Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 41 of 50
Found at i:17521280 original size:27 final size:27
Alignment explanation
Indices: 17521250--17521301 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
17521240 GAAGTATGAC
17521250 TATTTCATAGTGTTTTATAAAACAAAT
1 TATTTCATAGTGTTTTATAAAACAAAT
17521277 TATTTCATAGTGTTTTATAAAACAA
1 TATTTCATAGTGTTTTATAAAACAA
17521302 GCTATAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (27 bp):
TATTTCATAGTGTTTTATAAAACAAAT
Found at i:17522150 original size:19 final size:19
Alignment explanation
Indices: 17522128--17522164 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17522118 TACTTTTTTT
*
17522128 AAATATTTTTTTTCTCTTC
1 AAATATTTTTTTTATCTTC
17522147 AAATATTTTTTTTATCTT
1 AAATATTTTTTTTATCTT
17522165 TTTCTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (19 bp):
AAATATTTTTTTTATCTTC
Found at i:17522196 original size:11 final size:11
Alignment explanation
Indices: 17522149--17522197 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
17522139 TTCTCTTCAA
17522149 ATATTTTTTTT
1 ATATTTTTTTT
* *
17522160 ATCTTTTTCTT
1 ATATTTTTTTT
17522171 ATAGTTGTTTTTT
1 ATA-TT-TTTTTT
*
17522184 ATATTTATTTT
1 ATATTTTTTTT
17522195 ATA
1 ATA
17522198 ACAAAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 19 0.61
12 4 0.13
13 8 0.26
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (11 bp):
ATATTTTTTTT
Found at i:17529470 original size:2 final size:2
Alignment explanation
Indices: 17529463--17529502 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
17529453 CATTAATTAN
17529463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17529503 TGAAAATAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17530531 original size:81 final size:78
Alignment explanation
Indices: 17530432--17530601 Score: 252
Period size: 81 Copynumber: 2.1 Consensus size: 78
17530422 TGAATTTTCC
* *
17530432 AAATCAAAATACTATCCTTAATTTTAGGAACTT-CTTTTAAAGTAAGAAACAATTTCCTATTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAA-TTGCTTTTAAAGTAAGAAACAATTT-C--TTATT
17530496 TTTTTATGAATCACCCA
62 TTTTTATGAATCACCCA
* * *
17530513 AAATTAAAATTCTATCCTTAATTTTAGGAATTGTTTTTAAAGTCAGAAACAATTTCTTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTGCTTTTAAAGTAAGAAACAATTTCTTATTTTTT
17530578 TATGAATCACCCA
66 TATGAATCACCCA
17530591 AAATTAAAATA
1 AAATTAAAATA
17530602 TATGATATTT
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
78 31 0.38
80 3 0.04
81 48 0.59
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (78 bp):
AAATTAAAATACTATCCTTAATTTTAGGAATTGCTTTTAAAGTAAGAAACAATTTCTTATTTTTT
TATGAATCACCCA
Found at i:17535997 original size:30 final size:31
Alignment explanation
Indices: 17535943--17536000 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
17535933 GAAAGCACTT
*
17535943 ATCGGTGTTCCCTCAAGGACGGGAGCATTAG
1 ATCGGTGTTCCCTAAAGGACGGGAGCATTAG
*
17535974 ATCGGTGTTCCC-AAAGGAGGGGAGCAT
1 ATCGGTGTTCCCTAAAGGACGGGAGCAT
17536001 CGGTGCTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (31 bp):
ATCGGTGTTCCCTAAAGGACGGGAGCATTAG
Found at i:17536079 original size:10 final size:10
Alignment explanation
Indices: 17536061--17536108 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
17536051 GAGAGTTTTT
*
17536061 TTAAAAAAAA
1 TTAATAAAAA
17536071 TTAATAAAAA
1 TTAATAAAAA
*
17536081 ATAATAAAAATA
1 TTAAT-AAAA-A
17536093 TATAATAAAAA
1 T-TAATAAAAA
17536104 TTAAT
1 TTAAT
17536109 TAGAGGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 17 0.53
11 6 0.19
12 5 0.16
13 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TTAATAAAAA
Found at i:17536088 original size:23 final size:23
Alignment explanation
Indices: 17536064--17536108 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17536054 AGTTTTTTTA
17536064 AAAAAAAT-TAATAAAAAATAAT
1 AAAAAAATATAATAAAAAATAAT
* *
17536086 AAAAATATATAATAAAAATTAAT
1 AAAAAAATATAATAAAAAATAAT
17536109 TAGAGGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAAAATATAATAAAAAATAAT
Found at i:17549853 original size:25 final size:23
Alignment explanation
Indices: 17549823--17549874 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 23
17549813 ATGTAAAATT
17549823 TGTATTATTGTATGTTTGTGCAAA
1 TGTATTATTGTATGTTTGTG-AAA
*
17549847 CTGTATTATTTTATGTTTGTGAAA
1 -TGTATTATTGTATGTTTGTGAAA
17549871 TGTA
1 TGTA
17549875 AAAGTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 4 0.15
24 3 0.12
25 19 0.73
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.52
Consensus pattern (23 bp):
TGTATTATTGTATGTTTGTGAAA
Found at i:17549882 original size:23 final size:25
Alignment explanation
Indices: 17549833--17549888 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
17549823 TGTATTATTG
** *
17549833 TATGTTTGTGCAAACTGTATTATTT
1 TATGTTTGTGCAAACTGTAAAAGTT
17549858 TATGTTTGTG-AAA-TGTAAAAGTT
1 TATGTTTGTGCAAACTGTAAAAGTT
17549881 TATTGTTT
1 TA-TGTTT
17549889 AATGTGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.52
Consensus pattern (25 bp):
TATGTTTGTGCAAACTGTAAAAGTT
Found at i:17550001 original size:11 final size:11
Alignment explanation
Indices: 17549967--17550013 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
17549957 CTGAATTGTA
17549967 TTGA-TTTATG
1 TTGATTTTATG
* *
17549977 TT-AATTTGTG
1 TTGATTTTATG
17549987 TTGATTTTATG
1 TTGATTTTATG
*
17549998 TTGATTTTGTG
1 TTGATTTTATG
17550009 TTGAT
1 TTGAT
17550014 AAATTTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 1 0.03
10 9 0.29
11 21 0.68
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (11 bp):
TTGATTTTATG
Found at i:17550009 original size:22 final size:21
Alignment explanation
Indices: 17549962--17550013 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
17549952 TTTTGCTGAA
*
17549962 TTGTATTGA-TTTATGTTAAT
1 TTGTGTTGATTTTATGTTAAT
*
17549982 TTGTGTTGATTTTATGTTGATT
1 TTGTGTTGATTTTATGTT-AAT
17550004 TTGTGTTGAT
1 TTGTGTTGAT
17550014 AAATTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 8 0.29
21 8 0.29
22 12 0.43
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (21 bp):
TTGTGTTGATTTTATGTTAAT
Found at i:17550901 original size:18 final size:18
Alignment explanation
Indices: 17550878--17550929 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
17550868 TTTTAACATT
17550878 AATAATAAATAAATATAA
1 AATAATAAATAAATATAA
*
17550896 AATAATAAATAAAATTTAA
1 AATAATAAAT-AAATATAA
*
17550915 ATTAAT-AATAAATAT
1 AATAATAAATAAATAT
17550930 TAATTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.17
18 13 0.43
19 12 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATAAATAAATATAA
Found at i:17550932 original size:18 final size:18
Alignment explanation
Indices: 17550870--17550932 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 18
17550860 TTTTTTATTT
17550870 TTAACATTAATAATAAATAAA
1 TTAA-ATTAATAATAAAT--A
*
17550891 TATAAAATAATAAATAAA-A
1 T-TAAATTAAT-AATAAATA
17550910 TTTAAATTAATAATAAATA
1 -TTAAATTAATAATAAATA
17550929 TTAA
1 TTAA
17550933 TTATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
18 10 0.28
19 10 0.28
20 1 0.03
21 6 0.17
22 9 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATTAATAATAAATA
Found at i:17551997 original size:29 final size:29
Alignment explanation
Indices: 17551964--17552019 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
17551954 TTTGATTTAA
*
17551964 AATAAAAATATAAAAATTTAATTAAATGT
1 AATAAAAAAATAAAAATTTAATTAAATGT
* *
17551993 AATAAAAAAATTAAAATTTATTTAAAT
1 AATAAAAAAATAAAAATTTAATTAAAT
17552020 TTTTTATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAAAATAAAAATTTAATTAAATGT
Found at i:17552366 original size:2 final size:2
Alignment explanation
Indices: 17552359--17552384 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17552349 AATATGCTGA
17552359 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17552385 TTAAACATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17555153 original size:36 final size:36
Alignment explanation
Indices: 17555113--17555199 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
17555103 AGAAGAACCC
*
17555113 AAAGTCGAAACTGAAGGAAAATCTGAAGCCTCTGAA
1 AAAGTCGAAACTGAAGAAAAATCTGAAGCCTCTGAA
17555149 AAAGTCGAAACTGAAGAAAAATCTGAAGCCTCTGAA
1 AAAGTCGAAACTGAAGAAAAATCTGAAGCCTCTGAA
17555185 AAAGTCGAAACTGAA
1 AAAGTCGAAACTGAA
17555200 ACACCCGCCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (36 bp):
AAAGTCGAAACTGAAGAAAAATCTGAAGCCTCTGAA
Found at i:17558480 original size:22 final size:22
Alignment explanation
Indices: 17558437--17558481 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17558427 AGTCAGGGGA
* *
17558437 ATTATGCACCAACCAATGAGAC
1 ATTAGGCACCAACCAATAAGAC
**
17558459 ATTAGGCACCAATTAATAAGAC
1 ATTAGGCACCAACCAATAAGAC
17558481 A
1 A
17558482 AATGCTCGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (22 bp):
ATTAGGCACCAACCAATAAGAC
Found at i:17558701 original size:20 final size:20
Alignment explanation
Indices: 17558662--17558701 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17558652 TTCTCTGAGC
*
17558662 TATTTTTCATATTTTTATAA
1 TATTTTTCATATTTTAATAA
17558682 TATTTTTCAT-TCTTTAATAA
1 TATTTTTCATAT-TTTAATAA
17558702 AAATGCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTCATATTTTAATAA
Found at i:17560540 original size:13 final size:13
