATATTGCAGCCCAATGTGACCCTTGTACAAGGGTATGTGAGGTCTTTGTGCTTTAAAAAAAAA
1 TAATATTGCAGCCCAATGTGACCCTTGTACAAGGGTATGTGAGGTCTTTGTGCTTTAAAAAAAAA
880193 TTAGCGTGTCTCTTGTATTCTCTTTTCACCCAATGTGACATTCAACTAGAAAATAACTCATATGG
66 TTAGCGTGTCTCTTGTATTCTCTTTTCACCCAATGTGACATTCAACTAGAAAATAACTCATATGG
880258 TCCTTTGACCAACGATTTTGTCATTGATCGTTATGATGCTGACATGGAACTTCATAATGCTAACA
131 TCCTTTGACCAACGATTTTGTCATTGATCGTTATGATGCTGACATGGAACTTCATAATGCTAACA
880323 TGACGGTCTACGATGGCTAATAATA
196 TGACGGTCTACGATGGC--ATAATA
880348 TAATATTGCAGCCCAATGTGACCCTTGTACAAGGGTATGTGAGGTCTTTGTGCTTTAAAAAAAAA
1 TAATATTGCAGCCCAATGTGACCCTTGTACAAGGGTATGTGAGGTCTTTGTGCTTTAAAAAAAAA
880413 TTAGCGTGTCTCTTGTATTCTCTTTTCACCCAATGTGACATTCAAACTTAGAAAATAAACTCAAT
66 TTAGCGTGTCTCTTGTATTCTCTTTTCACCCAATGTGACATTC-AAC-TAGAAAAT-AACTC-AT
880478 ATGGTCCTTTGACCAACGATTTTTGTCATTGATCGTTATGATGCTGACATGGAACTTCATAATGC
127 ATGGTCCTTTGACCAACGA-TTTTGTCATTGATCGTTATGATGCTGACATGGAACTTCATAATGC
880543 TAACATGACGGTCTACGATGGCTAATAATA
191 TAACATGACGGTCTACGATGGC--ATAATA
880573 TAATA
1 TAATA
880578 GATGAGCTAA
Statistics
Matches: 225, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
220 108 0.48
221 3 0.01
222 8 0.04
223 5 0.02
224 21 0.09
225 80 0.36
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (218 bp):
TAATATTGCAGCCCAATGTGACCCTTGTACAAGGGTATGTGAGGTCTTTGTGCTTTAAAAAAAAA
TTAGCGTGTCTCTTGTATTCTCTTTTCACCCAATGTGACATTCAACTAGAAAATAACTCATATGG
TCCTTTGACCAACGATTTTGTCATTGATCGTTATGATGCTGACATGGAACTTCATAATGCTAACA
TGACGGTCTACGATGGCATAATA
Found at i:880736 original size:21 final size:23
Alignment explanation
Indices: 880692--880738 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
880682 GAAACTATAC
*
880692 AAATATAAATATTAAAATATTAA
1 AAATATAAATATTAAAATACTAA
*
880715 AAAT-TAAA-ATTAAATTACTAA
1 AAATATAAATATTAAAATACTAA
880736 AAA
1 AAA
880739 AATCATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 4 0.18
23 4 0.18
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATAAATATTAAAATACTAA
Found at i:880748 original size:2 final size:2
Alignment explanation
Indices: 880743--880774 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
880733 TAAAAAAATC
880743 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
880775 TAAACGAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:883363 original size:22 final size:22
Alignment explanation
Indices: 883335--883380 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
883325 CCTTTGAGGC
*
883335 TCACAACGGGCGAGTGCTAATT
1 TCACAACGGGCGAGTGCCAATT
*
883357 TCACAACGGTCGAGTGCCAATT
1 TCACAACGGGCGAGTGCCAATT
883379 TC
1 TC
883381 TTATGCTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (22 bp):
TCACAACGGGCGAGTGCCAATT
Found at i:892798 original size:463 final size:453
Alignment explanation
Indices: 891931--892854 Score: 1704
Period size: 463 Copynumber: 2.0 Consensus size: 453
891921 AGATATCCTT
* *
891931 TACAGCACCTTGCCAATCAAGACCGTCCATTAGGTGTTGAGCTTCAGCAACATCCAGACCAACCT
1 TACAGAACCTTACCAATCAAGACCGTCCATTAGGTGTTGAGCTTCAGCAACATCCAGACCAACCT
891996 TTCCTTGATACAAACTGAAGTCGAGAAATTTTAAATGAATTAGCATTCAAATTCTGCAAACGCCA
66 TTCCTTGATACAAACTGAAGTCGAGAAATTTTAAATGAATTAGCATTCAAATTCTGCAAACGCCA
892061 AGTTTATGGTAATTGAGAGAAAAGAATATACGTGTGTGTGTGTGTGTACACAAATAAAAGAACTG
131 AGTTTATGGTAATTGAGAGAAAAGAATATACGTGTGTGTGTGTGTGTACACAAATAAAAGAACTG
*
892126 GAGAATGAAATTTTAGAGCTTTGAAGCCTGAAGCCAGTTGAGAGATCTTCAGGGCATGATTTTTT
196 GAGAATGAAATTTTAGAGCTTTGAAACCTGAAGCCAGTTGAGAGATCTTCAGGGCATGATTTTTT
892191 ATCTCAAAATCAACACCCCACCACTCCTGAAGAACAACAATTCCAGATGCATCTTATTTGCCAAC
261 ATCTCAAAATCAACACCCCACCACTCCTGAAGAACAACAATTCCAGATGCATCTTATTTGCCAAC
* *
892256 CACTTATGCATCATATGCTTATCTCAGTCAAATAAGTTAGCAGAAAAGACAATAAAATGAAGTGT
326 CACATATGCATCATATGCTTATCTCAGTCAAATAAGTTAGCAGAAAAGACAATAAAAGGAAGTGT
892321 ATAAACATAAAAAATGTTTTGAGTAAGCATATGGCTTTAACCAGAAAGACGATAAAGAACCAG
391 ATAAACATAAAAAATGTTTTGAGTAAGCATATGGCTTTAACCAGAAAGACGATAAAGAACCAG
892384 TACAGAACCTTACCAATCAAGACCGTCCATTAGGTGTTGAGCTTCAGCAACATCCAGACCAACCT
1 TACAGAACCTTACCAATCAAGACCGTCCATTAGGTGTTGAGCTTCAGCAACATCCAGACCAACCT
892449 TTCCTTGATACAAACTGAAGTCGAGAAATTTTAAATGAATTAGCATTCAAATTCTGCAAACGCCA
66 TTCCTTGATACAAACTGAAGTCGAGAAATTTTAAATGAATTAGCATTCAAATTCTGCAAACGCCA
892514 AGTTTATGGTAATTGAGAGAAAAGAATATACGTGTGTGTGTGTGTGTGTGTGTATACACAAAAAT
131 AGTTTATGGTAATTGAGAGAAAAGAATATAC------GTGTGTGTGTGTGTG--TACAC--AAAT
892579 AAAAGAACTGGAGAATGAAATTTTAGAGCTTTGAAACCTGAAGCCAGTTGAGAGATCTTCAGGGC
186 AAAAGAACTGGAGAATGAAATTTTAGAGCTTTGAAACCTGAAGCCAGTTGAGAGATCTTCAGGGC
892644 ATGATTTTTTATCTCAAAATCAACACCCCACCACTCCTGAAGAACAACAATTCCAGATGCATCTT
251 ATGATTTTTTATCTCAAAATCAACACCCCACCACTCCTGAAGAACAACAATTCCAGATGCATCTT
*
892709 ATTTGCCAACCACATATGCATCATATGCTTATCTCAGTCAAATAAGTTAGCAGAACAGACAATAA
316 ATTTGCCAACCACATATGCATCATATGCTTATCTCAGTCAAATAAGTTAGCAGAAAAGACAATAA
892774 AAGGAAGTGTATAAACATAAAAAATGTTTTGAGTAAGCATATGGCTTTAACCAGAAAGACGATAA
381 AAGGAAGTGTATAAACATAAAAAATGTTTTGAGTAAGCATATGGCTTTAACCAGAAAGACGATAA
892839 AGAACCAG
446 AGAACCAG
892847 TACAGAAC
1 TACAGAAC
892855 TTCTTTGAGC
Statistics
Matches: 455, Mismatches: 6, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
453 159 0.35
459 15 0.03
461 5 0.01
463 276 0.61
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (453 bp):
TACAGAACCTTACCAATCAAGACCGTCCATTAGGTGTTGAGCTTCAGCAACATCCAGACCAACCT
TTCCTTGATACAAACTGAAGTCGAGAAATTTTAAATGAATTAGCATTCAAATTCTGCAAACGCCA
AGTTTATGGTAATTGAGAGAAAAGAATATACGTGTGTGTGTGTGTGTACACAAATAAAAGAACTG
GAGAATGAAATTTTAGAGCTTTGAAACCTGAAGCCAGTTGAGAGATCTTCAGGGCATGATTTTTT
ATCTCAAAATCAACACCCCACCACTCCTGAAGAACAACAATTCCAGATGCATCTTATTTGCCAAC
CACATATGCATCATATGCTTATCTCAGTCAAATAAGTTAGCAGAAAAGACAATAAAAGGAAGTGT
ATAAACATAAAAAATGTTTTGAGTAAGCATATGGCTTTAACCAGAAAGACGATAAAGAACCAG
Found at i:894784 original size:24 final size:21
Alignment explanation
Indices: 894731--894771 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
894721 AAATTAAATG
894731 ATAAATTTAA-ATATAATATT
1 ATAAATTTAATATATAATATT
894751 ATAAA-TTAATATATATATATT
1 ATAAATTTAATATATA-ATATT
894772 CTTTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAATTTAATATATAATATT
Found at i:896438 original size:13 final size:13
Alignment explanation
Indices: 896420--896447 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
896410 GCTTTGTCAG
896420 ACTTCTCAAACCT
1 ACTTCTCAAACCT
896433 ACTTCTCAAACCT
1 ACTTCTCAAACCT
896446 AC
1 AC
896448 AGGTGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (13 bp):
ACTTCTCAAACCT
Found at i:898351 original size:20 final size:20
Alignment explanation
Indices: 898310--898351 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
898300 GAAACTAAAA
* * *
898310 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGAATTTAAGTT
898330 TCGCGTTGCGAATTTAAGTT
1 TCGCGTTGCGAATTTAAGTT
898350 TC
1 TC
898352 AGAAACTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAAGTT
Found at i:900592 original size:21 final size:21
Alignment explanation
Indices: 900497--900592 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 21
900487 GCCTGATGCA
* *
900497 CCTATCATCATTCAAGAGGCG
1 CCTATCATCGTTCAAGAGGCC
* *
900518 TCT-CCTATCGTTCAAGAGGCC
1 CCTATC-ATCGTTCAAGAGGCC
* *
900539 CCTATCATC-ATCGAAGAAGCC
1 CCTATCATCGTTC-AAGAGGCC
** *
900560 CCTCCCACCGTTCAAGAGGCC
1 CCTATCATCGTTCAAGAGGCC
*
900581 TCTATCATCGTT
1 CCTATCATCGTT
900593 TAAGTGGTCC
Statistics
Matches: 54, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
20 3 0.06
21 48 0.89
22 3 0.06
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (21 bp):
CCTATCATCGTTCAAGAGGCC
Found at i:902028 original size:14 final size:14
Alignment explanation
Indices: 902009--902048 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
901999 TTTTGATTAA
902009 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
902023 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
902037 TTGATTTGTAAA
1 TTGATTTGTAAA
902049 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:902183 original size:20 final size:20
Alignment explanation
Indices: 902158--902232 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
902148 TTGAAGGTAC
902158 AAATTCGCAACGCGAAAGTT
1 AAATTCGCAACGCGAAAGTT
* * *
902178 AAATTCTCAAAGCGAAAGTC
1 AAATTCGCAACGCGAAAGTT
*
902198 AAATTCGTAACGCGAAA-TT
1 AAATTCGCAACGCGAAAGTT
902217 CAAATTCGCAACGCGA
1 -AAATTCGCAACGCGA
902233 TTTTTGGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 1 0.02
