Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 28 of 190
Found at i:4750708 original size:186 final size:186
Alignment explanation
Indices: 4749640--4750959 Score: 1114
Period size: 186 Copynumber: 7.2 Consensus size: 186
4749630 ACTTGATGAA
* * *
4749640 CCAGAACGT-TTAGACTTGCTTGAACCTGATAAATAACCAGAACTTGTAGTGCCAGAACCTGATG
1 CCAGAAC-TCTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTGTAGTGCCAGAACCTGATG
** * *
4749704 TCGAGTCAGAAGTCTTAGAAGAGTTAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAA
65 AAGAGTCAGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAA
* * * *
4749769 CTTGTAGAAGAGCCAGAAGCATCGGAATTTGATGAATAGTCAGAAGTTGCAGAATAA
130 CTTGTAGAAGAGCCAGAAGCATCGGAACTTGATGAATAGTCAGAAGTTGTAGAAGAG
* * *
4749826 CCAGAACCCTTAGAATTGCTAGAACTTGATAAAGAACTC-GAACTTGTAGTGCCAGAATCTGATG
1 CCAGAACTCTTAGAATTGCTAGAACCTGATAAAGAAC-CAGAACTTGTAGTGCCAGAACCTGATG
* * * * * * * * *
4749890 AAGAGCCTGAACTCTTAGAAG-AGCTAGAATCTTTAGAATTGTTAGAACCTGATAAAGAGCCAAA
65 AAGAGTCAGAAGTCTTAGAAGAATC-AGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGA
* * * * * * * *
4749954 ACTTTTAGAAGAGTCA-AA--A---GAGC---CTGAAGAGCCTGAACTTGTAGAAGAG
129 ACTTGTAGAAGAGCCAGAAGCATCGGAACTTGATGAATAGTCAGAAGTTGTAGAAGAG
* * *
4750003 CCAGAACTCTTAGAACTGTTAGAACCTGATAAAGAACTAGAACTTGTAGTGCCAGAACCTGATGA
1 CCAGAACTCTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTGTAGTGCCAGAACCTGATGA
* * * * * *
4750068 TGAATCAGAAGTCTTAGAGGAGTTAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAAT
66 AGAGTCAGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAAC
* * **
4750133 TTGGAGCAGAGCCAGAAG--TGCTGGAACTTGATGAATAGTCAGAAGTTGTAGCCGAG
131 TTGTAGAAGAGCCAGAAGCAT-C-GGAACTTGATGAATAGTCAGAAGTTGTAGAAGAG
* * * * **
4750189 ACAGAACTCTTGGAATTGTTAGAACTTGATAAAGAATTAGAACTTGTAGTGCCAGAACCTGATGA
1 CCAGAACTCTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTGTAGTGCCAGAACCTGATGA
* * * *
4750254 AGAGTCTGAAGTCTTAGAAG-AGCTAGAACCTTTAGAATTACTAGAA-TCTGATATAGAACCAGA
66 AGAGTCAGAAGTCTTAGAAGAATC-AGAACCTTTAGAATTGCTAGAACT-TGATAAAGAACCAGA
* ** * * * *
4750317 ACCTT-TAGAAGAGCTAGAATAGC--CTAAACTTGAGGAAGAGCCA-AAGGTCGTAGAATG-G
129 A-CTTGTAGAAGAGCCAG-A-AGCATCGGAACTTGATGAATAGTCAGAA-GTTGTAGAA-GAG
* * * * *
4750375 CTAGAACTCTTAGAATTGCCAGAACCTGATAAAGAGCCAGAACTTATAGTGCCAG--CATAGATG
1 CCAGAACTCTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTGTAGTGCCAGAACCT-GATG
* * * *
4750438 ATGAGTCAGAAGTTTTAGAAGAGTTAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAA
65 AAGAGTCAGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAA
* *
4750503 CTTGTAGAAGAGCCAGAAGCATCGGAACTTGATGAATGGTCAGAAGTTGCAGAAGAG
130 CTTGTAGAAGAGCCAGAAGCATCGGAACTTGATGAATAGTCAGAAGTTGTAGAAGAG
* * * * * * * *
4750560 CTAGAAC-CTTTTGAATTGCTCGAATCTGATAAAGAACCAGAACTTATGGTTCCAGAAACTGATG
1 CCAGAACTC-TTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTGTAGTGCCAGAACCTGATG
* * * * *
4750624 AAGAGTTAGAAGTCTTAGAAGAAACATAACCTTTAGAATTGTTAGAACTTGATAAAGAACTAGAA
65 AAGAGTCAGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAA
* * * * * ** * * *
4750689 CTTATAGAAGAGTCAGAAGC-GCTGGAATTTGATTG-AGAGTTGGATGTTTTAGAGGAG
130 CTTGTAGAAGAGCCAGAAGCATC-GGAACTTGA-TGAATAGTCAGAAGTTGTAGAAGAG
* * * * * *
4750746 TCAGAAC-CCT----TT-CTAGAACCTGATGAAGAACCAGAACTTGTGGTGGCAGAACTTGATGA
1 CCAGAACTCTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTGTAGTGCCAGAACCTGATGA
* * *
4750805 AGAGTTAGAAGTCTTAGAAGAACCAAAATCC-TTAGAA-T--T-G--C----T--AGAACCAGAA
66 AGAGTCAGAAGTCTTAGAAGAATCAGAA-CCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAA
* * *** * * *
4750857 TTTTTAGAAGAGCCAGAAATGTCGGAACTTGATGAAGAATCAGAAGTTGTAGAAGAA
130 CTTGTAGAAGAGCCAGAAGCATCGGAACTTGATGAATAGTCAGAAGTTGTAGAAGAG
* *
4750914 CCAGAAC-CTTTAGAATTGCTAGAA-CTCGATGAAGAACCAAAACTTG
1 CCAGAACTC-TTAGAATTGCTAGAACCT-GATAAAGAACCAGAACTTG
4750960 ATGAAGAGTC
Statistics
Matches: 909, Mismatches: 179, Indels: 104
0.76 0.15 0.09
Matches are distributed among these distances:
167 2 0.00
168 54 0.06
169 2 0.00
170 1 0.00
173 4 0.00
174 25 0.03
176 1 0.00
177 136 0.15
178 2 0.00
179 1 0.00
180 73 0.08
181 4 0.00
183 7 0.01
184 8 0.01
185 144 0.16
186 434 0.48
187 9 0.01
188 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (186 bp):
CCAGAACTCTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTGTAGTGCCAGAACCTGATGA
AGAGTCAGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAAC
TTGTAGAAGAGCCAGAAGCATCGGAACTTGATGAATAGTCAGAAGTTGTAGAAGAG
Found at i:4750948 original size:36 final size:36
Alignment explanation
Indices: 4750908--4751028 Score: 97
Period size: 36 Copynumber: 3.4 Consensus size: 36
4750898 AGAAGTTGTA
4750908 GAAGAACCAGAACCTTTAGAATTGCTAGAACTCGAT
1 GAAGAACCAGAACCTTTAGAATTGCTAGAACTCGAT
* * ** * *
4750944 GAAGAACCA-AAACTTGATGAAGAGTCT-GAAGTC-TT
1 GAAGAACCAGAACCTTTA-GAATTG-CTAGAACTCGAT
* *
4750979 AGAAGAACCAGAA-CTCTTAGAATTGCTAGAACTTGAC
1 -GAAGAACCAGAACCT-TTAGAATTGCTAGAACTCGAT
*
4751016 AAAGAACCAGAAC
1 GAAGAACCAGAAC
4751029 TTGCGGTGCC
Statistics
Matches: 63, Mismatches: 14, Indels: 15
0.68 0.15 0.16
Matches are distributed among these distances:
35 9 0.14
36 48 0.76
37 6 0.10
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (36 bp):
GAAGAACCAGAACCTTTAGAATTGCTAGAACTCGAT
Found at i:4750959 original size:72 final size:72
Alignment explanation
Indices: 4750882--4751031 Score: 214
Period size: 72 Copynumber: 2.1 Consensus size: 72
4750872 GAAATGTCGG
**
4750882 AACTTGATGAAGAATCAGAAGT-TGTAGAAGAACCAGAAC-CTTTAGAATTGCTAGAACTCGATG
1 AACTTGATGAAGAATCAGAAGTCT-TAGAAGAACCAGAACTC-TTAGAATTGCTAGAACTCGACA
4750945 AAGAACCAA
64 AAGAACCAA
* * *
4750954 AACTTGATGAAGAGTCTGAAGTCTTAGAAGAACCAGAACTCTTAGAATTGCTAGAACTTGACAAA
1 AACTTGATGAAGAATCAGAAGTCTTAGAAGAACCAGAACTCTTAGAATTGCTAGAACTCGACAAA
*
4751019 GAACCAG
66 GAACCAA
4751026 AACTTG
1 AACTTG
4751032 CGGTGCCAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
72 68 0.97
73 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (72 bp):
AACTTGATGAAGAATCAGAAGTCTTAGAAGAACCAGAACTCTTAGAATTGCTAGAACTCGACAAA
GAACCAA
Found at i:4751069 original size:87 final size:92
Alignment explanation
Indices: 4750955--4751217 Score: 279
Period size: 99 Copynumber: 2.8 Consensus size: 92
4750945 AAGAACCAAA
* * *
4750955 ACTTGATGAAGAGTCT-GAAGTCTTAGAAGAACCAGAACTCTTAGAATTGCTAGAACTTGACAAA
1 ACTTGATGAAGAGT-TAGAAGTTTTAGAAGAACCAGAACCCTTAGAATTGCTAGAACTTGATAAA
*
4751019 GAACCAGAACTTGCG-GTGCCA-A-ACC
65 GAACCAGAACTTGCGAGAGCCAGACACC
* *
4751044 -C-TGATGAAGAGTTAGAAGTTTTAGAAGAACCAGAACCCTTAGAATTG-TCAAAACCTGATAAA
1 ACTTGATGAAGAGTTAGAAGTTTTAGAAGAACCAGAACCCTTAGAATTGCT-AGAACTTGATAAA
* * *
4751106 GAACCAGAATTTATCGAAGAGTCAGATGCACC
65 GAACCAGAACTT-GCG-AGAGCCAGA--CACC
* * * *
4751138 GGAACTTGATGAAGAGTTAGAAGTTGTAGAAGAGCCTGAACCCTTATAATTGCTAGAACTTGATA
1 ---ACTTGATGAAGAGTTAGAAGTTTTAGAAGAACCAGAACCCTTAGAATTGCTAGAACTTGATA
4751203 AAGAACCAGAACTTG
63 AAGAACCAGAACTTG
4751218 ATGAAGAGTC
Statistics
Matches: 142, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
86 2 0.01
87 63 0.44
88 3 0.02
90 4 0.03
91 1 0.01
94 3 0.02
98 1 0.01
99 64 0.45
100 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (92 bp):
ACTTGATGAAGAGTTAGAAGTTTTAGAAGAACCAGAACCCTTAGAATTGCTAGAACTTGATAAAG
AACCAGAACTTGCGAGAGCCAGACACC
Found at i:4751219 original size:72 final size:72
Alignment explanation
Indices: 4751139--4751286 Score: 226
Period size: 72 Copynumber: 2.1 Consensus size: 72
4751129 AGATGCACCG
* * *
4751139 GAACTTGATGAAGAGT-TAGAAGTTGTAGAAGAGCCTGAACCCTTATAATTGCTAGAACTTGATA
1 GAACTTGATGAAGAGTCT-GAAGTTGTAGAAGAACCAGAACCCTTAGAATTGCTAGAACTTGATA
4751203 AAGAACCA
65 AAGAACCA
* * *
4751211 GAACTTGATGAAGAGTCTGAAGTTTTAGAAGAATCAGAACCCTTAGAATTGCTAGAACTTGATGA
1 GAACTTGATGAAGAGTCTGAAGTTGTAGAAGAACCAGAACCCTTAGAATTGCTAGAACTTGATAA
4751276 AGAACCA
66 AGAACCA
4751283 GAAC
1 GAAC
4751287 CTGTTAAAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
72 68 0.99
73 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (72 bp):
GAACTTGATGAAGAGTCTGAAGTTGTAGAAGAACCAGAACCCTTAGAATTGCTAGAACTTGATAA
AGAACCA
Found at i:4751285 original size:18 final size:18
Alignment explanation
Indices: 4751264--4751314 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
4751254 TAGAATTGCT
* *
4751264 AGAACTTGATGAAGAACC
1 AGAACCTGATAAAGAACC
* *
4751282 AGAACCTGTTAAAGCACC
1 AGAACCTGATAAAGAACC
*
4751300 AGAACGTGATAAAGA
1 AGAACCTGATAAAGA
4751315 GTTAAAAGTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (18 bp):
AGAACCTGATAAAGAACC
Found at i:4751454 original size:36 final size:36
Alignment explanation
Indices: 4751414--4751483 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
4751404 CTAATAGAGA
* *
4751414 GTTAGAAGTTGTAGAAGAGTCAAAACCTTTAAAATT
1 GTTAGAACTTGTAGAAGAGGCAAAACCTTTAAAATT
*
4751450 GTTAGAACTTGTGGAAGAGGCAAAACCTTTAAAA
1 GTTAGAACTTGTAGAAGAGGCAAAACCTTTAAAA
4751484 GAACCGGATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (36 bp):
