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 288 of 311
Found at i:93906817 original size:12 final size:13
Alignment explanation
Indices: 93906763--93906817 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
93906753 AAACATCTGA
93906763 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
93906777 A-ATTTTAAAATT
1 ATATTTTAAAATT
93906789 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
93906806 ATA-TTTAAAATT
1 ATATTTTAAAATT
93906818 TAAAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:93906817 original size:22 final size:19
Alignment explanation
Indices: 93906783--93906839 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
93906773 AATTAATTTT
93906783 AAAA-TTAATAATTTATAAA
1 AAAATTTAA-AATTTATAAA
93906802 AATTATATTTAAAATTTA-AAA
1 AA--A-ATTTAAAATTTATAAA
*
93906823 AAAATTTAAAATATATA
1 AAAATTTAAAATTTATA
93906840 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
18 11 0.34
19 4 0.12
21 6 0.19
22 7 0.22
23 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTAAAATTTATAAA
Found at i:93906840 original size:31 final size:33
Alignment explanation
Indices: 93906800--93906861 Score: 94
Period size: 31 Copynumber: 1.9 Consensus size: 33
93906790 ATAATTTATA
93906800 AAAATTATATTTAAAAT-TTA-AAAA-AAATTT
1 AAAATTATATTTAAAATATTATAAAACAAATTT
93906830 AAAATATATATTTAAAATATTATAAAACAAAT
1 AAAAT-TATATTTAAAATATTATAAAACAAAT
93906862 AATAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 5 0.18
31 12 0.43
32 3 0.11
33 4 0.14
34 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAATTATATTTAAAATATTATAAAACAAATTT
Found at i:93906925 original size:24 final size:24
Alignment explanation
Indices: 93906884--93906939 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
93906874 AGGTCATATC
*
93906884 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTTAAAAT-A
*
93906909 TTTAAAAATCATA-ATTTAAAATA
1 TTTAAAAATAATATATTTAAAATA
93906932 TTATAAAA
1 TT-TAAAA
93906940 CAAATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 12 0.43
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAAAATAATATATTTAAAATA
Found at i:93907055 original size:20 final size:18
Alignment explanation
Indices: 93907045--93907080 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
93907035 TTTTATATTA
93907045 TTAAAAAATATATTTAAT
1 TTAAAAAATATATTTAAT
93907063 TTAAAAAATAATATTTAA
1 TTAAAAAAT-ATATTTAA
93907081 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAAAATATATTTAAT
Found at i:93907059 original size:22 final size:21
Alignment explanation
Indices: 93907031--93907097 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 21
93907021 AAAATATTTA
93907031 AATATTTTATATTATTAAAAAAT
1 AATATTTTA-ATT-TTAAAAAAT
93907054 -ATA-TTTAA-TTTAAAAAAT
1 AATATTTTAATTTTAAAAAAT
*
93907072 AATATTTAAAATTTTAAAAAAAT
1 AATATTT-TAATTTT-AAAAAAT
93907095 AAT
1 AAT
93907098 TAAAAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 9 0.24
19 4 0.11
20 3 0.08
21 6 0.16
22 6 0.16
23 10 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTTTAATTTTAAAAAAT
Found at i:93907068 original size:18 final size:19
Alignment explanation
Indices: 93907045--93907128 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 19
93907035 TTTTATATTA
93907045 TTAAAAAAT-ATATTTAAT
1 TTAAAAAATAATATTTAAT
93907063 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTT--AAT
*
93907084 TT-TAAAA-AA-A--TAA-
1 TTAAAAAATAATATTTAAT
93907097 TT-AAAAATAATATTTAAAT
1 TTAAAAAATAATATTT-AAT
93907116 TTAGAAAAATAAT
1 TTA-AAAAATAAT
93907129 TTCAAATATA
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
13 6 0.11
14 4 0.08
15 1 0.02
16 1 0.02
17 1 0.02
18 12 0.23
19 10 0.19
20 4 0.08
21 14 0.26
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (19 bp):
TTAAAAAATAATATTTAAT
Found at i:93907084 original size:21 final size:21
Alignment explanation
Indices: 93907045--93907102 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
93907035 TTTTATATTA
93907045 TTAAAAAAT-ATATTT--AAT
1 TTAAAAAATAATATTTAAAAT
93907063 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
* *
93907084 TTTAAAAA-AATAATTAAAA
1 TTAAAAAATAATATTTAAAA
93907103 ATAATATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.26
19 6 0.17
20 10 0.29
21 10 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:93907095 original size:20 final size:20
Alignment explanation
Indices: 93907030--93907102 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
93907020 TAAAATATTT
* *
93907030 AAATATTTTATATTATTAAAA
1 AAATATTTAAAATT-TTAAAA
*
93907051 AATATATTT--AATTTAAAAA
1 AA-ATATTTAAAATTTTAAAA
93907070 ATAATATTTAAAATTTTAAAA
1 A-AATATTTAAAATTTTAAAA
*
93907091 AAATAATTAAAA
1 AAATATTTAAAA
93907103 ATAATATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 12 0.27
20 14 0.32
21 12 0.27
22 6 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATTTAAAATTTTAAAA
Found at i:93907108 original size:33 final size:33
Alignment explanation
Indices: 93907066--93907172 Score: 128
Period size: 33 Copynumber: 3.2 Consensus size: 33
93907056 ATTTAATTTA
93907066 AAAAATAATATTTAAAATTTTAAAAAAATAATT
1 AAAAATAATATTTAAAATTTTAAAAAAATAATT
*
93907099 AAAAATAATATTT-AAA-TTTAGAAAAATAATTT
1 AAAAATAATATTTAAAATTTTAAAAAAATAA-TT
* *
93907131 CAAATATATATATTTAAAATTTTAAAAATATATATT
1 -AAAAATA-ATATTTAAAATTTTAAAAAAATA-ATT
93907167 ATAAAA
1 A-AAAA
93907173 CATTTCAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
31 12 0.19
32 5 0.08
33 19 0.31
34 6 0.10
35 4 0.06
36 15 0.24
37 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (33 bp):
AAAAATAATATTTAAAATTTTAAAAAAATAATT
Found at i:93907152 original size:22 final size:24
Alignment explanation
Indices: 93907126--93907185 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 24
93907116 TTAGAAAAAT
93907126 AATTTCAAATATATATATT-T-AA
1 AATTTCAAATATATATATTATAAA
* *
93907148 AATTTTAAAAATATATATTATAAA
1 AATTTCAAATATATATATTATAAA
93907172 ACATTTCAAATATA
1 A-ATTTCAAATATA
93907186 CATTTCAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 17 0.55
23 1 0.03
24 3 0.10
25 10 0.32
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTTCAAATATATATATTATAAA
Found at i:93907241 original size:21 final size:19
Alignment explanation
Indices: 93907216--93907268 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
93907206 TAATAATAAA
*
93907216 TAAAATAAATAAACAAAAAG
1 TAAAAAAAATAAAC-AAAAG
*
93907236 TAAAAAAAATATTACAAAAG
1 TAAAAAAAATA-AACAAAAG
93907256 TAAAAAAAATAAA
1 TAAAAAAAATAAA
93907269 AAATAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 26 0.90
21 2 0.07
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (19 bp):
TAAAAAAAATAAACAAAAG
Found at i:93907494 original size:14 final size:14
Alignment explanation
Indices: 93907475--93907503 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
93907465 ACGTGACATG
93907475 TTGGTGACGCCAAA
1 TTGGTGACGCCAAA
93907489 TTGGTGACGCCAAA
1 TTGGTGACGCCAAA
93907503 T
1 T
93907504 CATTTGACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (14 bp):
TTGGTGACGCCAAA
Found at i:93911078 original size:13 final size:13
Alignment explanation
Indices: 93911060--93911112 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
93911050 TCTTCACTCC
*
93911060 AACCACTTCACTA
1 AACCACCTCACTA
93911073 AACCA-CTC-C--
1 AACCACCTCACTA
* *
93911082 AGCCACCCCACTA
1 AACCACCTCACTA
93911095 AACCACCTCACTA
1 AACCACCTCACTA
93911108 AACCA
1 AACCA
93911113 TCCCAACCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
9 4 0.13
10 2 0.06
11 2 0.06
12 2 0.06
13 21 0.68
ACGTcount: A:0.38, C:0.47, G:0.02, T:0.13
Consensus pattern (13 bp):
AACCACCTCACTA
Found at i:93911082 original size:22 final size:22
Alignment explanation
Indices: 93911054--93911100 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
93911044 TAAATATCTT
**
93911054 CACTCCAACCACTTCACTAAAC
1 CACTCCAACCACCCCACTAAAC
*
93911076 CACTCCAGCCACCCCACTAAAC
1 CACTCCAACCACCCCACTAAAC
93911098 CAC
1 CAC
93911101 CTCACTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.51, G:0.02, T:0.13
Consensus pattern (22 bp):
CACTCCAACCACCCCACTAAAC
Found at i:93911128 original size:35 final size:35
Alignment explanation
Indices: 93911060--93911128 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
93911050 TCTTCACTCC
* *
93911060 AACCACTTCACTAAACCACTCCAGCCACCCCACTA
1 AACCACCTCACTAAACCACTCCAACCACCCCACTA
*
93911095 AACCACCTCACTAAACCA-TCCCAACCACTCCACT
1 AACCACCTCACTAAACCACT-CCAACCACCCCACT
93911129 TGCCTACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 29 0.97
ACGTcount: A:0.35, C:0.49, G:0.01, T:0.14
Consensus pattern (35 bp):
AACCACCTCACTAAACCACTCCAACCACCCCACTA
Found at i:93911893 original size:16 final size:16
Alignment explanation
Indices: 93911872--93911904 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
93911862 ACTATTGTTA
93911872 TTGTTATTATCATCAC
1 TTGTTATTATCATCAC
*
93911888 TTGTTATTCTCATCAC
1 TTGTTATTATCATCAC
93911904 T
1 T
93911905 ATTATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.52
Consensus pattern (16 bp):
TTGTTATTATCATCAC
Found at i:93911912 original size:3 final size:3
Alignment explanation
Indices: 93911904--93912103 Score: 67
Period size: 3 Copynumber: 67.3 Consensus size: 3
93911894 TTCTCATCAC
* * *
93911904 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
93911950 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * * *
93911995 TAT TAT TAT TAT TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
** * * * * *
93912040 TAT CGT CA- TAT TGT TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
93912084 TAT CTTT TAC TAT TAT TAT T
1 TAT -TAT TAT TAT TAT TAT T
93912104 GTTGTATTTT
Statistics
Matches: 141, Mismatches: 40, Indels: 32
0.66 0.19 0.15
Matches are distributed among these distances:
2 14 0.10
3 112 0.79
4 15 0.11
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:93911946 original size:11 final size:13
Alignment explanation
Indices: 93911916--93911947 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
93911906 TTATTATAAT
93911916 TTATTATTGTTAC
1 TTATTATTGTTAC
93911929 TTATTATT-TTAC
1 TTATTATTGTTAC
93911941 -TATTATT
1 TTATTATT
93911948 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:93912133 original size:22 final size:23
Alignment explanation
Indices: 93912071--93912135 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 23
