Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 70 of 444
Found at i:16583171 original size:12 final size:13
Alignment explanation
Indices: 16583135--16583171 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
16583125 TAAAAAAAGT
*
16583135 TGAAGAAAT-AAA
1 TGAATAAATAAAA
16583147 TGAATAAATAAAA
1 TGAATAAATAAAA
16583160 T-AATAAATAAAA
1 TGAATAAATAAAA
16583172 CAGTTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (13 bp):
TGAATAAATAAAA
Found at i:16583275 original size:3 final size:3
Alignment explanation
Indices: 16583267--16583317 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
16583257 TACATAAACA
*
16583267 AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AGAT AA- AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
16583311 AAT AAT A
1 AAT AAT A
16583318 GTGAGAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16583346 original size:17 final size:16
Alignment explanation
Indices: 16583324--16583366 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
16583314 AATAGTGAGA
16583324 AGAAAAAAGAAAAAAAC
1 AGAAAAAA-AAAAAAAC
16583341 AGAAAAATAAAAAAAAC
1 AGAAAAA-AAAAAAAAC
16583358 A-AAAAAAAA
1 AGAAAAAAAA
16583367 CCAATAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.12
16 5 0.20
17 16 0.64
18 1 0.04
ACGTcount: A:0.86, C:0.05, G:0.07, T:0.02
Consensus pattern (16 bp):
AGAAAAAAAAAAAAAC
Found at i:16583500 original size:21 final size:22
Alignment explanation
Indices: 16583476--16583516 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16583466 AAAAATCATT
*
16583476 ATAAAATAAA-TAAATTAAACA
1 ATAAAATAAAGTAAAGTAAACA
16583497 ATAAAATAAAGTAAAGTAAA
1 ATAAAATAAAGTAAAGTAAA
16583517 GGATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (22 bp):
ATAAAATAAAGTAAAGTAAACA
Found at i:16584188 original size:27 final size:27
Alignment explanation
Indices: 16584156--16584209 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
16584146 ATTTCCCTTT
*
16584156 TTTTATTTTGTTTTATGCTTTTTTTAA
1 TTTTATTTTGTTTTATGCTTTTATTAA
16584183 TTTTATTTTGTTTTATGCTTTTATTAA
1 TTTTATTTTGTTTTATGCTTTTATTAA
16584210 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (27 bp):
TTTTATTTTGTTTTATGCTTTTATTAA
Found at i:16584884 original size:44 final size:44
Alignment explanation
Indices: 16584832--16585195 Score: 192
Period size: 44 Copynumber: 7.9 Consensus size: 44
16584822 GGAATTGATG
* * *
16584832 CTTCAATCTACTTCACTGTAACTTCAGGGAGATTAGACTTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATTAGATTTGTAA
* * * * * * *
16584876 CTTTAATCTGCTCCACTGCAACTTCAAGGAGATGAAATTTGGAG
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATTAGATTTGTAA
*
16584920 CTTCAACCTACTCCACTGCAACTTCAGGGAGA-TATGATTTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATTA-GATTTGTAA
* ** * * * *
16584964 CTTCGATCTGTTTCC-CTACAACTTTAGGGAGGTCAGATTTGTAA
1 CTTCAATCT-ACTCCACTGCAACTTCAGGGAGATTAGATTTGTAA
* ** * * *
16585008 TTTGTAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGATAT
1 -CT-T---C--AATCTACTCCACTGCAACTTCAGGGAGATTAGATTTG-TAA
* * * *
16585060 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTATAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATTAGATTTGTAA
* ** * * *
16585104 TTTGTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
1 -------CTTCAATCTACTCCACTGCAACTTCAGGGAGATTAGATTTG-TAA
* * * * * *
16585156 TTTCAATCTGCTTCACTGCAACTTCAAGAAGATAAGATTT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATTAGATTT
16585196 TCCATTATAA
Statistics
Matches: 246, Mismatches: 54, Indels: 39
0.73 0.16 0.12
Matches are distributed among these distances:
43 1 0.00
44 100 0.41
45 71 0.29
46 1 0.00
47 1 0.00
49 1 0.00
50 5 0.02
51 62 0.25
52 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATTAGATTTGTAA
Found at i:16585053 original size:51 final size:51
Alignment explanation
Indices: 16584998--16585151 Score: 187
Period size: 51 Copynumber: 3.1 Consensus size: 51
16584988 TAGGGAGGTC
16584998 AGATTTGTAATTTGTAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATA
1 AGATTTGTAATTTGTAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATA
* * * *
16585049 AGATTTG--A----TA-TCTTCAATCTGCTCCACTGTAACTTCAGGGAGATA
1 AGATTTGTAATTTGTAGCCTT-AATCTGTTCCACTGCAACTTCAGGGAAATA
* * *
16585094 AGATTTATAATTTGTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATA
1 AGATTTGTAATTTGTAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATA
16585145 AGATTTG
1 AGATTTG
16585152 CTATTTTCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
44 3 0.04
45 35 0.42
47 1 0.01
49 1 0.01
51 41 0.49
52 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (51 bp):
AGATTTGTAATTTGTAGCCTTAATCTGTTCCACTGCAACTTCAGGGAAATA
Found at i:16585075 original size:45 final size:45
Alignment explanation
Indices: 16585019--16585195 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 45
16585009 TTGTAGCCTT
*
16585019 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGATATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGATATCTTC
* * *
16585064 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTT-ATAATTTGTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGAT-A----T--CTTC
* * *
16585115 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGATATCTTC
* *
16585160 AATCTGCTTCACTGCAACTTCA-AGAAGATAAGATTT
1 AATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTT
16585196 TCCATTATAA
Statistics
Matches: 110, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
44 5 0.05
45 65 0.59
47 1 0.01
49 1 0.01
51 37 0.34
52 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGATATCTTC
Found at i:16585106 original size:96 final size:95
Alignment explanation
Indices: 16584845--16585195 Score: 351
Period size: 96 Copynumber: 3.7 Consensus size: 95
16584835 CAATCTACTT
* * * * * * *
16584845 CACTGTAACTTCAGGGAGATTAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAAGGAGAT-
1 CACTGCAACTTCAGGGAAATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
* * **
16584909 -G----A-AATTTGGAG-CTTCAACCTACTC
66 AGATTTATAATTTGTAGCCTT-AATCTGTTC
* * * * * * * *
16584933 CACTGCAACTTCAGGGAGATATGATTTGTAACTTCGATCTGTTTCC-CTACAACTTTAGGGAGGT
1 CACTGCAACTTCAGGGAAATAAGATTTGTATCTTCAATCTG-CTCCACTGCAACTTCAGGGAGAT
* *
16584997 CAGATTTGTAATTTGTAGCCTTAATCTGTTC
65 AAGATTTATAATTTGTAGCCTTAATCTGTTC
*
16585028 CACTGCAACTTCAGGGAAATAAGATTTGATATCTTCAATCTGCTCCACTGTAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
* *
16585093 AAGATTTATAATTTGTGGCTTTAATCTGTTC
65 AAGATTTATAATTTGTAGCCTTAATCTGTTC
* * * *
16585124 CACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTTCACTGCAACTTCAAGAAGAT
1 CACTGCAACTTCAGGGAAATAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
16585189 AAGATTT
65 AAGATTT
16585196 TCCATTATAA
Statistics
Matches: 217, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
88 49 0.23
89 3 0.01
90 1 0.00
95 43 0.20
96 121 0.56
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (95 bp):
CACTGCAACTTCAGGGAAATAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
AGATTTATAATTTGTAGCCTTAATCTGTTC
Found at i:16593169 original size:79 final size:79
Alignment explanation
Indices: 16593066--16593260 Score: 293
Period size: 79 Copynumber: 2.5 Consensus size: 79
16593056 GGATATAGTA
*
16593066 CCAGCACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
16593131 GCCCGAATACAATT
66 GCCCGAATACAATT
16593145 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
* *
16593210 GCCCGGATATAATT
66 GCCCGAATACAATT
* * * * *
16593224 CTAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACA
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACA
16593261 CATCAAATAT
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 88 0.83
80 17 0.16
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.21
Consensus pattern (79 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
GCCCGAATACAATT
Found at i:16593224 original size:40 final size:40
Alignment explanation
Indices: 16593007--16593260 Score: 291
Period size: 39 Copynumber: 6.4 Consensus size: 40
16592997 GCCTACAGGA
* * * * *
16593007 CTTTAAGCCCGGATATAGTACCAGTACGAAGCCTGC-GGA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * * * * * *
16593046 CCTTAAGTCTGGATATAGTACCAGCACGAAGCCTGCGGAT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
*
16593086 C-TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* *
16593125 CTTTAAGCCCGAATACAATTCCAGCACGAAGCCTGC-GGA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* *
16593164 CCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
* * *
16593204 CTTTAAGCCCGGATATAATTCTAGCA-TATAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGA-AGCCTGCGGGT
16593244 CTTTAAGCCCGGATACA
1 CTTTAAGCCCGGATACA
16593261 CATCAAATAT
Statistics
Matches: 187, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 102 0.55
40 85 0.45
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (40 bp):
CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGT
Found at i:16597582 original size:19 final size:20
Alignment explanation
Indices: 16597558--16597604 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
16597548 TTGTGATATT
* *
16597558 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
16597577 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
16597597 -AATGCAAA
1 TAATGCAAA
16597605 AAAAAGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:16600309 original size:104 final size:104
Alignment explanation
Indices: 16600129--16600336 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
16600119 GTATGGACGT
16600129 ATCCTGAAAGCAACCCGCTATCCTCTACGGTGGTGAAGACCTCGCGAAGCAATAGTTTCTCACTC
1 ATCCTGAAAGCAACCCGCTATCCTCTACGGTGGTGAAGACCTCGCGAAGCAATAGTTTCTCACTC
16600194 CCACTTAAAAGGGTAAAATTGACCAATTATGCGATGCAA
66 CCACTTAAAAGGGTAAAATTGACCAATTATGCGATGCAA
16600233 ATCCTGAAAGCAACCCGCTATCCTCTACGGTGGTGAAGACCTCGCGAAGCAATAGTTTCTCACTC
1 ATCCTGAAAGCAACCCGCTATCCTCTACGGTGGTGAAGACCTCGCGAAGCAATAGTTTCTCACTC
16600298 CCACTTAAAAGGGTAAAATTGACCAATTATGCGATGCAA
66 CCACTTAAAAGGGTAAAATTGACCAATTATGCGATGCAA
16600337 TATGCTAAGA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (104 bp):
ATCCTGAAAGCAACCCGCTATCCTCTACGGTGGTGAAGACCTCGCGAAGCAATAGTTTCTCACTC
CCACTTAAAAGGGTAAAATTGACCAATTATGCGATGCAA
Found at i:16601420 original size:3 final size:3
Alignment explanation
Indices: 16601414--16601482 Score: 104
Period size: 3 Copynumber: 23.3 Consensus size: 3
16601404 TAAAAAGGAA
*
16601414 AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
16601462 AAT GAT AAT GAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
16601483 TAAAAGTACA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16603807 original size:27 final size:26
Alignment explanation
Indices: 16603757--16603807 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
16603747 AAATACTAAA
* * *
16603757 GAAAATAAAAATAAATGCATAATATT
1 GAAAATAAAAAAAAATGAAAAATATT
16603783 GAAAATAATAAAAAAATGAAAAATA
1 GAAAATAA-AAAAAAATGAAAAATA
16603808 AACAAGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (26 bp):
GAAAATAAAAAAAAATGAAAAATATT
Found at i:16604390 original size:23 final size:23
Alignment explanation
Indices: 16604353--16604397 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16604343 AACTGACACA
*
16604353 TTACAAACTAGACCCAATACCCCT
1 TTACAAACCAGACCCAA-ACCCCT
16604377 TTAC-AACCAGACCCAAACCCC
1 TTACAAACCAGACCCAAACCCC
16604398 AAAACCCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.38, C:0.42, G:0.04, T:0.16
Consensus pattern (23 bp):
TTACAAACCAGACCCAAACCCCT
Found at i:16605904 original size:23 final size:21
Alignment explanation
Indices: 16605852--16605908 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 21
16605842 TTATACTTAC
16605852 TATTTATATATGCTTCTAATAT
1 TATTTATATAT-CTTCTAATAT
16605874 TATATTATATAT-TTCTAATACTGT
1 TAT-TTATATATCTTCTAATA---T
16605898 TATTTATATAT
1 TATTTATATAT
16605909 ATGCATGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.26
22 3 0.10
23 16 0.52
24 4 0.13
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTTATATATCTTCTAATAT
Found at i:16609404 original size:40 final size:39
Alignment explanation
Indices: 16609299--16609442 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
16609289 CATCGGAATG
* * * *
16609299 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTTATT
* * *
16609339 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTTATT
**
16609379 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCAAGTTATT
* * *
16609419 AAATCCGGGTTAATACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
16609443 CACCGTGCGA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 83 0.94
41 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTTATT
Found at i:16609450 original size:80 final size:80
Alignment explanation
Indices: 16609299--16609452 Score: 193
Period size: 80 Copynumber: 1.9 Consensus size: 80
16609289 CATCGGAATG
* * ** *
16609299 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTACATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
16609364 TTCGTGCGAGTTGTT
66 TCCGTGCGAGTTGTT
* * * * *
16609379 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAATACCCGAAGGCC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGG-C
16609444 A-CCGTGCGA
65 ATCCGTGCGA
16609453 ATCACTATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
80 60 0.97
81 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
TCCGTGCGAGTTGTT
Found at i:16617546 original size:40 final size:40
Alignment explanation
Indices: 16617422--16617563 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
16617412 TCGGAATGAT
* * * * * *
16617422 ATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTAA
* * * *
16617462 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTAA
**
16617502 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTAA
* * *
16617542 ATCCGGGTTAATACTCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
16617564 CACCGTGCGA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTATTAA
Found at i:16617571 original size:80 final size:80
Alignment explanation
Indices: 16617420--16617573 Score: 184
Period size: 80 Copynumber: 1.9 Consensus size: 80
16617410 CATCGGAATG
* * ** *
16617420 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTACATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
16617485 TTCGTGCGAGTTGTT
66 TCCGTGCGAGTTGTT
* * * * * *
16617500 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAATACTCGAAGGCC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGG-C
16617565 A-CCGTGCGA
65 ATCCGTGCGA
16617574 ATCACTATAA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 59 0.97
81 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
TCCGTGCGAGTTGTT
Found at i:16630158 original size:56 final size:54
Alignment explanation
Indices: 16630024--16630224 Score: 294
Period size: 54 Copynumber: 3.7 Consensus size: 54
16630014 TACTTTTCAA
* * * * ** *
16630024 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAGTTCCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
16630078 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
*
16630132 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTATATTTTTC
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
* *
16630188 AAAAATCAACTCATATTGCTAGAAGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
16630225 CGGGGCACGC
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
54 82 0.61
56 53 0.39
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
Found at i:16630216 original size:110 final size:110
Alignment explanation
Indices: 16630017--16630224 Score: 328
Period size: 110 Copynumber: 1.9 Consensus size: 110
16630007 TAATTCCTAC
* * * * *
16630017 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAGTTCCTGTTTTTCAAAA
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTAACTTCATATTTTTCAAAA
*
16630082 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATAT
66 ATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTCAATTTATAT
*
16630127 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTT-ATATTTTTCAAA
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTT-AACTTCATATTTTTCAAA
*
16630191 AATCAACTCATATTGCTAGAAGTGAGTTGAGCCT
65 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
16630225 CGGGGCACGC
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 86 0.97
111 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (110 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTAACTTCATATTTTTCAAAA
ATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTCAATTTATAT
Found at i:16630364 original size:122 final size:125
Alignment explanation
Indices: 16630139--16630418 Score: 379
Period size: 122 Copynumber: 2.3 Consensus size: 125
16630129 TTCAAAAAAA
16630139 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTATATTTTTCAAAAATCAACTCATAT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTATATTTTTCAAAAATCAACTCATAT
*
16630204 TGCTAGAAGTGAGTTGAGCCTCGGGGCACGCCGGGGTATTCTT-A-GTTTATGTTTTAAAT
66 TGCTAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATT-TTAATGTTTATGTTTTAAAT
* * * * * * *
16630263 T-GACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-AAAATCAACTCGTAT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTATATTTTTCAAAAATCAACTCATAT
* * * * * *
16630326 TGCTAGAGGTGAGTTGAGTCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATT
66 TGCTAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT-AATGTTTATGTTTTAAAT
*
16630387 TCAACTCATATGGCGAGAGGTGAGTTGAGCCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
16630419 CAGGACACGC
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
121 2 0.01
122 50 0.37
123 42 0.31
124 14 0.10
125 27 0.20
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (125 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTATATTTTTCAAAAATCAACTCATAT
TGCTAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTAATGTTTATGTTTTAAAT
Found at i:16630414 original size:72 final size:72
Alignment explanation
Indices: 16630293--16630450 Score: 187
Period size: 72 Copynumber: 2.2 Consensus size: 72
16630283 GAGTTAAGCC
* * * * * *
16630293 TTTT-AATTTTTGTTTTTCAAAATCAACTCGTATTGCTAGAGGTGAGTTGAGTCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACACGC
16630357 TGAGG-TA
66 T-AGGATA
**
16630364 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTTTGT-TTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACACG
16630428 CTAGGATA
65 CTAGGATA
* *
16630436 ATTTCAATTTCTGTT
1 TTTTCAATTTTTGTT
16630451 GTCAAAAAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
71 8 0.11
72 62 0.84
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (72 bp):
TTTTCAATTTTTGTTTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TAGGATA
Found at i:16631153 original size:23 final size:21
Alignment explanation
Indices: 16631127--16631175 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
16631117 AAACAAACTG
16631127 ACCCATTACAAACTAGACCCAA
1 ACCCATTAC-AACTAGACCCAA
*
16631149 TACCCCTTTACAACTAGACCCAA
1 -A-CCCATTACAACTAGACCCAA
16631172 ACCC
1 ACCC
16631176 CAAAACCCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 3 0.12
22 1 0.04
23 13 0.54
24 7 0.29
ACGTcount: A:0.39, C:0.41, G:0.04, T:0.16
Consensus pattern (21 bp):
ACCCATTACAACTAGACCCAA
Found at i:16631159 original size:24 final size:22
Alignment explanation
Indices: 16631132--16631176 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
16631122 AACTGACCCA
16631132 TTACAAACTAGACCCAATACCCCT
1 TTAC-AACTAGACCCAA-ACCCCT
16631156 TTACAACTAGACCCAAACCCC
1 TTACAACTAGACCCAAACCCC
16631177 AAAACCCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.38, C:0.40, G:0.04, T:0.18
Consensus pattern (22 bp):
TTACAACTAGACCCAAACCCCT
Found at i:16632683 original size:23 final size:21
Alignment explanation
Indices: 16632631--16632687 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 21
16632621 TTATACTTAC
16632631 TATTTATATATGCTTCTAATAT
1 TATTTATATAT-CTTCTAATAT
16632653 TATATTATATAT-TTCTAATACTGT
1 TAT-TTATATATCTTCTAATA---T
16632677 TATTTATATAT
1 TATTTATATAT
16632688 ATGCATGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.26
22 3 0.10
23 16 0.52
24 4 0.13
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTTATATATCTTCTAATAT
Found at i:16633761 original size:26 final size:26
Alignment explanation
Indices: 16633732--16633788 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
16633722 AAACACGAAG
16633732 AAAGAAAATGAAAATCAAGTCGGAAT
1 AAAGAAAATGAAAATCAAGTCGGAAT
16633758 AAAGAAAATGAAAATCAAGTCGGAAT
1 AAAGAAAATGAAAATCAAGTCGGAAT
16633784 AAAGA
1 AAAGA
16633789 CTAAAAGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.60, C:0.07, G:0.19, T:0.14
Consensus pattern (26 bp):
AAAGAAAATGAAAATCAAGTCGGAAT
Found at i:16634362 original size:3 final size:3
Alignment explanation
Indices: 16634356--16634409 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
16634346 TACACAAATA
16634356 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
16634401 -AT AAT AAT A
1 AAT AAT AAT A
16634410 GTGAGAAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16634469 original size:24 final size:24
Alignment explanation
Indices: 16634434--16634483 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
16634424 AAAAAAAACC
* * * *
16634434 AATAAATGAATATAAATATAAATA
1 AATAAATAAATACAAAGAAAAATA
16634458 AATAAATAAATACAAAGAAAAATA
1 AATAAATAAATACAAAGAAAAATA
16634482 AA
1 AA
16634484 ATATAAAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
AATAAATAAATACAAAGAAAAATA
Found at i:16634571 original size:21 final size:23
Alignment explanation
Indices: 16634547--16634588 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
16634537 AAAAATCATA
16634547 ATAAAATAAA-TAA-ATTAAACT
1 ATAAAATAAAGTAAGATTAAACT
16634568 ATAAAATAAAGTAAGATTAAA
1 ATAAAATAAAGTAAGATTAAA
16634589 ATCAAATGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (23 bp):
ATAAAATAAAGTAAGATTAAACT
Found at i:16636583 original size:28 final size:28
Alignment explanation
Indices: 16636552--16636616 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
16636542 TTTTAGAGAT
16636552 AAATGCATTGAAAA-ACCATTAAGACATG
1 AAATGCATTGAAAAGA-CATTAAGACATG
* * * *
16636580 AAATGTAGTGAAAAGACATTTAGACATT
1 AAATGCATTGAAAAGACATTAAGACATG
*
16636608 TAATGCATT
1 AAATGCATT
16636617 TAATGTAGGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (28 bp):
AAATGCATTGAAAAGACATTAAGACATG
Found at i:16643135 original size:43 final size:44
Alignment explanation
Indices: 16643086--16643257 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 44
16643076 GATTACCGAG
* *
16643086 ATGTGATTACATGTAAGACCATGTTTGGCACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
** * *
16643130 -TGTGATTATGTATAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * **
16643172 ATATGATTTCGA-GTAAGACCCTGTCTGGGACAATGGCA-TCAAT
1 ATGTGATTAC-ATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
16643215 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
16643258 GAGCTTTATG
Statistics
Matches: 99, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
42 7 0.07
43 92 0.93
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:16646853 original size:19 final size:18
Alignment explanation
Indices: 16646829--16646872 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
16646819 ATAAATAAAG
16646829 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
16646849 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
16646866 ATAATTA
1 ATAATTA
16646873 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:16646887 original size:15 final size:15
Alignment explanation
Indices: 16646867--16646896 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16646857 ATAATCCTAA
*
16646867 TAATTATCTTAATAT
1 TAATTATCCTAATAT
16646882 TAATTATCCTAATAT
1 TAATTATCCTAATAT
16646897 AAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:16647814 original size:118 final size:118
Alignment explanation
Indices: 16647666--16647878 Score: 338
Period size: 118 Copynumber: 1.8 Consensus size: 118
16647656 TTTTACCCAA
*
16647666 CACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCACCCTACCCTGGTTACTCAG
1 CACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
* * *
16647731 TCAGTCATGATTTGAGCCATACTCATAACCTCAGCTAGCAGAGTTTTACTTGT
66 TCAGTCACGATCTAAGCCATACTCATAACCTCAGCTAGCAGAGTTTTACTTGT
* *
16647784 CACGTCACACAACCTTTTGACGC-AATGTAGAATGACAACTCAAGCACCCTACCCCGGTTACTCA
1 CACGTCACACAACCTTTTGACACGAA-GTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCA
**
16647848 GTCAGTCACGATCTAAGCTGTACTCATAACC
65 GTCAGTCACGATCTAAGCCATACTCATAACC
16647879 ATGGAAAACA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
117 2 0.02
118 84 0.98
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (118 bp):
CACGTCACACAACCTTTTGACACGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
TCAGTCACGATCTAAGCCATACTCATAACCTCAGCTAGCAGAGTTTTACTTGT
Found at i:16655254 original size:20 final size:20
Alignment explanation
Indices: 16655216--16655263 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
16655206 TAAATTCTAA
* **
16655216 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
16655236 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
16655256 AAA-ATAAA
1 AAAGATAAA
16655264 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:16655274 original size:19 final size:18
Alignment explanation
Indices: 16655250--16655293 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
16655240 ATAAATAAAG
16655250 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
16655270 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
16655287 ATAATTA
1 ATAATTA
16655294 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:16655308 original size:15 final size:15
Alignment explanation
Indices: 16655288--16655317 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16655278 ATAATCCTAA
*
16655288 TAATTATCTTAATAT
1 TAATTATCCTAATAT
16655303 TAATTATCCTAATAT
1 TAATTATCCTAATAT
16655318 AAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:16659251 original size:46 final size:44
Alignment explanation
Indices: 16659165--16659256 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 44
16659155 AAGTCTATTC
* *
16659165 CATTCAACCAAACACAAGAATACTATTACAATTGTATTCCATTA
1 CATTCAACCAAACACAAGAATACTATTACAACTCTATTCCATTA
* *
16659209 CATTCAACCAAACA-ATTGAATTAGTGATTACAACTCTATTCCATTA
1 CATTCAACCAAACACA-AGAA-TACT-ATTACAACTCTATTCCATTA
16659255 CA
1 CA
16659257 GCTTTATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 17 0.41
45 3 0.07
46 20 0.49
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACAACTCTATTCCATTA
Found at i:16659256 original size:16 final size:16
Alignment explanation