GTTAGAACTTGTAGAAGAGGCAAAACCTTTAAAATT
Found at i:4751627 original size:18 final size:18
Alignment explanation
Indices: 4751606--4751645 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4751596 CAGAATTTTA
*
4751606 AGAACTCTTAAAAGAGCT
1 AGAACCCTTAAAAGAGCT
4751624 AGAACCCTTAAAAGAGCT
1 AGAACCCTTAAAAGAGCT
4751642 AGAA
1 AGAA
4751646 TCTGTATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
AGAACCCTTAAAAGAGCT
Found at i:4753434 original size:23 final size:24
Alignment explanation
Indices: 4753394--4753438 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
4753384 AAAAAATTAA
4753394 AATTTATTAAATAAATTTAAATAT
1 AATTTATTAAATAAATTTAAATAT
**
4753418 AATTT-TTAAATTCATTTAAAT
1 AATTTATTAAATAAATTTAAAT
4753439 TTTGAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTTATTAAATAAATTTAAATAT
Found at i:4759881 original size:13 final size:14
Alignment explanation
Indices: 4759865--4759894 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4759855 GACTTTTGCC
4759865 TTTCTTTTT-TTTT
1 TTTCTTTTTCTTTT
4759878 TTTCTTTTTCTTTT
1 TTTCTTTTTCTTTT
4759892 TTT
1 TTT
4759895 GCAGACTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTCTTTT
Found at i:4761603 original size:37 final size:37
Alignment explanation
Indices: 4761562--4761636 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
4761552 ATTTTGTGCA
*
4761562 TTACATTATCATCACTAATAAAGGAATCCACAGTTTT
1 TTACATTATCATCACTAACAAAGGAATCCACAGTTTT
* *
4761599 TTACATTATCATCGCTGACAAAGGAATCCACAGTTTT
1 TTACATTATCATCACTAACAAAGGAATCCACAGTTTT
4761636 T
1 T
4761637 ATGCTCAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (37 bp):
TTACATTATCATCACTAACAAAGGAATCCACAGTTTT
Found at i:4775047 original size:36 final size:34
Alignment explanation
Indices: 4774998--4775091 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 34
4774988 AAATTTTTCA
* *
4774998 AAAAATTCAAAAAAATAAAAAAGTGAAATATTTTT
1 AAAAATT-AAAAAATTAAAAAACTGAAATATTTTT
* *
4775033 GAAAAATTATAAAAATTTAAAAACTGCAATATTTTT
1 -AAAAATTA-AAAAATTAAAAAACTGAAATATTTTT
4775069 -AAAATTAAAAAATTAAGAAAACT
1 AAAAATTAAAAAATTAA-AAAACT
4775092 TTTAAATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 8 0.16
34 13 0.25
35 1 0.02
36 29 0.57
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (34 bp):
AAAAATTAAAAAATTAAAAAACTGAAATATTTTT
Found at i:4775140 original size:17 final size:17
Alignment explanation
Indices: 4775116--4775164 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
4775106 AAAAAGTCTA
4775116 AAAT-TTTTTTAAAAAT
1 AAATATTTTTTAAAAAT
*
4775132 AAATATTTTAATAAAAAT
1 AAATATTTT-TTAAAAAT
* *
4775150 AACTATTTCTTAAAA
1 AAATATTTTTTAAAA
4775165 TTGAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 4 0.15
17 9 0.33
18 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATATTTTTTAAAAAT
Found at i:4775319 original size:17 final size:17
Alignment explanation
Indices: 4775299--4775346 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
4775289 AATCTTACAA
*
4775299 TTTTAATTTTTATATAT
1 TTTTAAATTTTATATAT
*
4775316 TTTTGAAATTTCATATAT
1 TTTT-AAATTTTATATAT
4775334 TTTTAAATTTTAT
1 TTTTAAATTTTAT
4775347 TGGATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTAAATTTTATATAT
Found at i:4775409 original size:35 final size:35
Alignment explanation
Indices: 4775350--4775420 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
4775340 ATTTTATTGG
* *
4775350 ATTTTTTATTAAAATTTTAAG-TTTTTTACTTTTT
1 ATTTTTCAGTAAAATTTTAAGTTTTTTTACTTTTT
*
4775384 ATTTTTCAGTAAATATTTTTAGTTTTTTTTACTTTTT
1 ATTTTTCAGTAAA-ATTTTAAG-TTTTTTTACTTTTT
4775421 TATTACGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 11 0.35
35 7 0.23
37 13 0.42
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (35 bp):
ATTTTTCAGTAAAATTTTAAGTTTTTTTACTTTTT
Found at i:4775629 original size:17 final size:17
Alignment explanation
Indices: 4775607--4775650 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4775597 TTTTTATTAA
* **
4775607 AATTTTTAGATTTTTTT
1 AATTTTTAAATTTTCAT
*
4775624 AATTTTAAAATTTTCAT
1 AATTTTTAAATTTTCAT
4775641 AATTTTTAAA
1 AATTTTTAAA
4775651 AATATTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
AATTTTTAAATTTTCAT
Found at i:4775646 original size:56 final size:54
Alignment explanation
Indices: 4775542--4775647 Score: 133
Period size: 56 Copynumber: 1.9 Consensus size: 54
4775532 AGAAAATTTA
* *
4775542 TTTTTACTAAAATTTTTTATTTTTTTAATTTCCCAAAATTTTTTATTTTTTGGAT
1 TTTTTACTAAAATTTTTGATTTTTTTAATTT-CCAAAATTTTTAATTTTTTGGAT
* *
4775597 TTTTTATTAAAATTTTTAGATTTTTTTAATTT-TAAAATTTTCATAATTTTT
1 TTTTTACTAAAATTTTT-GATTTTTTTAATTTCCAAAATTTT--TAATTTTT
4775648 AAAAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
54 8 0.18
55 16 0.36
56 20 0.45
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (54 bp):
TTTTTACTAAAATTTTTGATTTTTTTAATTTCCAAAATTTTTAATTTTTTGGAT
Found at i:4775647 original size:55 final size:54
Alignment explanation
Indices: 4775542--4775647 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 54
4775532 AGAAAATTTA
* * *
4775542 TTTTTACTAAAATTTTTTATTTTTTTAATTTCCCAAAATTTTTTATTTTTTGGAT
1 TTTTTACTAAAATTTTTGATTTTTTTAATTT-CCAAAATTTTATAATTTTTGGAT
* *
4775597 TTTTTATTAAAATTTTTAGATTTTTTTAATTT-TAAAATTTTCATAATTTTT
1 TTTTTACTAAAATTTTT-GATTTTTTTAATTTCCAAAATTTT-ATAATTTTT
4775648 AAAAATATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 8 0.18
55 23 0.52
56 13 0.30
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (54 bp):
TTTTTACTAAAATTTTTGATTTTTTTAATTTCCAAAATTTTATAATTTTTGGAT
Found at i:4775712 original size:37 final size:38
Alignment explanation
Indices: 4775625--4775718 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 38
4775615 GATTTTTTTA
* *
4775625 ATTTTAAAATTTTCATAATTTTTAAAAATATTTTAAAT
1 ATTTTAAAATTTTTATAATTTCTAAAAATATTTTAAAT
* * * *
4775663 ATTGT-AATTTTTTATAACTTTCT-ACAATATTTTAGAT
1 ATTTTAAAATTTTTATAA-TTTCTAAAAATATTTTAAAT
*
4775700 -TTTTAAAATTTTTTTAATT
1 ATTTTAAAATTTTTATAATT
4775719 CTTTTAATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
36 5 0.11
37 32 0.71
38 8 0.18
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.56
Consensus pattern (38 bp):
ATTTTAAAATTTTTATAATTTCTAAAAATATTTTAAAT
Found at i:4779755 original size:15 final size:16
Alignment explanation
Indices: 4779729--4779766 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4779719 ATATAATTTG
* *
4779729 ATTAATTTAATTTTAA
1 ATTAATTCAATTTAAA
4779745 A-TAATTCAATTTAAA
1 ATTAATTCAATTTAAA
4779760 ATTAATT
1 ATTAATT
4779767 AAACAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATTCAATTTAAA
Found at i:4782088 original size:52 final size:52
Alignment explanation
Indices: 4781947--4782093 Score: 172
Period size: 52 Copynumber: 2.8 Consensus size: 52
4781937 TATAACCATA
* * *
4781947 CAAACTTGCCCATTAAGAATC-TCTCTCATCTTAAAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTTCTTTC-TCTTAGAATTCTTCTCCTGTAAGT
* * * * *
4781999 CAAATTTGCCTATTAAGAATCTAT-TTCCTTTTAGAATTCTTCTCTTTTAAGT
1 CAAACTTGCCTATTAAGAATCT-TCTTTCTCTTAGAATTCTTCTCCTGTAAGT
* *
4782051 CAAACTTACCTATTAAGAATCTTCTTTCTCTTGGAATTCTTCT
1 CAAACTTGCCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCT
4782094 TTTGCAAGTC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
52 75 0.95
53 2 0.03
54 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.43
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTCCTGTAAGT
Found at i:4782433 original size:24 final size:24
Alignment explanation
Indices: 4782412--4782459 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4782402 AAACCTTTAG
4782412 CTCTTCCCACATCTCGAACTTTCAA
1 CTCTT-CCACATCTCGAACTTTCAA
*
4782437 CTCTTCCACATCTCGAACCTTCA
1 CTCTTCCACATCTCGAACTTTCA
4782460 GTTCTTTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.23, C:0.42, G:0.04, T:0.31
Consensus pattern (24 bp):
CTCTTCCACATCTCGAACTTTCAA
Found at i:4782450 original size:49 final size:49
Alignment explanation
Indices: 4782391--4782488 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
4782381 ACCATGCACT
* *
4782391 TTCCATATCTCAAACCTTTAGCTCTTCCCACATCTCGAA-CTTTCAACTC
1 TTCCACATCTCAAACCTTCAGCTCTTCCCACATCTCGAATC-TTCAACTC
* * * * *
4782440 TTCCACATCTCGAACCTTCAGTTCTTTCCATATCTTGAATCTTCAACTC
1 TTCCACATCTCAAACCTTCAGCTCTTCCCACATCTCGAATCTTCAACTC
4782489 CTCTCACGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 40 0.98
50 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.37
Consensus pattern (49 bp):
TTCCACATCTCAAACCTTCAGCTCTTCCCACATCTCGAATCTTCAACTC
Found at i:4782465 original size:24 final size:24
Alignment explanation
Indices: 4782391--4782512 Score: 91
Period size: 25 Copynumber: 5.0 Consensus size: 24
4782381 ACCATGCACT
* * *
4782391 TTCCATATCTCAAACCTTTAGCTC
1 TTCCACATCTCGAACCTTCAGCTC
* *
4782415 TTCCCACATCTCGAACTTTCAACTC
1 TT-CCACATCTCGAACCTTCAGCTC
*
4782440 TTCCACATCTCGAACCTTCAGTTC
1 TTCCACATCTCGAACCTTCAGCTC
* * * *
4782464 TTTCCATATCTTGAATCTTCAACTC
1 -TTCCACATCTCGAACCTTCAGCTC
* * * *
4782489 CTCTCACGTTTCGAACATTCAGCT
