Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005467.1 Hibiscus syriacus cultivar Beakdansim tig00012524_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: 580209
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 3
Found at i:1907 original size:24 final size:25
Alignment explanation
Indices: 1870--1917 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
1860 ATAAAATTCA
1870 AAGTTTAGACCCAAAGT-CCAAAAC
1 AAGTTTAGACCCAAAGTCCCAAAAC
* * *
1894 AAGTTTATATCCAATGTCCCAAAA
1 AAGTTTAGACCCAAAGTCCCAAAA
1918 ATAATTAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (25 bp):
AAGTTTAGACCCAAAGTCCCAAAAC
Found at i:3526 original size:14 final size:14
Alignment explanation
Indices: 3507--3551 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
3497 ATTGTAAGAT
3507 TATTAAAAATAAAA
1 TATTAAAAATAAAA
3521 TATTAAAAATAAAA
1 TATTAAAAATAAAA
*
3535 TATTAAAAATAATA
1 TATTAAAAATAAAA
3549 TAT
1 TAT
3552 CAAACATACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TATTAAAAATAAAA
Found at i:5451 original size:16 final size:17
Alignment explanation
Indices: 5430--5461 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5420 AGGATAGTCT
5430 AGGCAACT-GATTGCCA
1 AGGCAACTCGATTGCCA
5446 AGGCAACTCGATTGCC
1 AGGCAACTCGATTGCC
5462 TTGACAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (17 bp):
AGGCAACTCGATTGCCA
Found at i:7033 original size:18 final size:17
Alignment explanation
Indices: 7010--7075 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
7000 TTCAGAAAGG
*
7010 AAAAATAATAAAATATAA
1 AAAAATAATAAAACA-AA
* *
7028 AAAAATATTAAAAGAGAA
1 AAAAATAATAAAACA-AA
7046 AATAAA-AATAAAACAAA
1 AA-AAATAATAAAACAAA
7063 ACAAAATAA-AAAA
1 A-AAAATAATAAAA
7076 GAAGTAGGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
17 10 0.25
18 27 0.68
19 3 0.08
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAATAATAAAACAAA
Found at i:7099 original size:35 final size:35
Alignment explanation
Indices: 7050--7116 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
7040 AGAGAAAATA
7050 AAAATAAAACAAAACAAAAT-AAAAAAGAAGTAGG
1 AAAATAAAACAAAACAAAATAAAAAAAGAAGTAGG
*
7084 AAAATAAAGATAAAACAAAATAAAAAAAGAAGT
1 AAAATAAA-ACAAAACAAAATAAAAAAAGAAGT
7117 GTTAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 8 0.27
35 11 0.37
36 11 0.37
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.10
Consensus pattern (35 bp):
AAAATAAAACAAAACAAAATAAAAAAAGAAGTAGG
Found at i:7177 original size:12 final size:12
Alignment explanation
Indices: 7149--7200 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
7139 AGTAAAGAAA
7149 AAAAT-AAAGGT
1 AAAATAAAAGGT
7160 AAAATAAAAGGT
1 AAAATAAAAGGT
*
7172 ATAATAAAA--T
1 AAAATAAAAGGT
**
7182 AAAATAAAAAAT
1 AAAATAAAAGGT
7194 AAAATAA
1 AAAATAA
7201 TAAAATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
10 9 0.25
11 5 0.14
12 22 0.61
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
AAAATAAAAGGT
Found at i:7202 original size:8 final size:8
Alignment explanation
Indices: 7172--7217 Score: 60
Period size: 7 Copynumber: 5.8 Consensus size: 8
7162 AATAAAAGGT
7172 ATAATAAA
1 ATAATAAA
7180 ATAAAATAAA
1 AT--AATAAA
7190 A-AATAAA
1 ATAATAAA
7197 ATAATAAA
1 ATAATAAA
7205 ATAAT-AA
1 ATAATAAA
7212 ATAATA
1 ATAATA
7218 GTAGTAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 14 0.41
8 13 0.38
10 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAATAAA
Found at i:7202 original size:20 final size:21
Alignment explanation
Indices: 7172--7235 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
7162 AATAAAAGGT
7172 ATAATAA-AATAAAATAAAAA
1 ATAATAATAATAAAATAAAAA
*
7192 ATAA-AATAATAAAATAATAA
1 ATAATAATAATAAAATAAAAA
* *
7212 ATAATAGTAGTAAAGATAAAAA
1 ATAATAATAATAAA-ATAAAAA
7234 AT
1 AT
7236 GATTTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.05
20 20 0.54
21 7 0.19
22 8 0.22
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAATAATAATAAAATAAAAA
Found at i:7278 original size:18 final size:18
Alignment explanation
Indices: 7257--7299 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
7247 GTTGTTTTTA
*
7257 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
7275 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
7293 AAATAAA
1 AAATAAA
7300 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:7910 original size:17 final size:17
Alignment explanation
Indices: 7888--7952 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
7878 AAAATAAAAA
7888 TAAAATAAAATAATATT
1 TAAAATAAAATAATATT
** *
7905 TAAAATAAAATCCTAAT
1 TAAAATAAAATAATATT
* *
7922 TGAAATACTAATATATATT
1 TAAAATA-AAATA-ATATT
*
7941 TAAACTAAAATA
1 TAAAATAAAATA
7953 CAAAGATAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 3
0.71 0.22 0.06
Matches are distributed among these distances:
17 20 0.57
18 7 0.20
19 8 0.23
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (17 bp):
TAAAATAAAATAATATT
Found at i:8602 original size:200 final size:199
Alignment explanation
Indices: 8213--8953 Score: 914
Period size: 200 Copynumber: 3.7 Consensus size: 199
8203 TCTTCTTGGT
* * * * * **
8213 TTAAAGACCTCGGTTTGAAAATTCAACC-GAAAAATAGTTCCTCGATGCTACCATATGGTTGATA
1 TTAAAGACCTCAGTTT-AAACTTCAACCAG-AAAGTAGTTCCTTGTTGCTACCATGCGGTTGATA
* * * * * * *
8277 TGCCCTCAAGCTGAATAGAATCGAACTCGAAGGTTTTTGTTGACAAATATCCCTTCTCGTCTTGA
64 TGCCTTCGAGCTGAATAGAATCGAACTCAAAAG-TTTTGTTGACAGATAGCCCTTCTCGCCTTGA
* * * *
8342 GCTATGCTGTAAATTCGACTGAGAGATAGTTCATTATTGCTAAATCGCAGCCAACCTAGGTCTTC
128 GCTATACTGTAAATTCGACTG-GAGATAGTTCATTGTTGCTAAATCGTAGCTAACCTAGGTCTTC
8407 TTATTGAC
192 TTATTGAC
* * *
8415 TTAAAGACCTCAGTTTAAACTTTAACCAGAAAGTAGTTCGTTATTGCTACCATGCGGTTGATATG
1 TTAAAGACCTCAGTTTAAACTTCAACCAGAAAGTAGTTCCTTGTTGCTACCATGCGGTTGATATG
* * * * *
8480 CCTTCGAGCTGAATATAATCGAACTCGAAAGTTTTGTTGATAGATAGCCCTTATCGCCTTGAGTT
66 CCTTCGAGCTGAATAGAATCGAACTCAAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCT
* * * * *
8545 ATACTATAAATTCGGCTAGGAGATAGTTCCTTGTTGCTAAATCGTAACTAACCTAGGTCTTCTTC
131 ATACTGTAAATTCGACT-GGAGATAGTTCATTGTTGCTAAATCGTAGCTAACCTAGGTCTTCTTA
*
8610 TTAAC
195 TTGAC
* *
8615 TTAAAGACCTCAGTTTAAACTTCAA-CAGGAAAGTAGTTCCTTGTTGCTATCATGCGGTTTATAT
1 TTAAAGACCTCAGTTTAAACTTCAACCA-GAAAGTAGTTCCTTGTTGCTACCATGCGGTTGATAT
* * * *
8679 GCCTTCGAGCTGAATGGAATCGAGCTCAAAAATTTTGTTGACAGATAGCTCTTCTCGCCTTGAGC
65 GCCTTCGAGCTGAATAGAATCGAACTCAAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGC
* * *
8744 TATACTGTAAATTCGATTGGGAGATAGTTCATTGTTGCTAAATCATAGCTAACCTAGGTATTCTT
130 TATACTGTAAATTCGACT-GGAGATAGTTCATTGTTGCTAAATCGTAGCTAACCTAGGTCTTCTT
*
8809 TTTGAC
194 ATTGAC
* ** * * *
8815 TTAAATACCTCAGTTTAAACTTCAACTGGAAAGTAGTTCCTCGTTGCTACTACG-GGTTGATATG
1 TTAAAGACCTCAGTTTAAACTTCAACCAGAAAGTAGTTCCTTGTTGCTACCATGCGGTTGATATG
* * *
8879 CCTTCGAGCTGAATGGAATCAAACTCAAAAG-TTTGTTGACAGATAGCCCTTCTCGCCTTTAGCT
66 CCTTCGAGCTGAATAGAATCGAACTCAAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCT
**
8943 ATGTTGTAAAT
131 ATACTGTAAAT
8954 GGTTCCTCCA
Statistics
Matches: 466, Mismatches: 69, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
198 40 0.09
199 39 0.08
200 305 0.65
201 66 0.14
202 16 0.03
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (199 bp):
TTAAAGACCTCAGTTTAAACTTCAACCAGAAAGTAGTTCCTTGTTGCTACCATGCGGTTGATATG
CCTTCGAGCTGAATAGAATCGAACTCAAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCT
ATACTGTAAATTCGACTGGAGATAGTTCATTGTTGCTAAATCGTAGCTAACCTAGGTCTTCTTAT
TGAC
Found at i:9268 original size:86 final size:86
Alignment explanation
Indices: 9018--9380 Score: 498
Period size: 86 Copynumber: 4.3 Consensus size: 86
9008 CTTTAGTTGT
* * * * * *
9018 CTCCCCTTTACGGGAGAGTCAAGTGGTATATTCTTCAGGTGCTTCCCCTTTGTGGGTCTGAACCA
1 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
9083 GGTGAGATGATCTTTGGATGA
66 GGTGAGATGATCTTTGGATGA
9104 CTCCCCTTCACGGGAAAGTCATGTGGTAT-TTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
1 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
* *
9168 GATGAGATGATCTTTGGATGT
66 GGTGAGATGATCTTTGGATGA
* *
9189 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCTCCTTCGCAGGTCTGAACCA
1 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
9254 GGTGAGATGATCTTTGGATGA
66 GGTGAGATGATCTTTGGATGA
* * * * * * * * * *
9275 CTCCTCTTCACGGGAAAGTCATGTGATGTATTCTTTAGGCGGTTCTCTTTCATGGGTCTGAATCA
1 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
* *
9340 GGTGAGATTATCTTTGGAGGA
66 GGTGAGATGATCTTTGGATGA
*
9361 CTCCCTTTCAC--GAAAGTCAT
1 CTCCCCTTCACGGGAAAGTCAT
9381 ATGAGATGTT
Statistics
Matches: 250, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
84 9 0.04
85 80 0.32
86 161 0.64
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (86 bp):
CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
GGTGAGATGATCTTTGGATGA
Found at i:11580 original size:52 final size:52
Alignment explanation
Indices: 11502--11605 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
11492 TATTTGACTA
* *
11502 AATCCTCTAAACCCCGAACAACTTCTAATAGGTTGACAAGTCTTATTCCTTT
1 AATCCTCTAAACCCCGAACAACTTCTAATAGGTTAACAAGTCGTATTCCTTT
11554 AATCCTCTAAACCCCGAACAACTTCTAATAGGTTAACAAGTCGTATTCCTTT
1 AATCCTCTAAACCCCGAACAACTTCTAATAGGTTAACAAGTCGTATTCCTTT
11606 CTATGTCACT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (52 bp):
AATCCTCTAAACCCCGAACAACTTCTAATAGGTTAACAAGTCGTATTCCTTT
Found at i:15680 original size:82 final size:82
Alignment explanation
Indices: 15538--15790 Score: 334
Period size: 82 Copynumber: 3.1 Consensus size: 82
15528 TCCACTCTTT
* * * * *
15538 TTCAGGGCAGATCATACTTGATCTGCT-CCT-TTTTT-GGGTAATCAGGTCAATTTTGGAAGATG
1 TTCAGGGGAGATCAAACTTGATCTG-TGCCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGATG
*
15600 TGTATGCTCCACTATTCA
65 TGTCTGCTCCACTATTCA
**
15618 TTCAGGGGAGATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTTTAAGATGT
1 TTCAGGGGAGATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGATGT
*
15683 GTCTGCTCCATTATTCA
66 GTCTGCTCCACTATTCA
* * **
15700 TTCAGGGGAGATCAGACTTGA-CATGTGTCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGACA
1 TTCAGGGGAGATCAAACTTGATC-TGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGATG
*
15764 TTTCTGCTCCACTATTCA
65 TGTCTGCTCCACTATTCA
15782 TTCAGGGGA
1 TTCAGGGGA
15791 TTTTTCATGT
Statistics
Matches: 153, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
79 1 0.01
80 26 0.17
81 6 0.04
82 120 0.78
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (82 bp):
TTCAGGGGAGATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGATGT
GTCTGCTCCACTATTCA
Found at i:15912 original size:142 final size:142
Alignment explanation
Indices: 15657--15932 Score: 399
Period size: 142 Copynumber: 1.9 Consensus size: 142
15647 TCTTTTTCGG
* ** * * * *
15657 GTAGTCAGATCAATTTTTTAAGATGTGTCTGCTCCATTATTCATTCAGGGGAGATCAGACTTGAC
1 GTAGTCAGATAAATTTTGAAAGACGTGTCTACTCCACTATTCATTCAGGGGAGATCAAACTTGAC
* * * *
15722 ATGTGTCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGACATTTCTGCTCCACTATTCATTCAG
66 ATGTGCCTCTTTTTCGGGTAGTCAAATCAATTTTAGAAGACATGTCTGCTCCACTATTCATTCAA
15787 GGGATTTTTCAT
131 GGGATTTTTCAT
*
15799 GTAGTCAGATAAATTTTGAAAGACGTGTCTACTCCACTATTCATTCAGGGGAGATCAAACTTGAT
1 GTAGTCAGATAAATTTTGAAAGACGTGTCTACTCCACTATTCATTCAGGGGAGATCAAACTTGAC
* * * * *
15864 ATGTGCCTCTTTTTTGGGTAGTCAAATTAATTTTGGAAGACGTGTCTGCTCCACTATTTATTCAA
66 ATGTGCCTCTTTTTCGGGTAGTCAAATCAATTTTAGAAGACATGTCTGCTCCACTATTCATTCAA
15929 GGGA
131 GGGA
15933 GATCAGACTT
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