20 45 0.98
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAGTT
Found at i:902212 original size:40 final size:40
Alignment explanation
Indices: 902157--902232 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
902147 GTTGAAGGTA
*
902157 CAAATTCGCAACGCGAAAGTT-AAATTCTCAAAGCGAAAGT
1 CAAATTCGCAACGCGAAA-TTCAAATTCGCAAAGCGAAAGT
* *
902197 CAAATTCGTAACGCGAAATTCAAATTCGCAACGCGA
1 CAAATTCGCAACGCGAAATTCAAATTCGCAAAGCGA
902233 TTTTTGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (40 bp):
CAAATTCGCAACGCGAAATTCAAATTCGCAAAGCGAAAGT
Found at i:902491 original size:39 final size:39
Alignment explanation
Indices: 902437--902523 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
902427 TCAAGTTGTA
* *
902437 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTCGGCACCATATGAGATTTG
*
902476 GATTTTGATTTCCTTTTGCTCGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTCGGCACCATATGAGATTTG
902515 GATTTTGAT
1 GATTTTGAT
902524 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTCGGCACCATATGAGATTTG
Found at i:902889 original size:24 final size:24
Alignment explanation
Indices: 902826--902878 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
902816 AGTGGAGCCG
*
902826 AAATTTATATTGAAATTCAAACTC
1 AAATTTAAATTGAAATTCAAACTC
*
902850 AAATTTAAATTTAAATTCAAACTC
1 AAATTTAAATTGAAATTCAAACTC
*
902874 CAATT
1 AAATT
902879 ACATATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATTTAAATTGAAATTCAAACTC
Found at i:903291 original size:25 final size:25
Alignment explanation
Indices: 903257--903306 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
903247 ATTATTTTTC
*
903257 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
903282 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
903307 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:903420 original size:20 final size:20
Alignment explanation
Indices: 903397--903455 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
903387 AATAAGTGTT
*
903397 GCGATAGTCAAATTTGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
903417 GCGAAAGTCAAATTCGCTAC
1 GCGATAGTCAAATTCGCAAC
*
903437 ACGATAGTCAAATTCGCAA
1 GCGATAGTCAAATTCGCAA
903456 GGCTTATTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:903757 original size:18 final size:18
Alignment explanation
Indices: 903734--903769 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
903724 AAGCCGGTTG
*
903734 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
903752 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
903770 CCTTTTGCTT
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:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:906016 original size:24 final size:24
Alignment explanation
Indices: 905989--906056 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
905979 CCACCACATC
905989 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
906013 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
906037 ATCAAATTTCGAATATTGAC
1 ATCAAAATCCGAGTATTGAC
906057 TAGTACTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:906945 original size:19 final size:19
Alignment explanation
Indices: 906921--907006 Score: 129
Period size: 19 Copynumber: 4.5 Consensus size: 19
906911 CTAAAACCTA
* *
906921 TTGCGAAATT-AAATTCGCG
1 TTGCGAATTTGAAATTC-AG
*
906940 TTGCGAATTTGAAATTTAG
1 TTGCGAATTTGAAATTCAG
906959 TTGCGAATTTGAAATTCAG
1 TTGCGAATTTGAAATTCAG
906978 TTGCGAATTTGAAATTCAG
1 TTGCGAATTTGAAATTCAG
906997 TTGCGAATTT
1 TTGCGAATTT
907007 TTGATCACTG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
19 57 0.92
20 5 0.08
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.38
Consensus pattern (19 bp):
TTGCGAATTTGAAATTCAG
Found at i:910401 original size:4 final size:4
Alignment explanation
Indices: 910387--910837 Score: 835
Period size: 4 Copynumber: 114.5 Consensus size: 4
910377 CAATAATTTA
*
910387 ATGT GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
910435 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
910483 AGGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
910531 ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT A--T ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
910574 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
910621 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
910669 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
910717 ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
910764 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
910812 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
910838 AAGAGTTACT
Statistics
Matches: 436, Mismatches: 4, Indels: 14
0.96 0.01 0.03
Matches are distributed among these distances:
2 6 0.01
3 3 0.01
4 427 0.98
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:916047 original size:52 final size:52
Alignment explanation
Indices: 915969--916077 Score: 211
Period size: 52 Copynumber: 2.1 Consensus size: 52
915959 CTAAATGTCT
915969 ACTTCCAGACCAGTTCCTGATTTTATTTTTTGCACCCTGCAGCATTCTGAAA
1 ACTTCCAGACCAGTTCCTGATTTTATTTTTTGCACCCTGCAGCATTCTGAAA
916021 ACTTCCAGACCAGTTCCTGATTTTATTTTTTGCACCCTGCAGCATTCTGAAA
1 ACTTCCAGACCAGTTCCTGATTTTATTTTTTGCACCCTGCAGCATTCTGAAA
916073 A-TTCC
1 ACTTCC
916078 CCACTATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 4 0.07
52 53 0.93
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.37
Consensus pattern (52 bp):
ACTTCCAGACCAGTTCCTGATTTTATTTTTTGCACCCTGCAGCATTCTGAAA
Found at i:920162 original size:45 final size:44
Alignment explanation
Indices: 920112--920214 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
920102 GGTAGACCTA
* *
920112 GGTCACACAACATCAACATCTCCCAAGTATCTCAGGCGAGGTCCG
1 GGTCACACAACATCAACACCTCCCAA-TACCTCAGGCGAGGTCCG
* * * * * *
920157 GGTCACATAGCATCAGCACCTCCCAATACCTTAGGCTAGGTTCG
1 GGTCACACAACATCAACACCTCCCAATACCTCAGGCGAGGTCCG
*
920201 AGTCACACAACATC
1 GGTCACACAACATC
920215 GCCACCTTGC
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
44 25 0.53
45 22 0.47
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (44 bp):
GGTCACACAACATCAACACCTCCCAATACCTCAGGCGAGGTCCG
Found at i:924591 original size:16 final size:16
Alignment explanation
Indices: 924570--924621 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 16
924560 TTAAATTATA
924570 TTATTAAAATAATATT
1 TTATTAAAATAATATT
924586 TTATTATATTAAATAATTATT
1 TTA-T-TA--AAATAA-TATT
*
924607 TTATTAGAATAATAT
1 TTATTAAAATAATAT
924622 AGTGTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
16 6 0.20
17 6 0.20
18 2 0.07
19 2 0.07
20 7 0.23
21 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTATTAAAATAATATT
Found at i:924595 original size:21 final size:21
Alignment explanation
Indices: 924571--924612 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
924561 TAAATTATAT
924571 TATTAAAATAA-TATTTTATTA
1 TATT-AAATAATTATTTTATTA
924592 TATTAAATAATTATTTTATTA
1 TATTAAATAATTATTTTATTA
924613 GAATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTAAATAATTATTTTATTA
Found at i:927340 original size:22 final size:20
Alignment explanation
Indices: 927304--927346 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
927294 TTTAATTCGT
927304 TTTGACTAAAATTTCATAAA
1 TTTGACTAAAATTTCATAAA
*
927324 TTTGACTTACAAATTTCTTAAA
1 TTTGAC-TA-AAATTTCATAAA
927346 T
1 T
927347 GAAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 2 0.10
22 12 0.60
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTGACTAAAATTTCATAAA
Found at i:928203 original size:147 final size:146
Alignment explanation
Indices: 927924--928232 Score: 557
Period size: 147 Copynumber: 2.1 Consensus size: 146
927914 ATCATGTAAT
*
927924 ATCTAAGAAATTATTGATAATAGTATTCCTACTATTTATATGTAAAAAAAATGCCAGTGTTGATA
1 ATCTAA-AAATAATTGATAATAGTATTCCTACTATTTATATGTAAAAAAAATGCCAGTGTTGATA
927989 AAAGATTGTTATCCCAAACAAAGTTCACTCAAGTCAGACAAAATCTTTTTTCTTTTCAAAAGGTA
65 AAAGATTGTTATCCCAAACAAAGTTCACTCAAGTCAGAC-AAATCTTTTTTCTTTTCAAAAGGTA
928054 TATATAACATGCAGACAG
129 TATATAACATGCAGACAG
928072 ATCTAAAAATAATTGATAATAGTATTCCTACTATTTATATGTAAAAAAAAAATGCCAGTGTTGAT
1 ATCTAAAAATAATTGATAATAGTATTCCTACTATTTATATGT--AAAAAAAATGCCAGTGTTGAT
*
928137 AAAAGATTGTTATCCCAAACAAAGTTCCCTCAAGTCAGAC-AATCTTTTTTCTTTTCAAAAGGTA
64 AAAAGATTGTTATCCCAAACAAAGTTCACTCAAGTCAGACAAATCTTTTTTCTTTTCAAAAGGTA
928201 TATATAACATGCAGACAG
129 TATATAACATGCAGACAG
928219 ATCTAAAAATAATT