Alignment explanation
Indices: 17560522--17560546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17560512 TTTCAGAAAA
17560522 TTTATAAAATCAT
1 TTTATAAAATCAT
17560535 TTTATAAAATCA
1 TTTATAAAATCA
17560547 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:17561094 original size:10 final size:10
Alignment explanation
Indices: 17561076--17561114 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
17561066 TTTTCTAGGC
17561076 TCATAATTCA
1 TCATAATTCA
*
17561086 TCATTATTCA
1 TCATAATTCA
*
17561096 TCATTATTCA
1 TCATAATTCA
17561106 TCATAATTC
1 TCATAATTC
17561115 CTCAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (10 bp):
TCATAATTCA
Found at i:17571571 original size:19 final size:17
Alignment explanation
Indices: 17571521--17571573 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 17
17571511 TTCTATAAGG
17571521 TTTTTTTTAAAAAAAAA
1 TTTTTTTTAAAAAAAAA
17571538 TTTTTGCTTTAAAAAAAATTA
1 TTTTT--TTTAAAAAAAA--A
17571559 CTTTTTTTTAAAAAA
1 -TTTTTTTTAAAAAA
17571574 GTTTTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.16
19 11 0.35
20 9 0.29
21 1 0.03
22 5 0.16
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTTTTTTAAAAAAAAA
Found at i:17571723 original size:21 final size:21
Alignment explanation
Indices: 17571697--17571745 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
17571687 TTCTGAAGTT
17571697 CATCATAATTACTTATTACAC
1 CATCATAATTACTTATTACAC
17571718 CATCATAATTACTTATTACAC
1 CATCATAATTACTTATTACAC
17571739 CTATCAT
1 C-ATCAT
17571746 TTCTTTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (21 bp):
CATCATAATTACTTATTACAC
Found at i:17572962 original size:19 final size:19
Alignment explanation
Indices: 17572935--17572972 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17572925 CCATTTGACT
17572935 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
17572954 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
17572973 GTTAAGAAGT
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:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:17584451 original size:20 final size:20
Alignment explanation
Indices: 17584426--17584471 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
17584416 CTTCTAAACC
17584426 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
17584446 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
17584466 TCAAAT
1 TCAAAT
17584472 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:17585067 original size:13 final size:14
Alignment explanation
Indices: 17585032--17585072 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
17585022 ATGTTAAACT
17585032 TTATTA-TATTTGATG
1 TTATTATTATTT--TG
17585047 TTATTATTATTTTG
1 TTATTATTATTTTG
17585061 TTA-TATTATTTT
1 TTATTATTATTTT
17585073 TATTGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.36
14 5 0.20
15 6 0.24
16 5 0.20
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (14 bp):
TTATTATTATTTTG
Found at i:17585073 original size:14 final size:14
Alignment explanation
Indices: 17585045--17585102 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
17585035 TTATATTTGA
17585045 TGTTATTATTA-TTT
1 TGTTA-TATTATTTT
17585059 TGTTATATTATTTT
1 TGTTATATTATTTT
* * *
17585073 TATTGTATTTTTCTT
1 TGTTATATTATT-TT
*
17585088 TGGTATATTATTTT
1 TGTTATATTATTTT
17585102 T
1 T
17585103 ATGCTTAGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
13 5 0.14
14 20 0.57
15 10 0.29
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.71
Consensus pattern (14 bp):
TGTTATATTATTTT
Found at i:17587449 original size:54 final size:54
Alignment explanation
Indices: 17587361--17587463 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
17587351 TTGCAGCATA
* *
17587361 GTTCAACTAATATAAATTAATTTTATATTAATTAGTTTACAAAAAGGTAAGTTG
1 GTTCAACTAATATAAATTAATATTACATTAATTAGTTTACAAAAAGGTAAGTTG
* * *
17587415 GTTCATCTAATATAAATTGATATTACATTTATTAGTTTACAAAAAGGTA
1 GTTCAACTAATATAAATTAATATTACATTAATTAGTTTACAAAAAGGTA
17587464 GATTGATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.41
Consensus pattern (54 bp):
GTTCAACTAATATAAATTAATATTACATTAATTAGTTTACAAAAAGGTAAGTTG
Found at i:17600503 original size:36 final size:36
Alignment explanation
Indices: 17600456--17600559 Score: 190
Period size: 36 Copynumber: 2.9 Consensus size: 36
17600446 CTGCTGGTGG
* *
17600456 TTCTTCCTTTGCTTTTTCTGTTGCAGCTGGTGGTTC
1 TTCTTCCTTTGCTTTCTCTGTTACAGCTGGTGGTTC
17600492 TTCTTCCTTTGCTTTCTCTGTTACAGCTGGTGGTTC
1 TTCTTCCTTTGCTTTCTCTGTTACAGCTGGTGGTTC
17600528 TTCTTCCTTTGCTTTCTCTGTTACAGCTGGTG
1 TTCTTCCTTTGCTTTCTCTGTTACAGCTGGTG
17600560 ACTCAGATTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.05, C:0.24, G:0.20, T:0.51
Consensus pattern (36 bp):
TTCTTCCTTTGCTTTCTCTGTTACAGCTGGTGGTTC
Found at i:17601696 original size:239 final size:240
Alignment explanation
Indices: 17601308--17601745 Score: 576
Period size: 239 Copynumber: 1.8 Consensus size: 240
17601298 TTATCATATA
* * ** * *
17601308 ATATTTACATAATATGTTGACACGTCCTAACAAATGATGAGGAGTTATGAATTTCACATTCGATG
1 ATATTGACATAATATGTTAACACGTCCTAACAAATGATGAGGAGCCATAAATTTCACATCCGATG
* * * * *
17601373 TTGTGTGTTAGACTAAAATTGAACATTTAAGAGTTTACGTCACTTTTCAATATGTGAGATGCTCT
66 TTGTGTATTAGACTAAAATTGAACATTTAAGAGTTTACCTCACTCTTCAACATGTGAGACGCTCT
* * * * * * *
17601438 TTTTGGATTGTGGAGCCATTAATCCCATGTCAAGGAGTATGTACAGTACTAGTATTTAAGGGTTG
131 TGTTAGAGTGCGAAGCCATTAATCCCATGTCAACGAGTATGTACAGTACTAGTATTTAAAGGTTG
17601503 TAACTACTTTTAACTGAAATTTCACTTATCATTTTATACCTTCTG
196 TAACTACTTTTAACTGAAATTTCACTTATCATTTTATACCTTCTG
* **
17601548 ATATTGACATGATATGTTAACATTTCCTAACAAATGATG-GGAGCCATAAATTTCACATCCGATG
1 ATATTGACATAATATGTTAACACGTCCTAACAAATGATGAGGAGCCATAAATTTCACATCCGATG
* *
17601612 TTGTGTATTAGAGTAAAATTGAGCATTTAA-AGGTTTACACT-ACTCTTCAACATGTGAGACGCT
66 TTGTGTATTAGACTAAAATTGAACATTTAAGA-GTTTAC-CTCACTCTTCAACATGTGAGACGCT
* ** * * *
17601675 CTTGTTAGAGTGCGAAGCCATTACTCTTATGTCAACGAGTTTGTATAGTACTAGTATTTAAAGTT
129 CTTGTTAGAGTGCGAAGCCATTAATCCCATGTCAACGAGTATGTACAGTACTAGTATTTAAAGGT
17601740 TGTAAC
194 TGTAAC
17601746 ATTTTTTTAC
Statistics
Matches: 167, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
238 1 0.01
239 131 0.78
240 35 0.21
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (240 bp):
ATATTGACATAATATGTTAACACGTCCTAACAAATGATGAGGAGCCATAAATTTCACATCCGATG
TTGTGTATTAGACTAAAATTGAACATTTAAGAGTTTACCTCACTCTTCAACATGTGAGACGCTCT
TGTTAGAGTGCGAAGCCATTAATCCCATGTCAACGAGTATGTACAGTACTAGTATTTAAAGGTTG
TAACTACTTTTAACTGAAATTTCACTTATCATTTTATACCTTCTG
Found at i:17605902 original size:11 final size:11
Alignment explanation
Indices: 17605886--17605911 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17605876 AGCTAAGTGA
17605886 TCATTTGTACT
1 TCATTTGTACT
17605897 TCATTTGTACT
1 TCATTTGTACT
17605908 TCAT
1 TCAT
17605912 CTTTTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.54
Consensus pattern (11 bp):
TCATTTGTACT
Found at i:17608544 original size:27 final size:27
Alignment explanation
Indices: 17608506--17608567 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
17608496 AAGAAAGATT
17608506 AAATCTTTATCAATTGATTTTCTTGCA
1 AAATCTTTATCAATTGATTTTCTTGCA
17608533 AAATCTTTATCAATTGATTTTCTTGCA
1 AAATCTTTATCAATTGATTTTCTTGCA
17608560 AAATCTTT
1 AAATCTTT
17608568 TTATTCTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (27 bp):
AAATCTTTATCAATTGATTTTCTTGCA
Found at i:17608708 original size:90 final size:90
Alignment explanation
Indices: 17608555--17608745 Score: 355
Period size: 90 Copynumber: 2.1 Consensus size: 90
17608545 ATTGATTTTC
*
17608555 TTGCAAAATCTTTTTATTCTCTTTGATTGAAATTGATTTATTATTTTTGATGATATAACATGGTT
1 TTGCAAAATCTTTTTATTCTCTTTGATTGAAATTGATTTATTATTTTTAATGATATAACATGGTT
17608620 GAGCAAAATTGATTTGATACATGAA
66 GAGCAAAATTGATTTGATACATGAA
*
17608645 TTGCAAAATCTTTTTATTCTCTTTGATTGAAGTTGATTTATTATTTTTAATGATATAACATGGTT
1 TTGCAAAATCTTTTTATTCTCTTTGATTGAAATTGATTTATTATTTTTAATGATATAACATGGTT
17608710 GAGCAAAATTGATTTGATACATGAA
66 GAGCAAAATTGATTTGATACATGAA
17608735 TTGCATAAATC
1 TTGCA-AAATC
17608746 CCATTTTGCT
Statistics
Matches: 98, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
90 93 0.95
91 5 0.05
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.45
Consensus pattern (90 bp):
TTGCAAAATCTTTTTATTCTCTTTGATTGAAATTGATTTATTATTTTTAATGATATAACATGGTT
GAGCAAAATTGATTTGATACATGAA
Found at i:17612829 original size:2 final size:2
Alignment explanation
Indices: 17612816--17612882 Score: 98
Period size: 2 Copynumber: 33.5 Consensus size: 2
17612806 CATAAAAATA
* * *
17612816 AG AG AA AG AG AG AG AG AG AG AG AG AA AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
17612858 AG AG AG AG AG AG AG AG AA AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
17612883 ATGTTGACTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17613177 original size:21 final size:20
Alignment explanation
Indices: 17613153--17613191 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17613143 AACAAACTGA
*
17613153 AAGGTCTAACTTGGTTAAGGC
1 AAGGTCTAA-TTAGTTAAGGC
*
17613174 AAGGTTTAATTAGTTAAG
1 AAGGTCTAATTAGTTAAG
17613192 CAGGTGCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (20 bp):
AAGGTCTAATTAGTTAAGGC
Found at i:17614506 original size:12 final size:12
Alignment explanation