Indices: 16659235--16659317 Score: 121
Period size: 16 Copynumber: 5.2 Consensus size: 16
16659225 TGAATTAGTG
16659235 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* * *
16659251 ATTACAGCTTTATTTC
1 ATTACAACTCTATTCC
16659267 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
*
16659283 ATTACAACCCTATTCC
1 ATTACAACTCTATTCC
*
16659299 ATTACAACCCTATTCC
1 ATTACAACTCTATTCC
16659315 ATT
1 ATT
16659318 CCAGTGAACC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 60 1.00
ACGTcount: A:0.30, C:0.30, G:0.01, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:16660256 original size:8 final size:9
Alignment explanation
Indices: 16660224--16660253 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
16660214 CATTTAGACC
*
16660224 TTTTAAATT
1 TTTTAAAAT
16660233 TTTTAAAAT
1 TTTTAAAAT
16660242 TTTTAAAAT
1 TTTTAAAAT
16660251 TTT
1 TTT
16660254 AAATTAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:16660596 original size:15 final size:15
Alignment explanation
Indices: 16660576--16660610 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
16660566 TTGGGTCCAA
16660576 GTTTCTTCTTCAACC
1 GTTTCTTCTTCAACC
16660591 GTTTCTTCTTCAACC
1 GTTTCTTCTTCAACC
16660606 GTTTC
1 GTTTC
16660611 CAGCTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.31, G:0.09, T:0.49
Consensus pattern (15 bp):
GTTTCTTCTTCAACC
Found at i:16669067 original size:20 final size:20
Alignment explanation
Indices: 16669042--16669123 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
16669032 TTCATGTTAA
*
16669042 TTTTTATATTTTATTATTAT
1 TTTTTATATTTTATAATTAT
* *
16669062 TTTTTATTTTTTAAAATT-T
1 TTTTTATATTTTATAATTAT
*** *
16669081 TGAGT-TATTTTATTATATACT
1 TTTTTATATTTTATAAT-TA-T
16669102 TTTTTAATATTTTATAATTAT
1 TTTTT-ATATTTTATAATTAT
16669123 T
1 T
16669124 AAATTATTTA
Statistics
Matches: 44, Mismatches: 13, Indels: 9
0.67 0.20 0.14
Matches are distributed among these distances:
18 8 0.18
19 4 0.09
20 15 0.34
21 5 0.11
22 2 0.05
23 10 0.23
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTTATAATTAT
Found at i:16669135 original size:41 final size:38
Alignment explanation
Indices: 16669048--16669132 Score: 98
Period size: 38 Copynumber: 2.1 Consensus size: 38
16669038 TTAATTTTTA
* * *
16669048 TATTTTATTATTATTTTTTATTTTTTAAAATTTTGAGT
1 TATTTTATTATTATTTTTTATATTTTAAAATTTTAAAT
*
16669086 TATTTTATTATATACTTTTTTAATATTTTATAATTATTAAAT
1 TATTTTATTAT-TA-TTTTTT-ATATTTTAAAATT-TTAAAT
16669128 TATTT
1 TATTT
16669133 ATTGATGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 11 0.28
39 2 0.05
40 6 0.15
41 11 0.28
42 9 0.23
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (38 bp):
TATTTTATTATTATTTTTTATATTTTAAAATTTTAAAT
Found at i:16669805 original size:28 final size:28
Alignment explanation
Indices: 16669773--16669828 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
16669763 TATTTAGGAG
*
16669773 TTAGATTTATTCAATTAGTTTTGTAATA
1 TTAGATTTATTCAAATAGTTTTGTAATA
16669801 TTAGATTTATTCAAATAGTTTTGTAATA
1 TTAGATTTATTCAAATAGTTTTGTAATA
16669829 CTCTGATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.52
Consensus pattern (28 bp):
TTAGATTTATTCAAATAGTTTTGTAATA
Found at i:16672394 original size:30 final size:31
Alignment explanation
Indices: 16672343--16672400 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
16672333 ATGGTAAAAT
* *
16672343 TTTATTTTATTTCTCTTAAAAATAATAATAA
1 TTTAATTTAATTCTCTTAAAAATAATAATAA
*
16672374 TTTAATTTAATTCT-TTAAAAATTATAA
1 TTTAATTTAATTCTCTTAAAAATAATAA
16672401 AAATATAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (31 bp):
TTTAATTTAATTCTCTTAAAAATAATAATAA
Found at i:16687782 original size:20 final size:20
Alignment explanation
Indices: 16687759--16687797 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16687749 ATCAAAATTT
16687759 TTAA-AAAATAAGTAAATATA
1 TTAATAAAA-AAGTAAATATA
*
16687779 TTAATATAAAAGTAAATAT
1 TTAATAAAAAAGTAAATAT
16687798 TAAACTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TTAATAAAAAAGTAAATATA
Found at i:16689156 original size:6 final size:6
Alignment explanation
Indices: 16689139--16689169 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
16689129 TGCTAGTGTC
*
16689139 CTTTTT CATTTT CTTTTT CTTTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
16689170 CTGCCATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:16689522 original size:11 final size:10
Alignment explanation
Indices: 16689495--16689521 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16689485 TCTCAACTTC
16689495 TTTTTTTCTT
1 TTTTTTTCTT
16689505 TTTTTTTCTT
1 TTTTTTTCTT
16689515 TTTTTTT
1 TTTTTTT
16689522 TTATCTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:16691312 original size:27 final size:27
Alignment explanation
Indices: 16691282--16691336 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
16691272 AGGAAAAAGA
*
16691282 ATAATTTTTTTATTTATTTAAATCCTT
1 ATAAATTTTTTATTTATTTAAATCCTT
16691309 ATAAATTTTTTATTTATTTAAATCCTT
1 ATAAATTTTTTATTTATTTAAATCCTT
16691336 A
1 A
16691337 GTGATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (27 bp):
ATAAATTTTTTATTTATTTAAATCCTT
Found at i:16692301 original size:16 final size:18
Alignment explanation
Indices: 16692280--16692313 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16692270 GTATTTGACA
16692280 AATTAA-AC-AAATTTAT
1 AATTAACACTAAATTTAT
16692296 AATTAACACTAAATTTAT
1 AATTAACACTAAATTTAT
16692314 TCTATTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAACACTAAATTTAT
Found at i:16716091 original size:31 final size:31
Alignment explanation
Indices: 16716053--16716111 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
16716043 AAATAGCCGA
16716053 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
16716084 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
16716112 TACTTGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:16716184 original size:50 final size:50
Alignment explanation
Indices: 16716091--16716317 Score: 373
Period size: 50 Copynumber: 4.5 Consensus size: 50
16716081 CATTGATCAG
* * *
16716091 GTAGCCGAAGCTACCACTTTTTACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
16716142 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
16716192 GTAACCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
16716242 GTAGCCGAAACTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
16716292 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
16716318 GTTGCCATGG
Statistics
Matches: 165, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 143 0.87
51 22 0.13
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:16730903 original size:35 final size:35
Alignment explanation
Indices: 16730876--16731041 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
16730866 CATGGCAAAG
*
16730876 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
16730911 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
16730946 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
16730986 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
16731021 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
16731042 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:16730995 original size:75 final size:75
Alignment explanation
Indices: 16730876--16731046 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
16730866 CATGGCAAAG
** *
16730876 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
16730935 CCATACTGAGC
65 CCATACCGAGC
16730946 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
16731011 CATACCGAGT
66 CATACCGAGC
**
16731021 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
16731047 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:16738377 original size:35 final size:35
Alignment explanation
Indices: 16738350--16738515 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
16738340 CATGGCAAAG
*
16738350 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
16738385 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
16738420 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
16738460 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
16738495 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
16738516 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:16738469 original size:75 final size:75
Alignment explanation
Indices: 16738350--16738520 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
16738340 CATGGCAAAG
** *
16738350 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
16738409 CCATACTGAGC
65 CCATACCGAGC
16738420 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
16738485 CATACCGAGT
66 CATACCGAGC
**
16738495 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
16738521 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:16739977 original size:35 final size:35
Alignment explanation
Indices: 16739908--16740002 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 35