1 ATCTAAAAATAATT
928233 TTAAGATCAA
Statistics
Matches: 157, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
147 91 0.58
148 6 0.04
149 60 0.38
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (146 bp):
ATCTAAAAATAATTGATAATAGTATTCCTACTATTTATATGTAAAAAAAATGCCAGTGTTGATAA
AAGATTGTTATCCCAAACAAAGTTCACTCAAGTCAGACAAATCTTTTTTCTTTTCAAAAGGTATA
TATAACATGCAGACAG
Found at i:928269 original size:19 final size:19
Alignment explanation
Indices: 928217--928258 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
928207 ACATGCAGAC
*
928217 AGATCTAAAAATAATT-TTA
1 AGATCAAAAAAT-ATTATTA
928236 AGATCAAAAAATATTATTA
1 AGATCAAAAAATATTATTA
928255 AGAT
1 AGAT
928259 GAAAGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (19 bp):
AGATCAAAAAATATTATTA
Found at i:928924 original size:36 final size:35
Alignment explanation
Indices: 928884--928983 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 35
928874 AATTTAGAAA
928884 TATATATAATATA-ATTTTAAAATCATTTTGAAAAC
1 TATATATAATATAGATTTTAAAA-CATTTTGAAAAC
*
928919 T-TATATATATATAGGTTTTGAAAACATTTTTGAAAAC
1 TATATATA-ATATAGATTTT-AAAACA-TTTTGAAAAC
* *
928956 -ATATATATTATAGTTTTTAAAACATTTT
1 TATATATAATATAGATTTTAAAACATTTT
928984 TTTTAAATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
34 10 0.18
35 12 0.21
36 15 0.26
37 20 0.35
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (35 bp):
TATATATAATATAGATTTTAAAACATTTTGAAAAC
Found at i:928931 original size:35 final size:35
Alignment explanation
Indices: 928803--928983 Score: 126
Period size: 36 Copynumber: 5.1 Consensus size: 35
928793 ATATATACAT
* * *
928803 ATTTTGAAACTACGTATATAATATATAGTTTTTAATA-
1 ATTTTGAAA--ACATATAT-ATATATAGATTTTAAAAC
* * *
928840 GTTTT-AAAACTATATA-ATATATAG-TTTAAAAAAA
1 ATTTTGAAAAC-ATATATATATATAGATTT-TAAAAC
* *
928874 AATTT-AGAA-ATATATATAATATA-ATTTTAAAATC
1 ATTTTGAAAACATATATAT-ATATAGATTTTAAAA-C
* *
928908 ATTTTGAAAACTTATATATATATAGGTTTTGAAAAC
1 ATTTTGAAAACATATATATATATAGATTTT-AAAAC
*
928944 ATTTTTGAAAACATATATAT-TATAGTTTTTAAAAC
1 A-TTTTGAAAACATATATATATATAGATTTTAAAAC
928979 ATTTT
1 ATTTT
928984 TTTTAAATAT
Statistics
Matches: 117, Mismatches: 15, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
32 8 0.07
33 17 0.15
34 24 0.21
35 18 0.15
36 25 0.21
37 25 0.21
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (35 bp):
ATTTTGAAAACATATATATATATAGATTTTAAAAC
Found at i:928986 original size:37 final size:36
Alignment explanation
Indices: 928799--929011 Score: 140
Period size: 35 Copynumber: 5.9 Consensus size: 36
928789 TTATATATAT
*
928799 ACATATTTTGAAACTACGTATATAATATATAGTTTTT--A
1 ACAT-TTTTGAAA--ACATATAT-ATATATAGTTTTTAAA
* * **
928837 ATAGTTTT-AAAACTATATA-ATATATAGTTTAAAAA
1 ACATTTTTGAAAAC-ATATATATATATAGTTTTTAAA
* * * * *
928872 AAAATTTAG-AAATATATATA-ATATA-ATTTTAAA
1 ACATTTTTGAAAACATATATATATATAGTTTTTAAA
* *
928905 ATCA-TTTTGAAAACTTATATATATATAGGTTTTGAAA
1 A-CATTTTTGAAAACATATATATATATA-GTTTTTAAA
928942 ACATTTTTGAAAACATATATAT-TATAGTTTTTAAA
1 ACATTTTTGAAAACATATATATATATAGTTTTTAAA
***
928977 ACATTTTTTTTAA-ATATATATTATATAGTATTTTA
1 ACATTTTTGAAAACATATATA-TATATAGT-TTTTA
929012 TTTTTTATTT
Statistics
Matches: 138, Mismatches: 23, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
33 21 0.15
34 29 0.21
35 38 0.28
36 15 0.11
37 33 0.24
38 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
ACATTTTTGAAAACATATATATATATAGTTTTTAAA
Found at i:929044 original size:18 final size:18
Alignment explanation
Indices: 929015--929061 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
929005 TATTTTATTT
*
929015 TTTATTTATTTCTTGTTTA
1 TTTATTTATTT-TCGTTTA
929034 -TTA-TTATTTTCGTTTA
1 TTTATTTATTTTCGTTTA
929050 TTTATTTATTTT
1 TTTATTTATTTT
929062 TTAGGTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.24
17 9 0.36
18 10 0.40
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTATTTATTTTCGTTTA
Found at i:929054 original size:14 final size:15
Alignment explanation
Indices: 929015--929056 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
929005 TATTTTATTT
*
929015 TTTATTTATTTCTTG
1 TTTATTTATTTCTCG
929030 TTTATTATTATTT-TCG
1 TTTA-T-TTATTTCTCG
929046 TTTATTTATTT
1 TTTATTTATTT
929057 ATTTTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.25
15 5 0.21
16 7 0.29
17 6 0.25
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTATTTATTTCTCG
Found at i:929658 original size:23 final size:24
Alignment explanation
Indices: 929610--929658 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
929600 GAACAGAGAG
* *
929610 AACCGAGAGATATCAACAATACAC
1 AACCGAGAGATACCAACAATAAAC
*
929634 AACCGA-AGATACCAACAGTAAAC
1 AACCGAGAGATACCAACAATAAAC
929657 AA
1 AA
929659 AAGCATCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.53, C:0.24, G:0.12, T:0.10
Consensus pattern (24 bp):
AACCGAGAGATACCAACAATAAAC
Found at i:929842 original size:161 final size:163
Alignment explanation
Indices: 929665--929988 Score: 634
Period size: 161 Copynumber: 2.0 Consensus size: 163
929655 ACAAAAGCAT
929665 CAACACAAGCAAGCAAAACCCCAAAAATATCACATCAACACAAACACAAAAGACCCAGCCACACA
1 CAACACAAGCAAGCAAAACCCCAAAAATATCACATCAACACAAACACAAAAGACCCAGCCACACA
929730 TAAAA-ATCAAAGAACCAACCACAAAGCCGAAGAACTTGGGTAAAC-AAGGGACACCGACGAGGG
66 TAAAATATCAAAGAACCAACCACAAAGCCGAAGAACTTGGGTAAACGAAGGGACACCGACGAGGG
929793 GTAAAACATCGAAACTTATGCTCTAGATCTACG
131 GTAAAACATCGAAACTTATGCTCTAGATCTACG
929826 CAACACAAGCAAGCAAAACCCCAAAAATATCACATCAACACAAACACAAAAGACCCAGCCACACA
1 CAACACAAGCAAGCAAAACCCCAAAAATATCACATCAACACAAACACAAAAGACCCAGCCACACA
929891 TAAAATATCAAAGAACCAACCACAAAGCCGAAGAACTTGGGTAAACGAAGGGACACCGACGAGGG
66 TAAAATATCAAAGAACCAACCACAAAGCCGAAGAACTTGGGTAAACGAAGGGACACCGACGAGGG
929956 GTAAAACATCGAAACTTATGCTCTAGATCTACG
131 GTAAAACATCGAAACTTATGCTCTAGATCTACG
929989 TCGAGTCGTA
Statistics
Matches: 161, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 70 0.43
162 40 0.25
163 51 0.32
ACGTcount: A:0.47, C:0.27, G:0.15, T:0.11
Consensus pattern (163 bp):
CAACACAAGCAAGCAAAACCCCAAAAATATCACATCAACACAAACACAAAAGACCCAGCCACACA
TAAAATATCAAAGAACCAACCACAAAGCCGAAGAACTTGGGTAAACGAAGGGACACCGACGAGGG
GTAAAACATCGAAACTTATGCTCTAGATCTACG
Found at i:930467 original size:20 final size:21
Alignment explanation
Indices: 930439--930488 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
930429 TTTTATTTTA
* *
930439 ATTTCATAT-ATATATATATT
1 ATTTTATATAATATACATATT
930459 ATTTTATATACATATACATATT
1 ATTTTATATA-ATATACATATT
930481 ATTATTAT
1 ATT-TTAT
930489 TGATTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
22 13 0.52
23 4 0.16
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTATATAATATACATATT
Found at i:933214 original size:22 final size:22
Alignment explanation
Indices: 933189--933233 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
933179 CAACCAAATC
933189 ATGAAGAGAATAAGGAAAGTGG
1 ATGAAGAGAATAAGGAAAGTGG
933211 ATGAAGAGAATAAGGAAAGTGG
1 ATGAAGAGAATAAGGAAAGTGG
933233 A
1 A
933234 GTCACCGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.36, T:0.13
Consensus pattern (22 bp):
ATGAAGAGAATAAGGAAAGTGG
Found at i:935508 original size:84 final size:84
Alignment explanation
Indices: 935301--936336 Score: 1108
Period size: 84 Copynumber: 12.5 Consensus size: 84
935291 TAAACAAACT
* ** * *
935301 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
935366 CTCAGCTTCAAGGGCACATC
66 CTCAGCTCCAA-GGCACATC
*
935386 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
935451 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * *
935470 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAGGACC-CCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
935530 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * * ** *
935550 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
*
935614 GCTCAGCTCCAAGACACATC
65 GCTCAGCTCCAAGGCACATC
935634 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
935699 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * * * * * *
935718 ATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
935783 CTCAGCT-CAACGGCACATC
66 CTCAGCTCCAA-GGCACATC
* * **
935802 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGA-TCAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT-AC
* * *
935862 ACTCAGCTTCGAGGGCACATC
65 GCTCAGC-TCCAAGGCACATC
* * * * *
935883 ATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
935948 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * ** * *
