Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011791.1 Corchorus capsularis cultivar CVL-1 contig11812, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 192488
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:1203 original size:14 final size:14
Alignment explanation
Indices: 1184--1213 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1174 AGGTTATTAA
1184 TTAAATATAAGTAT
1 TTAAATATAAGTAT
1198 TTAAATATAAGTAT
1 TTAAATATAAGTAT
1212 TT
1 TT
1214 TCTATCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (14 bp):
TTAAATATAAGTAT
Found at i:2428 original size:15 final size:15
Alignment explanation
Indices: 2408--2440 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2398 ATTAAAATAA
*
2408 AATGACGTCATTTAT
1 AATGACGTCATGTAT
2423 AATGACGTCATGTAT
1 AATGACGTCATGTAT
2438 AAT
1 AAT
2441 CTATATCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (15 bp):
AATGACGTCATGTAT
Found at i:3719 original size:3 final size:3
Alignment explanation
Indices: 3711--3753 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
3701 TTTAGTATAT
3711 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3754 ATTAAGATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4921 original size:15 final size:15
Alignment explanation
Indices: 4901--4931 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4891 AAACTCTGTC
4901 ACCTCATAAAGGGAA
1 ACCTCATAAAGGGAA
4916 ACCTCATAAAGGGAA
1 ACCTCATAAAGGGAA
4931 A
1 A
4932 AGGTTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
ACCTCATAAAGGGAA
Found at i:26731 original size:32 final size:35
Alignment explanation
Indices: 26690--26769 Score: 121
Period size: 35 Copynumber: 2.4 Consensus size: 35
26680 CCTAATTATT
*
26690 AAACATTCATTGC-T-T-GTAATATTACTACCAGA
1 AAACATTCATTGCTTGTAGTAATATTACAACCAGA
26722 AAACATTCATTGCTTGTAGTAATATTACAACCAGA
1 AAACATTCATTGCTTGTAGTAATATTACAACCAGA
*
26757 CAACATTCATTGC
1 AAACATTCATTGC
26770 AATTTTAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
32 13 0.30
33 1 0.02
34 1 0.02
35 28 0.65
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (35 bp):
AAACATTCATTGCTTGTAGTAATATTACAACCAGA
Found at i:37628 original size:2 final size:2
Alignment explanation
Indices: 37621--37650 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37611 TGATCAAAGA
37621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37651 CTGGTGGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42965 original size:30 final size:30
Alignment explanation
Indices: 42931--42993 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
42921 ATCTACAATA
42931 ATTTACATTTCACCAAAAGTTATTAGTATC
1 ATTTACATTTCACCAAAAGTTATTAGTATC
42961 ATTTACATTTCACCAAAAGTTATTAGTATC
1 ATTTACATTTCACCAAAAGTTATTAGTATC
42991 ATT
1 ATT
42994 CGATAGTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTACATTTCACCAAAAGTTATTAGTATC
Found at i:44443 original size:14 final size:14
Alignment explanation
Indices: 44424--44451 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44414 ATAAGCATGT
44424 AATAAATAAATATA
1 AATAAATAAATATA
44438 AATAAATAAATATA
1 AATAAATAAATATA
44452 TGAATATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAAATAAATATA
Found at i:45210 original size:27 final size:27
Alignment explanation
Indices: 45180--45235 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
45170 TCATATTCTG
*
45180 TCAA-ATTACTCCCAATTGATTCTTGGC
1 TCAAGATT-CTCCCAACTGATTCTTGGC
* *
45207 TCAAGCTTCTTCCAACTGATTCTTGGC
1 TCAAGATTCTCCCAACTGATTCTTGGC
45234 TC
1 TC
45236 CATGTGATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (27 bp):
TCAAGATTCTCCCAACTGATTCTTGGC
Found at i:46474 original size:41 final size:41
Alignment explanation
Indices: 46428--46508 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
46418 GGAAACTTCG
46428 AAATTTATTTTAATTTAACCGCATAGTATAGTATTAGTGCA
1 AAATTTATTTTAATTTAACCGCATAGTATAGTATTAGTGCA
46469 AAATTTATTTTAATTTAACCGCATAGTATAGTATTAGTGC
1 AAATTTATTTTAATTTAACCGCATAGTATAGTATTAGTGC
46509 TAGAAAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (41 bp):
AAATTTATTTTAATTTAACCGCATAGTATAGTATTAGTGCA
Found at i:46524 original size:41 final size:41
Alignment explanation
Indices: 46428--46525 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 41
46418 GGAAACTTCG
* *
46428 AAATTTATTTTAATTTAACCGCATAGTATAGTATTAGTGCA
1 AAATATATTATAATTTAACCGCATAGTATAGTATTAGTGCA
* *
46469 AAATTTATTTTAATTTAACCGCATAGTATAGTATTAGTGCTA
1 AAATATATTATAATTTAACCGCATAGTATAGTATTAGTGC-A
46511 GAAA-ATA-TATAATTT
1 -AAATATATTATAATTT
46526 GATATACAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
41 47 0.89
42 3 0.06
43 3 0.06
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (41 bp):
AAATATATTATAATTTAACCGCATAGTATAGTATTAGTGCA
Found at i:46785 original size:25 final size:25
Alignment explanation
Indices: 46751--46801 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
46741 GCTGCTTCAT
*
46751 CACTACGAATAGATAATGACCGTAG
1 CACTACGAATAGATAACGACCGTAG
46776 CACTACGAATAGATAACGACCGTAG
1 CACTACGAATAGATAACGACCGTAG
46801 C
1 C
46802 TTTTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (25 bp):
CACTACGAATAGATAACGACCGTAG
Found at i:47192 original size:11 final size:11
Alignment explanation
Indices: 47176--47202 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
47166 GTAAAACCTG
47176 CAATATATTAT
1 CAATATATTAT
47187 CAATATATTAT
1 CAATATATTAT
47198 CAATA
1 CAATA
47203 AACAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (11 bp):
CAATATATTAT
Found at i:47321 original size:33 final size:35
Alignment explanation
Indices: 47295--47365 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
47285 AGAAAGTCGA
47295 AAAGCACATTAACATATTTGTGCAGAAAGCACGCAG
1 AAAGCA-ATTAACATATTTGTGCAGAAAGCACGCAG
* * *
47331 TAAGTATTTAACATATTTGTGCAGAAAGCACGCAG
1 AAAGCAATTAACATATTTGTGCAGAAAGCACGCAG
47366 TAAGTACTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (35 bp):
AAAGCAATTAACATATTTGTGCAGAAAGCACGCAG
Found at i:47344 original size:35 final size:35
Alignment explanation
Indices: 47303--47371 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
47293 GAAAAGCACA
47303 TTAACATATTTGTGCAGAAAGCACGCAGTAAGTAT
1 TTAACATATTTGTGCAGAAAGCACGCAGTAAGTAT
47338 TTAACATATTTGTGCAGAAAGCACGCAGTAAGTA
1 TTAACATATTTGTGCAGAAAGCACGCAGTAAGTA
47372 CTTGTCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (35 bp):
TTAACATATTTGTGCAGAAAGCACGCAGTAAGTAT
Found at i:47415 original size:19 final size:19
Alignment explanation
Indices: 47391--47428 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47381 CTTGCTCATA
47391 TATATGCATTCCAAAAAAT
1 TATATGCATTCCAAAAAAT
47410 TATATGCATTCCAAAAAAT
1 TATATGCATTCCAAAAAAT
47429 AGCTAGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (19 bp):
TATATGCATTCCAAAAAAT
Found at i:47527 original size:36 final size:36
Alignment explanation
Indices: 47480--47552 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
47470 ATTCATTGGC
*
47480 GACCTCTTTTTCCTACCACTCCATCTCCAATTGATA
1 GACCTCTTTTTCCTACCACTCCATCTCCAATTAATA
47516 GACCTCTTTTTCCTACCACTCCATCTCCAATTAATA
1 GACCTCTTTTTCCTACCACTCCATCTCCAATTAATA
47552 G
1 G
47553 CTAACAACGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (36 bp):
GACCTCTTTTTCCTACCACTCCATCTCCAATTAATA
Found at i:47858 original size:24 final size:24
Alignment explanation
Indices: 47830--47877 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
47820 GTGATTGAAA
**
47830 TTCCAAATTGGGTAGATTAGCCTC
1 TTCCAAAACGGGTAGATTAGCCTC
47854 TTCCAAAACGGGTAGATTAGCCTC
1 TTCCAAAACGGGTAGATTAGCCTC
47878 CTTCAAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
TTCCAAAACGGGTAGATTAGCCTC
Found at i:48114 original size:15 final size:15
Alignment explanation
Indices: 48094--48127 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48084 AATACTCTGC
* *
48094 ATCATCTGAATCCAA
1 ATCATCTAAAACCAA
48109 ATCATCTAAAACCAA
1 ATCATCTAAAACCAA
48124 ATCA
1 ATCA
48128 ACACAACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (15 bp):
ATCATCTAAAACCAA
Found at i:70918 original size:34 final size:34
Alignment explanation
Indices: 70880--70948 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
70870 ACAATAGCAA
*
70880 TGGTTATAAATAGAAAGAAAATTAGGAACATATT
1 TGGTTATAAATAGAAAGAAAAATAGGAACATATT
*
70914 TGGTTATAATTAGAAAGAAAAATAGGAACATATT
1 TGGTTATAAATAGAAAGAAAAATAGGAACATATT
70948 T
1 T
70949 AAAAAGCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.30
Consensus pattern (34 bp):
TGGTTATAAATAGAAAGAAAAATAGGAACATATT
Found at i:74019 original size:14 final size:14
Alignment explanation
Indices: 73986--74012 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73976 CGTAGCCGCT
73986 CCTCTCCCCTTCTC
1 CCTCTCCCCTTCTC
74000 CCTCTCCCCTTCT
1 CCTCTCCCCTTCT
74013 TCTTCTCTAG
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:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (14 bp):
CCTCTCCCCTTCTC
Found at i:75864 original size:108 final size:109
Alignment explanation
Indices: 75699--75942 Score: 415