16739898 TTTCCTCATT
*
16739908 GAAATACCATACCTACATTTTACAACTCGGTATGG
1 GAAATACCATACCTACATTTTACAACTCAGTATGG
* * *
16739943 GAAATGCCATACCTACATTTCT-TAACTCATTATGG
1 GAAATACCATACCTACATTT-TACAACTCAGTATGG
16739978 ATTTGATAATACCATACCTACATTT
1 ----GA-AATACCATACCTACATTT
16740003 CACACTTTGC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
35 29 0.59
36 1 0.02
39 2 0.04
40 17 0.35
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (35 bp):
GAAATACCATACCTACATTTTACAACTCAGTATGG
Found at i:16741254 original size:8 final size:8
Alignment explanation
Indices: 16741232--16741261 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
16741222 AAATTCTTTT
16741232 AATTCACC
1 AATTCACC
16741240 AAATTCACC
1 -AATTCACC
16741249 AATTCACC
1 AATTCACC
16741257 AATTC
1 AATTC
16741262 TTCTAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (8 bp):
AATTCACC
Found at i:16754323 original size:21 final size:20
Alignment explanation
Indices: 16754297--16754335 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16754287 TAGTATTTTG
16754297 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
16754318 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
16754336 ACAAGTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:16754974 original size:48 final size:48
Alignment explanation
Indices: 16754896--16755028 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
16754886 CATTAGGGAA
* *
16754896 TATATTGATTTTGCTTCGGGCCATGATATTGGCACTTCAGGTGCGAGT
1 TATATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCAAGT
* * * * *
16754944 TGTATTGATTTGGCTTCGAGCCATGGTATTGGTACTTCGGGTGCAAGT
1 TATATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCAAGT
* *
16754992 TACATTAATTTGGCTTCGGGCCATGATATTGGCACTT
1 TATATTGATTTGGCTTCGGGCCATGATATTGGCACTT
16755029 AGGGTGTGAG
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.38
Consensus pattern (48 bp):
TATATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCAAGT
Found at i:16762236 original size:28 final size:29
Alignment explanation
Indices: 16762204--16762263 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
16762194 TCAAAAAACT
** * *
16762204 ACATGACTGTGTA-GAGACCGTGTGTTGC
1 ACATGACCATGTAGGAGACCGTATGTGGC
16762232 ACATGACCATGTAGGAGACCGTATGTGGC
1 ACATGACCATGTAGGAGACCGTATGTGGC
16762261 ACA
1 ACA
16762264 CGGTCATGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (29 bp):
ACATGACCATGTAGGAGACCGTATGTGGC
Found at i:16762271 original size:29 final size:29
Alignment explanation
Indices: 16762213--16762301 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 29
16762203 TACATGACTG
* *
16762213 TGTA-GAGACCGTGTGTTGCACATGACCA
1 TGTAGGAGACCGTGTGTGGCACACGACCA
* **
16762241 TGTAGGAGACCGTATGTGGCACACGGTCA
1 TGTAGGAGACCGTGTGTGGCACACGACCA
* ** *
16762270 TGTGGGAGACTATGTGTGGCACACAACCA
1 TGTAGGAGACCGTGTGTGGCACACGACCA
16762299 TGT
1 TGT
16762302 GACAGCCTAT
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
28 4 0.08
29 44 0.92
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (29 bp):
TGTAGGAGACCGTGTGTGGCACACGACCA
Found at i:16763518 original size:26 final size:26
Alignment explanation
Indices: 16763439--16763560 Score: 118
Period size: 26 Copynumber: 4.7 Consensus size: 26
16763429 TGTACATCGG
* * *
16763439 CTCAAAGCTTGCTAAATAACCACTGA
1 CTCAAGGCCTGCTAAATAAACACTGA
* * * *
16763465 ATCAAAGCCTACTAAATAAACACCGA
1 CTCAAGGCCTGCTAAATAAACACTGA
* *
16763491 CTCAAGGCTTGCTAAATAAACGCTGA
1 CTCAAGGCCTGCTAAATAAACACTGA
** * *
16763517 CTTGAGGCCTGCTAAATAACCACTAA
1 CTCAAGGCCTGCTAAATAAACACTGA
*
16763543 CTCGAGGCCTGCTAAATA
1 CTCAAGGCCTGCTAAATA
16763561 TGTACCGGCT
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (26 bp):
CTCAAGGCCTGCTAAATAAACACTGA
Found at i:16763597 original size:26 final size:26
Alignment explanation
Indices: 16763520--16763597 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
16763510 ACGCTGACTT
* *
16763520 GAGGCCTGCTAAATAACCACTAACTC
1 GAGGCCTGCTAAATAACCACCAGCTC
*** *
16763546 GAGGCCTGCTAAATATGTACCGGCTC
1 GAGGCCTGCTAAATAACCACCAGCTC
* *
16763572 GAGGCCTACTACATAACCACCAGCTC
1 GAGGCCTGCTAAATAACCACCAGCTC
16763598 AATGCCTGTT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.19
Consensus pattern (26 bp):
GAGGCCTGCTAAATAACCACCAGCTC
Found at i:16767541 original size:47 final size:47
Alignment explanation
Indices: 16767489--16767740 Score: 188
Period size: 47 Copynumber: 5.1 Consensus size: 47
16767479 TGGTTGGACC
* *
16767489 ATGGCAACATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCT
* * *
16767536 ATGGCATCGGTGTGATGTGATCATGTGATTTCCGAATAAAACCATAGCTGGGCT
1 ATGGCATC------ATGTGAT-ATGTGACTTCCGTATAAGACCATAGCTGGGCT
* * *
16767590 ATGGCATCGGAGAGATGTGATTATGTG-CTTCTGTATAAGACCATATCTGGGAT
1 ATGGCATC------ATGTGA-TATGTGACTTCCGTATAAGACCATAGCTGGGCT
* * * * ** *
16767643 ATGGCATCGGTGTGATATGTG-CTACTGTATAAGACTATATATGGGAT
1 ATGGCATC-ATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCT
*
16767690 ATGGCATCAGTGTGATATGTGA--TCCGTATAAGACCATGGCTGGGCT
1 ATGGCATCA-TGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCT
16767736 ATGGC
1 ATGGC
16767741 TTCGGTATGT
Statistics
Matches: 172, Mismatches: 23, Indels: 21
0.80 0.11 0.10
Matches are distributed among these distances:
46 22 0.13
47 55 0.32
48 6 0.03
53 35 0.20
54 53 0.31
55 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (47 bp):
ATGGCATCATGTGATATGTGACTTCCGTATAAGACCATAGCTGGGCT
Found at i:16767580 original size:54 final size:53
Alignment explanation
Indices: 16767497--16767658 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 53
16767487 CCATGGCAAC
16767497 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * *
16767550 ATGTGATCATGTGATTTCCGAATAAAACCATAGCTGGGCTATGGCATCGGAGAG
1 ATGTGAT-ATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * *
16767604 ATGTGATTATGTG-CTTCTGTATAAGACCATATCTGGGATATGGCATCGGTGTG
1 ATGTGA-TATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
16767657 AT
1 AT
16767659 ATGTGCTACT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
53 41 0.43
54 53 0.56
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (53 bp):
ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
Found at i:16769083 original size:9 final size:9
Alignment explanation
Indices: 16769071--16769113 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
16769061 CTGAATATAT
16769071 CGAATTAAC
1 CGAATTAAC
16769080 CGAATTAAC
1 CGAATTAAC
*
16769089 CAAATTAAC
1 CGAATTAAC
*
16769098 TGAATTAAC
1 CGAATTAAC
16769107 CGAATTA
1 CGAATTA
16769114 TTTGTATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.26
Consensus pattern (9 bp):
CGAATTAAC
Found at i:16769149 original size:5 final size:6
Alignment explanation
Indices: 16769134--16769174 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
16769124 ATTATATGTT
*
16769134 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
16769175 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:16769215 original size:13 final size:13
Alignment explanation
Indices: 16769199--16769223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16769189 AATTTTTATT
16769199 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
16769212 ATTGGGTTGGGT
1 ATTGGGTTGGGT
16769224 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:16769223 original size:18 final size:18
Alignment explanation
Indices: 16769200--16769237 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16769190 ATTTTTATTA
16769200 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
16769218 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
16769236 TT
1 TT
16769238 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:16769677 original size:21 final size:22
Alignment explanation
Indices: 16769653--16769693 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16769643 AATAAAGTTT
*
16769653 AAAAATTAT-TAAAAATTAATA
1 AAAAATCATCTAAAAATTAATA
*
16769674 AAAAATCATCTAAAATTTAA
1 AAAAATCATCTAAAAATTAA
16769694 GCTCAAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAATCATCTAAAAATTAATA
Found at i:16770175 original size:18 final size:18
Alignment explanation
Indices: 16770152--16770200 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
16770142 TAATTTTTTA
*
16770152 TTTAATATTTTTATGAAT
1 TTTAATATTTTTATAAAT
16770170 TTTAATAATGTTTTATAAAT
1 TTTAAT-AT-TTTTATAAAT
16770190 TTATAAT-TTTT
1 TT-TAATATTTT
16770201 GAAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 9 0.33
19 3 0.11
20 11 0.41
21 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTAATATTTTTATAAAT
Found at i:16770228 original size:23 final size:22
Alignment explanation
Indices: 16770184--16770233 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
16770174 ATAATGTTTT
16770184 ATAAATTTATAATTTTTGAAAA
1 ATAAATTTATAATTTTTGAAAA
* *
16770206 ATAAATTTTATTATTATTTAAAAA
1 ATAAA-TTTATAATT-TTTGAAAA
16770230 ATAA
1 ATAA
