Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 79 of 325
Found at i:27343203 original size:15 final size:15
Alignment explanation
Indices: 27343183--27343215 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27343173 CTCGAGGAGA
*
27343183 AACAGAGACTTGCTG
1 AACAGAAACTTGCTG
27343198 AACAGAAACTTGCTG
1 AACAGAAACTTGCTG
27343213 AAC
1 AAC
27343216 CTGAAATGCC
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:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (15 bp):
AACAGAAACTTGCTG
Found at i:27352987 original size:6 final size:6
Alignment explanation
Indices: 27352979--27353012 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
27352969 TCGCCAATCT
27352979 TTTTC- TTTTCG TTTTCG TTTTCG TTTTCG TTTTC
1 TTTTCG TTTTCG TTTTCG TTTTCG TTTTCG TTTTC
27353013 TAATACATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.18, G:0.12, T:0.71
Consensus pattern (6 bp):
TTTTCG
Found at i:27358224 original size:13 final size:13
Alignment explanation
Indices: 27358206--27358253 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
27358196 TGCGAATCGA
27358206 TTTTCTTTCTTTT-
1 TTTTCTTT-TTTTC
27358219 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
*
27358232 TTTTCCTTTTTTC
1 TTTTCTTTTTTTC
*
27358245 TTTCCTTTT
1 TTTTCTTTT
27358254 CCTATTCGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 4 0.13
13 27 0.87
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:27358444 original size:20 final size:19
Alignment explanation
Indices: 27358392--27358446 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
27358382 CAGTCCCCCT
27358392 CTCTCCTTTC-CTCTCTTC
1 CTCTCCTTTCTCTCTCTTC
* *
27358410 CTCCTCCCTCCTCTCTCTTC
1 CT-CTCCTTTCTCTCTCTTC
27358430 CTCTCCTTTCT-TCTCTT
1 CTCTCCTTTCTCTCTCTT
27358447 TTTTTTCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.26
19 13 0.42
20 10 0.32
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (19 bp):
CTCTCCTTTCTCTCTCTTC
Found at i:27358986 original size:12 final size:12
Alignment explanation
Indices: 27358969--27358999 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27358959 TAATATTTAT
27358969 ATTATTACTATC
1 ATTATTACTATC
*
27358981 ATTATTATTATC
1 ATTATTACTATC
27358993 ATTATTA
1 ATTATTA
27359000 GTATAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTACTATC
Found at i:27359160 original size:12 final size:13
Alignment explanation
Indices: 27359120--27359174 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
27359110 AATCTATGTA
*
27359120 TTATATATATGTT
1 TTATATATATATT
*
27359133 TTCA-ATATTGTATT
1 TT-ATATA-TATATT
27359147 TTATATATAT-TT
1 TTATATATATATT
*
27359159 TTATGTATATATT
1 TTATATATATATT
27359172 TTA
1 TTA
27359175 ACACTATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 11 0.32
13 13 0.38
14 10 0.29
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (13 bp):
TTATATATATATT
Found at i:27359234 original size:19 final size:19
Alignment explanation
Indices: 27359210--27359246 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27359200 TACTATTTTA
*
27359210 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
27359229 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
27359247 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:27359546 original size:26 final size:26
Alignment explanation
Indices: 27359517--27359572 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
27359507 ATGTATAATA
27359517 TTATTTTCA-TA-TATTATTATATTTAT
1 TTATTTTCACTAGTATTATTAT-TTT-T
27359543 TTATTTTCACTAGTATTATTATTTTT
1 TTATTTTCACTAGTATTATTATTTTT
27359569 TTAT
1 TTAT
27359573 CATTATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 14 0.50
27 5 0.18
28 9 0.32
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (26 bp):
TTATTTTCACTAGTATTATTATTTTT
Found at i:27359794 original size:21 final size:21
Alignment explanation
Indices: 27359725--27359796 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
27359715 TATTTTTTAT
*