Period size: 108 Copynumber: 2.3 Consensus size: 109
75689 TAAATTAAAA
*
75699 TGGTAAAAATAAA-AAATATATAAA-ATATTGAATTTAATTAAATGAAAATAGAGTTTTTAGTAG
1 TGGTAAAAATAAAGTAAT-TATAAAGATATTGAATTTAATTAAATGAAAATAGAGTTTTTAGTAG
75762 AATAAAATTGTATATTAGAAAAAATTTTAATATATCC-AATTTTT
65 AATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
*
75806 TGGTAAAAATAAAGTAATTATAAAGATATT-AGATTTAATTAAATGAAAATTGAGTTTTTAGTAG
1 TGGTAAAAATAAAGTAATTATAAAGATATTGA-ATTTAATTAAATGAAAATAGAGTTTTTAGTAG
*
75870 AATAAAATTGTATATTAGAAAAAATTTTAGTATATCCAAATTTTT
65 AATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
75915 TGGTAAAAATAAAGTAATTATAAAGATA
1 TGGTAAAAATAAAGTAATTATAAAGATA
75943 AAGATATTAG
Statistics
Matches: 130, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
107 20 0.15
108 75 0.58
109 35 0.27
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (109 bp):
TGGTAAAAATAAAGTAATTATAAAGATATTGAATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
ATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
Found at i:77692 original size:1 final size:1
Alignment explanation
Indices: 77686--77716 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
77676 AATGAAATTT
77686 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
77717 TTCAGAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:88682 original size:17 final size:17
Alignment explanation
Indices: 88642--88684 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
88632 TATGTAATCT
88642 TTGATCA-TCGGTGATC
1 TTGATCACTCGGTGATC
88658 TTGCATCACT-GGTGATC
1 TTG-ATCACTCGGTGATC
88675 TTAGATCACT
1 TT-GATCACT
88685 AGTAATCTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 19 0.79
18 2 0.08
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (17 bp):
TTGATCACTCGGTGATC
Found at i:89412 original size:2 final size:2
Alignment explanation
Indices: 89405--89434 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
89395 CTTTGAAACG
89405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89435 TTAATAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89707 original size:2 final size:2
Alignment explanation
Indices: 89700--89734 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
89690 AGACTGAACT
89700 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89735 GACAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:92167 original size:33 final size:30
Alignment explanation
Indices: 92127--92190 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 30
92117 TTATGGTTAA
92127 TTTTTTTATTCAATATTATCATAATATTGATTT
1 TTTTTTTA-TC-ATA-TATCATAATATTGATTT
* *
92160 TTTTTTTATCTTATATCATAGTATTGATTT
1 TTTTTTTATCATATATCATAATATTGATTT
92190 T
1 T
92191 GTTACTTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 17 0.59
31 2 0.07
32 2 0.07
33 8 0.28
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (30 bp):
TTTTTTTATCATATATCATAATATTGATTT
Found at i:93294 original size:38 final size:38
Alignment explanation
Indices: 93243--93322 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
93233 GGTAGGTTTC
**
93243 ATTTCTAAGGTCAAGGTAAACCGTCAATCTCTTTGGGG
1 ATTTCTAAGGTCAAGACAAACCGTCAATCTCTTTGGGG
93281 ATTTCTAAGGTCAAGACAAACCGTCAATCTCTTTGGGG
1 ATTTCTAAGGTCAAGACAAACCGTCAATCTCTTTGGGG
93319 ATTT
1 ATTT
93323 ATTAATCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (38 bp):
ATTTCTAAGGTCAAGACAAACCGTCAATCTCTTTGGGG
Found at i:100074 original size:2 final size:2
Alignment explanation
Indices: 100067--100120 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
100057 AACATGTGGT
* * *
100067 TA TA TA TA TG TA TG CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
100109 TA TA TA TG TA TA
1 TA TA TA TA TA TA
100121 GTAGTTATGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:109229 original size:6 final size:6
Alignment explanation
Indices: 109218--109253 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
109208 ATAACCTTGG
109218 CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA
109254 TACACTCCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:109660 original size:21 final size:23
Alignment explanation
Indices: 109627--109668 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
109617 ACTTAATGTC
*
109627 CTTTTTGTCTCC-TGAATTTGGA
1 CTTTTTATCTCCTTGAATTTGGA
109649 CTTTTTAT-TCCTTGAATTTG
1 CTTTTTATCTCCTTGAATTTG
109669 TAATTTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (23 bp):
CTTTTTATCTCCTTGAATTTGGA
Found at i:120840 original size:31 final size:31
Alignment explanation
Indices: 120802--120876 Score: 150
Period size: 31 Copynumber: 2.4 Consensus size: 31
120792 AATCTTTATA
120802 AAGATCATGCATAATTTTTTTTTTTGGTCAG
1 AAGATCATGCATAATTTTTTTTTTTGGTCAG
120833 AAGATCATGCATAATTTTTTTTTTTGGTCAG
1 AAGATCATGCATAATTTTTTTTTTTGGTCAG
120864 AAGATCATGCATA
1 AAGATCATGCATA
120877 GTAAGTTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (31 bp):
AAGATCATGCATAATTTTTTTTTTTGGTCAG
Found at i:124030 original size:13 final size:13
Alignment explanation
Indices: 124012--124036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124002 GGTATACCAA
124012 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
124025 AAAAAGAAAAAA
1 AAAAAGAAAAAA
124037 AAGAATCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:127427 original size:29 final size:29
Alignment explanation
Indices: 127383--127438 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
127373 TATATATATA
127383 TACTTCTTAGTCCTTTAACGATTTTAATT
1 TACTTCTTAGTCCTTTAACGATTTTAATT
* *
127412 TACTTCTTAGTTCTTTCACGATTTTAA
1 TACTTCTTAGTCCTTTAACGATTTTAA
127439 ATTATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.18, G:0.07, T:0.52
Consensus pattern (29 bp):
TACTTCTTAGTCCTTTAACGATTTTAATT
Found at i:127546 original size:16 final size:16
Alignment explanation
Indices: 127525--127556 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
127515 ATCGAATCCG
127525 TTTCCATTATTCTTTC
1 TTTCCATTATTCTTTC
127541 TTTCCATTATTCTTTC
1 TTTCCATTATTCTTTC
127557 ATTTTAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTCCATTATTCTTTC
Found at i:127973 original size:21 final size:22
Alignment explanation
Indices: 127949--127990 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
127939 GTTCTTGCTC
127949 TGCTTC-CGTGGTTCGAGGGTT
1 TGCTTCTCGTGGTTCGAGGGTT
*
127970 TGCTTCTGGTGGTTCGAGGGT
1 TGCTTCTCGTGGTTCGAGGGT
127991 CTGTTTGACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.05, C:0.17, G:0.40, T:0.38
Consensus pattern (22 bp):
TGCTTCTCGTGGTTCGAGGGTT
Found at i:128299 original size:17 final size:17
Alignment explanation
Indices: 128277--128314 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
128267 AGGTTTTCTC
128277 TTTCAATTAAATTAGGG
1 TTTCAATTAAATTAGGG
* *
128294 TTTCAATTAGATTAGGT
1 TTTCAATTAAATTAGGG
128311 TTTC
1 TTTC
128315 TGTTGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (17 bp):
TTTCAATTAAATTAGGG
Found at i:128414 original size:40 final size:41
Alignment explanation
Indices: 128366--128468 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 41
128356 TATGGAATTC
*
128366 TAGGGTTTCTAATGAAATTAATTTGGGTATTTGTGAAATGT
1 TAGGGTTTCTAATGAAATTAATTTGGGGATTTGTGAAATGT
* * * * *
128407 T-GGGTTTCTTATGAAATAAATTTGGGGGTTTGTTAAATTT
1 TAGGGTTTCTAATGAAATTAATTTGGGGATTTGTGAAATGT
* *
128447 TAGGGTTTCTGATGTAATTAAT
1 TAGGGTTTCTAATGAAATTAAT
128469 GGTTTCAAGT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 34 0.65
41 18 0.35
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.46
Consensus pattern (41 bp):
TAGGGTTTCTAATGAAATTAATTTGGGGATTTGTGAAATGT
Found at i:131102 original size:30 final size:31
Alignment explanation
Indices: 131013--131106 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 31
131003 GCTCAAAAAG
*
131013 GCCCCTGAACT-TACA-CAAAACGGCCAAATAA
1 GCCCCTGAACTCTA-ATTAAAA-GGCCAAATAA
** *
131044 GCCCCTGAACTCTAATT-GCA-GTCAAATAA
1 GCCCCTGAACTCTAATTAAAAGGCCAAATAA
*
131073 GCCCCTGAACTCT-TTTAAAAGGCCAAATAA
1 GCCCCTGAACTCTAATTAAAAGGCCAAATAA
131103 GCCC
1 GCCC
131107 TTTTCTGATG
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
28 2 0.04
29 22 0.43
30 12 0.24
31 13 0.25
32 2 0.04
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (31 bp):
GCCCCTGAACTCTAATTAAAAGGCCAAATAA
Found at i:132004 original size:9 final size:9
Alignment explanation
Indices: 131990--132047 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
131980 GTAAGTTGGT
131990 TTAAAAAAA
1 TTAAAAAAA
131999 TTAAAAAAA
1 TTAAAAAAA
* *
132008 AT-AAAATA
1 TTAAAAAAA
132016 -TAAAAAATA
1 TTAAAAAA-A
132025 TT-AAAAAA
1 TTAAAAAAA
132033 -TAAAAAATA
1 TTAAAAAA-A
132042 TTAAAA
1 TTAAAA
132048 CAAGCCACGT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
7 2 0.05
8 15 0.38
9 17 0.43
10 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:132027 original size:26 final size:25
Alignment explanation
Indices: 131991--132047 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
131981 TAAGTTGGTT