935967 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
936028 CTCAACTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * *** ** * *
936048 ATTTACAGCATAACTCAAGGATAGAAGGGTTATCTG-TGACCAAAAGTCCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
936112 GCTCAGCT-CAACGGCACATC
65 GCTCAGCTCCAA-GGCACATC
* * * * ** * *
936132 ATTTCCAACATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
936193 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * *
936213 ATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
936278 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * *
936297 ATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
936337 AGACCCCCGA
Statistics
Matches: 786, Mismatches: 137, Indels: 57
0.80 0.14 0.06
Matches are distributed among these distances:
79 18 0.02
80 119 0.15
81 121 0.15
82 2 0.00
83 6 0.01
84 358 0.46
85 161 0.20
86 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:935953 original size:165 final size:165
Alignment explanation
Indices: 935301--936405 Score: 1527
Period size: 165 Copynumber: 6.7 Consensus size: 165
935291 TAAACAAACT
* *
935301 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT---G-CCAAAGACCCCCGAGTTCGATTACA
* * *
935366 CTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAA
935431 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
935470 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAGGA-CCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * ** *
935534 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACC
*
935599 TTTGAGTTCGACTACGCTCAGCTCCAAGACACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * ** * *
935634 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
* * * * * * *
935699 CTCAGC-TCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAA
*
935763 GACCTTTGAGTTCGACTATGCTCAGCT-CAACGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
*
935802 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATCACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
935867 GCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACC
935932 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
935967 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * ** * *
936032 ACTTCGAGGGCACATCATTTACAGCATAACTCAAG-GATAGAAGGGTTATCTGTGACCAAAAGTC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCA-AGAAGGGTTATCTGCCAACAAAAGAC
936096 CTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* *
936132 ATTTCCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * *
936197 GCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACC
* * *
936262 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
936297 ATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * * * *
936362 ACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGG
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGG
936406 TCTATTTGTC
Statistics
Matches: 830, Mismatches: 94, Indels: 28
0.87 0.10 0.03
Matches are distributed among these distances:
164 175 0.21
165 474 0.57
166 7 0.01
167 3 0.00
168 119 0.14
169 52 0.06
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:937127 original size:36 final size:36
Alignment explanation
Indices: 936991--937420 Score: 268
Period size: 37 Copynumber: 12.2 Consensus size: 36
936981 ATATATACAT
*
936991 ATTTTGAAACTACGTATATA-ATATAGTTTTT--AAT-
1 ATTTTGAAA--ACTTATATATATATAGTTTTTAAAATC
* ** *
937025 AGTTTTTAAAACTATA-ATATA--TAGTTTAAAAAAAC
1 A-TTTTGAAAACT-TATATATATATAGTTTTTAAAATC
*
937060 ATTTTAGAAAA-TATATATAATATATAATTTTTAAAATC
1 ATTTT-GAAAACT-TATAT-ATATATAGTTTTTAAAATC
937098 ATTTTGAAAACTTATATATATATAGTTTTTGAAAA-C
1 ATTTTGAAAACTTATATATATATAGTTTTT-AAAATC
* *
937134 ATTTTTGAAAACATATATAT-TATAGTTTTGAAAA-C
1 A-TTTTGAAAACTTATATATATATAGTTTTTAAAATC
* * *
937169 ATTTTTTTGAAAACATATAT-TATATAGTTTTGAAGAT-
1 A---TTTTGAAAACTTATATATATATAGTTTTTAAAATC
* * *
937206 ATTTTGAAACCATATATATTATATAGTTTTTAAAACC
1 ATTTTGAAAACTTATATA-TATATAGTTTTTAAAATC
*
937243 ATTTTGAAAACTTATATAATAAATAG-TTTTAAAATC
1 ATTTTGAAAACTTATAT-ATATATAGTTTTTAAAATC
* * ** *
937279 ATTTTG-AAATTTATATATATATAG--TTGAATTTT
1 ATTTTGAAAACTTATATATATATAGTTTTTAAAATC
* *
937312 TTTTTGGAAAC--ATATA-ATATAG-TTTTAAAA-C
1 ATTTTGAAAACTTATATATATATAGTTTTTAAAATC
* *
937343 GTTTTTGAAAAC-TATA-ACATATAG-TTTTAAAA-C
1 -ATTTTGAAAACTTATATATATATAGTTTTTAAAATC
* * *
937376 ATTTTTAAAA-TTATATAGTATATGGTTTTGAAAAT-
1 ATTTTGAAAACTTATATA-TATATAGTTTTTAAAATC
937411 ATTTTTGAAA
1 A-TTTTGAAA
937421 TATATATAGT
Statistics
Matches: 322, Mismatches: 41, Indels: 64
0.75 0.10 0.15
Matches are distributed among these distances:
31 6 0.02
32 38 0.12
33 34 0.11
34 44 0.14
35 37 0.11
36 63 0.20
37 83 0.26
38 17 0.05
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.45
Consensus pattern (36 bp):
ATTTTGAAAACTTATATATATATAGTTTTTAAAATC
Found at i:937140 original size:12 final size:12
Alignment explanation
Indices: 937123--937147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
937113 ATATATATAG
937123 TTTTTGAAAACA
1 TTTTTGAAAACA
937135 TTTTTGAAAACA
1 TTTTTGAAAACA
937147 T
1 T
937148 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:937140 original size:37 final size:35
Alignment explanation
Indices: 937055--937420 Score: 287
Period size: 37 Copynumber: 10.4 Consensus size: 35
937045 ATAGTTTAAA
* *
937055 AAAACATTTTAGAAAA-TATATATAATATATAATTTTT
1 AAAACATTTTTGAAAACT-TATAT-ATATAT-AGTTTT
937092 AAAATCA-TTTTGAAAACTTATATATATATAGTTTTT
1 AAAA-CATTTTTGAAAACTTATATATATATAG-TTTT
*
937128 GAAAACATTTTTGAAAACATATATAT-TATAGTTTT
1 -AAAACATTTTTGAAAACTTATATATATATAGTTTT
*
937163 GAAAACATTTTTTTGAAAACATATAT-TATATAGTTTT
1 -AAAACA--TTTTTGAAAACTTATATATATATAGTTTT
* * * *
937200 -GAAGATATTTTGAAACCATATATATTATATAGTTTTT
1 AAAACAT-TTTTGAAAACTTATATA-TATATAG-TTTT
*
937237 AAAACCA-TTTTGAAAACTTATATAATAAATAGTTTT
1 AAAA-CATTTTTGAAAACTTATAT-ATATATAGTTTT
* *
937273 AAAATCA-TTTTG-AAATTTATATATATATAG-TTG
1 AAAA-CATTTTTGAAAACTTATATATATATAGTTTT
**** *
937306 AATTTTTTTTTGGAAAC--ATATA-ATATAGTTTT
1 AAAACATTTTTGAAAACTTATATATATATAGTTTT
* *
937338 AAAACGTTTTTGAAAAC-TATA-ACATATAGTTTT
1 AAAACATTTTTGAAAACTTATATATATATAGTTTT
*
937371 AAAACATTTTT-AAAA-TTATATAGTATATGGTTTT
1 AAAACATTTTTGAAAACTTATATA-TATATAGTTTT
*
937405 GAAAATATTTTTGAAA
1 -AAAACATTTTTGAAA
937421 TATATATAGT
Statistics
Matches: 274, Mismatches: 30, Indels: 51
0.77 0.08 0.14
Matches are distributed among these distances:
31 6 0.02
32 28 0.10
33 34 0.12
34 34 0.12
35 34 0.12
36 43 0.16
37 88 0.32
38 6 0.02
39 1 0.00
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.45
Consensus pattern (35 bp):
AAAACATTTTTGAAAACTTATATATATATAGTTTT
Found at i:937348 original size:33 final size:34
Alignment explanation
Indices: 937311--937445 Score: 103
Period size: 33 Copynumber: 4.2 Consensus size: 34
937301 AGTTGAATTT
*
937311 TTTTTTGGAAAC-ATATA-ATATAGTTTTAAAAC-
1 TTTTTTGAAAACTATA-ACATATAGTTTTAAAACA
*
937343 GTTTTTGAAAACTATAACATATAGTTTTAAAACA
1 TTTTTTGAAAACTATAACATATAGTTTTAAAACA
* * * *
937377 -TTTTT-AAAATTATATAGTATATGGTTTTGAAA-A
1 TTTTTTGAAAACTATA-A-CATATAGTTTTAAAACA
937410 TATTTTTG-AAA-TAT---ATATAGTTTTAAAACA
1 T-TTTTTGAAAACTATAACATATAGTTTTAAAACA
937440 TTTTTT
1 TTTTTT
937446 TAAATATATA
Statistics
Matches: 86, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
29 17 0.20
30 2 0.02
32 19 0.22
33 25 0.29
34 15 0.17
35 8 0.09
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (34 bp):
TTTTTTGAAAACTATAACATATAGTTTTAAAACA
Found at i:937433 original size:29 final size:29
Alignment explanation
Indices: 937323--937456 Score: 101
Period size: 29 Copynumber: 4.3 Consensus size: 29
937313 TTTTGGAAAC
*
937323 ATATAATATAGTTTTAAAAC-GTTTTTGAAA
1 ATAT-ATATAGTTTTAAAACATTTTTTG-AA
**
937353 ACTATAACATATAGTTTTAAAACATTTTTAAAA
1 A-TAT---ATATAGTTTTAAAACATTTTTTGAA
*
937386 TTATATAGTATATGGTTTTGAAA-ATATTTTTGAA
1 --ATATA-TATA--GTTTTAAAACAT-TTTTTGAA
*
937420 ATATATATAGTTTTAAAACATTTTTTTAA
1 ATATATATAGTTTTAAAACATTTTTTGAA
937449 ATATATAT
1 ATATATAT
937457 TATATAGTAT
Statistics
Matches: 84, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
29 23 0.27
30 3 0.04
31 8 0.10
32 9 0.11
33 19 0.23
34 21 0.25
35 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (29 bp):
ATATATATAGTTTTAAAACATTTTTTGAA
Found at i:937491 original size:11 final size:10
Alignment explanation