1 TTC-CACATCTCGAACCTTCAGCT
4782513 TTGATACCAC
Statistics
Matches: 74, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
24 23 0.31
25 51 0.69
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (24 bp):
TTCCACATCTCGAACCTTCAGCTC
Found at i:4783135 original size:52 final size:52
Alignment explanation
Indices: 4783073--4783202 Score: 190
Period size: 52 Copynumber: 2.5 Consensus size: 52
4783063 AATCCCTCTC
* *
4783073 CTCTTAGAATTCTTCTCTTGTAAGTCAAACTTGCCTATTAAGAATCTTTTTT
1 CTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCTATTAAGAATCTTCTTT
* **
4783125 CTTTTAGAATTCTTCTCTTACAAGTCAAACTTACCTATTAAGAATCTTCTTT
1 CTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCTATTAAGAATCTTCTTT
*
4783177 CTCTT-GAAATTCTTCTTTTGTAAGTC
1 CTCTTAG-AATTCTTCTCTTGTAAGTC
4783203 TTCTTATCCA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 1 0.01
52 67 0.99
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.46
Consensus pattern (52 bp):
CTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCTATTAAGAATCTTCTTT
Found at i:4783243 original size:11 final size:11
Alignment explanation
Indices: 4783227--4783257 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4783217 GCAATATCTG
4783227 ACAAATCTCAA
1 ACAAATCTCAA
*
4783238 ACAAATTTCAA
1 ACAAATCTCAA
4783249 ACAAATCTC
1 ACAAATCTC
4783258 TTATGAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:4783533 original size:25 final size:25
Alignment explanation
Indices: 4783505--4783623 Score: 127
Period size: 25 Copynumber: 4.8 Consensus size: 25
4783495 CACTTCTCAT
4783505 ATCTTAAACCTTT-AGCTCTTCCCAC
1 ATCTTAAA-CTTTCAGCTCTTCCCAC
*
4783530 ATCTTAAACTTTCAGCTCTTCCTAC
1 ATCTTAAACTTTCAGCTCTTCCCAC
*
4783555 ATCTCAAACTTTCAGCTCTT-CCAC
1 ATCTTAAACTTTCAGCTCTTCCCAC
* * *
4783579 ATCTTGAACCTTT-AGCTCTTTCCAT
1 ATCTT-AAACTTTCAGCTCTTCCCAC
* * *
4783604 ATCTTGAATTTTCAACTCTT
1 ATCTTAAACTTTCAGCTCTT
4783624 TACACGTTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
24 22 0.28
25 58 0.73
ACGTcount: A:0.24, C:0.31, G:0.05, T:0.40
Consensus pattern (25 bp):
ATCTTAAACTTTCAGCTCTTCCCAC
Found at i:4783617 original size:49 final size:50
Alignment explanation
Indices: 4783505--4783598 Score: 131
Period size: 49 Copynumber: 1.9 Consensus size: 50
4783495 CACTTCTCAT
*
4783505 ATCTTAAACCTTT-AGCTCTTCCCACATCTTAAACTTTCAGCTCTTCCTAC
1 ATCTCAAA-CTTTCAGCTCTTCCCACATCTTAAACTTTCAGCTCTTCCTAC
*
4783555 ATCTCAAACTTTCAGCTCTT-CCACATCTTGAACCTTT-AGCTCTT
1 ATCTCAAACTTTCAGCTCTTCCCACATCTT-AAACTTTCAGCTCTT
4783599 TCCATATCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
49 20 0.50
50 20 0.50
ACGTcount: A:0.23, C:0.33, G:0.05, T:0.38
Consensus pattern (50 bp):
ATCTCAAACTTTCAGCTCTTCCCACATCTTAAACTTTCAGCTCTTCCTAC
Found at i:4783624 original size:25 final size:26
Alignment explanation
Indices: 4783505--4783645 Score: 111
Period size: 25 Copynumber: 5.7 Consensus size: 26
4783495 CACTTCTCAT
* *
4783505 ATCTTAAACCTTT-AGCTCTTCCCAC
1 ATCTTGAACCTTTCAGCTCTTTCCAC
*
4783530 ATCTT-AAACTTTCAGCTC-TTCCTAC
1 ATCTTGAACCTTTCAGCTCTTTCC-AC
* *
4783555 ATC-TCAAACTTTCAGCTC-TTCCAC
1 ATCTTGAACCTTTCAGCTCTTTCCAC
*
4783579 ATCTTGAACCTTT-AGCTCTTTCCAT
1 ATCTTGAACCTTTCAGCTCTTTCCAC
* * *
4783604 ATCTTGAA-TTTTCAACTCTTTACAC
1 ATCTTGAACCTTTCAGCTCTTTCCAC
*
4783629 GT-TTCGAACC-TTCAGCT
1 ATCTT-GAACCTTTCAGCT
4783646 TTGATATCAC
Statistics
Matches: 96, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
24 25 0.26
25 71 0.74
ACGTcount: A:0.23, C:0.31, G:0.06, T:0.39
Consensus pattern (26 bp):
ATCTTGAACCTTTCAGCTCTTTCCAC
Found at i:4783643 original size:74 final size:73
Alignment explanation
Indices: 4783505--4783645 Score: 167
Period size: 74 Copynumber: 1.9 Consensus size: 73
4783495 CACTTCTCAT
* *
4783505 ATCTTAAACCTTTAGCTCTTCCCACATCTTAAACTTTCAGCTCTTCCTACATCTCAAACTTTCAG
1 ATCTTAAACCTTTAGCTCTTCCCACATCTTAAACTTTCAACTCTT-CTACATCTCAAACCTTCAG
4783570 CTCTTCCAC
65 CTCTTCCAC
* * * * * * *
4783579 ATCTTGAACCTTTAGCTCTTTCCATATCTTGAATTTTCAACTCTT-TACACGTTTCGAACCTTCA
1 ATCTTAAACCTTTAGCTCTTCCCACATCTTAAACTTTCAACTCTTCTACA--TCTCAAACCTTCA
4783643 GCT
64 GCT
4783646 TTGATATCAC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
72 4 0.07
74 52 0.93
ACGTcount: A:0.23, C:0.31, G:0.06, T:0.39
Consensus pattern (73 bp):
ATCTTAAACCTTTAGCTCTTCCCACATCTTAAACTTTCAACTCTTCTACATCTCAAACCTTCAGC
TCTTCCAC
Found at i:4784265 original size:52 final size:52
Alignment explanation
Indices: 4784179--4784335 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
4784169 TATAACCATA
* * *
4784179 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTTCTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTTCTGTAAGT
* * *
4784231 CAAACTTACTTATTAAGAATCCCTTTCCTTTTAGAATTCTTC-TCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTTC-TGTAAGT
* * * *
4784283 CAAACTTACCTATTAAGAATCTTCTTT-CTCTTGGAATTCTTTTTTTGTAAGT
1 CAAACTTACCTATTAAGAATC-CCTTTCCTCTTAGAATTCTTCTTCTGTAAGT
4784335 C
1 C
4784336 TTCTTGTCCA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 2 0.02
52 82 0.92
53 5 0.06
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTTCTGTAAGT
Found at i:4784378 original size:11 final size:11
Alignment explanation
Indices: 4784360--4784401 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
4784350 GCAATATCTG
4784360 ACAAATCTCAA
1 ACAAATCTCAA
* *
4784371 ATAAATCTCTA
1 ACAAATCTCAA
4784382 ACAAATCTCAA
1 ACAAATCTCAA
4784393 ACAAATCTC
1 ACAAATCTC
4784402 TTATGAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:4784385 original size:22 final size:22
Alignment explanation
Indices: 4784360--4784402 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4784350 GCAATATCTG
*
4784360 ACAAATCTCAAATAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
4784382 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
4784403 TATGAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:4787579 original size:34 final size:34
Alignment explanation
Indices: 4787488--4787580 Score: 107
Period size: 36 Copynumber: 2.7 Consensus size: 34
4787478 AAATTTTTCA
* * *
4787488 AAAAAATAAAAAAATAAAAAAGTGAAATATTTTT
1 AAAAATTAAAAAATTAAAAAACTGAAATATTTTT
* *
4787522 GAAAAATTATAAAAATTTAAAAACTGCAATATTTTT
1 -AAAAATTA-AAAAATTAAAAAACTGAAATATTTTT
4787558 -AAAATTAAAAAATTAAGAAAACT
1 AAAAATTAAAAAATTAA-AAAACT
4787581 TTTAAATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 8 0.16
34 13 0.26
35 7 0.14
36 22 0.44
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (34 bp):
AAAAATTAAAAAATTAAAAAACTGAAATATTTTT
Found at i:4787629 original size:17 final size:17
Alignment explanation
Indices: 4787605--4787653 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
4787595 AAAAAGTCTA
4787605 AAAT-TTTTTTAAAAAT
1 AAATATTTTTTAAAAAT
*
4787621 AAATATTTTAATAAAAAT
1 AAATATTTT-TTAAAAAT
* *
4787639 AACTATTTCTTAAAA
1 AAATATTTTTTAAAA
4787654 TTGAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 4 0.15
17 9 0.33
18 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATATTTTTTAAAAAT
Found at i:4787902 original size:35 final size:35
Alignment explanation
Indices: 4787843--4787913 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
4787833 AATTTTATTG
* *
4787843 ATTTTTTATTAAAATTTTAAG-TTTTTTACTTTTT
1 ATTTTTCAGTAAAATTTTAAGTTTTTTTACTTTTT
*
4787877 ATTTTTCAGTAAATATTTTTAGTTTTTTTTACTTTTT
1 ATTTTTCAGTAAA-ATTTTAAG-TTTTTTTACTTTTT
4787914 TATTACGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 11 0.35
35 7 0.23
37 13 0.42
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (35 bp):
ATTTTTCAGTAAAATTTTAAGTTTTTTTACTTTTT
Found at i:4787991 original size:21 final size:20
Alignment explanation
Indices: 4787928--4787991 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
4787918 ACGTTTTGGA
*
4787928 TTTTTAAACATTTTAAAATT
1 TTTTTAAAAATTTTAAAATT
* *
4787948 TTTTTAAAAATGTTCAGAATT
1 TTTTTAAAAAT-TTTAAAATT
* *
4787969 TTTTGAAAAATTTTATAATT
1 TTTTTAAAAATTTTAAAATT
4787989 TTT
1 TTT
4787992 ATTTTTTAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTTAAAAATTTTAAAATT
Found at i:4788062 original size:27 final size:27
Alignment explanation
Indices: 4788038--4788091 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4788028 AAAATTTATT
*
4788038 TTTACTAAAA-TTTTTTATTTTTTTAA
1 TTTACCAAAATTTTTTTATTTTTTTAA
*
4788064 TTTCCCAAAATTTTTTTATTTTTATTAA
1 TTTACCAAAATTTTTTTATTTTT-TTAA
4788092 AATTTTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 12 0.50
28 4 0.17
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTACCAAAATTTTTTTATTTTTTTAA
Found at i:4788097 original size:19 final size:19
Alignment explanation
Indices: 4788032--4788097 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 19
4788022 TTTAAGAAAA
*
4788032 TTTATTTTTACTAAAATTT
1 TTTATTTTTATTAAAATTT
4788051 TTTATTTTTTTAATTTCCCAAAATTTT
1 TTTA--TTTTT-A-TT---AAAA-TTT
4788078 TTTATTTTTATTAAAATTT
1 TTTATTTTTATTAAAATTT
4788097 T
1 T
4788098 AGATTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
