Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008217.1 Hibiscus syriacus cultivar Beakdansim tig00110847_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: 2417150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 14
Found at i:1955220 original size:36 final size:36
Alignment explanation
Indices: 1955152--1955220 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
1955142 TTATAAATTA
*
1955152 TATATTTTTAAAAATGTTTTGAAAATATATATAATC
1 TATATTTTTAAAAATGTTTTGAAAATACATATAATC
*
1955188 TATAGTTTTTAAAAGTGTTTT-AAAA-ACCATATA
1 TATA-TTTTTAAAAATGTTTTGAAAATA-CATATA
1955221 TTATATACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 1 0.03
36 13 0.45
37 15 0.52
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TATATTTTTAAAAATGTTTTGAAAATACATATAATC
Found at i:1956033 original size:83 final size:82
Alignment explanation
Indices: 1955891--1956075 Score: 205
Period size: 83 Copynumber: 2.3 Consensus size: 82
1955881 AAGTTGAATA
* * *
1955891 TAATCGAACTCGAAGGTCTTT-AGCAGATAGCCCTTCTCGACTAAAGCTATGCTGCAAATGATGT
1 TAATCGAACTCGAAGGTCTTTGAACAGATAACCCTTCTAGACTAAAGCTATGCTGCAAATGATGT
* *
1955955 G-CCTTGGAGCTGAGCG
66 GCCCTCGAAGCTGAGCG
* * * ** * *
1955971 TAGTTGAACTCGAAGGTCTTTGATCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 TAATCGAACTCGAAGGTCTTTGA--ACAGATAACCCTTCTAGACTAAAGCTATGCTGCAAATGAT
*
1956036 GTGCCCTCGAAGCTGAGTG
64 GTGCCCTCGAAGCTGAGCG
*
1956055 TAATCGAATTCGAAGGT-TTTG
1 TAATCGAACTCGAAGGTCTTTG
1956076 TGTTTCAAGA
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
80 19 0.22
81 1 0.01
83 39 0.46
84 26 0.31
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (82 bp):
TAATCGAACTCGAAGGTCTTTGAACAGATAACCCTTCTAGACTAAAGCTATGCTGCAAATGATGT
GCCCTCGAAGCTGAGCG
Found at i:1956114 original size:31 final size:30
Alignment explanation
Indices: 1956067--1956139 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 30
1956057 ATCGAATTCG
* *
1956067 AAGGTTTTGTGTTTCAAGAGAAACATTTTCA
1 AAGGTTTT-TTTTTCAAGAGAAACAATTTCA
1956098 AAGGGTTTTTTTTTCAAGAGAAACAATTTCA
1 AA-GGTTTTTTTTTCAAGAGAAACAATTTCA
1956129 AAGGTTTTTTT
1 AAGGTTTTTTT
1956140 AAAGAGAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
30 9 0.23
31 24 0.62
32 6 0.15
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (30 bp):
AAGGTTTTTTTTTCAAGAGAAACAATTTCA
Found at i:1956145 original size:28 final size:30
Alignment explanation
Indices: 1956082--1956149 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
1956072 TTTGTGTTTC
* *
1956082 AAGAGAAACATTTTCAAAGGGTTTTTTTTTC
1 AAGAGAAACAATTTCAAAGGG-TTTTTTTTA
1956113 AAGAGAAACAATTTCAAA-GG-TTTTTTTA
1 AAGAGAAACAATTTCAAAGGGTTTTTTTTA
1956141 AAGAGAAAC
1 AAGAGAAAC
1956150 TGTCTCAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 16 0.46
30 2 0.06
31 17 0.49
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (30 bp):
AAGAGAAACAATTTCAAAGGGTTTTTTTTA
Found at i:1956252 original size:36 final size:36
Alignment explanation
Indices: 1956145--1956579 Score: 604
Period size: 36 Copynumber: 12.0 Consensus size: 36
1956135 TTTTTAAAGA
* *
1956145 GAAACTGTCTCAAGGGAGACAGAATTTTGTTTCAAGG
1 GAAACTGTCTCAAGAGAGAC-GAAATTTGTTTCAAGG
* *
1956182 GAAACTGTTTCAA-AGATTGACAAAAATTTGTTTCAAGG
1 GAAACTGTCTCAAGAGA--GAC-GAAATTTGTTTCAAGG
* * *
1956220 GAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAGT
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
* *
1956256 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
* *
1956292 GAAACTGTCTCAAGAGAGACAAAATATGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
* *
1956328 GAAACTGTCTCAAGAGAGACAAAAATTTGCTTCAAGG
1 GAAACTGTCTCAAGAGAGAC-GAAATTTGTTTCAAGG
* *
1956365 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
* *
1956401 GAAACTGTCTCAAGAGAGACAAAATATGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
1956437 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
* *
1956473 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGG
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
* *
1956509 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
*
1956545 GAAACTGTCTCAAGAGAGAC-AAATTTTATTTCAAG
1 GAAACTGTCTCAAGAGAGACGAAA-TTTGTTTCAAG
1956580 AAAAACAATC
Statistics
Matches: 358, Mismatches: 35, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
35 3 0.01
36 276 0.77
37 47 0.13
38 30 0.08
39 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.26
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
Found at i:1956253 original size:21 final size:21
Alignment explanation
Indices: 1956229--1956293 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 21
1956219 GGAAACTGTC
1956229 TCAAGGGAGATGAAATTTGTT
1 TCAAGGGAGATGAAATTTGTT
* *
1956250 TC-A---AG-TGAAA-CTGTC
1 TCAAGGGAGATGAAATTTGTT
*
1956265 TCAAGGGAGACGAAATTTGTT
1 TCAAGGGAGATGAAATTTGTT
*
1956286 TTAAGGGA
1 TCAAGGGA
1956294 AACTGTCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 5 0.16
16 6 0.19
17 2 0.06
19 2 0.06
20 5 0.16
21 12 0.38
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (21 bp):
TCAAGGGAGATGAAATTTGTT
Found at i:1956366 original size:145 final size:144
Alignment explanation
Indices: 1956136--1956570 Score: 631
Period size: 145 Copynumber: 3.0 Consensus size: 144
1956126 TCAAAGGTTT
* * * *
1956136 TTTTAAAGAGAAACTGTCTCAAGGGAGACAGAATTTTGTTTCAAGGGAAACTGTTTCAA-AGATT
1 TTTT-AAGGGAAACTGTCTCAAGAGAGACA-AAATTTGTTTCAAGGGAAACTGTCTCAAGAGA--
* *
1956200 GACAAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAGTGAAACTGTC
62 GACAAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGAGAAACTGTC
*
1956265 TCAAGGGAGACGAAATTTG
127 TCAAGAGAGAC-AAATTTG
*
1956284 TTTTAAGGGAAACTGTCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACA
1 TTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
* * *
1956349 AAAATTTGCTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAACTGTCTCAA
66 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAA
*
1956414 GAGAGACAAAATATG
131 GAGAGAC-AAATTTG
* * *
1956429 TTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGAC-
1 TTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
* * * *
1956493 GAAATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAA
66 AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAA
1956558 GAGAGACAAATTT
131 GAGAGACAAATTT
1956571 TATTTCAAGA
Statistics
Matches: 262, Mismatches: 24, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
143 5 0.02
144 65 0.25
145 137 0.52
146 25 0.10
147 26 0.10
148 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.26
Consensus pattern (144 bp):
TTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
AAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAA
GAGAGACAAATTTG
Found at i:1956470 original size:21 final size:21
Alignment explanation
Indices: 1956446--1956546 Score: 55
Period size: 21 Copynumber: 5.4 Consensus size: 21
1956436 GGAAACTGTC
1956446 TCAAGAGAGACGAAATTTGTT
1 TCAAGAGAGACGAAATTTGTT
* *
1956467 TC-A-AG-G--GAAA-CTGTC
1 TCAAGAGAGACGAAATTTGTT
*
1956482 TCAAGGGAGACGAAATTTGTT
1 TCAAGAGAGACGAAATTTGTT
* * *
1956503 T-TA-AG-G--GAAA-CTGTC
1 TCAAGAGAGACGAAATTTGTT
*
1956518 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACGAAATTTGTT
1956539 TCAAGAGA
1 TCAAGAGA
1956547 AACTGTCTCA
Statistics
Matches: 55, Mismatches: 13, Indels: 24
0.60 0.14 0.26
Matches are distributed among these distances:
15 9 0.16
16 10 0.18
17 3 0.05
18 4 0.07
19 3 0.05
20 9 0.16
21 17 0.31
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACGAAATTTGTT
Found at i:1956564 original size:108 final size:108
Alignment explanation
Indices: 1956145--1956579 Score: 694
Period size: 108 Copynumber: 4.0 Consensus size: 108
1956135 TTTTTAAAGA
* * *
1956145 GAAACTGTCTCAAGGGAGACAGAATTTTGTTTCAAGGGAAACTGTTTCAA-AGATTGACAAAAAT
1 GAAACTGTCTCAAGGGAGAC-GAAATTTGTTTTAAGGGAAACTGTCTCAAGAGA--GAC-AAAAT
* * * *
1956209 TTGTTTCAAGGGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAGT
62 ATGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
1956256 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATATGT
1 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATATGT
* *
1956321 TTCAAGGGAAACTGTCTCAAGAGAGACAAAAATTTGCTTCAAGG
66 TTCAAGGGAAACTGTCTCAAGAGAGAC-GAAATTTGTTTCAAGG
1956365 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATATGT
1 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATATGT
1956430 TTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
66 TTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
*
1956473 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
1 GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATATGT
* *
1956538 TTCAAGAGAAACTGTCTCAAGAGAGAC-AAATTTTATTTCAAG
66 TTCAAGGGAAACTGTCTCAAGAGAGACGAAA-TTTGTTTCAAG
1956580 AAAAACAATC
Statistics
Matches: 307, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
107 3 0.01
108 147 0.48
109 108 0.35
110 26 0.08
111 23 0.07
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.26
Consensus pattern (108 bp):
GAAACTGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATATGT
TTCAAGGGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGG
Found at i:1956807 original size:84 final size:83
Alignment explanation
Indices: 1956593--1957143 Score: 559
Period size: 84 Copynumber: 6.7 Consensus size: 83
1956583 AACAATCTCA
* * * * * *
1956593 AAGGT-TTTTGTTGACAGATAACTCCTT-TAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGG
1 AAGGTCTTTTGTTGGCAGATAAC-CCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCT-TG
1956656 AGCTGA-C-TAGAATCGAACTCG
63 AGCTGAGCGTAG--TCGAACTCG
** * * * *
1956677 GGGGTC---T-TTGGCATATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAG
1 AAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAG
*
1956738 CTGAGCGTAGTCGAACTCA
65 CTGAGCGTAGTCGAACTCG
* * * * * * *
1956757 AAGGTCTTTTATTGGCAGACAACCCTTCTAGGCTTAAGTTGTGCTACAAATGATATGCCTTGGAG
1 AAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAG
*
1956822 CTGAGCATAGTCGAACTCG
65 CTGAGCGTAGTCGAACTCG
* *
1956841 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAA
1 AAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-A
* *
1956906 GCTGAGTGTAATCGAACTCG
64 GCTGAGCGTAGTCGAACTCG
** * * * *
1956926 GGGGTC---T-TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCGTTGAG
1 AAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAG
*
1956987 CTGAGCGTAGTCGAACTCA
65 CTGAGCGTAGTCGAACTCG
* * * * * *
1957006 AAGGTCTTTTGTTAGCAGACAACCCTTCTAGACTTAAGTTGTTCTGCAAATGATATGCCTTGGAG
1 AAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAG
1957071 CTGAGCGTAGTCGAACTCG
65 CTGAGCGTAGTCGAACTCG
* *
1957090 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGAT
1 AAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
1957144 TTGTTTAAAA
Statistics
Matches: 382, Mismatches: 67, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
80 49 0.13
81 78 0.20
82 4 0.01
83 6 0.02
84 220 0.58
85 25 0.07
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (83 bp):
AAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGAGC
TGAGCGTAGTCGAACTCG
Found at i:1957001 original size:165 final size:165
Alignment explanation
Indices: 1956684--1957143 Score: 539
Period size: 165 Copynumber: 2.8 Consensus size: 165
1956674 TCGGGGGTCT
* * * *
1956684 TTGGCATATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTTGAGCTGAGCGTAGT
* * * * * * *
1956749 CGAACTCAAAGGTCTTTTATTGGCAGACAACCCTTCTAGGCTTAAGTTGTGCTACAAATGATATG
66 CGAACTCGAAGGTCTTTTA---GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATA
*
1956814 CCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGG
128 CCTTGGAGCTGAGCATAGTCGAACTCAAAGGTCTTTGG
* * * *
1956852 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTTG-AGCTGAGCGTAG
** * * *
1956917 TCGAACTCGGGGGTC-TTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACC
65 TCGAACTCGAAGGTCTTTTAGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATACC
* *
1956981 GTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
130 -TTGGAGCTGAGCATAGTCGAACTCAAAGGTCTTTGG
* * * * * *
1957017 TTAGCAGACAACCCTTCTAGACTTAAGTTGTTCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTT-GAGCTGAGCGTAG
* *
1957081 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGAT
65 TCGAACTCGAAGGTC-TT--TTAGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
1957144 TTGTTTAAAA
Statistics
Matches: 247, Mismatches: 38, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
164 26 0.11
165 107 0.43
166 3 0.01
168 89 0.36
169 22 0.09
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (165 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCCTTGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTAGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATACCT
TGGAGCTGAGCATAGTCGAACTCAAAGGTCTTTGG
Found at i:1957045 original size:249 final size:249
Alignment explanation
Indices: 1956593--1957143 Score: 892
Period size: 249 Copynumber: 2.2 Consensus size: 249
1956583 AACAATCTCA
* * * * * * *
1956593 AAGGT-TTTTGTTGACAGATAACTCCTT-TAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGG
1 AAGGTCTTTGGTTGGCAGATAAC-CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGA
* *
1956656 AGCTGACTAGAATCGAACTCGGGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATACTGCA
65 AGCTGACTAGAATCGAACTCGGGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATACTGCA
* *
1956721 AATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTATTGGCAGACAACCCTTCT
130 AATGATGTACCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTATTAGCAGACAACCCTTCT
*
1956786 AGGCTTAAGTTGTGCTACAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCG
195 AGACTTAAGTTGTGCTACAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCG
1956841 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAA
1 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAA
* *
1956906 GCTGAGT-GTAATCGAACTCGGGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
66 GCTGACTAG-AATCGAACTCGGGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATACTGCA
*
1956970 AATGATGTACCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTAGCAGACAACCCTTCT
130 AATGATGTACCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTATTAGCAGACAACCCTTCT
* * *
1957035 AGACTTAAGTTGTTCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCG
195 AGACTTAAGTTGTGCTACAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCG
*
1957090 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGAT
1 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
1957144 TTGTTTAAAA
Statistics
Matches: 281, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
248 10 0.04
249 271 0.96
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (249 bp):
AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAA
GCTGACTAGAATCGAACTCGGGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAA
ATGATGTACCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTATTAGCAGACAACCCTTCTA
GACTTAAGTTGTGCTACAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCG
Found at i:1958368 original size:84 final size:88
Alignment explanation
Indices: 1958269--1958494 Score: 252
Period size: 95 Copynumber: 2.5 Consensus size: 88
1958259 GGCTAGCTAA
1958269 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAAC-CCA-ATAT-GTA-AA-CAC
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCCATATATAGTATAATCAC
*
1958329 CTTTAT-TAGGT-TAGCTGAAATCTT
66 CTTTATCT--GTCTAGCTG-AATATT
** *
1958353 ATCCATAAAGCCGGGGCGTTTAACCAATTGC-CTTAGAGAGACGACTCAAGCTTTATTGTATAGT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTC-TAGAG-G--GA--CAA-CTCCA-TATATAGT
1958417 ATAATCACCTTTATCTGTCTAGCTGAATATT
58 ATAATCACCTTTATCTGTCTAGCTGAATATT
*
1958448 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTC
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTC
1958495 AAGCTTTATT
Statistics
Matches: 120, Mismatches: 6, Indels: 27
0.78 0.04 0.18
Matches are distributed among these distances:
83 1 0.01
84 36 0.30
85 1 0.01
87 2 0.02
89 5 0.04
90 4 0.03
91 1 0.01
92 2 0.02
93 3 0.03
94 4 0.03
95 45 0.38
96 15 0.12
97 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (88 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCCATATATAGTATAATCAC
CTTTATCTGTCTAGCTGAATATT
Found at i:1958495 original size:95 final size:95
Alignment explanation
Indices: 1958340--1958515 Score: 300
Period size: 95 Copynumber: 1.9 Consensus size: 95
1958330 TTTATTAGGT
* *
1958340 TAGCTGAAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGAGACGACTCAAGCT
1 TAGCTGAAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGAGACAACTCAAGCT
1958405 TTATTGTATAGTATAATCACCTTTATCTGTC
66 TTATTGTATA-TATAATCACCTTTATCTGTC
* *
1958436 TAGCTG-AATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCT
1 TAGCTGAAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGAGACAACTCAAGCT
1958500 TTATTGTATATATAAT
66 TTATTGTATATATAAT
1958516 AGTATAATCT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
94 6 0.08
95 64 0.84
96 6 0.08
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (95 bp):
TAGCTGAAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGAGACAACTCAAGCT
TTATTGTATATATAATCACCTTTATCTGTC
Found at i:1961876 original size:12 final size:12
Alignment explanation
Indices: 1961859--1961888 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1961849 TTAATTGCGA
*
1961859 AAATTAGAATTT
1 AAATTAAAATTT
1961871 AAATTAAAATTT
1 AAATTAAAATTT
1961883 AAATTA
1 AAATTA
1961889 TTCTATCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
AAATTAAAATTT
Found at i:1963449 original size:13 final size:13
Alignment explanation
Indices: 1963431--1963456 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1963421 GATGAATAAT
1963431 AATAAATAAAAAC
1 AATAAATAAAAAC
1963444 AATAAATAAAAAC
1 AATAAATAAAAAC
1963457 TATATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAATAAAAAC
Found at i:1963580 original size:33 final size:31
Alignment explanation
Indices: 1963499--1963599 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
1963489 CTATATACTA
* *
1963499 TATATAAATTTTCAAAAATGTTTTTCAAAAAAC
1 TATAT-AATTTTTAAAAATGTTTTT-AAAAAAT
*
1963532 TA-ATAATTTTTAAAAATGTTCTTTTAAAAAT
1 TATATAATTTTTAAAAATGTT-TTTAAAAAAT
1963563 TATATAATTTTTTAAAAATG-TTTTAAAAAAT
1 TATATAA-TTTTTAAAAATGTTTTTAAAAAAT
1963594 TATATA
1 TATATA
1963600 TTATATATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
31 37 0.61
32 10 0.16
33 14 0.23
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (31 bp):
TATATAATTTTTAAAAATGTTTTTAAAAAAT
Found at i:1963674 original size:36 final size:37
Alignment explanation
Indices: 1963572--1963753 Score: 139
Period size: 36 Copynumber: 5.0 Consensus size: 37
1963562 TTATATAATT
* *
1963572 TTTTAAAAATG-TTTTAAAAAATTATATATTATATATAAG
1 TTTTCAAAATGTTTTTCAAAAATTATATA-T-TATAT-AG
* **
1963611 TTTTCAAAA--ATACTCTAAAAATTATATATTATAT-G
1 TTTTCAAAATGTTTTTC-AAAAATTATATATTATATAG
*
1963646 TTTTCAAAATGTTTTTCAAAAATTATATATTATATAT
1 TTTTCAAAATGTTTTTCAAAAATTATATATTATATAG
* *
1963683 TTTTTAAAATG-TTTT--GAAATTATATATAATATATAG
1 TTTTCAAAATGTTTTTCAAAAATTATATAT--TATATAG
* **
1963719 TTTTTAAAA-GTGTTTT-AAAAACCATATATTATATA
1 TTTTCAAAATGT-TTTTCAAAAATTATATATTATATA
1963754 CGTATTTTCA
Statistics
Matches: 119, Mismatches: 14, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
34 11 0.09
35 11 0.09
36 43 0.36
37 22 0.18
38 12 0.10
39 20 0.17
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (37 bp):
TTTTCAAAATGTTTTTCAAAAATTATATATTATATAG
Found at i:1973263 original size:31 final size:31
Alignment explanation
Indices: 1973227--1973286 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1973217 AACTTAAAAG
* * *
1973227 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTAAAATTTAAATAATTTT
1973258 AGTTTTACAATACTAAAATTTAAATAATT
1 AGTTTTACAATACTAAAATTTAAATAATT
1973287 CATACAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTAAAATTTAAATAATTTT
Found at i:1973504 original size:21 final size:21
Alignment explanation
Indices: 1973474--1973568 Score: 154
Period size: 21 Copynumber: 4.5 Consensus size: 21
1973464 ATTATTACTA
1973474 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
1973495 TCGTATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
1973516 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCAAAT
*
1973537 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCAAAT
*
1973558 TCGCAATGCGA
1 TCGCATTGCGA
1973569 ATAAGTAATC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1974317 original size:30 final size:32
Alignment explanation
Indices: 1974276--1974351 Score: 120
Period size: 30 Copynumber: 2.4 Consensus size: 32
1974266 CGGAAATGCT
*
1974276 ATCGCAACGCGAAATGAAAATTGCAACG-ATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAATA
*
1974307 ATCGC-ACGCGAAATGAAAATCGCAATGAATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAATA
1974338 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1974352 CCAAATCGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 20 0.49
31 13 0.32
32 8 0.20
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.14
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAATA
Found at i:1974384 original size:19 final size:19
Alignment explanation
Indices: 1974357--1974464 Score: 120
Period size: 19 Copynumber: 5.9 Consensus size: 19
1974347 CGAAACCAAA
*
1974357 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1974376 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1974395 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
1974409 TCTCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1974428 TCCGCGTTGCGA-TTTCATT
1 T-CGCGTTGCGATTTTCATT
*
1974447 CTCTCGTTGCGATTTTCA
1 -TCGCGTTGCGATTTTCA
1974465 GTTCAACAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
16 3 0.04
17 3 0.04
19 46 0.61
20 14 0.19
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1974444 original size:52 final size:53
Alignment explanation
Indices: 1974360--1974460 Score: 170
Period size: 52 Copynumber: 1.9 Consensus size: 53
