Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 279 of 311
Found at i:91499954 original size:21 final size:18
Alignment explanation
Indices: 91499914--91499963 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 18
91499904 AAAAAAAAGA
91499914 AAAAGAAAAAACCTAACCC
1 AAAA-AAAAAACCTAACCC
91499933 AAAAAAAAAACCTTTAACCCC
1 AAAAAAAAAACC--TAA-CCC
91499954 AAAAAAAAAA
1 AAAAAAAAAA
91499964 ACCAAGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.29
19 4 0.14
20 3 0.11
21 13 0.46
ACGTcount: A:0.68, C:0.22, G:0.02, T:0.08
Consensus pattern (18 bp):
AAAAAAAAAACCTAACCC
Found at i:91507948 original size:90 final size:90
Alignment explanation
Indices: 91507795--91507959 Score: 226
Period size: 90 Copynumber: 1.8 Consensus size: 90
91507785 AGATCGAATC
* * * * * * *
91507795 CAGCGAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGATTTACAGATCTCACCCCCTA
1 CAGCGAATCTTGCCCTCCTGAAGTTACAGTGAAGCAGATTCAAGATCTACAAATCTAACCCCCTA
91507860 AGCAGTAGGGAAGCAGATCAGAAGA
66 AGCAGTAGGGAAGCAGATCAGAAGA
*
91507885 CAGCGAATCTTGCCCTCCTGAAGTTACAGTGAAGCAGATTCAA-A-CTACCAAATTTTAACCCCC
1 CAGCGAATCTTGCCCTCCTGAAGTTACAGTGAAGCAGATTCAAGATCTA-CAAA-TCTAACCCCC
91507948 TAAGCAGTAGGG
64 TAAGCAGTAGGG
91507960 TAACAAGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
88 2 0.03
89 4 0.06
90 59 0.91
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (90 bp):
CAGCGAATCTTGCCCTCCTGAAGTTACAGTGAAGCAGATTCAAGATCTACAAATCTAACCCCCTA
AGCAGTAGGGAAGCAGATCAGAAGA
Found at i:91508734 original size:21 final size:21
Alignment explanation
Indices: 91508675--91508734 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 21
91508665 ACTAAAAACC
*
91508675 ACAGCAGATCTCCTTGAAGTT
1 ACAGCAGATCTCCTTGAAGCT
* * ****
91508696 TCAGTAGAT-TAAACGAAGCT
1 ACAGCAGATCTCCTTGAAGCT
91508716 ACAGCAGATCTCCTTGAAG
1 ACAGCAGATCTCCTTGAAG
91508735 TTTCAGTGGA
Statistics
Matches: 25, Mismatches: 13, Indels: 2
0.62 0.32 0.05
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (21 bp):
ACAGCAGATCTCCTTGAAGCT
Found at i:91510278 original size:21 final size:22
Alignment explanation
Indices: 91510240--91510291 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
91510230 TAGACATTAC
*
91510240 ATATATTTTACGTATATTATGT
1 ATATATTTTACATATATTATGT
91510262 ATATATTTTA-ATATATTATGT
1 ATATATTTTACATATATTATGT
*
91510283 GTATATTTT
1 ATATATTTT
91510292 GTTTTGTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
ATATATTTTACATATATTATGT
Found at i:91510622 original size:25 final size:22
Alignment explanation
Indices: 91510573--91510621 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
91510563 CTACTACTAG
91510573 TATTACTATTATTTCTTTATTT
1 TATTACTATTATTTCTTTATTT
91510595 TATTACTATTATTGT-TTTATTT
1 TATTACTATTATT-TCTTTATTT
91510617 TATTA
1 TATTA
91510622 TGCTGCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTACTATTATTTCTTTATTT
Found at i:91510840 original size:24 final size:25
Alignment explanation
Indices: 91510782--91510840 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
91510772 TCCTTTTAAC
* * *
91510782 TTATTCTTCTTATTCTTATTTACTT
1 TTATTCATCTTATTATTATTTACTA
91510807 TTA-TCATCTTATTATT-TTTACCTA
1 TTATTCATCTTATTATTATTTA-CTA
91510831 TTATTC-TCTT
1 TTATTCATCTT
91510841 CTTCAATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTCATCTTATTATTATTTACTA
Found at i:91515028 original size:21 final size:21
Alignment explanation
Indices: 91515002--91515041 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91514992 TTGATTCTTT
91515002 TTTGTT-ATACATTTGCTGTCA
1 TTTGTTCA-ACATTTGCTGTCA
*
91515023 TTTGTTCAATATTTGCTGT
1 TTTGTTCAACATTTGCTGT
91515042 GTGCTCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.55
Consensus pattern (21 bp):
TTTGTTCAACATTTGCTGTCA
Found at i:91515371 original size:23 final size:23
Alignment explanation
Indices: 91515345--91515388 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
91515335 ATTTATTGAA
* *
91515345 TTTTTATTTTGTGATTTTTTTGT
1 TTTTTAATTTCTGATTTTTTTGT
*
91515368 TTTTTAATTTCTGGTTTTTTT
1 TTTTTAATTTCTGATTTTTTT
91515389 TTGGATCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.09, C:0.02, G:0.11, T:0.77
Consensus pattern (23 bp):
TTTTTAATTTCTGATTTTTTTGT
Found at i:91518344 original size:18 final size:16
Alignment explanation
Indices: 91518308--91518338 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91518298 ATAAATTTTC
*
91518308 AAAATATATTTTCTAT
1 AAAATATATTTTCAAT
91518324 AAAATATATTTTCAA
1 AAAATATATTTTCAA
91518339 AGTAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATATATTTTCAAT
Found at i:91522970 original size:4 final size:4
Alignment explanation
Indices: 91522961--91522986 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
91522951 ACCTTGAATA
91522961 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
91522987 TCCAGTCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:91525703 original size:42 final size:42
Alignment explanation
Indices: 91525640--91525753 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
91525630 CTTCTTTTTC
** * *
91525640 TCGATGCCATAGTTCAACTATGGTCTTACACATTTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
91525683 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
91525724 TCGATGCCATAGCCCAGTTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
91525754 TGAATCACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:91525786 original size:46 final size:45
Alignment explanation
Indices: 91525725--91525844 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 45
91525715 ATTCATATAT
* * * *
91525725 CGATGCCATAGCCCAGTTATGGTCTTACATGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACA-GAAGCACATATCACAC
* * *
91525771 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTC-T-TACAGAAGCACATATCACAC
*
91525818 CGATGTCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
91525845 TACGGAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.03
46 22 0.35
47 35 0.56
48 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (45 bp):
CGATGCCATATCCCAGATATGGTCTTACAGAAGCACATATCACAC
Found at i:91525901 original size:31 final size:31
Alignment explanation
Indices: 91525866--91526005 Score: 182
Period size: 31 Copynumber: 4.7 Consensus size: 31
91525856 CTTGTCACTT
* *
91525866 GTAGCCGAAGCTACCACTATTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
91525897 GTAGCC--A---ACCATTTTTCACTGGTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
91525923 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
91525954 GTAGCAGAAGCTACCGCTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
91525985 GTAGCCGAAGCTACCACTTTT
1 GTAGCCGAAGCTACCACTTTT
91526006 GACTTGTCAT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
26 21 0.23
28 1 0.01
29 1 0.01
31 70 0.75
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:91525907 original size:26 final size:26
Alignment explanation
Indices: 91525878--91525928 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
91525868 AGCCGAAGCT
91525878 ACCACTATTCACTAATCAGGTAGCCA
1 ACCACTATTCACTAATCAGGTAGCCA
* * **
91525904 ACCATTTTTCACTGGTCAGGTAGCC
1 ACCACTATTCACTAATCAGGTAGCC
91525929 GGAGCTACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (26 bp):
ACCACTATTCACTAATCAGGTAGCCA
Found at i:91526083 original size:50 final size:50
Alignment explanation
Indices: 91525985--91526161 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
91525975 CACTGATCAG
* * *
91525985 GTAGCCGAAGCTACCACTTTTGACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
91526036 GTAGCCGAAGCTATCACTTACCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
** *
91526086 GTAGCTAAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
91526136 GTAACCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
91526162 GTTACCATGG
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 90 0.80
51 22 0.20
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:91531059 original size:7 final size:7
Alignment explanation
Indices: 91531047--91531071 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
91531037 GGCAACTTAC
91531047 AATATAT
1 AATATAT
91531054 AATATAT
1 AATATAT
91531061 AATATAT
1 AATATAT
91531068 AATA
1 AATA
91531072 CTTTGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:91531446 original size:24 final size:26
Alignment explanation
Indices: 91531419--91531470 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
91531409 AAACAATTTG
91531419 AGAA-GAATACTAAATAAA-AGTTTA
1 AGAATGAATACTAAATAAAGAGTTTA
*
91531443 AGAATGAATACTATATAAAGTAGTTTA
1 AGAATGAATACTAAATAAAG-AGTTTA
91531470 A
1 A
91531471 ACTAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 13 0.54
27 7 0.29
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (26 bp):
AGAATGAATACTAAATAAAGAGTTTA
Found at i:91534197 original size:8 final size:8
Alignment explanation
Indices: 91534184--91534221 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
91534174 AACCAAAAAT
91534184 AAAAATAA
1 AAAAATAA
91534192 AAAAATAA
1 AAAAATAA
91534200 AAAAATGAA
1 AAAAAT-AA
91534209 GAAAAA-AA
1 -AAAAATAA
91534217 AAAAA
1 AAAAA
91534222 CCTAACCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.18
8 16 0.57
9 2 0.07
10 5 0.18
ACGTcount: A:0.87, C:0.00, G:0.05, T:0.08
Consensus pattern (8 bp):
AAAAATAA
Found at i:91534205 original size:16 final size:17
Alignment explanation
Indices: 91534178--91534221 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
91534168 AAATACAACC
*
91534178 AAAAATAAAAAT-AA-A
1 AAAAAAAAAAATGAAGA
91534193 AAAATAAAAAAATGAAGA
1 AAAA-AAAAAAATGAAGA
91534211 AAAAAAAAAAA
1 AAAAAAAAAAA
91534222 CCTAACCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 9 0.36
18 5 0.20
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.09
Consensus pattern (17 bp):
AAAAAAAAAAATGAAGA
Found at i:91535416 original size:19 final size:19