19 8 0.21
20 4 0.11
21 5 0.13
22 1 0.03
23 3 0.08
24 1 0.03
25 5 0.13
26 4 0.11
27 7 0.18
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATTTTTATTAAAATTT
Found at i:4788142 original size:45 final size:45
Alignment explanation
Indices: 4788035--4788143 Score: 107
Period size: 46 Copynumber: 2.4 Consensus size: 45
4788025 AAGAAAATTT
** * *
4788035 ATTTTTACT-AAAATTTTTTATTTTTTTAATTTCCCAAAATTTTTTT
1 ATTTTTA-TAAAAATTTTAGATTTTTTTAATTT-CCAAAATTTTATA
* *
4788081 ATTTTTATTAAAATTTTAGATTTTTTTAATTT-TAAAATTTTCATA
1 ATTTTTATAAAAATTTTAGATTTTTTTAATTTCCAAAATTTT-ATA
4788126 ATTTTTA-AAAATATTTTA
1 ATTTTTATAAAA-ATTTTA
4788144 AATATTGTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
44 11 0.20
45 15 0.28
46 28 0.52
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.61
Consensus pattern (45 bp):
ATTTTTATAAAAATTTTAGATTTTTTTAATTTCCAAAATTTTATA
Found at i:4788196 original size:37 final size:38
Alignment explanation
Indices: 4788109--4788201 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 38
4788099 GATTTTTTTA
* *
4788109 ATTTTAAAATTTTCATAATTTTTAAAAATATTTTAAAT
1 ATTTTAAAATTTTTATAATTTCTAAAAATATTTTAAAT
* * * *
4788147 ATTGT-AATTTTTTATAACTTTCT-ACAATATTTTAGAT
1 ATTTTAAAATTTTTATAA-TTTCTAAAAATATTTTAAAT
4788184 -TTTTAAAATTTTT-TAATT
1 ATTTTAAAATTTTTATAATT
4788202 CTTTTAATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
35 2 0.04
36 6 0.13
37 29 0.64
38 8 0.18
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (38 bp):
ATTTTAAAATTTTTATAATTTCTAAAAATATTTTAAAT
Found at i:4788357 original size:31 final size:32
Alignment explanation
Indices: 4788298--4788357 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
4788288 TTGACTAATG
* * *
4788298 ATATTAATTTAAATTATCAAATCAATAATAAA
1 ATATAAATATAAATTATAAAATCAATAATAAA
*
4788330 ATATAAATATAAA-TATAAAATTAATAAT
1 ATATAAATATAAATTATAAAATCAATAAT
4788358 TTTATTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 13 0.54
32 11 0.46
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (32 bp):
ATATAAATATAAATTATAAAATCAATAATAAA
Found at i:4792165 original size:63 final size:62
Alignment explanation
Indices: 4792122--4792239 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 62
4792112 ATATTTTATT
*
4792122 ATTTAATTAATTAA-AAAAATTAATCTAAT-TAATTTCGATTAA-TTAATTTTTAAAATTAAAAA
1 ATTTAATTAATTAATAAAAA-TAATATAATATAATTT-GATTAATTTAA--TTTAAAATTAAAAA
4792184 A
62 A
* *
4792185 ATTTATTTAATTAATAAAAATAATATAATATAATTTGATTAATTTAATTTTAAAT
1 ATTTAATTAATTAATAAAAATAATATAATATAATTTGATTAATTTAATTTAAAAT
4792240 AATTCAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
62 7 0.14
63 27 0.55
64 15 0.31
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (62 bp):
ATTTAATTAATTAATAAAAATAATATAATATAATTTGATTAATTTAATTTAAAATTAAAAAA
Found at i:4792248 original size:15 final size:16
Alignment explanation
Indices: 4792222--4792259 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4792212 ATATAATTTG
* *
4792222 ATTAATTTAATTTTAA
1 ATTAATTCAATTTAAA
4792238 A-TAATTCAATTTAAA
1 ATTAATTCAATTTAAA
4792253 ATTAATT
1 ATTAATT
4792260 AAACAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATTCAATTTAAA
Found at i:4797027 original size:18 final size:18
Alignment explanation
Indices: 4796989--4797027 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4796979 TCTATCTATA
* **
4796989 TATATATATATATGTGTG
1 TATATATATATATATACG
4797007 TATATATATATATATACG
1 TATATATATATATATACG
4797025 TAT
1 TAT
4797028 GTGTGTGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (18 bp):
TATATATATATATATACG
Found at i:4809458 original size:15 final size:16
Alignment explanation
Indices: 4809438--4809477 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
4809428 AAGAATTTAA
4809438 AATATAATTTA-ATTT
1 AATATAATTTATATTT
4809453 AATATAATTTATTATTT
1 AATATAATTTA-TATTT
4809470 AAT-TAATT
1 AATATAATT
4809478 AAAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.48
16 5 0.22
17 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATAATTTATATTT
Found at i:4809592 original size:15 final size:16
Alignment explanation
Indices: 4809566--4809603 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4809556 ATATAATTTG
* *
4809566 ATTAATTTAATTTTAA
1 ATTAATTCAATTTAAA
4809582 A-TAATTCAATTTAAA
1 ATTAATTCAATTTAAA
4809597 ATTAATT
1 ATTAATT
4809604 AAATAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATTCAATTTAAA
Found at i:4814344 original size:2 final size:2
Alignment explanation
Indices: 4814339--4814363 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4814329 TATATATATA
4814339 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
4814364 AAATTATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4822195 original size:22 final size:22
Alignment explanation
Indices: 4822153--4822195 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4822143 GAAATTTTTT
* *
4822153 TTTAAAAAAAATTAATTAATAA
1 TTTAAAAAAAAATAATAAATAA
4822175 TTTAAAAATAAAATAA-AAATA
1 TTTAAAAA-AAAATAATAAATA
4822196 GTATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAAAAAAATAATAAATAA
Found at i:4826272 original size:18 final size:16
Alignment explanation
Indices: 4826234--4826266 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4826224 TGTTGGATTC
*
4826234 TATTTTAAAAGATTTT
1 TATTTGAAAAGATTTT
4826250 TATTTGAAAAGATTTT
1 TATTTGAAAAGATTTT
4826266 T
1 T
4826267 TTATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (16 bp):
TATTTGAAAAGATTTT
Found at i:4826295 original size:25 final size:25
Alignment explanation
Indices: 4826246--4826292 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
4826236 TTTTAAAAGA
4826246 TTTTTATTTGAAAAGATTTTTTTAT
1 TTTTTATTTGAAAAGATTTTTTTAT
*
4826271 TTTTTA-TTGAAAAGTTTTTTTT
1 TTTTTATTTGAAAAGATTTTTTT
4826293 TATAAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (25 bp):
TTTTTATTTGAAAAGATTTTTTTAT
Found at i:4826436 original size:18 final size:18
Alignment explanation
Indices: 4826415--4826476 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
4826405 TTATAAAACT
4826415 AAAAAAAATAATAAGAAA
1 AAAAAAAATAATAAGAAA
4826433 AAAATAAAATAA-AATGAAA
1 AAAA-AAAATAATAA-GAAA
* ** *
4826452 TATGAAAATAATATGAAA
1 AAAAAAAATAATAAGAAA
4826470 AAAAAAA
1 AAAAAAA
4826477 GGAAACCTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 21 0.62
19 13 0.38
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (18 bp):
AAAAAAAATAATAAGAAA
Found at i:4826440 original size:23 final size:24
Alignment explanation
Indices: 4826409--4826474 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 24
4826399 GTAAAATTAT
*
4826409 AAAACTAAAAAAAAT-AATAAGAA
1 AAAAATAAAAAAAATAAATAAGAA
*
4826432 AAAAATAAAATAAAATGAAATATGAA
1 AAAAATAAAA-AAAAT-AAATAAGAA
4826458 AATAATATGAAAAAAAA
1 AA-AA-AT-AAAAAAAA
4826475 AAGGAAACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
23 9 0.26
24 5 0.14
26 9 0.26
27 2 0.06
28 6 0.17
29 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (24 bp):
AAAAATAAAAAAAATAAATAAGAA
Found at i:4826837 original size:11 final size:11
Alignment explanation
Indices: 4826821--4826868 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
4826811 TTTTCAAACC
4826821 AAAAAAATCCAA
1 AAAAAAATCC-A
4826833 AAAAAAATCC-
1 AAAAAAATCCA
*
4826843 AAAATAA-CCA
1 AAAAAAATCCA
*
4826853 AAAAAAGTCCA
1 AAAAAAATCCA
4826864 AAAAA
1 AAAAA
4826869 TCCTCAAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 2 0.06
10 11 0.35
11 8 0.26
12 10 0.32
ACGTcount: A:0.73, C:0.17, G:0.02, T:0.08
Consensus pattern (11 bp):
AAAAAAATCCA
Found at i:4826867 original size:12 final size:10
Alignment explanation
Indices: 4826819--4826868 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 10
4826809 TATTTTCAAA
4826819 CCAAAAAAAT
1 CCAAAAAAAT
4826829 CCAAAAAAAAAT
1 CC--AAAAAAAT
*
4826841 CCAAAATAA-
1 CCAAAAAAAT
4826850 CCAAAAAAAGT
1 CCAAAAAAA-T
4826861 CCAAAAAA
1 CCAAAAAA
4826869 TCCTCAAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 8 0.24
10 8 0.24
11 8 0.24
12 10 0.29
ACGTcount: A:0.70, C:0.20, G:0.02, T:0.08
Consensus pattern (10 bp):
CCAAAAAAAT
Found at i:4827350 original size:13 final size:13
Alignment explanation
Indices: 4827305--4827349 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
4827295 AAATAAAAGC
4827305 AATAATAATA-AT
1 AATAATAATATAT
4827317 AATAATAATATAGT
1 AATAATAATATA-T
*
4827331 -ATAATACTATAT
1 AATAATAATATAT
4827343 AATAATA
1 AATAATA
4827350 CAAGTAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 11 0.38
13 17 0.59
14 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
AATAATAATATAT
Found at i:4827602 original size:30 final size:30
Alignment explanation
Indices: 4827568--4827641 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 30
4827558 ATTTAAGATG
4827568 AAAATTTTTAAAATTTTTAAAATCTTACAT
1 AAAATTTTTAAAATTTTTAAAATCTTACAT
* *
4827598 AAAATTGCTT-AAATTTTTAATATCTTACAT
1 AAAATT-TTTAAAATTTTTAAAATCTTACAT
*
4827628 AAATTTTTTTAAAA