1974350 AACCAAATCG
1974360 CATTGCGATTTTCATTTCGCGTTGCGATTTTCATT-TCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTTTCATTCTCGCGTTGCGATTCTCT
*
1974412 CATTGCGATTTTCATTTCCGCGTTGCGA-TTTCATTCTCTCGTTGCGATT
1 CATTGCGATTTTCATTT-CGCGTTGCGATTTTCATTCTCGCGTTGCGATT
1974461 TTCAGTTCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
52 24 0.52
53 22 0.48
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.46
Consensus pattern (53 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTTTCATTCTCGCGTTGCGATTCTCT
Found at i:1974812 original size:20 final size:20
Alignment explanation
Indices: 1974748--1974813 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
1974738 GATTATGTAT
*
1974748 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
1974768 TATCTAC-TTGCGAAAGTAAG
1 TATC-GCGTTGCGAAAGTCAG
1974788 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
1974808 TATCGC
1 TATCGC
1974814 ATTGTGCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1975106 original size:21 final size:20
Alignment explanation
Indices: 1975082--1975134 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
1975072 TATGGGATTT
*
1975082 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATT-AGAAAA
*
1975103 TCGCAACGCGAAATTAGAAAA
1 TCGCAATGCG-AATTAGAAAA
*
1975124 TCGCATTGCGA
1 TCGCAATGCGA
1975135 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATTAGAAAA
Found at i:1975113 original size:190 final size:193
Alignment explanation
Indices: 1974892--1975278 Score: 681
Period size: 190 Copynumber: 2.0 Consensus size: 193
1974882 ATTTACTTAA
*
1974892 TCGCAATGCGAATTGGGAAAATCGTAACGCGAAATTAGAAAATCGCATTGCGATAGTAATAATCG
1 TCGCAATGCGAATTGGGAAAATCGCAACGCGAAATTAGAAAATCGCATTGCGATAGTAATAATCG
*
1974957 CGTTGCGAATCTGGAAACTGATTTGCGATAATGGAGATCGCATTGCGAATTAGCGATCGCATTGC
66 CGTTGCGAATCTGGAAACTGATTTGCGATAATGGAGATAGCATTGCGAATTAGCGATCGCATTGC
* *
1975022 GA-TTTG-TGGTCCTTTTGGCAAATCC-AAAAGTTGGTTTAAATCGTATATTATATGGGATTT
131 GATTTTGTTGGTCATTTTGGCAAATCCAAAAAGTTGGTTAAAATCGTATATTATATGGGATTT
1975082 TCGCAATGCGAATTGGGAAAATCGCAACGCGAAATTAGAAAATCGCATTGCGATAGTAATAATCG
1 TCGCAATGCGAATTGGGAAAATCGCAACGCGAAATTAGAAAATCGCATTGCGATAGTAATAATCG
*
1975147 CGTTGCGAATCTGGAAACTGATTTGCGATAATGGAGATATCATTGCGAATTAGCGATCGCATTGC
66 CGTTGCGAATCTGGAAACTGATTTGCGATAATGGAGATAGCATTGCGAATTAGCGATCGCATTGC
1975212 GATTTTGTTGGTCATTTTGGCAAATCCAGAAAAAAGTTGGTTAAAATCGTATATTATATGGGATT
131 GATTTTGTTGGTCATTTTGGCAAATCC---AAAAAGTTGGTTAAAATCGTATATTATATGGGATT
1975277 T
193 T
1975278 T
1 T
1975279 TGGTCACTGA
Statistics
Matches: 186, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
190 129 0.69
191 4 0.02
192 18 0.10
196 35 0.19
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (193 bp):
TCGCAATGCGAATTGGGAAAATCGCAACGCGAAATTAGAAAATCGCATTGCGATAGTAATAATCG
CGTTGCGAATCTGGAAACTGATTTGCGATAATGGAGATAGCATTGCGAATTAGCGATCGCATTGC
GATTTTGTTGGTCATTTTGGCAAATCCAAAAAGTTGGTTAAAATCGTATATTATATGGGATTT
Found at i:1975984 original size:64 final size:62
Alignment explanation
Indices: 1975911--1976100 Score: 208
Period size: 64 Copynumber: 3.0 Consensus size: 62
1975901 AAATAAATAT
* * *
1975911 AAAATTTAATAATATATAAAATAATTT-ATATGATA-TAAAATTAAATATCTATAATATAATATT
1 AAAAATTAATAAT-T-TAAAAT-ATTTAAAATAATATTAAAATT-AATATCTATAATATAATATT
1975974 A
62 A
*
1975975 AAAAATTAAT-ATTTAAAATATTTAAAAAAATAATATTAAAATTAATATCTATAATATGATATTA
1 AAAAATTAATAATTTAAAATATTT---AAAATAATATTAAAATTAATATCTATAATATAATATTA
**
1976039 AAAAATTAAT-ATTTAATTTATTTAAAAAAGTAATATTAAAATTAATATCTATAATATAATAT
1 AAAAATTAATAATTTAAAATATTT--AAAA-TAATATTAAAATTAATATCTATAATATAATAT
1976101 AATATTAAAA
Statistics
Matches: 113, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
60 4 0.04
61 6 0.05
62 1 0.01
63 8 0.07
64 87 0.77
65 7 0.06
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (62 bp):
AAAAATTAATAATTTAAAATATTTAAAATAATATTAAAATTAATATCTATAATATAATATTA
Found at i:1975996 original size:23 final size:23
Alignment explanation
Indices: 1975968--1976016 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
1975958 TCTATAATAT
*
1975968 AATA-TTAAAAAATTAATATTTAA
1 AATATTTAAAAAAATAATA-TTAA
1975991 AATATTTAAAAAAATAATATTAA
1 AATATTTAAAAAAATAATATTAA
1976014 AAT
1 AAT
1976017 TAATATCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AATATTTAAAAAAATAATATTAA
Found at i:1976010 original size:38 final size:40
Alignment explanation
Indices: 1975966--1976051 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
1975956 TATCTATAAT
1975966 ATAATATTAAAAAATTAATAT-T-TAAAAT-AT-TTAAAAAA
1 ATAATATT--AAAATTAATATCTATAAAATGATATTAAAAAA
*
1976004 ATAATATTAAAATTAATATCTATAATATGATATTAAAAAA
1 ATAATATTAAAATTAATATCTATAAAATGATATTAAAAAA
*
1976044 TTAATATT
1 ATAATATT
1976052 TAATTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 11 0.26
37 1 0.02
38 13 0.31
39 2 0.05
40 15 0.36
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (40 bp):
ATAATATTAAAATTAATATCTATAAAATGATATTAAAAAA
Found at i:1976123 original size:96 final size:96
Alignment explanation
Indices: 1976004--1976194 Score: 330
Period size: 96 Copynumber: 2.0 Consensus size: 96
1975994 ATTTAAAAAA
* * *
1976004 ATAATATTAAAATTAATATCTATAATATGATATTAAAAAATTAATATTTAATTTA-TTTAAAAAA
1 ATAATATTAAAATTAATATCTATAATATAATATTAAAAAATTAATAATTAATCTATTTTAAAAAA
1976068 GTAATATTAAAATTAATATCTATAATATAAT
66 GTAATATTAAAATTAATATCTATAATATAAT
1976099 ATAATATTAAAAATTAATATCTATAATATAATATTAAAAAATTAATAATTAATCTATTTTAAAAA
1 ATAATATT-AAAATTAATATCTATAATATAATATTAAAAAATTAATAATTAATCTATTTTAAAAA
*
1976164 ATTAATATTAAAATTAATATCTATAATATAA
65 AGTAATATTAAAATTAATATCTATAATATAA
1976195 AATTAAATAT
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 8 0.09
96 44 0.49
97 38 0.42
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (96 bp):
ATAATATTAAAATTAATATCTATAATATAATATTAAAAAATTAATAATTAATCTATTTTAAAAAA
GTAATATTAAAATTAATATCTATAATATAAT
Found at i:1976138 original size:27 final size:28
Alignment explanation
Indices: 1975947--1976183 Score: 118
Period size: 26 Copynumber: 8.9 Consensus size: 28
1975937 TATATGATAT
1975947 AAAATTAAATATCTATAATATAATATTAA
1 AAAATT-AATATCTATAATATAATATTAA
*
1975976 AAAATTAATAT-T-TAAAAT-AT-TTAA
1 AAAATTAATATCTATAATATAATATTAA
* * *
1976000 AAAAATAATAT-TAAAAT-TAATATCTAT
1 AAAATTAATATCTATAATATAATAT-TAA
* * * *
1976027 AATA-TGATAT-TAAAAAATTAATATT--
1 AAAATTAATATCTATAATA-TAATATTAA
* * * *
1976052 -TAATT--TATTTAAAAAAGTAATATT--
1 AAAATTAATATCTATAATA-TAATATTAA
1976076 AAAATTAATATCTATAATATAATATAATATTA
1 AAAATTAATATCTATAATATAATAT--TA--A
1976108 AAAATTAATATCTATAATATAATATTAA
1 AAAATTAATATCTATAATATAATATTAA
* * *
1976136 AAAATTAATA-AT-TAATCT-ATTTTAA
1 AAAATTAATATCTATAATATAATATTAA
*
1976161 AAAATTAATAT-TAAAAT-TAATAT
1 AAAATTAATATCTATAATATAATAT
1976184 CTATAATATA
Statistics
Matches: 168, Mismatches: 20, Indels: 43
0.73 0.09 0.19
Matches are distributed among these distances:
23 3 0.02
24 31 0.18
25 29 0.17
26 33 0.20
27 16 0.10
28 23 0.14
29 6 0.04
30 2 0.01
32 25 0.15
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (28 bp):
AAAATTAATATCTATAATATAATATTAA
Found at i:1989196 original size:2 final size:2
Alignment explanation
Indices: 1989189--1989259 Score: 110
Period size: 2 Copynumber: 36.5 Consensus size: 2
1989179 CTCCACGCAC
1989189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1989230 AT AT AT -T AT AT AT AT GT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1989260 AGGCGGGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
1 2 0.03
2 61 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1989483 original size:2 final size:2
Alignment explanation
Indices: 1989476--1989501 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1989466 TCACCCAGAC
1989476 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1989502 CAAACTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1991656 original size:20 final size:20
Alignment explanation
Indices: 1991631--1991669 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1991621 AACTTCCTAT
*
1991631 AACCAGTTCGAGTCAACTCA
1 AACCAGTTCGAGCCAACTCA
*
1991651 AACCAGTTTGAGCCAACTC
1 AACCAGTTCGAGCCAACTC
1991670 GATCGAACCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (20 bp):
AACCAGTTCGAGCCAACTCA
Found at i:1992851 original size:23 final size:23
Alignment explanation
Indices: 1992815--1992865 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
1992805 AAACTATATA
1992815 ATATATA-TACTTTTAAAAAAAC
1 ATATATACTACTTTTAAAAAAAC
* *
1992837 TATATATACTATTTTTAAAACAAC
1 -ATATATACTACTTTTAAAAAAAC
1992861 ATATA
1 ATATA
1992866 CTATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATATACTACTTTTAAAAAAAC
Found at i:1992856 original size:21 final size:22
Alignment explanation
Indices: 1992832--1992887 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
1992822 TACTTTTAAA
1992832 AAAACTATATATACTA-TTTTT
1 AAAACTATATATACTATTTTTT
* *
1992853 AAAACAACATATACTATTTTTT
1 AAAACTATATATACTATTTTTT
*
1992875 TAAACTATATATA
1 AAAACTATATATA
1992888 GTGCAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAACTATATATACTATTTTTT
Found at i:1992878 original size:23 final size:24
Alignment explanation
Indices: 1992815--1992873 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 24
1992805 AAACTATATA
*
1992815 ATATATA-TACTTTTAAAAAAACT
1 ATATATACTATTTTTAAAAAAACT
*
1992838 ATATATACTATTTTTAAAACAAC-
1 ATATATACTATTTTTAAAAAAACT
1992861 --ATATACTATTTTT
1 ATATATACTATTTTT
1992874 TTAAACTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.39
23 7 0.21
24 13 0.39
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATATACTATTTTTAAAAAAACT
Found at i:1993696 original size:13 final size:13
Alignment explanation
Indices: 1993652--1993696 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
1993642 TACCGTTTAT
1993652 ATTAATTATAATC
1 ATTAATTATAATC
1993665 ATTATATTATAAATC
1 ATTA-ATTAT-AATC
1993680 -TTAATTATAATC
1 ATTAATTATAATC
1993692 ATTAA
1 ATTAA
1993697 ATTAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.14
13 13 0.45
14 8 0.28
15 4 0.14
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:1993724 original size:16 final size:18
Alignment explanation
Indices: 1993703--1993735 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1993693 TTAAATTAAT
1993703 TTTATT-AA-ATAATTTA
1 TTTATTGAACATAATTTA
1993719 TTTATTGAACATAATTT
1 TTTATTGAACATAATTT
1993736 TATTAGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTATTGAACATAATTTA
Found at i:1994111 original size:45 final size:45
Alignment explanation
Indices: 1994052--1994139 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
1994042 GAACATCGAA
* * *
1994052 TGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTCAG
1994097 TGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTC
1 TGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTC
1994140 TGGCTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTCAG
Found at i:2000010 original size:21 final size:21
Alignment explanation
Indices: 1999945--2000039 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 21