131991 TAAAAAAATTAAAAAA-AATAAAATA
1 TAAAAAAATTAAAAAATAA-AAAATA
132016 TAAAAAATATTAAAAAATAAAAAATA
1 TAAAAAA-ATTAAAAAATAAAAAATA
*
132042 TTAAAA
1 TAAAAA
132048 CAAGCCACGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 7 0.24
26 20 0.69
27 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (25 bp):
TAAAAAAATTAAAAAATAAAAAATA
Found at i:132040 original size:17 final size:17
Alignment explanation
Indices: 131993--132047 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
131983 AGTTGGTTTA
*
131993 AAAAAATTAAAAAA-AAT
1 AAAAAA-TAAAAAATATT
*
132010 AAAATATAAAAAATATT
1 AAAAAATAAAAAATATT
132027 AAAAAATAAAAAATATT
1 AAAAAATAAAAAATATT
132044 AAAA
1 AAAA
132048 CAAGCCACGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 7 0.21
17 27 0.79
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAAATAAAAAATATT
Found at i:136693 original size:18 final size:19
Alignment explanation
Indices: 136645--136695 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
136635 AAGAAATACA
136645 TAGAATTAGAATAAAATAAT
1 TAGAA-TAGAATAAAATAAT
136665 TAGAATA-AATAAAA-AAT
1 TAGAATAGAATAAAATAAT
*
136682 ATA-TATAGAATAAA
1 -TAGAATAGAATAAA
136696 TGGAAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 6 0.21
18 15 0.54
19 2 0.07
20 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (19 bp):
TAGAATAGAATAAAATAAT
Found at i:136703 original size:22 final size:20
Alignment explanation
Indices: 136657--136696 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
136647 GAATTAGAAT
136657 AAAATAATTAGAATAAATAA
1 AAAATAATTAGAATAAATAA
136677 AAAATATATATAGAATAAAT
1 AAAATA-AT-TAGAATAAAT
136697 GGAAAATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAATAATTAGAATAAATAA
Found at i:136747 original size:14 final size:13
Alignment explanation
Indices: 136719--136743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136709 AAAGTGATAT
136719 AATACAAAAATAG
1 AATACAAAAATAG
136732 AATACAAAAATA
1 AATACAAAAATA
136744 AGAACCGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16
Consensus pattern (13 bp):
AATACAAAAATAG
Found at i:140751 original size:22 final size:21
Alignment explanation
Indices: 140683--140748 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
140673 CATACTATGG
* *
140683 TATCAAAAAATTATAGGAAGAT
1 TATC-AAAAATCATAGGAAGGT
* * * *
140705 TAACAAAATCTCACAGGGAGGT
1 TATCAAAA-ATCATAGGAAGGT
140727 TATCAAAAATCATAGGAAGGT
1 TATCAAAAATCATAGGAAGGT
140748 T
1 T
140749 TATTAAAATT
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (21 bp):
TATCAAAAATCATAGGAAGGT
Found at i:140794 original size:44 final size:42
Alignment explanation
Indices: 140725--140872 Score: 127
Period size: 44 Copynumber: 3.4 Consensus size: 42
140715 TCACAGGGAG
* * *
140725 GTTATCAAAA-ATCATAGGAAGGTTTATTAAAATTTAATAGTTA
1 GTTATCAAAATTTCATAGG-A-GTTTATCAAAATTTAATAGGTA
* * *
140768 GGTTATCAAAATTTCATATGGAGTTTATCACAATTTCATAGGCA
1 -GTTATCAAAATTTCATA-GGAGTTTATCAAAATTTAATAGGTA
* * * * * *
140812 ATTATCAAAATTTAATAACGTGGTTATCAAAATTCAATAGGGTA
1 GTTATCAAAATTTCAT-AGGAGTTTATCAAAATTTAATA-GGTA
140856 GTTATCAAAATTTCATA
1 GTTATCAAAATTTCATA
140873 AAAATATTCA
Statistics
Matches: 83, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
43 30 0.36
44 45 0.54
45 6 0.07
46 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (42 bp):
GTTATCAAAATTTCATAGGAGTTTATCAAAATTTAATAGGTA
Found at i:140795 original size:22 final size:21
Alignment explanation
Indices: 140725--140872 Score: 86
Period size: 22 Copynumber: 6.8 Consensus size: 21
140715 TCACAGGGAG
* *
140725 GTTATCAAAA-ATCATAGGAA
1 GTTATCAAAATTTCATAGGCA
* * **
140745 GGTTTATTAAAATTTAATAGTTA
1 -G-TTATCAAAATTTCATAGGCA
140768 GGTTATCAAAATTTCATATGG-A
1 -GTTATCAAAATTTCATA-GGCA
*
140790 GTTTATCACAATTTCATAGGCA
1 G-TTATCAAAATTTCATAGGCA
* * * **
140812 ATTATCAAAATTTAATAACGTG
1 GTTATCAAAATTTCAT-AGGCA
*
140834 GTTATCAAAA-TTCAATAGGGTA
1 GTTATCAAAATTTC-ATA-GGCA
140856 GTTATCAAAATTTCATA
1 GTTATCAAAATTTCATA
140873 AAAATATTCA
Statistics
Matches: 99, Mismatches: 19, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
21 20 0.20
22 67 0.68
23 12 0.12
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (21 bp):
GTTATCAAAATTTCATAGGCA
Found at i:141374 original size:2 final size:2
Alignment explanation
Indices: 141362--141391 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
141352 CTTTTCGTAC
141362 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
141392 TTAAGGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:149248 original size:14 final size:14
Alignment explanation
Indices: 149229--149259 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
149219 CTCACTTAAA
149229 AAAAAAAAAAAAGC
1 AAAAAAAAAAAAGC
149243 AAAAAAAAAAAAGC
1 AAAAAAAAAAAAGC
149257 AAA
1 AAA
149260 CATGTTGCAC
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:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGC
Found at i:166555 original size:7 final size:8
Alignment explanation
Indices: 166538--166573 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
166528 AGTTTATAGC
166538 TTTTTGTT
1 TTTTTGTT
166546 TTTTTGTT
1 TTTTTGTT
166554 TTTTTG-T
1 TTTTTGTT
166561 TTTTTGTT
1 TTTTTGTT
166569 TTTTT
1 TTTTT
166574 TCATTCTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTTGTT
Found at i:166574 original size:16 final size:16
Alignment explanation
Indices: 166538--166573 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
166528 AGTTTATAGC
166538 TTTTTGTTTTTTTGTT
1 TTTTTGTTTTTTTGTT
166554 TTTTTG-TTTTTTGTT
1 TTTTTGTTTTTTTGTT
166569 TTTTT
1 TTTTT
166574 TCATTCTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (16 bp):
TTTTTGTTTTTTTGTT
Found at i:180672 original size:16 final size:16
Alignment explanation
Indices: 180647--180706 Score: 93
Period size: 16 Copynumber: 3.6 Consensus size: 16
180637 TTATAGACCG
180647 GCTTTTGAATAAACCT
1 GCTTTTGAATAAACCT
*
180663 GCTCTTGAATAAACCT
1 GCTTTTGAATAAACCT
180679 GCTTTTGGCAATAAACCT
1 GCTTTT-G-AATAAACCT
180697 GCTTTTGAAT
1 GCTTTTGAAT
180707 TGTTATCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 23 0.57
17 2 0.05
18 15 0.38
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (16 bp):
GCTTTTGAATAAACCT
Found at i:181818 original size:33 final size:33
Alignment explanation
Indices: 181776--181859 Score: 168
Period size: 33 Copynumber: 2.5 Consensus size: 33
181766 GTCGAAATTC
181776 GAAAACTGATAATTTGTATTTCACCAAAAAAAA
1 GAAAACTGATAATTTGTATTTCACCAAAAAAAA
181809 GAAAACTGATAATTTGTATTTCACCAAAAAAAA
1 GAAAACTGATAATTTGTATTTCACCAAAAAAAA
181842 GAAAACTGATAATTTGTA
1 GAAAACTGATAATTTGTA
181860 GGACTCAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (33 bp):
GAAAACTGATAATTTGTATTTCACCAAAAAAAA
Found at i:184402 original size:325 final size:318
Alignment explanation
Indices: 182477--184802 Score: 1964
Period size: 325 Copynumber: 7.2 Consensus size: 318
182467 GGGGTGATTG
* * * *
182477 TATCGAAACAAGATTTAGATGCTCGTAAAAACAAATACTTAAATCCAATTTTGCTGAGATTTGGT
1 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * * *
182542 TGGATGAATAAAGATATTTCAAGAAGAT-TTTCTGCCAAAAATCATGCTAAACTGAG-CTGGG--
66 TAGATGAATATAGATATTTCAAGGAG-TCTTTCTGCCAAAAATAATGCAAAACTCAGTC-GGGCC
* * * * * *
182603 -GACCTGAAACGCGTATTTAGCCAAAAA-CTGTGATGGTTAGTATACGATTTCAACTTATAAAAA
129 TGAAC-GAAACGCGTTTTTAGCAAAAAACCTGTGA----TAG-ACAAGATTTCGAC---TAAAAA
* * * * *
182666 CTGAACCGAAAATTTTATTCTCAATTTTTTGCCATAATACTCAGAAAAAATATATAATTCAACGC
185 CTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCATAAAAAATATATAATTCAATGC
* *
182731 CAAAAATATTGAAGGGTTTTTTCACGCTTCTAATATCATTTTTTCA-TTTTTTCTGAATTTATTT
250 CAAAAA-ATTGAAGGG-TTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTTATTT
182795 CTAATTA
313 -TAATTA
* * **
182802 TATCGAAACAAGATTCAGATGTTCGTAAAAACAAATCCTT-AATCCAATTTGATTGAGATTTGGT
1 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* *** * * * *
182866 TGGATGAATATAGATATTTCATTTAGTTTTTCTGCAAAAAATCATGCAAAACTGAG-CAGGGGCC
66 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTCAGTC--GGGCC
* * * * * * * *
182930 T---CGAAACACCTTTTTAGCCAAAAAAAAAACTGTTATA-ATTAATACCCAATTTC-AGTTAAG
129 TGAACGAAACGCGTTTTTAG-C---AAAAAACCTGTGATAGA--CA-A---GATTTCGA-CTAAA
*
182990 AACTGACCCGAAATTTTTTTTCTCAATTTTTTGCCACAATA--CAGTCAAAAAATATATAATTCA
183 AACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCA-T-AAAAAATATATAATTCA
*
183053 ATGCTAAAAAAATTGAA--GTATTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTT
246 ATGC-CAAAAAATTGAAGGGT-TTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTT
*
183116 ATTTCTACTTA
309 ATTT-TAATTA
* * * * *
183127 TATCAAAATAAGATTTAGATGCTCGTAAAAACAAA-CTATTAAATCCAATGTGGCTGAAATTTGG
1 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATC-CTTAAATCCAATGTGGCTGAGATTTGG
* * * * * * *
183191 TTAGATGAATATAGATATTTGAAGGAGACTTTCGGCCAAAAATCATGCAAACCTGAGTCGGGGCT
65 TTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTCAGTCGGGCCT
** * * * * *
183256 --TTGAAACACGTTTTTTACCCAAAAACCGTGATGACTAATACACGATTTC-AGCTAAAAACTGA