1 AAA-ATTTTTAAAA
4827642 AATAATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 30 0.81
31 7 0.19
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (30 bp):
AAAATTTTTAAAATTTTTAAAATCTTACAT
Found at i:4827670 original size:14 final size:14
Alignment explanation
Indices: 4827645--4827672 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4827635 TTTAAAAAAT
4827645 AATTTTTAAATCAA
1 AATTTTTAAATCAA
4827659 AATTTTTAAATCAA
1 AATTTTTAAATCAA
4827673 GATTAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTTTTAAATCAA
Found at i:4833391 original size:29 final size:28
Alignment explanation
Indices: 4833318--4833398 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 28
4833308 TTATATAATT
* * *
4833318 AAAATTTAAAGATTAATTTAAATATAAA
1 AAAATATAAAAATTTATTTAAATATAAA
* *
4833346 ATAAAAATTAAGAATTTATTTAAATATAACA
1 A-AAATA-TAAAAATTTATTTAAATATAA-A
*
4833377 AAAATATAAAAATTTATCTAAA
1 AAAATATAAAAATTTATTTAAA
4833399 CAAAATAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
28 1 0.02
29 17 0.40
30 22 0.52
31 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATATAAAAATTTATTTAAATATAAA
Found at i:4855935 original size:5 final size:5
Alignment explanation
Indices: 4855918--4855949 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
4855908 CGATCTACTC
*
4855918 CTCTT CTCCT CTCTT CTCTT CTCTT CTCTT CT
1 CTCTT CTCTT CTCTT CTCTT CTCTT CTCTT CT
4855950 TCTTTAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (5 bp):
CTCTT
Found at i:4864403 original size:6 final size:6
Alignment explanation
Indices: 4864394--4864418 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4864384 TTTTTTTTTT
4864394 TATTTG TATTTG TATTTG TATTTG T
1 TATTTG TATTTG TATTTG TATTTG T
4864419 GACCAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TATTTG
Found at i:4871386 original size:14 final size:13
Alignment explanation
Indices: 4871359--4871384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4871349 TATGTAATGA
4871359 ATTTTAATTTTTT
1 ATTTTAATTTTTT
4871372 ATTTTAATTTTTT
1 ATTTTAATTTTTT
4871385 TAAGAGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTAATTTTTT
Found at i:4872252 original size:18 final size:18
Alignment explanation
Indices: 4872221--4872255 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4872211 ACATACCCTT
* *
4872221 TAAAATATATTTAAAAAA
1 TAAAAAATAATTAAAAAA
4872239 TAAAAAATAATTAAAAA
1 TAAAAAATAATTAAAAA
4872256 TAGAAATGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAATAATTAAAAAA
Found at i:4881194 original size:18 final size:17
Alignment explanation
Indices: 4881167--4881200 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4881157 TATAAAATTA
4881167 TGATAAAATAAAATAAAG
1 TGATAAAAT-AAATAAAG
*
4881185 TGATATAATAAATAAA
1 TGATAAAATAAATAAA
4881201 ATTAGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
TGATAAAATAAATAAAG
Found at i:4881715 original size:23 final size:22
Alignment explanation
Indices: 4881684--4881726 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4881674 AAAAATTATT
* *
4881684 TAATTATTTAATTATTAAAAAGA
1 TAATCATTTAAAT-TTAAAAAGA
4881707 TAATCATTTAAATTTAAAAA
1 TAATCATTTAAATTTAAAAA
4881727 ATTTAGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATCATTTAAATTTAAAAAGA
Found at i:4895468 original size:2 final size:2
Alignment explanation
Indices: 4895461--4895494 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4895451 AGACACAGAA
4895461 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
4895495 TAAAAAAGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4902987 original size:19 final size:20
Alignment explanation
Indices: 4902965--4903002 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4902955 TGTAAAATAG
4902965 TTTAATAATTTT-TAAATTA
1 TTTAATAATTTTCTAAATTA
*
4902984 TTTATTAATTTTCTAAATT
1 TTTAATAATTTTCTAAATT
4903003 TTATATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAATAATTTTCTAAATTA
Found at i:4903011 original size:19 final size:18
Alignment explanation
Indices: 4902965--4903013 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
4902955 TGTAAAATAG
4902965 TTTA-ATAATTTTTAAAT
1 TTTATATAATTTTTAAAT
4902982 TATT-TATTAATTTTCTAAAT
1 T-TTATA-TAATTTT-TAAAT
4903002 TTTATATAATTT
1 TTTATATAATTT
4903014 AAAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 3 0.11
19 15 0.56
20 8 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATAATTTTTAAAT
Found at i:4903374 original size:106 final size:106
Alignment explanation
Indices: 4903259--4903462 Score: 347
Period size: 106 Copynumber: 1.9 Consensus size: 106
4903249 TTTAATTTGT
4903259 ATTTATTTTAAATTAATTATTATAATTTTTTTCTACTTCTCTTTAATCGA-GTAAATATTGACTC
1 ATTTATTTTAAATTAATTATTATAATTTTTTTCTACTTCTCTTTAATC-ATGTAAATATTGACTC
4903323 TTTATATAAGCAAAAATTTTACTAAAAAATTTGTTTTGAGAA
65 TTTATATAAGCAAAAATTTTACTAAAAAATTTGTTTTGAGAA
* *
4903365 ATTTATTTTAAATTAATTATTATAATTTTTTTCTATTTCTCTTTAATCATGTAAATTTTGACTCT
1 ATTTATTTTAAATTAATTATTATAATTTTTTTCTACTTCTCTTTAATCATGTAAATATTGACTCT
* * *
4903430 TTATATAAGTAAAAATTTTACTAAGACATTTGT
66 TTATATAAGCAAAAATTTTACTAAAAAATTTGT
4903463 GATTGTGAGA
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 1 0.01
106 91 0.99
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (106 bp):
ATTTATTTTAAATTAATTATTATAATTTTTTTCTACTTCTCTTTAATCATGTAAATATTGACTCT
TTATATAAGCAAAAATTTTACTAAAAAATTTGTTTTGAGAA
Found at i:4906878 original size:20 final size:21
Alignment explanation
Indices: 4906841--4906879 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4906831 AAATGATACG
4906841 TTGTTGAAGAGAACAAAGATA
1 TTGTTGAAGAGAACAAAGATA
*
4906862 TTGTTGAAGTG-ACAAAGA
1 TTGTTGAAGAGAACAAAGA
4906880 GAGGACGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (21 bp):
TTGTTGAAGAGAACAAAGATA
Found at i:4908655 original size:23 final size:24
Alignment explanation
Indices: 4908608--4908656 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
4908598 TTTTTTAAAA
*
4908608 ATCAATTCGATTCGAATTAAATTTT
1 ATCAATTCAATTC-AATTAAATTTT
*
4908633 ATCAATTCAATT-AATTAATTTTT
1 ATCAATTCAATTCAATTAAATTTT
4908656 A
1 A
4908657 AAATTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
25 11 0.50
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (24 bp):
ATCAATTCAATTCAATTAAATTTT
Found at i:4908661 original size:22 final size:23
Alignment explanation
Indices: 4908622--4908677 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
4908612 ATTCGATTCG
* *
4908622 AATTAAATTTTATCAATTCAATT
1 AATTAATTTTTATAAATTCAATT
*
4908645 AATTAATTTTTA-AAATTTAATT
1 AATTAATTTTTATAAATTCAATT
**
4908667 TTTTAATTTTT
1 AATTAATTTTT
4908678 TATATATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTAATTTTTATAAATTCAATT
Found at i:4908782 original size:18 final size:19
Alignment explanation
Indices: 4908747--4908784 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4908737 ATTTTTATTT
4908747 TATAAAAATTCAACAAATA
1 TATAAAAATTCAACAAATA
*
4908766 TATAAAAATT-AATAAATA
1 TATAAAAATTCAACAAATA
4908784 T
1 T
4908785 GTATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATTCAACAAATA
Found at i:4909263 original size:16 final size:17
Alignment explanation
Indices: 4909239--4909272 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4909229 TTTTATACAT
4909239 ATTTAATATAAA-ATAA
1 ATTTAATATAAATATAA
*
4909255 ATTTTATATAAATATAA
1 ATTTAATATAAATATAA
4909272 A
1 A
4909273 AATTACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAATATAAATATAA
Found at i:4912764 original size:8 final size:8
Alignment explanation
Indices: 4912751--4912798 Score: 87
Period size: 8 Copynumber: 6.0 Consensus size: 8
4912741 CATGTACACT
4912751 GTGATGAA
1 GTGATGAA
4912759 GTGATGAA
1 GTGATGAA
4912767 GTGATGAA
1 GTGATGAA
4912775 GTGATGAA
1 GTGATGAA
4912783 GTGATGAA
1 GTGATGAA
*
4912791 GTGCTGAA
1 GTGATGAA
4912799 TGAATACATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.35, C:0.02, G:0.38, T:0.25
Consensus pattern (8 bp):
GTGATGAA
Found at i:4913191 original size:23 final size:21
Alignment explanation
Indices: 4913155--4913207 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
4913145 ATTAAATTTT
4913155 TTAGTAATTTAA-TTTATATGATA
1 TTAG-AATTTAATTTTAT-TGA-A
4913178 TTAGAATTTAAATTTTATTGAA
1 TTAGAATTT-AATTTTATTGAA
4913200 TTA-AATTT
1 TTAGAATTT
4913208 GTGATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.18
22 9 0.32
23 9 0.32
24 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (21 bp):
TTAGAATTTAATTTTATTGAA
Found at i:4913588 original size:140 final size:143
Alignment explanation
Indices: 4913319--4913603 Score: 375
Period size: 140 Copynumber: 2.0 Consensus size: 143
4913309 TTTGATCGAT
*
4913319 TAAATTATTTATTAAATAAAAATTAATTAAATTAATTATTAATTTTTTAAATCAAATCGGTTGAA
1 TAAATTATTTATTAAATAAAAATTAATTAAATTAATTATTAATTTTTTAAATCAAATCGATTG-A
* * ** * * *
4913384 TTAATTATTTATCCACTTTTTTTAATTAAGGTTTTGTTTATCACCGAGCCTTTCTTATTGTATCT
65 TTAATTACTCATCCAC-TTACTTAATTAAGGTTTTGTTTAGCACCGAGCCTTTCCTACTGTATCT
* *