93912061 ACTATTATAT
93912071 TATTAT-GTTATTATATCTTTTAC
1 TATTATAGTTATTATAT-TTTTAC
* *
93912094 TATTATTA-TTGTTGTATTTTT-C
1 TATTA-TAGTTATTATATTTTTAC
93912116 TATTATAGTTATTATATTTT
1 TATTATAGTTATTATATTTT
93912136 CCTTTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 2 0.06
22 16 0.46
23 9 0.26
24 8 0.23
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.65
Consensus pattern (23 bp):
TATTATAGTTATTATATTTTTAC
Found at i:93912383 original size:25 final size:23
Alignment explanation
Indices: 93912355--93912411 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
93912345 ACCTTCGTAT
93912355 TTATCGTTATT-ATTTGTTTATCTTG
1 TTATCGTTATTGA-TT-TTTAT-TTG
*
93912380 TTATAGTTATTGATTTTTATTTG
1 TTATCGTTATTGATTTTTATTTG
93912403 TTATGCGTT
1 TTAT-CGTT
93912412 CTTTATTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 7 0.25
24 8 0.29
25 12 0.43
26 1 0.04
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.63
Consensus pattern (23 bp):
TTATCGTTATTGATTTTTATTTG
Found at i:93919304 original size:16 final size:17
Alignment explanation
Indices: 93919273--93919305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
93919263 TTCACAAGCA
*
93919273 TATATCATTCATTTTAT
1 TATATCAATCATTTTAT
93919290 TATATCAAT-ATTTTAT
1 TATATCAATCATTTTAT
93919306 CCTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATCAATCATTTTAT
Found at i:93919664 original size:46 final size:46
Alignment explanation
Indices: 93919592--93920025 Score: 513
Period size: 46 Copynumber: 10.0 Consensus size: 46
93919582 TTTGACGTGA
* * * * * *
93919592 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * ** * * *
93919638 TGTCATGGTATCTTGCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
93919684 TGCCATGGTATCTTTTAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
93919730 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93919776 TGCCATGGTATCTTTCAACCATGGTCTTACACA---C--A--A-GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93919814 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
93919860 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
93919898 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
93919944 TGCCATGGTATCTTTCAACCTTGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
93919982 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93920026 AGAGCACACT
Statistics
Matches: 337, Mismatches: 26, Indels: 50
0.82 0.06 0.12
Matches are distributed among these distances:
38 99 0.29
39 3 0.01
40 5 0.01
41 4 0.01
43 4 0.01
44 6 0.02
45 7 0.02
46 209 0.62
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:93919825 original size:38 final size:38
Alignment explanation
Indices: 93919774--93920011 Score: 296
Period size: 38 Copynumber: 5.8 Consensus size: 38
93919764 TTCATATCAG
93919774 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
93919812 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA---C--A--A
*
93919857 GGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 -GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
*
93919896 GTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA---C--A--A
* *
93919941 GGTTGCCATGGTATCTTTCAACCTTGGTCTTACACACAG
1 -GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
93919980 GTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTAC
93920012 TCATTTCATA
Statistics
Matches: 177, Mismatches: 7, Indels: 32
0.82 0.03 0.15
Matches are distributed among these distances:
38 100 0.56
41 4 0.02
43 4 0.02
45 1 0.01
46 68 0.38
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.35
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
Found at i:93919869 original size:84 final size:84
Alignment explanation
Indices: 93919725--93920025 Score: 557
Period size: 84 Copynumber: 3.6 Consensus size: 84
93919715 CATCTCATAT
*
93919725 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
93919790 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
93919809 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
93919874 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
93919893 CAGGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
*
93919958 TCAACCTTGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
93919977 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
93920026 AGAGCACACT
Statistics
Matches: 210, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 210 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTACACA
Found at i:93919959 original size:168 final size:172
Alignment explanation
Indices: 93919636--93920025 Score: 608
Period size: 168 Copynumber: 2.3 Consensus size: 172
93919626 TTTCTGTCAT
* * * * * * *
93919636 GTTGTCATGGTATCTTGCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTTA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCA
93919701 ACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTT
66 ACCATGGTCTTA-ACA--TCA-ATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTT
93919766 CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
127 CATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
*
93919812 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCA
* *
93919877 ACCATGGTCTT-ACA-C-A-CAGGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
66 ACCATGGTCTTAACATCAATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATA
* *
93919938 TCAGGTTGCCATGGTATCTTTCAACCTTGGTCTTACACACAG
131 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
93919980 GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
93920026 AGAGCACACT
Statistics
Matches: 201, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
168 128 0.64
169 1 0.00
171 1 0.00
174 3 0.01
176 68 0.34
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (172 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTAACATCAATCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATA
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAA
Found at i:93923378 original size:206 final size:206
Alignment explanation
Indices: 93923019--93923485 Score: 819
Period size: 206 Copynumber: 2.3 Consensus size: 206
93923009 AGATCTGGCT
* *
93923019 AAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCTGA
1 AAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGA
93923083 TTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTATAAGATGATTTGACATCTCTGTATTGTCAGAG
66 TTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTATAAGATGATTTGACATCTCTGTATTGTCAGAG
*
93923148 AACAAGTCGAAATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAG
131 AACAAGTCGAAATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAA
*
93923213 ATGTTTATACT
196 ATGTTTATACC
*
93923224 GAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGA
1 AAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGA
* *
93923289 TTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
66 TTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTATAAGATGATTTGACATCTCTGTATTGTCAGAG
* *
93923354 AACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAA
131 AACAAGTCGAAATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAA
93923419 ATGTTTATACC
196 ATGTTTATACC
* * *
93923430 AAAGTAAGATCCAAGATGATTTGGCATCATTGTGCTTACAAGGAACAAATCGAAGA
1 AAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGA
93923486 AGCAGATTTG
Statistics
Matches: 248, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
205 4 0.02
206 244 0.98
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (206 bp):
AAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGA
TTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTATAAGATGATTTGACATCTCTGTATTGTCAGAG
AACAAGTCGAAATCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAA
ATGTTTATACC
Found at i:93923669 original size:45 final size:46
Alignment explanation
Indices: 93923573--93923669 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 46
93923563 AAATTGACAA
* **
93923573 AGCAAATTTGGCGTCTCTGTATTAGAAGGGGAGCAGATCGGAGATT
1 AGCAGATTTGGCGTCTCTGTATTAGAAGGGGAGCAGATCAAAGATT
*
93923619 A-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGA-T
1 AGCAGATTTGGCGTCTCTGTATTAGAAGGGGAGCAGATCAAAGATT
93923663 AGCAGAT
1 AGCAGAT
93923670 ATCGCTTTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 2 0.04
45 43 0.93
46 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (46 bp):
AGCAGATTTGGCGTCTCTGTATTAGAAGGGGAGCAGATCAAAGATT
Found at i:93924013 original size:13 final size:13
Alignment explanation
Indices: 93923981--93924014 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
93923971 TATTCACTCC
*
93923981 AACCACCCCACTA
1 AACCACTCCACTA
93923994 AACCACTCCACTA
1 AACCACTCCACTA
93924007 AACCACTC
1 AACCACTC
93924015 TAACCACCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (13 bp):
AACCACTCCACTA
Found at i:93924019 original size:22 final size:22
Alignment explanation
Indices: 93923994--93924049 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
93923984 CACCCCACTA
*
93923994 AACCACTCCACTAAACCA-CTCT
1 AACCACTCCACTAAACCATC-CC
* *
93924016 AACCACCCCACAAAACCATCCC
1 AACCACTCCACTAAACCATCCC
93924038 AACCACTCCACT
1 AACCACTCCACT
93924050 TGCCGACAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (22 bp):
AACCACTCCACTAAACCATCCC
Found at i:93924452 original size:19 final size:18
Alignment explanation
Indices: 93924415--93924456 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
93924405 GGAGAGAGTG
*
93924415 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
93924433 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
93924452 TTATT
1 TTATT
93924457 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:93924515 original size:33 final size:38
Alignment explanation
Indices: 93924441--93924522 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
93924431 TATTATTTTC
*
93924441 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCAC-ATTATCATCAT
*
93924480 TATTACTATTA-TATTA-TAATACC-C-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACATTATCATCAT
93924513 TATTACTATT
1 TATTACTATT
93924523 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
36 1 0.02
37 7 0.17
38 5 0.12
39 10 0.24
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (38 bp):
TATTACTATTATTATTACTAATACCACATTATCATCAT