Indices: 17614472--17614506 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17614462 AAGACAAGGG
*
17614472 AGAAAGAGAAAA
1 AGAAAGAGAAGA
17614484 AGAAAGAGAAGA
1 AGAAAGAGAAGA
*
17614496 GGAAAGAGAAG
1 AGAAAGAGAAG
17614507 GAAAAGAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
AGAAAGAGAAGA
Found at i:17614661 original size:53 final size:52
Alignment explanation
Indices: 17614543--17614674 Score: 174
Period size: 53 Copynumber: 2.5 Consensus size: 52
17614533 GAAAGGAGAG
*
17614543 AAGAGAAAGAGAAGAAAAAAAAAGAGAGAAGGAGCACGACAAAGCAGAAAAAGGA
1 AAGAGAAAGAGAAG---AAGAAAGAGAGAAGGAGCACGACAAAGCAGAAAAAGGA
* * * * *
17614598 AAAAGAAAGAGAAGAAGAAAGGGAGAGGGAGCACGGCAGAGCAGAAAAAAGGA
1 AAGAGAAAGAGAAGAAGAAAGAGAGAAGGAGCACGACAAAGCAG-AAAAAGGA
17614651 AAGAGAAAGAGAAGAAGAAAGAGA
1 AAGAGAAAGAGAAGAAGAAAGAGA
17614675 AAGAGAAGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 25 0.37
53 30 0.44
55 13 0.19
ACGTcount: A:0.61, C:0.06, G:0.33, T:0.00
Consensus pattern (52 bp):
AAGAGAAAGAGAAGAAGAAAGAGAGAAGGAGCACGACAAAGCAGAAAAAGGA
Found at i:17614672 original size:18 final size:18
Alignment explanation
Indices: 17614649--17614739 Score: 82
Period size: 18 Copynumber: 5.0 Consensus size: 18
17614639 CAGAAAAAAG
17614649 GAAAGAGAAAGAGAAGAA
1 GAAAGAGAAAGAGAAGAA
17614667 GAAAGAGAAAGAGAAGAA
1 GAAAGAGAAAGAGAAGAA
*
17614685 GAAA-AGGAAAG-GAAGCAC
1 GAAAGA-GAAAGAGAAG-AA
* *
17614703 G-ACGACG-AAGTAGAAAAA
1 GAAAGA-GAAAG-AGAAGAA
17614721 GGAAAGAGAAAGAGAAGAA
1 -GAAAGAGAAAGAGAAGAA
17614740 AAAAAGGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
17 9 0.16
18 32 0.55
19 11 0.19
20 6 0.10
ACGTcount: A:0.62, C:0.04, G:0.33, T:0.01
Consensus pattern (18 bp):
GAAAGAGAAAGAGAAGAA
Found at i:17614681 original size:24 final size:24
Alignment explanation
Indices: 17614635--17614781 Score: 87
Period size: 24 Copynumber: 6.2 Consensus size: 24
17614625 GGAGCACGGC
* *
17614635 AGAGCAGAAAAAAG-GAAAGAGAA
1 AGAGAAGAAGAAAGAGAAAGAGAA
17614658 AGAGAAGAAGAAAGAGAAAGAG-A
1 AGAGAAGAAGAAAGAGAAAGAGAA
17614681 AGAAGAA-AAGGAAAG-G-AAGCACG-A
1 AG-AGAAGAA-GAAAGAGAAAG-A-GAA
* * *
17614705 CGACGAAGTAGAAAAAGGAAAGAGAA
1 AGA-GAAGAAGAAAGA-GAAAGAGAA
* *
17614731 AGAGAAGAA-AAAAAGGAAATAGAA
1 AGAGAAGAAGAAAGA-GAAAGAGAA
* *
17614755 AAAGAAGAAGAAA-A-AAAGAGAG
1 AGAGAAGAAGAAAGAGAAAGAGAA
17614777 AGAGA
1 AGAGA
17614782 GCACGACAGA
Statistics
Matches: 100, Mismatches: 12, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
22 13 0.13
23 20 0.20
24 49 0.49
25 10 0.10
26 5 0.05
27 3 0.03
ACGTcount: A:0.65, C:0.03, G:0.31, T:0.01
Consensus pattern (24 bp):
AGAGAAGAAGAAAGAGAAAGAGAA
Found at i:17614687 original size:6 final size:6
Alignment explanation
Indices: 17614645--17614681 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
17614635 AGAGCAGAAA
17614645 AAAG-G AAAGAG AAAGAG -AAGAAG AAAGAG AAAGAG AA
1 AAAGAG AAAGAG AAAGAG AAAG-AG AAAGAG AAAGAG AA
17614682 GAAGAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 7 0.24
6 19 0.66
7 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:17614702 original size:71 final size:71
Alignment explanation
Indices: 17614596--17614831 Score: 226
Period size: 71 Copynumber: 3.2 Consensus size: 71
17614586 GCAGAAAAAG
* * * * *
17614596 GAAAAAGAAAGAGAAGAAGAAAGGGAGAGGGAGCACGGCAGAGCAGAAAAAAGGAAAGAGAAAGA
1 GAAAGAGAAAGAGAAGAAGAAAAGGAGAGGAAGCACGACAGAGAAGAAAAAAGGAAAGAGAAAGA
17614661 GAAGAA
66 GAAGAA
*
17614667 GAAAGAGAAAGAGAAGAAGAAAAGGAAAGGAAGCACGAC-GACGAAGTAGAAAAAGGAAAGAGAA
1 GAAAGAGAAAGAGAAGAAGAAAAGGAGAGGAAGCACGACAGA-GAAG-A-AAAAAGGAAAGAGAA
17614731 AGAGAAGAAAAAAA
63 AGAGAAG-----AA
* * * *
17614745 GGAAATAGAAAAAGAAGAAGAAAAAAAGAGAGAGAGAGCACGACAGAGTAGAAAAAA-GAAAGAG
1 -GAAAGAGAAAGAGAAGAAG--AAAAGGAGAG-GA-AGCACGACAGAGAAGAAAAAAGGAAAGAG
*
17614809 AAAAAGAAGAA
61 AAAGAGAAGAA
*
17614820 G-GAGAGAAAGAG
1 GAAAGAGAAAGAG
17614832 CAGCAGTAGA
Statistics
Matches: 136, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
70 2 0.01
71 37 0.27
72 1 0.01
73 30 0.22
74 1 0.01
75 2 0.01
78 2 0.01
79 17 0.12
80 15 0.11
81 13 0.10
82 3 0.02
83 11 0.08
84 2 0.01
ACGTcount: A:0.61, C:0.05, G:0.33, T:0.01
Consensus pattern (71 bp):
GAAAGAGAAAGAGAAGAAGAAAAGGAGAGGAAGCACGACAGAGAAGAAAAAAGGAAAGAGAAAGA
GAAGAA
Found at i:17614841 original size:45 final size:44
Alignment explanation
Indices: 17614753--17614846 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 44
17614743 AAGGAAATAG
* *
17614753 AAAAAGAAGAAGAAAAAAAGAGAGAGAGAGCACGACAGAGTAGA
1 AAAAAGAAGAAGAAAAAAAGAGAGAGAGAGAAAGACAGAGTAGA
17614797 AAAAAGAA-AGAGAAAAAGAAGA-AG-GAGAGAAAGAGCAGCAGTAGA
1 AAAAAGAAGA-AGAAAAA-AAGAGAGAGAGAGAAAGA-CAG-AGTAGA
17614842 AAAAA
1 AAAAA
17614847 ATATAGCCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
43 9 0.20
44 20 0.45
45 15 0.34
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (44 bp):
AAAAAGAAGAAGAAAAAAAGAGAGAGAGAGAAAGACAGAGTAGA
Found at i:17615434 original size:60 final size:60
Alignment explanation
Indices: 17615341--17615521 Score: 317
Period size: 60 Copynumber: 3.0 Consensus size: 60
17615331 ATATTTGATT
** * *
17615341 GTAAATGAAGACCTGAAGCCCCGATTTATATTTGATGACGTGGGTAGTTCCCACGAGTAG
1 GTAAATGGGGACCTGAAGTCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAG
17615401 GTAAATGGGGACCTGAAGTCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAG
1 GTAAATGGGGACCTGAAGTCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAG
*
17615461 GTAAAGGGGGACCTGAAGTCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAG
1 GTAAATGGGGACCTGAAGTCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAG
17615521 G
1 G
17615522 NNNNNNNNNN
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 116 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (60 bp):
GTAAATGGGGACCTGAAGTCCCGATTTATATTTGGTGACGTGGGTAGTTCCCACGAGTAG
Found at i:17618014 original size:14 final size:15
Alignment explanation
Indices: 17617985--17618019 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
17617975 AATTTTTCAT
17617985 TTTTTTATTTTCTAA
1 TTTTTTATTTTCTAA
17618000 TTTTTTATTTT-TAA
1 TTTTTTATTTTCTAA
17618014 TTTTTT
1 TTTTTT
17618020 GCGATGTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTATTTTCTAA
Found at i:17618018 original size:23 final size:23
Alignment explanation
Indices: 17617975--17618017 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17617965 TTTCTCCCTC
*
17617975 AATTTTTCATTTTTTTATTTTCT
1 AATTTTTCATTTTTATATTTTCT
*
17617998 AATTTTTTATTTTTA-ATTTT
1 AATTTTTCATTTTTATATTTT
17618018 TTGCGATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (23 bp):
AATTTTTCATTTTTATATTTTCT
Found at i:17618493 original size:21 final size:22
Alignment explanation
Indices: 17618463--17618506 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
17618453 TTATAGAGTA
*
17618463 TTTTATTATTATATTTATTATT
1 TTTTATTATTATATTAATTATT
*
17618485 TTTTA-TATTTTATTAATTATT
1 TTTTATTATTATATTAATTATT
17618506 T
1 T
17618507 AGAAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTATTATTATATTAATTATT
Found at i:17619087 original size:39 final size:39
Alignment explanation
Indices: 17619043--17619123 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
17619033 ATGAAAAATG
* *
17619043 TCACATTGTCATGTTATCATACCAAATTAGTAAGTTATA
1 TCACATTGTCATGTTATCATACCAAATTAATAAGTCATA
*
17619082 TCACATTGTCATGTTATCATATCAAATTAATAAGTCATA
1 TCACATTGTCATGTTATCATACCAAATTAATAAGTCATA
17619121 TCA
1 TCA
17619124 TCATCAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (39 bp):
TCACATTGTCATGTTATCATACCAAATTAATAAGTCATA
Found at i:17619104 original size:21 final size:21
Alignment explanation
Indices: 17619043--17619105 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
17619033 ATGAAAAATG
17619043 TCACATTGTCATGTTATCATA
1 TCACATTGTCATGTTATCATA
* * *
17619064 CCAAATTAGT-AAG-T-T-ATA
1 TCACATT-GTCATGTTATCATA
17619082 TCACATTGTCATGTTATCATA
1 TCACATTGTCATGTTATCATA
17619103 TCA
1 TCA
17619106 AATTAATAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
17 2 0.06
18 10 0.32
19 2 0.06
20 2 0.06
21 13 0.42
22 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (21 bp):
TCACATTGTCATGTTATCATA
Found at i:17621771 original size:2 final size:2
Alignment explanation
Indices: 17621755--17621796 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
17621745 GTATAGGGTG
17621755 CT CT C- CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17621795 CT
1 CT
17621797 TGCCTCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:17628016 original size:30 final size:30
Alignment explanation
Indices: 17627976--17628084 Score: 88
Period size: 30 Copynumber: 3.7 Consensus size: 30
17627966 TATTAATATT
*
17627976 TACTACATATAATTAATATATATGTATATTG
1 TACTA-ATATAATTAATATATATGTATAGTG
17628007 TACTAATATATATT-AT-TATAT-T-TAGTG
1 TACTAATATA-ATTAATATATATGTATAGTG
* *
17628034 TA-TAACTATAAACTAATA-CTATGTATAGTG
1 TACTAA-TAT-AATTAATATATATGTATAGTG
* *
17628064 TATTAATAT-ATTACTATATAT
1 TACTAATATAATTAATATATAT
17628085 AGTTAATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
26 3 0.05
27 11 0.17
28 12 0.19
29 9 0.14
30 17 0.27
31 11 0.17
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.46
Consensus pattern (30 bp):
TACTAATATAATTAATATATATGTATAGTG
Found at i:17636332 original size:15 final size:16