4913449 CTGTCTCAAACCATC
129 CTGCCCCAAACCATC
4913464 TAAATTATTTATTAAATAAAAATTAATTAAA-TAGATTATTAATTTTTTTAAATCAAATCGATTG
1 TAAATTATTTATTAAATAAAAATTAATTAAATTA-ATTATTAA-TTTTTTAAATCAAATCGATTG
* *
4913528 -TTATTTACTCA-CC-C-TACTTAATTGA-GTTCTTGTTTAGCACCGAGCCTTTCCTACTGTATC
64 ATTAATTACTCATCCACTTACTTAATTAAGGTT-TTGTTTAGCACCGAGCCTTTCCTACTGTATC
4913588 TCTGCCCCAAACCATC
128 TCTGCCCCAAACCATC
4913604 GCCAGCTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
139 3 0.02
140 50 0.40
142 1 0.01
143 2 0.02
144 10 0.08
145 39 0.31
146 20 0.16
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (143 bp):
TAAATTATTTATTAAATAAAAATTAATTAAATTAATTATTAATTTTTTAAATCAAATCGATTGAT
TAATTACTCATCCACTTACTTAATTAAGGTTTTGTTTAGCACCGAGCCTTTCCTACTGTATCTCT
GCCCCAAACCATC
Found at i:4913981 original size:22 final size:25
Alignment explanation
Indices: 4913943--4913992 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
4913933 TAATTTTAAA
4913943 ATTGATATTAAAATGTG-T-TTTAT
1 ATTGATATTAAAATGTGTTGTTTAT
*
4913966 ATTGATA-TAAATTGTGTTGTTTAT
1 ATTGATATTAAAATGTGTTGTTTAT
4913990 ATT
1 ATT
4913993 TGATTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 8 0.33
24 8 0.33
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (25 bp):
ATTGATATTAAAATGTGTTGTTTAT
Found at i:4914562 original size:19 final size:19
Alignment explanation
Indices: 4914540--4914577 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4914530 GTGTATATCT
4914540 GTAT-TAATCGTATTTATTC
1 GTATATAATCGTA-TTATTC
*
4914559 GTATATATTCGTATTATTC
1 GTATATAATCGTATTATTC
4914578 ATGTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (19 bp):
GTATATAATCGTATTATTC
Found at i:4914584 original size:29 final size:29
Alignment explanation
Indices: 4914523--4914586 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
4914513 GTTGATTGTT
* *
4914523 TTTATTCGTGTATATCTGTATTAATCGTA
1 TTTATTCGTATATATCTGTATTAATCATA
* *
4914552 TTTATTCGTATATAT-TCGTATTATTCATG
1 TTTATTCGTATATATCT-GTATTAATCATA
4914581 TTTATT
1 TTTATT
4914587 TATATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.56
Consensus pattern (29 bp):
TTTATTCGTATATATCTGTATTAATCATA
Found at i:4916150 original size:16 final size:16
Alignment explanation
Indices: 4916129--4916187 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 16
4916119 TAATATAAAT
*
4916129 AAATTATTATTTATAA
1 AAATTATGATTTATAA
4916145 AAATTATGA-TTATACA
1 AAATTATGATTTATA-A
4916161 AAAGTTAATGATTATATAA
1 AAA-TT-ATGATT-TATAA
4916180 AATATTAT
1 AA-ATTAT
4916188 AATAATTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
15 5 0.14
16 12 0.33
17 2 0.06
18 6 0.17
19 6 0.17
20 5 0.14
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (16 bp):
AAATTATGATTTATAA
Found at i:4916173 original size:18 final size:15
Alignment explanation
Indices: 4916129--4916182 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 15
4916119 TAATATAAAT
*
4916129 AAATTATTATTTATAA
1 AAATTATGA-TTATAA
4916145 AAATTATGATTATACA
1 AAATTATGATTATA-A
4916161 AAAGTTAATGATTATATA
1 AAA-TT-ATGATTATA-A
4916179 AAAT
1 AAAT
4916183 ATTATAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 5 0.15
16 12 0.36
17 3 0.09
18 13 0.39
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (15 bp):
AAATTATGATTATAA
Found at i:4920619 original size:18 final size:16
Alignment explanation
Indices: 4920598--4920639 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 16
4920588 AAAAAATTTA
4920598 AAAAAGATAATAAATAAT
1 AAAAA-ATAATAAA-AAT
4920616 AAAACAATAATAAAAAT
1 AAAA-AATAATAAAAAT
4920633 AAAAAAT
1 AAAAAAT
4920640 TAACAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.13
17 7 0.30
18 12 0.52
19 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAAAATAATAAAAAT
Found at i:4920650 original size:17 final size:17
Alignment explanation
Indices: 4920610--4920651 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4920600 AAAGATAATA
*
4920610 AATAATAAAACAATAAT
1 AATAATAAAACAATAAC
*
4920627 AAAAATAAAA-AATTAAC
1 AATAATAAAACAA-TAAC
4920644 AATAATAA
1 AATAATAA
4920652 CAATTTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAATAAAACAATAAC
Found at i:4920872 original size:14 final size:14
Alignment explanation
Indices: 4920849--4920900 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
4920839 CAAACTCTTG
4920849 AAACCCTAAAATCA
1 AAACCCTAAAATCA
*
4920863 AAACCTTAAAATCA
1 AAACCCTAAAATCA
* *
4920877 CAAATCCTAAAA-CT
1 -AAACCCTAAAATCA
4920891 AAACCCTAAA
1 AAACCCTAAA
4920901 CTCTCCAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 9 0.28
14 14 0.44
15 9 0.28
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:4920909 original size:29 final size:28
Alignment explanation
Indices: 4920832--4920922 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 28
4920822 CCTTGAATTT
**
4920832 CTAAACCC-AAACTCTTGAAACCCTAAAA
1 CTAAACCCTAAACTCTACAAA-CCTAAAA
* * *
4920860 TCAAAACCTTAAAATC-ACAAATCCTAAAA
1 -CTAAACCCTAAACTCTACAAA-CCTAAAA
*
4920889 CTAAACCCTAAACTCTCCAAACACTAAAA
1 CTAAACCCTAAACTCTACAAAC-CTAAAA
4920918 CTAAA
1 CTAAA
4920923 AACCCTTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
28 13 0.27
29 31 0.63
30 5 0.10
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.19
Consensus pattern (28 bp):
CTAAACCCTAAACTCTACAAACCTAAAA
Found at i:4920965 original size:29 final size:29
Alignment explanation
Indices: 4920929--4921116 Score: 109
Period size: 27 Copynumber: 6.8 Consensus size: 29
4920919 TAAAAACCCT
*
4920929 TAAACCCTAAATCCTCTAACCCTTAAAAC
1 TAAACCCTAAATCCTCTAAACCTTAAAAC
*
4920958 TAAACCCTAAA-CTCTCCAAACCTT--AA-
1 TAAACCCTAAATC-CTCTAAACCTTAAAAC
* * * * **
4920984 -AAA-TCAAAACCCT-TAAACCTAAACCC
1 TAAACCCTAAATCCTCTAAACCTTAAAAC
*
4921010 TAAACCCTAAATCCTCT-AACTCCTAAAAC
1 TAAACCCTAAATCCTCTAAAC-CTTAAAAC
* *
4921039 T-AA-CCTAAATCCTCTAACCCCTAAAAC
1 TAAACCCTAAATCCTCTAAACCTTAAAAC
* *
4921066 T-AA-CCTAAA-CCTTCCAAACCTTAAAAA
1 TAAACCCTAAATCC-TCTAAACCTTAAAAC
4921093 TCAAACCCTAAA-CCT-TAAAACCTT
1 T-AAACCCTAAATCCTCT-AAACCTT
4921117 TCAAAACCTA
Statistics
Matches: 123, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
23 6 0.05
24 6 0.05
25 4 0.03
26 2 0.02
27 46 0.37
28 15 0.12
29 36 0.29
30 8 0.07
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (29 bp):
TAAACCCTAAATCCTCTAAACCTTAAAAC
Found at i:4921047 original size:27 final size:27
Alignment explanation
Indices: 4921015--4921074 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
4921005 AACCCTAAAC
*
4921015 CCTAAATCCTCTAACTCCTAAAACTAA
1 CCTAAATCCTCTAACCCCTAAAACTAA
4921042 CCTAAATCCTCTAACCCCTAAAACTAA
1 CCTAAATCCTCTAACCCCTAAAACTAA
4921069 CCTAAA
1 CCTAAA
4921075 CCTTCCAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (27 bp):
CCTAAATCCTCTAACCCCTAAAACTAA
Found at i:4921129 original size:38 final size:38
Alignment explanation
Indices: 4921072--4921149 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
4921062 AAACTAACCT
* * *
4921072 AAACCTTCCAAACCTTAAAAATCAAACCCTAAACCTTA
1 AAACCTTCAAAACCTTAAAAATAAAACCCCAAACCTTA
* *
4921110 AAACCTTTCAAAACC-TAAAATTAAAACCCCAAATCTTA
1 AAACC-TTCAAAACCTTAAAAATAAAACCCCAAACCTTA
4921148 AA
1 AA
4921150 CCCTAAAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 26 0.76
39 8 0.24
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (38 bp):
AAACCTTCAAAACCTTAAAAATAAAACCCCAAACCTTA
Found at i:4921137 original size:23 final size:24
Alignment explanation
Indices: 4921093--4921137 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4921083 ACCTTAAAAA
* *
4921093 TCAAACCCTAAACCTTAAAACCTT
1 TCAAAACCTAAACATTAAAACCTT
4921117 TCAAAACCTAAA-ATTAAAACC
1 TCAAAACCTAAACATTAAAACC
4921138 CCAAATCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (24 bp):
TCAAAACCTAAACATTAAAACCTT
Found at i:4921155 original size:28 final size:29
Alignment explanation
Indices: 4921120--4921199 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
4921110 AAACCTTTCA
*
4921120 AAACCTAAAATTAAAACCCCAAAT-CTT-
1 AAACCTAAAATCAAAACCCCAAATCCTTC
*
4921147 AAACCCTAAAATCAAAACCCTAAATCCTTC
1 AAA-CCTAAAATCAAAACCCCAAATCCTTC
*
4921177 AAACCTAAAATCAAAGCCCCAAA
1 AAACCTAAAATCAAAACCCCAAA
4921200 CAAAGCCCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.07
28 19 0.41
29 21 0.46
30 3 0.07
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (29 bp):
AAACCTAAAATCAAAACCCCAAATCCTTC
Found at i:4921158 original size:15 final size:15
Alignment explanation
Indices: 4921119--4921170 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 15
4921109 AAAACCTTTC
4921119 AAAA-CCTAAAAT-T
1 AAAACCCTAAAATCT
*
4921132 AAAACCC-CAAATCT
1 AAAACCCTAAAATCT
*
4921146 TAAACCCTAAAATC-
1 AAAACCCTAAAATCT
4921160 AAAACCCTAAA
1 AAAACCCTAAA
4921171 TCCTTCAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 8 0.25
14 19 0.59
15 5 0.16
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAACCCTAAAATCT
Found at i:4921191 original size:29 final size:29
Alignment explanation
Indices: 4921102--4921191 Score: 103