1999935 TTGTGCTTAA
*
1999945 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
*
1999965 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
1999987 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
2000008 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
2000031 TGCATCGAT
1 TGCATCGAT
2000040 GCACAAGGTC
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 17 0.28
22 13 0.22
23 19 0.32
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:2000033 original size:23 final size:23
Alignment explanation
Indices: 1999964--2000044 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 23
1999954 ACACCTAACA
*
1999964 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
1999986 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
2000007 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
2000030 GTGCATCGATGCACA
1 GTGCATCGATGCACA
2000045 AGGTCATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 10 0.21
23 21 0.45
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:2000035 original size:44 final size:42
Alignment explanation
Indices: 1999945--2000039 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
1999935 TTGTGCTTAA
* *
1999945 TGCATCGATACACCTAACAGTGCATCGATGCATCCTTGAATG
1 TGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAATG
*
1999987 TGCATCGATACACCATGAA-GGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACC-T-AACAGTGCACCGATGCA-GCCTTGAATG
2000031 TGCATCGAT
1 TGCATCGAT
2000040 GCACAAGGTC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 20 0.43
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (42 bp):
TGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAATG
Found at i:2002034 original size:2 final size:2
Alignment explanation
Indices: 2002027--2002052 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2002017 TTTAAACTTA
2002027 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2002053 TTGGTTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2002340 original size:19 final size:19
Alignment explanation
Indices: 2002309--2002355 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
2002299 AAGTGTTTTA
2002309 AAGGGGAGAAGTGTTAAAGT
1 AAGGGG-GAAGTGTTAAAGT
2002329 AAGGGGGAAGTGTTAAAGT
1 AAGGGGGAAGTGTTAAAGT
2002348 AAGGGGGA
1 AAGGGGGA
2002356 GTAATTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.45, T:0.17
Consensus pattern (19 bp):
AAGGGGGAAGTGTTAAAGT
Found at i:2002383 original size:14 final size:13
Alignment explanation
Indices: 2002360--2002392 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2002350 GGGGGAGTAA
*
2002360 TTTCAAATTTTAT
1 TTTCAAAATTTAT
2002373 TTTCAAAATTTAT
1 TTTCAAAATTTAT
2002386 TTTCAAA
1 TTTCAAA
2002393 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTCAAAATTTAT
Found at i:2002795 original size:45 final size:45
Alignment explanation
Indices: 2002746--2002833 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
2002736 GAACATCGAA
* *
2002746 TGCATTTTATGCATCGATGCACATACCATGCATCGATACACTCAG
1 TGCATTTGATGCATCGATGCACAAACCATGCATCGATACACTCAG
*
2002791 TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACTC
1 TGCATTTGATGCATCGATGCACAAACCATGCATCGATACACTC
2002834 TGGCTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
TGCATTTGATGCATCGATGCACAAACCATGCATCGATACACTCAG
Found at i:2003645 original size:21 final size:21
Alignment explanation
Indices: 2003590--2003665 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
2003580 ACTCAACATA
*
2003590 TTATATAAAATTAATTTAAAT
1 TTATATAAAATTAATTTATAT
* * ** *
2003611 ATCTATAAGTTTAATTTATTT
1 TTATATAAAATTAATTTATAT
*
2003632 TTATATAAAATTAATTAATAAT
1 TTATATAAAATTAATTTAT-AT
*
2003654 TTATATATAATT
1 TTATATAAAATT
2003666 TAACTTAAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
21 29 0.71
22 12 0.29
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
TTATATAAAATTAATTTATAT
Found at i:2003673 original size:24 final size:21
Alignment explanation
Indices: 2003590--2003678 Score: 70
Period size: 21 Copynumber: 4.1 Consensus size: 21
2003580 ACTCAACATA
*
2003590 TTATATAAAATTAATTTAAAT
1 TTATATAAAATTAATTAAAAT
* * ** * **
2003611 ATCTATAAGTTTAATTTATTT
1 TTATATAAAATTAATTAAAAT
2003632 TTATATAAAATTAATTAATAAT
1 TTATATAAAATTAATTAA-AAT
*
2003654 TTATATATAATTTAACTTAAAAT
1 TTATATA-AAATTAA-TTAAAAT
2003677 TT
1 TT
2003679 CAAAATATAT
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
21 28 0.55
22 8 0.16
23 11 0.22
24 4 0.08
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (21 bp):
TTATATAAAATTAATTAAAAT
Found at i:2003736 original size:7 final size:7
Alignment explanation
Indices: 2003713--2003765 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
2003703 TACTTGATTG
2003713 AAAA-TT
1 AAAATTT
2003719 AAAATTTT
1 AAAA-TTT
2003727 AAAATTT
1 AAAATTT
2003734 AAACA--T
1 AAA-ATTT
*
2003740 -CAATTT
1 AAAATTT
2003746 AAAATTT
1 AAAATTT
2003753 AAAATTT
1 AAAATTT
2003760 AAAATT
1 AAAATT
2003766 GTTTTATGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
4 1 0.03
5 1 0.03
6 6 0.15
7 24 0.62
8 7 0.18
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:2004159 original size:2 final size:2
Alignment explanation
Indices: 2004152--2004186 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2004142 ATGATATACT
2004152 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2004187 GTACTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2004256 original size:2 final size:2
Alignment explanation
Indices: 2004251--2004300 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
2004241 ATACTTACAT
2004251 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2004292 TA TA T- TA TA
1 TA TA TA TA TA
2004301 CTTATACTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2004266 original size:23 final size:23
Alignment explanation
Indices: 2004236--2004300 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
2004226 TATTAATACT
2004236 TATATATACT-TACATTATATATA
1 TATATATA-TATACATTATATATA
*
2004259 TATATATATATATATTATATATA
1 TATATATATATACATTATATATA
*
2004282 TATATATATATATATTATA
1 TATATATATATACATTATA
2004301 CTTATACTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 1 0.03
23 39 0.98
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATATATATACATTATATATA
Found at i:2004723 original size:10 final size:10
Alignment explanation
Indices: 2004703--2004746 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
2004693 ACACACACTT
2004703 TATACTTATA
1 TATACTTATA
**
2004713 TATTTTTATA
1 TATACTTATA
2004723 TATACTTATA
1 TATACTTATA
*
2004733 TATGCTTATA
1 TATACTTATA
2004743 TATA
1 TATA
2004747 TACATATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (10 bp):
TATACTTATA
Found at i:2004728 original size:20 final size:20
Alignment explanation
Indices: 2004703--2004746 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2004693 ACACACACTT
**
2004703 TATACTTATATATTTTTATA
1 TATACTTATATATGCTTATA
2004723 TATACTTATATATGCTTATA
1 TATACTTATATATGCTTATA
2004743 TATA
1 TATA
2004747 TACATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (20 bp):
TATACTTATATATGCTTATA
Found at i:2004775 original size:19 final size:19
Alignment explanation
Indices: 2004751--2004817 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
2004741 TATATATACA
2004751 TATATTTATAAGTATAATG
1 TATATTTATAAGTATAATG
* * *
2004770 TATATTTTTATGTAT-ATA
1 TATATTTATAAGTATAATG
2004788 TATATATTATAAGTATAATG
1 TATAT-TTATAAGTATAATG
* *
2004808 CATACTTATA
1 TATATTTATA
2004818 TTATATATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 7 0.18
19 26 0.68
20 5 0.13
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (19 bp):
TATATTTATAAGTATAATG
Found at i:2007023 original size:20 final size:20
Alignment explanation
Indices: 2006998--2007065 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
2006988 AAGTATAATG
2006998 TACATTATAATATATATACA
1 TACATTATAATATATATACA
*
2007018 TACATTATATTATCATA-ACA
1 TACATTATAATAT-ATATACA
* * *
2007038 TTCATCAT-ATATATATATA
1 TACATTATAATATATATACA
*
2007057 TATATTATA
1 TACATTATA
2007066 CTTTATATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 21 0.57
21 3 0.08
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
TACATTATAATATATATACA
Found at i:2007087 original size:139 final size:137
Alignment explanation
Indices: 2006812--2007115 Score: 286
Period size: 139 Copynumber: 2.2 Consensus size: 137
2006802 GGACATTACA
* * * * *
2006812 ATATACTTATACAAGTATATACATATAAT-TAATGCATAAGTATAAATGTATAATA-AACAT-TA
1 ATATACTTATATAAGTATATACTTATAATGT-ATGCATAAGTAT-AATGTACATTATAATATATA
* * * * * * * *
2006874 TATATACATGAGTATTATCATGACATTCAT-TATACATAT-TTTAT-TTGTACATTATAAGTATA
64 TACATACATTACTATTATCATAACATTCATATATATATATATATATATTATACTTTAT-A-TAT-
*
2006936 ATGTATACTTATATT
126 A-G-ATAATTATA-T
*
2006951 ATATACTTATATAAGTATATATTTATAATGTATGCATAAGTATAATGTACATTATAATATATATA
1 ATATACTTATATAAGTATATACTTATAATGTATGCATAAGTATAATGTACATTATAATATATATA
2007016 CATACATTA-TATTATCATAACATTCATCATATATATATATATATATTATACTTTATATATAGAT
66 CATACATTACTATTATCATAACATTCAT-ATATATATATATATATATTATACTTTATATATAGAT
2007080 AGATTATAT
130 A-ATTATAT
2007089 ACTTATACTT-TAT-A-TATATACTGTATA
1 A--TATACTTATATAAGTATATACT-TATA
2007116 GTTTGTATTA
Statistics
Matches: 139, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
137 7 0.05
138 19 0.14
139 68 0.49
140 20 0.14
141 11 0.08
142 5 0.04
143 9 0.06
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.43
Consensus pattern (137 bp):
ATATACTTATATAAGTATATACTTATAATGTATGCATAAGTATAATGTACATTATAATATATATA
CATACATTACTATTATCATAACATTCATATATATATATATATATATTATACTTTATATATAGATA
ATTATAT
Found at i:2007144 original size:29 final size:29
Alignment explanation
Indices: 2007044--2007205 Score: 147
Period size: 31 Copynumber: 5.6 Consensus size: 29
2007034 AACATTCATC
2007044 ATATATATATATATAT-A-TTATACTT-T
1 ATATATATATATATATAATTTATACTTAT
* * *
2007070 ATATATAGATAGATTATATACTTATACTT-T
1 ATATATATATATA-TATA-ATTTATACTTAT
* * * *
2007100 ATATATATA-CTGTATAGTTTGTA-TTAT
1 ATATATATATATATATAATTTATACTTAT
2007127 ATATATATATACTATATAATTTATACTTTAT
1 ATATATATATA-TATATAATTTATAC-TTAT
*
2007158 ATATATATATATATATACTTTTATACTTAT
1 ATATATATATATATATA-ATTTATACTTAT
*
2007188 ACTTTATATATATATATA
1 A-TATATATATATATATA
2007206 TATATATATA
Statistics
Matches: 110, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
26 13 0.12
27 17 0.15
28 4 0.04
29 11 0.10
30 28 0.25
31 37 0.34
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (29 bp):
ATATATATATATATATAATTTATACTTAT
Found at i:2007161 original size:33 final size:33
Alignment explanation
Indices: 2007124--2007242 Score: 150
Period size: 33 Copynumber: 3.5 Consensus size: 33
2007114 TAGTTTGTAT
2007124 TATATATATATATACTATATA-ATTTATACTTTA
1 TATATATATATATA-TATATATATTTATACTTTA
*
2007157 TATATATATATATATATACTTTTATACTTATACTTTA
1 TATATATATATATATATA----TATATTTATACTTTA
*
2007194 TATATATATATATATATATATATGTATACTTTA
1 TATATATATATATATATATATATTTATACTTTA
* *
2007227 TACATATTTATATATA
1 TATATATATATATATA
2007243 CACTAATATA