Alignment explanation
Indices: 17636312--17636341 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17636302 AATTATGAAA
17636312 AAAGAGAAAA-AAAAG
1 AAAGAGAAAAGAAAAG
17636327 AAAGAGAAAAGAAAA
1 AAAGAGAAAAGAAAA
17636342 ACAGGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAAGAAAAG
Found at i:17638092 original size:30 final size:30
Alignment explanation
Indices: 17638058--17638119 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
17638048 AGGCTTCGTT
17638058 TAGTTCATGCTTTTGGTATTTACAGTTTGC
1 TAGTTCATGCTTTTGGTATTTACAGTTTGC
17638088 TAGTTCATGCTTTTGGTATTTACAGTTTGC
1 TAGTTCATGCTTTTGGTATTTACAGTTTGC
17638118 TA
1 TA
17638120 TTTATCTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.50
Consensus pattern (30 bp):
TAGTTCATGCTTTTGGTATTTACAGTTTGC
Found at i:17647022 original size:15 final size:15
Alignment explanation
Indices: 17646955--17647023 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
17646945 TAATAAGAAT
17646955 TATAAAAAATTTATA
1 TATAAAAAATTTATA
* * *
17646970 AATAAAAAATAATATG
1 TATAAAAAAT-TTATA
17646986 TATAAAATTAAATTT-TAA
1 TAT-AAA--AAATTTAT-A
*
17647004 TATAAAAAATTTATT
1 TATAAAAAATTTATA
17647019 TATAA
1 TATAA
17647024 TTAAATTTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
15 20 0.49
16 6 0.15
17 7 0.17
18 4 0.10
19 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (15 bp):
TATAAAAAATTTATA
Found at i:17653027 original size:24 final size:24
Alignment explanation
Indices: 17652993--17653040 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
17652983 TGGTGATTCT
*
17652993 TAATTTTTATAATTACGTTAATTA
1 TAATTTCTATAATTACGTTAATTA
17653017 TAATTTCTATAATTACGTTAATTA
1 TAATTTCTATAATTACGTTAATTA
17653041 AAAAGGAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TAATTTCTATAATTACGTTAATTA
Found at i:17657543 original size:24 final size:24
Alignment explanation
Indices: 17657509--17657556 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17657499 TGGTGATTCT
*
17657509 TAATTCTTATAAGTACATTAATTA
1 TAATTCCTATAAGTACATTAATTA
*
17657533 TAATTCCTATAATTACATTAATTA
1 TAATTCCTATAAGTACATTAATTA
17657557 ATAAAGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATTCCTATAAGTACATTAATTA
Found at i:17660889 original size:32 final size:31
Alignment explanation
Indices: 17660831--17660890 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
17660821 GGGTAACAAT
*
17660831 ATTAAATTTTCACTAAAAAGATAATAAGATC
1 ATTAAATTTTCACTAAAAAGACAATAAGATC
* *
17660862 ATTATAATTTTCACTAGAAATACAATAAG
1 ATTA-AATTTTCACTAAAAAGACAATAAG
17660891 GCCCTTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (31 bp):
ATTAAATTTTCACTAAAAAGACAATAAGATC
Found at i:17660899 original size:32 final size:32
Alignment explanation
Indices: 17660831--17660899 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
17660821 GGGTAACAAT
* *
17660831 ATTA-AATTTTCACTAAAAAGATAATAAGATC
1 ATTATAATTTTCACTAAAAAGACAATAAGACC
* * *
17660862 ATTATAATTTTCACTAGAAATACAATAAGGCC
1 ATTATAATTTTCACTAAAAAGACAATAAGACC
*
17660894 CTTATA
1 ATTATA
17660900 GTTAAAAGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (32 bp):
ATTATAATTTTCACTAAAAAGACAATAAGACC
Found at i:17661515 original size:31 final size:32
Alignment explanation
Indices: 17661477--17661540 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
17661467 GGCTTCTAAA
17661477 TATAAGGGTCTTATTGTCTTTCTAG-GAAAAT
1 TATAAGGGTCTTATTGTCTTTCTAGTGAAAAT
*
17661508 TATAAGGGTCTTATTGTCTTTTTAGTGAAAAT
1 TATAAGGGTCTTATTGTCTTTCTAGTGAAAAT
17661540 T
1 T
17661541 TAACATAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (32 bp):
TATAAGGGTCTTATTGTCTTTCTAGTGAAAAT
Found at i:17670865 original size:18 final size:18
Alignment explanation
Indices: 17670844--17670959 Score: 72
Period size: 18 Copynumber: 6.4 Consensus size: 18
17670834 TTTTGAACGG
17670844 ATATTTGTTCAAATAGTT
1 ATATTTGTTCAAATAGTT
* * ** *
17670862 ATATCTATTTTAACAGTT
1 ATATTTGTTCAAATAGTT
* **
17670880 ATGTTTGTTCAAATAAAT
1 ATATTTGTTCAAATAGTT
*
17670898 ATATTTGTTTAAATAGTT
1 ATATTTGTTCAAATAGTT
* * *
17670916 ATGTTTATTTAAAATA-TT
1 ATATTT-GTTCAAATAGTT
* * * *
17670934 ATACTTGTACAAAAAGAT
1 ATATTTGTTCAAATAGTT
17670952 ATATTTGT
1 ATATTTGT
17670960 GTATAAATAA
Statistics
Matches: 68, Mismatches: 28, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
17 5 0.07
18 56 0.82
19 7 0.10
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.48
Consensus pattern (18 bp):
ATATTTGTTCAAATAGTT
Found at i:17670887 original size:36 final size:36
Alignment explanation
Indices: 17670847--17670921 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
17670837 TGAACGGATA
** *
17670847 TTTGTTCAAATAGTTATATCTATTTTAACAGTTATG
1 TTTGTTCAAATAAATATATCTATTTAAACAGTTATG
* * *
17670883 TTTGTTCAAATAAATATATTTGTTTAAATAGTTATG
1 TTTGTTCAAATAAATATATCTATTTAAACAGTTATG
17670919 TTT
1 TTT
17670922 ATTTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (36 bp):
TTTGTTCAAATAAATATATCTATTTAAACAGTTATG
Found at i:17670954 original size:54 final size:54
Alignment explanation
Indices: 17670844--17670968 Score: 128
Period size: 54 Copynumber: 2.3 Consensus size: 54
17670834 TTTTGAACGG
* * * ** *
17670844 ATATTTGTTCAAATAGTTATATCTATTTTAACAGTTATGTTTGTTCAAATAAAT
1 ATATTTGTTTAAATAGTTATATCTATTTTAAAAATTATACTTGTACAAATAAAT
* *
17670898 ATATTTGTTTAAATAGTTATGTTTA-TTTAAAATATTATACTTGTACAAA-AAGAT
1 ATATTTGTTTAAATAGTTATATCTATTTTAAAA-ATTATACTTGTACAAATAA-AT
17670952 ATATTTGTGTATAAATA
1 ATATTTGT-T-TAAATA
17670969 AGACTCTTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 8 0.14
54 44 0.75
55 1 0.02
56 6 0.10
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (54 bp):
ATATTTGTTTAAATAGTTATATCTATTTTAAAAATTATACTTGTACAAATAAAT
Found at i:17671664 original size:43 final size:42
Alignment explanation
Indices: 17671617--17671697 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
17671607 TATGAGCAAT
*
17671617 AAAATCAAAATA-ACTTTTACTATAATTAAATAATATTTTCACC
1 AAAATAAAAATATA-TTTTACTATAATTAAATAA-ATTTTCACC
* *
17671660 AAAATAAAAATATATTTTATTATAATTTAATAAATTTT
1 AAAATAAAAATATATTTTACTATAATTAAATAAATTTT
17671698 GTATTAGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 5 0.15
43 28 0.82
44 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (42 bp):
AAAATAAAAATATATTTTACTATAATTAAATAAATTTTCACC
Found at i:17672342 original size:30 final size:32
Alignment explanation
Indices: 17672303--17672363 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
17672293 AAATAATATT
*
17672303 TTAATATTAAAAAATA-AAAT-ATATTCTTCA
1 TTAAAATTAAAAAATACAAATAATATTCTTCA
*
17672333 TTAAAATTAAATAATACTAAATAATATTCTT
1 TTAAAATTAAAAAATAC-AAATAATATTCTT
17672364 TGTTACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 14 0.54
32 4 0.15
33 8 0.31
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (32 bp):
TTAAAATTAAAAAATACAAATAATATTCTTCA
Found at i:17672403 original size:45 final size:45
Alignment explanation
Indices: 17672342--17672435 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
17672332 ATTAAAATTA
* * *
17672342 AATAATACTAAATAATATTCTTTGTTACATTTATTATA-TTCAAAT
1 AATAATACTAAATAATATGCTTTATAACATTTATTATAGTT-AAAT
* * *
17672387 AATAATATTAAGTAATATGCTTTATAATATTTATTATAGTTAAAT
1 AATAATACTAAATAATATGCTTTATAACATTTATTATAGTTAAAT
17672432 AATA
1 AATA
17672436 TTAATATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (45 bp):
AATAATACTAAATAATATGCTTTATAACATTTATTATAGTTAAAT
Found at i:17672449 original size:18 final size:19
Alignment explanation
Indices: 17672410--17672455 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
17672400 AATATGCTTT
*
17672410 ATAATATTTATTATAGTTAA
1 ATAATA-TTAATATAGTTAA
17672430 ATAATATTAATATA-TTAA
1 ATAATATTAATATAGTTAA
17672448 ATAATATT
1 ATAATATT
17672456 TAAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.48
19 7 0.28
20 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAATATTAATATAGTTAA
Found at i:17672462 original size:18 final size:18
Alignment explanation
Indices: 17672410--17672463 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
17672400 AATATGCTTT
*
17672410 ATAATATTTATTATAGTTAA
1 ATAATATTTA-AATA-TTAA
17672430 ATAATA-TTAATATATTAA
1 ATAATATTTAA-ATATTAA
17672448 ATAATATTTAAATATT
1 ATAATATTTAAATATT
17672464 TTCATTTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 15 0.48
19 10 0.32
20 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATAATATTTAAATATTAA
Found at i:17673049 original size:36 final size:38
Alignment explanation
Indices: 17672972--17673062 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 38
17672962 TGCGTCTATT
*
17672972 AACTCTAAGATGATCAACATAGTTTTTTTTTTTTTTAAAAAA
1 AACTCTAAGATGATCAACATA----TTATTTTTTTTAAAAAA
17673014 AACTCTAAGATGATCAACATA-TATTTTTTTT-AAAAA
1 AACTCTAAGATGATCAACATATTATTTTTTTTAAAAAA
*
17673050 AACTATAAGATGA
1 AACTCTAAGATGA
17673063 ACATTGGTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
36 17 0.36
37 9 0.19
42 21 0.45
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (38 bp):
AACTCTAAGATGATCAACATATTATTTTTTTTAAAAAA
Found at i:17674166 original size:206 final size:205
Alignment explanation
Indices: 17673813--17674225 Score: 745
Period size: 206 Copynumber: 2.0 Consensus size: 205
17673803 CTACGTTTTG