Alignment explanation
Indices: 91535392--91535429 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
91535382 TTGAGATTGG
*
91535392 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
*
91535411 CAACCTTTTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
91535430 TATTCATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:91543530 original size:68 final size:67
Alignment explanation
Indices: 91543458--91543607 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
91543448 CATCATGTGT
* * * *
91543458 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
91543520 ATGTAG
62 ATGTAG
** * *
91543526 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
91543591 AG
66 AG
91543593 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
91543608 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:91543563 original size:64 final size:64
Alignment explanation
Indices: 91543482--91543665 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
91543472 AGACATTATG
* *
91543482 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
91543546 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
91543611 AA
63 AA
* * * *
91543613 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
91543666 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:91551223 original size:44 final size:44
Alignment explanation
Indices: 91551171--91552059 Score: 1276
Period size: 44 Copynumber: 20.4 Consensus size: 44
91551161 AATCGAAGAT
91551171 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
91551215 GATTTGGCGCCTCTGTAGCGGCGAAGAGCAGATCAAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
91551259 GATTTGGCGTCTCTATAGTGGCAGAGAGCAGGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91551303 GCTTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91551343 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAAA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * **
91551387 GATTTGGCATCTCTGGAGCAACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91551431 GATTAGGCATCTCTATAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
91551475 GATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91551519 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91551563 GATTTGGCGTCTCTGTAGTGGTGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91551607 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91551651 GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91551695 GATTTGGCGTCTCTGTAGTGGCGGAGAAG-AGATAGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAG-AGCAGATCGAAGATAACA
* * *
91551739 GATTTGGCGTCTCTGTAACGGTGAAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91551779 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91551823 GATTTGGCGTTTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91551867 GATTTGGCGTATCTGTAGCGGTGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91551911 GATTTGGCGTCTCTGTAGCGGCGAAGAGCTGATCGAAGATAAAA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91551955 GATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91551999 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91552042 GAATTTGGCGTCTCTGTA
1 G-ATTTGGCGTCTCTGTA
91552060 TTAGACAGGG
Statistics
Matches: 749, Mismatches: 85, Indels: 22
0.88 0.10 0.03
Matches are distributed among these distances:
40 73 0.10
43 3 0.00
44 671 0.90
45 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:91552643 original size:9 final size:9
Alignment explanation
Indices: 91552625--91552663 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
91552615 CCTTTGTTCA
*
91552625 TTTTTCATT
1 TTTTTTATT
91552634 TTTTTTATT
1 TTTTTTATT
91552643 TTATTTTATT
1 TT-TTTTATT
*
91552653 TTCTTTATT
1 TTTTTTATT
91552662 TT
1 TT
91552664 ATATATATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTATT
Found at i:91552659 original size:19 final size:20
Alignment explanation
Indices: 91552626--91552665 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
91552616 CTTTGTTCAT
*
91552626 TTTTCATTTTTTTTATTTTA
1 TTTTCATTTTCTTTATTTTA
91552646 TTTT-ATTTTCTTTATTTTA
1 TTTTCATTTTCTTTATTTTA
91552665 T
1 T
91552666 ATATATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCATTTTCTTTATTTTA
Found at i:91553577 original size:19 final size:19
Alignment explanation
Indices: 91553553--91553590 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91553543 TTGAGATTGC
*
91553553 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
91553572 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
91553591 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:91554787 original size:31 final size:31
Alignment explanation
Indices: 91554737--91554798 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
91554727 GTTACAATTT
*
91554737 GTCACTGAATTATTCAAAAGTTT-TCATTTAA
1 GTCACTGAACTATTCAAAAGTTTGT-ATTTAA
* *
91554768 GTCATTGAACTATTTAAAAGTTTGTATTTAA
1 GTCACTGAACTATTCAAAAGTTTGTATTTAA
91554799 ATTATTGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTGTATTTAA
Found at i:91559188 original size:30 final size:30
Alignment explanation
Indices: 91559152--91559209 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
91559142 TTTTTGTAAT
* * *
91559152 ATTTATTTTACACTTTCATATTTATATATC
1 ATTTATTTTAAAATTTCATATATATATATC
*
91559182 ATTTATTTTAAAATTTTATATATATATA
1 ATTTATTTTAAAATTTCATATATATATA
91559210 ATCTGTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTATTTTAAAATTTCATATATATATATC
Found at i:91563085 original size:19 final size:19
Alignment explanation
Indices: 91563058--91563101 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
91563048 TCTTTTTGCA
* *
91563058 TTCATTCATTTGCATTACAT
1 TTCA-TCATATGCATTAAAT
91563078 TTCATCATATGCATTAAAT
1 TTCATCATATGCATTAAAT
91563097 TTCAT
1 TTCAT
91563102 GAAAAGACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.48
Consensus pattern (19 bp):
TTCATCATATGCATTAAAT
Found at i:91571231 original size:50 final size:44
Alignment explanation
Indices: 91571193--91571319 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 44
91571183 AATCACCATG
*
91571193 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTC
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATC
* * * *
91571237 GCGAGTCTTATCTCCCTGAAATTGCAGTGGAGTAGACTGAAAATA
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG-AAATC
* * * * *
91571282 GCAAATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATT
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
91571320 AAGGCTATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 36 0.52
45 33 0.48
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATC
Found at i:91571475 original size:44 final size:45
Alignment explanation
Indices: 91571427--91571543 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 45
91571417 GCCATGAACA
** *
91571427 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAAAT-ACAAGTC
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAACAAATC
* * * * ** *
91571471 TTATCTCCCCGAGGTTGTAGTGGAATAGACTGAAGATAACAAATC
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAACAAATC
* *
91571516 TTCT-TCTCTGAAGTTGCAGTAGAGCAGA
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGA
91571544 TTAAGGCTAT
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
44 45 0.83
45 9 0.17
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAACAAATC
Found at i:91571601 original size:226 final size:227
Alignment explanation
Indices: 91571200--91571703 Score: 706
Period size: 226 Copynumber: 2.2 Consensus size: 227
91571190 ATGGCGAATC
* * * * * *
91571200 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTG-AAGTCGCGAGTCTTATCTCCCTGAAATTGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAAT-ACAAGTCTTATCTCCCCGAAATTGCAG
* * *
91571264 TGGAGTAGACTGAAAATAGCAAATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATTAAGGCTATA
65 TGGAATAGACTGAAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATA
* * * * *
91571329 AGTCCTATACTTTTGAAGTTGCAGTGGGTCGGATCAAATCTATCATGGCAAATCTTATCTCTCTA
130 AGTCCTATACCTCTAAAGTTGCAGTAGGTCGGACCAAATCTATCATGGCAAATCTTATCTCTCTA
*
91571394 AAGTTGCAGTAGAACAGATTAAAGCCATGAACA
195 AAGTTGCAGTAGAACAGATTAAAGCCATCAACA
* ** *
91571427 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAAATACAAGTCTTATCTCCCCGAGGTTGTAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATACAAGTCTTATCTCCCCGAAATTGCAGT
* *
91571492 GGAATAGACTGAAGATAACAAATCTTCT-TCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAA
66 GGAATAGACTGAAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAA
* * *
91571556 GTCCTATACCTCTAAAGTTGCAGTAGGTCGGACCAAATTTATCATGGCAAATCTTATCTCTTTGA
131 GTCCTATACCTCTAAAGTTGCAGTAGGTCGGACCAAATCTATCATGGCAAATCTTATCTCTCTAA
* *
91571621 AGTTGCAGTAGAGCAGATTAAAGCCATCAACC
196 AGTTGCAGTAGAACAGATTAAAGCCATCAACA
* * * *
91571653 TTATTTCCCTGAAGATGCAGTGGAGCAGGTTGAAATTACCAAATCTTATCT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATA-CAAGTCTTATCT
91571704 TTTTGAAGTT
Statistics
Matches: 244, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
226 155 0.64
227 86 0.35
228 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (227 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATACAAGTCTTATCTCCCCGAAATTGCAGT
GGAATAGACTGAAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAA
GTCCTATACCTCTAAAGTTGCAGTAGGTCGGACCAAATCTATCATGGCAAATCTTATCTCTCTAA
AGTTGCAGTAGAACAGATTAAAGCCATCAACA
Found at i:91572440 original size:17 final size:17
Alignment explanation
Indices: 91572421--91572456 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
91572411 CTATTTTCGT
*
91572421 TTTTTTGTTTTTT-TTA
1 TTTTTTATTTTTTATTA
91572437 TTTTTTATTTTTTATTA
1 TTTTTTATTTTTTATTA
91572454 TTT
1 TTT
91572457 CATAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (17 bp):
TTTTTTATTTTTTATTA