142 117 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (142 bp):
GTAGTCAGATAAATTTTGAAAGACGTGTCTACTCCACTATTCATTCAGGGGAGATCAAACTTGAC
ATGTGCCTCTTTTTCGGGTAGTCAAATCAATTTTAGAAGACATGTCTGCTCCACTATTCATTCAA
GGGATTTTTCAT
Found at i:15933 original size:82 final size:82
Alignment explanation
Indices: 15799--16026 Score: 316
Period size: 82 Copynumber: 2.8 Consensus size: 82
15789 GATTTTTCAT
* * * * *
15799 GTAGTCAGATAAATTTTGAAAGACGTGTCTACTCCACTATTCATTCAGGGGAGATCAAACTTGAT
1 GTAGTCAGATAAATTTTGGAAGACGTGTCTGCTCCACTATTAATTCAAGGGAGATCAGACTTGAT
*
15864 ATGTGCCTCTTTTTTGG
66 ATATGCCTCTTTTTTGG
* * *
15881 GTAGTCAAATTAATTTTGGAAGACGTGTCTGCTCCACTATTTATTCAAGGGAGATCAGACTTGAT
1 GTAGTCAGATAAATTTTGGAAGACGTGTCTGCTCCACTATTAATTCAAGGGAGATCAGACTTGAT
*
15946 CTATGCCTCTTTTTTGG
66 ATATGCCTCTTTTTTGG
* *
15963 GTAGTCAGATCAAA-TTTGGAAGACGTGTCTGCTTCACTATTAATT-AAGGGGATATCAGACTTG
1 GTAGTCAGAT-AAATTTTGGAAGACGTGTCTGCTCCACTATTAATTCAA-GGGAGATCAGACTTG
16026 A
64 A
16027 GAAATCTTTG
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
81 2 0.02
82 126 0.97
83 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (82 bp):
GTAGTCAGATAAATTTTGGAAGACGTGTCTGCTCCACTATTAATTCAAGGGAGATCAGACTTGAT
ATATGCCTCTTTTTTGG
Found at i:16003 original size:224 final size:224
Alignment explanation
Indices: 15586--16015 Score: 628
Period size: 224 Copynumber: 1.9 Consensus size: 224
15576 TAATCAGGTC
* * * *
15586 AATTTTGGAAGATGTGTATGCTCCACTATTCATTCAGGGGAGATCAAACTTGATCTGTGCCTCTT
1 AATTTTGAAAGACGTGTATACTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTT
* ** * * *
15651 TTTCGGGTAGTCAGATCAATTTTTTAAGATGTGTCTGCTCCATTATTCATTCAGGGGAGATCAGA
66 TTTCGGGTAGTCAAATCAATTTTGGAAGACGTGTCTGCTCCACTATTCATTCAAGGGAGATCAGA
* * * * *
15716 CTTGACATGTGTCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGACATTTCTGCTCCACTATTC
131 CTTGACATATGCCTCTTTTTCGGGTAGTCAGATCAAATTTAGAAGACATGTCTGCTCCACTATTA
*
15781 ATTCAGGGGATTTTTCATGTAGTCAGATA
196 ATTAAGGGGATTTTTCATGTAGTCAGATA
*
15810 AATTTTGAAAGACGTGTCTACTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTT
1 AATTTTGAAAGACGTGTATACTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTT
* * *
15875 TTTTGGGTAGTCAAATTAATTTTGGAAGACGTGTCTGCTCCACTATTTATTCAAGGGAGATCAGA
66 TTTCGGGTAGTCAAATCAATTTTGGAAGACGTGTCTGCTCCACTATTCATTCAAGGGAGATCAGA
* * * *
15940 CTTGATC-TATGCCTCTTTTTTGGGTAGTCAGATCAAATTTGGAAGACGTGTCTGCTTCACTATT
131 CTTGA-CATATGCCTCTTTTTCGGGTAGTCAGATCAAATTTAGAAGACATGTCTGCTCCACTATT
16004 AATTAAGGGGAT
195 AATTAAGGGGAT
16016 ATCAGACTTG
Statistics
Matches: 181, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
224 180 0.99
225 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (224 bp):
AATTTTGAAAGACGTGTATACTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTT
TTTCGGGTAGTCAAATCAATTTTGGAAGACGTGTCTGCTCCACTATTCATTCAAGGGAGATCAGA
CTTGACATATGCCTCTTTTTCGGGTAGTCAGATCAAATTTAGAAGACATGTCTGCTCCACTATTA
ATTAAGGGGATTTTTCATGTAGTCAGATA
Found at i:30783 original size:21 final size:20
Alignment explanation
Indices: 30746--30788 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
30736 TTTTTAATAA
30746 ATAAAATACAATATAATATT
1 ATAAAATACAATATAATATT
*
30766 ATAAAATATAAGTATAATATT
1 ATAAAATACAA-TATAATATT
30787 AT
1 AT
30789 TTTTTAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAAATACAATATAATATT
Found at i:34570 original size:205 final size:204
Alignment explanation
Indices: 34218--34632 Score: 688
Period size: 205 Copynumber: 2.0 Consensus size: 204
34208 AAGCATCTGA
*
34218 GAAGAATAGTAGAGAAAATTTTGAACGAAATTTTCTTCCAATCTATAATCTGTAAGTACTATTCA
1 GAAGAATAATAGAGAAAATTTTGAACGAAATTTTCTTCCAATCTATAATCTGTAAGTACTATTCA
*
34283 AATAAAATTTTATTCATATTCGAATAAAATATCTCTATTTCGAAAAGGTTTTTAAAATATTATTT
66 AATAAAATTTTATTCATATTCGAATAAAATATCTCTATTTCGAAAAGGTTATTAAAATATTATTT
34348 TTAATATGTTGTTGCAGGTAAAAAAAGAAGTGAGTAAGAAATTCGAAAAGGTTTTTTTATAACAT
131 TTAATATGTTGTTGCAGGT-AAAAAAGAAGTGAGTAAGAAATTCGAAAAGGTTTTTTTATAACAT
34413 CAACTTGTCG
195 CAACTTGTCG
* * * **
34423 GAAGAATAATCGAGAAAATTTTGAACGAAATTTTCTTTCAATCTATAATCTGTAAGTATTATTGG
1 GAAGAATAATAGAGAAAATTTTGAACGAAATTTTCTTCCAATCTATAATCTGTAAGTACTATTCA
* * *
34488 AATAAAATTTTATTCGTATTCGAATAATATATCTTTATTTC-AGAAAGGTTATTAAAATATTATT
66 AATAAAATTTTATTCATATTCGAATAAAATATCTCTATTTCGA-AAAGGTTATTAAAATATTATT
* *
34552 TTTATTATGTTGTTGCAGGTGAAAAAGAAGTGAGTAAGAAATTCGAAAAGGTTTTTTTATAACAT
130 TTTAATATGTTGTTGCAGGTAAAAAAGAAGTGAGTAAGAAATTCGAAAAGGTTTTTTTATAACAT
*
34617 TAACTTGTCG
195 CAACTTGTCG
34627 GAAGAA
1 GAAGAA
34633 ACTCTCAACT
Statistics
Matches: 196, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
204 60 0.31
205 136 0.69
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (204 bp):
GAAGAATAATAGAGAAAATTTTGAACGAAATTTTCTTCCAATCTATAATCTGTAAGTACTATTCA
AATAAAATTTTATTCATATTCGAATAAAATATCTCTATTTCGAAAAGGTTATTAAAATATTATTT
TTAATATGTTGTTGCAGGTAAAAAAGAAGTGAGTAAGAAATTCGAAAAGGTTTTTTTATAACATC
AACTTGTCG
Found at i:34886 original size:25 final size:25
Alignment explanation
Indices: 34833--34892 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
34823 TTTGTAGTAG
* * **
34833 AAAAATATTATTTATTATAATGATG
1 AAAAATAATATTTATTATAATAACA
34858 AAAAATAATATTTATTATAATAACA
1 AAAAATAATATTTATTATAATAACA
34883 AAAAATAATA
1 AAAAATAATA
34893 GCAAAACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (25 bp):
AAAAATAATATTTATTATAATAACA
Found at i:35228 original size:38 final size:38
Alignment explanation
Indices: 35186--35285 Score: 137
Period size: 38 Copynumber: 2.6 Consensus size: 38
35176 ATTCTCCGTA
*
35186 AATAACCTGAGTAGGTCGGTGGTTATTAATTATCCATT
1 AATAACATGAGTAGGTCGGTGGTTATTAATTATCCATT
* *
35224 AATAACATGGGTAGGTTGGTGGTTATTAATTATCCATT
1 AATAACATGAGTAGGTCGGTGGTTATTAATTATCCATT
* * * *
35262 AATATCACGGGTAGGTTGGTGGTT
1 AATAACATGAGTAGGTCGGTGGTT
35286 GAACGGGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (38 bp):
AATAACATGAGTAGGTCGGTGGTTATTAATTATCCATT
Found at i:35439 original size:20 final size:20
Alignment explanation
Indices: 35414--35481 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
35404 TATGTTTATA
35414 AAAAATATTTTTAATATATT
1 AAAAATATTTTTAATATATT
*
35434 AAAAATATTGTTAATATATT
1 AAAAATATTTTTAATATATT
* * *
35454 -TACATATTTTTAAAAT-TT
1 AAAAATATTTTTAATATATT
*
35472 AATAATATTT
1 AAAAATATTT
35482 ATTATAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
18 2 0.05
19 18 0.46
20 19 0.49
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
AAAAATATTTTTAATATATT
Found at i:35491 original size:29 final size:27
Alignment explanation
Indices: 35444--35497 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 27
35434 AAAAATATTG
35444 TTAATATATTTACATATTTT-TAAAAT
1 TTAATATATTTACATATTTTGTAAAAT
*
35470 TTAATAATATTTATTATAATTTTGTAAA
1 TTAAT-ATATTTA-CAT-ATTTTGTAAA
35498 TAATTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 7 0.30
28 2 0.09
29 5 0.22
30 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (27 bp):
TTAATATATTTACATATTTTGTAAAAT
Found at i:37290 original size:17 final size:18
Alignment explanation
Indices: 37268--37316 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 18
37258 GGGCTTTACA
*
37268 AATAATATTTATA-ATAT
1 AATAATATATATATATAT
37285 AATAATATATATATATAT
1 AATAATATATATATATAT
37303 -AT-ATATATATATAT
1 AATAATATATATATAT
37317 TAACGTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 12 0.40
17 14 0.47
18 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATAATATATATATATAT
Found at i:37329 original size:2 final size:2
Alignment explanation
Indices: 37272--37316 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
37262 TTTACAAATA
*
37272 AT AT TT AT A- AT AT A- AT A- 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 AT AT
37311 AT AT AT
1 AT AT AT
37317 TAACGTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37899 original size:95 final size:95
Alignment explanation
Indices: 37730--38133 Score: 589
Period size: 95 Copynumber: 4.3 Consensus size: 95
37720 ACTTGGATTT
* * * * * *
37730 CTTCATTACTCTTCCGTGAAGATTTCATAATTTGTTGGAAAAATCCATTCCACTATTCTGCCGTG
1 CTTCACTACTCTTCAGTGAAGATTTCATACTTTGCT-GAAAAATCCGTTCCACTATTCTTCCGTG
37795 GAGATCAGATTTATGATTGAATTTGCTTTTA
65 GAGATCAGATTTATGATTGAATTTGCTTTTA
*
37826 CTTCACTACTCTTCAGTGAAGATTTCATACTTTGCTGAAAAATCCGTTCCACTATTCTTCCGTGA
1 CTTCACTACTCTTCAGTGAAGATTTCATACTTTGCTGAAAAATCCGTTCCACTATTCTTCCGTGG
* *
37891 AGAACAGATTTATGATTGAATTT-CCTTTA
66 AGATCAGATTTATGATTGAATTTGCTTTTA
* * * *
37920 GCTTCACTACTCTTCCGTGAAGATTTCATACTTTGCTAAAAAATTCGTTCCACTATTCTTCTGTG
1 -CTTCACTACTCTTCAGTGAAGATTTCATACTTTGCTGAAAAATCCGTTCCACTATTCTTCCGTG
*
37985 GAGATCAGATTTATGATTGAATTTGCTTTTG
65 GAGATCAGATTTATGATTGAATTTGCTTTTA
* ** *
38016 CTTCACTATTCGAC-GTGAAGATTTCATACTTTGCTGAAAAATCCGTTCCACTATTCTTCTGTGG
1 CTTCACTACTCTTCAGTGAAGATTTCATACTTTGCTGAAAAATCCGTTCCACTATTCTTCCGTGG
*
38080 AGATCAGATTTATGATTGAATTTGCTTTTG
66 AGATCAGATTTATGATTGAATTTGCTTTTA
38110 CTTCACTACTCTTCCA-TGAAGATT
1 CTTCACTACTCTT-CAGTGAAGATT
38134 AAATTTGCAT
Statistics
Matches: 279, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
94 93 0.33
95 150 0.54
96 36 0.13
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (95 bp):
CTTCACTACTCTTCAGTGAAGATTTCATACTTTGCTGAAAAATCCGTTCCACTATTCTTCCGTGG
AGATCAGATTTATGATTGAATTTGCTTTTA
Found at i:38026 original size:49 final size:49
Alignment explanation
Indices: 37970--38123 Score: 133
Period size: 49 Copynumber: 3.2 Consensus size: 49
37960 AAATTCGTTC
37970 CACTATTCTTCTGTGGAGATCAGATTTATGATTGAATTTGCTTTTGCTT
1 CACTATTCTTCTGTGGAGATCAGATTTATGATTGAATTTGCTTTTGCTT
** * * * * ** **
38019 CACTATTCGAC-GTGAAGATTTCATACTT-TG-CTGAAAAAT-CCGTT-C--
1 CACTATTCTTCTGTGGAGA--TCAGATTTATGATTG-AATTTGCTTTTGCTT
38064 CACTATTCTTCTGTGGAGATCAGATTTATGATTGAATTTGCTTTTGCTT
1 CACTATTCTTCTGTGGAGATCAGATTTATGATTGAATTTGCTTTTGCTT
*
38113 CACTACTCTTC
1 CACTATTCTTC
38124 CATGAAGATT
Statistics
Matches: 74, Mismatches: 21, Indels: 20
0.64 0.18 0.17
Matches are distributed among these distances:
44 6 0.08
45 14 0.19
46 11 0.15
47 2 0.03
48 11 0.15
49 24 0.32
50 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (49 bp):
CACTATTCTTCTGTGGAGATCAGATTTATGATTGAATTTGCTTTTGCTT
Found at i:38091 original size:189 final size:191
Alignment explanation
Indices: 37730--38133 Score: 632
Period size: 189 Copynumber: 2.1 Consensus size: 191
37720 ACTTGGATTT
* * *
37730 CTTCATTACTCTTCCGTGAAGATTTCATAATTTGTTGGAAAAATCCATTCCACTATTCTGCCGTG
1 CTTCACTACTCTTCCGTGAAGATTTCATAATTTGCTGAAAAAATCCATTCCACTATTCTGCCGTG
**
37795 GAGATCAGATTTATGATTGAATTTGCTTTTACTTCACTACTCTTCAGTGAAGATTTCATACTTTG
66 GAGATCAGATTTATGATTGAATTTGCTTTTACTTCACTACTCGACAGTGAAGATTTCATACTTTG
37860 CTGAAAAATCCGTTCCACTATTCTTCCGTGAAGAACAGATTTATGATTGAATTTCCTTTAG
131 CTGAAAAATCCGTTCCACTATTCTTCCGTGAAGAACAGATTTATGATTGAATTTCCTTTAG
* * * * *
37921 CTTCACTACTCTTCCGTGAAGATTTCATACTTTGCT-AAAAAATTCGTTCCACTATTCTTCTGTG
1 CTTCACTACTCTTCCGTGAAGATTTCATAATTTGCTGAAAAAATCCATTCCACTATTCTGCCGTG
* *
37985 GAGATCAGATTTATGATTGAATTTGCTTTTGCTTCACTATTCGAC-GTGAAGATTTCATACTTTG
66 GAGATCAGATTTATGATTGAATTTGCTTTTACTTCACTACTCGACAGTGAAGATTTCATACTTTG
* * * * *
38049 CTGAAAAATCCGTTCCACTATTCTTCTGTGGAGATCAGATTTATGATTGAATTTGCTTTTG
131 CTGAAAAATCCGTTCCACTATTCTTCCGTGAAGAACAGATTTATGATTGAATTTCCTTTAG
*
38110 CTTCACTACTCTTCCATGAAGATT
1 CTTCACTACTCTTCCGTGAAGATT
38134 AAATTTGCAT
Statistics
Matches: 195, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
189 98 0.50
190 64 0.33
191 33 0.17
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (191 bp):
CTTCACTACTCTTCCGTGAAGATTTCATAATTTGCTGAAAAAATCCATTCCACTATTCTGCCGTG