Found at i:93924801 original size:25 final size:23
Alignment explanation
Indices: 93924773--93924829 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 23
93924763 ACCTTCGTAT
*
93924773 TTATCGTTATTATTTGTTTATCTTG
1 TTATCGTTATTAATT-TTTAT-TTG
*
93924798 TTATAGTTATTAATTTTTATTTG
1 TTATCGTTATTAATTTTTATTTG
93924821 TTATGCGTT
1 TTAT-CGTT
93924830 CTTTATTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 8 0.29
25 13 0.46
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.63
Consensus pattern (23 bp):
TTATCGTTATTAATTTTTATTTG
Found at i:93926931 original size:2 final size:2
Alignment explanation
Indices: 93926924--93926955 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
93926914 TCAATTCTTA
93926924 TC TC 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 TC TC
93926956 CACTTTCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:93927708 original size:22 final size:23
Alignment explanation
Indices: 93927683--93927745 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 23
93927673 TCTCTTTTAA
93927683 TTAATTAAT-TAA-AAATATATTT
1 TTAATTAATATAATAAA-ATATTT
*
93927705 TTAATTGATATAATAAAATA--T
1 TTAATTAATATAATAAAATATTT
93927726 TT-A--AATATAATAAAATATTT
1 TTAATTAATATAATAAAATATTT
93927746 ACTTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
18 13 0.37
20 2 0.06
21 3 0.09
22 8 0.23
23 6 0.17
24 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAATTAATATAATAAAATATTT
Found at i:93927735 original size:18 final size:18
Alignment explanation
Indices: 93927712--93927746 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93927702 TTTTTAATTG
93927712 ATATAATAAAATATTTAA
1 ATATAATAAAATATTTAA
93927730 ATATAATAAAATATTTA
1 ATATAATAAAATATTTA
93927747 CTTTTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATAATAAAATATTTAA
Found at i:93930203 original size:2 final size:2
Alignment explanation
Indices: 93930196--93930226 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
93930186 AGCTAAAGCA
93930196 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93930227 GAATTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93930309 original size:26 final size:26
Alignment explanation
Indices: 93930273--93930359 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
93930263 ACCAACATCC
*
93930273 AATTGAATGTTTGTTATTATATTTTT
1 AATTTAATGTTTGTTATTATATTTTT
* * * *
93930299 AATTTAGTGTTACTATTAATATTGTTTTT
1 AATTTAATGTT--TGTTATTA-TATTTTT
* *
93930328 AATGTAATATTTGTTATTATATTTTT
1 AATTTAATGTTTGTTATTATATTTTT
93930354 AATTTA
1 AATTTA
93930360 TTAATTGAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
26 20 0.43
27 6 0.13
28 6 0.13
29 14 0.30
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.60
Consensus pattern (26 bp):
AATTTAATGTTTGTTATTATATTTTT
Found at i:93930697 original size:17 final size:15
Alignment explanation
Indices: 93930658--93930714 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
93930648 TAAAGTCAAC
93930658 ACTTAATTTTTTTAAT
1 ACTT-ATTTTTTTAAT
93930674 ACTTATTTTTTTAAT
1 ACTTATTTTTTTAAT
* * * *
93930689 ATTTATATTTTCAAC
1 ACTTATTTTTTTAAT
*
93930704 ACTGATTTTTT
1 ACTTATTTTTT
93930715 CATTTTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (15 bp):
ACTTATTTTTTTAAT
Found at i:93940743 original size:24 final size:24
Alignment explanation
Indices: 93940698--93940743 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
93940688 TATATGAAAT
* * *
93940698 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATACTTATAAACA
*
93940722 ATAAATATTAATTACTTATAAA
1 ATAAATATTAAATACTTATAAA
93940744 TTTTAATTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAAATATTAAATACTTATAAACA
Found at i:93941810 original size:40 final size:39
Alignment explanation
Indices: 93941750--93942081 Score: 227
Period size: 41 Copynumber: 8.1 Consensus size: 39
93941740 ACAAAAATTT
*
93941750 TAAAATACAGAGCAATAGCGGCGTTTTAAGGAAAACGCCAC
1 TAAAA-ACAGAGCAATAGCGGCGTTTT-AGGAAAACGCCGC
* **
93941791 TAAAAACAGAGCAACAGCGGCGTTTTTTACTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG--TTTTAGGAAAACGCCGC
* * *
93941832 TAAAAATAGAG-AATTAGCGGCGCTTTAGGTAAAATGCCGC
1 TAAAAACAGAGCAA-TAGCGGCGTTTTAGG-AAAACGCCGC
* * * * *
93941872 TAAAAACCATATCATTAGCGGCGCTTTAGTTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGTTTTAG-GAAAACGCCGC
* * *
93941913 TAAAAACCAGATCATTAGCGGCGCTTT-GGTTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGTTTTAGG--AAAACGCCGC
* * * * *
93941954 TAAAACCCAGATCATTAGCGGCGCTTTGGGTAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTAGG-AAAACGCCGC
* * * * *
93941995 TAAAAACCAGATCATTAGCGACGCTTTGGGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGTTTTAGG-AAAACGCCGC
* * * * *
93942036 TAAAAACCAGACCATTAGCGGCGCTTTGGGTAAAACGTCGC
1 TAAAAA-CAGAGCAATAGCGGCGTTTTAGG-AAAACGCCGC
93942077 TAAAA
1 TAAAA
93942082 GTCATAAACC
Statistics
Matches: 255, Mismatches: 24, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
39 4 0.02
40 34 0.13
41 210 0.82
42 7 0.03
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (39 bp):
TAAAAACAGAGCAATAGCGGCGTTTTAGGAAAACGCCGC
Found at i:93941889 original size:41 final size:41
Alignment explanation
Indices: 93941821--93942081 Score: 398
Period size: 41 Copynumber: 6.4 Consensus size: 41
93941811 CGTTTTTTAC
* ** *
93941821 TAAAACGCCGCTAAAAA-TAGAGAATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGATCATTAGCGGCGCTTTGGG
* * * *
93941861 TAAAATGCCGCTAAAAACCATATCATTAGCGGCGCTTTAGT
1 TAAAACGCCGCTAAAAACCAGATCATTAGCGGCGCTTTGGG
*
93941902 TAAAACGCCGCTAAAAACCAGATCATTAGCGGCGCTTTGGT
1 TAAAACGCCGCTAAAAACCAGATCATTAGCGGCGCTTTGGG
*
93941943 TAAAACGCCGCTAAAACCCAGATCATTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGATCATTAGCGGCGCTTTGGG
*
93941984 TAAAACGCCGCTAAAAACCAGATCATTAGCGACGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGATCATTAGCGGCGCTTTGGG
*
93942025 TAAAACGCCGCTAAAAACCAGACCATTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACCAGATCATTAGCGGCGCTTTGGG
*
93942066 TAAAACGTCGCTAAAA
1 TAAAACGCCGCTAAAA
93942082 GTCATAAACC
Statistics
Matches: 204, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
40 16 0.08
41 188 0.92
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGATCATTAGCGGCGCTTTGGG
Found at i:93942508 original size:25 final size:25
Alignment explanation
Indices: 93942479--93942530 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
93942469 GTGATTTTGA
*
93942479 ATGTGGTATTAGCATTTGTTGAACT
1 ATGTGGAATTAGCATTTGTTGAACT
*
93942504 ATGTGGAATTAGCATTTGTTTAACT
1 ATGTGGAATTAGCATTTGTTGAACT
93942529 AT
1 AT
93942531 TAGCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (25 bp):
ATGTGGAATTAGCATTTGTTGAACT
Found at i:93942852 original size:22 final size:22
Alignment explanation
Indices: 93942827--93942868 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
93942817 TGTGTTTGTG
93942827 GTCTAAGGTTTAGGGGTTTAGA
1 GTCTAAGGTTTAGGGGTTTAGA
* *
93942849 GTCTTAGGTTTAGGGTTTTA
1 GTCTAAGGTTTAGGGGTTTA
93942869 AATTTAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.05, G:0.33, T:0.43
Consensus pattern (22 bp):
GTCTAAGGTTTAGGGGTTTAGA
Found at i:93944637 original size:21 final size:21
Alignment explanation
Indices: 93944611--93944655 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
93944601 ACTTAGAGCA
93944611 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
93944632 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
93944653 GAG
1 GAG
93944656 CAGAACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.58, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCG
Found at i:93945086 original size:71 final size:71
Alignment explanation
Indices: 93944970--93945110 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 71
93944960 GTTTTTTTGC
*
93944970 AAAAGCGACGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTACAGAAGCGCCGCTAAAGTTCTTG
1 AAAAGCGACGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTACAGAAGCACCGCTAAAGTTCTTG
93945035 GTCTAA
66 GTCTAA
*
93945041 AAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTACAGAAGCACCGCTAAAGTTCTTG
1 AAAAGCGACGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTACAGAAGCACCGCTAAAGTTCTTG
93945106 GTCTA
66 GTCTA
93945111 TAGCGGCGCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (71 bp):
AAAAGCGACGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTACAGAAGCACCGCTAAAGTTCTTG
GTCTAA
Found at i:93945140 original size:45 final size:42
Alignment explanation
Indices: 93945038--93945153 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 42
93945028 GTTCTTGGTC
93945038 TAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTT
1 TAAAAAAGCGCCGCT-AAAGTACAGGTCTATAGCGGCGTTTTT
* * * * *
93945081 TACAGAAGCACCGCTAAAGTTCTTGGTCTATAGCGGCGCTTTTTT
1 TAAAAAAGCGCCGCTAAAGTAC-AGGTCTATAGCGGCG--TTTTT
*
93945126 TAAAAAAGCGCCGCTAAAAGTATAGGTC
1 TAAAAAAGCGCCGCT-AAAGTACAGGTC
93945154 CTGGTCTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 6 0.10
43 26 0.45
45 21 0.36
46 5 0.09
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
TAAAAAAGCGCCGCTAAAGTACAGGTCTATAGCGGCGTTTTT
Found at i:93946015 original size:5 final size:5
Alignment explanation
Indices: 93945998--93946027 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
93945988 AAAAATGATA
93945998 GGCCC GAGCCC GGCCC GGCCC GGCCC GGCC
1 GGCCC G-GCCC GGCCC GGCCC GGCCC GGCC
93946028 ATATTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.03, C:0.57, G:0.40, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:93946083 original size:24 final size:24
Alignment explanation
Indices: 93946056--93946134 Score: 60
Period size: 25 Copynumber: 3.5 Consensus size: 24
93946046 TTTTCTTTAT
*
93946056 TAAATAAAAAAATTTAAAATATAA
1 TAAATAAAAAAATTTAAAACATAA
***
93946080 TAAATCAAATGCATTTAAAACATAA
1 TAAAT-AAAAAAATTTAAAACATAA
*
93946105 -AAAT--AAATA-TTAAAACA-AA
1 TAAATAAAAAAATTTAAAACATAA
*
93946124 AAAATAAAAAA
1 TAAATAAAAAA
93946135 TGGGACTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
19 2 0.05
20 12 0.28
21 2 0.05
22 3 0.07
24 9 0.21
25 15 0.35
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.24
Consensus pattern (24 bp):
TAAATAAAAAAATTTAAAACATAA
Found at i:93946096 original size:25 final size:23
Alignment explanation
Indices: 93946067--93946131 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 23