16770234 GTTTGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 8 0.33
24 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATAAATTTATAATTTTTGAAAA
Found at i:16771630 original size:19 final size:18
Alignment explanation
Indices: 16771603--16771643 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
16771593 AATATTCTAT
*
16771603 AATTATAAAAATTTAAAA
1 AATTATAAAAATATAAAA
*
16771621 AATTATTAAAAATATAAAT
1 AATTA-TAAAAATATAAAA
16771640 AATT
1 AATT
16771644 TTTTGAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATAAAAATATAAAA
Found at i:16771681 original size:37 final size:39
Alignment explanation
Indices: 16771638--16771720 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 39
16771628 AAAAATATAA
* *
16771638 ATAATTTTT-TGAGTTTTTTTCACA-TTTTAA-AT-TTTT
1 ATAATTTTTATGAATTTTTAT-ACATTTTTAATATATTTT
16771674 ATGAATTTTTATGAATTTTTATACATTTTTAATATATTTT
1 AT-AATTTTTATGAATTTTTATACATTTTTAATATATTTT
16771714 ATAATTT
1 ATAATTT
16771721 CTATTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
36 2 0.05
37 10 0.25
38 15 0.38
39 7 0.17
40 6 0.15
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (39 bp):
ATAATTTTTATGAATTTTTATACATTTTTAATATATTTT
Found at i:16771683 original size:11 final size:10
Alignment explanation
Indices: 16771667--16771704 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
16771657 TCACATTTTA
16771667 AATTTTTATG
1 AATTTTTATG
16771677 AATTTTTATG
1 AATTTTTATG
16771687 AATTTTTAT-
1 AATTTTTATG
16771696 ACATTTTTA
1 A-ATTTTTA
16771705 ATATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 1 0.04
10 26 0.96
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (10 bp):
AATTTTTATG
Found at i:16771892 original size:22 final size:21
Alignment explanation
Indices: 16771867--16771914 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
16771857 TATTTTAGAA
*
16771867 TTTTTTTAAT-AATTATAAAT
1 TTTTTTTTATAAATTATAAAT
*
16771887 GTTTTTTTTATAAATTTTAAAT
1 -TTTTTTTTATAAATTATAAAT
16771909 TTTTTT
1 TTTTTT
16771915 AGTTTTGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTTTATAAATTATAAAT
Found at i:16771911 original size:19 final size:18
Alignment explanation
Indices: 16771846--16771915 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 18
16771836 TGTATATTTT
*
16771846 ATTTTTTAAAATATTTTAGA
1 ATTTTTTTAAA-ATTTTA-A
*
16771866 ATTTTTTTAATAATTATAA
1 ATTTTTTTAA-AATTTTAA
16771885 ATGTTTTTTTTATAAATTTTAA
1 A---TTTTTTTA-AAATTTTAA
16771907 ATTTTTTTA
1 ATTTTTTTA
16771916 GTTTTGCACT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
19 10 0.24
20 14 0.33
21 1 0.02
22 16 0.38
23 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTTTTAAAATTTTAA
Found at i:16774087 original size:14 final size:15
Alignment explanation
Indices: 16774057--16774089 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16774047 ACCCTCTAAG
*
16774057 ATTTTTTTAATATTT
1 ATTTCTTTAATATTT
16774072 ATTTCTTTAA-ATTT
1 ATTTCTTTAATATTT
16774086 ATTT
1 ATTT
16774090 TAAGTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTCTTTAATATTT
Found at i:16774905 original size:36 final size:36
Alignment explanation
Indices: 16774858--16774931 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
16774848 CAACTTACTG
16774858 TTATGTCCATGTTGGACCTTAAATATTTTTATTTAA
1 TTATGTCCATGTTGGACCTTAAATATTTTTATTTAA
16774894 TTATGTCCATGTTGGACCTTAAATATTTTTATTTAA
1 TTATGTCCATGTTGGACCTTAAATATTTTTATTTAA
16774930 TT
1 TT
16774932 TTACTCTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (36 bp):
TTATGTCCATGTTGGACCTTAAATATTTTTATTTAA
Found at i:16776528 original size:13 final size:13
Alignment explanation
Indices: 16776510--16776549 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
16776500 TAAATAGCAG
16776510 TTAGTTTTTATTT
1 TTAGTTTTTATTT
16776523 TTAG-TTTTATTT
1 TTAGTTTTTATTT
*
16776535 TTGGTTTTT-TTT
1 TTAGTTTTTATTT
16776547 TTA
1 TTA
16776550 ATTTAATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (13 bp):
TTAGTTTTTATTT
Found at i:16777049 original size:139 final size:138
Alignment explanation
Indices: 16776669--16777060 Score: 374
Period size: 139 Copynumber: 2.8 Consensus size: 138
16776659 GGAAGAGCAA
* * * * ** *
16776669 CTATTTAGAGTGACTAACATGAAAATGTACAATTAGCATTCCATTACCATTTAGCGACGGAGTGA
1 CTATTTAGAGTGACTAACATGGAAATGTTCAGTTAGCATTCCATTACCATTTAACGGTGAAGTGA
* * * * * * *
16776734 TTAATTTGATCAATTTTTTTAAAAGGGACCAAATTAATAATAAAAAAATTTGTAGTTATCAAAAT
66 TTAATTTGATCAATTTTTTTTAGAGTGA-CAAATT--TAACAAAAAAATTTGGAGTGACCAAAAT
16776799 AAGAACAACCC
128 AAGAACAACCC
** * * *** *
16776810 CTATTTAGAGTGACTAATGTGGAAATATAT-TGTTAGCATTTTGTTACCATTTAATGGTGGAA-T
1 CTATTTAGAGTGACTAACATGGAAATGT-TCAGTTAGCATTCCATTACCATTTAACGGT-GAAGT
** * * * * *
16776873 GACCAATTTGATGAATTTCTTTTCGAAATGACCAATTTAACAAAAAAATTTGGAGTGACCAAAAT
64 GATTAATTTGATCAATTTTTTTTAG-AGTGACAAATTTAACAAAAAAATTTGGAGTGACCAAAAT
*
16776938 AAGAACAATCC
128 AAGAACAACCC
* * *
16776949 CTATTTAGAGTGAGTAACATGGAAATGTTCAGTTAGCATTCCATTACAATCTAACGGTGAAGTGA
1 CTATTTAGAGTGACTAACATGGAAATGTTCAGTTAGCATTCCATTACCATTTAACGGTGAAGTGA
* **
16777014 TTAATTTAATCAAATTTTTTTTAGAGTGATTAATTTAACAACAAAAA
66 TTAATTTGATC-AATTTTTTTTAGAGTGACAAATTTAACAA-AAAAA
16777061 GAATTAGAGT
Statistics
Matches: 194, Mismatches: 50, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
138 4 0.02
139 103 0.53
140 15 0.08
141 67 0.35
142 5 0.03
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (138 bp):
CTATTTAGAGTGACTAACATGGAAATGTTCAGTTAGCATTCCATTACCATTTAACGGTGAAGTGA
TTAATTTGATCAATTTTTTTTAGAGTGACAAATTTAACAAAAAAATTTGGAGTGACCAAAATAAG
AACAACCC
Found at i:16778325 original size:18 final size:17
Alignment explanation
Indices: 16778284--16778326 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
16778274 GTGGTATTAT
* *
16778284 CATAATTTAATTCATAA
1 CATAAATTAATTCAAAA
16778301 CACTAAATTAAGTTCAAAA
1 CA-TAAATTAA-TTCAAAA
16778320 CATAAAT
1 CATAAAT
16778327 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 12 0.55
19 8 0.36
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (17 bp):
CATAAATTAATTCAAAA
Found at i:16785766 original size:18 final size:17
Alignment explanation
Indices: 16785725--16785767 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
16785715 GTGGTATTAT
* *
16785725 CATAATTTAATTCATAA
1 CATAAATTAATTCAAAA
16785742 CACTAAATTAAGTTCAAAA
1 CA-TAAATTAA-TTCAAAA
16785761 CATAAAT
1 CATAAAT
16785768 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 12 0.55
19 8 0.36
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (17 bp):
CATAAATTAATTCAAAA
Found at i:16790445 original size:22 final size:22
Alignment explanation
Indices: 16790406--16790447 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16790396 ATACAAATTT
*
16790406 TTAATTTTTTATTTTTAATTGA
1 TTAATTTTTTATTCTTAATTGA
16790428 TTAATTTTTT-TATCTTAATT
1 TTAATTTTTTAT-TCTTAATT
16790448 TCTCAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTAATTTTTTATTCTTAATTGA
Found at i:16791966 original size:11 final size:11
Alignment explanation
Indices: 16791952--16792013 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
16791942 AAATAATAAC
16791952 AACAAAATAGT
1 AACAAAATAGT
* *
16791963 AACAACATAAT
1 AACAAAATAGT
**
16791974 AGTAAAATAGT
1 AACAAAATAGT
**
16791985 AGTAAAATAGT
1 AACAAAATAGT
* *
16791996 GAGAAAATAGT
1 AACAAAATAGT
16792007 AACAAAA
1 AACAAAA
16792014 CAACCAAAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.61, C:0.06, G:0.13, T:0.19
Consensus pattern (11 bp):
AACAAAATAGT
Found at i:16791975 original size:14 final size:14
Alignment explanation
Indices: 16791942--16791978 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16791932 TATAATATCC
*
16791942 AAATAATAACAACA
1 AAATAGTAACAACA
16791956 AAATAGTAACAACA
1 AAATAGTAACAACA
*
16791970 TAATAGTAA
1 AAATAGTAA
16791979 AATAGTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:16791980 original size:22 final size:22
Alignment explanation
Indices: 16791955--16792013 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
16791945 TAATAACAAC
*
16791955 AAAATAGTAACAACATAAT-AG
1 AAAATAGTAACAAAATAATGAG
** *
16791976 TAAAATAGTAGTAAAATAGTGAG
1 -AAAATAGTAACAAAATAATGAG
16791999 AAAATAGTAACAAAA
1 AAAATAGTAACAAAA
16792014 CAACCAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.20
Consensus pattern (22 bp):
AAAATAGTAACAAAATAATGAG
Found at i:16794749 original size:18 final size:20
Alignment explanation
Indices: 16794710--16794750 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16794700 AAGGAAGTGT
*
16794710 TTTTAAATTTGTTTCACATG
1 TTTTAAATATGTTTCACATG
16794730 TTTTAAATAT-TTTC-CATG
1 TTTTAAATATGTTTCACATG
16794748 TTT
1 TTT
16794751 GATTCGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTTAAATATGTTTCACATG
Found at i:16799908 original size:18 final size:17
Alignment explanation
Indices: 16799881--16799917 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
16799871 TAAATTGTGC
16799881 AATTATTATGTACATGA
1 AATTATTATGTACATGA
*