130 GAACGAAACGCG-TTTTTAGCAAAAAACC-TG-TGA-T-AGACAAGATTTCGA-CTAAAAACTGA
* * * * * *
183318 CACGAAGA-GTTTTTCTCAATTTTTTGCCACAATATTCA-GAAAAATATATAATTCAAAGCCAAA
189 CCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCATAAAAAATATATAATTCAATGCCAAA
* * * * * *
183381 AGCATTGAAAGGTTTTTCACACTTCTAATATCATTTTTCCATTTTTTCCCGAATTTAATTTTAAT
254 A-AATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTT-ATTTTAAT
183446 TA
317 TA
* * *
183448 TATTGAGACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGT-GCATGAGATTTGG
1 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGC-TGAGATTTGG
* * *
183512 TTAGATGAATATAGATACTTT-AAGGAGTCTTT-TGGCAAAAAATCAA-GCAAAACTGAGCCGAA
65 TTAGATGAATATAGATA-TTTCAAGGAGTCTTTCT-GCCAAAAAT-AATGCAAAACTCAGTCG--
* * *
183574 GACCT----GAAACGCGTTTTTCGCAAAAAAACCT-TGAT-GACACGATTTCGACTAAAAACTGA
125 GGCCTGAACGAAACGCGTTTTTAGC-AAAAAACCTGTGATAGACAAGATTTCGACTAAAAACTGA
*** * * *
183633 CCCGAAAAAGATTTTCTCACA-TTTTTGCCACAATACTCATAAAAAATATACATTTAAATGCCAA
189 CCCGAAAATTTTTTTCTCA-ATTTTTTGCCACAATACTCATAAAAAATATATAATTCAATGCCAA
* * *
183697 AACATTTGAAGTGTTTTTCATGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTTA-TTTAAT
253 AA-AATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTTATTTTAAT
183761 TA
317 TA
* * * *
183763 TATCGAAACAAGATTCAGATGCTCGTAAAAACGAATGCTTAAGTCCAATGTAGCTGAGATTTGGT
1 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * * * *
183828 TAGATAAATATAGATAATTAAAGGAGACTTTCTGCCAAGAAATCATGCAAAACTGAGCCAGGG-C
66 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAA-AAATAATGCAAAACTCAGTC-GGGCC
* * * * * * **
183892 T--TCGATACGAGTTTTTAGCCAAAAA-TTGTGATGGTTAGTACACGATTTCGGTTAAAAACTGA
129 TGAACGAAACGCGTTTTTAGCAAAAAACCTGTGA----TAG-ACAAGATTTCGACTAAAAACTGA
** * * * *
183954 TTCGGAAATTTTATTGTCAATTTTTTGCCACAATACT-A-AAAAAAAATATAATTCAATGCCAAA
189 CCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCATAAAAAATATATAATTCAATGCCAAA
* * * * *
184017 AATAGTG-AGGGTTACTTTTTTCACACTTCTAATATTGTTTTTCCATTTTTTACCGAATTTATTT
254 AA-ATTGAAGGG-----TTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTTATTT
184081 CTAATTA
313 -TAATTA
* * * *
184088 TATCGAAAAAAGAATCAGATGCTCGTAAAAACAAATCCTTAAATTCAATGTGGCAGAGATTTGGT
1 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* *
184153 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGTCAAAAATAATGCAAAACTCTGTCGGAGACC
66 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTCAGTCGG-G-CC
* *
184218 TGAAAGGCTGAAACGCGTTTTTAACAAAAAACCT-TGAT-GGCAAGATTTCGACTAAAAACTGAC
129 TG-AA--C-GAAACGCGTTTTTAGCAAAAAACCTGTGATAGACAAGATTTCGACTAAAAACTGAC
* *
184281 CCGAAAATTTTTTTCTCACTTTTTTGCCACAATACTCATAAAAAATATACAATTCAATGCCGAAA
190 CCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCATAAAAAATATATAATTCAATGCC-AAA
* * * * *
184346 AAATTGAAGGGTTTCTCATGCTTCTAATATCGTTATTACATTTTTTTTATGAATTTATTATTAAT
254 AAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTCTGAATTTATT-TTAAT
184411 TA
317 TA
* * * * *
184413 TATCGAAACAAGATTTAGATGCTCGTAAAAACATATCCATAAATCCCAA-GTGGCTGAGGTTTCG
1 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAAT-CCAATGTGGCTGAGATTTGG
* * * *
184477 TTCGATGAATATAGATATTTCAAGGAGCCTTTCTGCCAAAAATCAA-GCAAAACTGAGCCGGGTC
65 TTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAAT-AATGCAAAACTCAGTCGGG-C
* * *
184541 CT---CGAAACGCGTTTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGA
128 CTGAACGAAACGCGTTTTTAGCAAAAAACC-TG-TGA-TAG-ACAAGATTTCGACTAAAAACTGA
* * * * * * * *
184603 CACGAAGAATTTTTTTCTCAATTTTTTGGCACAATATTAAGAAAAAGTATATAATCCAACGCCAA
189 CCCGAA-AATTTTTTTCTCAATTTTTTGCCACAATACTCATAAAAAATATATAATTCAATGCCAA
* *
184668 AAATATTGAAAGG-TTTTCAATGCTTCTAATATCGTTTTTCCATCTTTTTTTTCTTAGAATTTAT
253 AAA-ATTGAAGGGTTTTTC-ACGCTTCTAATATCGTTTTTCCA---TTTTTTTC-T-GAATTTAT
184732 TATTAATTA
311 T-TTAATTA
* * * *
184741 TATCGGAATAAGATTAATTCAGATGCTCGTAAAAACGAATCCTTAAGTCCAATGTGGCTGAG
1 TATCGAAACAAG----ATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAG
184803 CCAGGGTTCT
Statistics
Matches: 1647, Mismatches: 244, Indels: 213
0.78 0.12 0.10
Matches are distributed among these distances:
314 5 0.00
315 130 0.08
316 61 0.04
317 91 0.06
318 9 0.01
319 29 0.02
320 40 0.02
321 230 0.14
322 33 0.02
323 90 0.05
324 236 0.14
325 329 0.20
326 208 0.13
327 16 0.01
328 58 0.04
329 19 0.01
331 5 0.00
332 57 0.03
333 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (318 bp):
TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
TAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAATGCAAAACTCAGTCGGGCCTG
AACGAAACGCGTTTTTAGCAAAAAACCTGTGATAGACAAGATTTCGACTAAAAACTGACCCGAAA
ATTTTTTTCTCAATTTTTTGCCACAATACTCATAAAAAATATATAATTCAATGCCAAAAAATTGA
AGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCTGAATTTATTTTAATTA
Found at i:187081 original size:643 final size:640
Alignment explanation
Indices: 184822--192005 Score: 5730
Period size: 643 Copynumber: 11.1 Consensus size: 640
184812 TGAAAGGCGC
* * * ** * * * *
184822 TTTTAGCCAAAAACCATGAAGTTTAGTACATTATTTCGGGTAAAAATTGTTC-TGAAAATTTTAT
1 TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTG-ACACGAAAATTTT-T
* * * * *
184886 TCTCAATTTTTTGCTATAATACTCAGAAAAAATATATAATTCTACACCAAAAATATTG-AGTGTT
64 TCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAG-G-G
* * * *
184950 TTTTTTACACTTCTAATATTGTTTTTTCC-TTTTTTTTCCCGAATTTATTTCTAATTATATCGAA
127 TTTTTCAAAGTTCTAATATCG-TTTTTCCATTTTTTTT-CCGAATTTATTTCTAATTATATCGAA
* * * ** *
185014 AAAAGAATCAGATGCTCGGAAAAACAAAACAATAGTCAATAAATCCAATGTGGCTGAGATTTTGT
190 ACAAGATTCAGATGCTC-G---TA-AAAACAA-A-TCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * *
185079 TAGATGAATATATATATATTTCAAGGAGACTTTTTGCAAAAAAATCATGCAAAACTGAGATGGGG
248 TAGATG-A-ATATAGATATTTCAAGGAGTCTTTCTGC-AAAAAATCAAGCAAAACTGAG-TAGGG
* * * *
185144 CGTCCGAAACGCGTTTTTAGCAAAAATCCGTGATAGTTAGTACATGATTTTGGCTAAAAACTGAC
309 C-CCCGAAACGCGTTTTTAGCAAAAA-CCGT-AT-GGTAGTACACGATTTCGGCTAAAAACTGAC
* * * * *
185209 CTGAAAAATTTATTCTCAATTTTTTTGCCATAATACTCTA-AATAAATATATAATTCAATGCCAA
370 CCGAAAAATTTTTTCTCAA-TTTTTTGCCACAATACTC-AGAAAAAATATATAATTCAACGCCAA
* * * *
185273 AAAGATTG-TGTGGGGGGGGGGGGGGTTTCACGCTTCTAATATC-----T--TTTTTTTTT--GA
433 AAATATTGAAGT------------GTTTTCATGCTTCTAATATCGTTTTTCCTTTTTTTTTCCGA
* * * * * * *
185328 ATTTATTTTTAATTATATCCAAAAAAGAATCAGATGCTCGGAAAAACAAAACCATAAATCCAATG
486 ATTTATTTCTAATTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATG
* * *
185393 TGGATGAGATTTTGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAA
551 TGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAA
* ** *
185458 ACTGAGCTGGGTCCCCGAAACGTGG
616 ACTGAGCAGGGTCCCCGAAACACGT
* * *
185483 TTTTAGCCAAAAACCGTGATGATTAGTACGCAATTTCGGCTAAAAACTGCCACGAAGAATGTTTT
1 TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACACGAA-AA--TTTT
* * *
185548 TTCTCAATTTTTTTGCCACAATATTCAG--AAAATGTAT-A-T----GCCAAAAATATTGAAAGG
63 TTCTCAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGG
* *
185605 -TTTTCAATGCTTCTAATATCGTTTTTTCCA-TTTTTTTCTG-ATTTATTAT-TAATTATATCGA
127 TTTTTCAAAG-TTCTAATATCG-TTTTTCCATTTTTTTTCCGAATTTATT-TCTAATTATATCGA
* * * *
185666 AACAAGATTCAAATGCTCGTAAAAACGAATCCTTAAGTCCAATGTGGCTGAAATTTGGTTAGATG
189 AACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATG
* * * * *
185731 AATATATATTTTTC-AGGAAGACTTTCTG-AACAAAATCATGCAAAACTGAG-ACGGGGCTCCGA
254 AATATAGATATTTCAAGG-AGTCTTTCTGCAA-AAAATCAAGCAAAACTGAGTA--GGGCCCCGA
* ** * *
185793 AACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTAAGCCAAAAACTGACCTGAAAA
315 AACGCGTTTTTAG-CAAAAACCGT-ATGG-TAGTACACGATTTCGGCTAAAAACTGACCCGAAAA
* * * * * *
185858 ATATATTCTTAATTTTTTACCATAATACTCTA-AATAAATATATAATTCAACGCCAAAAATATTG
377 ATTTTTTCTCAATTTTTTGCCACAATACTC-AGAAAAAATATATAATTCAACGCCAAAAATATTG
* * * ** * *
185922 AGGGGTTTTTTCATGCTTCTAATATCGTTTTTCCATTTTTTCCCCGAATTTATATCTACTTATAT
441 A--AGTGTTTTCATGCTTCTAATATCGTTTTTCCTTTTTTTTTCCGAATTTATTTCTAATTATAT
* * * * * * * * * *
185987 CGAAAAAAGAATCAGATTCTCGGAAAAACAAAACCTTGATTCTAATGTGGCTGAGATTTTGTTTG
504 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAG
* * * * ***
186052 ATGAATATAGATATTTCAAGGAGTCTTTCTACAAAAAATTAAGCAAAACTGAGTATATAATTCAA
569 ATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAG--CA-GGGTC--
** * *
186117 CGCTAAAAATATAGAT
629 C-C-CGAAACA-CG-T
* * * * * * *
186133 ATTTTGATG-GATGAACTAACCATGATGGTTAGTTCTCGA--TCGGCTAAAAACTGACCCGAATA
1 -TTTT-A-GCCA--AA--AACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACACGAAAA
* * * * *
186195 TTTTATTCTCAATTTTTTACCATAATACTCAGAGAAAGTATATAATTCAACGCTAAAAATATTGA
59 TTTT-TTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGA
* * *
186260 AGGGTTTTTC-ACGCTTCTAATATCGTTTTTCCGTTTTTTTTTTCCGAATTGATTTCTAATTATA
123 AGGGTTTTTCAAAG-TTCTAATATCGTTTTTCC--ATTTTTTTTCCGAATTTATTTCTAATTATA
* * * * * *
186324 TCGATAA-AAGAATCAGATACTCGTAAAAACAAATTCTTCAATCCAATGTGTCGGAGATTTGGTT
185 TCGA-AACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * ** **