17673813 TACTGATGAAATCAATCCATTGAGCACTCACTGGGGTACAACAAGATTATCAAATTCTATAAAGT
1 TACTGATGAAATCAATCCATTGAGCACTCACTGGGGTACAACAAGATTATCAAATTCTATAAAGT
* * *
17673878 TTTACTGTAGCAAAATACTATAGAAGCAATCTAAGAAGAATTTGAAGAAAGTGGAGTGAATGATT
66 TTTACTGTAGCAAAATACTATAAAAGCAATCTAAGAAGAATTTAAAGAAAATGGAGTGAATGATT
*
17673943 GCTAATAGTTTCTCTCTTGCCTTTTTTCCATATATCTTTAACCAGAGAGGCAAAGATTCCGCTTC
131 GCTAATAGTTTCTCTCTTGCCTTTTTTCCATACATCTTTAACCAGAGAGGCAAAGATTCCGCTTC
17674008 TCGACAGACA
196 TCGACAGACA
*
17674018 TACTGATGAAATCAATCCATTGAGCACTTACTGGGGTACAACAAGATTATCAAATTCTTATAAAG
1 TACTGATGAAATCAATCCATTGAGCACTCACTGGGGTACAACAAGATTATCAAATTC-TATAAAG
*
17674083 TTTTACTGTGGCAAAATACTATAAAAGCAATCTAAGAAGAATTTAAAGAAAATGGAGTGAATGAT
65 TTTTACTGTAGCAAAATACTATAAAAGCAATCTAAGAAGAATTTAAAGAAAATGGAGTGAATGAT
* *
17674148 TGCTAATTGTTTCTCTCTTGCCTTTTTTCCATACATCTTTAACCAGCGAGGCAAAGATTCCGCTT
130 TGCTAATAGTTTCTCTCTTGCCTTTTTTCCATACATCTTTAACCAGAGAGGCAAAGATTCCGCTT
17674213 CTCGACAGACA
195 CTCGACAGACA
17674224 TA
1 TA
17674226 ACTATCTATT
Statistics
Matches: 199, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
205 56 0.28
206 143 0.72
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (205 bp):
TACTGATGAAATCAATCCATTGAGCACTCACTGGGGTACAACAAGATTATCAAATTCTATAAAGT
TTTACTGTAGCAAAATACTATAAAAGCAATCTAAGAAGAATTTAAAGAAAATGGAGTGAATGATT
GCTAATAGTTTCTCTCTTGCCTTTTTTCCATACATCTTTAACCAGAGAGGCAAAGATTCCGCTTC
TCGACAGACA
Found at i:17677472 original size:21 final size:20
Alignment explanation
Indices: 17677431--17677474 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
17677421 AAAAAAATTG
*
17677431 ATTATTAATTAATTACTAGA
1 ATTATTAATTAATAACTAGA
17677451 ATTATTAATCTAATCAAC-AGA
1 ATTATTAAT-TAAT-AACTAGA
17677472 ATT
1 ATT
17677475 TGGTCACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 10 0.48
22 2 0.10
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTATTAATTAATAACTAGA
Found at i:17708888 original size:28 final size:29
Alignment explanation
Indices: 17708847--17708906 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
17708837 GTCTATGGGC
*
17708847 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
17708875 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
17708905 AA
1 AA
17708907 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:17720438 original size:19 final size:19
Alignment explanation
Indices: 17720414--17720511 Score: 54
Period size: 19 Copynumber: 5.1 Consensus size: 19
17720404 TGCCCGTGTG
17720414 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
17720433 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
* *
17720452 CACGATGGGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
* * ** *
17720471 CATGATGGTGCCGGTTATGTG
1 CACGAT-GTG-GGGGGATGTA
17720492 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
17720511 C
1 C
17720512 GTGAGCCGGG
Statistics
Matches: 52, Mismatches: 23, Indels: 8
0.63 0.28 0.10
Matches are distributed among these distances:
18 3 0.06
19 31 0.60
20 8 0.15
21 10 0.19
ACGTcount: A:0.19, C:0.15, G:0.43, T:0.22
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:17720452 original size:38 final size:40
Alignment explanation
Indices: 17720410--17720511 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 40
17720400 ATAGTGCCCG
*
17720410 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* * * *
17720448 TGTGCACGATGGGGGGGGATGCACATGATGGTGCCGGTTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
17720488 TGTGCACGATGTGGGGGGATGTAC
1 TGTGCACGATGTGGGGGGATGTAC
17720512 GTGAGCCGGG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 26 0.48
39 4 0.07
40 24 0.44
ACGTcount: A:0.19, C:0.15, G:0.43, T:0.24
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:17732535 original size:21 final size:21
Alignment explanation
Indices: 17732488--17732533 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
17732478 TCTATTAGAC
*
17732488 TTTTTAGGTAAAATTTATGAA
1 TTTTTAGGTAAAAGTTATGAA
17732509 TTTTTA-GTAAAAGTTATGAA
1 TTTTTAGGTAAAAGTTATGAA
17732529 TTTTT
1 TTTTT
17732534 TATTGAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (21 bp):
TTTTTAGGTAAAAGTTATGAA
Found at i:17732565 original size:60 final size:61
Alignment explanation
Indices: 17732497--17732613 Score: 209
Period size: 61 Copynumber: 1.9 Consensus size: 61
17732487 CTTTTTAGGT
*
17732497 AAAATTTATGAATTTTTA-GTAAAAGTTATGAATTTTTTATTGAATCAATTGAATAAGGAA
1 AAAATTTATGAATTTTTAGGTAAAAGTTATAAATTTTTTATTGAATCAATTGAATAAGGAA
*
17732557 AAAATTTATGAATTTTTAGGTAAAAGTTATAAATTTTTTATTGAATTAATTGAATAA
1 AAAATTTATGAATTTTTAGGTAAAAGTTATAAATTTTTTATTGAATCAATTGAATAA
17732614 AAAGAAATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
60 18 0.33
61 36 0.67
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.44
Consensus pattern (61 bp):
AAAATTTATGAATTTTTAGGTAAAAGTTATAAATTTTTTATTGAATCAATTGAATAAGGAA
Found at i:17732956 original size:42 final size:42
Alignment explanation
Indices: 17732908--17732993 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
17732898 TGAACTTAGT
*
17732908 TTATATAAGTAGTTTTAGTTTATTTTCATGTTGAAAGCCCTA
1 TTATATAAGTAGTTTTAGTTTATTTTCATGTTGAAAGCACTA
* *
17732950 TTATATAAGTAGTTTTAGTTTATTTTTATGTTGAAGGCACTA
1 TTATATAAGTAGTTTTAGTTTATTTTCATGTTGAAAGCACTA
17732992 TT
1 TT
17732994 TTAAGCCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (42 bp):
TTATATAAGTAGTTTTAGTTTATTTTCATGTTGAAAGCACTA
Found at i:17734118 original size:23 final size:23
Alignment explanation
Indices: 17734088--17734142 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
17734078 AACCTTTTCT
* *
17734088 AATTAGTTTGCATAAACGTCTGG
1 AATTAGTTTGCATAAACATCTAG
17734111 AATTAGTTTGCATAAACATCTAG
1 AATTAGTTTGCATAAACATCTAG
17734134 AATTAGTTT
1 AATTAGTTT
17734143 TGGAAAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (23 bp):
AATTAGTTTGCATAAACATCTAG
Found at i:17736200 original size:2 final size:2
Alignment explanation
Indices: 17736193--17736221 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17736183 GGCAGCATTT
17736193 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17736222 NATTTCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17736253 original size:54 final size:53
Alignment explanation
Indices: 17736169--17736276 Score: 189
Period size: 56 Copynumber: 2.0 Consensus size: 53
17736159 TTTTACCCCA
17736169 ATTTCTAAACCCTAGGCAGCATTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCT
1 ATTTCTAAACCCTAGGCAGCATTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCT
17736222 NATTTCTAAACCCTAGGCAGCATTTCTTCTCTCTCTCTCTCTCTCTCTCTCTCTC
1 -ATTTCTAAACCCTAGGCAGCA-TT-TTCTCTCTCTCTCTCTCTCTCTCTCTCTC
17736277 AACCCCACTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
54 21 0.40
55 2 0.04
56 29 0.56
ACGTcount: A:0.13, C:0.38, G:0.06, T:0.43
Consensus pattern (53 bp):
ATTTCTAAACCCTAGGCAGCATTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCT
Found at i:17736256 original size:2 final size:2
Alignment explanation
Indices: 17736249--17736276 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17736239 CAGCATTTCT
17736249 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
17736277 AACCCCACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17738203 original size:19 final size:20
Alignment explanation
Indices: 17738167--17738204 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
17738157 ATGTGAGTGT
*
17738167 GAATCTTTAAACTATGTTTA
1 GAATCTTTAAAATATGTTTA
*
17738187 GAAT-TTTAAAATTTGTTT
1 GAATCTTTAAAATATGTTT
17738205 GATCTTTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
GAATCTTTAAAATATGTTTA
Found at i:17746936 original size:13 final size:13
Alignment explanation
Indices: 17746918--17746942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17746908 TTTCAGAAAA
17746918 TTTATAAAATCAT
1 TTTATAAAATCAT
17746931 TTTATAAAATCA
1 TTTATAAAATCA
17746943 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:17756801 original size:15 final size:15
Alignment explanation
Indices: 17756781--17756810 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17756771 GAATGAATTA
17756781 CATTGAAAGGCTGAT
1 CATTGAAAGGCTGAT
*
17756796 CATTGAAAGGTTGAT
1 CATTGAAAGGCTGAT
17756811 TCAAACCATC
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:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (15 bp):
CATTGAAAGGCTGAT
Found at i:17757155 original size:35 final size:35
Alignment explanation
Indices: 17757109--17757300 Score: 213
Period size: 35 Copynumber: 5.5 Consensus size: 35
17757099 TTAAGTTGTA
**
17757109 CCTAATTAATTAAATTGTTTAATTAAATCGGTGGG
1 CCTAATTAATTAAATTGTTTAATTAAATCATTGGG
* *
17757144 CCTAATTAATTAAATTGTTTAATTAAGTCATTGAG
1 CCTAATTAATTAAATTGTTTAATTAAATCATTGGG
**** *
17757179 CCTAATTAATTAAATTAAACAATTAAATTATTGGG
1 CCTAATTAATTAAATTGTTTAATTAAATCATTGGG
* **
17757214 CCTAATTGATTAAAATTGTTTAATTAAATTGTTGGG
1 CCTAATTAATT-AAATTGTTTAATTAAATCATTGGG
* * *
17757250 CTTAATTAATTAAATTGTTTAATTAAGTTATTGGG
1 CCTAATTAATTAAATTGTTTAATTAAATCATTGGG
* **
17757285 CTTAATCGATTAAATT
1 CCTAATTAATTAAATT
17757301 AAACAATTAA
Statistics
Matches: 133, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
35 105 0.79
36 28 0.21
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (35 bp):
CCTAATTAATTAAATTGTTTAATTAAATCATTGGG