16799898 AATTGATTATGTATATGA
1 AATT-ATTATGTACATGA
16799916 AA
1 AA
16799918 ATGCATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (17 bp):
AATTATTATGTACATGA
Found at i:16800216 original size:25 final size:24
Alignment explanation
Indices: 16800188--16800239 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
16800178 CACAAATGCA
16800188 GCTCTTTATAAGCGTCTTGATATAG
1 GCTCTTTATAAGCGTCTTGATAT-G
* * *
16800213 GCTCTTTGTGAGCTTCTTGATATG
1 GCTCTTTATAAGCGTCTTGATATG
16800237 GCT
1 GCT
16800240 TGCTTGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.42
Consensus pattern (24 bp):
GCTCTTTATAAGCGTCTTGATATG
Found at i:16802851 original size:22 final size:20
Alignment explanation
Indices: 16802817--16802857 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
16802807 CATTGTTGAT
*
16802817 AAATTGAAGAATTAGGCTTG
1 AAATTGAAGAATTAAGCTTG
16802837 AAATTGATAGAAATTAAGCTT
1 AAATTGA-AG-AATTAAGCTT
16802858 AGGTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (20 bp):
AAATTGAAGAATTAAGCTTG
Found at i:16811964 original size:26 final size:26
Alignment explanation
Indices: 16811928--16812037 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
16811918 TGATACAAAT
* *
16811928 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16811954 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
16811980 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
16812006 TGATAAT-GGTTTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTTCA
16812032 TGATAA
1 TGATAA
16812038 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 2 0.03
26 78 0.98
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:16814066 original size:137 final size:136
Alignment explanation
Indices: 16813821--16814105 Score: 525
Period size: 137 Copynumber: 2.1 Consensus size: 136
16813811 AGTAGTCTCG
*
16813821 CCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
*
16813886 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
16813951 TGTTAC
131 TGTTAC
16813957 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
16814022 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
65 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
16814087 CTGTTAC
130 CTGTTAC
**
16814094 CTGAATGGGCTT
1 CCAAATGGGCTT
16814106 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
136 19 0.13
137 125 0.87
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTAC
Found at i:16816289 original size:16 final size:16
Alignment explanation
Indices: 16816268--16816301 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16816258 TCATCTTTTA
*
16816268 TTTCTTTTCTTCTCCT
1 TTTCTTTTCCTCTCCT
16816284 TTTCTTTTCCTCTCCT
1 TTTCTTTTCCTCTCCT
16816300 TT
1 TT
16816302 AAATCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTCTTTTCCTCTCCT
Found at i:16820536 original size:15 final size:16
Alignment explanation
Indices: 16820507--16820542 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
16820497 TATTTAGTTA
16820507 GCATG-GGTTACATTT
1 GCATGTGGTTACATTT
16820522 GCATGTGGTTA-ATTT
1 GCATGTGGTTACATTT
16820537 GCATGT
1 GCATGT
16820543 TTTAGGCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (16 bp):
GCATGTGGTTACATTT
Found at i:16837077 original size:18 final size:17
Alignment explanation
Indices: 16837039--16837077 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
16837029 ATTTGGGCTG
*
16837039 TGTGGGCTACACGGACG
1 TGTGGGCTACACGGACA
*
16837056 TGTGGGTCTACACGGGCA
1 TGTGGG-CTACACGGACA
16837074 TGTG
1 TGTG
16837078 AGATTCTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.15, C:0.21, G:0.41, T:0.23
Consensus pattern (17 bp):
TGTGGGCTACACGGACA
Found at i:16854687 original size:27 final size:28
Alignment explanation
Indices: 16854631--16854688 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
16854621 GTTTATGTAT
16854631 TTAGGGTTTAAGAATTTTTTAAAAAAAA
1 TTAGGGTTTAAGAATTTTTTAAAAAAAA
* * *
16854659 TTAGGGTTT-AGAGTTTTTTTAAAATAA
1 TTAGGGTTTAAGAATTTTTTAAAAAAAA
16854686 TTA
1 TTA
16854689 AATTAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.45
Consensus pattern (28 bp):
TTAGGGTTTAAGAATTTTTTAAAAAAAA
Found at i:16854727 original size:34 final size:33
Alignment explanation
Indices: 16854656--16854768 Score: 113
Period size: 34 Copynumber: 3.4 Consensus size: 33
16854646 TTTTTAAAAA
* ***
16854656 AAATTAGGGTTTA-GAGTTTTTTTAAAATAATT
1 AAATTAGGGTTTAGGAGGTTTAAAAAAATAATT
*
16854688 AAATTAGGTTTTAGG-GGTTTAAAATAAATAAATT
1 AAATTAGGGTTTAGGAGGTTTAAAA-AAAT-AATT
** *
16854722 AAATTAGGGTTTAGGATTTTTAAGAAAATTAATT
1 AAATTAGGGTTTAGGAGGTTTAA-AAAAATAATT
16854756 AAATTAGGGTTTA
1 AAATTAGGGTTTA
16854769 TGTTTTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
32 17 0.25
33 5 0.07
34 35 0.52
35 8 0.12
36 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.42
Consensus pattern (33 bp):
AAATTAGGGTTTAGGAGGTTTAAAAAAATAATT
Found at i:16855158 original size:124 final size:126
Alignment explanation
Indices: 16854873--16855513 Score: 802
Period size: 124 Copynumber: 5.1 Consensus size: 126
16854863 ATTTTGTTTA
* * * * * * *
16854873 TTTTCTGCAATAGTTTC-AGAAAAATTAATTTTGAGAAGACGGTTCGGAAAAGATAATGTCAAAA
1 TTTTCTACAATAGTTCCTA-AAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAA
* *
16854937 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGC-CCACACGTGAATGCTCT
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCC-CACGTGGATGCTCT
* * *
16854999 TTTT-TACAATAGTTCCTGAAAAAATAATTTGGAGAAGACGATTCTAAAAAAATAGTGTCAAAAA
1 TTTTCTACAATAGTTCCTAAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAA
* * *
16855063 CGCTTCAAGCA-GATGCACTATCAACAAAATTACTG-AAAAAGCTCCCACGTGGACGCTCT
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCT
* * * *
16855122 TTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAGTAT-AAGAA
1 TTTTCTACAATAGTTCCTAAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAA-AA
* * * *
16855186 ATGCTTCAAGCAAGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCTA-GTGGATGCTCT
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCT
* * * *
16855247 TTTTCTATAATAGTTCTTAAAAAAATAATTTTGAGAAGAC-AGTTCTG-AAAAATAATATCAAAA
1 TTTTCTACAATAGTTCCTAAAAAAATAATTTTGAGAAGACGA-TTCTGAAAAAATAGTGTCAAAA
* * * * *
16855310 ACGCTTCAAGTAGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCATGTGGACGCTCT
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCT
* * *
16855372 TTTTCTACACTAGTTCCT-AAAAAATAA-TTTGAGAAGAC-AGTTTTGAAAAAATAGTGTTAAAA
1 TTTTCTACAATAGTTCCTAAAAAAATAATTTTGAGAAGACGA-TTCTGAAAAAATAGTGTCAAAA
** *
16855434 ATACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGATGCTCT
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCT
*
16855496 TTTTCTACAGTAGTTCCT
1 TTTTCTACAATAGTTCCT
16855514 GCTTGGCCTT
Statistics
Matches: 447, Mismatches: 58, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
123 42 0.09
124 231 0.52
125 159 0.36
126 15 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTCTACAATAGTTCCTAAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCT
Found at i:16855342 original size:249 final size:248
Alignment explanation
Indices: 16854892--16855513 Score: 860
Period size: 249 Copynumber: 2.5 Consensus size: 248
16854882 ATAGTTTCAG
* ** * * * *
16854892 AAAAATTAATTTTGAGAAGACGGTTCGGAAAAGATAATGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAGTAT-AAAAATGCTTCAAGCAGGATGCAC
* * * *
16854957 TGTCAGTAAAATTACTGAAAAAAGCCCACACGTGAATGCTCTTTTT-TACAATAGTTCCTGAAAA
65 TGTCAGCAAAATTACTGAAAAAAGCTC-CACGTGGATGCTCTTTTTCTACAATAGTTCCTAAAAA
* *
16855021 AATAATTTGGAGAAGACGATTCTAAAAAAATAGTGTCAAAAACGCTTCAAGCAGATGCACTATCA
129 AATAATTTGGAGAAGACGATTCTAAAAAAATAATATCAAAAACGCTTCAAGCAGATGCACTATCA
* *
16855086 ACAAAATTACT-GAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCT
194 ACAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACACTAGTTCCT
*
16855140 AAAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAGTATAAGAAATGCTTCAAGCAAGATGCA
1 -AAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAGTATAA-AAATGCTTCAAGCAGGATGCA
* * *
16855205 CTGTTAGCAAAATTACTGAAAAAAGCTCCTA-GTGGATGCTCTTTTTCTATAATAGTTCTTAAAA
64 CTGTCAGCAAAATTACTGAAAAAAGCTCC-ACGTGGATGCTCTTTTTCTACAATAGTTCCTAAAA
* * *
16855269 AAATAATTTTGAGAAGAC-AGTTCT-GAAAAATAATATCAAAAACGCTTCAAGTAGGATGCACTA
128 AAATAATTTGGAGAAGACGA-TTCTAAAAAAATAATATCAAAAACGCTTCAAGCA-GATGCACTA
* *
16855332 TCAGCAAAATTACTAAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACACTAGTTCCT
191 TCAACAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACACTAGTTCCT
* * * *
16855390 AAAAAATAA-TTTGAGAAGACAGTTTTGAAAAAATAGTGTTAAAAATACTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAGT-ATAAAAATGCTTCAAGCAGGATGCAC
*
16855454 TGTCAGCAAAATTACTGAAAAAAGCTCACACGTGGATGCTCTTTTTCTACAGTAGTTCCT
65 TGTCAGCAAAATTACTGAAAAAAGCTC-CACGTGGATGCTCTTTTTCTACAATAGTTCCT
16855514 GCTTGGCCTT
Statistics
Matches: 331, Mismatches: 33, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