GAGATCAGATTTATGATTGAATTTGCTTTTACTTCACTACTCGACAGTGAAGATTTCATACTTTG
CTGAAAAATCCGTTCCACTATTCTTCCGTGAAGAACAGATTTATGATTGAATTTCCTTTAG
Found at i:39421 original size:43 final size:42
Alignment explanation
Indices: 39350--39430 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
39340 TACCCGCTTG
* * *
39350 GATTATTTTTGCTTGAAATGGGCTTTCAGCATGCCCCACATA
1 GATTATTTTTGCTGGAAATGGGCCTTCAGCATACCCCACATA
39392 GATTATTTTTGACTGGAAATGGGCCTTCAGCATACCCCA
1 GATTATTTTTG-CTGGAAATGGGCCTTCAGCATACCCCA
39431 ACCTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 11 0.31
43 24 0.69
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
GATTATTTTTGCTGGAAATGGGCCTTCAGCATACCCCACATA
Found at i:56875 original size:13 final size:13
Alignment explanation
Indices: 56833--56875 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
56823 ACTTACGATA
*
56833 ATTTAATATAGAT
1 ATTTAATATAAAT
* *
56846 AATTAATAAATAAT
1 ATTTAATATA-AAT
56860 ATTTAATATAAAT
1 ATTTAATATAAAT
56873 ATT
1 ATT
56876 ATTAATCTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTTAATATAAAT
Found at i:61155 original size:56 final size:56
Alignment explanation
Indices: 61069--61217 Score: 201
Period size: 56 Copynumber: 2.7 Consensus size: 56
61059 TACTACATGC
** *
61069 GTGCAAAATCCATGGAATTCATCATGAGTTGATTAATAGCCATACAAGAACTATGT
1 GTGCAAAATCCACAGAATTCATCATGAGTTGATGAATAGCCATACAAGAACTATGT
* * * * *
61125 GTGCAAAATCCACAAAATTCATCATGAGTTGATGAATAGTCGTACATGCACTATGT
1 GTGCAAAATCCACAGAATTCATCATGAGTTGATGAATAGCCATACAAGAACTATGT
*
61181 GTAC-AAATCCACAGAATTCATTCATGAGTTGATGAAT
1 GTGCAAAATCCACAGAATTCA-TCATGAGTTGATGAAT
61218 TACCGTATAG
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
55 15 0.18
56 67 0.82
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (56 bp):
GTGCAAAATCCACAGAATTCATCATGAGTTGATGAATAGCCATACAAGAACTATGT
Found at i:61240 original size:56 final size:55
Alignment explanation
Indices: 61084--61241 Score: 185
Period size: 56 Copynumber: 2.8 Consensus size: 55
61074 AAATCCATGG
* * * * *
61084 AATTCATCATGAGTTGATTAATAGCCATACAAGAACTATGTGTGCAAAATCCACAA
1 AATTCATCATGAGTTGATGAATAGCCGTACAGGCACTATGTGTAC-AAATCCACAA
* * *
61140 AATTCATCATGAGTTGATGAATAGTCGTACATGCACTATGTGTACAAATCCACAG
1 AATTCATCATGAGTTGATGAATAGCCGTACAGGCACTATGTGTACAAATCCACAA
*
61195 AATTCATTCATGAGTTGATGAATTA-CCGTATAGGCACTACT-TGTACA
1 AATTCA-TCATGAGTTGATGAA-TAGCCGTACAGGCACTA-TGTGTACA
61242 TTCTAATAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
55 15 0.17
56 71 0.80
57 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (55 bp):
AATTCATCATGAGTTGATGAATAGCCGTACAGGCACTATGTGTACAAATCCACAA
Found at i:67359 original size:21 final size:21
Alignment explanation
Indices: 67335--67386 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
67325 CTTGCTAAGT
67335 AGTATCGATATTAACTCAATC
1 AGTATCGATATTAACTCAATC
67356 AGTATCGATATTAACTCAATC
1 AGTATCGATATTAACTCAATC
67377 AGTATCGATA
1 AGTATCGATA
67387 CCGAAGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
AGTATCGATATTAACTCAATC
Found at i:68003 original size:56 final size:56
Alignment explanation
Indices: 67829--68004 Score: 243
Period size: 56 Copynumber: 3.1 Consensus size: 56
67819 AGTGTACTAC
67829 AGGCACTATGTGTGCAAAATCCACGGAATTCA-TCATGAGTTGATGAATAGCCGTAA
1 AGGCACTATGTGTGCAAAATCCAC-GAATTCATTCATGAGTTGATGAATAGCCGTAA
* * *
67885 AGGAACTATGTGTGCAAAATCCACGAAATTCATT-ATGAGTTGATGAATAGTCGTAC
1 AGGCACTATGTGTGCAAAATCCACG-AATTCATTCATGAGTTGATGAATAGCCGTAA
* *
67941 ATGCACTATGTGTGC-AAATCCACAGAATTCATTCATGAGTTGATGAATTA-CCGTAT
1 AGGCACTATGTGTGCAAAATCCAC-GAATTCATTCATGAGTTGATGAA-TAGCCGTAA
67997 AGGCACTA
1 AGGCACTA
68005 CTTGTACATT
Statistics
Matches: 107, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
55 17 0.16
56 87 0.81
57 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (56 bp):
AGGCACTATGTGTGCAAAATCCACGAATTCATTCATGAGTTGATGAATAGCCGTAA
Found at i:74615 original size:56 final size:56
Alignment explanation
Indices: 74536--74692 Score: 221
Period size: 56 Copynumber: 2.8 Consensus size: 56
74526 GTACTACAGA
*
74536 CACTATGTGTG-AAATATCCACGGAATTCATCATGAGTTGATGAATAGTTC-TACATG
1 CACTATGTGTGCAAA-ATCCACGGAATTCATCATGAGTTGATGAATAG-CCGTACATG
* *
74592 CACTATGTGTGCAAAAACCACGGAATTCATCATGAGTTGATGAAAAGCCGTACATG
1 CACTATGTGTGCAAAATCCACGGAATTCATCATGAGTTGATGAATAGCCGTACATG
* *
74648 CACTATGTGTGC-AAATCCACAGAATTTATTCATGAGTTGATGAAT
1 CACTATGTGTGCAAAATCCACGGAATTCA-TCATGAGTTGATGAAT
74693 TACCATATAC
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
55 14 0.15
56 74 0.81
57 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (56 bp):
CACTATGTGTGCAAAATCCACGGAATTCATCATGAGTTGATGAATAGCCGTACATG
Found at i:74715 original size:56 final size:55
Alignment explanation
Indices: 74536--74716 Score: 172
Period size: 56 Copynumber: 3.2 Consensus size: 55
74526 GTACTACAGA
* * * *
74536 CACTATGTGTG-AAATATCCACGGAATTCATCATGAGTTGATGAATAGTTC-TACATG
1 CACTATGTGTGCAAA-A-CCACAGAATTCATCATGAGTTGATGAAAAG-CCATACACG
* * *
74592 CACTATGTGTGCAAAAACCACGGAATTCATCATGAGTTGATGAAAAGCCGTACATG
1 CACTATGTGTGC-AAAACCACAGAATTCATCATGAGTTGATGAAAAGCCATACACG
* * * *
74648 CACTATGTGTGCAAATCCACAGAATTTATTCATGAGTTGATGAATTA-CCATATACG
1 CACTATGTGTGCAAAACCACAGAATTCA-TCATGAGTTGATGAA-AAGCCATACACG
74704 CACTACT-TGTGCA
1 CACTA-TGTGTGCA
74717 TTCTAATAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
55 14 0.13
56 90 0.82
57 3 0.03
58 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (55 bp):
CACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAAAAGCCATACACG
Found at i:75991 original size:54 final size:54
Alignment explanation
Indices: 75915--76051 Score: 211
Period size: 54 Copynumber: 2.5 Consensus size: 54
75905 ATCGAAACTA
*
75915 TGTGCAATCCACGGAGTTCATAATGAGTTTATGAATGACCGTATCAGCACTATG
1 TGTGCAACCCACGGAGTTCATAATGAGTTTATGAATGACCGTATCAGCACTATG
* ** *
75969 TGTGCAACCCACGTAGTTCATAATGAGTTTATGAATGATTGTATCAGCATTATG
1 TGTGCAACCCACGGAGTTCATAATGAGTTTATGAATGACCGTATCAGCACTATG
* *
76023 TGTGCAACCCACGGAATTTATAATGAGTT
1 TGTGCAACCCACGGAGTTCATAATGAGTT
76052 GTAATATTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (54 bp):
TGTGCAACCCACGGAGTTCATAATGAGTTTATGAATGACCGTATCAGCACTATG
Found at i:91573 original size:19 final size:19
Alignment explanation
Indices: 91551--91589 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
91541 TTGAATTGTA
*
91551 AGTCACCTCTTTCTTTTCT
1 AGTCACCTCTTCCTTTTCT
91570 AGTCACCTCTTCCTTTTCT
1 AGTCACCTCTTCCTTTTCT
91589 A
1 A
91590 TCCTTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.33, G:0.05, T:0.49
Consensus pattern (19 bp):
AGTCACCTCTTCCTTTTCT
Found at i:97217 original size:32 final size:32
Alignment explanation
Indices: 97179--97244 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
97169 ACCATAAACG
97179 TATGATGAGGGCACATGACAAAATGGTTCACT
1 TATGATGAGGGCACATGACAAAATGGTTCACT
97211 TATGATGAGGGCACATGACAAAATGGTTCACT
1 TATGATGAGGGCACATGACAAAATGGTTCACT
97243 TA
1 TA
97245 CAAGAGTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (32 bp):
TATGATGAGGGCACATGACAAAATGGTTCACT
Found at i:97487 original size:28 final size:29
Alignment explanation
Indices: 97445--97501 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
97435 AGTACTTTGC
97445 TTGAAGAAAAGAAAGAAATAA-AAAGAAAA
1 TTGAAGAAAAGAAAGAAA-AAGAAAGAAAA
97474 TTGAA-AAAAGAAAGAAAAAGAAAGAAAA
1 TTGAAGAAAAGAAAGAAAAAGAAAGAAAA
97502 AATAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 2 0.07
28 20 0.74
29 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (29 bp):
TTGAAGAAAAGAAAGAAAAAGAAAGAAAA
Found at i:99016 original size:133 final size:133
Alignment explanation
Indices: 98743--99214 Score: 564
Period size: 134 Copynumber: 3.6 Consensus size: 133
98733 GCAAATCAAA
* * * *
98743 CTCGATTCAATCTTCCTTGAGTGACAGTGGAATGAATCAACGTCCCCAAATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTTCCCTCA
* ** * *
98808 AGAAGAAGCAAACCATA------TTTTTCAAGATTTGATATTCCTTAAGTAATAGTGGAACAAGT
66 AGAAAAAGCAAAAAATATCCTCTTTTTTCAAGATTTGATATTCC-TGAGTAACAGTGGAACAAGT
*
98867 ATAC
130 CTAC
* *
98871 CTCGATTCAATCTTCCCTGAGTGACAATGAAATGAATCAACATCCCCAGATCTGATTTT-CCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTTCCCTCA
* *
98935 AGAAGAAGCAAAAAATATCCTCTTTTTTCAAGATTTGATATTCACTGAGTAACAGTGGGACAAGT
66 AGAAAAAGCAAAAAATATCCTCTTTTTTCAAGATTTGATATTC-CTGAGTAACAGTGGAACAAGT
99000 CTAC
130 CTAC
* * * *
99004 CTCGATTTAATCTTCCATTAGTGACAATGGAATTAATCAACATCCCCATATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTTCCCTCA
*** * *
99069 AGAAAAAGGGGAATAGATCCTCTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
66 AGAAAAAGCAAAAAATATCCTCTTTTTTCAAGATTTGATATT-CCTGAGTAACAGTGGAACAAGT
*
99134 CTGC
130 CTAC
* * * * ** * *
99138 CTCAATTCAATATTCCCTAAGTGAAAATGGAATGAATCAATGTCCCCATATTTGATTTT-CCTTA
1 CTCGATTCAATCTTCCCTGAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTTCCCTCA
*
99202 AGAAAAAACAAAA
66 AGAAAAAGCAAAA
99215 CAGATCCCTC
Statistics
Matches: 295, Mismatches: 40, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
127 20 0.07
128 54 0.18
133 106 0.36
134 114 0.39
135 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTGAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTTCCCTCA
AGAAAAAGCAAAAAATATCCTCTTTTTTCAAGATTTGATATTCCTGAGTAACAGTGGAACAAGTC
TAC
Found at i:99209 original size:134 final size:133
Alignment explanation
Indices: 98743--99221 Score: 558
Period size: 133 Copynumber: 3.6 Consensus size: 133
98733 GCAAATCAAA
* * * * *
98743 CTCGATTCAATCTTCCTTGAGTGACAGTGGAATGAATCAACGTCCCCAAATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTAAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTT-CCTCA
* * * * *
98808 AGAAGAAGC----AA-A-CCAT-ATTTTTCAAGATTTGATATTCCTTAAGTAATAGTGGAACAAG
65 AGAAAAAGCAAAAAAGATCC-TCTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
98866 TATAC
129 TCTAC
* * *
98871 CTCGATTCAATCTTCCCTGAGTGACAATGAAATGAATCAACATCCCCAGATCTGATTTTCCTCAA
1 CTCGATTCAATCTTCCCTAAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTTCCTCAA
* * * *
98936 GAAGAAGCAAAAAATATCCTCTTTTTTCAAGATTTGATATTCACTGAGTAACAGTGGGACAAGTC
66 GAAAAAGCAAAAAAGATCCTCTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
99001 TAC
131 TAC
* * * *
99004 CTCGATTTAATCTTCCATTAGTGACAATGGAATTAATCAACATCCCCATATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTAAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTT-CCTCA
*** *
99069 AGAAAAAGGGGAATAGATCCTCTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
65 AGAAAAAGCAAAAAAGATCCTCTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
99134 CTGC
130 CTAC
* * * ** * *
99138 CTCAATTCAATATTCCCTAAGTGAAAATGGAATGAATCAATGTCCCCATATTTGATTTTCCTTAA
1 CTCGATTCAATCTTCCCTAAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTTCCTCAA
* *
99203 GAAAAAACAAAACAGATCC
66 GAAAAAGCAAAAAAGATCC
99222 CTCATCCTAT
Statistics
Matches: 300, Mismatches: 43, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
127 14 0.05
128 54 0.18
131 2 0.01
132 2 0.01
133 114 0.38
134 114 0.38
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTAAGTGACAATGGAATGAATCAACATCCCCATATCTGATTTTCCTCAA
GAAAAAGCAAAAAAGATCCTCTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
TAC
Found at i:100366 original size:64 final size:63
Alignment explanation
Indices: 100298--100478 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
100288 TTGGAACACT
* ***
100298 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
100362 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