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
32 4 0.05
33 41 0.54
36 2 0.03
37 29 0.38
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (33 bp):
TATATATATATATATATATATATTTATACTTTA
Found at i:2007181 original size:31 final size:30
Alignment explanation
Indices: 2007069--2007242 Score: 127
Period size: 33 Copynumber: 5.3 Consensus size: 30
2007059 TATTATACTT
* *
2007069 TATATATAGATAGATTATATACTTATACTTTATA
1 TATATATATATA-ATT-TATACTT-TA-TATATA
* * *
2007103 TATATACTGTATAGTTTGTA--TTATATATA
1 TATATA-TATATAATTTATACTTTATATATA
2007132 TATATACTATATAATTTATACTTTATATATA
1 TATATA-TATATAATTTATACTTTATATATA
2007163 TATATATATATACTTTTATACTTATACTTTATATATA
1 TATATATATATA-----AT--TTATACTTTATATATA
*
2007200 TATATATATATATATATGTATACTTTATACATA
1 TATATATATATA-AT-T-TATACTTTATATATA
*
2007233 TTTATATATA
1 TATATATATA
2007243 CACTAATATA
Statistics
Matches: 118, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
29 22 0.19
30 8 0.07
31 16 0.14
32 1 0.01
33 29 0.25
34 8 0.07
35 6 0.05
37 28 0.24
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATATATATAATTTATACTTTATATATA
Found at i:2007252 original size:37 final size:35
Alignment explanation
Indices: 2007099--2007258 Score: 157
Period size: 37 Copynumber: 4.5 Consensus size: 35
2007089 ACTTATACTT
* * *
2007099 TATA-TATATACTGTATAGTTTGTATTATATATATA
1 TATACTATATA-TGTATACTTTATAATATATATATA
*
2007134 TATACTATATAATTTATACTTTATATATATATATATA
1 TATACTATAT-ATGTATACTTTATA-ATATATATATA
*
2007171 TATACTTTTATACT-TATACTTTAT-ATATATATATA
1 TATAC-TATATA-TGTATACTTTATAATATATATATA
*
2007206 TATA-TATATATGTATACTTTATACATATTTATATA
1 TATACTATATATGTATACTTTATA-ATATATATATA
* *
2007241 TACACTAATATAAGTATA
1 TATACT-ATATATGTATA
2007259 TACTTATAAT
Statistics
Matches: 106, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
32 1 0.01
33 15 0.14
35 32 0.30
36 16 0.15
37 37 0.35
38 5 0.05
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (35 bp):
TATACTATATATGTATACTTTATAATATATATATA
Found at i:2007260 original size:2 final size:2
Alignment explanation
Indices: 2007044--2007242 Score: 115
Period size: 2 Copynumber: 97.5 Consensus size: 2
2007034 AACATTCATC
* * *
2007044 AT AT AT AT AT AT AT AT AT -T AT ACT TT AT AT AT AG AT AG AT -T
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * * *
2007085 AT AT ACT -T AT ACT TT AT AT AT AT ACT GT AT AGT TT GT AT -T AT
1 AT AT A-T AT AT A-T AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* *
2007127 AT AT AT AT AT ACT AT AT A- AT TT AT ACT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* *
2007170 AT AT ACT -T TT AT ACT -T AT ACT TT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * * *
2007211 AT AT AT GT AT ACT TT AT AC AT AT TT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A
2007243 CACTAATATA
Statistics
Matches: 151, Mismatches: 28, Indels: 36
0.70 0.13 0.17
Matches are distributed among these distances:
1 7 0.05
2 132 0.87
3 12 0.08
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2007611 original size:34 final size:34
Alignment explanation
Indices: 2007562--2007627 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
2007552 TTATTTATAT
* *
2007562 TTTTTGTAATTATTTCGATTTGATCCCTCATCCA
1 TTTTTATAATCATTTCGATTTGATCCCTCATCCA
2007596 TTTTTATAATCATTTCGATTTGATCCCTCATC
1 TTTTTATAATCATTTCGATTTGATCCCTCATC
2007628 AATACATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.08, T:0.50
Consensus pattern (34 bp):
TTTTTATAATCATTTCGATTTGATCCCTCATCCA
Found at i:2013995 original size:21 final size:21
Alignment explanation
Indices: 2013971--2014010 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2013961 GAAGGTTTTC
2013971 GATTTCATTGCGAAAGAGAGT
1 GATTTCATTGCGAAAGAGAGT
* *
2013992 GATTTCCTTGTGAAAGAGA
1 GATTTCATTGCGAAAGAGA
2014011 ACGTCCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (21 bp):
GATTTCATTGCGAAAGAGAGT
Found at i:2014452 original size:36 final size:36
Alignment explanation
Indices: 2014363--2014468 Score: 142
Period size: 35 Copynumber: 3.0 Consensus size: 36
2014353 AAAGGTGAAT
* *
2014363 AAGAAGAACGAAAGGAAGCATCGGCAATCTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
* * *
2014399 AAG-TGAACGGAAGGAAGCATCGGTACTTTCGATTC
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
* *
2014434 AAGAAGAACGAAATGAAGCATCAGCACTTTCGATT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATT
2014469 TAATTGTTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 30 0.51
36 29 0.49
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (36 bp):
AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTC
Found at i:2021536 original size:49 final size:50
Alignment explanation
Indices: 2021475--2021573 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 50
2021465 CGTTTTCTGT
2021475 TTCTTTGAACTCCACGCAACAAGGCATTT-CCAACGAACACACCATAACC
1 TTCTTTGAACTCCACGCAACAAGGCATTTCCCAACGAACACACCATAACC
2021524 TTCTTTGAACTCCACGCAACAAGGCATTTCCCAACGAACACACCATAACC
1 TTCTTTGAACTCCACGCAACAAGGCATTTCCCAACGAACACACCATAACC
2021574 GGAAATTGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 29 0.59
50 20 0.41
ACGTcount: A:0.34, C:0.35, G:0.10, T:0.20
Consensus pattern (50 bp):
TTCTTTGAACTCCACGCAACAAGGCATTTCCCAACGAACACACCATAACC
Found at i:2031797 original size:2 final size:2
Alignment explanation
Indices: 2031782--2032251 Score: 137
Period size: 2 Copynumber: 235.5 Consensus size: 2
2031772 TTAAAACAAT
*
2031782 TA TA -A TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA AA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
2031823 TA -A TA -A TA -A AA TA TA CA TA AA CTA AA CTA TA TA GTA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA -TA TA TA
* * * * *
2031863 AA CTA TA TG TA T- TA TA AA CTA TA TA GA AA CTA TA TA -A TA TA
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
* * * * * * *
2031904 TA AA CTA TG TA -A TT TA TA TT TA TA TA GA GTA CA TA AA CTA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* * * *
2031946 TA TA AA CTA TA TA TA T- TA TG TA TA AA T- TA TA TA TA -A TA TG
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2031986 TA TA AA T- TA TA TA T- TT TA T- TA -A TA TA AA T- TA TG TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2032022 TT TA TA TA TA AA GTA TA TA TA CTA TA TA TA TA AA CTA TA TA AA
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
* * * * * *
2032065 CTA TA TA GTT TA TA TT TA TA CA CTA TG CA TA -A GT- TA TT TA TA
1 -TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA
* * *
2032107 TGC TA TT TA TA TA -A TA TA TA GTT TA TA TA TA TA TA TA TA TA TA
1 T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* *
2032150 TA TA TA TA TA AA CTA TA TA GTT TA T- TA -A TA T- TA -A CTA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
* * *
2032189 GT- TGA -A TA CA TT TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA
1 -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2032231 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2032252 TAGAAATAAT
Statistics
Matches: 332, Mismatches: 85, Indels: 102
0.64 0.16 0.20
Matches are distributed among these distances:
1 26 0.08
2 281 0.85
3 25 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:2031995 original size:31 final size:31
Alignment explanation
Indices: 2031936--2031995 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
2031926 TATAGAGTAC
*
2031936 ATAAACTATATATAAACTATATATATTATGT
1 ATAAACTATATATAAACTATATAAATTATGT
* *
2031967 ATAAATTATATATAATA-TGTATAAATTAT
1 ATAAACTATATATAA-ACTATATAAATTAT
2031996 ATATTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (31 bp):
ATAAACTATATATAAACTATATAAATTATGT
Found at i:2032071 original size:11 final size:11
Alignment explanation
Indices: 2031936--2032062 Score: 81
Period size: 11 Copynumber: 12.1 Consensus size: 11
2031926 TATAGAGTAC
*
2031936 ATAAACTATAT
1 ATAAATTATAT
*
2031947 ATAAACTATAT
1 ATAAATTATAT
*
2031958 AT--ATTATGT
1 ATAAATTATAT
2031967 ATAAATTATAT
1 ATAAATTATAT
*
2031978 AT-AA-TATGT
1 ATAAATTATAT
2031987 ATAAATTATAT
1 ATAAATTATAT
**
2031998 ATTTTATTA-AT
1 A-TAAATTATAT
2032009 ATAAA-T-TAT
1 ATAAATTATAT
* *
2032018 GTAATTTATAT
1 ATAAATTATAT
*
2032029 ATAAAGTATAT
1 ATAAATTATAT
*
2032040 AT-ACTATATAT
1 ATAAAT-TATAT
*
2032051 ATAAACTATAT
1 ATAAATTATAT
2032062 A
1 A
2032063 AACTATATAG
Statistics
Matches: 88, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
9 19 0.22
10 8 0.09
11 55 0.62
12 6 0.07
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
ATAAATTATAT
Found at i:2032314 original size:29 final size:31
Alignment explanation
Indices: 2032254--2032314 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
2032244 ATATATATTA
* * *
2032254 GAAATAATTAAAAATATATAGGGATTATATT
1 GAAAGAATTAAAAATATATAGAGATTAAATT
*
2032285 GAAAGAATTAAAAATATA-A-AGCTTAAATT
1 GAAAGAATTAAAAATATATAGAGATTAAATT
2032314 G
1 G
2032315 CATCATTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 8 0.31
30 1 0.04
31 17 0.65
ACGTcount: A:0.54, C:0.02, G:0.13, T:0.31
Consensus pattern (31 bp):
GAAAGAATTAAAAATATATAGAGATTAAATT
Found at i:2032772 original size:100 final size:100
Alignment explanation
Indices: 2032655--2032948 Score: 376
Period size: 100 Copynumber: 2.9 Consensus size: 100
2032645 ACACCTAAAT
* * * *
2032655 CCAACCTATTTTTCGATCAAACACCCAAACCCTCAACCCTTATTCATATGTGTTCACCCCCAAAC
1 CCAACCTATTTTTCGATCAAACACCCAAACCCTCAACCCTTATTAAT-TATATTCATCCCCAAAC
*
2032720 CCTTGTTTGATCCTTACAAATACCCAAACCCAAAAC
65 CCTTGTTTGATCCTTACAAACACCCAAACCCAAAAC
* * * ***
2032756 CCAACCT-TTTTTCGATCAAAGACCCAAACCCTCAACCCTTGTTAATTCACATTCATCTTTAAAC
1 CCAACCTATTTTTCGATCAAACACCCAAACCCTCAACCCTTATTAATT-ATATTCATCCCCAAAC
* * * * *
2032820 CCTTATTTGATCATTTCAAACACCCAGACCCAAGAC
65 CCTTGTTTGATCCTTACAAACACCCAAACCCAAAAC
* *
2032856 CCAACCTATTTTTCGATCAAACACCTAAACCCTCAACCC-TACTTTATCTATATTCATCCCCAAA
1 CCAACCTATTTTTCGATCAAACACCCAAACCCTCAACCCTTA-TTAAT-TATATTCATCCCCAAA
2032920 CCCTTGTTTGATCCTTACAAACACCCAAA
64 CCCTTGTTTGATCCTTACAAACACCCAAA
2032949 ACACAACCTA
Statistics
Matches: 161, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
99 1 0.01
100 83 0.52
101 76 0.47
102 1 0.01
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.28
Consensus pattern (100 bp):
CCAACCTATTTTTCGATCAAACACCCAAACCCTCAACCCTTATTAATTATATTCATCCCCAAACC
CTTGTTTGATCCTTACAAACACCCAAACCCAAAAC
Found at i:2033048 original size:40 final size:42
Alignment explanation
Indices: 2032999--2033080 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 42
2032989 TTCCAACTTC
* *
2032999 TTCTCTAACCCTAAATCTAA-CAA-AGTATTATTCATCTTTT
1 TTCTCTAACCCTAAACCTAATCAAGACTATTATTCATCTTTT
* *
2033039 TTCTTTAACCCTGAACCTAATCAAGACTATTATTCATCTTTT
1 TTCTCTAACCCTAAACCTAATCAAGACTATTATTCATCTTTT
2033081 GTTCATTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 17 0.47
41 3 0.08
42 16 0.44
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (42 bp):
TTCTCTAACCCTAAACCTAATCAAGACTATTATTCATCTTTT
Found at i:2036307 original size:29 final size:29
Alignment explanation
Indices: 2036275--2036365 Score: 66