Indices: 937467--937526 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
937457 TATATAGTAT
937467 TTTATTTTTA
1 TTTATTTTTA
*
937477 TTTATTTCTTG
1 TTTATTT-TTA
*
937488 TTTATTATTA
1 TTTATTTTTA
*
937498 TTTACTCATTTA
1 TTTA-T-TTTTA
937510 TTTA--TTTA
1 TTTATTTTTA
937518 TTTATTTTT
1 TTTATTTTT
937527 TAGGTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
8 8 0.20
10 16 0.40
11 9 0.22
12 7 0.17
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:938795 original size:27 final size:27
Alignment explanation
Indices: 938758--938814 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
938748 TTTAATTTCA
* * *
938758 TATATATATATATATATATATTATTTT
1 TATATACATATACATATATATTATTAT
*
938785 TATATACATATACATATTTATTATTAT
1 TATATACATATACATATATATTATTAT
938812 TAT
1 TAT
938815 TGATTATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TATATACATATACATATATATTATTAT
Found at i:943754 original size:2 final size:2
Alignment explanation
Indices: 943747--943784 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
943737 ATCAAATTGA
943747 AT AT 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 AT AT
943785 TGTATTAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:944541 original size:51 final size:51
Alignment explanation
Indices: 944477--944603 Score: 218
Period size: 51 Copynumber: 2.5 Consensus size: 51
944467 TTTATTTTAT
* *
944477 TTTAGTCATTGTTTATTTATGATTTAACTACTGTTATTTTATTTTATGCAA
1 TTTAGTCACTGTTTATTTCTGATTTAACTACTGTTATTTTATTTTATGCAA
* *
944528 TTTAGTCACTGTTTATTTCTGATTTAGCTATTGTTATTTTATTTTATGCAA
1 TTTAGTCACTGTTTATTTCTGATTTAACTACTGTTATTTTATTTTATGCAA
944579 TTTAGTCACTGTTTATTTCTGATTT
1 TTTAGTCACTGTTTATTTCTGATTT
944604 TGCTACTATT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.57
Consensus pattern (51 bp):
TTTAGTCACTGTTTATTTCTGATTTAACTACTGTTATTTTATTTTATGCAA
Found at i:944545 original size:25 final size:25
Alignment explanation
Indices: 944514--944596 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 25
944504 CTACTGTTAT
944514 TTTATTTTATGCAATTTAGTCACTG
1 TTTATTTTATGCAATTTAGTCACTG
* *
944539 TTTA-TTTCTG--ATTTAG-CTATTG
1 TTTATTTTATGCAATTTAGTC-ACTG
944561 TTATTTTATTTTATGCAATTTAGTCACTG
1 ----TTTATTTTATGCAATTTAGTCACTG
944590 TTTATTT
1 TTTATTT
944597 CTGATTTTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
21 1 0.02
22 9 0.20
24 5 0.11
25 11 0.24
26 4 0.09
27 5 0.11
29 9 0.20
30 1 0.02
ACGTcount: A:0.22, C:0.10, G:0.11, T:0.58
Consensus pattern (25 bp):
TTTATTTTATGCAATTTAGTCACTG
Found at i:944630 original size:15 final size:16
Alignment explanation
Indices: 944600--944631 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
944590 TTTATTTCTG
944600 ATTTTGCTACTATTTT
1 ATTTTGCTACTATTTT
944616 ATTTTGCTA-TATTTT
1 ATTTTGCTACTATTTT
944631 A
1 A
944632 GTCCTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
ATTTTGCTACTATTTT
Found at i:944917 original size:5 final size:5
Alignment explanation
Indices: 944907--944942 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
944897 ACCTTTTATC
944907 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
944943 GTCATTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:945002 original size:26 final size:26
Alignment explanation
Indices: 944973--945058 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 26
944963 TAACTACTGT
944973 TATTTTATTTTATGCAATTTAGTCAC
1 TATTTTATTTTATGCAATTTAGTCAC
* ** ***
944999 TATTTAATTTTGAT-TTATTTA-TTGT
1 TATTTTATTTT-ATGCAATTTAGTCAC
945024 TATTTTATTTTATGCAATTTAGTCAC
1 TATTTTATTTTATGCAATTTAGTCAC
945050 TA-TTTATTT
1 TATTTTATTT
945059 CTGATTTTGC
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
24 2 0.04
25 23 0.51
26 18 0.40
27 2 0.04
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
TATTTTATTTTATGCAATTTAGTCAC
Found at i:945015 original size:51 final size:51
Alignment explanation
Indices: 944920--945065 Score: 186
Period size: 51 Copynumber: 2.8 Consensus size: 51
944910 TTATTTTATT
** * * *
944920 TTATTTTATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAACTACTG
1 TTATTTTATTTTA-TGCAATTTAGTCACTATTTATTTATGATTTAACTACTG
** *
944972 TTATTTTATTTTATGCAATTTAGTCACTATTTAATTT-TGATTTATTTATTG
1 TTATTTTATTTTATGCAATTTAGTCACTATTT-ATTTATGATTTAACTACTG
*
945023 TTATTTTATTTTATGCAATTTAGTCACTATTTATTTCTGATTT
1 TTATTTTATTTTATGCAATTTAGTCACTATTTATTTATGATTT
945066 TGCTACTATT
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
50 4 0.05
51 63 0.75
52 17 0.20
ACGTcount: A:0.24, C:0.07, G:0.08, T:0.62
Consensus pattern (51 bp):
TTATTTTATTTTATGCAATTTAGTCACTATTTATTTATGATTTAACTACTG
Found at i:945092 original size:15 final size:16
Alignment explanation
Indices: 945062--945093 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
945052 TTTATTTCTG
945062 ATTTTGCTACTATTTT
1 ATTTTGCTACTATTTT
945078 ATTTTGCTA-TATTTT
1 ATTTTGCTACTATTTT
945093 A
1 A
945094 GCCCTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
ATTTTGCTACTATTTT
Found at i:945450 original size:51 final size:51
Alignment explanation
Indices: 945374--945518 Score: 209
Period size: 51 Copynumber: 2.8 Consensus size: 51
945364 TTTATCATTC
** * *
945374 TATTTTATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAACTACTGT
1 TATTTTATTTTA-TGCAATTTAGTCACTGTTTATTTATGATTTAACTACTGT
* * * *
945426 TATTTTATTTTATGCAATTTAGTCACTATTTATTTCTGATTTAGCTATTGT
1 TATTTTATTTTATGCAATTTAGTCACTGTTTATTTATGATTTAACTACTGT
945477 TATTTTATTTTATGCAATTTAGTCACTGTTTATTTATGATTT
1 TATTTTATTTTATGCAATTTAGTCACTGTTTATTTATGATTT
945519 TGCTACTATT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 71 0.86
52 12 0.14
ACGTcount: A:0.23, C:0.08, G:0.09, T:0.60
Consensus pattern (51 bp):
TATTTTATTTTATGCAATTTAGTCACTGTTTATTTATGATTTAACTACTGT
Found at i:945511 original size:25 final size:25
Alignment explanation
Indices: 945429--945511 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
945419 CTACTGTTAT
*
945429 TTTATTTTATGCAATTTAGTCACTA
1 TTTATTTTATGCAATTTAGTCACTG
* *
945454 TTTA-TTTCTG--ATTTAG-CTATTG
1 TTTATTTTATGCAATTTAGTC-ACTG
945476 TTATTTTATTTTATGCAATTTAGTCACTG
1 ----TTTATTTTATGCAATTTAGTCACTG
945505 TTTATTT
1 TTTATTT
945512 ATGATTTTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 18
0.66 0.07 0.27
Matches are distributed among these distances:
21 1 0.02
22 8 0.18
24 5 0.11
25 11 0.25
26 4 0.09
27 5 0.11
29 9 0.20
30 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (25 bp):
TTTATTTTATGCAATTTAGTCACTG
Found at i:945545 original size:15 final size:16
Alignment explanation
Indices: 945515--945546 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
945505 TTTATTTATG
945515 ATTTTGCTACTATTTT
1 ATTTTGCTACTATTTT
945531 ATTTTGCTA-TATTTT
1 ATTTTGCTACTATTTT
945546 A
1 A
945547 GTCCTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
ATTTTGCTACTATTTT
Found at i:945618 original size:453 final size:453
Alignment explanation
Indices: 944390--945640 Score: 2201
Period size: 462 Copynumber: 2.8 Consensus size: 453
944380 GTTTCTGAAG
*
944390 CCTTATATTTGTCGTGTTTTCGTATTTTGGTTACTGGACCTCCCTTTTTTGATTTAGTATACTTT
1 CCTTATATTTGTCGTGTTTTCGTATTTTGGTTACTGGACCTCCCTTTTTTGATTTATTATACTTT
944455 TTATCATTC-----TATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAACTACTGTTATT
66 TTATCATTCTATTTTATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAACTACTGTTATT
*
944515 TTATTTTATGCAATTTAGTCACTGTTTATTTCTGATTTAGCTATTGTTATTTTATTTTATGCAAT
131 TTATTTTATGCAATTTAGTCACTATTTATTTCTGATTTAGCTATTGTTATTTTATTTTATGCAAT
944580 TTAGTCACTGTTTATTTCTGATTTTGCTACTATTTTATTTTGCTATATTTTAGTCCTTTATTCAA
196 TTAGTCACTGTTTATTTCTGATTTTGCTACTATTTTATTTTGCTATATTTTAGTCCTTTATTCAA
944645 TATTTCAATTTCAGCCTTACTTTTTTGTTCGCTTCAATTTAGTCCTTTGTTTTCATTAATTGTTT
261 TATTTCAATTTCAGCCTTACTTTTTTGTTCGCTTCAATTTAGTCCTTTGTTTTCATTAATTGTTT
*
944710 TTTAGTTTGCCCTTTATTAATTTCAGCCTTATTTATGATGTTTTTTAGTTTTTTTGTAGGGACCA
326 TTTAGTTTGCCCTTCATTAATTTCAGCCTTATTTATGATGTTTTTTAGTTTTTTTGTAGGGACCA
944775 AAACTACTATTTTCTCTTTTCCTTATGTGTCTTTATTTTTAGGGGTTATTCGCGTTTTAGTCC
391 AAACTACTATTTTCTCTTTTCCTTATGTGTCTTTATTTTTAGGGGTTATTCGCGTTTTAGTCC
*
944838 CCTTATATTTGTCATGTTTTCGTATTTTGGTTACTGGACCT-CCTTTTTTGATTTATTATACCTT
1 CCTTATATTTGTCGTGTTTTCGTATTTTGGTTACTGGACCTCCCTTTTTTGATTTATTATA-C--
* *
944902 TTATCATTTTATTTTATTTTATTTTATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAAC
63 ---T--TTTTA--TCATTCTATTTTATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAAC
**
944967 TACTGTTATTTTATTTTATGCAATTTAGTCACTATTTAATTT-TGATTTATTTATTGTTATTTTA
121 TACTGTTATTTTATTTTATGCAATTTAGTCACTATTT-ATTTCTGATTTAGCTATTGTTATTTTA
* *
945031 TTTTATGCAATTTAGTCACTATTTATTTCTGATTTTGCTACTATTTTATTTTGCTATATTTTAGC
185 TTTTATGCAATTTAGTCACTGTTTATTTCTGATTTTGCTACTATTTTATTTTGCTATATTTTAGT
945096 CCTTTATTCAATATTTCAATTTCAGCCTTACTTTTTTGTTCGCTTCAATTTAGTCCTTTGTTTTC
250 CCTTTATTCAATATTTCAATTTCAGCCTTACTTTTTTGTTCGCTTCAATTTAGTCCTTTGTTTTC
* *
945161 ATTAATTGTTTTTTAGTTTGCCCTTCATTAATTTCAGCCTTATTTCTTATGTTTTTTAGTTTTTT
315 ATTAATTGTTTTTTAGTTTGCCCTTCATTAATTTCAGCCTTATTTATGATGTTTTTTAGTTTTTT
945226 TGTAGGGACCAAAACTACTATTTTCTCTTTTCCTTATGTGTCTTTATTTTTAGGGGTTATTCGCG
380 TGTAGGGACCAAAACTACTATTTTCTCTTTTCCTTATGTGTCTTTATTTTTAGGGGTTATTCGCG
945291 TTTTAGTCC
445 TTTTAGTCC
* * *
945300 CCTTATATTTGTTGTGTTTTCATATTTTGGTTACTGGATCTCCCTTTTTTGATTTATTATACTTT
1 CCTTATATTTGTCGTGTTTTCGTATTTTGGTTACTGGACCTCCCTTTTTTGATTTATTATACTTT
945365 TTATCATTCTATTTTATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAACTACTGTTATT
66 TTATCATTCTATTTTATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAACTACTGTTATT
945430 TTATTTTATGCAATTTAGTCACTATTTATTTCTGATTTAGCTATTGTTATTTTATTTTATGCAAT
131 TTATTTTATGCAATTTAGTCACTATTTATTTCTGATTTAGCTATTGTTATTTTATTTTATGCAAT
*
945495 TTAGTCACTGTTTATTTATGATTTTGCTACTATTTTATTTTGCTATATTTTAGTCCTTTATTCAA
196 TTAGTCACTGTTTATTTCTGATTTTGCTACTATTTTATTTTGCTATATTTTAGTCCTTTATTCAA
*
945560 TATTTCAATTTCAGCCTTACTTTTTTGTTCGCTTCAATTTAGTCATTTGTTTTCATTAATTGTTT
261 TATTTCAATTTCAGCCTTACTTTTTTGTTCGCTTCAATTTAGTCCTTTGTTTTCATTAATTGTTT
945625 TTTAGTTTGCCCTTCA
326 TTTAGTTTGCCCTTCA
945641 ATTTAAATTC
Statistics
Matches: 761, Mismatches: 24, Indels: 31
0.93 0.03 0.04
Matches are distributed among these distances:
447 18 0.02
448 41 0.05
452 4 0.01
453 261 0.34
455 10 0.01
457 5 0.01
462 399 0.52
463 23 0.03
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.57
Consensus pattern (453 bp):
CCTTATATTTGTCGTGTTTTCGTATTTTGGTTACTGGACCTCCCTTTTTTGATTTATTATACTTT
TTATCATTCTATTTTATTTTATTTTATTTTAGTCATTGTTTATTTATGATTTAACTACTGTTATT
TTATTTTATGCAATTTAGTCACTATTTATTTCTGATTTAGCTATTGTTATTTTATTTTATGCAAT
TTAGTCACTGTTTATTTCTGATTTTGCTACTATTTTATTTTGCTATATTTTAGTCCTTTATTCAA
TATTTCAATTTCAGCCTTACTTTTTTGTTCGCTTCAATTTAGTCCTTTGTTTTCATTAATTGTTT
TTTAGTTTGCCCTTCATTAATTTCAGCCTTATTTATGATGTTTTTTAGTTTTTTTGTAGGGACCA
AAACTACTATTTTCTCTTTTCCTTATGTGTCTTTATTTTTAGGGGTTATTCGCGTTTTAGTCC
Found at i:947951 original size:16 final size:16
Alignment explanation
Indices: 947927--947957 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
947917 TATTTCCAAA
947927 TCATGCATTAAAACAT
1 TCATGCATTAAAACAT
*
947943 TCATTCATTAAAACA
1 TCATGCATTAAAACA
947958 AAAATAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (16 bp):
TCATGCATTAAAACAT
Found at i:949446 original size:23 final size:23
Alignment explanation
Indices: 949420--949487 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
949410 GTGCCACTTA
* *
949420 TTTGTCCAGAATGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
949443 TTTGTCCCGAAGGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
*
949466 TTTGTCCCGAAGGACTACATAG
1 TTTGTCCCGAAGGACCACATAG
949488 AACCCTCAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (23 bp):
TTTGTCCCGAAGGACCACATAGG
Found at i:952306 original size:17 final size:17
Alignment explanation
Indices: 952284--952320 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
952274 AAGAGGCTTG
952284 GAATTCAGGTATGAATA
1 GAATTCAGGTATGAATA
952301 GAATTCAGGTATGAATA
1 GAATTCAGGTATGAATA
952318 GAA
1 GAA
952321 GCGAACAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.27
Consensus pattern (17 bp):
GAATTCAGGTATGAATA
Found at i:954068 original size:75 final size:74
Alignment explanation
Indices: 953898--954403 Score: 628
Period size: 74 Copynumber: 6.8 Consensus size: 74
953888 TAATACGAAT
* * * *
953898 ATTTATCTCACTCGAGATTGTTTTCCTTAAAAC-AATATTCATCTCGCTTGAGATAGTTTCACTT
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAT-TTTATCTCGCTTGAGATAGTTTCACTC
*
953962 GAAACTGAAG
65 GAAACAGAAG
* * * * *
953972 A-TTAGTCTCATTTGAGTTTGTTTTTCTTAAAACAAGATTTTACCTCGATTGATATAGTTTCACT
1 ATTTA-TCTCACTTGAGATTGTTTTTCTTAAAACAA-ATTTTATCTCGCTTGAGATAGTTTCACT
*
954036 CGAAACAGAAT
64 CGAAACAGAAG
* * ** * * *
954047 ATTCATTTCACTCAAGATTGTTTTTCTTACAACAAGA-TTCATCTTGCTTGAGATAGTTTTCACT
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-ATTTTATCTCGCTTGAGATAG-TTTCACT
* * *
954111 C-AATAAAAAAA
64 CGAA-ACAGAAG
954122 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGA-TTTATCTCGCTTGAGATAGTTTCACTC
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-ATTTTATCTCGCTTGAGATAGTTTCACTC
*
954186 GAAACAAAAG
65 GAAACAGAAG
* **
954196 ATTTATCTCACTCGAGATTGTTTTTCTTAAAACAAATTTTATCTCGCTTGAGATAGTTTCGTTCG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTATCTCGCTTGAGATAGTTTCACTCG
954261 AAACAGAAG
66 AAACAGAAG
* * *
954270 ATTTATCTCACTTGAGATTATTTTTCTTAAAATAAATTTTATCTCGCTTGAGATAGTTTCGCTCG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTATCTCGCTTGAGATAGTTTCACTCG
954335 AAACAGAAG
66 AAACAGAAG
* *
954344 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTCACCTCGCTTGAGGA-AGTTTC
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTATCTCGCTTGA-GATAGTTTC
954404 CCTTGAAATA
Statistics
Matches: 376, Mismatches: 47, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
73 4 0.01
74 245 0.65
75 123 0.33
76 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (74 bp):
ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTATCTCGCTTGAGATAGTTTCACTCG
AAACAGAAG
Found at i:954213 original size:38 final size:38
Alignment explanation
Indices: 954075--954366 Score: 217
Period size: 38 Copynumber: 7.8 Consensus size: 38
954065 TGTTTTTCTT
* ** *
954075 ACAACAAGATTCATCTTGCTTGAGATAGTTTTCACTC-AA
1 ACAA-AAGATTTATCTCACTTGAGATAG-TTTCTCTCGAA
* * * * *
954114 TAAAAAAAATTTATCTCACTTGAGATTGTTTTTCT-TAA
1 -ACAAAAGATTTATCTCACTTGAGATAGTTTCTCTCGAA
* * *
954152 A-ACAAGATTTATCTCGCTTGAGATAGTTTCACTCGAA
1 ACAAAAGATTTATCTCACTTGAGATAGTTTCTCTCGAA
* * * **
954189 ACAAAAGATTTATCTCACTCGAGATTGTTTTTCTTAAA
1 ACAAAAGATTTATCTCACTTGAGATAGTTTCTCTCGAA
* *
954227 AC-AAA-TTTTATCTCGCTTGAGATAGTTTCGT-TCGAA
1 ACAAAAGATTTATCTCACTTGAGATAGTTTC-TCTCGAA
* * *
954263 ACAGAAGATTTATCTCACTTGAGATTA-TTTTTCT-TAA
1 ACAAAAGATTTATCTCACTTGAGA-TAGTTTCTCTCGAA
* * *
954300 A-ATAAA-TTTTATCTCGCTTGAGATAGTTTCGCTCGAA
1 ACA-AAAGATTTATCTCACTTGAGATAGTTTCTCTCGAA
* *
954337 ACAGAAGATTTATCTCACTTGAGATTGTTT
1 ACAAAAGATTTATCTCACTTGAGATAGTTT
954367 TTCTTAAAAC
Statistics
Matches: 194, Mismatches: 45, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
35 2 0.01
36 71 0.37
37 21 0.11
38 77 0.40
39 20 0.10
40 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (38 bp):
ACAAAAGATTTATCTCACTTGAGATAGTTTCTCTCGAA
Found at i:954611 original size:59 final size:59
Alignment explanation
Indices: 954485--954619 Score: 155
Period size: 59 Copynumber: 2.3 Consensus size: 59
954475 AAAATAAACT
* * * *
954485 ACGTCTCACTTGAGGGATTAACATTTTATTTGTTCGATTCACAACACTTCGAATCAGTA
1 ACGTCTCACTTGAGGGATTAACATTTCATTTGCTCGATTCACAACACTTCGAAACAGCA
** * * * * *
954544 ACACCTCACTTGAGGGATTAACATTTCCTTTGCTCGATTCACACCATTTTGAAACAGCG
1 ACGTCTCACTTGAGGGATTAACATTTCATTTGCTCGATTCACAACACTTCGAAACAGCA
954603 ACGTCTCACATT-AGGGA
1 ACGTCTCAC-TTGAGGGA
954620 CCGACATTTC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
59 60 0.97
60 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (59 bp):
ACGTCTCACTTGAGGGATTAACATTTCATTTGCTCGATTCACAACACTTCGAAACAGCA
Found at i:963530 original size:20 final size:20
Alignment explanation
Indices: 963502--963556 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
963492 TCAGGTACGA
* **
963502 AGTACCGATACTGTTTTTAC
1 AGTATCGATACTGTTTGAAC
** *
963522 AGTATCGATACCATATGAAC
1 AGTATCGATACTGTTTGAAC
963542 AGTATCGATACTGTT
1 AGTATCGATACTGTT
963557 CATATGGTAC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTGTTTGAAC
Found at i:963851 original size:19 final size:20
Alignment explanation
Indices: 963822--963866 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
963812 TTATTTTGCA
*
963822 GAGAAAACATC-CCAATGGC
1 GAGAAAACATCTCCAACGGC
* *
963841 TAGAAATCATCTCCAACGGC
1 GAGAAAACATCTCCAACGGC
963861 GAGAAA
1 GAGAAA
963867 CAACCACAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.13
Consensus pattern (20 bp):