Found at i:17757203 original size:70 final size:69
Alignment explanation
Indices: 17757084--17757265 Score: 199
Period size: 70 Copynumber: 2.6 Consensus size: 69
17757074 CAAGCACTTG
**** *
17757084 ATTAAAATTGTTTAATTAAG-TTGTA-CCTAATTAATTAAATTGTTTAATTAAATCGGTGGGCCT
1 ATTAAAATTGTTTAATTAAGTTTG-AGCCTAATTAATTAAATTAAACAATTAAATCAGTGGGCCT
17757147 AATTA
65 AATTA
* *
17757152 ATT-AAATTGTTTAATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAATTATTGGGCC
1 ATTAAAATTGTTTAATTAAGT--TTGAGCCTAATTAATTAAATTAAACAATTAAATCAGTGGGCC
*
17757216 TAATTG
64 TAATTA
* * *
17757222 ATTAAAATTGTTTAATTAAATTGTTGGGCTTAATTAATTAAATT
1 ATTAAAATTGTTTAATT-AAGT-TTGAGCCTAATTAATTAAATT
17757266 GTTTAATTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
67 16 0.17
68 3 0.03
69 1 0.01
70 41 0.43
71 32 0.33
72 3 0.03
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (69 bp):
ATTAAAATTGTTTAATTAAGTTTGAGCCTAATTAATTAAATTAAACAATTAAATCAGTGGGCCTA
ATTA
Found at i:17757241 original size:106 final size:106
Alignment explanation
Indices: 17757109--17757321 Score: 320
Period size: 106 Copynumber: 2.0 Consensus size: 106
17757099 TTAAGTTGTA
17757109 CCTAATTAATTAAATTGTTTAATTAAATCGGTGGGCCTAATTAATTAAATTGTTTAATTAAGTCA
1 CCTAATTAATTAAATTGTTTAATTAAATCGGTGGGCCTAATTAATTAAATTGTTTAATTAAGTCA
*
17757174 TTGAGCCTAATTAATTAAATTAAACAATTAAATT-ATTGGG
66 TTGAGCCTAATCAATTAAATTAAACAATTAAATTAATTGGG
* * * * *
17757214 CCTAATTGATTAAAATTGTTTAATTAAATTGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTT
1 CCTAATTAATT-AAATTGTTTAATTAAATCGGTGGGCCTAATTAATTAAATTGTTTAATTAAGTC
* * * *
17757279 ATTGGGCTTAATCGATTAAATTAAACAATTAAGTTAATTGGG
65 ATTGAGCCTAATCAATTAAATTAAACAATTAAATTAATTGGG
17757321 C
1 C
17757322 TTCTTAAGGA
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 10 0.10
106 79 0.82
107 7 0.07
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (106 bp):
CCTAATTAATTAAATTGTTTAATTAAATCGGTGGGCCTAATTAATTAAATTGTTTAATTAAGTCA
TTGAGCCTAATCAATTAAATTAAACAATTAAATTAATTGGG
Found at i:17757264 original size:71 final size:70
Alignment explanation
Indices: 17757081--17757298 Score: 246
Period size: 71 Copynumber: 3.1 Consensus size: 70
17757071 TCTCAAGCAC
***
17757081 TTGATTAAAATTGTTTAATT-AA-GTTGTA-CCTAATTAATTAAATTGTTTAATTAAATCGGTGG
1 TTGATTAAAATTGTTTAATTAAATGTTG-AGCCTAATTAATTAAATTGTTTAATTAAATTATTGG
17757143 GCCTAA
65 GCCTAA
* * * ****
17757149 TTAATT-AAATTGTTTAATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAATTATTGG
1 TTGATTAAAATTGTTTAATTAAAT-GTTGAGCCTAATTAATTAAATTGTTTAATTAAATTATTGG
17757213 GCCTAA
65 GCCTAA
* * *
17757219 TTGATTAAAATTGTTTAATTAAATTGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTTATTGG
1 TTGATTAAAATTGTTTAATTAAA-TGTTGAGCCTAATTAATTAAATTGTTTAATTAAATTATTGG
*
17757284 GCTTAA
65 GCCTAA
*
17757290 TCGATTAAA
1 TTGATTAAA
17757299 TTAAACAATT
Statistics
Matches: 122, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
67 13 0.11
68 6 0.05
69 1 0.01
70 41 0.34
71 60 0.49
72 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.43
Consensus pattern (70 bp):
TTGATTAAAATTGTTTAATTAAATGTTGAGCCTAATTAATTAAATTGTTTAATTAAATTATTGGG
CCTAA
Found at i:17757309 original size:35 final size:35
Alignment explanation
Indices: 17757140--17757323 Score: 143
Period size: 35 Copynumber: 5.2 Consensus size: 35
17757130 ATTAAATCGG
* **** *
17757140 TGGGCCTAATTAATTAAATTGTTTAATTAAGTCAT
1 TGGGCTTAATTAATTAAATTAAACAATTAAGTTAT
* * *
17757175 TGAGCCTAATTAATTAAATTAAACAATTAAATTAT
1 TGGGCTTAATTAATTAAATTAAACAATTAAGTTAT
* * **** * *
17757210 TGGGCCTAATTGATTAAAATTGTTTAATTAAATTGT
1 TGGGCTTAATTAATT-AAATTAAACAATTAAGTTAT
****
17757246 TGGGCTTAATTAATTAAATTGTTTAATTAAGTTAT
1 TGGGCTTAATTAATTAAATTAAACAATTAAGTTAT
**
17757281 TGGGCTTAATCGATTAAATTAAACAATTAAGTTAAT
1 TGGGCTTAATTAATTAAATTAAACAATTAAGTT-AT
17757317 TGGGCTT
1 TGGGCTT
17757324 CTTAAGGACT
Statistics
Matches: 123, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
35 86 0.70
36 37 0.30
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (35 bp):
TGGGCTTAATTAATTAAATTAAACAATTAAGTTAT
Found at i:17757320 original size:71 final size:70
Alignment explanation
Indices: 17757081--17757323 Score: 231
Period size: 71 Copynumber: 3.5 Consensus size: 70
17757071 TCTCAAGCAC
** * ***
17757081 TTGATTAAAATTGTTTAATTAAG---TTGTACCTAATTAATTAAATTGTTTAATTAAATCGGTGG
1 TTGATT-AAATTGTTTAATTAAGTTATTGGGCTTAATTAATTAAATTGTTTAATTAAATTATTGG
17757143 GCCTAA
65 GCCTAA
* * * * ****
17757149 TTAATTAAATTGTTTAATTAAGTCATTGAGCCTAATTAATTAAATTAAACAATTAAATTATTGGG
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCTTAATTAATTAAATTGTTTAATTAAATTATTGGG
17757214 CCTAA
66 CCTAA
* * *
17757219 TTGATTAAAATTGTTTAATTAAATTGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTTATTGG
1 TTGATT-AAATTGTTTAATTAAGTTATTGGGCTTAATTAATTAAATTGTTTAATTAAATTATTGG
*
17757284 GCTTAA
65 GCCTAA
* ****
17757290 TCGATTAAATTAAACAATTAAGTTAATTGGGCTT
1 TTGATTAAATTGTTTAATTAAGTT-ATTGGGCTT
17757324 CTTAAGGACT
Statistics
Matches: 141, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
67 16 0.11
68 5 0.04
70 54 0.38
71 66 0.47
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.43
Consensus pattern (70 bp):
TTGATTAAATTGTTTAATTAAGTTATTGGGCTTAATTAATTAAATTGTTTAATTAAATTATTGGG
CCTAA
Found at i:17760286 original size:12 final size:12
Alignment explanation
Indices: 17760269--17760309 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
17760259 ATTTCTTTTT
17760269 AATTTTTTAATA
1 AATTTTTTAATA
*
17760281 AATTTTTTAA-C
1 AATTTTTTAATA
17760292 AA-TTTTTAATA
1 AATTTTTTAATA
17760303 ATATTTT
1 A-ATTTT
17760310 CCACTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 11 0.46
13 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (12 bp):
AATTTTTTAATA
Found at i:17779017 original size:22 final size:22
Alignment explanation
Indices: 17778992--17779033 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17778982 AAATATTTTA
*
17778992 TATTATAA-TTATTAATAAAATT
1 TATT-TAATTTATAAATAAAATT
17779014 TATTTAATTTATAAATAAAA
1 TATTTAATTTATAAATAAAA
17779034 ATATTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTAATTTATAAATAAAATT
Found at i:17780404 original size:49 final size:49
Alignment explanation
Indices: 17780331--17780430 Score: 141
Period size: 49 Copynumber: 2.0 Consensus size: 49
17780321 CAGAGGAAGC
* *
17780331 TATTTATAATAGCCAAGTAAACCTAAA-TCTACTTGGTGTGA-AAGTAAAG
1 TATTTATAATAGCAAACTAAACCTAAACT-TACTTGGTGT-ATAAGTAAAG
*
17780380 TATTTATAATAGCAAACTAGACCTAAACTTACTTGGTGTATAAGTAAAG
1 TATTTATAATAGCAAACTAAACCTAAACTTACTTGGTGTATAAGTAAAG
17780429 TA
1 TA
17780431 AATAGTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
48 1 0.02
49 44 0.96
50 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (49 bp):
TATTTATAATAGCAAACTAAACCTAAACTTACTTGGTGTATAAGTAAAG
Found at i:17782554 original size:15 final size:15
Alignment explanation
Indices: 17782534--17782564 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17782524 TATTATATAA
*
17782534 ATATACTTTTAACAT
1 ATATACTTTAAACAT
17782549 ATATACTTTAAACAT
1 ATATACTTTAAACAT
17782564 A
1 A
17782565 AACATATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATACTTTAAACAT
Found at i:17782724 original size:28 final size:28
Alignment explanation
Indices: 17782677--17782733 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
17782667 ATACCTAAAT
17782677 TTATTAATTAAAATATTTT-ATATTATAA
1 TTATTAATTAAAATATTTTAAT-TTATAA
*
17782705 TTATTAA-TAAAATTTATTTAATTTATAA
1 TTATTAATTAAAATAT-TTTAATTTATAA
17782733 T
1 T
17782734 AAAAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 7 0.27
28 17 0.65
29 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATTAATTAAAATATTTTAATTTATAA
Found at i:17782726 original size:21 final size:22
Alignment explanation
Indices: 17782697--17782737 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
17782687 AAATATTTTA
17782697 TATTATAA-TTATTAATAAAATT
1 TATTATAATTTA-TAATAAAATT
17782719 TATT-TAATTTATAATAAAA
1 TATTATAATTTATAATAAAA
17782738 ATATAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTATAATTTATAATAAAATT
Found at i:17782833 original size:20 final size:20
Alignment explanation
Indices: 17782782--17782834 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 20
17782772 ATTGAATAAT
*
17782782 TTAAATATTAATATTTTAAG
1 TTAAATATTAATATTTTTAG
17782802 TTAAA-A-T--T-TTTTTAG
1 TTAAATATTAATATTTTTAG
17782817 TTAAATATTAATATTTTT
1 TTAAATATTAATATTTTT
17782835 TAATATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
15 11 0.41
16 2 0.07
17 1 0.04
18 1 0.04
19 2 0.07
20 10 0.37
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TTAAATATTAATATTTTTAG
Found at i:17789308 original size:87 final size:87
Alignment explanation
Indices: 17789088--17789346 Score: 482
Period size: 87 Copynumber: 3.0 Consensus size: 87
17789078 GCGACAGGGT
*
17789088 TCTTCTACTTATCTAAGACCGAAGAAGTTCGGTTTGTAAATGCAAATTACATGATATCAATAGTT
1 TCTTCTACTTATCTAAGACTGAAGAAGTTCGGTTTGTAAATGCAAATTACATGATATCAATAGTT
17789153 GGAAATTAACAACAATTGTCGGC
66 GGAAATTAACAA-AATTGTCGGC
*
17789176 TCTTCTACTTATCTAAGACTGAAGAAGTTCGGTTTGTAAATGCAAATTACATGATAGCAATAGTT
1 TCTTCTACTTATCTAAGACTGAAGAAGTTCGGTTTGTAAATGCAAATTACATGATATCAATAGTT
17789241 GGAAATTAACAAAATTGTCGGC
66 GGAAATTAACAAAATTGTCGGC
*