Period size: 29 Copynumber: 3.1 Consensus size: 29
2036265 ATTAATTATT
2036275 TTAACTTTTAATGATCATAATTAATTTAA
1 TTAACTTTTAATGATCATAATTAATTTAA
* *
2036304 TTAATCATGTTCAATG-CCAATAAATT-A-TT--
1 TTAA-C-T-TTTAATGATC-AT-AATTAATTTAA
* *
2036333 TTAACTTGTAATGATTATAATTAATTTAA
1 TTAACTTTTAATGATCATAATTAATTTAA
2036362 TTAA
1 TTAA
2036366 TCATGTTCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 20
0.64 0.08 0.28
Matches are distributed among these distances:
25 4 0.09
26 8 0.17
27 3 0.07
28 1 0.02
29 12 0.26
30 1 0.02
31 4 0.09
32 9 0.20
33 4 0.09
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (29 bp):
TTAACTTTTAATGATCATAATTAATTTAA
Found at i:2036346 original size:58 final size:56
Alignment explanation
Indices: 2036236--2036386 Score: 239
Period size: 58 Copynumber: 2.6 Consensus size: 56
2036226 TAAATATTTA
* *
2036236 AATTAATTTTAATTAATCATGTTCAATAAATTAATTATTTTAACTTTTAATGATCAT
1 AATTAA-TTTAATTAATCATGTTCAATAAATAAATTATTTTAACTTGTAATGATCAT
* *
2036293 AATTAATTTAATTAATCATGTTCAATGCCAATAAATTATTTTAACTTGTAATGATTAT
1 AATTAATTTAATTAATCATGTTCAAT--AAATAAATTATTTTAACTTGTAATGATCAT
2036351 AATTAATTTAATTAATCATGTTCAATAAATAAATTA
1 AATTAATTTAATTAATCATGTTCAATAAATAAATTA
2036387 CTTAATAAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
56 29 0.33
57 6 0.07
58 52 0.60
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (56 bp):
AATTAATTTAATTAATCATGTTCAATAAATAAATTATTTTAACTTGTAATGATCAT
Found at i:2044136 original size:20 final size:20
Alignment explanation
Indices: 2044113--2044193 Score: 67
Period size: 20 Copynumber: 3.9 Consensus size: 20
2044103 TTGGTGCAGA
*
2044113 GGGAATCGATACCCCCGTGA-
1 GGGAACCGATACCCCC-TGAG
*
2044133 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC--TG-AG
*
2044156 GGGAACCGATTCCCCCT-AG
1 GGGAACCGATACCCCCTGAG
*
2044175 GGGAATCGATACCCACCTG
1 GGGAACCGATACCC-CCTG
2044194 GGGTTCTGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 14 0.27
20 17 0.33
21 3 0.06
22 1 0.02
23 16 0.31
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.17
Consensus pattern (20 bp):
GGGAACCGATACCCCCTGAG
Found at i:2044178 original size:19 final size:21
Alignment explanation
Indices: 2044133--2044184 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
2044123 ACCCCCGTGA
2044133 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-TT-AAG
2044156 GGGAACCGATTCCCCC-T-AG
1 GGGAACCGATTCCCCCTTAAG
*
2044175 GGGAATCGAT
1 GGGAACCGAT
2044185 ACCCACCTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
21 1 0.04
23 16 0.57
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.19
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTTAAG
Found at i:2044196 original size:19 final size:19
Alignment explanation
Indices: 2044113--2044188 Score: 55
Period size: 23 Copynumber: 3.7 Consensus size: 19
2044103 TTGGTGCAGA
*
2044113 GGGAATCGATACCCCCGT-G
1 GGGAACCGATACCCCC-TAG
*
2044132 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGATACCCCC--T--AG
*
2044156 GGGAACCGATTCCCCCTAG
1 GGGAACCGATACCCCCTAG
*
2044175 GGGAATCGATACCC
1 GGGAACCGATACCC
2044189 ACCTGGGGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 14 0.30
20 14 0.30
21 2 0.04
23 16 0.34
24 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.17
Consensus pattern (19 bp):
GGGAACCGATACCCCCTAG
Found at i:2054791 original size:20 final size:20
Alignment explanation
Indices: 2054754--2054792 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2054744 AATTACAATT
**
2054754 AAATAAAATAAAGTAAATAC
1 AAATAAAATAAAAAAAATAC
*
2054774 AAATATAATAAAAAAAATA
1 AAATAAAATAAAAAAAATA
2054793 TCGATGCATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (20 bp):
AAATAAAATAAAAAAAATAC
Found at i:2056896 original size:17 final size:18
Alignment explanation
Indices: 2056853--2056893 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2056843 GAATTATATT
2056853 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
2056870 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
2056888 ATTAAA
1 AGTAAA
2056894 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:2056954 original size:10 final size:10
Alignment explanation
Indices: 2056935--2056965 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2056925 CTTAAATAGA
*
2056935 GAGAGTATTT
1 GAGAGAATTT
2056945 GAGAGAATTT
1 GAGAGAATTT
2056955 GAGAGAATTT
1 GAGAGAATTT
2056965 G
1 G
2056966 GTGTGATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:2057277 original size:30 final size:29
Alignment explanation
Indices: 2057216--2057277 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
2057206 ACTGCTACGA
* *
2057216 GTGTTAGATCGGGAAATATAATCTGACCG
1 GTGTTAGATCGGGAAATATAACCTAACCG
*
2057245 GTGTTAGATCGGTAAATAT-ACCGATAACCG
1 GTGTTAGATCGGGAAATATAACC--TAACCG
2057275 GTG
1 GTG
2057278 ATTTTTCGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 18 0.64
30 8 0.29
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (29 bp):
GTGTTAGATCGGGAAATATAACCTAACCG
Found at i:2068422 original size:13 final size:13
Alignment explanation
Indices: 2068404--2068428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2068394 CAATAACTCT
2068404 AAATAATTGAAGC
1 AAATAATTGAAGC
2068417 AAATAATTGAAG
1 AAATAATTGAAG
2068429 AAAAGATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (13 bp):
AAATAATTGAAGC
Found at i:2069042 original size:28 final size:26
Alignment explanation
Indices: 2068997--2069050 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 26
2068987 TTTATATTAA
2068997 AGGTAAATTAATTTTTAAAATTTAGG
1 AGGTAAATTAATTTTTAAAATTTAGG
2069023 AGGTAAATTTGAATTTTTAAAATTTAGG
1 AGGTAAA-TT-AATTTTTAAAATTTAGG
2069051 GGACGAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 7 0.27
27 2 0.08
28 17 0.65
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.43
Consensus pattern (26 bp):
AGGTAAATTAATTTTTAAAATTTAGG
Found at i:2069248 original size:2 final size:2
Alignment explanation
Indices: 2069241--2069265 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2069231 AAATATTTGA
2069241 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 A
2069266 AATTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2070476 original size:7 final size:6
Alignment explanation
Indices: 2070467--2070824 Score: 54
Period size: 7 Copynumber: 54.0 Consensus size: 6
2070457 AAATATACAC
*
2070467 TATATT CTATATAT TAT-TT TATATT GTATATT ATAGTATT TATATAG
1 TATATT -TATAT-T TATATT TATATT -TATATT -TA-TATT TATAT-T
* * *
2070514 TATA-T GATATA TA-ATA TATAGTCT TATATAT TATAGTAT TATATAT
1 TATATT TATATT TATATT TATA-T-T TATAT-T TATA-T-T TATAT-T
* * *
2070560 TATA-G TATAGTA TATATC TATTATT ATATATAT TATA-- TAGTATT ATATATT
1 TATATT TATA-TT TATATT TA-TATT -TATAT-T TATATT TA-TATT -TATATT
* *
2070611 ATAGTATT ATATTATT TATATA TATATA TATATAT TATAATAT TATATAT
1 -TA-TATT -TA-TATT TATATT TATATT TATAT-T TAT-AT-T TATAT-T
* * * * * *
2070661 TACAGTA TATATT TATTATT AAATACAT TATAGT TATA-T TATATAT TATAATA
1 TATA-TT TATATT TA-TATT -TATA-TT TATATT TATATT TATAT-T TAT-ATT
* * * *
2070714 TATATA TATATA TATATT TAGT-TA TATATT ATATATT ATAGTATA TATATT
1 TATATT TATATT TATATT TA-TATT TATATT -TATATT -TA-TATT TATATT
2070765 TAGTATTAT TATATT T-TA-- TATATT GTATATAT TAGTATT ATATTATT
1 TA-TA-T-T TATATT TATATT TATATT -TATAT-T TA-TATT -TA-TATT
*
2070812 AATATAT TATATT
1 TATAT-T TATATT
2070825 ATTATTATTA
Statistics
Matches: 275, Mismatches: 32, Indels: 89
0.69 0.08 0.22
Matches are distributed among these distances:
3 1 0.00
4 4 0.01
5 26 0.09
6 64 0.23
7 117 0.43
8 60 0.22
9 3 0.01
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (6 bp):
TATATT
Found at i:2070511 original size:33 final size:33
Alignment explanation
Indices: 2070469--2070843 Score: 187
Period size: 31 Copynumber: 11.7 Consensus size: 33
2070459 ATATACACTA
*
2070469 TATTCTATATATTATTTTATATTGTATATTATAG
1 TATT-TATATATTATTTTATATTATATATTATAG
* * *
2070503 TATTTATATAGTATATGATA-TATA-ATATATAG
1 TATTTATATATTATTTTATATTATATAT-TATAG
*
2070535 T-CTTATATATTA---TAGTATTATATATTATAG
1 TATTTATATATTATTTTA-TATTATATATTATAG
*
2070565 TATAGTATATATCTATTATTATA-TATAT-TATATAG
1 TAT-TTATATAT-TATT-TTATATTATATAT-TATAG
*
2070600 TA-TTATATATTATAGTATTATATTATTTA-TATA-
1 TATTTATATATTAT--T-TTATATTATATATTATAG
* * *
2070633 TATATATATA-TATTATAATATTATATATTACAG
1 TATTTATATATTATT-TTATATTATATATTATAG
*
2070666 TA--TATAT-TTATTATTA-A--ATACATTATAG
1 TATTTATATATTATT-TTATATTATATATTATAG
* * *
2070694 T-TATAT-TA-TATATTATAATATATA-TATA-
1 TATTTATATATTATTTTATATTATATATTATAG
* *
2070722 TATATATAT-TTAGTTATATATTATATATTATAG
1 TATTTATATATTA-TTTTATATTATATATTATAG
* * * *
2070755 TATATATAT-TTAGTAT-TATTATATTTTATA-
1 TATTTATATATTATTTTATATTATATATTATAG
* * *
2070785 TATTGTATATATTAGTATTATATTAT-TAATATAT
1 TATT-TATATATTA-TTTTATATTATATATTATAG
2070819 TATATTAT-TATTATTATTATATTAT
1 TAT-TTATATATTATT-TTATATTAT
2070844 TTTCATTTAT
Statistics
Matches: 270, Mismatches: 32, Indels: 79
0.71 0.08 0.21
Matches are distributed among these distances:
27 3 0.01
28 17 0.06
29 14 0.05
30 21 0.08
31 66 0.24
32 33 0.12
33 61 0.23
34 34 0.13
35 17 0.06
36 2 0.01
37 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (33 bp):
TATTTATATATTATTTTATATTATATATTATAG
Found at i:2070525 original size:2 final size:2
Alignment explanation
Indices: 2070493--2070823 Score: 160
Period size: 2 Copynumber: 176.5 Consensus size: 2
2070483 TTTTATATTG
*
2070493 TA TA T- TA TA GTA TT TA TA TA GTA TA TGA TA TA TA -A TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA TA
*
2070534 GTC T- TA TA TA T- TA TA GTA T- TA TA TA T- TA TA GTA TA GTA TA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA -TA TA
*
2070574 TA TC TA T- TA T- TA TA TA TA T- TA TA TA GTA T- 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
*
2070612 TA GTA T- TA TA T- TA TT TA TA TA TA TA TA TA TA TA T- TA TA -A
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2070651 TA T- TA TA TA T- TA CA GTA TA TA TT TA T- TA T- TA AA TA CA T-
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
2070689 TA TA GT- TA TA T- TA TA TA T- TA TA -A 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 TA
* *
2070728 TA TT TA GT- TA TA TA T- TA TA TA T- TA TA GTA TA TA TA TT TA GTA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* *
2070770 T- TA T- TA TA T- TT TA TA TA T- TG TA TA TA T- TA GTA 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
2070807 T- TA T- TA -A TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2070824 TATTATTATT
Statistics
Matches: 256, Mismatches: 21, Indels: 104
0.67 0.06 0.27
Matches are distributed among these distances:
1 37 0.14
2 193 0.75
3 26 0.10
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2070606 original size:65 final size:62
Alignment explanation
Indices: 2070488--2070843 Score: 321
Period size: 62 Copynumber: 5.7 Consensus size: 62
2070478 TATTATTTTA
* * * * *
2070488 TATTGTATATTATAGTAT-TTATATAGTATATGATATATAATATATAGTCTTATATATTATAG
1 TATTATATATTATAGTATATTATATATTATATTATATATATTATATA-TATTATATATTATAG