100426 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
100479 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
64 54 0.55
65 45 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:100450 original size:19 final size:19
Alignment explanation
Indices: 100426--100476 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
100416 GAAAATATTC
100426 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
100445 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
100464 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
100477 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:100452 original size:65 final size:65
Alignment explanation
Indices: 100319--100478 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
100309 TGCACCAAGT
* ***
100319 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
100383 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
100447 A
65 A
* *
100448 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
100479 CAATTAATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:100518 original size:65 final size:64
Alignment explanation
Indices: 100320--100527 Score: 196
Period size: 65 Copynumber: 3.2 Consensus size: 64
100310 GCACCAAGTG
* * * * *
100320 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCCTGATGCATCGATGCATGGCTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATAT-TCATGATGCATCGATGCATGAC-TG
100384 -
64 A
* * *
100384 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCATGA-TGCATCGATGCAT-GACT
100446 GA
63 GA
* *
100448 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA-TGATGCATCGATGCATG-AC
100511 TGA
62 TGA
100514 TGCATCGGTGCATG
1 TGCATCGGTGCATG
100528 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
62 3 0.02
63 9 0.07
64 43 0.35
65 63 0.51
66 5 0.04
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCATGATGCATCGATGCATGACTGA
Found at i:107074 original size:22 final size:21
Alignment explanation
Indices: 107032--107071 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
107022 GAGTTTGTTT
*
107032 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
107053 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
107072 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:109023 original size:64 final size:63
Alignment explanation
Indices: 108955--109135 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
108945 TTGGAACACT
* ***
108955 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
109019 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
109083 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
109136 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
64 54 0.55
65 45 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:109107 original size:19 final size:19
Alignment explanation
Indices: 109083--109133 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
109073 GAAAATATTC
109083 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
109102 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
109121 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
109134 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:109109 original size:65 final size:65
Alignment explanation
Indices: 108976--109135 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
108966 TGCACCAAGT
* ***
108976 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
109040 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
109104 A
65 A
* *
109105 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
109136 CAATTAATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:109171 original size:20 final size:20
Alignment explanation
Indices: 109146--109184 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
109136 CAATTAATTC
109146 ATTGATGCATCGATGCATGT
1 ATTGATGCATCGATGCATGT
*
109166 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
109185 CCTTTGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGT
Found at i:109175 original size:65 final size:65
Alignment explanation
Indices: 108977--109184 Score: 214
Period size: 65 Copynumber: 3.2 Consensus size: 65
108967 GCACCAAGTG
* * * * *
108977 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCCTGATGCATCGATGCATGGCTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATAT-TCATGATGCATCGATGCATGGATTG
109041 -
65 A
* * *
109041 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCATGA-TGCATCGATGCATGGATT
109103 GA
64 GA
* * *
109105 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGATGCATCGATGCATGTAT
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA-TGATGCATCGATGCATGGAT
109168 TGA
63 TGA
109171 TGCATCGGTGCATG
1 TGCATCGGTGCATG
109185 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 44 0.35
65 65 0.52
66 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCATGATGCATCGATGCATGGATTGA
Found at i:109375 original size:20 final size:21
Alignment explanation
Indices: 109352--109391 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
109342 GAATCGAATA
109352 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
109372 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
109392 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:110796 original size:5 final size:6
Alignment explanation
Indices: 110779--110803 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
110769 GTTTTAGTCC
110779 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
110804 GCATGTTGCT
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:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:111605 original size:129 final size:129
Alignment explanation
Indices: 111296--111623 Score: 356
Period size: 132 Copynumber: 2.5 Consensus size: 129
111286 ATTTCGGTCA
* * *
111296 GAGTAATAAATGACTGCTTAAAGGCATGAGAGATCATTTATTCTCGATTGGAAATAATTTGATAT
1 GAGTAATAAATGACTG-TTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATAT
* * * * * * * **
111361 TGCCGTTTTCTCTCGAATTAATATCGATTTTTAATATGGAATAGTGATATTTCTTCATTTTCAAT
65 TACCG-TTTCACTCGAATCAATATCGAATTTTAAGATGAAATAGTAATATCCCTTCA-TTTCAAT
111426 TG
128 TG
* * * *
111428 GGGGAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATCATTAGATAT
1 GAGTAATAAATGACTG-TTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATAT
* * * *
111493 TACCG-TTCACTTGAATCGATATTGAATTTTAAGATGAAATAGTAATATCCCTTTC-TTTCAGTT
65 TACCGTTTCACTCGAATCAATATCGAATTTTAAGATGAAATAGTAATATCCC-TTCATTTCAATT
111556 G
129 G
* * * *
111557 GAGTAATAAATGATTGTTTCAATGCACGAAAGGTCATTTATTCTCGATT-GAACATAATTAGATA
1 GAGTAATAAATGACTGTTT-AAGGCATGAGAGGTCATTTATTCTCGATTGGAA-ATAATTAGATA
111621 TTA
64 TTA
111624 TCATTTTCAC
Statistics
Matches: 165, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
128 6 0.04
129 59 0.36
130 35 0.21
131 3 0.02
132 62 0.38
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (129 bp):
GAGTAATAAATGACTGTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATT
ACCGTTTCACTCGAATCAATATCGAATTTTAAGATGAAATAGTAATATCCCTTCATTTCAATTG
Found at i:112532 original size:39 final size:39
Alignment explanation
Indices: 112471--112552 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
112461 AGAAACGGTT
*
112471 GTTCAACATGATGCATTGGGGGCTTGTTTAAGTGAGGAA
1 GTTCAACATGATGCATTAGGGGCTTGTTTAAGTGAGGAA
*
112510 GTTCGACATGATGCATTAGGGGCTTGTTTAAGTGAGGAA
1 GTTCAACATGATGCATTAGGGGCTTGTTTAAGTGAGGAA
112549 GTTC
1 GTTC
112553 TAGCGATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.11, G:0.33, T:0.32
Consensus pattern (39 bp):
GTTCAACATGATGCATTAGGGGCTTGTTTAAGTGAGGAA
Found at i:113581 original size:22 final size:22
Alignment explanation
Indices: 113554--113605 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
113544 GAGATTATAA
113554 TCAAGATTTTGAGTATAAAGTT
1 TCAAGATTTTGAGTATAAAGTT
113576 TCAAGATTTTGAGTATAAAGTT
1 TCAAGATTTTGAGTATAAAGTT
*
113598 TCAGGATT
1 TCAAGATT
113606 ACTGTAAGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (22 bp):
TCAAGATTTTGAGTATAAAGTT
Found at i:114942 original size:19 final size:20
Alignment explanation
Indices: 114920--114971 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
114910 CTTTTTATTT
114920 AATTTCTAAAATTTTA-TAA
1 AATTTCTAAAATTTTATTAA
*
114939 AATTT-TAAAAATATTATTAA
1 AATTTCT-AAAATTTTATTAA
* *
114959 AATATCTCAAATT
1 AATTTCTAAAATT
114972 GTTTCCATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 1 0.04
19 13 0.50
20 11 0.42
21 1 0.04
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTCTAAAATTTTATTAA
Found at i:115931 original size:7 final size:7
Alignment explanation
Indices: 115919--115945 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
115909 TTTCTCATCC
115919 ATTTTAA
1 ATTTTAA
115926 ATTTTAA
1 ATTTTAA
115933 ATTTTAA
1 ATTTTAA
115940 ATTTTA
1 ATTTTA
115946 TTAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTTTAA
Found at i:116281 original size:24 final size:23
Alignment explanation
Indices: 116203--116524 Score: 161
Period size: 21 Copynumber: 15.1 Consensus size: 23
116193 ACACAATTAG
116203 TATATATA--ATATATAT-TATA
1 TATATATAGTATATATATATATA
* * *
116223 T-TATATAGTATGT-TATGGTACA
1 TATATATAGTATATATAT-ATATA
*
116245 TTATTATATAGTATATATATATATG
1 -TA-TATATAGTATATATATATATA
116270 TAGTATATAGTATATATATATATA
1 TA-TATATAGTATATATATATATA
116294 TATATATA-TATATATATATATA
1 TATATATAGTATATATATATATA
*
116316 TATATAT--TATATGATAT-GATA
1 TATATATAGTATAT-ATATATATA
116337 T-TAT-T-GT-TATATATAT-TA
1 TATATATAGTATATATATATATA
*
116355 TA-ATATAATATAT-TA-ATA-A
1 TATATATAGTATATATATATATA
* * *
116374 TTTATTATAGTATACATTTATATA
1 TATA-TATAGTATATATATATATA
116398 TAT-TATA-TAT-TATAGTATATA
1 TATATATAGTATATATA-TATATA
* *
116419 TATATTTAGTACATAT-TAT-TA
1 TATATATAGTATATATATATATA
* *
116440 T-TATAT--TATTTAT-TAT-TT
1 TATATATAGTATATATATATATA
**
116458 TACGTAT-GT-TATATATTATATA
1 TATATATAGTATATATA-TATATA
* * * *
116480 TGTATATATTATATTTTTAT-TA
1 TATATATAGTATATATATATATA
*
116502 TATAT-TAGTTTATATATAT-TA
1 TATATATAGTATATATATATATA
116523 TA
1 TA
116525 GGACATATAT
Statistics
Matches: 231, Mismatches: 39, Indels: 63
0.69 0.12 0.19
Matches are distributed among these distances:
18 19 0.08
19 22 0.10
20 19 0.08
21 55 0.24
22 50 0.22
23 16 0.07
24 34 0.15
25 13 0.06
26 3 0.01
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (23 bp):
TATATATAGTATATATATATATA
Found at i:116441 original size:17 final size:18
Alignment explanation
Indices: 116397--116444 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 18
116387 ACATTTATAT
*
116397 ATATTATATATTATAGTAT
1 ATATTAT-TATTATAGTAC
116416 ATA-TA-TATT-TAGTAC
1 ATATTATTATTATAGTAC
116431 ATATTATTATTATA
1 ATATTATTATTATA
116445 TTATTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 8 0.32
16 6 0.24
17 4 0.16
18 4 0.16
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
ATATTATTATTATAGTAC
Found at i:116452 original size:15 final size:15
Alignment explanation
Indices: 116434--116523 Score: 73
Period size: 15 Copynumber: 6.0 Consensus size: 15
116424 TTAGTACATA
116434 TTATTATTATATTAT
1 TTATTATTATATTAT
* *
116449 TTATTATTTTACGTAT
1 TTATTATTATA-TTAT
116465 GTTATATATTATA-TAT
1 -TTAT-TATTATATTAT
*
116481 GTATATATTATATT-T
1 TTAT-TATTATATTAT
116496 TTATTA-TATATTAGT
1 TTATTATTATATTA-T
116511 TTA-TA-TATATTAT
1 TTATTATTATATTAT
116524 AGGACATATA
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
13 7 0.11
14 11 0.17
15 29 0.45
16 7 0.11
17 4 0.06
18 6 0.09
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (15 bp):
TTATTATTATATTAT