93946057 AAATAAAAAA
*
93946067 ATTTAAAATATAATAAATCAAATGC
1 ATTTAAAACATAA-AAAT-AAATGC
93946092 ATTTAAAACATAAAAATAAAT--
1 ATTTAAAACATAAAAATAAATGC
*
93946113 A-TTAAAACAAAAAAATAAA
1 ATTTAAAACATAAAAATAAA
93946132 AAATGGGACT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 17 0.45
21 1 0.03
23 4 0.11
24 4 0.11
25 12 0.32
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (23 bp):
ATTTAAAACATAAAAATAAATGC
Found at i:93946239 original size:12 final size:12
Alignment explanation
Indices: 93946217--93946245 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
93946207 AAACTAAAAC
93946217 AAATT-AGAACT
1 AAATTAAGAACT
93946228 AAATTAAGAACT
1 AAATTAAGAACT
93946240 AAATTA
1 AAATTA
93946246 TATATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (12 bp):
AAATTAAGAACT
Found at i:93946337 original size:11 final size:12
Alignment explanation
Indices: 93946315--93946339 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93946305 AAAGTTACTT
93946315 AAAATTTAAAAA
1 AAAATTTAAAAA
93946327 AAAATTTAAAAA
1 AAAATTTAAAAA
93946339 A
1 A
93946340 TTTTAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATTTAAAAA
Found at i:93947904 original size:21 final size:21
Alignment explanation
Indices: 93947879--93947973 Score: 115
Period size: 21 Copynumber: 4.7 Consensus size: 21
93947869 GTTTAACTTA
*
93947879 TACGAGTTTCTGTTCAGCTCT
1 TACGAGCTTCTGTTCAGCTCT
* *
93947900 TACGAGCTTCTGTTCAACTTT
1 TACGAGCTTCTGTTCAGCTCT
* *
93947921 TATGAGTTTCTGTTCAGCTCT
1 TACGAGCTTCTGTTCAGCTCT
*
93947942 TGCGAGCTTCTGTT-AGCT-T
1 TACGAGCTTCTGTTCAGCTCT
93947961 T-CGAGCTTCTGTT
1 TACGAGCTTCTGTT
93947974 AACGTGTACT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
18 12 0.19
19 2 0.03
20 4 0.06
21 46 0.72
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (21 bp):
TACGAGCTTCTGTTCAGCTCT
Found at i:93947952 original size:42 final size:42
Alignment explanation
Indices: 93947843--93947955 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
93947833 CGTGTTTTAC
* *** * *
93947843 TTTCTGTTTAGCTCTTACTTTCTTCCGTTTAACTTATACGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTTATACGAG
* *
93947885 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTTTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTTATACGAG
*
93947927 TTTCTGTTCAGCTCTTGCGAGCTTCTGTT
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTT
93947956 AGCTTTCGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.48
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTTATACGAG
Found at i:93949382 original size:11 final size:11
Alignment explanation
Indices: 93949362--93949393 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
93949352 ATCGAAGGTC
93949362 TTTTTA-CTTT
1 TTTTTATCTTT
93949372 TTTTTATCTTT
1 TTTTTATCTTT
93949383 TTTTT-TCTTT
1 TTTTTATCTTT
93949393 T
1 T
93949394 CGAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATCTTT
Found at i:93950069 original size:13 final size:14
Alignment explanation
Indices: 93950048--93950076 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
93950038 TGAAAAATGG
93950048 ATTAGAAAATATTT
1 ATTAGAAAATATTT
93950062 ATTA-AAAATATTT
1 ATTAGAAAATATTT
93950075 AT
1 AT
93950077 AAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:93951107 original size:19 final size:19
Alignment explanation
Indices: 93951066--93951107 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
93951056 ATATACCTTT
*
93951066 TTATATATAGTATCATTTT
1 TTATATATAGTATCATTTA
*
93951085 TTATATATCATTAT-ATTTA
1 TTATATAT-AGTATCATTTA
93951104 TTAT
1 TTAT
93951108 CGTACTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATATAGTATCATTTA
Found at i:93953568 original size:7 final size:7
Alignment explanation
Indices: 93953556--93953595 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
93953546 TGTTACTAAC
93953556 AAATAGA
1 AAATAGA
93953563 AAATAGA
1 AAATAGA
93953570 AAATAGA
1 AAATAGA
**
93953577 AAATATTT
1 AAATA-GA
93953585 AAATAGA
1 AAATAGA
93953592 AAAT
1 AAAT
93953596 GTAAGTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (7 bp):
AAATAGA
Found at i:93953674 original size:28 final size:29
Alignment explanation
Indices: 93953638--93953692 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
93953628 AAACTTATAT
*
93953638 ATATAATTATCATT-TTTTTAATTTTTTG
1 ATATAATTATAATTATTTTTAATTTTTTG
* *
93953666 ATATTATTATAATTATTTTTTATTTTT
1 ATATAATTATAATTATTTTTAATTTTT
93953693 ATCTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (29 bp):
ATATAATTATAATTATTTTTAATTTTTTG
Found at i:93954229 original size:20 final size:20
Alignment explanation
Indices: 93954204--93954251 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 20
93954194 AAGCCTTCCC
93954204 AAAAAAAAAACCTAA-CCAA
1 AAAAAAAAAACCTAACCCAA
93954223 AAAAAAAAAACCTAACCCAA
1 AAAAAAAAAACCTAACCCAA
93954243 AAAAAAAAA
1 AAAAAAAAA
93954252 GAAAAACCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.77, C:0.19, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAACCTAACCCAA
Found at i:93954232 original size:25 final size:26
Alignment explanation
Indices: 93954221--93954276 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
93954211 AAACCTAACC
93954221 AAAAAAAAAAAACCTAA-CCCAAAAA
1 AAAAAAAAAAAACCTAATCCCAAAAA
*
93954246 AAAAAAGAAAAACCTAATCCCAAAAA
1 AAAAAAAAAAAACCTAATCCCAAAAA
93954272 AAAAA
1 AAAAA
93954277 CTAAGAAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.75, C:0.18, G:0.02, T:0.05
Consensus pattern (26 bp):
AAAAAAAAAAAACCTAATCCCAAAAA
Found at i:93954257 original size:26 final size:25
Alignment explanation
Indices: 93954221--93954276 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 25
93954211 AAACCTAACC
93954221 AAAAAAAAAAAACCTAA-CCCAAAA
1 AAAAAAAAAAAACCTAATCCCAAAA
93954245 AAAAAAAGAAAAACCTAATCCCAAAA
1 AAAAAAA-AAAAACCTAATCCCAAAA
93954271 AAAAAA
1 AAAAAA
93954277 CTAAGAAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 7 0.23
25 10 0.33
26 13 0.43
ACGTcount: A:0.75, C:0.18, G:0.02, T:0.05
Consensus pattern (25 bp):
AAAAAAAAAAAACCTAATCCCAAAA
Found at i:93965150 original size:71 final size:70
Alignment explanation
Indices: 93965051--93965226 Score: 223
Period size: 71 Copynumber: 2.5 Consensus size: 70
93965041 CTTTTCAAGG
* *
93965051 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGA-TGAGGTATTTTTAATTT
1 AAAATCGACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACAC-ACCGAGGTATTTTTAATTT
*
93965114 TTGTTTT
64 ATGTTTT
** * *
93965121 CAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACCGAGGTATTTTTAGTTTA
1 -AAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTTAATTTA
93965186 TGTTTT
65 TGTTTT
* *
93965192 AAAAT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCT
93965227 TTTAATTTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
69 28 0.30
70 6 0.06
71 58 0.62
72 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (70 bp):
AAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTTAATTTAT
GTTTT
Found at i:93965347 original size:72 final size:73
Alignment explanation
Indices: 93965254--93965420 Score: 230
Period size: 72 Copynumber: 2.3 Consensus size: 73
93965244 AAAATCAGCC
** * * * *
93965254 CATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTCT-AA
1 CATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGT-TTCTGAA
*
93965318 -TATCAACT
65 GAATCAACT
*
93965326 CATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGTTTGTGAAG
1 CATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGTTTCTGAAG
93965391 AATCAACT
66 AATCAACT
*
93965399 CATATTGCGAGAGGTGGGTTGA
1 CATATTGCGAGAGGTGAGTTGA
93965421 ACCTTTTAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
71 3 0.04
72 53 0.63
73 28 0.33
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (73 bp):
CATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTCAATTTCTGTTTCTGAAG
AATCAACT
Found at i:93965473 original size:199 final size:193
Alignment explanation
Indices: 93965051--93965578 Score: 666
Period size: 199 Copynumber: 2.7 Consensus size: 193
93965041 CTTTTCAAGG
* * ** * *
93965051 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGATGAGGTATTTTTAATTTTT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTTAATTTTT
* * * * ** * * *
93965116 GTTTTC-AAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACCGAGGTATTTTT
65 GTGTTCTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTAATTTC
* * **
93965180 AGTTTATGTTTTAAAATGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 AATTTATGTTTTAAAATAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTC
*
93965244 AAAATCAGCCCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT-AATTTTT
*
93965309 GTGTTCTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGA-TGAGGTAATTT
65 GTGTTCTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC-ACCGAGGTAATTT
* *
93965373 CAATTTCTGTTTGTGAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTAC
129 CAATTTATGTTT-T-AA-AAT-AACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TAC
93965437 TTTTTC
188 TTTTTC
*
93965443 AAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTACTTTTAATTTTT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTTAATTTTT
* * * * *
93965508 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
65 GTGTTCTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACACCGAGGTAATT
93965573 TCAATT
128 TCAATT
93965579 AAGCCTTTCA
Statistics
Matches: 291, Mismatches: 31, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
192 4 0.01
193 58 0.20
194 56 0.19
195 2 0.01
196 2 0.01
197 3 0.01
198 33 0.11
199 111 0.38
200 4 0.01
201 18 0.06
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (193 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTAATTTTTG
TGTTCTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTAATTTCA
ATTTATGTTTTAAAATAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTC
Found at i:93966033 original size:72 final size:72
Alignment explanation
Indices: 93965920--93966060 Score: 282
Period size: 72 Copynumber: 2.0 Consensus size: 72
93965910 TTTCAAAAAA
93965920 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
93965985 TGTTTTC
66 TGTTTTC
93965992 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
93966057 TGTT
66 TGTT
93966061 CAAAATGAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:93966071 original size:49 final size:49