Found at i:91573732 original size:28 final size:27
Alignment explanation
Indices: 91573676--91573780 Score: 79
Period size: 28 Copynumber: 3.8 Consensus size: 27
91573666 TTTAATAGTT
**
91573676 TTTATA-ATATTTATTTTACACTTTCATA
1 TTTATATATATTTATTTTA-A-AATCATA
*
91573704 TTTATATATCATTTATTTTAAAATTATA
1 TTTATATAT-ATTTATTTTAAAATCATA
* * * *
91573732 TATATATATAATTTGTTTTTAAATCGT-
1 TTTATATAT-ATTTATTTTAAAATCATA
*
91573759 TTTATACATAGTTTATTTTAAA
1 TTTATATATA-TTTATTTTAAA
91573781 TTTGTTATTT
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.02
27 16 0.26
28 31 0.51
29 3 0.05
30 10 0.16
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (27 bp):
TTTATATATATTTATTTTAAAATCATA
Found at i:91576386 original size:16 final size:18
Alignment explanation
Indices: 91576360--91576392 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91576350 TTTAATTAAC
91576360 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
91576377 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
91576393 CTTGTCACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:91579574 original size:27 final size:27
Alignment explanation
Indices: 91579544--91579610 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
91579534 TTGTCACATT
91579544 TCACTTTGCCATATTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
* *
91579571 TCACTTTGCCATGTTTGGCATACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
91579598 TCACTTTGCCATA
1 TCACTTTGCCATA
91579611 GTTCAACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (27 bp):
TCACTTTGCCATATTTGGCACACTTTA
Found at i:91581623 original size:16 final size:16
Alignment explanation
Indices: 91581575--91581628 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
91581565 TTTGGTTCGC
*
91581575 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
91581591 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
91581607 TGTAATGGAATAAAGG
1 TGTAATGGAATAGAGG
91581623 TTGTAA
1 -TGTAA
91581629 GCACTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
16 28 0.85
17 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.33, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:91581729 original size:30 final size:31
Alignment explanation
Indices: 91581695--91581796 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
91581685 AATTTTTAAA
*
91581695 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
91581725 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
91581755 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
91581785 AAATTTCATTTT
1 AAATTTCATTTT
91581797 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:91582173 original size:3 final size:3
Alignment explanation
Indices: 91582165--91582223 Score: 64
Period size: 3 Copynumber: 18.0 Consensus size: 3
91582155 GCTCGGTTTT
*
91582165 GAA GAA GAA TAA GAA GGAA GAA GAA GAA GAA GAAA GAAA GAGA GAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA G-AA G-AA GA-A GAA GAA
91582214 GAAA GAA GAA
1 G-AA GAA GAA
91582224 AAAAAAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
3 34 0.68
4 16 0.32
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:91582189 original size:19 final size:20
Alignment explanation
Indices: 91582165--91582220 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 20
91582155 GCTCGGTTTT
* *
91582165 GAAGAAGAATAAG-AAGGAA
1 GAAGAAGAAGAAGAAAGAAA
91582184 GAAGAAGAAGAAGAAAGAAA
1 GAAGAAGAAGAAGAAAGAAA
91582204 G-AG-AGAAGAAGAAAGAA
1 GAAGAAGAAGAAGAAAGAA
91582221 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 14 0.41
19 14 0.41
20 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (20 bp):
GAAGAAGAAGAAGAAAGAAA
Found at i:91582222 original size:7 final size:7
Alignment explanation
Indices: 91582175--91582224 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
91582165 GAAGAAGAAT
*
91582175 AAGAAGG
1 AAGAAGA
91582182 AAGAAG-
1 AAGAAGA
91582188 AAGAAG-
1 AAGAAGA
91582194 AAGAAAGA
1 AAG-AAGA
91582202 AAG-AGA
1 AAGAAGA
91582208 GAAGAAGA
1 -AAGAAGA
91582216 AAGAAGA
1 AAGAAGA
91582223 AA
1 AA
91582225 AAAAAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 12 0.31
7 21 0.54
8 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:91582222 original size:10 final size:10
Alignment explanation
Indices: 91582165--91582223 Score: 63
Period size: 10 Copynumber: 6.3 Consensus size: 10
91582155 GCTCGGTTTT
91582165 GAAG-AAGAA
1 GAAGAAAGAA
* *
91582174 TAAGAAGGAA
1 GAAGAAAGAA
91582184 GAAG-AAGAA
1 GAAGAAAGAA
91582193 GAAGAAAG-A
1 GAAGAAAGAA
*
91582202 -AAGAGAGAA
1 GAAGAAAGAA
91582211 GAAGAAAGAA
1 GAAGAAAGAA
91582221 GAA
1 GAA
91582224 AAAAAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
8 6 0.15
9 13 0.32
10 21 0.52
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (10 bp):
GAAGAAAGAA
Found at i:91582528 original size:18 final size:17
Alignment explanation
Indices: 91582507--91582570 Score: 80
Period size: 18 Copynumber: 3.8 Consensus size: 17
91582497 AAAAAGGAAG
91582507 AAAAAGAAGAAAAAAGGA
1 AAAAAGAAGAAAAAA-GA
91582525 AAAAAGAA-AAAAAA-A
1 AAAAAGAAGAAAAAAGA
*
91582540 GAAAA-AAGAAAAAAGA
1 AAAAAGAAGAAAAAAGA
91582556 AAAAAGGAAGAAAAA
1 AAAAA-GAAGAAAAA
91582571 GGGGGTTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 2 0.05
15 11 0.28
16 5 0.12
17 6 0.15
18 16 0.40
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAAAAAAGA
Found at i:91582531 original size:24 final size:24
Alignment explanation
Indices: 91582496--91582570 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 24
91582486 CCCAGCAGAA
91582496 AAAAAAGGAAGAAAAAGAAGAAAAAAGG
1 AAAAAA-GAAG-AAAA-AAGAAAAAA-G
*
91582524 AAAAAAGAAAAAAAAAGAAAAAAG
1 AAAAAAGAAGAAAAAAGAAAAAAG
91582548 AAAAAAGAA-AAAAGGAAGAAAAA
1 AAAAAAGAAGAAAA--AAGAAAAA
91582571 GGGGGTTCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
23 4 0.09
24 10 0.23
25 17 0.39
26 4 0.09
27 3 0.07
28 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAGAAAAAAGAAAAAAG
Found at i:91582533 original size:7 final size:7
Alignment explanation
Indices: 91582508--91582561 Score: 63
Period size: 7 Copynumber: 7.0 Consensus size: 7
91582498 AAAAGGAAGA
91582508 AAAAGAAG
1 AAAA-AAG
91582516 AAAAAAGG
1 AAAAAA-G
91582524 AAAAAAG
1 AAAAAAG
91582531 AAAAAAAAAG
1 ---AAAAAAG
91582541 AAAAAAG
1 AAAAAAG
91582548 AAAAAAG
1 AAAAAAG
91582555 AAAAAAG
1 AAAAAAG
91582562 GAAGAAAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
7 24 0.57
8 11 0.26
10 7 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:91582571 original size:24 final size:23
Alignment explanation
Indices: 91582504--91582571 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
91582494 AAAAAAAAGG
* *
91582504 AAGAAAAAGAAGAAAAAAGGAAAA
1 AAGAAAAA-AGGAAAAAAAGAAAA
**
91582528 AAGAAAAAAAAAGAAAAAAGAAAA
1 AAGAAAAAAGGA-AAAAAAGAAAA
91582552 AAGAAAAAAGGAAGAAAAAG
1 AAGAAAAAAGGAA-AAAAAG
91582572 GGGGTTCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.11
24 34 0.89
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAGGAAAAAAAGAAAA
Found at i:91583161 original size:20 final size:22
Alignment explanation
Indices: 91583121--91583162 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
91583111 AATTTTGTGT
*
91583121 AAAAAATCCAGTGTTTTCAAAA
1 AAAAAATCCAGTGTTTCCAAAA
91583143 AAAAAATCCA-T-TTTCCAAAA
1 AAAAAATCCAGTGTTTCCAAAA
91583163 TTTTTAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAATCCAGTGTTTCCAAAA
Found at i:91583232 original size:18 final size:17
Alignment explanation
Indices: 91583158--91583319 Score: 150
Period size: 17 Copynumber: 9.4 Consensus size: 17
91583148 ATCCATTTTC
* *
91583158 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
91583176 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
91583194 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
91583210 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
91583227 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
91583245 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
91583262 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
91583280 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
91583297 -TGAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
91583314 CAAAAA
1 CAAAAA
91583320 AAAATCTCGT
Statistics
Matches: 117, Mismatches: 19, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
16 21 0.18
17 51 0.44
18 33 0.28
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:91583263 original size:35 final size:35
Alignment explanation
Indices: 91583179--91583318 Score: 155
Period size: 35 Copynumber: 4.1 Consensus size: 35
91583169 GTGTCTTCTA
91583179 AAAATTTTT-GTGTTTCAAAAATTTTC--GTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* *
91583211 AAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* ** *
91583246 AAAATTTTTCGTATTTCAAAAATCCTCTTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
* **
91583281 AAAA-ATTTCGGTGTTT-TGAAATTTTCGTGTTTTC
1 AAAATTTTTC-GTGTTTCAAAAATTTTCGTGTTTTC
91583315 AAAA
1 AAAA
91583319 AAAAATCTCG
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
32 7 0.08
33 17 0.19
34 21 0.24
35 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (35 bp):
AAAATTTTTCGTGTTTCAAAAATTTTCGTGTTTTC
Found at i:91592173 original size:18 final size:17
Alignment explanation
Indices: 91592132--91592174 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
91592122 TCCTTTCTAT
91592132 TTTCAAAATTTTCGTGC
1 TTTCAAAATTTTCGTGC
*
91592149 CTTCAAAATTTTCTCGTG-
1 TTTCAAAA-TTT-TCGTGC
91592167 TTTCAAAA
1 TTTCAAAA
91592175 AAAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 10 0.45
19 5 0.23
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (17 bp):
TTTCAAAATTTTCGTGC
Found at i:91592189 original size:24 final size:24
Alignment explanation
Indices: 91592153--91592199 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