*
2070550 TATTATATATTATAGTATAGTATATATCTATTATTATATATATTATATAGTATTATATATTATAG
1 TATTATATATTATAGTATATTATATAT-TA-TATTATATATATTATATA-TATTATATATTATAG
*
2070615 TATTATATTATT-TA-TATA-TATATATATATATTATA-ATATTATATATTACAGTATATATT-T
1 TATTATA-TATTATAGTATATTATATAT-TATATTATATATATTATATA-T--ATTATATATTAT
*
2070675 AT
61 AG
* * *
2070677 TATTAAATACATTATAGTTATATTATATATTATAATATATATATATATATATATT-TA-GTTATA
1 TATT--ATATATTATAG-TATATTATATATTATATTATATATAT-TATATATATTATATATTATA
2070740 -
62 G
* *
2070740 TATTATATATTATAGTATA-TATAT-TTAGTATTAT-TATATTTTATATATTGTATA-TATTAG
1 TATTATATATTATAGTATATTATATATTA-TATTATATATATTATATATATTATATATTA-TAG
2070800 TATTATATTATTA-A-TATATTATATTATTATTATTAT-TATATTAT
1 TATTATA-TATTATAGTATATTATA-TATTA-TATTATATATATTAT
2070844 TTTCATTTAT
Statistics
Matches: 250, Mismatches: 20, Indels: 48
0.79 0.06 0.15
Matches are distributed among these distances:
57 9 0.04
58 12 0.05
59 16 0.06
60 16 0.06
61 27 0.11
62 46 0.18
63 33 0.13
64 15 0.06
65 42 0.17
66 16 0.06
67 12 0.05
68 6 0.02
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (62 bp):
TATTATATATTATAGTATATTATATATTATATTATATATATTATATATATTATATATTATAG
Found at i:2070630 original size:43 final size:42
Alignment explanation
Indices: 2070474--2070853 Score: 208
Period size: 43 Copynumber: 8.9 Consensus size: 42
2070464 CACTATATTC
* * *
2070474 TATATATTATTTTATATTGTA-TATTATAGTATTTATATAGTA-
1 TATATA-TATTATATATTATAGTATTATATTATTTATATA-TAT
* *
2070516 TATGATATA-TA-ATA-TATAGTCTTATATATTATAGTATTATATAT
1 TAT-ATATATTATATATTATAGT-AT-TATATTAT-TTA-TATATAT
*
2070560 TATAGTATAGTATATATCTAT--TATTATA-TATATTATATAGTA-
1 TATA-TATATTATATAT-TATAGTATTATATTAT-TTATATA-TAT
* *
2070602 T-TATATATTATAGTATTATATTATTTATATATATATATATATAT
1 TATATATATTATA-TATTATAGTA-TTATAT-TATTTATATATAT
* * *
2070646 TATA-ATATTATATATTACAGTA-TATATTTATTATTAAATACAT
1 TATATATATTATATATTATAGTATTATA-TTA-T-TTATATATAT
* *
2070689 TATAGTTATATTATATATTATAATA-TATA-TATATATATATATT
1 TATA--TATATTATATATTATAGTATTATATTATTTATATATA-T
2070732 TAGTTATATATTATATATTATAGTATATATATTTAGTATTAT-TATAT
1 TA--TATATATTATATATTATAGTAT-TATA-TTA-T-TTATATATAT
* *
2070779 TTTATATATTGTATA-TATTAGTATTATATTA-TTA-ATATAT
1 TATATATATTATATATTA-TAGTATTATATTATTTATATATAT
*
2070819 TATAT-TATTAT-TATTATTA-TATTATTTTCATTTAT
1 TATATATATTATATATTA-TAGTATTATATT-ATTTAT
2070854 TTATTTAATT
Statistics
Matches: 270, Mismatches: 26, Indels: 85
0.71 0.07 0.22
Matches are distributed among these distances:
38 10 0.04
39 14 0.05
40 30 0.11
41 13 0.05
42 27 0.10
43 67 0.25
44 38 0.14
45 32 0.12
46 24 0.09
47 4 0.01
48 8 0.03
49 3 0.01
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (42 bp):
TATATATATTATATATTATAGTATTATATTATTTATATATAT
Found at i:2070639 original size:142 final size:140
Alignment explanation
Indices: 2070474--2070831 Score: 346
Period size: 140 Copynumber: 2.5 Consensus size: 140
2070464 CACTATATTC
* *
2070474 TATATATTATTT-TATATTGTATATTATAGTATTTATATAGTATATGATATATAATATATAGTCT
1 TATATATTATTTATATATTATATATTATA-TATTTATATATTATAT-ATATATAATATATA-T-T
* *
2070538 TATATATT-ATAGTATTATATATTATAGTATAGTA-TAT-ATCTAT-TAT-TATATATA-TTA-T
62 TAT-TATTAATA-CATTATA-ATTATAGTATA-TATTATAATATATATATATATATATATTTAGT
2070596 ATAGTATTATATATTATAG
123 ATA-TATTATATATTATAG
* *
2070615 TATTATATTATTTATATA-TATATA-TATATA-TTATAATATTATATAT-TACAGTATATATTTA
1 TA-TATATTATTTATATATTATATATTATATATTTAT-ATATTATATATATATAATATATATTTA
* *
2070676 TTATTAAATACATTATAGTTATATTATATATTATAATATATATATATATATATATTTAGTTATAT
64 TTATT-AATACATTATAATTATAGTATATATTATAATATATATATATATATATATTTAG-TATAT
2070741 ATTATATATTATAG
127 ATTATATATTATAG
*
2070755 TATATA-TATTTAGTATTATTATATTTTATATATTGTATATATTAGTATTATATTATTAATATAT
1 TATATATTATTTA-TA-TATTATATATTATATATT-TATATATTA-TA-TATA-TA-TAATATA-
2070819 TATATTATTATTA
58 TAT-TTATTATTA
2070832 TTATTATATT
Statistics
Matches: 181, Mismatches: 11, Indels: 42
0.77 0.05 0.18
Matches are distributed among these distances:
134 2 0.01
135 16 0.09
136 15 0.08
137 7 0.04
138 23 0.13
139 15 0.08
140 29 0.16
141 15 0.08
142 21 0.12
143 11 0.06
144 5 0.03
145 3 0.02
147 2 0.01
148 5 0.03
149 4 0.02
150 8 0.04
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (140 bp):
TATATATTATTTATATATTATATATTATATATTTATATATTATATATATATAATATATATTTATT
ATTAATACATTATAATTATAGTATATATTATAATATATATATATATATATATTTAGTATATATTA
TATATTATAG
Found at i:2070776 original size:3 final size:3
Alignment explanation
Indices: 2070768--2070844 Score: 60
Period size: 3 Copynumber: 27.3 Consensus size: 3
2070758 ATATATTTAG
* *
2070768 TAT TAT TA- TAT T-T TAT ATAT T-G TAT ATAT TAG TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT
*
2070811 TAA TA- TAT TA- TAT TAT TAT TAT TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2070845 TTCATTTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
2 13 0.22
3 41 0.68
4 6 0.10
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2070792 original size:22 final size:22
Alignment explanation
Indices: 2070481--2070844 Score: 148
Period size: 23 Copynumber: 16.0 Consensus size: 22
2070471 TTCTATATAT
2070481 TATTTTATAT-TGTATATTA-TA
1 TATTTTATATAT-TATATTATTA
* *
2070502 GTA-TTTATATAGTATATGATATA
1 -TATTTTATATATTATATTAT-TA
* * *
2070525 TAATATATAGTCTTATA-TATTA
1 TATTTTATA-TATTATATTATTA
* *
2070547 TAGTATTATATATTATAGTATAGTA
1 TA-TTTTATATATTATA-T-TATTA
*
2070572 TATATCTAT-TATTATATATATTA
1 TAT-TTTATATATTATAT-TATTA
*
2070595 TATAGTATTATATATTATAGTATTA
1 TAT--T-TTATATATTATATTATTA
2070620 TATTATT-TATA-TATA-TATATA
1 TATT-TTATATATTATATTAT-TA
*
2070641 TATATTATAATATTATA-TATTA
1 TATTTTAT-ATATTATATTATTA
* * * *
2070663 CAGTATATAT-TTATTATTAAATA
1 TATTTTATATATTA-TATT-ATTA
* *
2070686 CATTATAGTTATATTATA-TATTA
1 TATTTTA--TATATTATATTATTA
* *
2070709 TAATATATATATATATATATATT-
1 TATTTTATATAT-TATAT-TATTA
*
2070732 TA-GTTATATATTATA-TATTA
1 TATTTTATATATTATATTATTA
* *
2070752 TAGTATATATATTTAGTATTATTA
1 TATTTTATATA-TTA-TATTATTA
*
2070776 TATTTTATATATTGTATATATTA
1 TATTTTATATATTATAT-TATTA
*
2070799 GTATTATAT-TATTA-ATATATTA
1 -TATTTTATATATTATAT-TATTA
2070821 TATTATTATTATTATTATATTATT
1 TATT-TTA-TA-TATTATATTATT
2070845 TTCATTTATT
Statistics
Matches: 267, Mismatches: 37, Indels: 73
0.71 0.10 0.19
Matches are distributed among these distances:
19 4 0.01
20 10 0.04
21 46 0.17
22 55 0.21
23 66 0.25
24 40 0.15
25 34 0.13
26 12 0.04
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (22 bp):
TATTTTATATATTATATTATTA
Found at i:2070844 original size:33 final size:33
Alignment explanation
Indices: 2070581--2070844 Score: 164
Period size: 33 Copynumber: 7.9 Consensus size: 33
2070571 ATATATCTAT
*
2070581 TATTATATATATTATATAGTATTATA-TATT-ATA
1 TATTATAT-TATTAT-TATTATTATATTATTAATA
2070614 GTATTATATTATT-TATATATATATATATATATT-ATAA
1 -TATTATATTATTAT-TAT-TAT-TATAT-TATTAAT-A
*
2070651 TATTATA-TATTACAGTATATATT-TATTATTAAATA
1 TATTATATTATT--ATTAT-TATTATATTATT-AATA
* *
2070686 CATTATAGTTA-TATTATATATTATAATATATATATA
1 TATTATA-TTATTATTAT-TATTATATTAT-TA-ATA
*
2070722 TATATATATTTAGTTATATATTA-TATATTA-TAGTA
1 TAT-TATA-TTA-TTAT-TATTATTATATTATTAATA
*
2070757 TA-TATA-T-TTAGTATTATTATATT-TT-ATA
1 TATTATATTATTATTATTATTATATTATTAATA
* *
2070785 TATTGTA-TA-TATTAGTATTATATTATTAATA
1 TATTATATTATTATTATTATTATATTATTAATA
2070816 TATTATATTATTATTATTATTATATTATT
1 TATTATATTATTATTATTATTATATTATT
2070845 TTCATTTATT
Statistics
Matches: 187, Mismatches: 16, Indels: 55
0.72 0.06 0.21
Matches are distributed among these distances:
28 9 0.05
29 27 0.14
30 2 0.01
31 10 0.05
32 6 0.03
33 28 0.15
34 25 0.13
35 24 0.13
36 25 0.13
37 17 0.09
38 6 0.03
39 5 0.03
40 3 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (33 bp):
TATTATATTATTATTATTATTATATTATTAATA
Found at i:2071628 original size:28 final size:25
Alignment explanation
Indices: 2071573--2071637 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 25
2071563 ATTTAGTCCT
*
2071573 TTTTATTT-TTTAAACTTTTTCTTC
1 TTTTATTTATTTAAACTTTTTATTC
*
2071597 TTTTATTTATTTAATATTTATTTATTC
1 TTTTATTTATTTAA-ACTT-TTTATTC
2071624 ATTTTATTTCATTT
1 -TTTTATTT-ATTT
2071638 TACAGTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 8 0.24
25 5 0.15
26 3 0.09
27 6 0.18
28 8 0.24
29 4 0.12
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATTTATTTAAACTTTTTATTC
Found at i:2078975 original size:17 final size:18
Alignment explanation
Indices: 2078933--2078975 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2078923 AATATAACAT
2078933 TTTTATTTATATATATTAG
1 TTTT-TTTATATATATTAG
* *
2078952 TTATTTTATTTAT-TTAG
1 TTTTTTTATATATATTAG
2078969 TTTTTTT
1 TTTTTTT
2078976 TGTTTCTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 8 0.38
19 3 0.14
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTTTTATATATATTAG
Found at i:2078998 original size:89 final size:91
Alignment explanation
Indices: 2078899--2079067 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 91
2078889 TAATTTACGT
*
2078899 TTTAATTATTTT-TTATATTTATT-TAATATAACATTTTTATTTATATATAT-TAGT-TAT-TTT
1 TTTAATTATTTTATT-TATTTATTGT-ATACAACATTTTTATTTATATATATATA-TATATATTT
2078959 ATTTATTTAGTTT-TTTTTGTTTCTCTTTA
63 ATTTATTTA-TTTATTTTTGTTTCTCTTTA
* * * *
2078988 TTTATTTATTTTATTTTTTTATTGTTTCCAACATTTTTATTTATATATATATATATATATTTATT
1 TTTAATTATTTTATTTATTTATTGTATACAACATTTTTATTTATATATATATATATATATTTATT
2079053 TATTTATTTATTTTT
66 TATTTATTTATTTTT
2079068 ATTTTTTATT
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
89 41 0.59
90 11 0.16
91 17 0.25
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (91 bp):
TTTAATTATTTTATTTATTTATTGTATACAACATTTTTATTTATATATATATATATATATTTATT
TATTTATTTATTTTTGTTTCTCTTTA
Found at i:2079002 original size:13 final size:13
Alignment explanation
Indices: 2078934--2079010 Score: 66
Period size: 13 Copynumber: 5.8 Consensus size: 13
2078924 ATATAACATT
*
2078934 TTTATTTA-TATA
1 TTTATTTATTTTA
*
2078946 TATTAGTTATTTTA
1 T-TTATTTATTTTA
*
2078960 TTTATTTAGTTTTT
1 TTTATTTA-TTTTA
* *
2078974 TTTGTTTCTCTTTA
1 TTTATTTAT-TTTA
2078988 TTTATTTATTTTA
1 TTTATTTATTTTA
*
2079001 TTTTTTTATT
1 TTTATTTATT
2079011 GTTTCCAACA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
12 1 0.02
13 26 0.51
14 24 0.47
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:2079052 original size:4 final size:4
Alignment explanation
Indices: 2079023--2079081 Score: 54
Period size: 4 Copynumber: 15.8 Consensus size: 4
2079013 TTCCAACATT
* * * *
2079023 TTTA TTTA TATA TATA TATA TATA TTTA TTTA TTTA TTTA -TT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
2079069 TTT- TTTA -TTA TTT
1 TTTA TTTA TTTA TTT
2079082 TTCTTTACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
3 10 0.20
4 39 0.80
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:2079077 original size:13 final size:14
Alignment explanation
Indices: 2078934--2079077 Score: 63
Period size: 13 Copynumber: 10.7 Consensus size: 14
2078924 ATATAACATT
* *
2078934 TTTATTTATATATA
1 TTTATTTATTTTTA
*
2078948 -TTAGTTA-TTTTA
1 TTTATTTATTTTTA
2078960 TTTATTTAGTTTTT-
1 TTTATTTA-TTTTTA
* * *