GAGAAAACATCTCCAACGGC
Found at i:964543 original size:40 final size:41
Alignment explanation
Indices: 964490--964572 Score: 159
Period size: 40 Copynumber: 2.0 Consensus size: 41
964480 AGTGAAAACT
964490 CTCAACCCGGTCAACAAGTCACCTTATTTCAATGGAGCAAA
1 CTCAACCCGGTCAACAAGTCACCTTATTTCAATGGAGCAAA
964531 CTCAA-CCGGTCAACAAGTCACCTTATTTCAATGGAGCAAA
1 CTCAACCCGGTCAACAAGTCACCTTATTTCAATGGAGCAAA
964571 CT
1 CT
964573 ATGTCTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (41 bp):
CTCAACCCGGTCAACAAGTCACCTTATTTCAATGGAGCAAA
Found at i:965804 original size:17 final size:17
Alignment explanation
Indices: 965784--965818 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
965774 GAAAAAGAAT
965784 TAATTTCTAAAAACAAC
1 TAATTTCTAAAAACAAC
965801 TAATTTCTAAAAACAAC
1 TAATTTCTAAAAACAAC
965818 T
1 T
965819 CATTATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (17 bp):
TAATTTCTAAAAACAAC
Found at i:968582 original size:20 final size:20
Alignment explanation
Indices: 968557--968594 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
968547 GCAGATAAAA
968557 CATCCCCAACGGCTAGAAAT
1 CATCCCCAACGGCTAGAAAT
*
968577 CATCCCCAACGGTTAGAA
1 CATCCCCAACGGCTAGAA
968595 GCGGAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.16
Consensus pattern (20 bp):
CATCCCCAACGGCTAGAAAT
Found at i:971120 original size:51 final size:51
Alignment explanation
Indices: 971044--971145 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
971034 TAAGGAAATG
*
971044 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGTTGAAATTCCTTGTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
971095 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
1 ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
971146 TCCCCCTGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (51 bp):
ATAGGCTGTAAAGAAATATCGGTTTGAACAGGCTGAAATTCCTTGTAACTA
Found at i:978981 original size:15 final size:16
Alignment explanation
Indices: 978954--978990 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
978944 CTTTATTATC
978954 TTATTTCATCTTTCGT
1 TTATTTCATCTTTCGT
*
978970 TTATTT-ATCTTTTGT
1 TTATTTCATCTTTCGT
978985 TTATTT
1 TTATTT
978991 TATTCTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTCATCTTTCGT
Found at i:980103 original size:333 final size:333
Alignment explanation
Indices: 979497--980162 Score: 1314
Period size: 333 Copynumber: 2.0 Consensus size: 333
979487 AATATGGACG
*
979497 CCGATGCTTTAGCAAAGGCTGTAATAGGCTAATTTTTATGTTGTTTGCTGTTTCAGTTTAGCATT
1 CCGATGCTTTAGCAAAGGCTGGAATAGGCTAATTTTTATGTTGTTTGCTGTTTCAGTTTAGCATT
*
979562 TGATTCCTGTTCGGGTGGGATTTATAGACTGTTGTAAGGGTTATTTCGAAGAGATTTATCGAGGT
66 TGATTCCTGCTCGGGTGGGATTTATAGACTGTTGTAAGGGTTATTTCGAAGAGATTTATCGAGGT
979627 TGTAATCTTATTTTCTTTTATGAAAATCTAAGGCGCTCTTTTCCTCCTTCCAATGATTAAGGAGC
131 TGTAATCTTATTTTCTTTTATGAAAATCTAAGGCGCTCTTTTCCTCCTTCCAATGATTAAGGAGC
979692 TTCTTTTCAAGATCCATTAATCAAGAAGAAGGTTTTTAATGAGGCCTTCTAATCTTATCAAAAAA
196 TTCTTTTCAAGATCCATTAATCAAGAAGAAGGTTTTTAATGAGGCCTTCTAATCTTATCAAAAAA
979757 AAATTCAGATTGAGAGGGGCTGGTATGGGAAGTGATTTCGGATGCTGAGGGATCCGGATTAGCCA
261 AAATTCAGATTGAGAGGGGCTGGTATGGGAAGTGATTTCGGATGCTGAGGGATCCGGATTAGCCA
979822 TGAAAAAA
326 TGAAAAAA
979830 CCGATGCTTTAGCAAAGGCTGGAATAGGCTAATTTTTATGTTGTTTGCTGTTTCAGTTTAGCATT
1 CCGATGCTTTAGCAAAGGCTGGAATAGGCTAATTTTTATGTTGTTTGCTGTTTCAGTTTAGCATT
979895 TGATTCCTGCTCGGGTGGGATTTATAGACTGTTGTAAGGGTTATTTCGAAGAGATTTATCGAGGT
66 TGATTCCTGCTCGGGTGGGATTTATAGACTGTTGTAAGGGTTATTTCGAAGAGATTTATCGAGGT
979960 TGTAATCTTATTTTCTTTTATGAAAATCTAAGGCGCTCTTTTCCTCCTTCCAATGATTAAGGAGC
131 TGTAATCTTATTTTCTTTTATGAAAATCTAAGGCGCTCTTTTCCTCCTTCCAATGATTAAGGAGC
980025 TTCTTTTCAAGATCCATTAATCAAGAAGAAGGTTTTTAATGAGGCCTTCTAATCTTATCAAAAAA
196 TTCTTTTCAAGATCCATTAATCAAGAAGAAGGTTTTTAATGAGGCCTTCTAATCTTATCAAAAAA
980090 AAATTCAGATTGAGAGGGGCTGGTATGGGAAGTGATTTCGGATGCTGAGGGATCCGGATTAGCCA
261 AAATTCAGATTGAGAGGGGCTGGTATGGGAAGTGATTTCGGATGCTGAGGGATCCGGATTAGCCA
980155 TGAAAAAA
326 TGAAAAAA
980163 AATAGAGTTG
Statistics
Matches: 331, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
333 331 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (333 bp):
CCGATGCTTTAGCAAAGGCTGGAATAGGCTAATTTTTATGTTGTTTGCTGTTTCAGTTTAGCATT
TGATTCCTGCTCGGGTGGGATTTATAGACTGTTGTAAGGGTTATTTCGAAGAGATTTATCGAGGT
TGTAATCTTATTTTCTTTTATGAAAATCTAAGGCGCTCTTTTCCTCCTTCCAATGATTAAGGAGC
TTCTTTTCAAGATCCATTAATCAAGAAGAAGGTTTTTAATGAGGCCTTCTAATCTTATCAAAAAA
AAATTCAGATTGAGAGGGGCTGGTATGGGAAGTGATTTCGGATGCTGAGGGATCCGGATTAGCCA
TGAAAAAA
Found at i:986022 original size:23 final size:23
Alignment explanation
Indices: 985996--986073 Score: 147
Period size: 23 Copynumber: 3.4 Consensus size: 23
985986 ATAACCAAGG
*
985996 AAGAACCAGTGCTATAATGAGCA
1 AAGACCCAGTGCTATAATGAGCA
986019 AAGACCCAGTGCTATAATGAGCA
1 AAGACCCAGTGCTATAATGAGCA
986042 AAGACCCAGTGCTATAATGAGCA
1 AAGACCCAGTGCTATAATGAGCA
986065 AAGACCCAG
1 AAGACCCAG
986074 CTTTACAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (23 bp):
AAGACCCAGTGCTATAATGAGCA
Found at i:987105 original size:80 final size:80
Alignment explanation
Indices: 986932--987114 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 80
986922 AGTTGTTTAT
** * **
986932 ATGG-AATGTCTTGAAGGTGCTTCAACATGCTGCCAAACTTGTTCCATATTCTAATAATTTTGTG
1 ATGGAAATGTCTTGAAAATGCTCCAACATGCTGCCAAACTTGTTCCATATTCTAATAACCTTGTG
* *
986996 TCGTGTTTTGTGAGC
66 CCGTGTTTTGTGACC
* * *
987011 -TGGAAATGCCTTGAAAATGCTCCAATATGCTGCCAAA-TATGTGT-CATATTCTAATAGCCTTG
1 ATGGAAATGTCTTGAAAATGCTCCAACATGCTGCCAAACT-TGT-TCCATATTCTAATAACCTTG
987073 TTGCCGTGTTTTGTG-CC
64 -TGCCGTGTTTTGTGACC
* *
987090 ATGGAAATGTGTTGAAAAAGCTCCA
1 ATGGAAATGTCTTGAAAATGCTCCA
987115 CTAAAACCGT
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 4 0.05
79 47 0.55
80 35 0.41
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (80 bp):
ATGGAAATGTCTTGAAAATGCTCCAACATGCTGCCAAACTTGTTCCATATTCTAATAACCTTGTG
CCGTGTTTTGTGACC
Found at i:989902 original size:23 final size:23
Alignment explanation
Indices: 989852--989905 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
989842 ATAACCAAGG
*
989852 AAGAACCAGTGCTATAATGAGCA
1 AAGACCCAGTGCTATAATGAGCA
989875 AAGACCCAGTGCTATAATGAGCA
1 AAGACCCAGTGCTATAATGAGCA
989898 AAGACCCA
1 AAGACCCA
989906 ACTTTACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (23 bp):
AAGACCCAGTGCTATAATGAGCA
Found at i:990947 original size:80 final size:79
Alignment explanation
Indices: 990791--990947 Score: 192
Period size: 79 Copynumber: 2.0 Consensus size: 79
990781 GTGCTTCAAC
* * *
990791 ATGCTGCCAAACTTGTTTCATATTCTAATAACCTTGTGCCGTGTTTTGTGAGCTGGAAATGCCTT
1 ATGCTGCCAAACTTGTGTCATATTCTAATAACCTTGTGCCGTGTTTTGTGACCTAGAAATGCCTT
*
990856 GAAAATGCTCCAAT
66 GAAAAAGCTCCAAT
* ** *
990870 ATGCTGCCAAA-TATGTGTCATATTCTAATAGCCTTGTTTTCGTGTTTTGTG-CCATAGAAATGT
1 ATGCTGCCAAACT-TGTGTCATATTCTAATAACCTTG-TGCCGTGTTTTGTGACC-TAGAAATGC
*
990933 GTTGAAAAAGCTCCA
63 CTTGAAAAAGCTCCA
990948 CTAAAACCGT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 1 0.02
79 33 0.50
80 32 0.48
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (79 bp):
ATGCTGCCAAACTTGTGTCATATTCTAATAACCTTGTGCCGTGTTTTGTGACCTAGAAATGCCTT
GAAAAAGCTCCAAT
Found at i:996782 original size:65 final size:65
Alignment explanation
Indices: 996713--996867 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 65
996703 TACACTAGGG
* * * *
996713 GTGCATCGGTACAC-TAATTACATTCAATGTTTCAAAAGAGCCAGGAGTGCATCGATGCATGG-T
1 GTGCATCGGTACACAAAATGA-ATTCAATGATTCAAAAGAGCCAAGAGTGCATCGATGCATGGCT
996776 CT
65 -T
* * * **
996778 GTGCATCGGTACACAAAATGAATTCGATGATTGAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATGAATTCAATGATTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTT
* *
996843 GTGCATCAGTACACAAAATGCATTC
1 GTGCATCGGTACACAAAATGAATTC
996868 GAAATGGGTG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 72 0.94
66 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGAATTCAATGATTCAAAAGAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:999511 original size:23 final size:22
Alignment explanation
Indices: 999471--999544 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
999461 CACAACAGAG
*
999471 TGCATCGATGCATATTCAAGGAA
1 TGCATCGATGCACATTCAAGG-A
* * *
999494 TGCATCGGTGCACCTTCATGG-
1 TGCATCGATGCACATTCAAGGA
* *
999515 TGTATCGATGCACATTTAAGGGA
1 TGCATCGATGCACATTCAA-GGA
999538 TGCATCG
1 TGCATCG