91592143 TCGTGCCTTC
* *
91592153 AAAATTTTCTCGTGTTTCAAAAAA
1 AAAATATTATCGTGTTTCAAAAAA
*
91592177 AAAATATTATCGTGTTTTAAAAA
1 AAAATATTATCGTGTTTCAAAAA
91592200 TAAGACAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (24 bp):
AAAATATTATCGTGTTTCAAAAAA
Found at i:91592352 original size:19 final size:21
Alignment explanation
Indices: 91592313--91592353 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
91592303 AAATTTGTGT
*
91592313 AAAAAATCCAGTGTTTTCAAA
1 AAAAAATCCAGTGTTTCCAAA
91592334 AAAAAATCCA-T-TTTCCAAA
1 AAAAAATCCAGTGTTTCCAAA
91592353 A
1 A
91592354 TTTTTAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAAAATCCAGTGTTTCCAAA
Found at i:91592391 original size:17 final size:17
Alignment explanation
Indices: 91592345--91592514 Score: 112
Period size: 17 Copynumber: 9.5 Consensus size: 17
91592335 AAAAATCCAT
*
91592345 TTTCCAAAATTTTTAGTG
1 TTTCAAAAATTTTT-GTG
91592363 TCTTCTAAAAATTTTTGTG
1 T-TTC-AAAAATTTTTGTG
*
91592382 TTTCAAAAATTTTCGT-
1 TTTCAAAAATTTTTGTG
**
91592398 TTTCAAAAAATTTCCGTG
1 TTTC-AAAAATTTTTGTG
*
91592416 TTTCAAAAATTTTCGTGTT
1 TTTCAAAAATTTT--TGTG
*
91592435 TTTC-AAAATTTTTCGTA
1 TTTCAAAAATTTTT-GTG
*
91592452 TTTCAAAAATCCTCTTGT-
1 TTTCAAAAAT--TTTTGTG
**
91592470 TTTCAAAAAATTTCGGTG
1 TTTC-AAAAATTTTTGTG
** *
91592488 TTTTGAAAATTTTCGTG
1 TTTCAAAAATTTTTGTG
91592505 TTTTCAAAAA
1 -TTTCAAAAA
91592515 AAAATCTCGT
Statistics
Matches: 122, Mismatches: 17, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
16 5 0.04
17 49 0.40
18 35 0.29
19 21 0.17
20 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (17 bp):
TTTCAAAAATTTTTGTG
Found at i:91592461 original size:18 final size:18
Alignment explanation
Indices: 91592345--91592514 Score: 124
Period size: 18 Copynumber: 9.5 Consensus size: 18
91592335 AAAAATCCAT
* *
91592345 TTTCCAAAATTTTTAGTG
1 TTTCAAAAATTTTTCGTG
91592363 TCTTCTAAAAATTTTT-GTG
1 T-TTC-AAAAATTTTTCGTG
91592382 TTTCAAAAA-TTTTCGT-
1 TTTCAAAAATTTTTCGTG
* *
91592398 TTTCAAAAAATTTCCGTG
1 TTTCAAAAATTTTTCGTG
91592416 TTTCAAAAA-TTTTCGTG
1 TTTCAAAAATTTTTCGTG
*
91592433 TTTTTC-AAAATTTTTCGTA
1 --TTTCAAAAATTTTTCGTG
*
91592452 TTTCAAAAATCCTCTT-GT-
1 TTTCAAAAAT--TTTTCGTG
*
91592470 TTTCAAAAA-ATTTCGGTG
1 TTTCAAAAATTTTTC-GTG
**
91592488 TTTTGAAAA-TTTTCGTG
1 TTTCAAAAATTTTTCGTG
91592505 TTTTCAAAAA
1 -TTTCAAAAA
91592515 AAAATCTCGT
Statistics
Matches: 125, Mismatches: 12, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.02
16 13 0.10
17 29 0.23
18 49 0.39
19 20 0.16
20 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (18 bp):
TTTCAAAAATTTTTCGTG
Found at i:91592515 original size:36 final size:35
Alignment explanation
Indices: 91592349--91592515 Score: 167
Period size: 36 Copynumber: 4.7 Consensus size: 35
91592339 ATCCATTTTC
* * * * *
91592349 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAAATTTCGTGTTT
91592385 CAAAAATTTTC--GTTTTCAAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAAATTT-CGTGTTT
** *
91592419 CAAAAATTTTCGTGTTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTG-TTTTCAAAAAATTTCGTGTTT
** *
91592455 CAAAAATCCTCTTGTTTTCAAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAAATTTC-GTGTTT
**
91592491 TGAAAATTTTCGTGTTTTCAAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAAA
91592516 AAATCTCGTG
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
33 8 0.07
34 22 0.21
35 13 0.12
36 52 0.49
37 12 0.11
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (35 bp):
CAAAAATTTTCGTGTTTTCAAAAAATTTCGTGTTT
Found at i:91593247 original size:15 final size:16
Alignment explanation
Indices: 91593213--91593246 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
91593203 AATTATTATT
91593213 AAATATAATTTAATAA
1 AAATATAATTTAATAA
* *
91593229 AAATATATTTTAGTAA
1 AAATATAATTTAATAA
91593245 AA
1 AA
91593247 TTCTTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:91593327 original size:118 final size:119
Alignment explanation
Indices: 91593195--91593416 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 119
91593185 TTAATCATAT
*
91593195 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATAT-TTTAGTAAAATTCTTAATATTA
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATATTTAATAAAATTCTTAATATTA
91593259 AATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
66 AATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
91593313 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATAT-ATTTAATAAAATTCTTAATATT
91593378 AAATATTCTTATATGAATTTTCTAAAATCATAATATATA
65 AAATATTCTTATATGAATTTTCTAAAATCATAATATATA
91593417 TAATACTACA
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
118 42 0.42
120 59 0.58
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (119 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATATTTAATAAAATTCTTAATATTA
AATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
Found at i:91593414 original size:59 final size:59
Alignment explanation
Indices: 91593230--91593414 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
91593220 ATTTAATAAA
* *
91593230 AATATATTTTAGTAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
* * * * * **
91593289 AATAT-ATAATACTATAAAATATAATTTAACA-TAATTATTATTAAATAT-AATTTAATAAAA--
1 AATATAAT-TTA--ATAAAAT-T--CTTAATATTAAATATTCTT--ATATGAATTTTCTAAAATC
91593349 AT
58 AT
91593351 -ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
91593409 AATATA
1 AATATA
91593415 TATAATACTA
Statistics
Matches: 96, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
55 4 0.04
56 15 0.16
57 9 0.09
58 4 0.04
59 19 0.20
61 12 0.12
62 5 0.05
63 9 0.09
64 15 0.16
65 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (59 bp):
AATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
Found at i:91593542 original size:14 final size:15
Alignment explanation
Indices: 91593523--91593555 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
91593513 CATTATTCTT
*
91593523 AAAATTCAAAAA-TA
1 AAAATTAAAAAACTA
91593537 AAAATTAAAAAACTA
1 AAAATTAAAAAACTA
91593552 AAAA
1 AAAA
91593556 ATTTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAAACTA
Found at i:91594025 original size:58 final size:58
Alignment explanation
Indices: 91593902--91594051 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
91593892 AAAGTTGCTA
* **
91593902 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
* * * *
91593960 TGTTTTGGCACCAAAAGTAAACCACAAGTCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
*
91594019 TGTTTGGGCACTAAAAGCAACCGCAA-TCACAAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAG
91594052 CCACAAGTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:91602597 original size:21 final size:21
Alignment explanation
Indices: 91602573--91602614 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
91602563 AATTCTCGAA
*
91602573 TTTAAGAT-TTTAAGTTTAAGG
1 TTTAAGATATTGAA-TTTAAGG
91602594 TTTAAGATATTGAATTTAAGG
1 TTTAAGATATTGAATTTAAGG
91602615 ATATAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (21 bp):
TTTAAGATATTGAATTTAAGG
Found at i:91603076 original size:19 final size:19
Alignment explanation
Indices: 91603054--91603111 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
91603044 AAATTTTAAA
91603054 ATACTTTTTTTATAATTTT
1 ATACTTTTTTTATAATTTT
91603073 ATACTTTTTTTATAATTTT
1 ATACTTTTTTTATAATTTT
**
91603092 ATACTTTTTAAATAATTTT
1 ATACTTTTTTTATAATTTT
91603111 A
1 A
91603112 AATTTAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
ATACTTTTTTTATAATTTT
Found at i:91604378 original size:24 final size:24
Alignment explanation
Indices: 91604333--91604378 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
91604323 ATTTTTCGAT
* *
91604333 AAAAATACATAAGATTTCATAATA
1 AAAAATACATAAAAATTCATAATA
91604357 AAAAATACATATAAAATT-ATAA
1 AAAAATACATA-AAAATTCATAA
91604379 AATTTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATACATAAAAATTCATAATA
Found at i:91606181 original size:35 final size:35
Alignment explanation
Indices: 91606142--91606217 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
91606132 ATGTTATGTA
* *
91606142 AACCCTAGGTACTATGCGAGCCTATATATAATGCG
1 AACCCTAAGTACTATACGAGCCTATATATAATGCG
* *
91606177 AACCCTAAGTACTATATGAGCCTATATATTATGCG
1 AACCCTAAGTACTATACGAGCCTATATATAATGCG
91606212 AACCCT
1 AACCCT
91606218 GTGTATGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (35 bp):
AACCCTAAGTACTATACGAGCCTATATATAATGCG
Found at i:91607066 original size:21 final size:21
Alignment explanation
Indices: 91607041--91607109 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
91607031 TATAATGATT
91607041 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
91607062 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
91607082 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
91607102 ATTATTAT
1 ATTATTAT
91607110 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:91607122 original size:15 final size:14
Alignment explanation
Indices: 91607096--91607126 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
91607086 TATGGTTTTA
91607096 TATTAGATTATTAT
1 TATTAGATTATTAT
91607110 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
91607125 TA
1 TA
91607127 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:91607648 original size:6 final size:6
Alignment explanation
Indices: 91607637--91607665 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
91607627 TGTTGTCTTT
91607637 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
91607666 TTGCGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:91614199 original size:6 final size:6
Alignment explanation
Indices: 91614190--91614214 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
91614180 CTATTACTAT
91614190 TACAAC TACAAC TACAAC TACAAC T
1 TACAAC TACAAC TACAAC TACAAC T
91614215 TCTAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (6 bp):