Period size: 28 Copynumber: 3.1 Consensus size: 29
4921092 ATCAAACCCT
* * *
4921102 AAACCTTAAAACCTTTCAAAACCTAAAATTA
1 AAACCCTAAATCC-TTC-AAACCTAAAATCA
*
4921133 AAACCCCAAAT-CTT-AAACCCTAAAATCA
1 AAACCCTAAATCCTTCAAA-CCTAAAATCA
4921161 AAACCCTAAATCCTTCAAACCTAAAATCA
1 AAACCCTAAATCCTTCAAACCTAAAATCA
4921190 AA
1 AA
4921192 GCCCCAAACA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.06
28 19 0.37
29 17 0.33
30 4 0.08
31 8 0.16
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (29 bp):
AAACCCTAAATCCTTCAAACCTAAAATCA
Found at i:4921284 original size:28 final size:27
Alignment explanation
Indices: 4921246--4921326 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 27
4921236 CTAAATACCC
4921246 CAAACCCTAAAATTAAAACTCTAAACCT
1 CAAACCCTAAAATTAAAAC-CTAAACCT
* *
4921274 CAAATCCTAAAATTAACACCTTAAACCT
1 CAAACCCTAAAATTAAAACC-TAAACCT
*
4921302 CAAACCCTAAAATCAAAACCCTAAA
1 CAAACCCTAAAATTAAAA-CCTAAA
4921327 ATCCTCCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 1 0.02
28 43 0.93
29 2 0.04
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.20
Consensus pattern (27 bp):
CAAACCCTAAAATTAAAACCTAAACCT
Found at i:4921312 original size:14 final size:14
Alignment explanation
Indices: 4921231--4921326 Score: 52
Period size: 14 Copynumber: 6.7 Consensus size: 14
4921221 CTCGAAATTG
*
4921231 AAACCCTAAATACCCC
1 AAACCCT-AA-ACCTC
** *
4921247 AAACCCTAAAATTA
1 AAACCCTAAACCTC
*
4921261 AAACTCTAAACCTC
1 AAACCCTAAACCTC
* * *
4921275 AAATCCTAAA-ATT
1 AAACCCTAAACCTC
*
4921288 AACACCTTAAACCTC
1 AA-ACCCTAAACCTC
*
4921303 AAACCCTAAA-ATC
1 AAACCCTAAACCTC
4921316 AAAACCCTAAA
1 -AAACCCTAAA
4921327 ATCCTCCAAA
Statistics
Matches: 59, Mismatches: 18, Indels: 8
0.69 0.21 0.09
Matches are distributed among these distances:
13 5 0.08
14 42 0.71
15 5 0.08
16 7 0.12
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCCTAAACCTC
Found at i:4921327 original size:14 final size:14
Alignment explanation
Indices: 4921247--4921367 Score: 77
Period size: 14 Copynumber: 8.4 Consensus size: 14
4921237 TAAATACCCC
*
4921247 AAACCCTAAAATTA
1 AAACCCTAAAATCA
* *
4921261 AAACTCTAAACCTC-
1 AAACCCTAAA-ATCA
* *
4921275 AAATCCTAAAATTA
1 AAACCCTAAAATCA
* * *
4921289 ACACCTTAAACCTC-
1 AAACCCTAAA-ATCA
4921303 AAACCCTAAAATCA
1 AAACCCTAAAATCA
*
4921317 AAACCCTAAAATCCTCC
1 AAACCCTAAAA---TCA
4921334 AAACTCC-AAAATCA
1 AAAC-CCTAAAATCA
*
4921348 AGACCCTAAAATCA
1 AAACCCTAAAATCA
4921362 AAACCC
1 AAACCC
4921368 CAAACTTAAA
Statistics
Matches: 79, Mismatches: 19, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
13 5 0.06
14 60 0.76
15 2 0.03
17 10 0.13
18 2 0.03
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:4922784 original size:18 final size:18
Alignment explanation
Indices: 4922757--4922791 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4922747 ATTTGGCATC
4922757 TTATTGTTATAATATTTG
1 TTATTGTTATAATATTTG
*
4922775 TTATTTTTATAATATTT
1 TTATTGTTATAATATTT
4922792 AATTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TTATTGTTATAATATTTG
Found at i:4924081 original size:13 final size:13
Alignment explanation
Indices: 4924063--4924108 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
4924053 AAAATAAAAA
4924063 ATTGAAAAATTTC
1 ATTGAAAAATTTC
*
4924076 ATTG-AAATTGTTC
1 ATTGAAAAAT-TTC
*
4924089 ATTCAAAAATTTC
1 ATTGAAAAATTTC
4924102 -TTGAAAA
1 ATTGAAAA
4924109 GTTAATCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
12 10 0.37
13 13 0.48
14 4 0.15
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (13 bp):
ATTGAAAAATTTC
Found at i:4924874 original size:21 final size:20
Alignment explanation
Indices: 4924849--4924891 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
4924839 ATTATAATAT
4924849 AATTTATAATTGAAATTAAGA
1 AATTTATAATTG-AATTAAGA
* * *
4924870 AATTTTTTATTGAATTGAGA
1 AATTTATAATTGAATTAAGA
4924890 AA
1 AA
4924892 AAATCAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (20 bp):
AATTTATAATTGAATTAAGA
Found at i:4927470 original size:25 final size:26
Alignment explanation
Indices: 4927442--4927491 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
4927432 CACTAAATTC
4927442 TTTTATCTT-AATTTATATAAAATAA
1 TTTTATCTTAAATTTATATAAAATAA
* * *
4927467 TTTTTTTTTAAATTTATGTAAAATA
1 TTTTATCTTAAATTTATATAAAATA
4927492 TTAAAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTATCTTAAATTTATATAAAATAA
Found at i:4927993 original size:2 final size:2
Alignment explanation
Indices: 4927986--4928016 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4927976 TCATTTGATA
*
4927986 AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4928017 CGTTTTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4931715 original size:29 final size:28
Alignment explanation
Indices: 4931648--4931702 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
4931638 AAATAAAATT
*
4931648 CTATTATAAATAAAAGAAAAGAAAAGAC
1 CTATTATAAATAAAAGAAAAGAAAAAAC
*
4931676 CTATTATAAATAAAAGGAAAGAAAAAA
1 CTATTATAAATAAAAGAAAAGAAAAAA
4931703 TCTGATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.18
Consensus pattern (28 bp):
CTATTATAAATAAAAGAAAAGAAAAAAC
Found at i:4938417 original size:19 final size:21
Alignment explanation
Indices: 4938393--4938433 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4938383 TGCAACTAAC
*
4938393 AAAAAA-T-TATACAAAAATT
1 AAAAAAGTATATAAAAAAATT
4938412 AAAAAAGTATATAAAAAAATT
1 AAAAAAGTATATAAAAAAATT
4938433 A
1 A
4938434 TTATTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAAAGTATATAAAAAAATT
Found at i:4941452 original size:12 final size:12
Alignment explanation
Indices: 4941435--4941460 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4941425 CTTAACTTTA
4941435 CAATGCTTTAAC
1 CAATGCTTTAAC
4941447 CAATGCTTTAAC
1 CAATGCTTTAAC
4941459 CA
1 CA
4941461 GAAATTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (12 bp):
CAATGCTTTAAC
Found at i:4943647 original size:2 final size:2
Alignment explanation
Indices: 4943640--4943675 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4943630 GAAATTAAAA
4943640 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4943676 GTTTCGTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4949224 original size:50 final size:50
Alignment explanation
Indices: 4949141--4949236 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
4949131 CTTTCTAAGG
* * *
4949141 AAAAAAAATTTTCTAAATAGGCTCAAATGGTGAAAATTTTAAAAATTTCA
1 AAAAAAAAATTTCTAAATAGCCTCAAATGGTGAAAAATTTAAAAATTTCA
* * *
4949191 AAAAAAAAATTTCTAAATTGACCT-AAATTGTGAAAAATTTAGAAAT
1 AAAAAAAAATTTCTAAATAG-CCTCAAATGGTGAAAAATTTAAAAAT
4949237 AATATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 37 0.95
51 2 0.05
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.31
Consensus pattern (50 bp):
AAAAAAAAATTTCTAAATAGCCTCAAATGGTGAAAAATTTAAAAATTTCA
Found at i:4950398 original size:22 final size:22
Alignment explanation
Indices: 4950373--4950452 Score: 54
Period size: 22 Copynumber: 3.4 Consensus size: 22
4950363 TTCTATGCAT
4950373 CATTTTCATGCTCATGTTTTAA
1 CATTTTCATGCTCATGTTTTAA
* * * *
4950395 CATTTCCAT-ATCATTTCATTCTATG
1 CATTTTCATGCTCATGT--TT-TA-A
4950420 CATCATTTCATGCTCATGTTTTAA
1 CAT--TTTCATGCTCATGTTTTAA
*
4950444 CATTATCAT
1 CATTTTCAT
4950453 TTGCATCATT
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
21 5 0.12
22 13 0.31
23 2 0.05
24 5 0.12
25 5 0.12
26 2 0.05
27 5 0.12
28 5 0.12
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.47
Consensus pattern (22 bp):
CATTTTCATGCTCATGTTTTAA
Found at i:4950399 original size:50 final size:49
Alignment explanation
Indices: 4950345--4950447 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 49
4950335 GCATCTACAC
*
4950345 CATTTCTATATCATTCCATTCTATGCATCATTTTCATGCTCATGTTTTAA
1 CATTTCCATATCATTCCATTCTATGCATCA-TTTCATGCTCATGTTTTAA
*
4950395 CATTTCCATATCATTTCATTCTATGCATCATTTCATGCTCATGTTTTAA
1 CATTTCCATATCATTCCATTCTATGCATCATTTCATGCTCATGTTTTAA
4950444 CATT
1 CATT
4950448 ATCATTTGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 23 0.45
50 28 0.55
ACGTcount: A:0.24, C:0.22, G:0.06, T:0.48
Consensus pattern (49 bp):
CATTTCCATATCATTCCATTCTATGCATCATTTCATGCTCATGTTTTAA
Found at i:4960021 original size:43 final size:42
Alignment explanation
Indices: 4959949--4960215 Score: 330
Period size: 42 Copynumber: 6.4 Consensus size: 42
4959939 ATAATTGTCA
* * * *
4959949 AGGAGTAATTTATTTTCAAAAGTTATGGTTGCATCTATTTAG
1 AGGAGCAATTTATTTTCAAAAGTTGTGGTTGCCTCTGTTTAG
* *
4959991 AGAAGCATTTTATTTTCTAAAAGTTGTGGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTC-AAAAGTTGTGGTTGCCTCTGTTTAG
* *
4960034 AGGAGCAATTTATTTTTATAAAGTTGTGG-TGCCTCTATTTAG
1 AGGAGCAATTTATTTTCA-AAAGTTGTGGTTGCCTCTGTTTAG
*
4960076 AGGAGCAATTTTTTTTTC-AAAGTTGT-GTTGCCTCTGTTTAG
1 AGGAGCAA-TTTATTTTCAAAAGTTGTGGTTGCCTCTGTTTAG
*
4960117 ATGAGCAATTTATTATTCAAAAGTTGTGG-TGCCTCTGTTTAG
1 AGGAGCAATTTATT-TTCAAAAGTTGTGGTTGCCTCTGTTTAG
* *
4960159 AGGAGCAATTTATTATTCAAAACTTGTGG-TGCCTTTGTTTAG