17789263 TCTTCTACTTATCTAAGACTGAAGAAGTTCGGTTTGTAAATGCAAATTACGTGATATCAATAGTT
1 TCTTCTACTTATCTAAGACTGAAGAAGTTCGGTTTGTAAATGCAAATTACATGATATCAATAGTT
17789328 GGAAATTAACAAAATTGTC
66 GGAAATTAACAAAATTGTC
17789347 CTCAGTTATT
Statistics
Matches: 167, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 92 0.55
88 75 0.45
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (87 bp):
TCTTCTACTTATCTAAGACTGAAGAAGTTCGGTTTGTAAATGCAAATTACATGATATCAATAGTT
GGAAATTAACAAAATTGTCGGC
Found at i:17795000 original size:5 final size:5
Alignment explanation
Indices: 17794990--17795016 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17794980 TAATTTGGAT
17794990 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
17795017 GAGAGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:17805579 original size:24 final size:25
Alignment explanation
Indices: 17805526--17805579 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
17805516 AATAAGGGAT
*
17805526 TTGCTCCAAAAGAGCCTGGTATTGAGC
1 TTGCTCCAAAAGAGCC--GTATTGACC
*
17805553 TTGCTCCAAAAGAGCC-TATTGCCC
1 TTGCTCCAAAAGAGCCGTATTGACC
17805577 TTG
1 TTG
17805580 AATAGGCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
27 16 0.64
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (25 bp):
TTGCTCCAAAAGAGCCGTATTGACC
Found at i:17806059 original size:12 final size:12
Alignment explanation
Indices: 17806042--17806084 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
17806032 ACTTAAATAA
17806042 TTTAAAAATTAT
1 TTTAAAAATTAT
17806054 TTTAAAAATTAT
1 TTTAAAAATTAT
*
17806066 ATTTATTAAATTCAT
1 -TTTA-AAAATT-AT
17806081 TTTA
1 TTTA
17806085 TTAATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 12 0.44
13 4 0.15
14 9 0.33
15 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTAAAAATTAT
Found at i:17806070 original size:13 final size:13
Alignment explanation
Indices: 17806041--17806070 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
17806031 AACTTAAATA
17806041 ATTTAAAAATTAT
1 ATTTAAAAATTAT
17806054 -TTTAAAAATTAT
1 ATTTAAAAATTAT
17806066 ATTTA
1 ATTTA
17806071 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAAAAATTAT
Found at i:17806076 original size:14 final size:13
Alignment explanation
Indices: 17806047--17806088 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
17806037 AATAATTTAA
*
17806047 AAATTATTTTA-A
1 AAATTATTTTATT
17806059 AAATTATATTTATT
1 AAATTAT-TTTATT
17806073 AAATTCATTTTATT
1 AAATT-ATTTTATT
17806087 AA
1 AA
17806089 TTAAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 7 0.27
13 4 0.15
14 13 0.50
15 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATTATTTTATT
Found at i:17813305 original size:2 final size:2
Alignment explanation
Indices: 17813300--17813333 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
17813290 CTCCAAAAAA
* *
17813300 AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17813334 GCAAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:17814969 original size:2 final size:2
Alignment explanation
Indices: 17814962--17814986 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17814952 TGCTGTCATA
17814962 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17814987 ATACAATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17819242 original size:2 final size:2
Alignment explanation
Indices: 17819235--17819294 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
17819225 CGGTGATTCA
17819235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17819277 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
17819295 TCTCAGCCAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17835797 original size:72 final size:71
Alignment explanation
Indices: 17835712--17835865 Score: 186
Period size: 72 Copynumber: 2.2 Consensus size: 71
17835702 CACATTTTGA
* * ** *
17835712 ATAGCTATAGTCAACCCTGAACCAAGCATAGTTGACCCTGACAAATC-AAAGTTAGGGAAAAGTC
1 ATAGCCATAGTCAACCCTAAACCAAGCATAGTCAACCCTGACAAATCAAAAG-TA-AGAAAAGTC
17835776 AAGATTAC
64 AAGATTAC
* * * *
17835784 AATA-CCATAGTCAATCCTAAATCAAGCATTGTCAACCCTGACAAGTCAAAAGTAAGAAAAGTCA
1 -ATAGCCATAGTCAACCCTAAACCAAGCATAGTCAACCCTGACAAATCAAAAGTAAGAAAAGTCA
17835848 AGATTAC
65 AGATTAC
17835855 ATAGCCATAGT
1 ATAGCCATAGT
17835866 AGACTATGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
70 3 0.04
71 23 0.33
72 37 0.53
73 7 0.10
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (71 bp):
ATAGCCATAGTCAACCCTAAACCAAGCATAGTCAACCCTGACAAATCAAAAGTAAGAAAAGTCAA
GATTAC
Found at i:17836502 original size:35 final size:35
Alignment explanation
Indices: 17836455--17836529 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
17836445 TTGTTGATTA
* *
17836455 TGTAAAGGTTATCGCTTGATCTCATGAAAAGCTAT
1 TGTAAAGATTATCGCTTGATCTCATGAAAAGCTAC
*
17836490 TGTAAAGATTATCGCTTGATCTCTTGAAAAGCTAC
1 TGTAAAGATTATCGCTTGATCTCATGAAAAGCTAC
17836525 TGTAA
1 TGTAA
17836530 GGGATATTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (35 bp):
TGTAAAGATTATCGCTTGATCTCATGAAAAGCTAC
Found at i:17836543 original size:35 final size:35
Alignment explanation
Indices: 17836455--17836557 Score: 118
Period size: 35 Copynumber: 2.9 Consensus size: 35
17836445 TTGTTGATTA
* * * *
17836455 TGTAAAGGTTATCGCTTGATCTCATGAAAAGCTAT
1 TGTAAAGATTATCACTTGATCTCTTGAAAAGCTAC
*
17836490 TGTAAAGATTATCGCTTGATCTCTTGAAAAGCTAC
1 TGTAAAGATTATCACTTGATCTCTTGAAAAGCTAC
* *
17836525 TGTAAGGGA-TATTACTTGATCTCGTTGAAAAGC
1 TGTAA-AGATTATCACTTGATCTC-TTGAAAAGC
17836558 AAGAATTCCT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
35 49 0.82
36 11 0.18
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (35 bp):
TGTAAAGATTATCACTTGATCTCTTGAAAAGCTAC
Found at i:17848776 original size:2 final size:2
Alignment explanation
Indices: 17848769--17848799 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
17848759 ACAATAAAGA
*
17848769 AG AG AG AG AG AT AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17848800 AATGAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.45, T:0.03
Consensus pattern (2 bp):
AG
Found at i:17854008 original size:57 final size:57
Alignment explanation
Indices: 17853920--17854033 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
17853910 TCGTTTGTTA
* **
17853920 CCACCGTTGAAGGAGAAAAAGGCTGCTTGTAGCGAGGGTTGTCCCCTACGAGTGGAG
1 CCACCGTTGAAGGAGAAAAAGGCTGCTTGTAGCGAAGGTCATCCCCTACGAGTGGAG
* * * *
17853977 CCACCGTTGAAGGAGGAAAGGGTTGCTTGTAGCGAAGGTCATCCCCTATGAGTGGAG
1 CCACCGTTGAAGGAGAAAAAGGCTGCTTGTAGCGAAGGTCATCCCCTACGAGTGGAG
17854034 ACCAACAGTC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (57 bp):
CCACCGTTGAAGGAGAAAAAGGCTGCTTGTAGCGAAGGTCATCCCCTACGAGTGGAG
Found at i:17855182 original size:40 final size:40
Alignment explanation
Indices: 17855127--17855205 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
17855117 GACCACAAGA
17855127 TCCCAAAAAAGGCCATTCTCTAGATCCTAGTTGTCTCTTG
1 TCCCAAAAAAGGCCATTCTCTAGATCCTAGTTGTCTCTTG
*
17855167 TCCCAAAAAAGGCCATTCTCTAGATCTTAGTTGTCTCTT
1 TCCCAAAAAAGGCCATTCTCTAGATCCTAGTTGTCTCTT
17855206 TGCTTGTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (40 bp):
TCCCAAAAAAGGCCATTCTCTAGATCCTAGTTGTCTCTTG
Found at i:17855260 original size:53 final size:53
Alignment explanation
Indices: 17855197--17855305 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
17855187 TAGATCTTAG
17855197 TTGTCTCTTTGCTTGTTAAAGCTCCATTCCATACACAAACTCCACAATAGTTC
1 TTGTCTCTTTGCTTGTTAAAGCTCCATTCCATACACAAACTCCACAATAGTTC
*
17855250 TTGTCTCTTTGCTTGTTAAAGCTCCATTCCATACATAAACTCCACAATAGTTC
1 TTGTCTCTTTGCTTGTTAAAGCTCCATTCCATACACAAACTCCACAATAGTTC
17855303 TTG
1 TTG
17855306 GAGCTGACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.38
Consensus pattern (53 bp):
TTGTCTCTTTGCTTGTTAAAGCTCCATTCCATACACAAACTCCACAATAGTTC
Found at i:17859271 original size:19 final size:21
Alignment explanation
Indices: 17859225--17859271 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17859215 TTATTTTATG
*
17859225 TTGATATGATATTTGTTTGTA
1 TTGATATGATATATGTTTGTA
*
17859246 TTAATATGATATAT-TTT-TA
1 TTGATATGATATATGTTTGTA
17859265 TTGATAT
1 TTGATAT
17859272 TAAAACATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 8 0.35
20 3 0.13
21 12 0.52
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (21 bp):
TTGATATGATATATGTTTGTA
Found at i:17861535 original size:81 final size:81
Alignment explanation
Indices: 17861400--17861619 Score: 325
Period size: 81 Copynumber: 2.7 Consensus size: 81
17861390 ACGCAAGGTT
* * *
17861400 TAGAGTTTGTGAAACGACATGGTAGG-AATGTGTAACACGTCATGGTGAGAATATGTGAAATAGG
1 TAGAGTTTGTGACACGACATGGT-GGCAATGTGTGACACGTCATGGTGAGAATATGTGAAACAGG
* * *
17861464 TGTGATACGGCAGGGTC
65 TGTGACACGACAGGGTA
* * * *
17861481 TAGAGTTTGTGACACGGCATGGTGGCAATGTGTGACACGTTATGGTGAGAATATGTGAGACGGGT
1 TAGAGTTTGTGACACGACATGGTGGCAATGTGTGACACGTCATGGTGAGAATATGTGAAACAGGT
17861546 GTGACACGACAGGGTA
66 GTGACACGACAGGGTA
*
17861562 TAGAGTTTGTGACACGACATGGTGACAATGTGTGACACGTCATGGTGAGAATATGTGA
1 TAGAGTTTGTGACACGACATGGTGGCAATGTGTGACACGTCATGGTGAGAATATGTGA
17861620 CACGGCAAGG
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
80 2 0.02
81 123 0.98
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (81 bp):
TAGAGTTTGTGACACGACATGGTGGCAATGTGTGACACGTCATGGTGAGAATATGTGAAACAGGT
GTGACACGACAGGGTA