Found at i:116568 original size:17 final size:15
Alignment explanation
Indices: 116211--116600 Score: 180
Period size: 14 Copynumber: 25.9 Consensus size: 15
116201 AGTATATATA
116211 ATATATATTATA-TT
1 ATATATATTATATTT
*
116225 ATATAGTATGT-TATGGT
1 ATATA-TAT-TATAT-TT
* *
116242 ACAT-TATTATATAGT
1 ATATATATTATAT-TT
*
116257 ATATATA-TATATGT
1 ATATATATTATATTT
* *
116271 AGTATATAGTATATAT
1 A-TATATATTATATTT
*
116287 ATATATA-TATATAT
1 ATATATATTATATTT
*
116301 ATATATA-TATATAT
1 ATATATATTATATTT
*
116315 ATATATATTATA-TG
1 ATATATATTATATTT
116329 ATATGATATTAT-TGTT
1 ATAT-ATATTATAT-TT
*
116345 ATATATATTATA-AT
1 ATATATATTATATTT
116359 ATAATATATTAATAATTT
1 AT-ATATATT-AT-ATTT
*
116377 AT-TATAGTATACATTT
1 ATATATA-T-TATATTT
116393 ATATATATTATATATT
1 ATATATATTATAT-TT
116409 ATAGTATATATATATTT
1 ATA-TATAT-TATATTT
*
116426 AGTACATA-T-TA-TT
1 A-TATATATTATATTT
116439 AT-TATA-T-TATTT
1 ATATATATTATATTT
* *
116451 AT-TATTTTACGTATGT
1 ATATATATTA--TATTT
*
116467 -TATATATTATATAT
1 ATATATATTATATTT
*
116481 GTATATATTATATTTTT
1 ATATATATTATA--TTT
*
116498 ATTATATATTA-GTTT
1 A-TATATATTATATTT
**
116513 ATATATATTATA-GG
1 ATATATATTATATTT
*
116527 ACATATATTATATTT
1 ATATATATTATATTT
*
116542 ATAT-TATTATGTTAT
1 ATATATATTATATT-T
116557 ACTATATATTATTATTT
1 A-TATATATTA-TATTT
*
116574 AT-TAT-TATATATTC
1 ATATATAT-TATATTT
*
116588 A-ATATATCATATT
1 ATATATATTATATT
116601 ATTAATTTTA
Statistics
Matches: 301, Mismatches: 32, Indels: 86
0.72 0.08 0.21
Matches are distributed among these distances:
11 6 0.02
12 8 0.03
13 4 0.01
14 92 0.31
15 90 0.30
16 47 0.16
17 31 0.10
18 23 0.08
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.53
Consensus pattern (15 bp):
ATATATATTATATTT
Found at i:116583 original size:97 final size:98
Alignment explanation
Indices: 116282--116602 Score: 304
Period size: 99 Copynumber: 3.2 Consensus size: 98
116272 GTATATAGTA
* * *
116282 TATATATATATATATATATATATATATATA-TATATATATATTATATGATATGATATTAT-TGTT
1 TATATAT-TATATATATAT-TATATATATAGTATATATATATTATAGGACAT-ATATTATATATT
* *
116345 ATATATATTATAATATA-ATATATTAATAATTTATTATAG
63 ATAT-TATTAT-TTATACATATATT-ATTATTTATTAT-G
* *
116384 TATACATT-TATATATATTATATATTATAGTATATATATATT-TAGTACATATTATTATTATATT
1 TATATATTATATATATATTATATA-TATAGTATATATATATTATAGGACATA-TATTA-TATATT
* *
116447 AT-TTATTATTT-TACGTATGTTA-TATATTATATATG
63 ATATTATTATTTATACATATATTATTAT-TTAT-TATG
* * *
116482 TATATATTATATTTTTATTATATAT-TAGTTTATATATATTATAGGACATATATTATAT-TTATA
1 TATATATTATATATATATTATATATATAGTATATATATATTATAGGACATATATTATATATTATA
116545 TTATTATGTTATACTATATATTATTATTTATTAT-
66 TTATTAT-TTATAC-ATATATTATTATTTATTATG
116579 TATATATTCAATATATCATATTAT
1 TATATATT--ATATAT-ATATTAT
116603 TAATTTTATT
Statistics
Matches: 183, Mismatches: 18, Indels: 38
0.77 0.08 0.16
Matches are distributed among these distances:
95 4 0.02
96 10 0.05
97 31 0.17
98 30 0.16
99 44 0.24
100 38 0.21
101 15 0.08
102 11 0.06
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (98 bp):
TATATATTATATATATATTATATATATAGTATATATATATTATAGGACATATATTATATATTATA
TTATTATTTATACATATATTATTATTTATTATG
Found at i:116594 original size:2 final size:2
Alignment explanation
Indices: 116203--116585 Score: 160
Period size: 2 Copynumber: 204.5 Consensus size: 2
116193 ACACAATTAG
* *
116203 TA TA TA TA -A TA TA TA T- TA TA T- TA TA TA GTA TG T- TA TGG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T-A TA
* *
116243 CA T- TA T- TA TA TA GTA TA TA TA TA TA TG TA GTA TA TA GTA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA
116284 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
116325 TA TGA TA TGA TA T- TA T- TG T- TA TA TA TA T- TA TA -A TA TA -A
1 TA T-A TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
116363 TA TA T- TA -A TA -A TT TA T- TA TA GTA TA CA TT TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
116401 TA TA TA T- TA TA GTA TA TA TA TA TT TA GTA CA TA T- TA T- TA T-
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * ** *
116441 TA TA T- TA TT TA T- TA T- TT TA CG TA TG T- TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
116478 TA TG TA TA TA T- TA TA TT TT TA T- TA TA TA T- TA GTT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
116518 TA T- TA TA GGA CA TA TA T- TA TA TT TA TA T- TA T- TA TG T- TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
116556 TA CTA TA TA T- TA T- TA TT TA T- TA T- TA TA TA T
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116586 TCAATATATC
Statistics
Matches: 290, Mismatches: 39, Indels: 104
0.67 0.09 0.24
Matches are distributed among these distances:
1 39 0.13
2 228 0.79
3 23 0.08
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:116594 original size:31 final size:33
Alignment explanation
Indices: 116529--116612 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 33
116519 ATTATAGGAC
*
116529 ATATATTA-TATTTA-TATTATTATGTTATACT
1 ATATATTATTATTTATTATTATTATGTCATACT
116560 ATATATTATTATTTATTATTATATAT-TCAATA-T
1 ATATATTATTATTTATTATTAT-TATGTC-ATACT
*
116593 ATCATATTATTAATT-TTATT
1 AT-ATATTATTATTTATTATT
116613 TTCGATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
31 8 0.17
32 6 0.13
33 15 0.33
34 17 0.37
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (33 bp):
ATATATTATTATTTATTATTATTATGTCATACT
Found at i:116611 original size:97 final size:97
Alignment explanation
Indices: 116279--116604 Score: 262
Period size: 97 Copynumber: 3.3 Consensus size: 97
116269 GTAGTATATA
* * *
116279 GTATATATATATATATATATATATATATATATA-TATATATATATTATATGATATGATATTAT-T
1 GTATATAT-TA-ATATAT-TATAT-TAT-TATAGTTTATATATATTATAGGACAT-ATATTATAT
* * *
116342 GTTATATATATTATAATATA-ATATATTAATAATTTATTAT
60 ATTATAT-TATTAT-TTATACATATATT-ATTATTTATTAT
* * *
116382 AGTATACATTTATATATATTATA-TATTATAGTATATATATATT-TAGTACATATTATTATTATA
1 -GTATATA-TTA-ATATATTATATTATTATAGTTTATATATATTATAGGACATA-TATTA-TATA
* *
116445 TTAT-TTATTATTT-TACGTATGTTA-TATATTATATAT
61 TTATATTATTATTTATACATATATTATTAT-TTAT-TAT
*
116481 GTATATATT-ATAT-TTTTATTATATATTAGTTTATATATATTATAGGACATATATTATAT-TTA
1 GTATATATTAATATATTATATTAT-TA-TAGTTTATATATATTATAGGACATATATTATATATTA
116543 TATTATTATGTTATACTATATATTATTATTTATTAT
64 TATTATTAT-TTATAC-ATATATTATTATTTATTAT
*
116579 -TATATATTCAATATATCATATTATTA
1 GTATATATT-AATATATTATATTATTA
116605 ATTTTATTTT
Statistics
Matches: 185, Mismatches: 17, Indels: 45
0.75 0.07 0.18
Matches are distributed among these distances:
94 4 0.02
95 11 0.06
96 12 0.06
97 33 0.18
98 27 0.15
99 26 0.14
100 30 0.16
101 17 0.09
102 5 0.03
103 4 0.02
104 15 0.08
105 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (97 bp):
GTATATATTAATATATTATATTATTATAGTTTATATATATTATAGGACATATATTATATATTATA
TTATTATTTATACATATATTATTATTTATTAT
Found at i:117688 original size:28 final size:27
Alignment explanation
Indices: 117643--117697 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
117633 TTTCATTTAA
* * *
117643 ATTTTCTTTTTATTATTTTATTTATTT
1 ATTTTATTTTTAATATTTGATTTATTT
*
117670 ATTTTATTGTTTAATATTTGGTTTATTT
1 ATTTTATT-TTTAATATTTGATTTATTT
117698 TTTAGGACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (27 bp):
ATTTTATTTTTAATATTTGATTTATTT
Found at i:117762 original size:19 final size:18
Alignment explanation
Indices: 117740--117775 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
117730 AGTAATTCGG
117740 ATTTAACTTTTAAATTTTA
1 ATTTAACTTTT-AATTTTA
117759 ATTTAACTTTTAATTTT
1 ATTTAACTTTTAATTTT
117776 CGCAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTAACTTTTAATTTTA
Found at i:119239 original size:20 final size:22
Alignment explanation
Indices: 119216--119256 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
119206 CTCCCATTTT
119216 TGCATCTTTG-A-TTTTGCATG
1 TGCATCTTTGTATTTTTGCATG
119236 TGCATCTTTGTATTTTTGCAT
1 TGCATCTTTGTATTTTTGCAT
119257 TAGTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.54
Consensus pattern (22 bp):
TGCATCTTTGTATTTTTGCATG
Found at i:121643 original size:37 final size:37
Alignment explanation
Indices: 121492--121665 Score: 167
Period size: 38 Copynumber: 4.7 Consensus size: 37
121482 AACATTTCTG
* * * * *
121492 AAACAAAAATTTTATCTCACTTGATATTGTTT--TTTA
1 AAACAAAGA-TTTATCTCACTTGAGATAGTTTCACTCA
*
121528 AAAC-AAGATTTATCTCACTTGAGATGGTTTCACTCA
1 AAACAAAGATTTATCTCACTTGAGATAGTTTCACTCA
* **
121564 AAACATAAGATTTATCTCACTTGAGATTGTTTTTCTCA
1 AAACA-AAGATTTATCTCACTTGAGATAGTTTCACTCA
* * **
121602 AAAC-AAGATTTTATCTCGCTTGAGATAATTTCACTTG
1 AAACAAAGA-TTTATCTCACTTGAGATAGTTTCACTCA
121639 AAACAAAAGATTTATCTCACTTGAGAT
1 AAAC-AAAGATTTATCTCACTTGAGAT
121666 TGTTCTCGCT
Statistics
Matches: 115, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
34 20 0.17
35 3 0.03
36 14 0.12
37 25 0.22
38 49 0.43
39 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (37 bp):
AAACAAAGATTTATCTCACTTGAGATAGTTTCACTCA
Found at i:121643 original size:75 final size:72
Alignment explanation
Indices: 121492--121669 Score: 250
Period size: 75 Copynumber: 2.4 Consensus size: 72
121482 AACATTTCTG
* **
121492 AAACAAAA-ATTTTATCTCACTTGATATTGTTTTTTAAAACAAGATTTATCTCACTTGAGATGGT
1 AAACAAAAGA-TTTATCTCACTTGAGATTGTTTTTTAAAACAAGATTTATCTCACTTGAGATAAT
121556 TTCACTCA
65 TTCACTCA
* *
121564 AAACATAAGATTTATCTCACTTGAGATTGTTTTTCTCAAAACAAGATTTTATCTCGCTTGAGATA
1 AAACAAAAGATTTATCTCACTTGAGATTGTTTTT-T-AAAACAAGA-TTTATCTCACTTGAGATA
**
121629 ATTTCACTTG
63 ATTTCACTCA
121639 AAACAAAAGATTTATCTCACTTGAGATTGTT
1 AAACAAAAGATTTATCTCACTTGAGATTGTT
121670 CTCGCTTGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
72 30 0.32
73 2 0.02
74 9 0.10
75 53 0.56
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (72 bp):
AAACAAAAGATTTATCTCACTTGAGATTGTTTTTTAAAACAAGATTTATCTCACTTGAGATAATT
TCACTCA
Found at i:121676 original size:54 final size:54
Alignment explanation
Indices: 121615--121723 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
121605 CAAGATTTTA
*
121615 TCTCGCTTGAGATAATTTCACTTGAAACAAAAGATTTATCTCACTTGAGATTGT
1 TCTCGCTTGAGATAACTTCACTTGAAACAAAAGATTTATCTCACTTGAGATTGT
* * * *
121669 TCTCGCTTGAGATAGCTTCACTTGAAACAGAATATTTATCTCCCTTGAGATTGT
1 TCTCGCTTGAGATAACTTCACTTGAAACAAAAGATTTATCTCACTTGAGATTGT
121723 T
1 T
121724 TTTCTTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (54 bp):
TCTCGCTTGAGATAACTTCACTTGAAACAAAAGATTTATCTCACTTGAGATTGT
Found at i:121734 original size:129 final size:130
Alignment explanation
Indices: 121531--121799 Score: 339
Period size: 129 Copynumber: 2.1 Consensus size: 130
121521 TTTTTTAAAA
* * *
121531 CAAGATT-TATCTCACTTGAGATGGTTTCACTCAAAACATAAGATTTATCTCACTTGAGATTGTT
1 CAAGATTGT-TCTCACTTGAGATAGCTTCACTCAAAACAGAAGATTTATCTCACTTGAGATTGTT
* *
121595 TTTCTCAAAACAAGATTTTATCTCGCTTGAGATAATTTC-ACTTGAAACAA-AAGATTT-ATCTC
65 TTTCTCAAAACAAGA-TTTATCTCGCTTGAGACAATTTCTACTCGAAACAAGAA-ATTTAATCTC
121657 ACT
128 ACT
** * ** * *
121660 TGAGATTGTTCTCGCTTGAGATAGCTTCACTTGAAACAGAATATTTATCTCCCTTGAGATTGTTT
1 CAAGATTGTTCTCACTTGAGATAGCTTCACTCAAAACAGAAGATTTATCTCACTTGAGATTGTTT
* * * *
121725 TTCTTAAAACAAGATTTGTCTCGCTTGAGACAGTTTCTACTCGAAACAAGAAATTTAATTTCACT
66 TTCTCAAAACAAGATTTATCTCGCTTGAGACAATTTCTACTCGAAACAAGAAATTTAATCTCACT
121790 CAAGATTGTT
1 CAAGATTGTT
121800 TTTCTTAAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
128 20 0.17
129 80 0.68
130 18 0.15
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (130 bp):
CAAGATTGTTCTCACTTGAGATAGCTTCACTCAAAACAGAAGATTTATCTCACTTGAGATTGTTT
TTCTCAAAACAAGATTTATCTCGCTTGAGACAATTTCTACTCGAAACAAGAAATTTAATCTCACT