2078974 TTTGTTTCTCTTTA
1 TTTATTTATTTTTA
2078988 TTTATTTA-TTTTA
1 TTTATTTATTTTTA
* *
2079001 TTTTTTTATTGTT-
1 TTTATTTATTTTTA
** **
2079014 TCCA-ACATTTTTA
1 TTTATTTATTTTTA
* *
2079027 TTTATATATATATATA
1 TTTAT-T-TATTTTTA
*
2079043 TATATTTA--TTTA
1 TTTATTTATTTTTA
2079055 TTTATTTATTTTTA
1 TTTATTTATTTTTA
2079069 TTT-TTTATT
1 TTTATTTATT
2079078 ATTTTTCTTT
Statistics
Matches: 92, Mismatches: 27, Indels: 23
0.65 0.19 0.16
Matches are distributed among these distances:
12 18 0.20
13 36 0.39
14 24 0.26
15 5 0.05
16 9 0.10
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:2079320 original size:20 final size:20
Alignment explanation
Indices: 2079274--2079320 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2079264 ATTTGCTTTG
*
2079274 TTTTATTTATTTTATTTATC
1 TTTTTTTTATTTTATTTATC
*
2079294 TTGTTTTTATTTT-TATTAT-
1 TTTTTTTTATTTTAT-TTATC
2079313 TTTTTTTT
1 TTTTTTTT
2079321 CTCTTTAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTTTTATTTTATTTATC
Found at i:2089775 original size:6 final size:6
Alignment explanation
Indices: 2089764--2089815 Score: 79
Period size: 6 Copynumber: 8.7 Consensus size: 6
2089754 TCTAAATTGA
*
2089764 AAAAAG AAAAAG AAAAAA AAAAAG AAAAAAG AAAAAG AAAAAG -AAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG
2089812 AAAA
1 AAAA
2089816 TAAGGTGGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 5 0.12
6 31 0.74
7 6 0.14
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2089785 original size:12 final size:13
Alignment explanation
Indices: 2089762--2089815 Score: 87
Period size: 12 Copynumber: 4.4 Consensus size: 13
2089752 GCTCTAAATT
2089762 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
2089775 GAAAAAA-AAAAA
1 GAAAAAAGAAAAA
2089787 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
2089800 G-AAAAAG-AAAA
1 GAAAAAAGAAAAA
2089811 GAAAA
1 GAAAA
2089816 TAAGGTGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.13
12 21 0.54
13 13 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:2091468 original size:21 final size:21
Alignment explanation
Indices: 2091438--2091479 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2091428 TTATGTATCA
2091438 CATATATTACACATTTATAAT
1 CATATATTACACATTTATAAT
* *
2091459 CATATGTTACATATTTATAAT
1 CATATATTACACATTTATAAT
2091480 ATTTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (21 bp):
CATATATTACACATTTATAAT
Found at i:2092644 original size:22 final size:22
Alignment explanation
Indices: 2092616--2092720 Score: 61
Period size: 22 Copynumber: 4.6 Consensus size: 22
2092606 CTTAATTTAC
2092616 ATTTAATTATTTTTTTATATTT
1 ATTTAATTATTTTTTTATATTT
***
2092638 ATTTAATTTAACATTTT-TATTT
1 ATTTAA-TTATTTTTTTATATTT
*
2092660 ATTTATATATATATATTAGTTAT-TTT
1 ATTTA-AT-TAT-T-TT-TTTATATTT
* * *
2092686 ATTTATTTGTTTTTTTCTATTT
1 ATTTAATTATTTTTTTATATTT
* *
2092708 TTTTTATTATTTT
1 ATTTAATTATTTT
2092721 CCAACATTTT
Statistics
Matches: 60, Mismatches: 15, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
21 3 0.05
22 31 0.52
23 11 0.18
24 2 0.03
25 2 0.03
26 10 0.17
27 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
ATTTAATTATTTTTTTATATTT
Found at i:2092790 original size:76 final size:76
Alignment explanation
Indices: 2092647--2092790 Score: 170
Period size: 76 Copynumber: 1.9 Consensus size: 76
2092637 TATTTAATTT
* * ** *
2092647 AACATTTTTATTTATTTATATATATATATTAGTTATTTTATTTATTTGTTTTTTTCTATTTTTTT
1 AACATTTTTATTTATTTATATATATATATTAGTTATTTTATTTATTTGTTCTTTACTACGTTATT
2092712 TATTATTTTCC
66 TATTATTTTCC
*
2092723 AACATTTTTATTTATATGTATATATATATA-TA-TTTTTTTA-TTATTT-TTCTTTACATAACGT
1 AACATTTTTATTTAT-T-TATATATATATATTAGTTATTTTATTTATTTGTTCTTTAC-T-ACGT
2092784 TATTTAT
62 TATTTAT
2092791 ATATATTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
74 6 0.10
75 7 0.12
76 30 0.52
77 3 0.05
78 12 0.21
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (76 bp):
AACATTTTTATTTATTTATATATATATATTAGTTATTTTATTTATTTGTTCTTTACTACGTTATT
TATTATTTTCC
Found at i:2092826 original size:25 final size:23
Alignment explanation
Indices: 2092787--2092836 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
2092777 ATAACGTTAT
2092787 TTATATATATTTTTTATT-TTTTA
1 TTATATATATTTTTT-TTATTTTA
2092810 TTATATATATTAATTTTTTATTTTA
1 TTATATATATT--TTTTTTATTTTA
2092835 TT
1 TT
2092837 TAATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 11 0.46
24 2 0.08
25 11 0.46
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATATATATTTTTTTTATTTTA
Found at i:2092845 original size:20 final size:19
Alignment explanation
Indices: 2092786--2092846 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
2092776 CATAACGTTA
* *
2092786 TTTATATATATTTTTTATTT
1 TTTAT-TATATATATTATTT
2092806 TTTATTATATATATTAATTT
1 TTTATTATATATATT-ATTT
* *
2092826 TTTATTTTATTTAATTATTT
1 TTTATTATATAT-ATTATTT
2092846 T
1 T
2092847 CCCCTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 8 0.23
20 24 0.69
21 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTATATATATTATTT
Found at i:2094534 original size:23 final size:23
Alignment explanation
Indices: 2094486--2094534 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
2094476 ACAAAAATTC
*
2094486 AGAGAGAAGAAGAGAGGGAAAGA
1 AGAGAGAAGAAGAGAGGGAAAAA
2094509 AGAGAG-A-AAGAGAGGTGACAAAA
1 AGAGAGAAGAAGAGAGG-GA-AAAA
2094532 AGA
1 AGA
2094535 CCGAATTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 8 0.35
22 3 0.13
23 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.39, T:0.02
Consensus pattern (23 bp):
AGAGAGAAGAAGAGAGGGAAAAA
Found at i:2097979 original size:72 final size:74
Alignment explanation
Indices: 2097855--2098006 Score: 272
Period size: 72 Copynumber: 2.1 Consensus size: 74
2097845 AATGCATCAA
*
2097855 CAACAACTAGCTATGCTAGCACAACAACAGTCCCTTCTCATGGCTGCTGCAGCTAAATCTGCTCC
1 CAACAACTAGCTATGCTAG-ACAACAACAGTCCCTTCTCATGGCTGCGGCAGCTAAATCTGCTCC
2097920 CGGAAATACT
65 CGGAAATACT
2097930 CAACAACTAGCTATGCTAG-C-ACAACAGTCCCTTCTCATGGCTGCGGCAGCTAAATCTGCTCCC
1 CAACAACTAGCTATGCTAGACAACAACAGTCCCTTCTCATGGCTGCGGCAGCTAAATCTGCTCCC
2097993 GGAAATACT
66 GGAAATACT
2098002 CAACA
1 CAACA
2098007 GCCTCCGGCT
Statistics
Matches: 76, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
72 56 0.74
73 1 0.01
75 19 0.25
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (74 bp):
CAACAACTAGCTATGCTAGACAACAACAGTCCCTTCTCATGGCTGCGGCAGCTAAATCTGCTCCC
GGAAATACT
Found at i:2101551 original size:19 final size:19
Alignment explanation
Indices: 2101527--2101564 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2101517 TGATTTATTA
2101527 TTTTATTAGGAATTAAGAT
1 TTTTATTAGGAATTAAGAT
2101546 TTTTATTAGGAATTAAGAT
1 TTTTATTAGGAATTAAGAT
2101565 CGAGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
TTTTATTAGGAATTAAGAT
Found at i:2103803 original size:19 final size:19
Alignment explanation
Indices: 2103776--2103814 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2103766 ATCTTCGAAT
*
2103776 ATAATTTGTGTACCGATAC
1 ATAAGTTGTGTACCGATAC
*
2103795 ATAAGTTGTGTATCGATAC
1 ATAAGTTGTGTACCGATAC
2103814 A
1 A
2103815 CCAGTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (19 bp):
ATAAGTTGTGTACCGATAC
Found at i:2104394 original size:22 final size:22
Alignment explanation
Indices: 2104342--2104397 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
2104332 AGTCGAGGGT
*
2104342 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCGGGACAAA
* * *
2104364 TATAGAGGTCCTTCGGGATAAA
1 TACATAGGTCCTTCGGGACAAA
2104386 TACATAGGTCCT
1 TACATAGGTCCT
2104398 CCTGGACAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (22 bp):
TACATAGGTCCTTCGGGACAAA
Found at i:2110538 original size:19 final size:19
Alignment explanation
Indices: 2110511--2110547 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2110501 ATCTTCGAAT
*
2110511 ATAATTTGTGTACCGATAC
1 ATAAGTTGTGTACCGATAC
*
2110530 ATAAGTTGTGTATCGATA
1 ATAAGTTGTGTACCGATA
2110548 TACCATTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
ATAAGTTGTGTACCGATAC
Found at i:2111114 original size:12 final size:12
Alignment explanation
Indices: 2111097--2111121 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2111087 GAGATTGAGG
2111097 TTCAACCTGAAT
1 TTCAACCTGAAT
2111109 TTCAACCTGAAT
1 TTCAACCTGAAT
2111121 T
1 T
2111122 GACTTATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (12 bp):
TTCAACCTGAAT
Found at i:2112147 original size:62 final size:63
Alignment explanation
Indices: 2112072--2112201 Score: 156
Period size: 63 Copynumber: 2.1 Consensus size: 63
2112062 CAACAGGTAC
* * *
2112072 CGATACCCTCTTG-AACGAAAAATC-TCAAATATAATAAGTGTATCGATACATATGCAGTGTAT
1 CGATACCCCCTTGAAACG-AAAATCTTCAAATATAATAAGTGTACCGATACATAAGCAGTGTAT
* * ** **
2112134 CGATACCCCCTTGAAATGAAAATCTTCGAATATAATTTGTGTACCGATACATAAGTTGTGTAT
1 CGATACCCCCTTGAAACGAAAATCTTCAAATATAATAAGTGTACCGATACATAAGCAGTGTAT
2112197 CGATA
1 CGATA
2112202 TACTAGTGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 18 0.32
63 39 0.68
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (63 bp):
CGATACCCCCTTGAAACGAAAATCTTCAAATATAATAAGTGTACCGATACATAAGCAGTGTAT
Found at i:2112192 original size:19 final size:19
Alignment explanation
Indices: 2112165--2112201 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2112155 ATCTTCGAAT
*
2112165 ATAATTTGTGTACCGATAC
1 ATAAGTTGTGTACCGATAC
*
2112184 ATAAGTTGTGTATCGATA
1 ATAAGTTGTGTACCGATA
2112202 TACTAGTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
ATAAGTTGTGTACCGATAC
Found at i:2113794 original size:63 final size:63
Alignment explanation
Indices: 2113718--2113849 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
2113708 CAACAGATAC
* * *
2113718 CGATACCCTCTTG-AACGAAAAATCATCGAATATAATAAGTGTATCGATTCATATGCAGTGTAT
1 CGATACCCCCTTGAAACG-AAAATCATCGAATATAATAAGTGTACCGATACATATGCAGTGTAT
* * * ** *
2113781 CGATACCCCCTTGAAATGAAAATCTTCGAATGTAATTTGTGTACCGATACATATGCTGTGTAT
1 CGATACCCCCTTGAAACGAAAATCATCGAATATAATAAGTGTACCGATACATATGCAGTGTAT
*
2113844 CAATAC
1 CGATAC
2113850 ACCAGTGAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 55 0.95
64 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (63 bp):
CGATACCCCCTTGAAACGAAAATCATCGAATATAATAAGTGTACCGATACATATGCAGTGTAT
Found at i:2114425 original size:22 final size:22
Alignment explanation
Indices: 2114400--2114445 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2114390 TTCAGGATAT
2114400 ATACAGAGGTCATTCGGGACAA
1 ATACAGAGGTCATTCGGGACAA
*
2114422 ATACATAGGTCATTCGGGACAA
1 ATACAGAGGTCATTCGGGACAA
2114444 AT
1 AT
2114446 TTCACATGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (22 bp):
ATACAGAGGTCATTCGGGACAA
Found at i:2120739 original size:20 final size:20
Alignment explanation
Indices: 2120714--2120754 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2120704 ATCTCCTAAA
* * *
2120714 CTTGCAATCATCATTAAAAT
1 CTTGCAAACAACATCAAAAT
2120734 CTTGCAAACAACATCAAAAT
1 CTTGCAAACAACATCAAAAT
2120754 C
1 C
2120755 CACTCAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (20 bp):
CTTGCAAACAACATCAAAAT
Done.