186388 TGATGAATATAGATATTTCAATGAGTCTTTCTGAAAAAAAT-AATGCAAAACTGAGCTAAAGAGC
249 AGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCAA-GCAAAACTGAG-TAGGGCCC
* * * * ** *
186452 TGAAACGTGTTTTTAGCAATAAACC-T-TGG-CG-CCACGATTTCGATTGAAAACTGAACCCGAA
312 CGAAACGCGTTTTTAGCAA-AAACCGTATGGTAGTACACGATTTCGGCTAAAAACTG-ACCCGAA
* * * * * * * *
186513 AAAATTTCTCTCACTTTTTTGCCATAATACTCATAAAAATTATACAATTCAACGCCAAAAAAATT
375 AAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATT
* *
186578 GAAGTGTTTTCACGCTTCTAATATCGTTTTTCCTTTTTTTTTTCCGAATTTATTTGTAATTATAT
440 GAAGTGTTTTCATGCTTCTAATATCGTTTTTCC-TTTTTTTTTCCGAATTTATTTCTAATTATAT
* ** *
186643 CTAAACAAGATTCAGATGCTCGGGAAAACAAATCCTTAAATGCAATGTGGCTGAGATTTGGTTAG
504 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAG
* * *
186708 TTGAATATAGATATTTCAAGGAGACTTTCTGCCAAAAATCAAGCAAAACAGAGCAGGGTCCCCGA
569 ATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAGCAGGGTCCCCGA
186773 AACACGT
634 AACACGT
* * * * * *
186780 TTTTAGCCAAAAACCGTGATGACTAGTTCACGATTTCGACTGAAAACTGACTCGAATATTTTATT
1 TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACACGAAAATTTT-TT
* * * * *
186845 CTCAATTTTTTGTCATAATACTTAGAAAAAATATATAATTCAATGCCAAAAATATTGGAGGGATT
65 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGG-TT
* * *
186910 TTTCAAAGTTCTAATATCGTTATTACATTTTTATTTCCGAATTTATTTCTCATTATATCGAAACA
129 TTTCAAAGTTCTAATATCGTTTTTCCATTTTT-TTTCCGAATTTATTTCTAATTATATCGAAACA
* *
186975 AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCCAA-GGGGCTGAGATTTGGTTGGATGAAT
193 AGATTCAGATGCTCGTAAAAACAAATCCTTAAAT-CCAATGTGGCTGAGATTTGGTTAGATGAAT
* * *
187039 ATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAAAGCAAAACTGAGTCGGGTCCCCGAAACGCG
257 ATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCAAGCAAAACTGAGTAGGG-CCCCGAAACGCG
* * * *
187104 TTTTTAGCCAAAAATCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACACGAAGAATTTTT
321 TTTTTAG-CAAAAACCGT-ATG-GTAGTACACGATTTCGGCTAAAAACTGACCCGAA-AAATTTT
* * * * *
187169 TTCTCAA-TTTTT-CCGCAATATTCAGAAAAAGTATATAATCCAACGCCAAAAGTATTGAAAG-G
382 TTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTG-AAGTG
* *
187231 TTTTCAATGCTTCTAATATCGTTTTTCC-ATTTTTTTCTGAA-TTATTAT-TAATTATATCGAAA
446 TTTTC-ATGCTTCTAATATCGTTTTTCCTTTTTTTTTCCGAATTTATT-TCTAATTATATCGAAA
* * * *
187293 TAAGATTCAGATGCTCGTAAAAACGAATCCTTAAGTCCAATGCGGCTGAGATTTGGTTAGATGAA
509 CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAA
* * ** * * * * *
187358 TAAATATATCCCAAGGAGACTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGT--TCGAAA-A
574 TATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAGC-AGGGTCCCCGAAACA
187420 GCGT
638 -CGT
* * * * *
187424 TTTTAGGCAAAAACCGTGATGGTTAGTATAAGATTTCGGCTAAAAACCGAC-CTGAAAATTTTAT
1 TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACAC-GAAAATTTT-T
* * *
187488 CCTCAAGTTTTTTGCCATAATACTCAG-AAAAATATATAATTCAACGCCAAAGATATTG-AGGGT
64 TCTCAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGG-
*** * * * *
187551 TTTTTTCACTCTTCTAATATCGGTTTTCCA-ATTTTTCCCGAATTTATTTCTAATTATATCAAAA
127 -TTTTTCAAAGTTCTAATATCGTTTTTCCATTTTTTTTCCGAATTTATTTCTAATTATATCGAAA
* * * * * * *
187615 AAAGAATCAGATGCTCGGAAAAACAAAACCTTAAATCCAATGTGACTGAGATTTTGTTGGATGAA
191 CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAA
* * * * * *
187680 TATAGATATTTTAAGGAGTATTTCTGCCAAAAATCAAGCAAAACGGAGTCGGGTCCCCGAATCGC
256 TATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCAAGCAAAACTGAGTAGGG-CCCCGAAACGC
* ** * * * ** *
187745 GGTTTTAGCCAAAAACCGTGATTATTATTAGTACACGATTTTGGCTAAAAATTTATACGAAGAAT
320 GTTTTTAG-CAAAAACC--G--TA-TGGTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAAT
* * *
187810 TTTTTCTCAATTTTTTTGCCACAATATTCAGAAAAAGTATATAATCCAACGCCAAAAATATTGAG
379 TTTTTCTCAA-TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGA-
* *
187875 AG-GTTTTCAATGCTTCTTATATCGTTTTTCCATTTTTTTTTCTGAATTTATTAT-TAATTATAT
442 AGTGTTTTC-ATGCTTCTAATATCGTTTTTCC-TTTTTTTTTCCGAATTTATT-TCTAATTATAT
* * * * *
187938 TGAAACAAGATTTAGATGCTCGTAAAAACGAATCCTTAAGTCCAATGTGGCTTAGATTTGGTTAG
504 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAG
* * *
188003 ATGAATATATATATATTTATATATATATATATATATATTTCAAGGAGACTTTCAATGCAAAAAAA
569 ATG-----------------------A-ATATAGATATTTCAAGGAGTCTTTC--TGC-CAAAAA
* * * * **
188068 TCATGCAAAACTGAGCCGGG-CTCCGATATGCGT
607 TCAAGCAAAACTGAGCAGGGTCCCCGAAACACGT
* * * **
188101 TTTTAGCAAAAAATCGTGATGATTAGTAAATTATTTCGGCTAAAAACTGAC-CTGAAAATTTTAT
1 TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACAC-GAAAATTTT-T
* *
188165 TCTCAATTTTTTGCCATAATACTCAG-AAAAATATATAATTCAACGCCAAAAATATTGAGGGGTT
64 TCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGG-T
*
188229 TTTTC-ACGCTTCTAATATCGTTTTTCCATTTTTTTTCCCGAATTTATTTCTAATTATATCGAAA
128 TTTTCAAAG-TTCTAATATCGTTTTTCCATTTTTTTT-CCGAATTTATTTCTAATTATATCGAAA
* * * * * * *
188293 AAAGAATCAGATGCTCGGAAAAA-AAAACATTAAATCCAATGTGGCTGAGATTTTGTTGGATGAA
191 CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAA
* * * * *
188357 TGTAGATATTTCAAGGAGTCTTCCTGCCAAAAATCAAGCAAAACTGAGCT-GGGTCCTCGAAATG
256 TATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCAAGCAAAACTGAG-TAGGG-CCCCGAAACG
* * * * * ** *
188421 CGGTTTTAGCCAAAAATCGTGATGATTAGTTCACAATTTCGGCTAAAAACTGACATGAAGAATTT
319 CGTTTTTAG-CAAAAACCGT-ATG-GTAGTACACGATTTCGGCTAAAAACTGACCCGAA-AAATT
* * *
188486 TTTTCTCAATTTTTTGCCACAATATTCAGGAAAAATATATAATTCAATGCCAAAAATATTGAAAG
380 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTG-AAG
* ** *
188551 AT-TTTT-ATGCTTCCAATATCG-TTTTCCCATTTTTTT-CGAATTTATTTTTAATTATATCGAA
444 -TGTTTTCATGCTTCTAATATCGTTTTTCCTTTTTTTTTCCGAATTTATTTCTAATTATATCGAA
* * *
188612 ACAAGATTCAGATGCTCGTAAAAACAAATCTTTAAATCCAATGTGGATGAGATTTAGTTAGAT--
508 ACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGA
* * * * * *
188675 -TA-AGATATTTAAAGAAGTCTTTCTGCCAAAAGTCATGCAAAACTTAGCTAGGGT-CCTGAAAC
573 ATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAGC-AGGGTCCCCGAAAC
*
188737 GCGT
637 ACGT
* * ** * * ** * * *
188741 TCTTAGCCAAATATAGTGATGATTATTAAAAAATTTAGGTTAAAAACTGATC-TGAAAAGTTTTT
1 TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGA-CACGAAAA-TTTTT
* * * * * * * *
188805 T-TCCTAATTTTTTG-CAAAATATTCAGAAAATATATATAATTCAACACAAAAAAGATTGATGGC
64 TCT-C-AATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGG
* ** * * * *
188868 CTTTTCACGGTTCTAATACCATTTTTCCA-TTTTTTTCCGAATTAATTTCTAATTAAATCGAAAC
127 TTTTTCAAAGTTCTAATATCGTTTTTCCATTTTTTTTCCGAATTTATTTCTAATTATATCGAAAC
* * * * *
188932 AAGATTCAAATGCTCATAAAAACAAATCCTTATATCCTATGTGGCTGAAATTTGGTTCA-ATGAA
192 AAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT-AGATGAA
* ** * * * * ** * *
188996 TAAAGATATTTCAAATAGTATTTCTTCAAAAAATCATGCAAAATTGAGTCAGGGTTCCGGAATGC
256 TATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCAAGCAAAACTGAGT-AGGGCCCCGAAACGC
* * *
189061 GTTTTTAGGGAAAAA-AGTAATGGTTAGTACACAATTTCGGCTAAAATTTTGCAAAAACTGACCC
320 GTTTTTA-GCAAAAACCGT-ATGG-TAGTACACGATTTCGGC--------T--AAAAACTGACCC
* * * *
189125 -AGAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGCTAAAAA
372 GA-AAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
* * * * ******* *
189189 TATTGAAGGGTTTTTTAAGCTTCTAGTATCGTTTTTCCAAAAAAAAAATTCTGAATTTATTTCTA
436 TATTGAAGTG-TTTTCATGCTTCTAATATCGTTTTTCC---TTTTTTTTTCCGAATTTATTTCTA
* * *
189254 ATTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATCCAAAGTGGTTGAGATT
497 ATTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATT
* * * * * * *
189319 TGCTTGGATAAATATAGA-ATTTTCAAGAAGTTTTTTTTGCCAAAAATCAAGCAAAACTGAGCCG
562 TGGTTAGATGAATATAGATA-TTTCAAGGAG-TCTTTCTGCCAAAAATCAAGCAAAACTGAGCAG
* *
189383 GATCCCCGAAACGCG-
625 GGTCCCCGAAACACGT
*
189398 TTTT------------T-A-G----GTACACGATTTCGGCTAAAAACTGGCACGAAGAATTTTTT
1 TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACACGAA-AATTTTTT
* * * * * * * * *
189445 TTCAATATTTTGCAAAAATATTCAGAAAAAATATATAATTAAACGTCAAAAGTATTGAAAGGTTT
65 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGTTT
* * * * * *
189510 TTCACACTTTTAATATCGTTTTCCCTTTTTTTTTTCTGAATTTATTTCTAATTATATCGAAACAA
130 TTCAAAGTTCTAATATCGTTTTTCC-ATTTTTTTTCCGAATTTATTTCTAATTATATCGAAACAA
* * * **
189575 GATTCAGATGCTC-AAAAAATCAAATCCTTAAATGCAATGTGGTTGAGATTTTATTAGATGAATA
194 GATTCAGATGCTCGTAAAAA-CAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATA
* * * * ** *
189639 TAAATATTTCAAGGATTATTTCTGCAAAAAAAAAAAAAGTCATGCAAAACTGAGCCGAGACCCCG
258 TAGATATTTCAAGGAGTCTTTCTGC-------AAAAAA-TCAAGCAAAACTGAGTAG-GGCCCCG
* * * * *
189704 AAACGCGTTTTTACCAAAAATCGTGAT-G--GTACACGATTTCGGCTAAAAACTGAGCTGAAGAA
314 AAACGCGTTTTTAGCAAAAACCGT-ATGGTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAA
* * *
189766 TTTTTTCCTCAA-TTTTTGCCACAATACTCAGAAAAAA-A-AAAAGTTTAACGCCAAAAATATTA
378 TTTTTT-CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAA-TTCAACGCCAAAAATATTG
* *
189828 AAGTGTTTTTCATGCTTCTAATATCGTTTTTCCTTTTTTTTTTTTTTACGAATTTATATCTAATT
441 AAGTG-TTTTCATGCTTCTAATATCGTTTTTCC-----TTTTTTTTTCCGAATTTATTTCTAATT
* * * * *