TACAAC
Found at i:91616452 original size:23 final size:23
Alignment explanation
Indices: 91616425--91616472 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
91616415 ATTTTTTGAG
91616425 ATAAAATATATTTAACATTAATT
1 ATAAAATATATTTAACATTAATT
91616448 ATAAAATATATTTAACATTAATT
1 ATAAAATATATTTAACATTAATT
91616471 AT
1 AT
91616473 CTTTTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAAAATATATTTAACATTAATT
Found at i:91616526 original size:35 final size:35
Alignment explanation
Indices: 91616487--91616554 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
91616477 TACTTTCAAT
*
91616487 AATCATAA-ATCTATTAAAATTATAATT-TAAATTTG
1 AATCACAATATCT-TTAAAATT-TAATTATAAATTTG
91616522 AATCACAATTATCTTTAAAATTTAATTATAAAT
1 AATCACAA-TATCTTTAAAATTTAATTATAAAT
91616555 ACTTCCATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 12 0.41
36 13 0.45
37 4 0.14
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (35 bp):
AATCACAATATCTTTAAAATTTAATTATAAATTTG
Found at i:91616795 original size:28 final size:28
Alignment explanation
Indices: 91616744--91616815 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
91616734 ATGGCTTTTT
* * *
91616744 TATAAAAATAATTTAAAATTTTTAATTAAT
1 TATAAAAATAACTT--ATTTTTTAATTAAA
* * *
91616774 TATCAAAATGACTTATTTTTTATTTAAA
1 TATAAAAATAACTTATTTTTTAATTAAA
91616802 TATAAAAATAACTT
1 TATAAAAATAACTT
91616816 GAAATTTACA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 23 0.68
30 11 0.32
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (28 bp):
TATAAAAATAACTTATTTTTTAATTAAA
Found at i:91617096 original size:14 final size:14
Alignment explanation
Indices: 91617078--91617133 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
91617068 CTTTCGTCCC
*
91617078 TTTTTTTTATCTTTA
1 TTTTATTTAT-TTTA
91617093 TTTTATTTATTTTA
1 TTTTATTTATTTTA
*
91617107 TTTTACTTATTTTA
1 TTTTATTTATTTTA
* *
91617121 -CTTATTAATTTTA
1 TTTTATTTATTTTA
91617134 AAAATTTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
13 10 0.28
14 17 0.47
15 9 0.25
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:91617218 original size:13 final size:15
Alignment explanation
Indices: 91617188--91617219 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
91617178 ATTTTTTAAA
91617188 TTTAAATATATATTT
1 TTTAAATATATATTT
91617203 TTTAAAT-TAT-TTT
1 TTTAAATATATATTT
91617216 TTTA
1 TTTA
91617220 GATTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAAATATATATTT
Found at i:91617238 original size:34 final size:34
Alignment explanation
Indices: 91617179--91617244 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
91617169 TATATATATA
*
91617179 TTTTTTAAATTTAAATATATATTTTTTAAATTAT
1 TTTTTTAAATTTAAATATATATTTTTAAAATTAT
*
91617213 TTTTTTAGATTTTAAA-AT-TATTTTTTAAAATT
1 TTTTTTA-AATTTAAATATATA-TTTTTAAAATT
91617245 TTGAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 2 0.07
34 19 0.68
35 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (34 bp):
TTTTTTAAATTTAAATATATATTTTTAAAATTAT
Found at i:91617283 original size:21 final size:21
Alignment explanation
Indices: 91617208--91617281 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 21
91617198 TATTTTTTAA
*
91617208 ATTATTTTTTTAGATTTTAAA-
1 ATTA-TTTTTTAAATTTTAAAT
*
91617229 ATTATTTTTTAAAATTTTGAAT
1 ATTATTTTTT-AAATTTTAAAT
*
91617251 ATTATTTTTTAAATGTTAAAT
1 ATTATTTTTTAAATTTTAAAT
91617272 ATATATTTTT
1 AT-TATTTTT
91617282 AATAGTATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 6 0.13
21 23 0.50
22 17 0.37
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTATTTTTTAAATTTTAAAT
Found at i:91617581 original size:16 final size:16
Alignment explanation
Indices: 91617556--91617604 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
91617546 AATATAAAAC
*
91617556 AAATTAAAAATATTTA
1 AAATTTAAAATATTTA
91617572 AAATTTAAAATA--T-
1 AAATTTAAAATATTTA
*
91617585 ACATTTAAAATATTATA
1 AAATTTAAAATATT-TA
91617602 AAA
1 AAA
91617605 CTAATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
16 12 0.46
17 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTTAAAATATTTA
Found at i:91617680 original size:23 final size:21
Alignment explanation
Indices: 91617646--91617696 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
91617636 AAATATTTAA
*
91617646 ATAT-TTTATATTATTAAAAAT
1 ATATATTTATATT-TCAAAAAT
91617667 ATATATTTAGTATTTCAAAAAT
1 ATATATTTA-TATTTCAAAAAT
91617689 A-ATATTTA
1 ATATATTTA
91617697 AAATTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 11 0.41
22 12 0.44
23 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATATTTATATTTCAAAAAT
Found at i:91617702 original size:21 final size:22
Alignment explanation
Indices: 91617661--91617713 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
91617651 TTATATTATT
** *
91617661 AAAAATATATATTTAGTA-TTTC
1 AAAAATA-ATATTTAAAATTTTA
91617683 AAAAATAATATTTAAAATTTTA
1 AAAAATAATATTTAAAATTTTA
91617705 AAAAATAAT
1 AAAAATAAT
91617714 TTCAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAAATAATATTTAAAATTTTA
Found at i:91617758 original size:34 final size:34
Alignment explanation
Indices: 91617678--91617755 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 34
91617668 TATATTTAGT
91617678 ATTTCAAAAATA-ATATTTAAAATTTTAAAAAATA
1 ATTT-AAAAATATATATTTAAAATTTTAAAAAATA
*
91617712 ATTTCAAAAATATATATTTAAAA-TTTAAAATATA
1 ATTT-AAAAATATATATTTAAAATTTTAAAAAATA
91617746 TATTATAAAA
1 -ATT-TAAAA
91617756 TATTTCAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 22 0.55
35 17 0.43
36 1 0.03
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (34 bp):
ATTTAAAAATATATATTTAAAATTTTAAAAAATA
Found at i:91617768 original size:23 final size:20
Alignment explanation
Indices: 91617565--91617756 Score: 75
Period size: 20 Copynumber: 9.6 Consensus size: 20
91617555 CAAATTAAAA
91617565 ATATTTAAAATTTAAAATAT
1 ATATTTAAAATTTAAAATAT
*
91617585 ACATTTAAAATATTATAAA-ACT
1 ATATTTAAAAT-TTA-AAATA-T
* *
91617607 A-A-TAATAAATTTGAAATGTCAT
1 ATATTTA-AAATTT-AAA-AT-AT
* *
91617629 ATCTTTAAAATATTTAAATAT
1 ATATTTAAAAT-TTAAAATAT
** *
91617650 -T-TTATATTATTAAAAATAT
1 ATATT-TAAAATTTAAAATAT
**
91617669 ATATTTAGTATTTCAAAA-AT
1 ATATTTAAAATTT-AAAATAT
*
91617689 AATATTTAAAATTTTAAAAAAT
1 -ATATTTAAAA-TTTAAAATAT
*
91617711 A-ATTT--CA---AAAATAT
1 ATATTTAAAATTTAAAATAT
91617725 ATATTTAAAATTTAAAATAT
1 ATATTTAAAATTTAAAATAT
91617745 ATATTATAAAAT
1 ATATT-TAAAAT
91617757 ATTTCAAATA
Statistics
Matches: 129, Mismatches: 18, Indels: 49
0.66 0.09 0.25
Matches are distributed among these distances:
14 7 0.05
15 4 0.03
17 1 0.01
18 1 0.01
19 9 0.07
20 46 0.36
21 37 0.29
22 13 0.10
23 7 0.05
24 4 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (20 bp):
ATATTTAAAATTTAAAATAT
Found at i:91617823 original size:18 final size:19
Alignment explanation
Indices: 91617800--91617839 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
91617790 TAATAATAAA
*
91617800 AAATAAGTAAAATAAA-AT
1 AAATAAATAAAATAAAGAT
91617818 AAATAAATAAAATAAAGAT
1 AAATAAATAAAATAAAGAT
91617837 AAA
1 AAA
91617840 AACAAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (19 bp):
AAATAAATAAAATAAAGAT
Found at i:91617827 original size:13 final size:13
Alignment explanation
Indices: 91617784--91617833 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
91617774 TAATTTTTTT
*
91617784 TAAAATTAATAATA
1 TAAAATAAATAA-A
* *
91617798 AAAAATAAGTAAAA
1 TAAAATAAAT-AAA
91617812 TAAAATAAATAAA
1 TAAAATAAATAAA
91617825 TAAAATAAA
1 TAAAATAAA
91617834 GATAAAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 12 0.40
14 16 0.53
15 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:91617870 original size:16 final size:16
Alignment explanation
Indices: 91617850--91617893 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
91617840 AACAAAAGTT
*
91617850 AAAAAAAGGACAAAAA
1 AAAAAAAGGAAAAAAA
* *
91617866 TAAAAAAGTAAAAAAA
1 AAAAAAAGGAAAAAAA
91617882 AAAAAAA-GAAAA
1 AAAAAAAGGAAAA
91617894 GAAAGTGACA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (16 bp):
AAAAAAAGGAAAAAAA
Found at i:91617888 original size:24 final size:24
Alignment explanation
Indices: 91617808--91617888 Score: 58
Period size: 24 Copynumber: 3.3 Consensus size: 24
91617798 AAAAATAAGT
* *
91617808 AAAATAAAATAAATAAA-TAAAATA
1 AAAAAAAAATAAA-AAAGTAAAAAA
* * *
91617832 AAGATAAAA-ACAAAAGTTAAAAAA
1 AAAAAAAAATAAAAAAG-TAAAAAA
* *
91617856 AGGACAAAAATAAAAAAGTAAAAAA
1 A-AAAAAAAATAAAAAAGTAAAAAA
91617881 AAAAAAAA
1 AAAAAAAA
91617889 GAAAAGAAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
22 3 0.07
23 2 0.05
24 20 0.47
25 12 0.28
26 6 0.14
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (24 bp):
AAAAAAAAATAAAAAAGTAAAAAA
Found at i:91622249 original size:21 final size:21
Alignment explanation
Indices: 91622224--91622265 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
91622214 AATTAATAAT
*
91622224 AATTTTATTTAAATATAATTA
1 AATTTTAATTAAATATAATTA
* *
91622245 AATTTTAATTAATTTTAATTA
1 AATTTTAATTAAATATAATTA
91622266 TTCATTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTTAATTAAATATAATTA
Found at i:91622258 original size:10 final size:10
Alignment explanation
Indices: 91622223--91622265 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
91622213 TAATTAATAA
*
91622223 TAATTTTATT
1 TAATTTTAAT
* *
91622233 TAAATATAAT
1 TAATTTTAAT
91622243 TAAATTTTAAT
1 T-AATTTTAAT
91622254 TAATTTTAAT
1 TAATTTTAAT
91622264 TA
1 TA
91622266 TTCATTTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TAATTTTAAT
Found at i:91625216 original size:12 final size:12
Alignment explanation
Indices: 91625199--91625242 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
91625189 AATTTCACAA
91625199 ATGTGATTAACT
1 ATGTGATTAACT
*
91625211 ATGTGA-TACACAA
1 ATGTGATTA-AC-T
91625224 ATGTGATTAACT
1 ATGTGATTAACT
91625236 ATGTGAT
1 ATGTGAT