Found at i:17861537 original size:23 final size:23
Alignment explanation
Indices: 17861488--17861543 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
17861478 GTCTAGAGTT
*
17861488 TGTGACACGGCATGGTGGCAATG
1 TGTGACACGGCATGGTGGCAATA
**
17861511 TGTGACACGTTATGGTGAG-AATA
1 TGTGACACGGCATGGTG-GCAATA
*
17861534 TGTGAGACGG
1 TGTGACACGG
17861544 GTGTGACACG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.25, C:0.12, G:0.38, T:0.25
Consensus pattern (23 bp):
TGTGACACGGCATGGTGGCAATA
Found at i:17861599 original size:23 final size:23
Alignment explanation
Indices: 17861544--17861686 Score: 106
Period size: 23 Copynumber: 6.1 Consensus size: 23
17861534 TGTGAGACGG
* * *
17861544 GTGTGACACGACAGGGTATAGAGT
1 GTGTGACACGACATGGT-GAGAAT
* *
17861568 TTGTGACACGACATGGTGACAAT
1 GTGTGACACGACATGGTGAGAAT
*
17861591 GTGTGACACGTCATGGTGAGAAT
1 GTGTGACACGACATGGTGAGAAT
* * * * *
17861614 ATGTGACACGGCAAGGTTTAGAGT
1 GTGTGACACGACATGG-TGAGAAT
* * * *
17861638 GTGTGACATGTCAGGGTGATAAT
1 GTGTGACACGACATGGTGAGAAT
* * *
17861661 GTGTGAGACGACACGGTGATAAT
1 GTGTGACACGACATGGTGAGAAT
17861684 GTG
1 GTG
17861687 ACAAGGCTGT
Statistics
Matches: 94, Mismatches: 24, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
23 62 0.66
24 32 0.34
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (23 bp):
GTGTGACACGACATGGTGAGAAT
Found at i:17861679 original size:70 final size:70
Alignment explanation
Indices: 17861545--17861679 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
17861535 GTGAGACGGG
* * * * *
17861545 TGTGACACGACAGGGTATAGAGTTTGTGACACGACATGGTGACAATGTGTGACACGTCATGGTGA
1 TGTGACACGACAAGGTATAGAGTGTGTGACACGACAGGGTGACAATGTGTGACACGACACGGTGA
17861610 GAATA
66 GAATA
* * * * * *
17861615 TGTGACACGGCAAGGTTTAGAGTGTGTGACATGTCAGGGTGATAATGTGTGAGACGACACGGTGA
1 TGTGACACGACAAGGTATAGAGTGTGTGACACGACAGGGTGACAATGTGTGACACGACACGGTGA
17861680 TAATGTGACA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 54 1.00
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.24
Consensus pattern (70 bp):
TGTGACACGACAAGGTATAGAGTGTGTGACACGACAGGGTGACAATGTGTGACACGACACGGTGA
GAATA
Found at i:17861895 original size:104 final size:105
Alignment explanation
Indices: 17861638--17862355 Score: 659
Period size: 104 Copynumber: 6.9 Consensus size: 105
17861628 GGTTTAGAGT
* * * * * *
17861638 GTGTGACATGTCAGGGTGATAATGTGTGAGACGACACGGTGA-TA-ATGTGACAAGGCTGTGACA
1 GTGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACA
* * * ***
17861701 C-AGCAGGATTTAGAGTGTGTAACACGCTATGGTCAG-A-C
66 CGA-CAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAATC
* * * * * * *
17861739 GTGTGACACGACAGGATTATAATGTGTGAAATGGCACAGTGATAATGTGTGACACGGGTGTGACA
1 GTGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACA
* *
17861804 CGACAGGGTTTAGAGTGTGTGACACGTCATGGGGGGAATC
66 CGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAATC
* * * * *
17861844 -TATGACACGATAGGGTGATAATGTGTGAGACAGCACGGCGAGAATATGTGACATGGGTGTGACA
1 GTGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACA
* ** ***
17861908 CGACAGCGTTTAGAGTGTGTGACAC-ATATTGGTCAGAA-C
66 CGACAGGGTTTAGAGTGTGTGACACGCCA-TGGAGGGAATC
* * * * * * *
17861947 GTGGGACACGACAGGGTCATAATGTGTGAAACGGCACAGTGATAATATGTAACATGGGTGTGACA
1 GTGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACA
* *
17862012 CGACAGGATTTAAAGTGTGTGACACGCCATGGAGGGAATC
66 CGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAATC
* * * *
17862052 -TGTGACACGACAGGGTAATAATGTGTGAGACAGCATGGTGAGAATATGTGGCACGGGTGTGACA
1 GTGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACA
** * * *** *
17862116 CGACAGCATTTAGAGTGTGTGACACACAATGG-TCAAAAC
66 CGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAATC
* * * * ** * *
17862155 GTGTGACATGGCAGGGTCATAATGTGTGAAACGGCACAATGATAATATGTGATACGGGTGTGACA
1 GTGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACA
* ** *
17862220 TGGTAGGGTTTAGAGTGTGTGACATGCCATGGAGGGAAT-
66 CGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAATC
* * ** *
17862259 TTGTGACACG-CTAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGAGACAAGTGTCAC
1 GTGTGACACGAC-AGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGAC
* * * *
17862323 ATGGCAGCGTTTAGAGTGTGGGACACGCCATGG
65 ACGACAGGGTTTAGAGTGTGTGACACGCCATGG
17862356 TCAGACGTGT
Statistics
Matches: 494, Mismatches: 111, Indels: 21
0.79 0.18 0.03
Matches are distributed among these distances:
101 34 0.07
102 1 0.00
103 49 0.10
104 405 0.82
105 5 0.01
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (105 bp):
GTGTGACACGACAGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGACACGGGTGTGACA
CGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAATC
Found at i:17861990 original size:208 final size:207
Alignment explanation
Indices: 17861650--17862369 Score: 914
Period size: 208 Copynumber: 3.5 Consensus size: 207
17861640 GTGACATGTC
* * *
17861650 AGGGTGATAATGTGTGAGAC-GACACGGTGA-TA-ATGTGACAAGGCTGTGACAC-AGCAG-GAT
1 AGGGTGATAATGTGTGAGACAG-CACGGTGAGAATATGTGACACGGGTGTGACACGA-CAGCG-T
* * * * *
17861710 TTAGAGTGTGTAACACGCTATGGTCAG-ACGTGTGACACGACAGGATTATAATGTGTGAAATGGC
63 TTAGAGTGTGTGACAC-ATATGGTCAGAACGTGTGACACGACAGGGTCATAATGTGTGAAACGGC
* * *
17861774 ACAGTGATAATGTGTGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACGTCATGGGGG
127 ACAGTGATAATATGTGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGG
*
17861839 GAATCTATGACACGAT
192 GAATCTGTGACACGAT
* *
17861855 AGGGTGATAATGTGTGAGACAGCACGGCGAGAATATGTGACATGGGTGTGACACGACAGCGTTTA
1 AGGGTGATAATGTGTGAGACAGCACGGTGAGAATATGTGACACGGGTGTGACACGACAGCGTTTA
*
17861920 GAGTGTGTGACACATATTGGTCAGAACGTGGGACACGACAGGGTCATAATGTGTGAAACGGCACA
66 GAGTGTGTGACACATA-TGGTCAGAACGTGTGACACGACAGGGTCATAATGTGTGAAACGGCACA
* * * *
17861985 GTGATAATATGTAACATGGGTGTGACACGACAGGATTTAAAGTGTGTGACACGCCATGGAGGGAA
130 GTGATAATATGTGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAA
*
17862050 TCTGTGACACGAC
195 TCTGTGACACGAT
* * * *
17862063 AGGGTAATAATGTGTGAGACAGCATGGTGAGAATATGTGGCACGGGTGTGACACGACAGCATTTA
1 AGGGTGATAATGTGTGAGACAGCACGGTGAGAATATGTGACACGGGTGTGACACGACAGCGTTTA
* * * *
17862128 GAGTGTGTGACACACAATGGTCAAAACGTGTGACATGGCAGGGTCATAATGTGTGAAACGGCACA
66 GAGTGTGTGACACA-TATGGTCAGAACGTGTGACACGACAGGGTCATAATGTGTGAAACGGCACA
* * * ** *
17862193 ATGATAATATGTGATACGGGTGTGACATGGTAGGGTTTAGAGTGTGTGACATGCCATGGAGGGAA
130 GTGATAATATGTGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAA
* *
17862258 TTTGTGACACGCT
195 TCTGTGACACGAT
* * ** * * *
17862271 AGGGTGATAATGTGTGAGACGGCACGGTGAGAATATGTGAGACAAGTGTCACATGGCAGCGTTTA
1 AGGGTGATAATGTGTGAGACAGCACGGTGAGAATATGTGACACGGGTGTGACACGACAGCGTTTA
* **
17862336 GAGTGTGGGACACGCCATGGTCAG-ACGTGTGACA
66 GAGTGTGTGACAC-ATATGGTCAGAACGTGTGACA
17862370 TAGCATGGCT
Statistics
Matches: 448, Mismatches: 58, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
205 27 0.06
206 4 0.01
207 54 0.12
208 362 0.81
209 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (207 bp):
AGGGTGATAATGTGTGAGACAGCACGGTGAGAATATGTGACACGGGTGTGACACGACAGCGTTTA
GAGTGTGTGACACATATGGTCAGAACGTGTGACACGACAGGGTCATAATGTGTGAAACGGCACAG
TGATAATATGTGACACGGGTGTGACACGACAGGGTTTAGAGTGTGTGACACGCCATGGAGGGAAT
CTGTGACACGAT
Found at i:17862190 original size:23 final size:23
Alignment explanation
Indices: 17862146--17862190 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17862136 GACACACAAT
* *
17862146 GGTCAAAACGTGTGACATGGCAG
1 GGTCAAAACGTGTGAAACGGCAG
* *
17862169 GGTCATAATGTGTGAAACGGCA
1 GGTCAAAACGTGTGAAACGGCA
17862191 CAATGATAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.33, T:0.20
Consensus pattern (23 bp):
GGTCAAAACGTGTGAAACGGCAG
Found at i:17862910 original size:55 final size:55
Alignment explanation
Indices: 17862826--17863257 Score: 424
Period size: 55 Copynumber: 7.9 Consensus size: 55
17862816 GTAAATGGCA
* * * *
17862826 TGTTGTGGGTTAACTGATTTTTTGAGTTTTTAACGTGTCACGGTTGTTCCTGACG
1 TGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGACG
* * * * *
17862881 TGTTGTGGGTTAACTAGTTTTTTGGGTTTTTAGCATGTCAC-GCTGTTCTTGGCA
1 TGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGACG
* * * * * * * *
17862935 TGTTGTGGGTTAATTGGATTTTTGGGTTTTTGGCATATCACAGTTGTTCCTGGCG
1 TGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGACG
* * * * *
17862990 TGTTGTGGGTTAATTGGTTTTTTGAGTTTTTAGTGTGTCACGGCTGTTCTTGGCG
1 TGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGACG
** * * * * * *
17863045 TGTAATGGGTTAACTGGATTTTTT-TGTTTTTGGCCTGTCATGGTTGTTTCT-AGCG
1 TGTTGTGGGTTAACTGG-TTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGA-CG
* * * *
17863100 TGTTGTGGGTTAACTGGTTTTTTAGGTTTTTAGCGTGTCATGGCTGTTCTTGACA
1 TGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGACG
* * * *
17863155 TGTTGTAGGTTAACTGGATTTTTGGGTTTTT-GACGTGTCACGGTTGTTCCTAACG
1 TGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAG-CGTGTCACGGCTGTTCCTGACG
* * *
17863210 TGTTGTAGGTTAATTGG-TTTTTGGTGTTTTTAGTGTGTCACGGCTGTT
1 TGTTGTGGGTTAACTGGTTTTTTGG-GTTTTTAGCGTGTCACGGCTGTT
17863258 GGTGTAACGA
Statistics
Matches: 311, Mismatches: 58, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
54 59 0.19
55 244 0.78
56 8 0.03
ACGTcount: A:0.12, C:0.11, G:0.29, T:0.47
Consensus pattern (55 bp):
TGTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTGTTCCTGACG
Done.