Alignment explanation
Indices: 93966014--93966109 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
93966004 ATATTGCGAG
*
93966014 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
93966063 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
93966110 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:93966156 original size:121 final size:121
Alignment explanation
Indices: 93965942--93966181 Score: 435
Period size: 121 Copynumber: 2.0 Consensus size: 121
93965932 ATATTGCGAG
*
93965942 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
93966007 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCAAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
93966063 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
93966128 TTGCAAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTT
66 TTGCAAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
93966182 TTCAAAATTC
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 114 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCAAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:93966325 original size:81 final size:77
Alignment explanation
Indices: 93966063--93966792 Score: 467
Period size: 72 Copynumber: 9.2 Consensus size: 77
93966053 TTTCTGTTCA
* * *
93966063 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC----AAAATTCAAC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAAC
*
93966123 TCATATTGCAAG
66 TCATATTGCGAG
* * *
93966135 AAATTAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTG-TTTTC----AAAATTCAAC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAAC
93966195 TCATATTGCGAG
66 TCATATTGCGAG
*
93966207 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAAAAT
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTC----AAAAAAAAAT
*
93966272 CAACTCATATTGTGAG
62 CAACTCATATTGCGAG
*
93966288 AAATGAGTTGAGCCTCAAGACATGCTAAGGTATTTTCAATTTCTGTTTTTC--AAAAAAATCAAC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAAC
93966351 TCATATTGCGAG
66 TCATATTGCGAG
** * * *
93966363 AGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTT
1 AAATGAGTTGAGCCTCAAG--ACATGCTGAGGTATTTTCAATTTCTGTTTTTCAA----------
93966428 TCAAAAAAAAATCAACTCATATTGCGAG
54 --AA--AAAAATCAACTCATATTGCGAG
** ** * * * *
93966456 AGGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAATTTCTATCTTTC--AAAAAAATC
1 AAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATC
93966518 AACTCATATTGCGAG
63 AACTCATATTGCGAG
** ** ** * *
93966533 AGGTGAGTTGAG-CTTTAGATCACACATGAGGTATTTTTTCAATTTATATTTTTC--AAAAAAAT
1 AAATGAGTTGAGCCTCAAGA-CATGC-TGAGGTA--TTTTCAATTTCTGTTTTTCAAAAAAAAAT
*
93966595 CAACTCACATTGCGAG
62 CAACTCATATTGCGAG
** ** ** *
93966611 ATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAATCTATTTTTCAAATTCTGTTT
1 AAATGAGTTGAGCCTCAAG--ACATGCT-GAGGTATTTTCAATTTCTGTTTTTCAAA--------
*
93966675 TCAAAAATCAACTCATATTGCGAG
55 -AAAAAATCAACTCATATTGCGAG
* ** * * *
93966699 AAGTGAGTTGAGCCTTGGC-TCACGTACTGAGCTATTTTCAATTTCTGTTTTTTTTC-AAAAAAA
1 AAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAATTTCTG---TTTTTCAAAAAAAA
*
93966762 TTCAACTCATATTGCGAG
60 ATCAACTCATATTGCGAG
**
93966780 AGGTGAGTTGAGC
1 AAATGAGTTGAGC
93966793 TTTTTAATTT
Statistics
Matches: 545, Mismatches: 56, Indels: 105
0.77 0.08 0.15
Matches are distributed among these distances:
72 113 0.21
73 5 0.01
74 1 0.00
75 42 0.08
76 7 0.01
77 79 0.14
78 52 0.10
79 12 0.02
80 2 0.00
81 103 0.19
88 52 0.10
89 2 0.00
90 2 0.00
91 9 0.02
93 62 0.11
94 1 0.00
96 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (77 bp):
AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAAC
TCATATTGCGAG
Found at i:93966416 original size:14 final size:14
Alignment explanation
Indices: 93966397--93966423 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93966387 CGCCGAGGTA
93966397 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
93966411 TTTTCAATTTCTG
1 TTTTCAATTTCTG
93966424 CCTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:93966429 original size:14 final size:14
Alignment explanation
Indices: 93966398--93966431 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
93966388 GCCGAGGTAT
**
93966398 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
93966412 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
93966426 TTTCAA
1 TTTCAA
93966432 AAAAAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:93966434 original size:91 final size:92
Alignment explanation
Indices: 93966320--93966510 Score: 269
Period size: 93 Copynumber: 2.1 Consensus size: 92
93966310 TGCTAAGGTA
**
93966320 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-T
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGCT
* *
93966383 CACACGCCGAGGTATTTTCAATTTCTGT
65 CACACGCCGAGCTATTTTCAATTTCTAT
*
93966411 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGCCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCT
** *
93966476 CACGTGCTGAGCTATTTTCAATTTCTAT
65 CACACGCCGAGCTATTTTCAATTTCTAT
*
93966504 CTTTCAA
1 TTTTCAA
93966511 AAAAATCAAC
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
91 17 0.19
92 2 0.02
93 69 0.78
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (92 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCTC
ACACGCCGAGCTATTTTCAATTTCTAT
Found at i:93966540 original size:77 final size:77
Alignment explanation
Indices: 93966432--93967003 Score: 370
Period size: 88 Copynumber: 7.0 Consensus size: 77
93966422 TGCCTTTCAA
*
93966432 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTACTGAGCTATTTTCAA
*
93966497 TTTCTATCTTTC
66 TTTCTATTTTTC
* * * *
93966509 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCAC--ACATGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTAC-TGAGCTA--TTTT
*
93966572 CAATTTATATTTTTC
63 CAATTTCTATTTTTC
* * * * *
93966587 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGT-C-GAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC--GTACTGAGCTATTTTC
**
93966650 AAAATCTATTTTTC
64 AATTTCTATTTTTC
*
93966664 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTACTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTACTGA
*
93966729 GCTATTTTCAATTTCTGTTTTTTTTC
55 GCTATTTTCAATTTC---TATTTTTC
* *** * * * *
93966755 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGCGAGAGTTGAGTTG
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTT-GGCTC-ACG-TA-CTGAGCT-
* *
93966820 AGTCTTTTAATTTCTGTTTTTC
58 A-T-TTTCAATTTCTATTTTTC
* ** * *
93966842 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACATA-TCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTACT-GAGCTATTTTC
*
93966903 AAAATCTGCTTTTCAAGTTAAGTTTC
64 --AA------TTTCTA-TT---TTTC
* **
93966929 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTACTGAGCTATTTTCAA
*
93966993 TTTCTGTTTTT
66 TTTCTATTTTT
93967004 AGAGAGTCAA
Statistics
Matches: 389, Mismatches: 56, Indels: 101
0.71 0.10 0.18
Matches are distributed among these distances:
75 4 0.01
76 10 0.03
77 64 0.16
78 64 0.16
79 9 0.02
80 10 0.03
81 32 0.08
82 2 0.01
83 6 0.02
84 33 0.08
85 7 0.02
86 5 0.01
87 18 0.05
88 105 0.27
89 2 0.01
90 11 0.03
91 7 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTACTGAGCTATTTTCAA
TTTCTATTTTTC
Found at i:93966617 original size:78 final size:76
Alignment explanation
Indices: 93966432--93966792 Score: 294
Period size: 78 Copynumber: 4.5 Consensus size: 76
93966422 TGCCTTTCAA
* * *
93966432 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACG-ACTGAGCTATTTTCAA
*
93966497 TTTCTATCTTTC
65 TTTATATCTTTC
* *
93966509 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCAC-ACATGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACGAC-TGAGCTA--TTTTC
*
93966573 AATTTATATTTTTC
63 AATTTATATCTTTC
* * ** * * *
93966587 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCAC-ATGTCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACGA-CT-GAGCTATTTTC-
* *
93966651 AAATCTATTTTTCAAATTCTGTTT
63 --A---A--TTT-ATA-TCT-TTC
** * * *
93966675 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTACTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACG-ACTGAGCTATTTTCAA
* * *
93966740 TTTCTGTTTTTTTTC
65 -TT-T-ATATCTTTC
93966755 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
93966793 TTTTTAATTT
Statistics
Matches: 230, Mismatches: 34, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
75 1 0.00
76 6 0.03
77 49 0.21
78 60 0.26
79 6 0.03
80 8 0.03
81 34 0.15
82 2 0.01
83 1 0.00
85 4 0.02
86 2 0.01
87 2 0.01
88 53 0.23
89 1 0.00
90 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACGACTGAGCTATTTTCAAT
TTATATCTTTC
Found at i:93966810 original size:30 final size:30
Alignment explanation
Indices: 93966774--93966835 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
93966764 CAACTCATAT
93966774 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
93966804 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
93966834 TG
1 TG
93966836 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:93966936 original size:253 final size:246
Alignment explanation
Indices: 93966168--93967003 Score: 887
Period size: 253 Copynumber: 3.4 Consensus size: 246
93966158 GCTGAGGTAA
* * * ** * ** *
93966168 TTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATTAGTTGAGCC-T--CAAGACA
1 TTTCAAATTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACG
* **** * **
93966229 TGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAAAATCAACTCATATTGTGAGAAATGA
65 TGCTGAGCTATTTTCAATTTCTGTTTTT---TTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
** ** *
93966294 GTTGAGCCTCAAGA-CATGC-TAAGGTA--TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCAT
127 GTTGAG-CTTTAGATCACACATGAGGTATCTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCAT
* * **
93966355 ATTGCGAGAGGTGAGTTGAGCCT-CAGGTCACACGCCGAGGTATTTTCAATTTCTGTT
190 ATTGCGAGAGGTGAGTTGAGCCTCCA-GTCACATGTCGAGGTATTTTCAAAATCTGTT
*
93966412 TTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTCAAATTCTG-CTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
* *
93966477 ACGTGCTGAGCTATTTTCAATTTC---TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
62 ACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
* * * *