Found at i:121853 original size:22 final size:22
Alignment explanation
Indices: 121828--121892 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
121818 ATCTCACTTG
121828 AGATAGTTTCACTCGAAATAGA
1 AGATAGTTTCACTCGAAATAGA
* *
121850 AGAT--TTT-ATCTCG--CT-TA
1 AGATAGTTTCA-CTCGAAATAGA
*
121867 AGATAGTTTCACTCGAAACAGA
1 AGATAGTTTCACTCGAAATAGA
121889 AGAT
1 AGAT
121893 TTTATCTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 14
0.62 0.10 0.28
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 8 0.26
20 8 0.26
22 9 0.29
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (22 bp):
AGATAGTTTCACTCGAAATAGA
Found at i:121872 original size:39 final size:39
Alignment explanation
Indices: 121669--122257 Score: 487
Period size: 39 Copynumber: 15.5 Consensus size: 39
121659 TTGAGATTGT
* * *
121669 TCTCGCTTGAGATAGCTTCACTTGAAACAGAATA-TTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* * ** * * *
121707 TCTCCCTTGAGATTGTTTTTCT-TAAA-ACAAGA-TTTG
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* *
121743 TCTCGCTTGAGACAGTTTCTACTCGAAACAAGAA-ATTTAA
1 TCTCGCTTGAGATAGTTTC-ACTCGAAAC-AGAAGATTTTA
* * ** * ** * * *
121783 TTTCACTCAAGATTGTTTTTCT-TAAA-ACAAGA-TTCA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* *
121819 TCTCACTTGAGATAGTTTCACTCGAAATAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
*
121858 TCTCGCTTAAGATAGTTTCACTCGAAACAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
** * * *
121897 TCTTTCTTGAGATTGTTTTACTCGAAATAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* *
121936 TCTCGCTTGAGATAATTTCACTCGAAATAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* *
121975 TCTTGCTTGAGATTGTTTCACTCGAAACAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* * * *
122014 TCTCGATTGAGATTGTTTCAATCAAAACAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
122053 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* * ** * * *
122091 GCTC-CATTGAGATTGTTT-TTTCTTAAA-ACAAGA-TTCA
1 TCTCGC-TTGAGATAGTTTCACTC-GAAACAGAAGATTTTA
* * *
122128 TCTCGTTTAAGATAGTTTCACTCGAAACATAAGA-TTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* * * * *
122166 TCTCACTTGAGATTGTTTTTA-T-TAAA-ATAAGA-TTTA
1 TCTCGCTTGAGATAG-TTTCACTCGAAACAGAAGATTTTA
* *
122202 TCTCGCTTAAGATAGTTTCACTTGAAACAGAAGA-TTTA
1 TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
* *
122240 TCTCACTTGAGATTGTTT
1 TCTCGCTTGAGATAGTTT
122258 TTCTTAAAAC
Statistics
Matches: 438, Mismatches: 95, Indels: 36
0.77 0.17 0.06
Matches are distributed among these distances:
35 4 0.01
36 67 0.15
37 42 0.10
38 95 0.22
39 213 0.49
40 17 0.04
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (39 bp):
TCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTTA
Found at i:129344 original size:2 final size:2
Alignment explanation
Indices: 129337--129375 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
129327 TCAATCTACA
129337 AT AT AT AT AT AT AT AT AT AT AT 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 AT AT AT AT A
129376 ATTTACGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:129465 original size:13 final size:13
Alignment explanation
Indices: 129447--129476 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
129437 AATGACACGC
*
129447 AATGTAAGTCGTA
1 AATGTAAGTCATA
129460 AATGTAAGTCATA
1 AATGTAAGTCATA
129473 AATG
1 AATG
129477 CGTGTCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTAAGTCATA
Found at i:129903 original size:59 final size:58
Alignment explanation
Indices: 129703--129905 Score: 246
Period size: 59 Copynumber: 3.4 Consensus size: 58
129693 AGTAGTGTAT
* * * ** *
129703 GCCTCACTTGAGGGATTAACATTTTCTTTGCTCGATTCACAACACTTCA-AATCAATAAT
1 GCCTCACTTGAGGGATCAACA-TTTCTTTGCTCAATTTACAACACTT-AGAATCAGCAAC
* * * *
129762 GCCTCACTTGAGGGATCAACATCTCTTTTGCTCAATTTATAACACTTCGAATTAGCAAC
1 GCCTCACTTGAGGGATCAACATTTC-TTTGCTCAATTTACAACACTTAGAATCAGCAAC
*
129821 GCCTCACTTGAGGGATCAACATTTCGTTTGCTCAATTTACAACACTTAGAATCAGCGAC
1 GCCTCACTTGAGGGATCAACATTTC-TTTGCTCAATTTACAACACTTAGAATCAGCAAC
* *
129880 GCCTCACTCGAGGGACCAACATTTCT
1 GCCTCACTTGAGGGATCAACATTTCT
129906 AGTAGATAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
58 4 0.03
59 120 0.97
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (58 bp):
GCCTCACTTGAGGGATCAACATTTCTTTGCTCAATTTACAACACTTAGAATCAGCAAC
Found at i:131255 original size:7 final size:7
Alignment explanation
Indices: 131243--131284 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
131233 TACATTTTTT
131243 TAAAAAA
1 TAAAAAA
131250 TAAAAAA
1 TAAAAAA
131257 TATAAAAA
1 TA-AAAAA
*
131265 T-ATAAA
1 TAAAAAA
131271 TAAAAAA
1 TAAAAAA
*
131278 GAAAAAA
1 TAAAAAA
131285 AAAGTTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:131730 original size:7 final size:7
Alignment explanation
Indices: 131727--131782 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
131717 TTTTTTTATT
131727 TTTTTTA
1 TTTTTTA
131734 TTTTGTT-
1 TTTT-TTA
131741 TTTTTACTA
1 TTTTT--TA
131750 TTTTTTA
1 TTTTTTA
131757 TTTTTTA
1 TTTTTTA
*
131764 TTTGTTA
1 TTTTTTA
131771 --TTTTA
1 TTTTTTA
131776 TTTTTTA
1 TTTTTTA
131783 AATTAGGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
5 4 0.10
6 1 0.02
7 28 0.68
8 3 0.07
9 5 0.12
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:131733 original size:23 final size:23
Alignment explanation
Indices: 131707--131757 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
131697 GGTCATTGTA
*
131707 TTTATGCTTATTTTTTTA-TTTTT
1 TTTAT-CTTATTTTTTTACTATTT
* *
131730 TTTATTTTGTTTTTTTACTATTT
1 TTTATCTTATTTTTTTACTATTT
131753 TTTAT
1 TTTAT
131758 TTTTTATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTATCTTATTTTTTTACTATTT
Found at i:131737 original size:14 final size:14
Alignment explanation
Indices: 131714--131781 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 14
131704 GTATTTATGC
*
131714 TTATTTT-TTTATT
1 TTATTTTATTTTTT
*
131727 TT-TTTTATTTTGT
1 TTATTTTATTTTTT
*
131740 TT-TTTTACTATTTT
1 TTATTTTA-TTTTTT
*
131754 TTATTTT-TTATTTG
1 TTATTTTATT-TTTT
131768 TTATTTTATTTTTT
1 TTATTTTATTTTTT
131782 AAATTAGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
12 4 0.09
13 14 0.33
14 19 0.44
15 6 0.14
ACGTcount: A:0.13, C:0.01, G:0.03, T:0.82
Consensus pattern (14 bp):
TTATTTTATTTTTT
Found at i:131758 original size:23 final size:22
Alignment explanation
Indices: 131717--131760 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
131707 TTTATGCTTA
*
131717 TTTTTTTATTTTTTTTATTTTG
1 TTTTTTTATATTTTTTATTTTG
131739 TTTTTTTACTATTTTTTATTTT
1 TTTTTTTA-TATTTTTTATTTT
131761 TTATTTGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTTTATATTTTTTATTTTG
Found at i:142411 original size:24 final size:23
Alignment explanation
Indices: 142379--142463 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 23
142369 CAGTCGAAAC
*
142379 TGCCGCGTAGAATTTGCACCGAA
1 TGCCACGTAGAATTTGCACCGAA
*
142402 GTGCCACGTAGAATATGCACCGAAA
1 -TGCCACGTAGAATTTGCACCG-AA
*
142427 TGCCACATAG-ATTTGTC-CCGAA
1 TGCCACGTAGAATTTG-CACCGAA
*
142449 TGACCACGTACAATT
1 TG-CCACGTAGAATT
142464 ATCCCGAAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
22 4 0.08
23 13 0.25
24 32 0.63
25 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
TGCCACGTAGAATTTGCACCGAA
Found at i:142455 original size:23 final size:23
Alignment explanation
Indices: 142425--142491 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 23
142415 TATGCACCGA
142425 AATG-CCACATAGATTTGTCCCG
1 AATGACCACATAGATTTGTCCCG
* * * *
142447 AATGACCACGTACAATTATCCCG
1 AATGACCACATAGATTTGTCCCG
* ** *
142470 AAGGAATAAATAGATTTGTCCC
1 AATGACCACATAGATTTGTCCC
142492 AAGGACCGCG
Statistics
Matches: 32, Mismatches: 12, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (23 bp):
AATGACCACATAGATTTGTCCCG
Found at i:143187 original size:21 final size:20
Alignment explanation
Indices: 143143--143194 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
143133 TCTATAATTA
143143 CAGTATCGATACCTCCACAT
1 CAGTATCGATACCTCCACAT
*
143163 CAGTATCGATACTACTTCA-AT
1 CAGTATCGATAC--CTCCACAT
143184 CAGTATCGATA
1 CAGTATCGATA
143195 TTGTTCATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.41
21 13 0.45
22 4 0.14
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (20 bp):
CAGTATCGATACCTCCACAT
Found at i:149386 original size:24 final size:24
Alignment explanation
Indices: 149358--149423 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
149348 GAAACTGTCG
*
149358 CGTAGAATTTGCACCTAAGTGCCA
1 CGTAGAATTTGCACCGAAGTGCCA
* *
149382 CGTAGAATATGTACCGAAGTGCCA
1 CGTAGAATTTGCACCGAAGTGCCA
*
149406 CATAG-ATTTGTC-CCGAAG
1 CGTAGAATTTG-CACCGAAG
149424 GACCGCATAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 10 0.29
24 25 0.71
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (24 bp):
CGTAGAATTTGCACCGAAGTGCCA
Found at i:149571 original size:32 final size:30
Alignment explanation
Indices: 149543--149599 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
149533 ATCATTTATC
149543 CATATA-AAACACATTCACATAGAACATTTT
1 CATATAGAAA-ACATTCACATAGAACATTTT
* *
149573 CATGTAGAAAACATTCACATATAACAT
1 CATATAGAAAACATTCACATAGAACAT
149600 ACTCAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.28
Consensus pattern (30 bp):
CATATAGAAAACATTCACATAGAACATTTT
Found at i:153066 original size:2 final size:2
Alignment explanation
Indices: 153059--153190 Score: 84
Period size: 2 Copynumber: 66.5 Consensus size: 2
153049 ACACATTTAG
* *
153059 TA TA TA TA TA GTG TA TA GTA TA TA TA -A TA T- TA TA TA GTA TG
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* *
153100 T- TA TGG TA CA T- TA T- TA TA TA GTA TA T- TA TA T- TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
153139 GTA TA GTA TA TA TA TA AA TA GTA TA T- TA TA TA TA TA TA TA TA
1 -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
153181 TA TA T- TA TA T
1 TA TA TA TA TA T
153191 TGTTGAAAAC
Statistics
Matches: 104, Mismatches: 9, Indels: 34
0.71 0.06 0.23
Matches are distributed among these distances:
1 9 0.09
2 81 0.78
3 14 0.13
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.48
Consensus pattern (2 bp):
TA
Found at i:153077 original size:7 final size:7
Alignment explanation
Indices: 153059--153190 Score: 61
Period size: 7 Copynumber: 19.4 Consensus size: 7
153049 ACACATTTAG
153059 TATA-TA
1 TATAGTA
*
153065 TATAGTG
1 TATAGTA
153072 TATAGTA
1 TATAGTA
153079 TATA-TA
1 TATAGTA
*
153085 -ATATTA
1 TATAGTA
153091 TATAGTA
1 TATAGTA
*
153098 TGTTATGGTA
1 ---TATAGTA
* *
153108 CATTATTA
1 TA-TAGTA
153116 TATAGTA
1 TATAGTA
153123 TAT--TA
1 TATAGTA
153128 TATTA-TA
1 TA-TAGTA
153135 TATAGTA
1 TATAGTA
153142 TAGTA-TA
1 TA-TAGTA
153149 TATA-TA
1 TATAGTA
*
153155 AATAGTA
1 TATAGTA
153162 TATTA-TA
1 TA-TAGTA
153169 TATA-TA
1 TATAGTA
153175 TATA-TA
1 TATAGTA
*
153181 TATATTA
1 TATAGTA
153188 TAT
1 TAT
153191 TGTTGAAAAC
Statistics
Matches: 101, Mismatches: 11, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
5 7 0.07
6 32 0.32
7 48 0.48
8 8 0.08
10 6 0.06
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.48
Consensus pattern (7 bp):
TATAGTA
Found at i:153084 original size:20 final size:18
Alignment explanation
Indices: 153059--153190 Score: 86
Period size: 17 Copynumber: 7.5 Consensus size: 18
153049 ACACATTTAG
153059 TATATATATAGTGTATAGTA
1 TATATATATA-TGTATA-TA
153079 TATATA-ATAT-TATATA
1 TATATATATATGTATATA
* * *
153095 GTATGT-TAT-GGTACAT-
1 -TATATATATATGTATATA
153111 TAT-TATATA-GTATAT-
1 TATATATATATGTATATA