1 AGGAGCAATTTATT-TTCAAAAGTTGTGGTTGCCTCTGTTTAG
*
4960201 AGGAAC-ATTTATTTT
1 AGGAGCAATTTATTTT
4960216 TCTCAAAGTC
Statistics
Matches: 199, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
40 8 0.04
41 37 0.19
42 100 0.50
43 54 0.27
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (42 bp):
AGGAGCAATTTATTTTCAAAAGTTGTGGTTGCCTCTGTTTAG
Found at i:4960080 original size:42 final size:41
Alignment explanation
Indices: 4959949--4960248 Score: 323
Period size: 42 Copynumber: 7.1 Consensus size: 41
4959939 ATAATTGTCA
* * * * *
4959949 AGGAGTAATTTATTTTCAAAAGTTATGGTTGCATCTATTTAG
1 AGGAGCAATTTATTTTTAAAAGTTGTGG-TGCCTCTGTTTAG
* *
4959991 AGAAGCATTTTATTTTCTAAAAGTTGTGGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTT-TAAAAGTTGTGG-TGCCTCTGTTTAG
*
4960034 AGGAGCAATTTATTTTTATAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTTTA-AAAGTTGTGGTGCCTCTGTTTAG
* * *
4960076 AGGAGCAATTTTTTTTTCAAAGTTGTGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTAAAAGTTGTGGTGCCTCTGTTTAG
* *
4960117 ATGAGCAATTTATTATTCAAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATT-TTTAAAAGTTGTGGTGCCTCTGTTTAG
* * *
4960159 AGGAGCAATTTATTATTCAAAACTTGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTATT-TTTAAAAGTTGTGGTGCCTCTGTTTAG
* * * * * *
4960201 AGGAAC-ATTTATTTTTCTCAAAGTCGTTGAGCCTCTATTTAG
1 AGGAGCAATTTA-TTTT-TAAAAGTTGTGGTGCCTCTGTTTAG
4960243 AGGAGC
1 AGGAGC
4960249 TTAATTTACT
Statistics
Matches: 221, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
41 40 0.18
42 135 0.61
43 46 0.21
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTAAAAGTTGTGGTGCCTCTGTTTAG
Found at i:4960123 original size:83 final size:82
Alignment explanation
Indices: 4959949--4960248 Score: 343
Period size: 83 Copynumber: 3.6 Consensus size: 82
4959939 ATAATTGTCA
* * * * *
4959949 AGGAGTAATTTATTTTCAAAAGTTATGGTTGCATCTATTTAGAGAAGC-ATTTTATTTTCTAAAA
1 AGGAGCAATTTATTTTCAAAAGTTGTGG-TGCCTCTATTTAGAGGAGCAATTTT-TTTT-TCAAA
4960013 GTTGTGGTTGCCTCTGTTTAG
63 GTTGT-GTTGCCTCTGTTTAG
*
4960034 AGGAGCAATTTATTTTTATAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTTTTTTTCAAAGT
1 AGGAGCAATTTATTTTCA-AAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTTTTTTTCAAAGT
4960099 TGTGTTGCCTCTGTTTAG
65 TGTGTTGCCTCTGTTTAG
* * * * *
4960117 ATGAGCAATTTATTATTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTATTCAAAAC
1 AGGAGCAATTTATT-TTCAAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTTTTTTTC-AAAG
* *
4960182 TTGTGGTGCCTTTGTTTAG
64 TTGTGTTGCCTCTGTTTAG
* * * * *
4960201 AGGAAC-ATTTATTTTTCTCAAAGTCGTTGAGCCTCTATTTAGAGGAGC
1 AGGAGCAATTTA-TTTTC-AAAAGTTGTGGTGCCTCTATTTAGAGGAGC
4960249 TTAATTTACT
Statistics
Matches: 188, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
83 74 0.39
84 63 0.34
85 37 0.20
86 14 0.07
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (82 bp):
AGGAGCAATTTATTTTCAAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTTTTTTTCAAAGTT
GTGTTGCCTCTGTTTAG
Found at i:4960186 original size:125 final size:127
Alignment explanation
Indices: 4959961--4960224 Score: 351
Period size: 125 Copynumber: 2.1 Consensus size: 127
4959951 GAGTAATTTA
*
4959961 TTTTCAAAAGTTATGGTTGCATCTATTTAGAGAAGCATTTTATTTTCTAAAAGTTGTGGTTGCCT
1 TTTTC-AAAGTTATGGTTGCATCTATTTAGAGAAGCAATTTATTTTCTAAAAGTTGTGGTTGCCT
* * *
4960026 CTGTTTAGAGGAGCAATTTATTTTTATAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTT-TT
65 CTGTTTAGAGGAGCAATTTATTTTCATAAACTTGTGGTGCCTCTATTTAGAGGAAC-ATTTATT
* * *
4960089 TTTTCAAAGTTGT-GTTGCCTCTGTTTAGATG-AGCAATTTATTATTC-AAAAGTTGTGG-TGCC
1 TTTTCAAAGTTATGGTTGCATCTATTTAGA-GAAGCAATTTATT-TTCTAAAAGTTGTGGTTGCC
* *
4960150 TCTGTTTAGAGGAGCAATTTATTATTCA-AAACTTGTGGTGCCTTTGTTTAGAGGAACATTTATT
64 TCTGTTTAGAGGAGCAATTTATT-TTCATAAACTTGTGGTGCCTCTATTTAGAGGAACATTTATT
4960214 TTTCTCAAAGT
1 TTT-TCAAAGT
4960225 CGTTGAGCCT
Statistics
Matches: 122, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
124 4 0.03
125 57 0.47
126 45 0.37
127 11 0.09
128 5 0.04
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.43
Consensus pattern (127 bp):
TTTTCAAAGTTATGGTTGCATCTATTTAGAGAAGCAATTTATTTTCTAAAAGTTGTGGTTGCCTC
TGTTTAGAGGAGCAATTTATTTTCATAAACTTGTGGTGCCTCTATTTAGAGGAACATTTATT
Found at i:4961398 original size:25 final size:25
Alignment explanation
Indices: 4961370--4961417 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4961360 TTAATTATCC
4961370 AATGATGAAATTTATA-AAAATTTCA
1 AATGAT-AAATTTATATAAAATTTCA
* *
4961395 AATGGTAAATTTTTATAAAATTT
1 AATGATAAATTTATATAAAATTT
4961418 TTAGGTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (25 bp):
AATGATAAATTTATATAAAATTTCA
Found at i:4961654 original size:185 final size:181
Alignment explanation
Indices: 4961329--4961666 Score: 477
Period size: 185 Copynumber: 1.8 Consensus size: 181
4961319 AGAAATAAAA
**
4961329 AAATAAAAAAAATAAAATTTGAGAATAAATATTAATTATCCAATGATGAAATTTATAAAAATTTC
1 AAATAAAAAAAATAAAATTTGAGAATAAATACAAATTATCCAATGATGAAATTTATAAAAATTTC
* * * * *
4961394 AAATGGTAAATTTTTATAAAATTTTTAGGTGAGAAATTTTGTCTAAATTTGTCTCAAATTGTGAA
66 AAATGGTAAATTTTTATAAAATCTCTAGATGAGAAATTTTGTCTAAATTTGGCCCAAATTGTGAA
*
4961459 ATAATTTAGATAAGATTTCAATAATAATAATTAATATTTATCTTCAAACAC
131 ATAATTTAGATAAAATTTCAATAATAATAATTAATATTTATCTTCAAACAC
* *
4961510 AAATATAAAAATATAAAAATTTTG-GAATTAAATACAAATTATCCAATGATGAGATTCT-TAAAA
1 AAATA-AAAAAAAT-AAAA-TTTGAGAA-TAAATACAAATTATCCAATGATGAAATT-TATAAAA
4961573 ATTTCAAATGGTAAATTTTT-TAAGAAATCTCTAGATGAGAAATTTCT-TCTAAATTTGGCCCAA
61 ATTTCAAATGGTAAATTTTTAT-A-AAATCTCTAGATGAGAAATTT-TGTCTAAATTTGGCCCAA
*
4961636 ATTGTGGAATAATTTAGATAAAATTTCAATA
123 ATTGTGAAATAATTTAGATAAAATTTCAATA
4961667 CAAGTAATTG
Statistics
Matches: 138, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
181 5 0.04
182 7 0.05
183 8 0.06
184 55 0.40
185 62 0.45
186 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (181 bp):
AAATAAAAAAAATAAAATTTGAGAATAAATACAAATTATCCAATGATGAAATTTATAAAAATTTC
AAATGGTAAATTTTTATAAAATCTCTAGATGAGAAATTTTGTCTAAATTTGGCCCAAATTGTGAA
ATAATTTAGATAAAATTTCAATAATAATAATTAATATTTATCTTCAAACAC
Found at i:4963791 original size:15 final size:15
Alignment explanation
Indices: 4963768--4963809 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
4963758 ATATTCATGA
4963768 ATAAT-AAATAAATT
1 ATAATAAAATAAATT
4963782 ATAATAAAATAAATT
1 ATAATAAAATAAATT
4963797 -TAA-ACAAATAAAT
1 ATAATA-AAATAAAT
4963810 CTTAAATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.04
14 16 0.62
15 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAAAATAAATT
Found at i:4963814 original size:15 final size:14
Alignment explanation
Indices: 4963773--4963815 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
4963763 CATGAATAAT
4963773 AAATAAATTATAATA-
1 AAATAAATT-TAA-AC
4963788 AAATAAATTTAAAC
1 AAATAAATTTAAAC
4963802 AAATAAATCTTAAA
1 AAATAAAT-TTAAA
4963816 TGAATCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
15 14 0.54
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATTTAAAC
Found at i:4964343 original size:2 final size:2
Alignment explanation
Indices: 4964336--4964373 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4964326 AGTGTGGTCC
*
4964336 AT AT AT AT AT AT GT 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
4964374 TAATATCCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4967874 original size:58 final size:59
Alignment explanation
Indices: 4967782--4967896 Score: 162
Period size: 58 Copynumber: 1.9 Consensus size: 59
4967772 TGTTTGTTTC
*
4967782 TTTTTTATTTTTCGTTTTTTTTTAAAGAACTATTTCCTTTGTAGAATATGTTGATTTTTTT
1 TTTTTTATTTTTCG--TTTTTTTAAAGAACTATTTCCTTTGTAGAATATATTGATTTTTTT
* *
4967843 TTTTTTAATTTTTCG-TTTTTT-AAGAAGTATTTGCTTTGTAGAATATATTGATTT
1 TTTTTT-ATTTTTCGTTTTTTTAAAGAACTATTTCCTTTGTAGAATATATTGATTT
4967897 ACAGATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
58 30 0.60
59 6 0.12
61 6 0.12
62 8 0.16
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (59 bp):
TTTTTTATTTTTCGTTTTTTTAAAGAACTATTTCCTTTGTAGAATATATTGATTTTTTT
Found at i:4969855 original size:3 final size:3
Alignment explanation
Indices: 4969834--4969876 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
4969824 GCGTAAACAC
4969834 TAT T-T TAT ATAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4969877 CACTATTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 29 0.76
4 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4969892 original size:9 final size:10
Alignment explanation
Indices: 4969838--4969889 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 10
4969828 AAACACTATT
4969838 TTATATATATA
1 TTAT-TATATA
4969849 TTATTAT-TA
1 TTATTATATA
4969858 TTATTAT-TA
1 TTATTATATA
4969867 TTATTATTATCA
1 TTATTA-TAT-A
*
4969879 CTATTATATA
1 TTATTATATA
4969889 T
1 T
4969890 ATTTTTCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
9 17 0.47
10 5 0.14
11 8 0.22
12 6 0.17
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATTATATA
Done.