93966539 GTTGAGCTTTAGATCACACATGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACA
127 GTTGAGCTTTAGATCACACATGAGGTATCTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATA
* ** *
93966604 TTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTATT
191 TTGCGAGAGGTGAGTTGAGCCTCCAGTCACATGTCGAGGTATTTTCAAAATCTGTT
* *
93966660 TTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGT
1 TTTCAAATTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGT
*
93966724 ACTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
66 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTT
* * *
93966789 GAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAA
130 GAGC--TTTAGA--TC-AC-ACA--TGAGGT-A-TCTTTTCAATTTCTGTTTTTCAAAAAATCAA
* * *
93966851 CTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCT
185 CTCATATTGCGAGAGGTGAGTTGAGCCTCCAGTCACATGTCGAGGTATTTTCAAAATCTGTT
* ** * *
93966913 TTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCACGC
1 TTTCAAATTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGT
93966977 GCTGAGCTATTTTCAATTTCTGTTTTT
66 GCTGAGCTATTTTCAATTTCTGTTTTT
93967004 AGAGAGTCAA
Statistics
Matches: 503, Mismatches: 61, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
243 65 0.13
244 17 0.03
245 40 0.08
246 19 0.04
247 34 0.07
248 94 0.19
249 36 0.07
250 3 0.01
251 23 0.05
252 7 0.01
253 142 0.28
254 5 0.01
255 13 0.03
256 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (246 bp):
TTTCAAATTCTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGT
GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCTTTAGATCACACATGAGGTATCTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTCCAGTCACATGTCGAGGTATTTTCAAAATCTGTT
Found at i:93970339 original size:37 final size:35
Alignment explanation
Indices: 93970298--93970379 Score: 83
Period size: 39 Copynumber: 2.2 Consensus size: 35
93970288 TCTTAAAATA
93970298 TAATTATAAAAATAAATTTTAATTTTTATAATATTTT
1 TAATTATAAAAATAAATTTTAATTTTTA-AA-ATTTT
* * * *
93970335 TAATTTTATACATATTATTTTTAATTTTTAAAATTTT
1 TAA--TTATAAAAATAAATTTTAATTTTTAAAATTTT
*
93970372 AAATTATA
1 TAATTATA
93970380 CTTTTCAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 5 0.13
37 10 0.26
38 2 0.05
39 21 0.55
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (35 bp):
TAATTATAAAAATAAATTTTAATTTTTAAAATTTT
Found at i:93970355 original size:21 final size:18
Alignment explanation
Indices: 93970314--93970376 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 18
93970304 TAAAAATAAA
93970314 TTTTAATTTTTATAATAT
1 TTTTAATTTTTATAATAT
*
93970332 TTTTAATTTTATACATATTAT
1 TTTTAATTTT-T--ATAATAT
93970353 TTTTAATTTTTA-AA-AT
1 TTTTAATTTTTATAATAT
*
93970369 TTTAAATT
1 TTTTAATT
93970377 ATACTTTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 9 0.23
17 1 0.03
18 11 0.28
19 1 0.03
20 1 0.03
21 16 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTAATTTTTATAATAT
Found at i:93979681 original size:21 final size:21
Alignment explanation
Indices: 93979655--93979700 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
93979645 ATCAAATGCT
*
93979655 TTTTTTTATAAA-AAAACAATA
1 TTTTTTTA-AAATAAAAAAATA
93979676 TTTTTTTAAAATAAAAAAATA
1 TTTTTTTAAAATAAAAAAATA
93979697 TTTT
1 TTTT
93979701 CATATATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTTTAAAATAAAAAAATA
Found at i:93981055 original size:12 final size:12
Alignment explanation
Indices: 93981038--93981064 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
93981028 CCTATATTGA
93981038 AATTATAATAAT
1 AATTATAATAAT
93981050 AATTATAATAAT
1 AATTATAATAAT
93981062 AAT
1 AAT
93981065 AATGAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATTATAATAAT
Found at i:93982546 original size:20 final size:20
Alignment explanation
Indices: 93982521--93982560 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
93982511 AAAAACCATT
93982521 GAAAAA-AAAGAAGAGATGAA
1 GAAAAATAAA-AAGAGATGAA
*
93982541 GAAAAATAAAAGGAGATGAA
1 GAAAAATAAAAAGAGATGAA
93982561 TAGTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (20 bp):
GAAAAATAAAAAGAGATGAA
Found at i:93985493 original size:17 final size:19
Alignment explanation
Indices: 93985466--93985523 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 19
93985456 TAAAGTGATA
93985466 AACACTTTAATATTAAATT
1 AACACTTTAATATTAAATT
93985485 AA-A-TTTAATATTAAGA-T
1 AACACTTTAATATTAA-ATT
93985502 AATCACTTTAATATTAAATT
1 AA-CACTTTAATATTAAATT
93985522 AA
1 AA
93985524 TAAAATACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 14 0.41
18 2 0.06
19 4 0.12
20 14 0.41
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (19 bp):
AACACTTTAATATTAAATT
Found at i:93985524 original size:20 final size:20
Alignment explanation
Indices: 93985468--93985524 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
93985458 AAGTGATAAA
93985468 CACTTTAATATTAAATTAA-
1 CACTTTAATATTAAATTAAT
93985487 -A-TTTAATATTAAGA-TAAT
1 CACTTTAATATTAA-ATTAAT
93985505 CACTTTAATATTAAATTAAT
1 CACTTTAATATTAAATTAAT
93985525 AAAATACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 14 0.42
18 2 0.06
19 2 0.06
20 15 0.45
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (20 bp):
CACTTTAATATTAAATTAAT
Found at i:93985566 original size:17 final size:17
Alignment explanation
Indices: 93985474--93985569 Score: 58
Period size: 17 Copynumber: 5.6 Consensus size: 17
93985464 TAAACACTTT
*
93985474 AATATTAAATTAAATTT
1 AATATTAAATTAAATTA
*
93985491 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAA--A-TTA
*
93985511 AATATTAAATT-AATAA
1 AATATTAAATTAAATTA
* *
93985527 AATACT--ATCAAGA-TA
1 AATATTAAATTAA-ATTA
*
93985542 AGTATTAAATTAAATTA
1 AATATTAAATTAAATTA
93985559 AATATTAAATT
1 AATATTAAATT
93985570 TGTTAAAATA
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 2 0.03
15 6 0.10
16 8 0.13
17 28 0.47
18 1 0.02
19 3 0.05
20 12 0.20
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAATTA
Found at i:93989967 original size:20 final size:20
Alignment explanation
Indices: 93989942--93989991 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
93989932 TAATTATTTG
*
93989942 TAAAATTTAATTTAAATATA
1 TAAAATATAATTTAAATATA
*
93989962 TAAAATATATTTTAAATAT-
1 TAAAATATAATTTAAATATA
*
93989981 CAAAATATAAT
1 TAAAATATAAT
93989992 CCTTACCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATATAATTTAAATATA
Found at i:94001073 original size:67 final size:67
Alignment explanation
Indices: 94000980--94001108 Score: 258
Period size: 67 Copynumber: 1.9 Consensus size: 67
94000970 TTAGGTCAAA
94000980 TAAAATAAATGACTAAGATAAATAAAATAAAGTAATAAATCAAAGATTAAAACAATAAAGAATGA
1 TAAAATAAATGACTAAGATAAATAAAATAAAGTAATAAATCAAAGATTAAAACAATAAAGAATGA
94001045 CC
66 CC
94001047 TAAAATAAATGACTAAGATAAATAAAATAAAGTAATAAATCAAAGATTAAAACAATAAAGAA
1 TAAAATAAATGACTAAGATAAATAAAATAAAGTAATAAATCAAAGATTAAAACAATAAAGAA
94001109 GATAGATGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (67 bp):
TAAAATAAATGACTAAGATAAATAAAATAAAGTAATAAATCAAAGATTAAAACAATAAAGAATGA
CC
Found at i:94001300 original size:26 final size:28
Alignment explanation
Indices: 94001271--94001325 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
94001261 AAAGATTGTT
94001271 AAAATTCTTTAAAAG-AAAACTCA-AGA
1 AAAATTCTTTAAAAGAAAAACTCAGAGA
*
94001297 AAAATTTTTTAAAAGAAAAACTCAGAGA
1 AAAATTCTTTAAAAGAAAAACTCAGAGA
94001325 A
1 A
94001326 TTTATTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 14 0.54
27 8 0.31
28 4 0.15
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (28 bp):
AAAATTCTTTAAAAGAAAAACTCAGAGA
Found at i:94001333 original size:25 final size:26
Alignment explanation
Indices: 94001271--94001333 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
94001261 AAAGATTGTT
94001271 AAAATTCT-TTAAAAGAAAACTCAAGA
1 AAAATT-TATTAAAAGAAAACTCAAGA
*
94001297 AAAATTTTTTAAAAGAAAAACTC-AG-
1 AAAATTTATTAAAAG-AAAACTCAAGA
*
94001322 AGAATTTATTAA
1 AAAATTTATTAA
94001334 CTTCAAAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 11 0.33
26 15 0.45
27 7 0.21
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAATTTATTAAAAGAAAACTCAAGA
Found at i:94005348 original size:26 final size:26
Alignment explanation
Indices: 94005319--94005426 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
94005309 TGATACAAAT
*
94005319 TGATAATGGGTTAGGTAAGTGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
94005345 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
94005371 TTATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94005397 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94005423 TGAT
1 TGAT
94005427 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94007062 original size:27 final size:28
Alignment explanation
Indices: 94007024--94007101 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 28
94007014 AGGAAGCATC
94007024 CTGGTGGCTCTGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAATTATCTGTAT
94007051 CTGGTGGCTCTGCCAC-ATATATCTGTAT
1 CTGGTGGCTCTGCCACAAT-TATCTGTAT
* * *
94007079 CTGGTGACTCCGTCACAA-TATCT
1 CTGGTGGCTCTGCCACAATTATCT
94007102 AGCAGCCTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.04
27 27 0.60
28 15 0.33
29 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATTATCTGTAT
Found at i:94010586 original size:39 final size:39
Alignment explanation
Indices: 94010467--94010587 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
94010457 ATGCAAGACA
94010467 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
94010506 CTAGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
94010545 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
94010584 CTGG
1 CTGG
94010588 TAATATAATT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:94012109 original size:53 final size:53
Alignment explanation
Indices: 94011973--94012118 Score: 197
Period size: 53 Copynumber: 2.7 Consensus size: 53
94011963 TGCGCCTGTT
**
94011973 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTTCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTTCGTA
*
94012026 TAAGACCATAGCTGTGCTATGGCATCGGTATAATGTGATAATGTGA-TTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTT-CGTA
* *
94012079 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
94012119 ACCGTGTAAG
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
52 3 0.04
53 73 0.88
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTTCGTA
Found at i:94015584 original size:29 final size:28
Alignment explanation
Indices: 94015550--94015656 Score: 124
Period size: 29 Copynumber: 3.8 Consensus size: 28
94015540 CCGAGCATTT
94015550 TGTGTGCGAGATCGGTTGTTGAAGCACTG
1 TGTGTGCGAGATCGGTTGTTG-AGCACTG
*
94015579 TGTGTGCGAGATCGATTGTTGAGACACTG
1 TGTGTGCGAGATCGGTTGTTGAG-CACTG
* * ****
94015608 TGTGTGCGAGTTCTGTAACCGAGCACTG
1 TGTGTGCGAGATCGGTTGTTGAGCACTG
*
94015636 TGTGTGCAAGATCGGTTGTTG
1 TGTGTGCGAGATCGGTTGTTG
94015657 GGGCACTAAG
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
28 21 0.34
29 41 0.66
ACGTcount: A:0.18, C:0.15, G:0.36, T:0.32
Consensus pattern (28 bp):
TGTGTGCGAGATCGGTTGTTGAGCACTG
Found at i:94019509 original size:3 final size:3
Alignment explanation
Indices: 94019503--94019532 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
94019493 ACACTACTAT
94019503 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94019533 TAGAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94022074 original size:39 final size:39
Alignment explanation
Indices: 94022017--94022176 Score: 266
Period size: 39 Copynumber: 4.1 Consensus size: 39
94022007 ATGCAAGACA
94022017 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
94022056 CTAGAAATGTATCTGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
94022095 CTGGAAATGTATCCGGGCTAAAGTCTCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
94022134 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
94022173 CTGG
1 CTGG
94022177 TAATATAATT
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:94026694 original size:14 final size:14
Alignment explanation
Indices: 94026675--94026701 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94026665 TTTGTGTGTT
94026675 CTTTATTTTATTTA
1 CTTTATTTTATTTA
94026689 CTTTATTTTATTT
1 CTTTATTTTATTT
94026702 TATTTTTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTATTTTATTTA
Found at i:94031137 original size:5 final size:5
Alignment explanation
Indices: 94031127--94031158 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
94031117 TTGTGTGTTC
94031127 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
94031159 TCACACGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:94031146 original size:14 final size:14
Alignment explanation
Indices: 94031127--94031157 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
94031117 TTGTGTGTTC
94031127 TTTATTTTATTTTA
1 TTTATTTTATTTTA
94031141 TTTATTTTATTTTA
1 TTTATTTTATTTTA
94031155 TTT
1 TTT
94031158 TTCACACGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:94031647 original size:32 final size:30
Alignment explanation
Indices: 94031607--94031665 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
94031597 ATATTAATAT
*
94031607 AAAAATTTAAATTTTTATTATATTTTTTTTG
1 AAAAATTTAAATATTTA-TATATTTTTTTTG
**
94031638 AAAATATTTATGTATTTATATATTTTTT
1 AAAA-ATTTAAATATTTATATATTTTTT
94031666 AAATTTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.58
32 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
AAAAATTTAAATATTTATATATTTTTTTTG
Found at i:94035550 original size:55 final size:54
Alignment explanation
Indices: 94035463--94035570 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 54
94035453 TAGACATGTT
* * ** * *
94035463 ACATAACAATTAATTTAAATATATGAATAATCGATTCAAAAGAAGTAATATTTTA
1 ACATAACAATCAATTTAAACATAAAAACAATCGATCCAAAAGAAG-AATATTTTA
* *
94035518 ACATGACAATCAATTTAAACATAAAAACAATCGATCCAAAAGAAGCATATTTT
1 ACATAACAATCAATTTAAACATAAAAACAATCGATCCAAAAGAAGAATATTTT
94035571 TGAAAAATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
54 7 0.16
55 38 0.84
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (54 bp):
ACATAACAATCAATTTAAACATAAAAACAATCGATCCAAAAGAAGAATATTTTA
Found at i:94038233 original size:6 final size:6
Alignment explanation
Indices: 94038222--94038246 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
94038212 TCTCACTCTG
94038222 CATCTT CATCTT CATCTT CATCTT C
1 CATCTT CATCTT CATCTT CATCTT C
94038247 CACAACGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:94039509 original size:21 final size:21
Alignment explanation
Indices: 94039485--94039524 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
94039475 TTATTCAGTT
*
94039485 TTAAAGTATATGATT-TTAGCC
1 TTAAAATATAT-ATTATTAGCC
94039506 TTAAAATATATATTATTAG
1 TTAAAATATATATTATTAG
94039525 ATAAGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (21 bp):
TTAAAATATATATTATTAGCC
Found at i:94040940 original size:26 final size:26
Alignment explanation
Indices: 94040904--94040953 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
94040894 AAGGGTGTGG
94040904 ATTTGGGTGTAATTGCTTGTAATTGA
1 ATTTGGGTGTAATTGCTTGTAATTGA
*
94040930 ATTTGGGTGTAATTGTTTGTAATT
1 ATTTGGGTGTAATTGCTTGTAATT
94040954 ACACAAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.50
Consensus pattern (26 bp):
ATTTGGGTGTAATTGCTTGTAATTGA
Found at i:94041797 original size:13 final size:13
Alignment explanation
Indices: 94041765--94041798 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
94041755 CAATTAACAC
94041765 CCCCACTAAACCA
1 CCCCACTAAACCA
*
94041778 -ACCACTAAACCA
1 CCCCACTAAACCA
94041790 CCCCACTAA
1 CCCCACTAA
94041799 CTCCATCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.41, C:0.50, G:0.00, T:0.09
Consensus pattern (13 bp):
CCCCACTAAACCA
Found at i:94043037 original size:25 final size:24
Alignment explanation
Indices: 94043001--94043047 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
94042991 TTCACTGGCT
*
94043001 TTATAGCTTGCTAGGCTCGAAAGCC
1 TTATAGCTTGCTAAGCTC-AAAGCC
94043026 TTATAG-TCTGCTAAGCTCAAAG
1 TTATAGCT-TGCTAAGCTCAAAG
94043048 GCTCGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
TTATAGCTTGCTAAGCTCAAAGCC
Found at i:94043553 original size:38 final size:38
Alignment explanation
Indices: 94043447--94043554 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
94043437 GGCACGAAGG
* * * * *
94043447 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
94043485 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
94043523 CCCGGATATTTTACCAGCATGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
94043555 TCTTTAAGGC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:94045986 original size:3 final size:3
Alignment explanation
Indices: 94045972--94046324 Score: 81
Period size: 3 Copynumber: 116.0 Consensus size: 3
94045962 AATAGTACTT
* * *
94045972 TTA TTA TT- TTA TTA TTA TTT TTA CCTTT TTA TTA CTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TT-A
* * * * * *
94046019 CTTA CTA TTA TTA GTT- TTA TTA ATA -TA GTA TTA TT- TTC TTT TTT
1 -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
94046063 TTA -TA TTG TTA TTA TTA TTA GCA -CA TATA TTA TTA TTA TTAA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A T-TA
* * * * *
94046109 TCA TTG TTA TTT TCTA TT- TTA TTA TTA CTT- TTA TTA CTA TTG TT-
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* *
94046153 TGTA TTA TTA TTA TT- TTCA TTA CTTCCA TTA TTA TTA TCA TTA TTT
1 T-TA TTA TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA
* * * *
94046199 TCTA TTA TCA TTA ATA TGTCG TT- TGT- TTA TTA TTA TTA TTA TTT TTA
1 T-TA TTA TTA TTA TTA T-T-A TTA T-TA TTA TTA TTA TTA TTA TTA TTA
** * * * * * * **
94046246 ACA CTG TTA TCA TCA TTA -TA TTTA CTT- TTC TTA ATA TTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA
* *
94046291 TTA -TA TT- TTA TTA TTA TTA CTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94046325 CCTGTCCTAT
Statistics
Matches: 257, Mismatches: 58, Indels: 70
0.67 0.15 0.18
Matches are distributed among these distances:
2 29 0.11
3 192 0.75
4 27 0.11
5 8 0.03
6 1 0.00
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:94046308 original size:22 final size:21
Alignment explanation
Indices: 94046280--94046324 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
94046270 CTTTTCTTAA
94046280 TATTATTACCATTATATTTTAT
1 TATTATTACCATTAT-TTTTAT
*
94046302 TATTATTACTATTATTTTTAT
1 TATTATTACCATTATTTTTAT
94046323 TA
1 TA
94046325 CCTGTCCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTACCATTATTTTTAT
Found at i:94047700 original size:18 final size:17
Alignment explanation
Indices: 94047665--94047708 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
94047655 TCTTAGAAAT
*
94047665 TATTTTTATCATACTAA
1 TATTTTTATAATACTAA
*
94047682 TATTTTTATAATATTTAA
1 TATTTTTATAATA-CTAA
94047700 TAGTTTTTA
1 TA-TTTTTA
94047709 AAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTTTTATAATACTAA
Found at i:94049765 original size:20 final size:20
Alignment explanation
Indices: 94049740--94049786 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
94049730 TTAAACACTA
94049740 AAAAATATTAATTATTTTAT
1 AAAAATATTAATTATTTTAT
*
94049760 AAAAATA--AATTATTTTCT
1 AAAAATATTAATTATTTTAT
*
94049778 AAAACTATT
1 AAAAATATT
94049787 TTCAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 16 0.70
20 7 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAATATTAATTATTTTAT
Found at i:94056431 original size:69 final size:70
Alignment explanation
Indices: 94056349--94056482 Score: 191
Period size: 69 Copynumber: 1.9 Consensus size: 70
94056339 TTGTGATGTG
** *
94056349 TGAGCGATCATTAAAG-ATGTCTTTTATTACAATAAAA-AAATATTAACTAATAAAATTCGTTAA
1 TGAGCGATCATTAAAGAAAAT-TTTTATTACAACAAAAGAAATATTAACTAATAAAATTCGTTAA
94056412 TGACGT
65 TGACGT
* * *
94056418 TGAGCGGTCATTAAAGAAAATTTTTATTACACCAAAAGAAATATTAACTAATAAAATTTGTTAAT
1 TGAGCGATCATTAAAGAAAATTTTTATTACAACAAAAGAAATATTAACTAATAAAATTCGTTAAT
94056483 TCATTAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
69 29 0.51
70 28 0.49
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (70 bp):
TGAGCGATCATTAAAGAAAATTTTTATTACAACAAAAGAAATATTAACTAATAAAATTCGTTAAT
GACGT
Found at i:94057247 original size:60 final size:60
Alignment explanation
Indices: 94057154--94057274 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
94057144 TCGTCCATGG
94057154 TTCTTTTCTCAAAGGCACTGCTAAAATGCTCACACTCTCTCATCTGCTTCGCAATCAGGT
1 TTCTTTTCTCAAAGGCACTGCTAAAATGCTCACACTCTCTCATCTGCTTCGCAATCAGGT
94057214 TTCTTTTCTCAAAGGCACTGCTAAAATGCTCACACTCTCTCATCTGCTTCGCAATCAGGT
1 TTCTTTTCTCAAAGGCACTGCTAAAATGCTCACACTCTCTCATCTGCTTCGCAATCAGGT
94057274 T
1 T
94057275 CTTCAACTCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (60 bp):