153126 TATATTATATATAGTATAGTA
1 TATA-TATATAT-GTATA-TA
*
153147 TATATATAAATAGTATAT-
1 TATATATATAT-GTATATA
*
153165 TATATATATATATATATA
1 TATATATATATGTATATA
153183 TAT-TATAT
1 TATATATAT
153191 TGTTGAAAAC
Statistics
Matches: 93, Mismatches: 7, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
14 1 0.01
15 14 0.15
16 2 0.02
17 30 0.32
18 14 0.15
19 9 0.10
20 19 0.20
21 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.48
Consensus pattern (18 bp):
TATATATATATGTATATA
Found at i:153129 original size:5 final size:5
Alignment explanation
Indices: 153111--153191 Score: 60
Period size: 5 Copynumber: 15.8 Consensus size: 5
153101 TATGGTACAT
* * *
153111 TATTA TATAGTA TATTA TATTA TA-TA TAGTA TAGTA TA-TA TATAAA
1 TATTA TAT--TA TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA
*
153157 TAGTA TATTA TA-TA TATATA TATATA TATTA TATT
1 TATTA TATTA TATTA TAT-TA TAT-TA TATTA TATT
153192 GTTGAAAACA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
4 12 0.18
5 34 0.52
6 14 0.22
7 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (5 bp):
TATTA
Found at i:155603 original size:21 final size:20
Alignment explanation
Indices: 155557--155604 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
155547 CTTTGGATTA
* *
155557 TGAAAAATTATGTTTAAAAT
1 TGAAAAATGATATTTAAAAT
**
155577 ACAAAAATGATATTTCAAAAT
1 TGAAAAATGATATTT-AAAAT
155598 TGAAAAA
1 TGAAAAA
155605 CGAAAATAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.31
Consensus pattern (20 bp):
TGAAAAATGATATTTAAAAT
Found at i:161805 original size:64 final size:65
Alignment explanation
Indices: 161682--161817 Score: 168
Period size: 64 Copynumber: 2.1 Consensus size: 65
161672 CACACCCATT
* * *
161682 TCGAATGCATTTTGTGTTCCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTG-AACA
1 TCGAATGCATTTTGTGTACCGATGCACAAGCCATGCATCAATGCACTCTAGAATATTTTGAAACA
* * ** *
161746 TCGAATGCATTTTGTGTACTGATGCAC-AGACCATGCCTCAATGCACTCTAGGCTCTTTTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAAG-CCATGCATCAATGCACTCTAGAATATTTTGAAAC
161810 A
65 A
*
161811 TCAAATG
1 TCGAATG
161818 TAATTAGTGC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
63 2 0.03
64 49 0.80
65 10 0.16
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAAGCCATGCATCAATGCACTCTAGAATATTTTGAAACA
Found at i:162575 original size:14 final size:13
Alignment explanation
Indices: 162558--162727 Score: 63
Period size: 14 Copynumber: 12.7 Consensus size: 13
162548 ATTATATTTA
162558 ATATATTATACAGT
1 ATATATTATACA-T
162572 ATATATT-T--AT
1 ATATATTATACAT
* *
162582 ATATGTTATAGTAT
1 ATATATTATA-CAT
* *
162596 GTATATATATATAT
1 ATATAT-TATACAT
*
162610 ATATATTAT-TA-
1 ATATATTATACAT
*
162621 ATATGTTATTACAGT
1 ATATATTA-TACA-T
*
162636 ATATATTTATATATATT
1 ATATA--T-TATACA-T
162653 ATATATTATACAT
1 ATATATTATACAT
162666 ATTATATTAGT-CAT
1 A-TATATTA-TACAT
162680 AT-TATATATTACAGT
1 ATATAT-TA-TACA-T
*
162695 ATATA-TATATAT
1 ATATATTATACAT
162707 ATATATT-TA-AT
1 ATATATTATACAT
162718 ATATTATTAT
1 ATA-TATTAT
162728 TATTATTATA
Statistics
Matches: 123, Mismatches: 12, Indels: 43
0.69 0.07 0.24
Matches are distributed among these distances:
10 7 0.06
11 14 0.11
12 18 0.15
13 16 0.13
14 41 0.33
15 13 0.11
16 2 0.02
17 10 0.08
18 2 0.02
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (13 bp):
ATATATTATACAT
Found at i:162590 original size:24 final size:26
Alignment explanation
Indices: 162550--162618 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 26
162540 ATATTATTAT
162550 TATATTTA-ATATATTATA-CA-GTA
1 TATATTTATATATATTATAGCATGTA
* *
162573 TATATTTATATATGTTATAGTATGTA
1 TATATTTATATATATTATAGCATGTA
162599 TATATATATATATATATTAT
1 TATAT-T-TATATATATTAT
162619 TAATATGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 8 0.21
24 9 0.24
25 1 0.03
26 8 0.21
27 1 0.03
28 11 0.29
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (26 bp):
TATATTTATATATATTATAGCATGTA
Found at i:162607 original size:30 final size:29
Alignment explanation
Indices: 162571--162893 Score: 158
Period size: 30 Copynumber: 10.9 Consensus size: 29
162561 TATTATACAG
*
162571 TATATATTTATATATGTTATAGTATGTATA
1 TATATATTTATATATATTATAGTAT-TATA
* *
162601 TATATATATATATATTATTAATATGTTATTACA
1 TATATATTTATATA-TATT-ATA-G-TATTATA
162634 GTATATATTTATATATATTATA-TATTATA
1 -TATATATTTATATATATTATAGTATTATA
* *
162663 CATATTATATTAGT-CATATTATA-TATTACAGTA
1 TATA-TAT-TTA-TATATATTATAGTATT--A-TA
*
162696 TATATATATATATATATTTAATA-TATTAT-
1 TATATATTTATATATA-TT-ATAGTATTATA
*
162725 TAT-TA-TTAT-TATATTATTATTATTAT-
1 TATATATTTATATATATTA-TAGTATTATA
* * *
162751 TATTATTATTTTACATATGTTATA-CATTATA
1 TA-TA-TA-TTTATATATATTATAGTATTATA
* *
162782 TATGTATATATATTATATT-TA-TATTATA
1 TATATATTTATA-TATATTATAGTATTATA
* *
162810 TAT-TAGTTTATATATATTATATTATTATG
1 TATATA-TTTATATATATTATAGTATTATA
*
162839 T-TATA-TTATATATTATTATTATTTATTAT-
1 TATATATTTATATA-TATTA-TA-GTATTATA
* * *
162868 TATATATTCA-ATATATCATATTATTA
1 TATATATTTATATATATTATAGTATTA
162894 ATTTTATTTT
Statistics
Matches: 237, Mismatches: 23, Indels: 69
0.72 0.07 0.21
Matches are distributed among these distances:
24 1 0.00
25 4 0.02
26 12 0.05
27 25 0.11
28 35 0.15
29 37 0.16
30 50 0.21
31 19 0.08
32 18 0.08
33 20 0.08
34 16 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
TATATATTTATATATATTATAGTATTATA
Found at i:162727 original size:3 final size:3
Alignment explanation
Indices: 162719--162875 Score: 93
Period size: 3 Copynumber: 52.3 Consensus size: 3
162709 ATATTTAATA
162719 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
162764 CAT ATGT TAT ACAT TAT ATAT GTA- TAT ATAT TA- TAT T-T ATAT TAT
1 TAT -TAT TAT -TAT TAT -TAT -TAT TAT -TAT TAT TAT TAT -TAT TAT
* *
162809 ATAT TAG T-T TA- TAT ATAT TA- TAT TAT TA- TGT TA- TAT TAT ATAT
1 -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
162852 TAT TAT TATT TAT TAT TAT ATAT T
1 TAT TAT TA-T TAT TAT TAT -TAT T
162876 CAATATATCA
Statistics
Matches: 122, Mismatches: 11, Indels: 42
0.70 0.06 0.24
Matches are distributed among these distances:
2 18 0.15
3 77 0.63
4 27 0.22
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:162768 original size:101 final size:99
Alignment explanation
Indices: 162527--162868 Score: 263
Period size: 101 Copynumber: 3.3 Consensus size: 99
162517 TAACTCAACA
* * * *
162527 TATATGATATAGTATATTATTATTA-TATTTAATATATTATA-CAGTATATATTTATATATGTTA
1 TATATTATATA-T-TATTATTATTATTATTTTACATATTATATTAG--TATA-TTATATA--TTA
* * *
162590 TAGTATGTATATATATATATATAT-AT-TATTA-ATATGTTAT
59 -AGTATATATATATATATATATTTAATATATTATAT-TATTAT
* * *
162630 TACAGTATATATT-TATATATATTATATATTATACATATTATATTAGTCATATTATATATTACAG
1 TATATTATATATTAT-TAT-TATTAT-TATTTTACATATTATATTAGT-ATATTATATATTA-AG
162694 TATATATATATATATATATTTAATATATTATTATTATTAT
61 TATATATATATATATATATTTAATATATTA-TATTATTAT
*
162734 TATATTAT-TATTATTATTATTATTATTTTACATATGTTATACATTA-TATATGTATATA-T-AT
1 TATATTATATATTATTATTATTATTATTTTACATA--TTAT--ATTAGTATAT-TATATATTAAG
*
162795 TATATTTATATTATATATTAGTTTATATATATTATATTATTATGT
61 TATATATATA-TATATA-TA-TTTA-ATATATTATATTATTA--T
162840 TATATTATATATTATTATTATTTATTATT
1 TATATTATATATTATTATTA-TTATTATT
162869 ATATATTCAA
Statistics
Matches: 199, Mismatches: 16, Indels: 43
0.77 0.06 0.17
Matches are distributed among these distances:
100 1 0.01
101 48 0.24
102 20 0.10
103 39 0.20
104 47 0.24
105 16 0.08
106 9 0.05
107 11 0.06
108 8 0.04
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (99 bp):
TATATTATATATTATTATTATTATTATTTTACATATTATATTAGTATATTATATATTAAGTATAT
ATATATATATATATTTAATATATTATATTATTAT
Found at i:162875 original size:23 final size:23
Alignment explanation
Indices: 162649--162875 Score: 126
Period size: 23 Copynumber: 9.9 Consensus size: 23
162639 TATTTATATA
* *
162649 TATTATATATTA-TACATATTA-
1 TATTATTTATTATTATATATTAT
* *
162670 TATTAGTCA-TATTATATATTA-
1 TATTATTTATTATTATATATTAT
* * *
162691 CAGTATATATATATATATATATTTAAT
1 TATTATTTAT-TAT-TATATA-TT-AT
162718 ATATTA-TTATTATTATTATATTAT
1 -TATTATTTATTATTA-TATATTAT
162742 TATTA-TTATTATTAT-TATT-T
1 TATTATTTATTATTATATATTAT
* *
162762 TACATATGTTATACATTATATATGTA-
1 TA-TTAT-TTAT-TATTATATAT-TAT
162788 TA-TATATTA-TATT-TATATTAT
1 TATTAT-TTATTATTATATATTAT
162809 ATATTAGTTTA-TA-TATAT-TATAT
1 -TATTA-TTTATTATTATATAT-TAT
162832 TATTATGTTA-TATTATATATTAT
1 TATTAT-TTATTATTATATATTAT
162855 TATTATTTATTATTATATATT
1 TATTATTTATTATTATATATT
162876 CAATATATCA
Statistics
Matches: 164, Mismatches: 16, Indels: 50
0.71 0.07 0.22
Matches are distributed among these distances:
20 7 0.04
21 30 0.18
22 21 0.13
23 59 0.36
24 21 0.13
25 9 0.05
26 11 0.07
27 3 0.02
28 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATTTATTATTATATATTAT
Found at i:162893 original size:34 final size:32
Alignment explanation
Indices: 162533--162874 Score: 85
Period size: 33 Copynumber: 10.2 Consensus size: 32
162523 AACATATATG
*
162533 ATATAGTATATTATTATTATATT-TAATATATTA
1 ATATA-TATATTATTATT-TATTATTATATATTA
*
162566 TACAGTATATATTTATATATGTTATAGTATGTATATATATA
1 -ATA-TATATA-TTAT-TAT-TTAT--TAT-TATATAT-TA
* *
162607 TATATATATTATTAATATGTTATTACAGTATATATT-
1 -ATATATA-TATTATTAT-TTATT--ATTATATATTA
* * *
162643 -TATATATATTATATATTATACATATTATATTAGTC
1 ATATATATATTAT-TATT-TA-TTATTATA-TATTA
* *
162678 ATATTATATATTACAGTATATATATATATATATATT-
1 ATA-TATATATT--ATTATTTAT-TAT-TATATATTA
162714 -TA-ATATATTATTA-TTATTATTATATTATT-
1 ATATATATATTATTATTTATTATTATA-TATTA
* *
162743 AT-TAT-TATTATTA-TTATT-TTACATATGTT
1 ATATATATATTATTATTTATTATTATATAT-TA
* *
162772 ATACAT-TATATATGTATATA-TATTATAT-TT-
1 ATATATATAT-TAT-TATTTATTATTATATATTA
162802 ATAT-TATA-TATTAGTTTA-TATATATTATATTA
1 ATATATATATTATTA-TTTATTAT-TA-TATATTA
* * *
162834 TTATGTTATATTA-TATATTATTATTATTTATTA
1 ATAT-ATATATTATTAT-TTATTATTATATATTA
*
162867 TTATATAT
1 ATATATAT
162875 TCAATATATC
Statistics
Matches: 240, Mismatches: 24, Indels: 90
0.68 0.07 0.25
Matches are distributed among these distances:
27 5 0.02
28 18 0.08
29 25 0.10
30 19 0.08
31 9 0.04
32 10 0.04
33 36 0.15
34 31 0.13
35 14 0.06
36 8 0.03
37 19 0.08
38 15 0.06
39 11 0.05
40 13 0.05
41 7 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (32 bp):
ATATATATATTATTATTTATTATTATATATTA
Found at i:163399 original size:65 final size:65
Alignment explanation
Indices: 163280--163491 Score: 213
Period size: 65 Copynumber: 3.3 Consensus size: 65
163270 TTTTTCAGAG
* * * *
163280 TGATGCACCGATGCAC-CAATCCATGCATCGATGCAC-GATGA-ATTAAATTG-AACATCGAATG
1 TGATGCATCGATGCACTC-ATCCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATG
163341 CATT
62 CATT
* * * *
163345 TCATGCATCGATGCACTTA-CCATGCACCGATGCACTGAGGAT-TTTATGAAAACATTGAATGCA
1 TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCA
163408 TT
64 TT
* * * *
163410 TGATGCATCGATGCAC-CATCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
163474 TGATGCATCGATGCACTC
1 TGATGCATCGATGCACTC
163492 TTAGTGAAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 46 0.37
65 72 0.58
66 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (65 bp):
TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:169919 original size:21 final size:21
Alignment explanation
Indices: 169877--169928 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
169867 ACTCCGGGAG
* * *
169877 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCTCGAGCTCCTC
*
169898 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCTCGAGCTCCTC
*
169919 CT-CCTCCTCT
1 CTAGCTCCTCT