999545 GTACACTCTC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
21 14 0.36
22 2 0.05
23 23 0.59
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:1003738 original size:20 final size:20
Alignment explanation
Indices: 1003713--1003793 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
1003703 AATTTGGAAA
1003713 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1003733 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
1003754 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
1003774 TTCGCAACT-AGATACTGACT
1 ATCGCAA-TGCGATACTGACT
1003794 TTTGCAACGA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.04
20 30 0.61
21 15 0.31
22 2 0.04
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1003794 original size:20 final size:20
Alignment explanation
Indices: 1003764--1003807 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1003754 ATCGCAATGC
*
1003764 GATACTGACTTTCGCAACTA
1 GATACTGACTTTCGCAACGA
*
1003784 GATACTGACTTTTGCAACGA
1 GATACTGACTTTCGCAACGA
1003804 GATA
1 GATA
1003808 ATACATAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (20 bp):
GATACTGACTTTCGCAACGA
Found at i:1004350 original size:20 final size:20
Alignment explanation
Indices: 1004301--1004359 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1004291 TTTATTCTCT
* **
1004301 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
1004321 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
1004341 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
1004360 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:1005704 original size:18 final size:18
Alignment explanation
Indices: 1005678--1005725 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
1005668 TCCACTTCGG
*
1005678 GAGCCATCACCTCACCCA
1 GAGCTATCACCTCACCCA
1005696 GAGCTATCACCTCACCCA
1 GAGCTATCACCTCACCCA
1005714 GA-CTATACACCT
1 GAGCTAT-CACCT
1005726 TCATAACGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.29, C:0.44, G:0.10, T:0.17
Consensus pattern (18 bp):
GAGCTATCACCTCACCCA
Found at i:1006299 original size:19 final size:20
Alignment explanation
Indices: 1006256--1006300 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1006246 TGCAACACGA
1006256 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
1006276 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
1006295 AAATGA
1 AAATGA
1006301 AAATCACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:1006342 original size:19 final size:19
Alignment explanation
Indices: 1006315--1006428 Score: 86
Period size: 19 Copynumber: 6.5 Consensus size: 19
1006305 CACAACGACG
*
1006315 AAATTGCAATACGAAATGA
1 AAATCGCAATACGAAATGA
*
1006334 AAATCGC-A-ACG--A-CA
1 AAATCGCAATACGAAATGA
**
1006348 AAATCGCAACGCGAAATGA
1 AAATCGCAATACGAAATGA
* *
1006367 AAATCGTAATGCGAAATGA
1 AAATCGCAATACGAAATGA
*
1006386 AAATCGC-A-ACG--A-CA
1 AAATCGCAATACGAAATGA
*
1006400 AAATCGCAATGCGAAATGA
1 AAATCGCAATACGAAATGA
1006419 AAATCGCAAT
1 AAATCGCAAT
1006429 GCGATTTGTG
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
14 16 0.22
15 4 0.05
16 4 0.05
17 5 0.07
18 4 0.05
19 41 0.55
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.15
Consensus pattern (19 bp):
AAATCGCAATACGAAATGA
Found at i:1006372 original size:33 final size:33
Alignment explanation
Indices: 1006284--1006372 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
1006274 GGAAATGGCT
* *
1006284 ATCGCAATGCGAAATGAAAATCACAACGACGAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
1006317 ATTGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1006350 ATCGCAACGCGAAATGAAAATCG
1 ATCGCAATGCGAAATGAAAATCG
1006373 TAATGCGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1006382 original size:52 final size:52
Alignment explanation
Indices: 1006315--1006432 Score: 200
Period size: 52 Copynumber: 2.3 Consensus size: 52
1006305 CACAACGACG
* *
1006315 AAATTGCAATACGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATGA
* *
1006367 AAATCGTAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATGA
1006419 AAATCGCAATGCGA
1 AAATCGCAATGCGA
1006433 TTTGTGTTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.14
Consensus pattern (52 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATGA
Found at i:1006409 original size:85 final size:86
Alignment explanation
Indices: 1006264--1006427 Score: 249
Period size: 85 Copynumber: 1.9 Consensus size: 86
1006254 GAAAATGACT
*** * *
1006264 ATCGCAACGCGGAAATGGCTATCGCAATGCGAAATGAAAATCACAACGACGAAATTGCAATACGA
1 ATCGCAACGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAACGACAAAATCGCAATACGA
1006329 AATGAAAATCGCAACGACAAA
66 AATGAAAATCGCAACGACAAA
* * *
1006350 ATCGCAACGC-GAAATGAAAATCGTAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGA
1 ATCGCAACGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAACGACAAAATCGCAATACGA
1006414 AATGAAAATCGCAA
66 AATGAAAATCGCAA
1006428 TGCGATTTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 60 0.86
86 10 0.14
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (86 bp):
ATCGCAACGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAACGACAAAATCGCAATACGA
AATGAAAATCGCAACGACAAA
Found at i:1006463 original size:14 final size:14
Alignment explanation
Indices: 1006439--1006503 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
1006429 GCGATTTGTG
*
1006439 TTTCGCGTTGCGAT
1 TTTCTCGTTGCGAT
* *
1006453 TTTGTCGTTGCAAT
1 TTTCTCGTTGCGAT
1006467 TTTCATTTCGCATTGCGAT
1 TTTC---TCG--TTGCGAT
1006486 TTTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
1006500 TTTC
1 TTTC
1006504 ATTTCGCATT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
16 3 0.07
17 3 0.07
19 10 0.24
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.49
Consensus pattern (14 bp):
TTTCTCGTTGCGAT
Found at i:1006483 original size:33 final size:33
Alignment explanation
Indices: 1006439--1006514 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
1006429 GCGATTTGTG
* *
1006439 TTTCGCGTTGCGATTTTGTCGTTGCAATTTTCA
1 TTTCGCATTGCGATTTTCTCGTTGCAATTTTCA
*
1006472 TTTCGCATTGCGATTTTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCTCGTTGCAATTTTCA
1006505 TTTCGCATTG
1 TTTCGCATTG
1006515 TGATAGCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTCTCGTTGCAATTTTCA
Found at i:1006487 original size:19 final size:19
Alignment explanation
Indices: 1006460--1006514 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
1006450 GATTTTGTCG
*
1006460 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1006479 TTGCGATTTTC---TCG--
1 TTGCGATTTTCATTTCGCA
1006493 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1006512 TTG
1 TTG
1006515 TGATAGCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
14 11 0.37
16 3 0.10
17 3 0.10
19 13 0.43
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1006545 original size:20 final size:19
Alignment explanation
Indices: 1006486--1006557 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
1006476 GCATTGCGAT
* **
1006486 TTTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATAGTCA
* * *
1006505 TTTCGCATTGTGATAGCCA
1 TTTCGCGTTGCGATAGTCA
1006524 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATAGTCA
*
1006544 TTTTTGCGTTGCGA
1 -TTTCGCGTTGCGA
1006558 AAGTATGTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
19 16 0.39
20 22 0.54
21 3 0.07
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTCA
Found at i:1006977 original size:21 final size:20
Alignment explanation
Indices: 1006925--1006980 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
1006915 GACTCACCTG
*
1006925 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGGCCCCT
* **
1006945 CCAATCGTTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGGCCCCT
1006966 ATCATCCCTCAAGAG
1 -TCATCCCTCAAGAG
1006981 TCTCCCCCCA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.25, C:0.39, G:0.14, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGGCCCCT
Found at i:1006996 original size:42 final size:42
Alignment explanation
Indices: 1006925--1007013 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
1006915 GACTCACCTG
* *
1006925 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
* *
1006967 TCATCCCTCAAGAGTCTCCC-CCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTC-CCCTCCAACCGTTCAAGAGGCCACTA
1007009 TCATC
1 TCATC
1007014 GTTGAAAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
Done.