TTCTTTTCTCAAAGGCACTGCTAAAATGCTCACACTCTCTCATCTGCTTCGCAATCAGGT
Found at i:94057378 original size:38 final size:38
Alignment explanation
Indices: 94057327--94057402 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
94057317 TTATCCATCA
94057327 GAGAATATAACTGACGAAGTATACATATTCAGACTGCG
1 GAGAATATAACTGACGAAGTATACATATTCAGACTGCG
94057365 GAGAATATAACTGACGAAGTATACATATTCAGACTGCG
1 GAGAATATAACTGACGAAGTATACATATTCAGACTGCG
94057403 AAGTATACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (38 bp):
GAGAATATAACTGACGAAGTATACATATTCAGACTGCG
Found at i:94057404 original size:22 final size:22
Alignment explanation
Indices: 94057374--94057423 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 22
94057364 GGAGAATATA
94057374 ACTGACGAAGTATACATATTCAG
1 ACTG-CGAAGTATACATATTCAG
94057397 ACTGCGAAGTATACATATTCAG
1 ACTGCGAAGTATACATATTCAG
94057419 ACTGC
1 ACTGC
94057424 ATTTGGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (22 bp):
ACTGCGAAGTATACATATTCAG
Found at i:94060916 original size:77 final size:77
Alignment explanation
Indices: 94060738--94061539 Score: 878
Period size: 77 Copynumber: 10.2 Consensus size: 77
94060728 ACAATTTGTG
* * *
94060738 ATGATCGTTCATACGTCACTAAAG-AATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAA
1 ATGATCGCTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATA-TT-TTTTATTGTAA
*** *
94060802 TAGAAA-TTTTTTTTA
63 TA-AAAGACATCTTTA
* * *
94060817 ATGATCGCTCAACGTCAGTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAATAA
1 ATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTTTTATTGTAATAA
94060882 AAGACATCTTTA
66 AAGACATCTTTA
* * *
94060894 ATAATCACTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAAT
1 ATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATA-TT-TTTTATTGTAAT
** *
94060959 AGAAA-ATTGTTTTTA
64 A-AAAGA-CATCTTTA
* *
94060974 ATGATCGCTCAACG-CGACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAATA
1 ATGATCGCTCAACGTC-ACTAACGAAATTAACGAATTTTATTAGTTAATATTTTTTATTGTAATA
94061038 AAAGACATCTTTA
65 AAAGACATCTTTA
* * *
94061051 ATAATCACTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAAT
1 ATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATA-TT-TTTTATTGTAAT
* **
94061116 AAAAAATTTCTTTA
64 AAAAGACATCTTTA
* * * * *
94061130 ATGATCGCTAAACATCACTAACGAAATTAACAAATTTTATTAGTAAATATTTTTTATTATAATAA
1 ATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTTTTATTGTAATAA
94061195 AAGACATCTTTA
66 AAGACATCTTTA
* * *
94061207 ATGATCACTCAACGTCACTAACGAAATTGACAAATTTTATTAGTTAATATTTTTTATTGTAATAA
1 ATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTTTTATTGTAATAA
94061272 AAGACATCTTTA
66 AAGACATCTTTA
*
94061284 ATGATCGCTCACACGTCACTAACGAAATTAACGAGTTTTATTAGTTAATATTCTCTTTATTGTAA
1 ATGATCGCTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-T-TTTATTGTAA
* *
94061349 TAAAA-AAATTCTTTG
63 TAAAAGACA-TCTTTA
* * * * *
94061364 ATGATCACTCACACATCACTAACGAAATTAACGAATTTTATTGGTTATTGTTCTCTTTATTGTAA
1 ATGATCGCTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-T-TTTATTGTAA
* * * *
94061429 TAAAAAAAATATTTG
63 TAAAAGACATCTTTA
* * * * *
94061444 ATGATCGCTCACATGTCACTAA-AAAATTAACGAATTTTATCAATTAATATTCTCCTTATTGTAA
1 ATGATCGCTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-T-TTTATTGTAA
* * * *
94061508 GAAAAAAACATATTTG
63 -TAAAAGACATCTTTA
94061524 ATGATCGCTCACACGT
1 ATGATCGCTCA-ACGT
94061540 GTTAATATTT
Statistics
Matches: 628, Mismatches: 78, Indels: 33
0.85 0.11 0.04
Matches are distributed among these distances:
76 3 0.00
77 217 0.35
78 65 0.10
79 151 0.24
80 189 0.30
81 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (77 bp):
ATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTTTTATTGTAATAA
AAGACATCTTTA
Found at i:94061047 original size:157 final size:156
Alignment explanation
Indices: 94060750--94061492 Score: 1002
Period size: 157 Copynumber: 4.8 Consensus size: 156
94060740 GATCGTTCAT
* * * *
94060750 ACGTCACTAAAG-AATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAATTTTTT
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAAAAATTATCT
*
94060814 TTAATGATCGCTCAACGTCAGTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAA
66 TTAATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAA
94060879 TAAAAGACATCTTTAATAATCACTCA
131 TAAAAGACATCTTTAATAATCACTCA
* *
94060905 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAAATTGTT
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATA-AAAATTATC
94060970 TTTAATGATCGCTCAACG-CGACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTAT
65 TTTAATGATCGCTCAACGTC-ACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTAT
94061034 AATAAAAGACATCTTTAATAATCACTCA
129 AATAAAAGACATCTTTAATAATCACTCA
94061062 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAAAAAATT-TC
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAAT-AAAAATTATC
* * * * *
94061126 TTTAATGATCGCTAAACATCACTAACGAAATTAACAAATTTTATTAGTAAATATTTTTTATTATA
65 TTTAATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATA
*
94061191 ATAAAAGACATCTTTAATGATCACTCA
130 ATAAAAGACATCTTTAATAATCACTCA
* * * *
94061218 ACGTCACTAACGAAATTGACAAATTTTATTAGTTAATA-TT-TTTTATTGTAATAAAAGA-CATC
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAAAA-ATTATC
* *
94061280 TTTAATGATCGCTCACACGTCACTAACGAAATTAACGAGTTTTATTAGTTAATATTCTCTTTATT
65 TTTAATGATCGCTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATA--CTTTTTATT
* * * *
94061345 GTAATAAAA-AAATTCTTTGATGATCACTCA
127 ATAATAAAAGACA-TCTTTAATAATCACTCA
* * * **
94061375 CACATCACTAACGAAATTAACGAATTTTATTGGTT-AT-TGTTCTCTTTATTGTAATAAAAAAAA
1 -ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATAT-TTCT-TTTGTTGTAATAAAAATTA
* * * * * *
94061438 TATTTGATGATCGCTCACATGTCACTAA-AAAATTAACGAATTTTATCAATTAATA
63 TCTTTAATGATCGCTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATA
94061493 TTCTCCTTAT
Statistics
Matches: 534, Mismatches: 37, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
153 4 0.01
154 28 0.05
155 47 0.09
156 166 0.31
157 190 0.36
158 33 0.06
159 25 0.05
160 41 0.08
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (156 bp):
ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAAAAATTATCT
TTAATGATCGCTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAA
TAAAAGACATCTTTAATAATCACTCA
Found at i:94061352 original size:313 final size:313
Alignment explanation
Indices: 94060750--94061483 Score: 1004
Period size: 313 Copynumber: 2.3 Consensus size: 313
94060740 GATCGTTCAT
* * * *
94060750 ACGTCACTAAAG-AATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAGAAATTTTTT
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAAAAAATTTAT
* * *
94060814 TTAATGATCGCTCAACGTCAGTAACGAAATTAACGAATTTTATTAGTTAATACTTTTTATTATAA
66 TTAATGATCGCT-AACATCACTAACGAAATTAACGAATTTTATTAGTAAATACTTTTTATTATAA
*
94060879 TAAAAGACATCTTTAATAATCACTCAACGTCACTAACGAAATTAACGAATTTTATTAGTTAATAT
130 TAAAAGACATCTTTAATAATCACTCAACGTCACTAACGAAATTAACAAATTTTATTAGTTAATAT
* ** *
94060944 TTCTTTTGTTGTAATAGAAAATTGTTTTTAATGATCGCTCAACGCGACTAACGAAATTAACGAAT
195 TTCTTTTATTGTAATAGAAAATCATCTTTAATGATCGCTCAACGCGACTAACGAAATTAACGAAT
* *
94061009 TTTATTAGTTAATACTTTTTATTATAATAAAAGACA-TCTTTAATAATCACTCA-
260 TTTATTAGTTAATACTCTTTATTATAATAAAA-AAATTCTTTAATAATCACTCAC
*
94061062 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAAAAAATTTCT
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAAAAAATTTAT
* *
94061127 TTAATGATCGCTAAACATCACTAACGAAATTAACAAATTTTATTAGTAAATATTTTTTATTATAA
66 TTAATGATCGCT-AACATCACTAACGAAATTAACGAATTTTATTAGTAAATACTTTTTATTATAA
* *
94061192 TAAAAGACATCTTTAATGATCACTCAACGTCACTAACGAAATTGACAAATTTTATTAGTTAATA-
130 TAAAAGACATCTTTAATAATCACTCAACGTCACTAACGAAATTAACAAATTTTATTAGTTAATAT
94061256 TT-TTTTATTGTAATA-AAAGA-CATCTTTAATGATCGCTCACACGTC-ACTAACGAAATTAACG
195 TTCTTTTATTGTAATAGAAA-ATCATCTTTAATGATCGCTCA-ACG-CGACTAACGAAATTAACG
* * * *
94061317 AGTTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAATTCTTTGATGATCACTCAC
257 AATTTTATTAGTTAATA--CTCTTTATTATAATAAAAAAATTCTTTAATAATCACTCAC
* * * **
94061376 ACATCACTAACGAAATTAACGAATTTTATTGGTT-AT-TGTTCTCTTTATTGTAATAAAAAAAAT
1 ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATAT-TTCT-TTTGTTGTAATAAAAAATTT
* * *
94061439 ATTTGATGATCGCTCACATGTCACTAA-AAAATTAACGAATTTTAT
64 ATTTAATGATCGCTAACA--TCACTAACGAAATTAACGAATTTTAT
94061484 CAATTAATAT
Statistics
Matches: 377, Mismatches: 33, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
310 19 0.05
311 48 0.13
312 17 0.05
313 209 0.55
314 77 0.20
315 7 0.02
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (313 bp):
ACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTTGTTGTAATAAAAAATTTAT
TTAATGATCGCTAACATCACTAACGAAATTAACGAATTTTATTAGTAAATACTTTTTATTATAAT
AAAAGACATCTTTAATAATCACTCAACGTCACTAACGAAATTAACAAATTTTATTAGTTAATATT
TCTTTTATTGTAATAGAAAATCATCTTTAATGATCGCTCAACGCGACTAACGAAATTAACGAATT
TTATTAGTTAATACTCTTTATTATAATAAAAAAATTCTTTAATAATCACTCAC
Found at i:94061704 original size:18 final size:18
Alignment explanation
Indices: 94061669--94061717 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
94061659 GAAAATATAT
94061669 TTTTAATTTTTAATTAAACA
1 TTTT-ATTTTTAATTAAA-A
*
94061689 TTTTATTTTTTA-TAAAA
1 TTTTATTTTTAATTAAAA
94061706 TATTTATTTTTA
1 T-TTTATTTTTA
94061718 TCTAGAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
19 7 0.27
20 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATTTTTAATTAAAA
Found at i:94063373 original size:20 final size:20
Alignment explanation
Indices: 94063348--94063385 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94063338 TCCTGCTATC
94063348 TAATAA-AAACCTAAAATTCT
1 TAATAATAAA-CTAAAATTCT
94063368 TAATAATAAACTAAAATT
1 TAATAATAAACTAAAATT
94063386 GCCTATCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (20 bp):
TAATAATAAACTAAAATTCT
Found at i:94066806 original size:25 final size:24
Alignment explanation
Indices: 94066778--94066829 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
94066768 TATTTAGTCA
94066778 AATAACAAAAAAATATATATTATAT
1 AATAACAAAAAAA-ATATATTATAT
**
94066803 AAT-ATTAAAAAAATATATTATAT
1 AATAACAAAAAAAATATATTATAT
94066826 AATA
1 AATA
94066830 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 7 0.29
25 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAACAAAAAAAATATATTATAT
Done.