189893 ATATCGAAACAAGATTCAGATACTCGTAAAAACAAATCTTTAATTCCAAAGTGGCTGAGATTTGC
500 ATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
* * * * * *
189958 TTGGATGAACATAGATATTTCAAGAATTCTTTCTGCGAAAAATCAAGCAAAACTGAGCTGGGTCC
565 TTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAGCAGGGTCC
190023 CCGAAACACGT
630 CCGAAACACGT
***** *
190034 TTTTAG-CAAAAAAAAAAAGGA--AG-A-A-GATTTCGGCTAAAAACTGACACGAATAATTTTTT
1 TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACACGAA-AATTTTTT
* * *
190093 CTCAATTTTTTGCCACAATATTCAGAAAAAATATATAATTCAACGCCAAAAATGTTGAAAGGTTT
65 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGTTT
* * * *
190158 TTC-ACGCT-TAATATCGTTTTTCCA--TTTTTTCTGAATTTATTTATAATTATATCGAAACAAG
130 TTCAAAGTTCTAATATCGTTTTTCCATTTTTTTTCCGAATTTATTTCTAATTATATCGAAACAAG
* * * * *
190219 ATTTAGATGCTCGTAAAAACGAATCCTTAAAACCAATGTGGCTCAGATTTGGTTATATGAATATA
195 ATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATA
* * * * * * * *
190284 GATATTGT-AAGGAGAC-TTCTTGCCAAAAATCATA-CATAATTGAGCTAGGGCTCTGAAATGTG
260 GATATT-TCAAGGAGTCTTTC-TGCAAAAAATCA-AGCAAAACTGAG-TAGGGCCCCGAAACGCG
* * * *
190346 TTTTTAACCAAAAACCGTGATGGTTAGTATACGATTTCGGGTAAAAACTGACCC-AACAATTTTA
321 TTTTT-AGCAAAAACCGT-ATGG-TAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTT-
* * * * * * *
190410 TTCTCAATCTTTTGCCATAATACTAAAAAAAAATATATATTTCAATGTCAAAAATATTGAAGATT
382 TTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAG--T
*
190475 TTTTTCATGCTTCTAATATCG----T--TTTTTTTTTCCGAATTTATTTCTAATTATAT--AAA-
445 GTTTTCATGCTTCTAATATCGTTTTTCCTTTTTTTTTCCGAATTTATTTCTAATTATATCGAAAC
* * * *
190531 AAAAATCAGATGCTCGTAAAAGCAAATCCATT-AATCCAATGTGGCTGAAATTTGGTTAGATGAA
510 AAGATTCAGATGCTCGTAAAAACAAATCC-TTAAATCCAATGTGGCTGAGATTTGGTTAGATGAA
* * * * * *
190595 TATAGATATTTTAAGAAGTCTTTCTGCAAAAAAT-AATGCAAAACTGAGCCGGAG-ACCTGAAAC
574 TATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAA-GCAAAACTGAGCAGG-GTCCCCGAAAC
*
190658 GCGT
637 ACGT
* ***** ** * * **
190662 TCTTAG-CAAAAAAAAAAAAAACCTTGGAGTACACGATTTCGACTAAAAACTGACCCGAAAAAAT
1 TTTTAGCCAAAAACCGTGATGA--TT--AGTACACGATTTCGGCTAAAAACTGACACGAAAATTT
* * * * * * * ****
190726 TTTCTCACTTTTTTGCCACAACACTCATACAAAATATACAATTCAATGCCAAAATCATTTTTCTC
62 TTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAA--ATATTGAAG
** ** * *
190791 ACTTTTTCTCACTTCTAATATCGTTTTT-CATTTTTTTCCCCGAATTTATTTCTAATTATATCGA
125 GGTTTTTCAAAGTTCTAATATCGTTTTTCCATTTTTTT-TCCGAATTTATTTCTAATTATATCGA
* ** * * * *
190855 AACAAGATTCAAATGCTCGGGAAAACAAATCCTTAAATGCAATGTGGTTGGGATTTGGTTAGATA
189 AACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATG
* * * * * ** *
190920 AATATAAATATTTCTATGAGTCTTTCTGTAAAAAAATCATGCAAAACTGAGCCGGGGCCCCAAAA
254 AATATAGATATTTCAAGGAGTCTTTCTG-CAAAAAATCAAGCAAAACTGAG-TAGGGCCCCGAAA
* * *
190985 CGCGTTTTTACCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACTCGAACAA-T
317 CGCGTTTTTAGCAAAAACCGT-ATGG-TAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATT
* * *
191049 TTTTCTCAATTTTTTGCCACAGTACTCAGAAAAAAAAAACATAATTCAACGCCAAAAATATTGAA
380 TTTTCTCAATTTTTTGCCACAATACTCAG--AAAAAATATATAATTCAACGCCAAAAATATTGAA
* ** * * *
191114 GGGTTTTTCAACCTTCTAATATCG-TTTTCC-TTTTTATTCCGTATTTATTTTTAATTATATCGA
443 GTG-TTTTCATGCTTCTAATATCGTTTTTCCTTTTTTTTTCCGAATTTATTTCTAATTATATCGA
* * ** * *
191177 AACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATACAATGTGAATGAGATTTCGTTGGATG
507 AACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATG
** * *
191242 AATATAGATATTTCGTGGACTCTTTCTGCCAAAAATCAAGCAAAACTGAGTCAGGG-CCCTGAAA
572 AATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAG-CAGGGTCCCCGAAA
*
191306 CATGT
636 CACGT
* *** *
191311 TTTTA-CCAAAAAAACCGTGATGATTAGTACACGATTTCAGCTAAAAACTGAGTTGAAGAAATTT
1 TTTTAGCC--AAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACACGAA-AATTTT
* * * *
191375 TTCTC-AGTTTTTGCCACAATACTCAAAAAAAATATATAATTCAACGACAAAAATATTGAACGGT
63 TTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGT
* * * * *
191439 TTTTC-AAGTTTCT-A-ATCGTTTTTCTA-TTTTATTCTGAGTTTATTTCTAATTAAATCGAAAC
128 TTTTCAAAG-TTCTAATATCGTTTTTCCATTTTTTTTCCGAATTTATTTCTAATTATATCGAAAC
* * * * *
191500 AAGATTCAAATGTTTGTAAAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTGGATGA
192 AAGATTCAGATGCTCGT--AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGA
* ** * * * *
191565 ATATAGATATATCGTGGAGTCTTTCTGTC-AACAATCAAGCAAAATTGAGACAGGGCTCCGAAAC
255 ATATAGATATTTCAAGGAGTCTTTCTG-CAAAAAATCAAGCAAAACTGAG-TAGGGCCCCGAAAC
* * * *
191629 ACGTTTTTACCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAATACTGACCCGAAGAATT
318 GCGTTTTTA-GCAAAAACCGT-ATGG-TAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATT
* * * * * * * *
191694 TTTTCTGAATTCTTTGCCACAGTACTTAGAAAAAATATATAGTTCAACCCCAAAAGTATTGAAGG
380 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGT
* * * *
191759 GTTTTTCACGTTTCTAATATCATTTTTCC-ATTTTTTTCCGAATTTATTTCTAATTATATCGAAA
445 G-TTTTCATGCTTCTAATATCGTTTTTCCTTTTTTTTTCCGAATTTATTTCTAATTATATCGAAA
* * *
191823 CAAGATTCAGATGCTCGTAAAAACAAACCCTTAAATCCAATGTGGCTGAGATTTGGTCAGATGGA
509 CAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAA
* * * * ** ** * *
191888 TATAGATATTTCTAGGAGTCTTTCTGCCAAAAATTATGCAAAACTAAGTTGGGGACCTGAAACGC
574 TATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAGCAGGGTCCCCGAAACAC
191953 GT
639 GT
** * * * * *
191955 TTTTAGGTAAAAAAACGTGATGGTTATTAAACGATTTTGGCTAAAAACTGA
1 TTTTA-GCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGA
192006 TGCTTGTAAA
Statistics
Matches: 5362, Mismatches: 864, Indels: 611
0.78 0.13 0.09
Matches are distributed among these distances:
627 2 0.00
628 123 0.02
629 6 0.00
631 29 0.01
632 17 0.00
633 3 0.00
634 47 0.01
635 110 0.02
636 180 0.03
637 27 0.01
638 85 0.02
639 225 0.04
640 168 0.03
641 388 0.07
642 474 0.09
643 536 0.10
644 496 0.09
645 229 0.04
646 107 0.02
647 251 0.05
648 190 0.04
649 195 0.04
650 86 0.02
651 34 0.01
652 13 0.00
653 124 0.02
654 31 0.01
655 54 0.01
656 173 0.03
657 80 0.01
658 43 0.01
659 33 0.01
660 7 0.00
661 60 0.01
662 137 0.03
663 13 0.00
664 22 0.00
669 1 0.00
670 77 0.01
671 7 0.00
672 6 0.00
673 16 0.00
674 100 0.02
675 18 0.00
676 81 0.02
677 208 0.04
678 50 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (640 bp):
TTTTAGCCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACACGAAAATTTTTTC
TCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGTTTT
TCAAAGTTCTAATATCGTTTTTCCATTTTTTTTCCGAATTTATTTCTAATTATATCGAAACAAGA
TTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAG
ATATTTCAAGGAGTCTTTCTGCAAAAAATCAAGCAAAACTGAGTAGGGCCCCGAAACGCGTTTTT
AGCAAAAACCGTATGGTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTTCTCAATT
TTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAATATTGAAGTGTTTTCATGCT
TCTAATATCGTTTTTCCTTTTTTTTTCCGAATTTATTTCTAATTATATCGAAACAAGATTCAGAT
GCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTC
AAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAGCAGGGTCCCCGAAACACGT
Found at i:187680 original size:322 final size:318
Alignment explanation
Indices: 184813--192005 Score: 5705
Period size: 322 Copynumber: 22.2 Consensus size: 318
184803 CCAGGGTTCT
* * * * * ** * * **
184813 GAAAGGCGCTTTTAGCCAAAAACCATGAAGTTTAGTACATTATTTCGGGTAAAAATTGTTCTGAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGAA
* * * *
184878 AATTTTATTCTCAATTTTTTGCTATAATACTCAGAAAAAATATATAATTCTACACCAAAAATATT
66 AATTTT-TTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGCCAAAAATATT
* * * * *
184943 GAGTGTTTTTTTTACACTTCTAATATTGTTTTTTCCTTTTTTTTCCCGAATTTATTTCTAATTAT
129 GAG-G-GTTTTTCACTCTTCTAATATCG-TTTTTCCATTTTTTT-CCGAATTTATTTCTAATTAT
* * * **
185008 ATCGAAAAAAGAATCAGATGCTCGGAAAAACAAAACAATAGTCAATAAATCCAATGTGGCTGAGA
190 ATCGAAACAAGATTCAGATGCTC-G---TA-AAAACAA-A-TCCTTAAATCCAATGTGGCTGAGA
* * * *
185073 TTTTGTTAGATGAATATATATATATTTCAAGGAGACTTTTTGCAAAAAAATCATGCAAAACTGAG
248 TTTGGTTAGATG-A-ATATAGATATTTCAAGGAGTCTTTCTGC-AAAAAATCATGCAAAACTGAG
*
185138 ATGGGGCGTCC
310 CT-GGG-GTCC
* * *
185149 GAAACGCGTTTTTAG-CAAAAATCCGTGATAGTTAGTACATGATTTTGGCTAAAAACTGACCTGA
1 GAAACGCGTTTTTAGCCAAAAA-CCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTG-
* * *
185213 AAAATTTATTCTCAATTTTTTTGCCATAATACTCTA-AATAAATATATAATTCAATGCCAAAAAG
64 AAAATTTTTTCTCAA-TTTTTTGCCACAATACTC-AGAA-AAATATATAATTCAACGCC-AAAA-
* * ** *
185277 ATTGTGTGGGGGGGGGGGGGGTTTCACGCTTCTAATATC---TTT---TTTTTTT--GAATTTAT
124 A-TAT-T-------GAGGGTTTTTCACTCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTAT
* * * * * * * *
185334 TTTTAATTATATCCAAAAAAGAATCAGATGCTCGGAAAAACAAAACCATAAATCCAATGTGGATG
180 TTCTAATTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTG
* * * *
185399 AGATTTTGTTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCAAGCAAAACTGAG
245 AGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAG
185464 CT-GGGTCCCC
310 CTGGGGT--CC
* * * * * *
185474 GAAACGTGGTTTTAGCCAAAAACCGTGATGATTAGTACGCAATTTCGGCTAAAAACTG-CCACGA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACC-TGA