91625243 AGGAGTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 2 0.07
12 15 0.56
13 8 0.30
14 2 0.07
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (12 bp):
ATGTGATTAACT
Found at i:91625228 original size:25 final size:25
Alignment explanation
Indices: 91625194--91625243 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
91625184 ATTGTAATTT
91625194 CACAAATGTGATTAACTATGTGATA
1 CACAAATGTGATTAACTATGTGATA
91625219 CACAAATGTGATTAACTATGTGATA
1 CACAAATGTGATTAACTATGTGATA
91625244 GGAGTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (25 bp):
CACAAATGTGATTAACTATGTGATA
Found at i:91627490 original size:17 final size:17
Alignment explanation
Indices: 91627465--91627500 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
91627455 TATTCGGTGA
* *
91627465 TTTTGTTATTTTACGAT
1 TTTTATTATTTTAAGAT
91627482 TTTTATTATTTTAAGAT
1 TTTTATTATTTTAAGAT
91627499 TT
1 TT
91627501 CATCATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (17 bp):
TTTTATTATTTTAAGAT
Found at i:91628017 original size:40 final size:41
Alignment explanation
Indices: 91627857--91628021 Score: 174
Period size: 41 Copynumber: 4.0 Consensus size: 41
91627847 GTAGGAAAAT
* * * * *
91627857 GCAGC-AAAATGTTAAGCAATAATGACGTTTTTGGTCCAACC
1 GCAGCTAAAA-GTTGAGCAATAGTGGCGTTTTTAGTCCAAAC
* *
91627898 GCCGCTAAAAATTGAGCAATAGTGGCGTTTTTAGTCCAAAC
1 GCAGCTAAAAGTTGAGCAATAGTGGCGTTTTTAGTCCAAAC
* * * * *
91627939 GCTGCTAAAAGCTGAACAATAGTGACGTTTTTAGTCCAAAT
1 GCAGCTAAAAGTTGAGCAATAGTGGCGTTTTTAGTCCAAAC
*
91627980 GCAGC-AAAAGGTTGAGCTATAGTGGCGTTTTTA-TCCAAAC
1 GCAGCTAAAA-GTTGAGCAATAGTGGCGTTTTTAGTCCAAAC
91628020 GC
1 GC
91628022 CGCGAGTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
40 12 0.12
41 87 0.84
42 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (41 bp):
GCAGCTAAAAGTTGAGCAATAGTGGCGTTTTTAGTCCAAAC
Found at i:91631699 original size:21 final size:21
Alignment explanation
Indices: 91631660--91631708 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
91631650 ATGTTTATCC
*
91631660 CTAAACCCTAAAATTTAAACT
1 CTAAACCCTAAAATATAAACT
*
91631681 TTAAACCCT-AAATAATAAACT
1 CTAAACCCTAAAAT-ATAAACT
91631702 CTAAACC
1 CTAAACC
91631709 TTCAACCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (21 bp):
CTAAACCCTAAAATATAAACT
Found at i:91633238 original size:25 final size:25
Alignment explanation
Indices: 91633206--91633265 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
91633196 TAGATTGTTA
* *
91633206 TTTTTGGTTGGATTTGTATTTGCTG
1 TTTTTGGTTGAAGTTGTATTTGCTG
*
91633231 TTTTTGGTTGAAGTTGTATTTGTTG
1 TTTTTGGTTGAAGTTGTATTTGCTG
91633256 TTTTTGGTTG
1 TTTTTGGTTG
91633266 TTACAGGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.08, C:0.02, G:0.28, T:0.62
Consensus pattern (25 bp):
TTTTTGGTTGAAGTTGTATTTGCTG
Found at i:91633492 original size:42 final size:43
Alignment explanation
Indices: 91633399--91633503 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 43
91633389 TAAAAGCGCT
* * *
91633399 GCTAAAGGTCACATTCTATAACGGCGTTTGTGGGAGAAGCGTC
1 GCTAAAGGTCATATTCTATAACGACATTTGTGGGAGAAGCGTC
* * * *
91633442 ACTAAAGGTCATATTCTTTAGCGACATTTGT-GTAGAAGCGTC
1 GCTAAAGGTCATATTCTATAACGACATTTGTGGGAGAAGCGTC
*
91633484 GCTAAAGGTCATGTTCTATA
1 GCTAAAGGTCATATTCTATA
91633504 GTGGTGTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 27 0.52
43 25 0.48
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
GCTAAAGGTCATATTCTATAACGACATTTGTGGGAGAAGCGTC
Found at i:91638703 original size:14 final size:15
Alignment explanation
Indices: 91638686--91638720 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
91638676 ATATGTATAT
91638686 AAAAAGAAAGA-AAA
1 AAAAAGAAAGAGAAA
91638700 AAAAAGAAAGAGAAA
1 AAAAAGAAAGAGAAA
91638715 AAAAAG
1 AAAAAG
91638721 GATTCGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAGAAA
Found at i:91641296 original size:38 final size:38
Alignment explanation
Indices: 91641176--91641301 Score: 103
Period size: 38 Copynumber: 3.2 Consensus size: 38
91641166 ACCACCGCAG
* * *
91641176 ATTTACAGTAACTGTCACTTGTTGT-AGGTGCACAATAT
1 ATTTACAGTTACTGCCACTTGTTGTGA-GTGCACAACAT
* * * * * *
91641214 ATTTGCAAATTAACTACCACTTGGTTCATGA-TCGAACCACAT
1 ATTTAC-AGTT-ACTGCCACTT-GTT-GTGAGT-GCACAACAT
91641256 ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACAT
1 ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACAT
91641294 ATTTACAG
1 ATTTACAG
91641302 ATTAAACAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
38 23 0.35
39 6 0.09
40 17 0.26
41 7 0.11
42 12 0.18
43 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (38 bp):
ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACAT
Found at i:91641366 original size:86 final size:86
Alignment explanation
Indices: 91641225--91641435 Score: 343
Period size: 86 Copynumber: 2.5 Consensus size: 86
91641215 TTTGCAAATT
* *
91641225 AACTACCACTTGGTTCATGATCGAACCACA-TATTTACAGTTACTGCCACTTGTTGTGAGTGCAC
1 AACTACCACTTGGTTCATAATCGAACCACACTATTTACAGTTACTGCCACTTGTTGTGAGTACAC
91641289 AACATATTTACAGATTAAACA
66 AACATATTTACAGATTAAACA
* * *
91641310 AACTACCACTTGGTTCATTATCAAACCACACTATTTGCAGTTACTGCCACTTGTTGTGAGTACAC
1 AACTACCACTTGGTTCATAATCGAACCACACTATTTACAGTTACTGCCACTTGTTGTGAGTACAC
* *
91641375 AACATGTTTGCAGATTAAACA
66 AACATATTTACAGATTAAACA
*
91641396 AACTAACACTTGGTTCATAATCGAACCACACTATTTACAG
1 AACTACCACTTGGTTCATAATCGAACCACACTATTTACAG
91641436 ATTAAACTAT
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 28 0.24
86 87 0.76
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (86 bp):
AACTACCACTTGGTTCATAATCGAACCACACTATTTACAGTTACTGCCACTTGTTGTGAGTACAC
AACATATTTACAGATTAAACA
Found at i:91641965 original size:28 final size:27
Alignment explanation
Indices: 91641932--91642191 Score: 91
Period size: 28 Copynumber: 9.2 Consensus size: 27
91641922 AATTTTGGGT
* *
91641932 CAAAATTGTAAATTTTGAAAATTAGGGG
1 CAAAATTGTAAATCTT-AAAAATAGGGG
91641960 CAAAA-TGATAAAATCTTAAAAATAGGGG
1 CAAAATTG-T-AAATCTTAAAAATAGGGG
*
91641988 -AAAATTGTAAAATC-TAAAAAGTAAGGG
1 CAAAATTGT-AAATCTTAAAAA-TAGGGG
* * * * *
91642015 AAAAACTATAAAATCTAAAAAATAGGGA
1 CAAAATTGT-AAATCTTAAAAATAGGGG
* * *
91642043 CAAAACTATAAAATC-TAGAAAATAGAGG
1 CAAAATTGT-AAATCTTA-AAAATAGGGG
* * * * * *
91642071 AAAAACTATAATACCTAAAAAAATAGTGGA
1 CAAAATTGTAA-ATCT-TAAAAATAG-GGG
* * * *
91642101 TAAAATTGTAAAATATGAAAAATAAGGG
1 CAAAATTGT-AAATCTTAAAAATAGGGG
* * *
91642129 TAAAACTGTAAGAT-TTGGAAAAATAGGGA
1 CAAAATTGTAA-ATCTT--AAAAATAGGGG
91642158 CAAAATTGTAAAAT-TTGAAGAAATAGGGG
1 CAAAATTGT-AAATCTT-AA-AAATAGGGG
*
91642187 AAAAA
1 CAAAA
91642192 ATTAAAAAAT
Statistics
Matches: 182, Mismatches: 33, Indels: 33
0.73 0.13 0.13
Matches are distributed among these distances:
26 6 0.03
27 24 0.13
28 81 0.45
29 57 0.31
30 12 0.07
31 2 0.01
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.22
Consensus pattern (27 bp):
CAAAATTGTAAATCTTAAAAATAGGGG
Found at i:91641992 original size:55 final size:55
Alignment explanation
Indices: 91641967--91642250 Score: 193
Period size: 58 Copynumber: 5.0 Consensus size: 55
91641957 GGGCAAAATG
*
91641967 ATAAAATCTTAAAAATAGGGGAAAATTGTAAAATCTAAAAAGTAAGGGAAAAACT
1 ATAAAATCTAAAAAATAGGGGAAAATTGTAAAATCTAAAAAGTAAGGGAAAAACT
* * *
91642022 ATAAAATCTAAAAAATAGGGACAAAACTATAAAATCTAGAAAA-T-AGAGGAAAAACT
1 ATAAAATCTAAAAAATAGGG-GAAAATTGTAAAATCTA-AAAAGTAAG-GGAAAAACT
* * * * *
91642078 ATAATACCTAAAAAAATAGTGGATAAAATTGTAAAATATGAAAAA-TAAGGGTAAAACT
1 ATAAAATCT-AAAAAATAG-GG-GAAAATTGTAAAATCT-AAAAAGTAAGGGAAAAACT
* * * * * * * *
91642136 GTAAGATTTGGAAAAATAGGGACAAAATTGTAAAATTTGAAGAAA-TAGGGGAAAAAATT
1 ATAAAATCT-AAAAAATAGGG-GAAAATTGTAAAATCT-AA-AAAGTAAGGG-AAAAACT
* * * * *
91642195 AAAAAATTTAAAAAATAGGGGGTAAAACTATAAAAT-TCAAAAAAT-AGGGAAAAACT
1 ATAAAATCTAAAAAATA-GGGG-AAAATTGTAAAATCT-AAAAAGTAAGGGAAAAACT
91642251 GTAAGATTTG
Statistics
Matches: 185, Mismatches: 32, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
55 21 0.11
56 37 0.20
57 39 0.21
58 60 0.32
59 28 0.15
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (55 bp):
ATAAAATCTAAAAAATAGGGGAAAATTGTAAAATCTAAAAAGTAAGGGAAAAACT
Found at i:91642201 original size:30 final size:29
Alignment explanation
Indices: 91642089--91642248 Score: 94
Period size: 29 Copynumber: 5.6 Consensus size: 29
91642079 TAATACCTAA
* * ** *
91642089 AAAAATAGTGGATAAAATTGTAAAATATG
1 AAAAATAGGGGAAAAAATTAAAAAATTTG
* * * *
91642118 AAAAATAAGGGTAAAACTGT--AAGATTTGG
1 AAAAATAGGGGAAAAAAT-TAAAAAATTT-G
* **
91642147 AAAAATA-GGGACAAAATTGTAAAATTTG
1 AAAAATAGGGGAAAAAATTAAAAAATTTG
*
91642175 AAGAAATAGGGGAAAAAATTAAAAAATTTA
1 AA-AAATAGGGGAAAAAATTAAAAAATTTG
** * * **
91642205 AAAAATAGGGGGTAAAACTATAAAATTCA
1 AAAAATAGGGGAAAAAATTAAAAAATTTG
91642234 AAAAATA-GGGAAAAA
1 AAAAATAGGGGAAAAA
91642249 CTGTAAGATT
Statistics
Matches: 103, Mismatches: 22, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
27 1 0.01
28 21 0.20
29 61 0.59
30 20 0.19
ACGTcount: A:0.57, C:0.03, G:0.19, T:0.22
Consensus pattern (29 bp):
AAAAATAGGGGAAAAAATTAAAAAATTTG
Found at i:91642265 original size:29 final size:28
Alignment explanation
Indices: 91641977--91642270 Score: 181
Period size: 28 Copynumber: 10.4 Consensus size: 28
91641967 ATAAAATCTT
* * *
91641977 AAAAATAGGGGAAAATTGTAAAATCT-A
1 AAAAATAGGGAAAAACTGTAAAATTTGA
* * *
91642004 AAAAGTAAGGGAAAAACTATAAAATCT-A
1 AAAAAT-AGGGAAAAACTGTAAAATTTGA
* *
91642032 AAAAATAGGGACAAAACTATAAAATCT-A
1 AAAAATAGGGA-AAAACTGTAAAATTTGA
* * * ** *
91642060 GAAAATAGAGGAAAAACTATAATACCTAA
1 AAAAATAG-GGAAAAACTGTAAAATTTGA
* *
91642089 AAAAATAGTGGATAAAATTGTAAAATATG-
1 AAAAATAG-GGA-AAAACTGTAAAATTTGA
* * *
91642118 AAAAATAAGGGTAAAACTGTAAGATTTGG
1 AAAAAT-AGGGAAAAACTGTAAAATTTGA
*
91642147 AAAAATAGGGACAAAATTGTAAAATTTGA
1 AAAAATAGGGA-AAAACTGTAAAATTTGA
* *
91642176 AGAAATAGGGGAAAAAAT-TAAAAAATTT-A
1 AAAAATA-GGGAAAAACTGT--AAAATTTGA
* * *
91642205 AAAAATAGGGGGTAAAACTATAAAA-TTCA