169929 GGCTCCGGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.08, C:0.46, G:0.13, T:0.33
Consensus pattern (21 bp):
CTAGCTCCTCTCGAGCTCCTC
Found at i:171006 original size:65 final size:65
Alignment explanation
Indices: 170937--171098 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
170927 AATTAAATTG
* * *
170937 AACATCGAATGCATTTCATGCATCGATGCACTTA-CCATGCACCGATGCACTGAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACTCATCCATGCACCGATACACTGAGGATATTT-TG
171000 AA
65 -A
* ** *
171002 AACATCGAATGCATTTGATGCATCGATGCAC-CATCCATGCATCGATACACTTTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACTCATCCATGCACCGATACACTGAGGATATTTTGA
*
171066 AACATCGAATGCACTTGATGCATCGATGCACTC
1 AACATCGAATGCATTTGATGCATCGATGCACTC
171099 TTAGTGCACC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
64 32 0.37
65 51 0.59
66 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCATCCATGCACCGATACACTGAGGATATTTTGA
Found at i:171096 original size:17 final size:19
Alignment explanation
Indices: 171068--171116 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
171058 TATTTTGAAA
171068 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
171086 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
171105 CACCGATGCACT
1 CATCGATGCACT
171117 AAAGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:173927 original size:104 final size:105
Alignment explanation
Indices: 173716--173929 Score: 369
Period size: 105 Copynumber: 2.1 Consensus size: 105
173706 TTTTTATGTC
* *
173716 AATTT-TGTATATAAAATTGTTTTAAGTTTGCTATAGTTCCATAAAATACGTATAATTATTAAAA
1 AATTTATGTATATAAAATTATTTTAAGTTTGATATAGTTCCATAAAATACGTATAATTATTAAAA
173780 ATTATTTGTTTATGAATAAGAATATTTTATATATTATCAG
66 ATTATTTGTTTATGAATAAGAATATTTTATATATTATCAG
* * *
173820 AATTTATGTATATAAAATTATTTTAAGTTTTATATATTTCCATAAAATACGTGTAATTATTAAAA
1 AATTTATGTATATAAAATTATTTTAAGTTTGATATAGTTCCATAAAATACGTATAATTATTAAAA
173885 ATTATTT-TTTATGAATAAGAATATTTTATATATTATCAG
66 ATTATTTGTTTATGAATAAGAATATTTTATATATTATCAG
173924 AATTTA
1 AATTTA
173930 AGTTAAATAT
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
104 43 0.41
105 61 0.59
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (105 bp):
AATTTATGTATATAAAATTATTTTAAGTTTGATATAGTTCCATAAAATACGTATAATTATTAAAA
ATTATTTGTTTATGAATAAGAATATTTTATATATTATCAG
Found at i:173971 original size:105 final size:105
Alignment explanation
Indices: 173756--173964 Score: 293
Period size: 104 Copynumber: 2.0 Consensus size: 105
173746 CTATAGTTCC
173756 ATAAAATACGTATAATTATTAAAAATTATTTGTTTATGAATAAGAATATTTTATATATTATCAGA
1 ATAAAATACGTATAATTATTAAAAATTATTTGTTTATGAATAAGAATATTTTATATATTATCAGA
* * * ***
173821 ATTTATGTATATAAAATTATTTTAAGTTTTATATATTTCC
66 ATTTAAGTATATAAAATTATTTTAAGTATTATATAATAAA
*
173861 ATAAAATACGTGTAATTATTAAAAATTATTT-TTTATGAATAAGAATATTTTATATATTATCAGA
1 ATAAAATACGTATAATTATTAAAAATTATTTGTTTATGAATAAGAATATTTTATATATTATCAGA
*
173925 ATTTAAGT-TA-AATA-TATTTT-AGATATTATAATAATAAA
66 ATTTAAGTATATAAAATTATTTTAAG-TATTAT-ATAATAAA
173963 AT
1 AT
173965 TTTAAAAATT
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
100 2 0.02
101 11 0.12
102 9 0.10
103 2 0.02
104 40 0.43
105 30 0.32
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (105 bp):
ATAAAATACGTATAATTATTAAAAATTATTTGTTTATGAATAAGAATATTTTATATATTATCAGA
ATTTAAGTATATAAAATTATTTTAAGTATTATATAATAAA
Found at i:185749 original size:25 final size:25
Alignment explanation
Indices: 185715--185764 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
185705 TACAATCCAG
185715 GGCATCGCGAACTGCCCTTCTTATC
1 GGCATCGCGAACTGCCCTTCTTATC
185740 GGCATCGCGAACTGCCCTTCTTATC
1 GGCATCGCGAACTGCCCTTCTTATC
185765 CTTCTTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.36, G:0.20, T:0.28
Consensus pattern (25 bp):
GGCATCGCGAACTGCCCTTCTTATC
Found at i:188338 original size:42 final size:42
Alignment explanation
Indices: 188290--188683 Score: 429
Period size: 42 Copynumber: 9.5 Consensus size: 42
188280 ACTCTTATAG
* *
188290 GCGGTGTTTTTGTAATAAACGCCGCAATAGTCATGCACCTTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
* * *
188332 GCGGTGTTTTTGTAATAAACACCACAATAGTCATGCACTTTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
* * * * *
188374 GTGGCATTTTTGTAATAAACACCGCAATTGTCACGCACTTTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
* * * * *
188416 GTGGTGTTTTTG--ATAAACGCCACAATAGTCATGAACTGTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
* *
188456 GTGGCGTTTTTATAATAAACGCCGCAATAGTCATGCACTTTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
* * * ** *
188498 GTGGCATTTTTGTAATAAATGTTGCAATAGTCATTCAC-TTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
* * *
188539 GCGGCGGTTTTGT--TAAACGCCGCAATAATCATTCACTTTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
* * * *
188579 GCGGAGTTTTTATAATAAATGCCGCAATAATCATGCACTTTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
** * * *
188621 ATGGCGTTTTTGTAATAAACGCCACTATAGTCATGCACCTTA
1 GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
*
188663 GCGGCATTTTTGTAATAAACG
1 GCGGCGTTTTTGTAATAAACG
188684 TCACAATTGT
Statistics
Matches: 295, Mismatches: 52, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
39 19 0.06
40 45 0.15
41 13 0.04
42 218 0.74
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (42 bp):
GCGGCGTTTTTGTAATAAACGCCGCAATAGTCATGCACTTTA
Found at i:188619 original size:123 final size:124
Alignment explanation
Indices: 188304--188667 Score: 433
Period size: 123 Copynumber: 2.9 Consensus size: 124
188294 TGTTTTTGTA
* * * * *
188304 ATAAACGCCGCAATAGTCATGCACCTTAGCGGTGTTTTTGTAATAAACACCACAATAGTCATGCA
1 ATAAACGCCGCAATAGTCATGCACTTTAGCGGAGTTTTTATAATAAACGCCGCAATAGTCATGCA
* * * *
188369 CTTTAGTGGCATTTTTGTAATAAACACCGCAATTGTCACGCACTTTAGTGGTGTTTTTG
66 CTTTAGTGGCATTTTTGTAATAAACACCGCAATAGTCACGCACTTTAGCGGCGGTTTTG
* * * * *
188428 ATAAACGCCACAATAGTCATGAACTGTAGTGGCGTTTTTATAATAAACGCCGCAATAGTCATGCA
1 ATAAACGCCGCAATAGTCATGCACTTTAGCGGAGTTTTTATAATAAACGCCGCAATAGTCATGCA
**** **
188493 CTTTAGTGGCATTTTTGTAATAAATGTTGCAATAGTCATTCAC-TTAGCGGCGGTTTTG
66 CTTTAGTGGCATTTTTGTAATAAACACCGCAATAGTCACGCACTTTAGCGGCGGTTTTG
* * * * *
188551 TTAAACGCCGCAATAATCATTCACTTTAGCGGAGTTTTTATAATAAATGCCGCAATAATCATGCA
1 ATAAACGCCGCAATAGTCATGCACTTTAGCGGAGTTTTTATAATAAACGCCGCAATAGTCATGCA
* * * * * * *
188616 CTTTAATGGCGTTTTTGTAATAAACGCCACTATAGTCATGCACCTTAGCGGC
66 CTTTAGTGGCATTTTTGTAATAAACACCGCAATAGTCACGCACTTTAGCGGC
188668 ATTTTTGTAA
Statistics
Matches: 202, Mismatches: 37, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
123 102 0.50
124 100 0.50
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (124 bp):
ATAAACGCCGCAATAGTCATGCACTTTAGCGGAGTTTTTATAATAAACGCCGCAATAGTCATGCA
CTTTAGTGGCATTTTTGTAATAAACACCGCAATAGTCACGCACTTTAGCGGCGGTTTTG
Found at i:191626 original size:18 final size:18
Alignment explanation
Indices: 191589--191635 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
191579 AATATTACTA
191589 AAATAATAATATTATTTT
1 AAATAATAATATTATTTT
*
191607 AAATATTAATATT-TTATT
1 AAATAATAATATTATT-TT
191625 AAA-AAT-ATATT
1 AAATAATAATATT
191636 TAATCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 4 0.15
18 17 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATAATAATATTATTTT
Found at i:192921 original size:17 final size:18
Alignment explanation
Indices: 192882--192928 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
192872 TGTTTATAAG
192882 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
192900 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
192917 GGAATTGGAATC
1 GGAATTGGAATC
192929 CAATTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:192964 original size:38 final size:41
Alignment explanation
Indices: 192918--192999 Score: 128
Period size: 44 Copynumber: 1.9 Consensus size: 41
192908 AATCTGTCAG
*
192918 GAATTGGAATCCAATTCCATATTCTGTTTGGTTGGCAGGAAA
1 GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGG-AA
192960 TGGAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAG
1 --GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAG
193000 ACATGTCAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (41 bp):
GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGGAA
Found at i:193555 original size:37 final size:38
Alignment explanation
Indices: 193468--193559 Score: 132
Period size: 38 Copynumber: 2.4 Consensus size: 38
193458 AATTATTCCT
* *
193468 AAACCCGAACCAGACCCGACTCGAATATCACACTTAAAA
1 AAACCCG-ACCCGACCCGACCCGAATATCACACTTAAAA
* *
193507 AAACCCAACCCGACTCGACCCGAATATCACACTT-AAA
1 AAACCCGACCCGACCCGACCCGAATATCACACTTAAAA
193544 AAACCCGACCCGACCC
1 AAACCCGACCCGACCC
193560 AAACAAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 17 0.36
38 24 0.51
39 6 0.13
ACGTcount: A:0.40, C:0.39, G:0.10, T:0.11
Consensus pattern (38 bp):
AAACCCGACCCGACCCGACCCGAATATCACACTTAAAA
Found at i:195191 original size:20 final size:18
Alignment explanation
Indices: 195147--195198 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
195137 GATTCAATTA
*
195147 GTATCGATACCGAAGGGG
1 GTATCGATACCAAAGGGG
195165 GAATATCGATACCAAAGGGAAG
1 G--TATCGATACCAAAGGG--G
195187 GTATCGATACCA
1 GTATCGATACCA
195199 TTTCAAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
20 26 0.90
22 2 0.07
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (18 bp):
GTATCGATACCAAAGGGG
Found at i:197690 original size:6 final size:6
Alignment explanation
Indices: 197679--197703 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
197669 CAAACCAAAT
197679 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
197704 CATTCATCCA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:199785 original size:44 final size:45
Alignment explanation
Indices: 199692--199797 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 45
199682 CGATTCACTG
* * * * *
199692 CATAGTGTATCGAAGCACATTCAAGATATGTATCAATGCACCTTT
1 CATAGTGTATCGATGCATATTCAAGAGATGCATCAATACACCTTT
* *
199737 -ATAGTGTATCGATGCATATTCAAGGGATGCATCGATACA-CTTT
1 CATAGTGTATCGATGCATATTCAAGAGATGCATCAATACACCTTT
199780 CATAGTGTA-CGATGCATA
1 CATAGTGTATCGATGCATA
199798 GTGCACAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 13 0.25
44 40 0.75
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (45 bp):
CATAGTGTATCGATGCATATTCAAGAGATGCATCAATACACCTTT
Found at i:205267 original size:65 final size:64
Alignment explanation
Indices: 205153--205305 Score: 164
Period size: 65 Copynumber: 2.4 Consensus size: 64
205143 AGAAGACTTA
* * * * * * *
205153 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGTCAGGAGTGCATCGATGCATGGTCT
1 GTGCATCGGTATACAAAATGCATTAGATGTTTCAAAAGAATCAGGAGTGCATAGATGCATGG-CT
* * * * *
205218 GTGCATTGGTTTATAAAATGCATTAGATGTTTCAATAA-AATCATGAGTGCATAGATGCCTGGCT
1 GTGCATCGGTATACAAAATGCATTAGATGTTTCAA-AAGAATCAGGAGTGCATAGATGCATGGCT
*
205282 GTGTATCGGTATACAAAATGCATT
1 GTGCATCGGTATACAAAATGCATT
205306 CGAAATATGG
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
64 22 0.31
65 47 0.66
66 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (64 bp):
GTGCATCGGTATACAAAATGCATTAGATGTTTCAAAAGAATCAGGAGTGCATAGATGCATGGCT
Found at i:205734 original size:30 final size:30
Alignment explanation
Indices: 205663--205722 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
205653 ACAATTTAAG
205663 GCAAAATGTTTTTAGACTTGAATTGAATTT
1 GCAAAATGTTTTTAGACTTGAATTGAATTT
* *
205693 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTAGACTTGAATTGAATTT
205723 ATTCAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTAGACTTGAATTGAATTT
Done.