* *
185538 AGAATGTTTTTTCTCAATTTTTTTGCCACAATATTCAG-AAAATGTAT-A-T----GCCAAAAAT
65 A-AA--TTTTTTCTCAA-TTTTTTGCCACAATACTCAGAAAAATATATAATTCAACGCCAAAAAT
* * *
185596 ATTGAAAGG-TTTTCAATGCTTCTAATATCGTTTTTTCCATTTTTTTCTG-ATTTATTAT-TAAT
126 ATTG-AGGGTTTTTCACT-CTTCTAATATCG-TTTTTCCATTTTTTTCCGAATTTATT-TCTAAT
* * * *
185658 TATATCGAAACAAGATTCAAATGCTCGTAAAAACGAATCCTTAAGTCCAATGTGGCTGAAATTTG
187 TATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTG
* * *
185723 GTTAGATGAATATATATTTTTC-AGGAAGACTTTCTG-AACAAAATCATGCAAAACTGAGAC-GG
252 GTTAGATGAATATAGATATTTCAAGG-AGTCTTTCTGCAA-AAAATCATGCAAAACTGAG-CTGG
185785 GGCTCC
314 GG-TCC
* ** *
185791 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTAAGCCAAAAACTGACCTGAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTG-A
* * * * *
185856 AAATATATTCTTAATTTTTTACCATAATACTCTA-AATAAATATATAATTCAACGCCAAAAATAT
65 AAATTTTTTCTCAATTTTTTGCCACAATACTC-AGAA-AAATATATAATTCAACGCCAAAAATAT
* * *
185920 TGAGGGGTTTTTTCA-TGCTTCTAATATCGTTTTTCCATTTTTTCCCCGAATTTATATCTACTTA
128 TGA-GGG-TTTTTCACT-CTTCTAATATCGTTTTTCCATTTTTT-TCCGAATTTATTTCTAATTA
* * * * * * * * *
185984 TATCGAAAAAAGAATCAGATTCTCGGAAAAACAAAACCTTGATTCTAATGTGGCTGAGATTTTGT
189 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * * ****
186049 TTGATGAATATAGATATTTCAAGGAGTCTTTCTACAAAAAATTAAGCAAAACTGAGTATATAATT
254 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAG-CT-GGGGT
186114 CAAC
317 C--C
*** * * * *
186118 GCTAAAAATATAGATATTTTGATG-GATGAACTAACCATGATGGTTAGTTCTCGA--TCGGCTAA
1 G----AAA-CGCG-T-TTTT-A-GCCA--AA--AACCGTGATGGTTAGTACACGATTTCGGCTAA
* * * * *
186180 AAACTGACCCGAATATTTTATTCTCAATTTTTTACCATAATACTCAGAGAAAGTATATAATTCAA
53 AAACTGACCTGAAAATTTT-TTCTCAATTTTTTGCCACAATACTCAGA-AAAATATATAATTCAA
* * *
186245 CGCTAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCGTTTTTTTTTTCCGAATT
116 CGCCAAAAATATTG-AGGGTTTTTCACTCTTCTAATATCGTTTTTCC---ATTTTTTTCCGAATT
* * * * *
186310 GATTTCTAATTATATCGATAA-AAGAATCAGATACTCGTAAAAACAAATTCTTCAATCCAATGTG
177 TATTTCTAATTATATCGA-AACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTG
* * * * * *
186374 TCGGAGATTTGGTTTGATGAATATAGATATTTCAATGAGTCTTTCTGAAAAAAATAATGCAAAAC
241 GCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAAC
* * *
186439 TGAGCTAAAGAG-CT
306 TGAGCT--GGGGTCC
* * * ** * *
186453 GAAACGTGTTTTTAG-CAATAAACC-T--TGG--CG-CCACGATTTCGATTGAAAACTGAACCCG
1 GAAACGCGTTTTTAGCCAA-AAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTG-ACCTG
* * * * * * *
186511 AAAAAATTTCTCTCACTTTTTTGCCATAATACTCATAAAAATTATACAATTCAACGCCAAAAAAA
64 -AAAATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAA-TATATAATTCAACGCCAAAAATA
* * * *
186576 TTGA-AGTGTTTTCACGCTTCTAATATCGTTTTTCCTTTTTTTTTTCCGAATTTATTTGTAATTA
127 TTGAGGGT-TTTTCACTCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTTATTTCTAATTA
* ** *
186640 TATCTAAACAAGATTCAGATGCTCGGGAAAACAAATCCTTAAATGCAATGTGGCTGAGATTTGGT
189 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * * *
186705 TAGTTGAATATAGATATTTCAAGGAGACTTTCTGCCAAAAATCAAGCAAAACAGAGC-AGGGTCC
254 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGT--
186769 CC
317 CC
* ** * * *
186771 GAAACACGTTTTTAGCCAAAAACCGTGATGACTAGTTCACGATTTCGACTGAAAACTGA-CTCGA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCT-GA
* * * * *
186835 ATATTTTATTCTCAATTTTTTGTCATAATACTTAGAAAAAATATATAATTCAATGCCAAAAATAT
65 AAATTTT-TTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGCCAAAAATAT
*** * * *
186900 TGGAGGGATTTTTCAAAGTTCTAATATCGTTATTACATTTTTATTTCCGAATTTATTTCTCATTA
128 T-GAGGG-TTTTTCACTCTTCTAATATCGTTTTTCCA-TTTT-TTTCCGAATTTATTTCTAATTA
*
186965 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCCAA-GGGGCTGAGATTTGG
189 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAAT-CCAATGTGGCTGAGATTTGG
* * * * *
187029 TTGGATGAATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATAAAGCAAAACTGAG-TCGGGTC
253 TTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGT-
187093 CCC
317 -CC
* *
187096 GAAACGCGTTTTTAGCCAAAAATCGTGATGATTAGTACACGATTTCGGCTAAAAACTGACAC-GA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC-CTGA
* * * *
187160 AGAATTTTTTTCTCAA-TTTTT-CCGCAATATTCAGAAAAAGTATATAATCCAACGCCAAAAGTA
65 A-AA-TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAA-TATATAATTCAACGCCAAAAATA
* * *
187223 TTGAAAGG-TTTTCAATGCTTCTAATATCGTTTTTCCATTTTTTTCTGAA-TTATTAT-TAATTA
127 TTG-AGGGTTTTTCACT-CTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATT-TCTAATTA
* * * *
187285 TATCGAAATAAGATTCAGATGCTCGTAAAAACGAATCCTTAAGTCCAATGCGGCTGAGATTTGGT
189 TATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * ** * *
187350 TAGATGAATAAATATATCCCAAGGAGACTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGTTC
254 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGTCC
* * * * *
187415 GAAAAGCGTTTTTAGGCAAAAACCGTGATGGTTAGTATAAGATTTCGGCTAAAAACCGACCTGAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGAA
* * *
187480 AATTTTATCCTCAAGTTTTTTGCCATAATACTCAGAAAAATATATAATTCAACGCCAAAGATATT
66 AATTTT-TTCTCAA-TTTTTTGCCACAATACTCAGAAAAATATATAATTCAACGCCAAAAATATT
* * *
187545 GAGGGTTTTTTTCACTCTTCTAATATCGGTTTTCCAATTTTTCCCGAATTTATTTCTAATTATAT
129 GAGGG--TTTTTCACTCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAATTATAT
* * * * * * * *
187610 CAAAAAAAGAATCAGATGCTCGGAAAAACAAAACCTTAAATCCAATGTGACTGAGATTTTGTTGG
192 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAG
* * * * * *
187675 ATGAATATAGATATTTTAAGGAGTATTTCTGCCAAAAATCAAGCAAAACGGAG-TCGGGTCCCC
257 ATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGT--CC
* * ** * * * *
187738 GAATCGCGGTTTTAGCCAAAAACCGTGATTATTATTAGTACACGATTTTGGCTAAAAATTTATAC
1 GAAACGCGTTTTTAGCCAAAAACCGTG---ATGGTTAGTACACGATTTCGGCTAAAAACTGA-CC
* *
187803 -GAAGAATTTTTTCTCAATTTTTTTGCCACAATATTCAGAAAAAGTATATAATCCAACGCCAAAA
62 TGAA-AATTTTTTCTCAA-TTTTTTGCCACAATACTCAGAAAAA-TATATAATTCAACGCCAAAA
* * *
187867 ATATTGAGAGG-TTTTCAATGCTTCTTATATCGTTTTTCCATTTTTTTTTCTGAATTTATTAT-T
124 ATATTGAG-GGTTTTTCACT-CTTCTAATATCGTTTTTCCA--TTTTTTTCCGAATTTATT-TCT
* * * * *
187930 AATTATATTGAAACAAGATTTAGATGCTCGTAAAAACGAATCCTTAAGTCCAATGTGGCTTAGAT
184 AATTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
* * ****
187995 TTGGTTAGATGAATATATATATATTTATATATATATATATATATATTTCAAGGAGACTTTCAATG
249 TTGGTTAGATG-----------------------A-ATATAGATATTTCAAGGAGTCTTTCTGCA
* * *
188060 CAAAAAAATCATGCAAAACTGAGCCGGGCTCC
290 AAA---AATCATGCAAAACTGAGCTGGGGTCC
* * * * * * **
188092 GATATGCGTTTTTAGCAAAAAATCGTGATGATTAGTAAATTATTTCGGCTAAAAACTGACCTGAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGAA
*
188157 AATTTTATTCTCAATTTTTTGCCATAATACTCAGAAAAATATATAATTCAACGCCAAAAATATTG
66 AATTTT-TTCTCAATTTTTTGCCACAATACTCAGAAAAATATATAATTCAACGCCAAAAATATTG
*
188222 AGGGGTTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTTCCCGAATTTATTTCTAATTATA
130 A-GGG-TTTTTCACTCTTCTAATATCGTTTTTCCA-TTTTTTT-CCGAATTTATTTCTAATTATA
* * * * * * *
188287 TCGAAAAAAGAATCAGATGCTCGGAAAAA-AAAACATTAAATCCAATGTGGCTGAGATTTTGTTG
191 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTA
* * * *
188351 GATGAATGTAGATATTTCAAGGAGTCTTCCTGCCAAAAATCAAGCAAAACTGAGCT-GGGTCCTC
256 GATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGT-C-C
* * * * * * *
188415 GAAATGCGGTTTTAGCCAAAAATCGTGATGATTAGTTCACAATTTCGGCTAAAAACTGACATGAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGAA
* *
188480 GAATTTTTTTCTCAATTTTTTGCCACAATATTCAGGAAAAATATATAATTCAATGCCAAAAATAT
66 -AA-TTTTTTCTCAATTTTTTGCCACAATACTCA-GAAAAATATATAATTCAACGCCAAAAATAT
* * * * *
188545 TGAAAGATTTTT-A-TGCTTCCAATATCGTTTTCCCATTTTTTT-CGAATTTATTTTTAATTATA
128 TG-AGGGTTTTTCACT-CTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAATTATA
* * *
188607 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCTTTAAATCCAATGTGGATGAGATTTAGTTA
191 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTA
* * * * * *
188672 GAT---TA-AGATATTTAAAGAAGTCTTTCTGCCAAAAGTCATGCAAAACTTAGCTAGGGTCC
256 GATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGTCC
* * ** * * * ** * * *
188731 TGAAACGCGTTCTTAGCCAAATATAGTGATGATTATTAAAAAATTTAGGTTAAAAACTGATCTGA
1 -GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGA
* * * * *
188796 AAAGTTTTTT-TCCTAATTTTTTG-CAAAATATTCAGAAAATATATATAATTCAACACAAAAAAG
65 AAA-TTTTTTCT-C-AATTTTTTGCCACAATACTCAGAAAA-ATATATAATTCAACGCCAAAAAT
** ** * * * *
188859 ATTGATGGCCTTTTCACGGTTCTAATACCATTTTTCCATTTTTTTCCGAATTAATTTCTAATTAA
126 ATTGA-GGGTTTTTCACTCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAATTAT
* * * * *
188924 ATCGAAACAAGATTCAAATGCTCATAAAAACAAATCCTTATATCCTATGTGGCTGAAATTTGGTT
190 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* ** * * * * *
188989 CA-ATGAATAAAGATATTTCAAATAGTATTTCTTCAAAAAATCATGCAAAATTGAGTCAGGGTTC
255 -AGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAG-CTGGGGTC
189053 C
318 C
* * ** * * *
189054 GGAATGCGTTTTTAGGGAAAAA-AGTAATGGTTAGTACACAATTTCGGCTAAAATTTTGCAAAAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGC--------T--AAAAA