1 AAAAATA--GGGAAAAACTGTAAAATTTGA
*
91642234 AAAAATAGGGAAAAACTGTAAGATTTG-
1 AAAAATAGGGAAAAACTGTAAAATTTGA
*
91642261 GAAAATAGGG
1 AAAAATAGGG
91642271 GACACACGGT
Statistics
Matches: 218, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
27 32 0.15
28 81 0.37
29 72 0.33
30 32 0.15
31 1 0.00
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAAATAGGGAAAAACTGTAAAATTTGA
Found at i:91643190 original size:6 final size:6
Alignment explanation
Indices: 91643174--91643207 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
91643164 AGATTTTGCC
91643174 AAAATTT AAAATT AAAATT AAAATT AAAATT AAA
1 AAAA-TT AAAATT AAAATT AAAATT AAAATT AAA
91643208 GGGGAGGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:91655652 original size:15 final size:16
Alignment explanation
Indices: 91655617--91655654 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
91655607 ATGCATAAAA
91655617 AAATTCAAATGCAACAT
1 AAATT-AAATGCAACAT
*
91655634 AAATTAAATG-AATAT
1 AAATTAAATGCAACAT
91655649 AAATTA
1 AAATTA
91655655 TACCCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 5 0.25
17 5 0.25
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (16 bp):
AAATTAAATGCAACAT
Found at i:91659555 original size:24 final size:25
Alignment explanation
Indices: 91659528--91659580 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
91659518 AAATCGAGTT
*
91659528 TCTTCTCCCAATTAAACTCT-ATTA
1 TCTTCTCACAATTAAACTCTCATTA
*
91659552 TCTTTTCACAATTAAACTCTCATTA
1 TCTTCTCACAATTAAACTCTCATTA
91659577 -CTTC
1 TCTTC
91659581 AGGGATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.43
Consensus pattern (25 bp):
TCTTCTCACAATTAAACTCTCATTA
Found at i:91659814 original size:34 final size:34
Alignment explanation
Indices: 91659776--91659846 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
91659766 TTTATACCCC
*
91659776 TTTTGAGAGAACTCTATGAAAGTTAGGGTTTTGT
1 TTTTGAGAGAACTCTATGAAAGTTAGGGCTTTGT
* **** *
91659810 TTTTGGGTTTGCTCTATGAGAGTTAGGGCTTTGT
1 TTTTGAGAGAACTCTATGAAAGTTAGGGCTTTGT
91659844 TTT
1 TTT
91659847 CAAGGTTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.07, G:0.28, T:0.46
Consensus pattern (34 bp):
TTTTGAGAGAACTCTATGAAAGTTAGGGCTTTGT
Found at i:91660873 original size:34 final size:35
Alignment explanation
Indices: 91660825--91660892 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
91660815 TTTGGGAGAA
* * *
91660825 CTCTGTGAAAGTTAGGATTTTGTTTTCG-GGTTTG
1 CTCTATGAAAGTTAGGACTTTGTTATCGAGGTTTG
*
91660859 CTCTATGAAAGTTAGGGCTTTGTTATCGAGGTTT
1 CTCTATGAAAGTTAGGACTTTGTTATCGAGGTTT
91660893 TGGGTTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.44
Consensus pattern (35 bp):
CTCTATGAAAGTTAGGACTTTGTTATCGAGGTTTG
Found at i:91662215 original size:94 final size:94
Alignment explanation
Indices: 91662096--91662359 Score: 322
Period size: 94 Copynumber: 2.8 Consensus size: 94
91662086 TATGTGAGAG
* * * * *
91662096 CCAGTGTAAGACCATATCTGGGACATGGCATCAGCATTGAGACGAGGGCTAGCGTAAGACATGTT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGACGAGTGCTAGTGTAAGACATGTC
*
91662161 TGGGACATGCATCAGCCAC-ATTATGAAAA
65 TGGGACATGCATCAGCCACGATGATGAAAA
* * * *
91662190 CCAGTGTAAGACCACGTCTGAGACATGGCATCGGCTTAGAGACGAGTACCAGTGTAAGACATGTC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTT-GAGACGAGTGCTAGTGTAAGACATGTC
* * * *
91662255 TGGGACATGCATCGGCCCCGATGATGATAG
65 TGGGACATGCATCAGCCACGATGATGAAAA
* *
91662285 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAAGA-GTTGTGCTAGTGTAAGACATGTC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACG-AGTGCTAGTGTAAGACATGTC
91662346 TGGGACATGCATCA
65 TGGGACATGCATCA
91662360 ACACTTATAT
Statistics
Matches: 146, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
90 1 0.01
91 34 0.23
92 1 0.01
93 10 0.07
94 82 0.56
95 18 0.12
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (94 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGAGTGCTAGTGTAAGACATGTCT
GGGACATGCATCAGCCACGATGATGAAAA
Found at i:91662350 original size:44 final size:47
Alignment explanation
Indices: 91662149--91662457 Score: 218
Period size: 47 Copynumber: 6.5 Consensus size: 47
91662139 GAGGGCTAGC
* * * * * *
91662149 GTAAGACATGTTTGGGACATGCATCAGCC-ACATTATGAAAACCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAAGATGATGATAGCCAGT
* * ** *
91662195 GTAAGACCACGTCTGAGACATGGCATCGGCTTAGA-GACGAGTA-CCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCAAGATGATGA-TAGCCAGT
**
91662243 GTAAGACATGTCTGGGACATGCATCGGCCCCGATGATGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAAGATGATGATAGCCAGT
* * *
91662290 GTAAGACATGTCTGGGACATGCATCGGCTAAGA-GTTG-T-GCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAAGATGATGATAGCCAGT
** * * * * *
91662334 GTAAGACATGTCTGGGACATGCATCAACACTTATAT-ACGAGAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGC-C-AAGATGATGATAGCCAGT
* * ** ** *
91662382 GTAAGACCATTTCTAGGACATGGCATCATCCCCGATGACGATAGCCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCAAGATGATGATAGCCAGT
91662431 GTAAGACCATGTCTGGGACATGACATC
1 GTAAGA-CATGTCTGGGACATG-CATC
91662458 AGTAACTTAA
Statistics
Matches: 210, Mismatches: 38, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
44 31 0.15
45 1 0.00
46 24 0.11
47 62 0.30
48 36 0.17
49 49 0.23
50 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.23
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGCATCGGCCAAGATGATGATAGCCAGT
Found at i:91663311 original size:55 final size:55
Alignment explanation
Indices: 91663221--91663326 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 55
91663211 CTTAAACTTT
*
91663221 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTG
1 TAAGTCAGTATTGTCCACGGATAGGCCACACGGGCGTGTGCCATAGCCGTGTCTG
* * *
91663276 TAAGTCAGTATTGTCCACGGATAGGCCATATGGGCGTGTGCCATGGCCGTG
1 TAAGTCAGTATTGTCCACGGATAGGCCACACGGGCGTGTGCCATAGCCGTG
91663327 CCCTAAAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.25
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGATAGGCCACACGGGCGTGTGCCATAGCCGTGTCTG
Found at i:91663350 original size:55 final size:55
Alignment explanation
Indices: 91663222--91663339 Score: 166
Period size: 55 Copynumber: 2.1 Consensus size: 55
91663212 TTAAACTTTT
* * *
91663222 AAGTCAGTATTGTCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTGT
1 AAGTCAGTATTGTCCACGGATAGGCCACACGGGCGTGTGCCATAGCCGTGCCTGA
* * *
91663277 AAGTCAGTATTGTCCACGGATAGGCCATATGGGCGTGTGCCATGGCCGTGCCCT-A
1 AAGTCAGTATTGTCCACGGATAGGCCACACGGGCGTGTGCCATAGCCGTG-CCTGA
91663332 AAGTCAGT
1 AAGTCAGT
91663340 GTTGCACACG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 54 0.96
56 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (55 bp):
AAGTCAGTATTGTCCACGGATAGGCCACACGGGCGTGTGCCATAGCCGTGCCTGA
Found at i:91664025 original size:22 final size:25
Alignment explanation
Indices: 91663984--91664047 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
91663974 ATACTCAAAT
*
91663984 AACATAAAC-AACACAACAGTG-AAG
1 AACATAAACAAAC-CAGCAGTGAAAG
*
91664008 AACA-AAA-AAACCAGCAGTGAAAT
1 AACATAAACAAACCAGCAGTGAAAG
91664031 AACATAAACAAACCAGC
1 AACATAAACAAACCAGC
91664048 TGCAGTAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 7 0.21
23 12 0.35
24 7 0.21
25 8 0.24
ACGTcount: A:0.59, C:0.22, G:0.11, T:0.08
Consensus pattern (25 bp):
AACATAAACAAACCAGCAGTGAAAG
Found at i:91665566 original size:23 final size:21
Alignment explanation
Indices: 91665535--91665577 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
91665525 ATAAACGTAA
91665535 AACACAAATAATTTAATATAAAT
1 AACACAAATAA--TAATATAAAT
*
91665558 AACATAAATAATAATATAAA
1 AACACAAATAATAATATAAA
91665578 GTACAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
AACACAAATAATAATATAAAT
Found at i:91665829 original size:17 final size:17
Alignment explanation
Indices: 91665818--91665858 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
91665808 CAAAAATATA
91665818 AATTA-AATAAAAACTT
1 AATTAGAATAAAAACTT
**
91665834 AATTAGAATAAAAACAA
1 AATTAGAATAAAAACTT
91665851 AATTAGAA
1 AATTAGAA
91665859 GAATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
AATTAGAATAAAAACTT
Found at i:91667997 original size:52 final size:55
Alignment explanation
Indices: 91667875--91668010 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 55
91667865 TAAAAAAAAA
* *
91667875 TTGGTGCTGACCTGTCAATGGCCGGCACTAGTATTAAGAAAAAATTTTAATTTTTT
1 TTGGTGCTGACCTGTCAATGGCCGGCACTAGTATTAAGAAAAAA-TTCAAATTTTT
* *
91667931 TTGGTGCTGTCCTGTCCATGGCCGGCACTAGTATT-A-AAAAAA-TCAAATTTTT
1 TTGGTGCTGACCTGTCAATGGCCGGCACTAGTATTAAGAAAAAATTCAAATTTTT
* *
91667983 TTGGTGTTGGCCTGTCAATGGCCGGCAC
1 TTGGTGCTGACCTGTCAATGGCCGGCAC
91668011 CACAATACAA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 33 0.45
54 6 0.08
55 1 0.01
56 33 0.45
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (55 bp):
TTGGTGCTGACCTGTCAATGGCCGGCACTAGTATTAAGAAAAAATTCAAATTTTT
Found at i:91672719 original size:54 final size:54
Alignment explanation
Indices: 91672651--91672861 Score: 224
Period size: 54 Copynumber: 3.9 Consensus size: 54
91672641 TCATCATTGA
* * * * *
91672651 GATCATCATGATCCAGCTGCTACTGCCCCGTTGGCGGGTCATCATGCACTAAGG
1 GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCACCAAGG
* * *
91672705 GATCATCATAATCCATTTGCTGCTACCCCGTGGGCGGGTCATCACGCACCAAGG
1 GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCACCAAGG
* * * **
91672759 GCTCATCATGATCCATCTACTGCTGCTCTATGGGCGGGTCATCACGCACCAAGG
1 GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCACCAAGG
* * * ** * ** *
91672813 GCTCATTATGATCTATCTATTGCTGCTCTATGGGCGGGTCATCAAGCAC
1 GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCAC
91672862 ATCTATCTGT
Statistics
Matches: 137, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 137 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (54 bp):
GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCACCAAGG
Found at i:91672866 original size:39 final size:39
Alignment explanation
Indices: 91672823--91672939 Score: 144
Period size: 39 Copynumber: 3.0 Consensus size: 39
91672813 GCTCATTATG
*
91672823 ATCTATCTATTGCTGCTCTATGGGCGGGTCATCAAGCAC
1 ATCTATCTATTGCTGCCCTATGGGCGGGTCATCAAGCAC
* *
91672862 ATCTATCTGTTGCTGCCCTGTGGGCGGGTCATCAAGCAC
1 ATCTATCTATTGCTGCCCTATGGGCGGGTCATCAAGCAC
* ** ** * *
91672901 ATCCATCTGCTGCTGCCCCGTGGGCGGGTAATTAAGCAC
1 ATCTATCTATTGCTGCCCTATGGGCGGGTCATCAAGCAC
91672940 CAACTGATGA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.27
Consensus pattern (39 bp):
ATCTATCTATTGCTGCCCTATGGGCGGGTCATCAAGCAC
Found at i:91675250 original size:13 final size:13
Alignment explanation
Indices: 91675229--91675270 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
91675219 ATGCATTATT
91675229 AAAATTAAATTAA
1 AAAATTAAATTAA
*
91675242 AATATTAAA-TAA
1 AAAATTAAATTAA
*
91675254 AAAATAAAATTATA
1 AAAATTAAATTA-A
91675268 AAA
1 AAA
91675271 CAATATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 10 0.42
14 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTAAATTAA
Found at i:91675396 original size:129 final size:129
Alignment explanation
Indices: 91675169--91675428 Score: 457
Period size: 129 Copynumber: 2.0 Consensus size: 129
91675159 CTGAAGTATA
*
91675169 ATATAATTATATGAGTGAATCTACTAATACCTACCTCATCCGGATAAAGTATGCATTATTAAAAT
1 ATATAATCATATGAGTGAATCTACTAATACCTACCTCATCCGGATAAAGTATGCATTATTAAAAT
*
91675234 TAAATTAAAATATTAAATAAAAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
66 TAAATTAAAATATTAAATAAAAAATAAAATTATAAAACAATATGCTATTTGGAAAATAACTATT
* * * *
91675298 ATATAATCATATTAGTGAATCTACTAATACGTACTTCATCCGGCTAAAGTATGCATTATTAAAAT
1 ATATAATCATATGAGTGAATCTACTAATACCTACCTCATCCGGATAAAGTATGCATTATTAAAAT
*
91675363 TAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGCTATTTGGAAAATAACTATT
66 TAAATTAAAATATTAAATAAAAAATAAAATTATAAAACAATATGCTATTTGGAAAATAACTATT
91675427 AT
1 AT
91675429 TGTAATGAGA
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 124 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (129 bp):
ATATAATCATATGAGTGAATCTACTAATACCTACCTCATCCGGATAAAGTATGCATTATTAAAAT
TAAATTAAAATATTAAATAAAAAATAAAATTATAAAACAATATGCTATTTGGAAAATAACTATT
Found at i:91675651 original size:206 final size:206
Alignment explanation
Indices: 91675297--91675674 Score: 684
Period size: 206 Copynumber: 1.8 Consensus size: 206
91675287 AAATAACTAT
* *
91675297 TATATAATCATATTAGTGAATCTACTAATACGTACTTCATCCGGCTAAAGTATGCATTATTAAAA
1 TATATAATCATATTAGTGAATCTACTAATACATACTCCATCCGGCTAAAGTATGCATTATTAAAA
91675362 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGCTATTTGGAAAATAACTATT
66 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGCTATTTGGAAAATAACTATT
91675427 ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGCGATAC
131 ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGCGATAC
91675492 ATGCGTAAATA
196 ATGCGTAAATA
* * * * *
91675503 TATATAATCATATTTGTGAATTTGCTAGTACATACTCCATCCGGCTAAAGTATGCATTATTAAAG
1 TATATAATCATATTAGTGAATCTACTAATACATACTCCATCCGGCTAAAGTATGCATTATTAAAA
*
91675568 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
66 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGCTATTTGGAAAATAACTATT
91675633 ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAA
131 ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAA
91675675 AACTCAAAGC
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
206 164 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (206 bp):
TATATAATCATATTAGTGAATCTACTAATACATACTCCATCCGGCTAAAGTATGCATTATTAAAA
TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGCTATTTGGAAAATAACTATT
ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGCGATAC
ATGCGTAAATA
Found at i:91678229 original size:874 final size:873
Alignment explanation
Indices: 91676537--91678282 Score: 2963
Period size: 874 Copynumber: 2.0 Consensus size: 873
91676527 ATGCATCTTT
*
91676537 CCATTGTACTAAATAGCTGCTGGGTTTGGGTGGGAAACAGAAAAAAGTAGACTACTATTACAAGC
1 CCATTGCACTAAATAGCTGCTGGGTTTGGGTGGGAAACAGAAAAAAGTAGACTACTATTACAAGC
* ** * *
91676602 TCATTCTTGATGTGTCAACAAGACTTCAACCCCAAAATGTATGTAAGAGAAAGGTGGACGAGTAT
66 TCATCCTTGATGTGTCAACAAGACTTCAACCCCAAAATACACGCAAGAGAAAGGTGGACGAGTAT
* * * * *
91676667 TTACTGCATGAGCAACACCTACTTTCTAAGAAAATGAGAGCACAAAAATAGAGCCCGAAAACAAG
131 TTACCGCATGAGCAACACCTACCTTCTAAGAAAAAGAGAGCACAAAAATAGAGCCCAAAAAAAAG
91676732 TAATAAGTTTGCCATTACTTATGATCTTTCCATTGCACTAACACCCTGTTTAATTCAATTTAATG
196 TAATAAGTTTGCCATTACTTATGATCTTTCCATTGCACTAACACCCTGTTTAATTCAATTTAATG
* *
91676797 GTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGCTGATCTGTGGTGTTGTAGATTGTTGCC
261 GTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGCTGATCTGTGGTGTTATAGATTGTTACC
* *
91676862 CTTAGAAGAGCCAAGAGAAGAAATATGGAAAGGCTTGTTTTGGCTTGTAGAGGAGAAGCTATAAA
326 CTTAGAAGAGCAAAGAGAAGAAATATGGAAAGGCTTGTTTTGGCTTGTAGAAGAGAAGCTATAAA
* *
91676927 TTCTGTTGATGATTAACCCCAGATTGTCTTGGCTGGGCGGGACTTGTCTATGAGCATGTCCTTGG
391 TTCTGTTGATGATTAACCCCAGATTGTCTTGGCTGGGCAGGACTTGTCTACGAGCATGTCCTTGG
91676992 GGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTACAATTTTGATCAAAT
456 GGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTACAATTTTGATCAAAT
*
91677057 GTATATAGAACTGGTTGATATTCCATATAATTTATGTAAATTTAATATCAATATTGTTAGTGTTG
521 GTATATAGAACTGGTTGATATTCCATATAATTTATGTAAATTTAATATCAATATTGTTAGTGCTG
*
91677122 CTTGTGCAACATTTTAATTGCTATTTATATAATACTAATGTTATTATCAATAACATAGGGCCTAA
586 CTTGTGCAACATTTTAATTGCTATTTATATAATACTAATGCTATTATCAATAACATAGGGCCTAA
*
91677187 TGACCACACAATTGCCCAAATTAAGGATACTGTTCATGATGGACTGCGGGCTTGTTGAAGTTGGC
651 TGACCACACAATTGCCCAAATTAAGGATACTGTTCATGATGGACTGCAGGCTTGTTGAAGTTGGC
*
91677252 CTGGATGCAGCACACCATGCAGCACAAGTCATGCAGATGAAGTGCATGCAACCTATATCAAGATC
716 CTGGATGCAGCACACCATGCAGCACAAGTCATGCAGATGAAGTGCATACAACCTATATCAAGATC
* * *
91677317 AAGCTGCTGTAATATACTCGGATGAAATACAGCAGCATACAACTGTACCGGATGAAGTACATTTC
781 AAGCTGCTGTAATATACCCGGATGAAATACAACAGCATACAACTGTACCGGATGAAATACATTTC
* *
91677382 TATTTTTGTAAGACCTGTATTTGATTTA
846 TATTTTTGTAAGAACAGTATTTGATTTA
* * *
91677410 CCATTGCACTAAATAGCTGCTGGGTTTGGGTGGGAAATAGGAAAAAGTAGACTACTGTTACAAGC
1 CCATTGCACTAAATAGCTGCTGGGTTTGGGTGGGAAACAGAAAAAAGTAGACTACTATTACAAGC
* *
91677475 TCATCCTTGATGTGTCAACAAGACTTCAACCCCAAAATACACGCAAGAGAAAGGTGGAGGAGTCT
66 TCATCCTTGATGTGTCAACAAGACTTCAACCCCAAAATACACGCAAGAGAAAGGTGGACGAGTAT
* *
91677540 TTACCGTATGAGCAACACCTACCTTCTAAGAAAAAGAGAGCACAAAAATAGAGCTCAAAAAAAAG
131 TTACCGCATGAGCAACACCTACCTTCTAAGAAAAAGAGAGCACAAAAATAGAGCCCAAAAAAAAG
* * **
91677605 TAATAAGTTTGTCATTACTTATGCATCTTTCTATTGCACT-ACACCCTGTTTGGTTCAATTTAAT
196 TAATAAGTTTGCCATTACTTATG-ATCTTTCCATTGCACTAACACCCTGTTTAATTCAATTTAAT
*
91677669 GGTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGTTGATCTGTGGTGTTATAGATTGTTAC
260 GGTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGCTGATCTGTGGTGTTATAGATTGTTAC
* * *
91677734 CCTTCGAAGAGCAAAGAGAAGAAATATGGAAAGGCTTGTTTTGGCTTGTGGAAGAGAAGCTGTAA
325 CCTTAGAAGAGCAAAGAGAAGAAATATGGAAAGGCTTGTTTTGGCTTGTAGAAGAGAAGCTATAA
*
91677799 ATTCTGTTGATGATTTAACCCCAGATTGTCTTGGCTGGGCAGGACTTGTCTACGAGCATGTCTTT
390 ATTCTGTTGATGA-TTAACCCCAGATTGTCTTGGCTGGGCAGGACTTGTCTACGAGCATGTCCTT
* *
91677864 GGGGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCTTTCATGTATAATTTTGATCAA
454 GGGGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTACAATTTTGATCAA
* *
91677929 ATGTATGTAGAACTGGTTGATGTTCCATATAATTTATGTAAATTTAATATCAATATTGTTAGTGC
519 ATGTATATAGAACTGGTTGATATTCCATATAATTTATGTAAATTTAATATCAATATTGTTAGTGC
* *
91677994 TGCTTGTGCAACATTTTAATTGCTATTTATTTAATACTAATGCTATTGTCAATAACATAGGGCCT
584 TGCTTGTGCAACATTTTAATTGCTATTTATATAATACTAATGCTATTATCAATAACATAGGGCCT
* ** *
91678059 AATGACCACACAATTTCCCAAATTAAGGATGTTGTTCGTGATGGACTGCAGGCTTGTTGAAGTTG
649 AATGACCACACAATTGCCCAAATTAAGGATACTGTTCATGATGGACTGCAGGCTTGTTGAAGTTG
* * *
91678124 GCCTGGATGCAGCACACCATGTAGCACAAGTCATGCGGATGAAGTGCATACAACTTATATCAAGA
714 GCCTGGATGCAGCACACCATGCAGCACAAGTCATGCAGATGAAGTGCATACAACCTATATCAAGA
91678189 TCAAGCTGCTGTAATATACCCGGATGAAATACAACAGCATACAACTGTACCGGATGAAATACATT
779 TCAAGCTGCTGTAATATACCCGGATGAAATACAACAGCATACAACTGTACCGGATGAAATACATT
*
91678254 TCTTTTTTTGTAAGAACAGTATTTGATTT
844 TCTATTTTTGTAAGAACAGTATTTGATTT
91678283 GACAGCAACA
Statistics
Matches: 815, Mismatches: 56, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
873 356 0.44
874 459 0.56
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (873 bp):
CCATTGCACTAAATAGCTGCTGGGTTTGGGTGGGAAACAGAAAAAAGTAGACTACTATTACAAGC
TCATCCTTGATGTGTCAACAAGACTTCAACCCCAAAATACACGCAAGAGAAAGGTGGACGAGTAT
TTACCGCATGAGCAACACCTACCTTCTAAGAAAAAGAGAGCACAAAAATAGAGCCCAAAAAAAAG
TAATAAGTTTGCCATTACTTATGATCTTTCCATTGCACTAACACCCTGTTTAATTCAATTTAATG
GTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGCTGATCTGTGGTGTTATAGATTGTTACC
CTTAGAAGAGCAAAGAGAAGAAATATGGAAAGGCTTGTTTTGGCTTGTAGAAGAGAAGCTATAAA
TTCTGTTGATGATTAACCCCAGATTGTCTTGGCTGGGCAGGACTTGTCTACGAGCATGTCCTTGG
GGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTACAATTTTGATCAAAT
GTATATAGAACTGGTTGATATTCCATATAATTTATGTAAATTTAATATCAATATTGTTAGTGCTG
CTTGTGCAACATTTTAATTGCTATTTATATAATACTAATGCTATTATCAATAACATAGGGCCTAA
TGACCACACAATTGCCCAAATTAAGGATACTGTTCATGATGGACTGCAGGCTTGTTGAAGTTGGC
CTGGATGCAGCACACCATGCAGCACAAGTCATGCAGATGAAGTGCATACAACCTATATCAAGATC
AAGCTGCTGTAATATACCCGGATGAAATACAACAGCATACAACTGTACCGGATGAAATACATTTC
TATTTTTGTAAGAACAGTATTTGATTTA
Found at i:91680822 original size:22 final size:22
Alignment explanation
Indices: 91680794--91680839 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
91680784 TCAACATTCA
91680794 TAGTTAAATGGCATATCGAAAC
1 TAGTTAAATGGCATATCGAAAC
91680816 TAGTTAAATGGCATATCGAAAC
1 TAGTTAAATGGCATATCGAAAC
91680838 TA
1 TA
91680840 TCTTATAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (22 bp):
TAGTTAAATGGCATATCGAAAC
Done.