248 116 0.35
249 175 0.53
250 40 0.12
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (248 bp):
AAAAAATAATTTTGAGAAGACGGTTATGAAAAAATAGTATAAAAATGCTTCAAGCAGGATGCACT
GTCAGCAAAATTACTGAAAAAAGCTCCACGTGGATGCTCTTTTTCTACAATAGTTCCTAAAAAAA
TAATTTGGAGAAGACGATTCTAAAAAAATAATATCAAAAACGCTTCAAGCAGATGCACTATCAAC
AAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACACTAGTTCCT
Found at i:16857574 original size:4 final size:4
Alignment explanation
Indices: 16857565--16857598 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
16857555 AACTTGAGCC
*
16857565 TTTA TTTA TTTA TTCA TTTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA T
16857599 GTACAAGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:16866166 original size:18 final size:18
Alignment explanation
Indices: 16866136--16866174 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16866126 AATCAATTAA
*
16866136 TTAATATTGGAAATAAGT
1 TTAATATTGGAAATAAAT
16866154 TTAA-ATTGAGAAATAAAT
1 TTAATATTG-GAAATAAAT
16866172 TTA
1 TTA
16866175 GATTTTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (18 bp):
TTAATATTGGAAATAAAT
Found at i:16870734 original size:18 final size:18
Alignment explanation
Indices: 16870708--16870750 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
16870698 GACTGGGAAA
* *
16870708 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
16870726 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
16870744 AGGATAC
1 AGGATAC
16870751 GAACCTAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:16870958 original size:24 final size:24
Alignment explanation
Indices: 16870927--16870984 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
16870917 TTTCCGAAAG
* * *
16870927 TAAA-TATGGCTTGCTACGGATCT
1 TAAACTATGACTTGCCACGGATCC
*
16870950 TAAACTATGACTTGCCATGGATCC
1 TAAACTATGACTTGCCACGGATCC
*
16870974 TAAACCATGAC
1 TAAACTATGAC
16870985 ATGTAATTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (24 bp):
TAAACTATGACTTGCCACGGATCC
Found at i:16872321 original size:19 final size:19
Alignment explanation
Indices: 16872297--16872336 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16872287 TATAAAATAA
* *
16872297 AAATTAATTAAAATTACAT
1 AAATTAAATAAAATTAAAT
*
16872316 AAATTAAATAATATTAAAT
1 AAATTAAATAAAATTAAAT
16872335 AA
1 AA
16872337 TATTCAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTAAATAAAATTAAAT
Found at i:16872337 original size:10 final size:10
Alignment explanation
Indices: 16872299--16872340 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
16872289 TAAAATAAAA
* *
16872299 ATTAATTAAA
1 ATTAAATAAT
*
16872309 ATTACATAA-
1 ATTAAATAAT
16872318 ATTAAATAAT
1 ATTAAATAAT
16872328 ATTAAATAAT
1 ATTAAATAAT
16872338 ATT
1 ATT
16872341 CAAAAATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTAAATAAT
Found at i:16874117 original size:49 final size:49
Alignment explanation
Indices: 16874045--16874143 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
16874035 ACTACAAAAC
16874045 AATCTACTTGCATTTGCAGTTGCAAGCTGACGCAGTGTGAATGCAGTTA
1 AATCTACTTGCATTTGCAGTTGCAAGCTGACGCAGTGTGAATGCAGTTA
16874094 AATCTACTTGCATTTGCAGTTGCAAGCTGACGCAGTGTGAATGCAGTTA
1 AATCTACTTGCATTTGCAGTTGCAAGCTGACGCAGTGTGAATGCAGTTA
16874143 A
1 A
16874144 TCTTACTCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (49 bp):
AATCTACTTGCATTTGCAGTTGCAAGCTGACGCAGTGTGAATGCAGTTA
Found at i:16874138 original size:27 final size:27
Alignment explanation
Indices: 16874059--16874141 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
16874049 TACTTGCATT
16874059 TGCAGTTGCAAGCTGACGCAGTGTGAA
1 TGCAGTTGCAAGCTGACGCAGTGTGAA
* *
16874086 TGCAGTT-AAATCT-ACTTGCA-T-T---
1 TGCAGTTGCAAGCTGAC--GCAGTGTGAA
16874108 TGCAGTTGCAAGCTGACGCAGTGTGAA
1 TGCAGTTGCAAGCTGACGCAGTGTGAA
16874135 TGCAGTT
1 TGCAGTT
16874142 AATCTTACTC
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 10 0.23
23 5 0.12
24 3 0.07
25 3 0.07
26 5 0.12
27 17 0.40
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (27 bp):
TGCAGTTGCAAGCTGACGCAGTGTGAA
Found at i:16876102 original size:33 final size:33
Alignment explanation
Indices: 16876065--16876130 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
16876055 TAAAGTTGGA
16876065 GTAACATAATTATTTTCAAAATACTAAGTACAC
1 GTAACATAATTATTTTCAAAATACTAAGTACAC
16876098 GTAACATAATTATTTTCAAAATACTAAGTACAC
1 GTAACATAATTATTTTCAAAATACTAAGTACAC
16876131 CAGCTACTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (33 bp):
GTAACATAATTATTTTCAAAATACTAAGTACAC
Found at i:16879530 original size:29 final size:30
Alignment explanation
Indices: 16879494--16879559 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
16879484 AATAATCTAT
*
16879494 ATTTTTA-TAATTTTAAAAGATTAAATTAA
1 ATTTTTATTAATTTTAAAAGATTAAAGTAA
* * *
16879523 ATTTTTATTATTTTTAGAGGATTAAAGTAA
1 ATTTTTATTAATTTTAAAAGATTAAAGTAA
*
16879553 AATTTTA
1 ATTTTTA
16879560 CTATTACTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (30 bp):
ATTTTTATTAATTTTAAAAGATTAAAGTAA
Found at i:16880329 original size:51 final size:51
Alignment explanation
Indices: 16880230--16880362 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
16880220 CCATCAAATC
* * *
16880230 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
16880281 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
16880332 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
16880363 CATGTTTCTA
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:16881459 original size:96 final size:96
Alignment explanation
Indices: 16881269--16881462 Score: 291
Period size: 96 Copynumber: 2.0 Consensus size: 96
16881259 TCGCTTCTTT
* *
16881269 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTAGCCCTCTTGGATTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
* * * *
16881334 GTCTGCTCCATCGTTTCCTTTGATGACAGAC
66 ATCTGCTCCATCGATTCCTTCGATAACAGAC
* *
16881365 TTGCTCCTCTTTGCCCTCTTGGATTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGATTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
*
16881430 ATCTGCTCGATC-ATTCCTATCGATAACAGAC
66 ATCTGCTCCATCGATTCCT-TCGATAACAGAC
16881461 TT
1 TT
16881463 CCTCAGACAC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 5 0.06
96 83 0.94
ACGTcount: A:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGATTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
ATCTGCTCCATCGATTCCTTCGATAACAGAC
Found at i:16883222 original size:51 final size:51
Alignment explanation
Indices: 16883150--16883284 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 51
16883140 CCATCAAATC
* * *
16883150 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
* ** * * * ** *
16883201 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
*
16883252 TCTAAGATTATAATATCATATCTTTTAAGATTA
1 TCTAAGATTATAATATCATATCTTATAAGATTA
16883285 TGTTTCTATA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATAGATAAGATA
Found at i:16889096 original size:45 final size:48
Alignment explanation
Indices: 16889032--16889134 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 48
16889022 AAGTGTCGAC
*
16889032 TACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACT-C-TATACC-T
1 TACTGTTACTATTCCGGATTCGTTCCGAAGAGGTACTCCGTATACCGT
* * * * *
16889077 TACTGTTACTATTCTGGATTTGTTTCGATGAGGTACTCCGTGTACCGT
1 TACTGTTACTATTCCGGATTCGTTCCGAAGAGGTACTCCGTATACCGT
16889125 TACTGTTACT
1 TACTGTTACT
16889135 GTTACCGTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
45 32 0.65
46 1 0.02
47 5 0.10
48 11 0.22
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.40
Consensus pattern (48 bp):
TACTGTTACTATTCCGGATTCGTTCCGAAGAGGTACTCCGTATACCGT
Found at i:16889144 original size:12 final size:12
Alignment explanation
Indices: 16889123--16889152 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16889113 TCCGTGTACC
*
16889123 GTTACTGTTACT
1 GTTACCGTTACT
16889135 GTTACCGTTACT
1 GTTACCGTTACT
16889147 GTTACC
1 GTTACC
16889153 AATACGGTGT
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:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (12 bp):
GTTACCGTTACT
Found at i:16891146 original size:46 final size:46
Alignment explanation
Indices: 16891081--16891406 Score: 460
Period size: 46 Copynumber: 7.1 Consensus size: 46
16891071 TTATCTTTGA
* * * * *
16891081 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* * *
16891127 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
16891173 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
16891219 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
16891265 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
16891311 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATAT
16891357 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATAT
16891403 CATG
1 CATG
16891407 GTTCAACCAT
Statistics
Matches: 262, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 258 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Done.