* * * *
189118 CTGACCCAGAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATGC
56 CTGA-CCTGAAAATTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGC
* * ** * ***** *
189183 TAAAAATATTGAAGGGTTTTTTAAGCTTCTAGTATCGTTTTTCCAAAAAAAAAATTCTGAATTTA
119 CAAAAATATTG-AGGGTTTTTCACTCTTCTAATATCGTTTTTCC----ATTTTTTTCCGAATTTA
* * *
189248 TTTCTAATTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATCCAAAGTGGTT
179 TTTCTAATTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
* * * * * * * *
189313 GAGATTTGCTTGGATAAATATAGA-ATTTTCAAGAAGTTTTTTTTGCCAAAAATCAAGCAAAACT
244 GAGATTTGGTTAGATGAATATAGATA-TTTCAAGGAG-TCTTTCTGCAAAAAATCATGCAAAACT
* *
189377 GAGC-CGGATCCCC
307 GAGCTGGGGT--CC
*
189390 GAAACGCG-TTTT------------T-A--G---GTACACGATTTCGGCTAAAAACTGGCAC-GA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC-CTGA
* * * * * * * *
189435 AGAATTTTTTTTCAATATTTTGCAAAAATATTCAGAAAAAATATATAATTAAACGTCAAAAGTAT
65 A-AATTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGCCAAAAATAT
* * * * * *
189500 TGAAAGGTTTTTCACACTTTTAATATCGTTTTCCCTTTTTTTTTTCTGAATTTATTTCTAATTAT
128 TG-AGGGTTTTTCACTCTTCTAATATCGTTTTTCC--ATTTTTTTCCGAATTTATTTCTAATTAT
* * * **
189565 ATCGAAACAAGATTCAGATGCTC-AAAAAATCAAATCCTTAAATGCAATGTGGTTGAGATTTTAT
190 ATCGAAACAAGATTCAGATGCTCGTAAAAA-CAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * *
189629 TAGATGAATATAAATATTTCAAGGATTATTTCTGCAAAAAAAAAAAAAGTCATGCAAAACTGAGC
254 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGC-------AAAAAA-TCATGCAAAACTGAGC
* ***
189694 CGAGACCCC
311 TG-GGGTCC
* *
189703 GAAACGCGTTTTTA-CCAAAAATCGTGAT-G---GTACACGATTTCGGCTAAAAACTGAGCTGAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGAA
* * *
189763 GAATTTTTTCCTCAA-TTTTTGCCACAATACTCAGAAAAA-AAAAAAGTTTAACGCCAAAAATAT
66 -AATTTTTT-CTCAATTTTTTGCCACAATACTCAGAAAAATATATAA-TTCAACGCCAAAAATAT
* * * * *
189826 TAAAGTGTTTTTCA-TGCTTCTAATATCGTTTTTCCTTTTTTTTTTTTTTACGAATTTATATCTA
128 T-GAGGGTTTTTCACT-CTTCTAATATCGTTTTTCC------ATTTTTTTCCGAATTTATTTCTA
* * * *
189890 ATTATATCGAAACAAGATTCAGATACTCGTAAAAACAAATCTTTAATTCCAAAGTGGCTGAGATT
185 ATTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATT
* * * * * * *
189955 TGCTTGGATGAACATAGATATTTCAAGAATTCTTTCTGCGAAAAATCAAGCAAAACTGAGCT-GG
250 TGGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGG
190019 GTCCCC
315 GT--CC
* **** * *
190025 GAAACACGTTTTTAG-CAAAAA-AAAAAAGG-AAG-A-A-GATTTCGGCTAAAAACTGACAC-GA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC-CTGA
* *
190083 ATAATTTTTTCTCAATTTTTTGCCACAATATTCAGAAAAAATATATAATTCAACGCCAAAAATGT
65 A-AATTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGCCAAAAATAT
* * * *
190148 TGAAAGGTTTTTCACGC-T-TAATATCGTTTTTCCA-TTTTTTCTGAATTTATTTATAATTATAT
128 TG-AGGGTTTTTCACTCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAATTATAT
* * * * *
190210 CGAAACAAGATTTAGATGCTCGTAAAAACGAATCCTTAAAACCAATGTGGCTCAGATTTGGTTAT
192 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAG
* * * * * * *
190275 ATGAATATAGATATTGT-AAGGAGAC-TTCTTGCCAAAAATCATACATAATTGAGCTAGGGCTCT
257 ATGAATATAGATATT-TCAAGGAGTCTTTC-TGCAAAAAATCATGCAAAACTGAGCT-GGGGTCC
* * * * * *
190338 GAAATGTGTTTTTAACCAAAAACCGTGATGGTTAGTATACGATTTCGGGTAAAAACTGACC-CAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGAA
* * * * * * *
190402 CAATTTTATTCTCAATCTTTTGCCATAATACTAAAAAAAAATATATATTTCAATGTCAAAAATAT
66 -AATTTT-TTCTCAATTTTTTGCCACAATACT-CAGAAAAATATATAATTCAACGCCAAAAATAT
**
190467 TGAAGATTTTTTTCA-TGCTTCTAATATCG--TTT---TTTTTTTCCGAATTTATTTCTAATTAT
128 TG-AG-GGTTTTTCACT-CTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAATTAT
* * * *
190526 AT--AAA-AAAAATCAGATGCTCGTAAAAGCAAATCCATT-AATCCAATGTGGCTGAAATTTGGT
190 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC-TTAAATCCAATGTGGCTGAGATTTGGT
* * * * * *
190587 TAGATGAATATAGATATTTTAAGAAGTCTTTCTGCAAAAAATAATGCAAAACTGAGCCGGAGACC
254 TAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGTCC
* * ***** *** *
190652 TGAAACGCGTTCTTAGCAAAAAAAAAAAAAACCTTGGAGTACACGATTTCGACTAAAAACTGACC
1 -GAAACGCGTTTTTAGC-CAAAAACCGTGATGGTT--AGTACACGATTTCGGCTAAAAACTGACC
* ** * * * * *
190717 CGAAAAAATTTTCTCACTTTTTTGCCACAACACTCATACAAAATATACAATTCAATGCCAAAATC
62 TGAAAATTTTTTCTCAATTTTTTGCCACAATACTCAGA-AAAATATATAATTCAACGCCAAAA--
* ***** * *
190782 ATTTTTCTCACTTTTTCTCACTTCTAATATCGTTTTT-CATTTTTTTCCCCGAATTTATTTCTAA
124 A-TATTGAGGGTTTTTCACTCTTCTAATATCGTTTTTCCATTTTTTT--CCGAATTTATTTCTAA
* ** * * *
190846 TTATATCGAAACAAGATTCAAATGCTCGGGAAAACAAATCCTTAAATGCAATGTGGTTGGGATTT
186 TTATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTT
* * * * * *
190911 GGTTAGATAAATATAAATATTTCTATGAGTCTTTCTGTAAAAAAATCATGCAAAACTGAGCCGGG
251 GGTTAGATGAATATAGATATTTCAAGGAGTCTTTCTG-CAAAAAATCATGCAAAACTGAGCTGGG
*
190976 GCCCC
315 G-TCC
*
190981 AAAACGCGTTTTTA-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGA-CTCGA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCT-GA
* * *
191044 ACAA-TTTTTCTCAATTTTTTGCCACAGTACTCAGAAAAAAAAAACATAATTCAACGCCAAAAAT
65 A-AATTTTTTCTCAATTTTTTGCCACAATACTCAG---AAAAATATATAATTCAACGCCAAAAAT
* *
191108 ATTGAAGGGTTTTTCAAC-CTTCTAATATCG-TTTTCC-TTTTTATTCCGTATTTATTTTTAATT
126 ATTG-AGGGTTTTTC-ACTCTTCTAATATCGTTTTTCCATTTTT-TTCCGAATTTATTTCTAATT
* * ** *
191170 ATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATACAATGTGAATGAGATTTCG
188 ATATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
* ** * * * * *
191235 TTGGATGAATATAGATATTTCGTGGACTCTTTCTGCCAAAAATCAAGCAAAACTGAG-TCAGGGC
253 TTAGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCT-GGGGT
191299 CC
317 CC
** * * **
191301 TGAAACATGTTTTTA-CCAAAAAAACCGTGATGATTAGTACACGATTTCAGCTAAAAACTGAGTT
1 -GAAACGCGTTTTTAGCC--AAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCT
* * * *
191365 GAAGAAATTTTTCTC-AGTTTTTGCCACAATACTCAAAAAAAATATATAATTCAACGACAAAAAT
63 GAA-AATTTTTTCTCAATTTTTTGCCACAATACTC-AGAAAAATATATAATTCAACGCCAAAAAT
* * * * * *
191429 ATTGAACGGTTTTTCAAGT-TTCT-A-ATCGTTTTTCTATTTTATTCTGAGTTTATTTCTAATTA
126 ATTG-AGGGTTTTTC-ACTCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAATTA
* * * * *
191491 AATCGAAACAAGATTCAAATGTTTGTAAAAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTG
189 TATCGAAACAAGATTCAGATGCTCGT--AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTG
* * ** * * * *
191556 GTTGGATGAATATAGATATATCGTGGAGTCTTTCTGTC-AACAATCAAGCAAAATTGAGACAGGG
252 GTTAGATGAATATAGATATTTCAAGGAGTCTTTCTG-CAAAAAATCATGCAAAACTGAG-CTGGG
*
191620 CTCC
315 GTCC
* * * *
191624 GAAACACGTTTTTACCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAATACTGACCCGAA
1 GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGAA
* * * * * * *
191689 GAATTTTTTCTGAATTCTTTGCCACAGTACTTAGAAAAAATATATAGTTCAACCCCAAAAGTATT
66 -AATTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAACGCCAAAAATATT
*
191754 GAAGGGTTTTTCACGT-TTCTAATATCATTTTTCCATTTTTTTCCGAATTTATTTCTAATTATAT
129 G-AGGGTTTTTCAC-TCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAATTATAT
* *
191818 CGAAACAAGATTCAGATGCTCGTAAAAACAAACCCTTAAATCCAATGTGGCTGAGATTTGGTCAG
192 CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAG
* * * * * * *
191883 ATGGATATAGATATTTCTAGGAGTCTTTCTGCCAAAAATTATGCAAAACTAAGTTGGGGACC
257 ATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGTCC
** * * * *
191945 TGAAACGCGTTTTTAGGTAAAAAAACGTGATGGTTATTAAACGATTTTGGCTAAAAACTGA
1 -GAAACGCGTTTTTA-GCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGA
192006 TGCTTGTAAA
Statistics
Matches: 5548, Mismatches: 954, Indels: 723
0.77 0.13 0.10
Matches are distributed among these distances:
305 12 0.00
306 93 0.02
307 5 0.00
308 94 0.02
309 13 0.00
310 1 0.00
312 8 0.00
313 158 0.03
314 30 0.01
315 128 0.02
316 88 0.02
317 344 0.06
318 350 0.06
319 191 0.03
320 328 0.06
321 323 0.06
322 674 0.12
323 332 0.06
324 379 0.07
325 356 0.06
326 199 0.04
327 218 0.04
328 127 0.02
329 37 0.01
330 117 0.02
331 89 0.02
332 13 0.00
333 1 0.00
334 8 0.00
335 108 0.02
336 157 0.03
337 114 0.02
338 128 0.02
339 34 0.01
340 2 0.00
341 1 0.00
342 3 0.00
346 15 0.00
347 1 0.00
348 2 0.00
349 69 0.01
350 92 0.02
351 42 0.01
352 23 0.00
354 23 0.00
355 15 0.00
356 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (318 bp):
GAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCTGAA
AATTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATATATAATTCAACGCCAAAAATATTGA
GGGTTTTTCACTCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTTATTTCTAATTATATCGAA
ACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGA
ATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCATGCAAAACTGAGCTGGGGTCC
Found at i:188014 original size:2 final size:2
Alignment explanation
Indices: 188007--188040 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
187997 GGTTAGATGA
*
188007 AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
188041 TTCAAGGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Done.