27359725 TATATATTATGTGCATATTTA
1 TATATATTATGTGCATATATA
* *
27359746 TATCCTATTA-GT-CATATATCT
1 TAT-ATATTATGTGCATATAT-A
*
27359767 TATTATATTATGTGTATATATA
1 TA-TATATTATGTGCATATATA
27359789 TATATATT
1 TATATATT
27359797 TTTTATGTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 6 0.15
21 18 0.45
22 10 0.25
23 6 0.15
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (21 bp):
TATATATTATGTGCATATATA
Found at i:27359961 original size:25 final size:26
Alignment explanation
Indices: 27359924--27359981 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
27359914 AGTATTTCTA
27359924 ATATA-TATGGTATATGT-TCATTTTT
1 ATATATTATGGTATATGTATC-TTTTT
27359949 ATATATTAT-GTATATGTATCTTTTT
1 ATATATTATGGTATATGTATCTTTTT
27359974 A-ATATTAT
1 ATATATTAT
27359982 ATCTTTATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.23
25 19 0.61
26 5 0.16
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (26 bp):
ATATATTATGGTATATGTATCTTTTT
Found at i:27360109 original size:24 final size:24
Alignment explanation
Indices: 27360067--27360112 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
27360057 ATTTTTTTAC
*
27360067 TACATTATACATGTATTTTAATGT
1 TACATTATACATATATTTTAATGT
* *
27360091 TACATTATATATATTTTTTAAT
1 TACATTATACATATATTTTAAT
27360113 ATAGGTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (24 bp):
TACATTATACATATATTTTAATGT
Found at i:27362006 original size:26 final size:26
Alignment explanation
Indices: 27361969--27362052 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
27361959 TGATACAAAT
* *
27361969 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
27361995 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27362021 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27362047 TGATAA
1 TGATAA
27362053 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:27369057 original size:28 final size:26
Alignment explanation
Indices: 27369018--27369172 Score: 87
Period size: 28 Copynumber: 6.0 Consensus size: 26
27369008 TTATCATTGT
*
27369018 TATT-TTTTTTATTCTTACTATTATA
1 TATTATTTATTATTCTTACTATTATA
*
27369043 TATTATTGCTATTATTCTCACTGA-TATA
1 TATTATT--TATTATTCTTACT-ATTATA
* *
27369071 TGTTATTATCATTA-TCGTTACTATT-TT
1 TATTATT-T-ATTATTC-TTACTATTATA
*
27369098 TATTACTTTATTATTATTA-T-TTATA
1 TATTA-TTTATTATTCTTACTATTATA
* *
27369123 TA-TA-TTATTATTATTACTATTGTA
1 TATTATTTATTATTCTTACTATTATA
27369147 T-TTCACTGTTATTATT-TTACTATTAT
1 TATT-A-T-TTATTATTCTTACTATTAT
27369173 TTTTATATAC
Statistics
Matches: 102, Mismatches: 11, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
22 12 0.12
23 1 0.01
24 10 0.10
25 9 0.09
26 9 0.09
27 20 0.20
28 40 0.39
29 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTATTTATTATTCTTACTATTATA
Found at i:27369128 original size:13 final size:13
Alignment explanation
Indices: 27369092--27369148 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
27369082 TTATCGTTAC
*
27369092 TATTTTTATTACTT
1 TATTATTATTA-TT
27369106 TATTATTATTATT
1 TATTATTATTATT
27369119 TA-TATATATTA-T
1 TATTAT-TATTATT
*
27369131 TATTATTACTATT
1 TATTATTATTATT
27369144 GTATT
1 -TATT
27369149 TCACTGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 10 0.27
13 13 0.35
14 14 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:27371707 original size:67 final size:67
Alignment explanation
Indices: 27371589--27371717 Score: 186
Period size: 67 Copynumber: 1.9 Consensus size: 67
27371579 ATTTGAGAAA
* * * *
27371589 GAAACTATATTGCTTCGTGTAGGAATAGCAATTTCGGAATCGGAGTAATTTGCTTCATTATCAAA
1 GAAACTATATTGCTTCGTGTAGGAATAGCAATTCCAGAATCGGAATAATTTGCTTCACTATCAAA
27371654 CG
66 CG
* * * *
27371656 GAAACTATATTGCTTTGTGTAGGAATAGCAGTTCCAGAATCTGAATCATTTGCTTCACTATC
1 GAAACTATATTGCTTCGTGTAGGAATAGCAATTCCAGAATCGGAATAATTTGCTTCACTATC
27371718 TCTCTACATC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (67 bp):
GAAACTATATTGCTTCGTGTAGGAATAGCAATTCCAGAATCGGAATAATTTGCTTCACTATCAAA
CG
Found at i:27376157 original size:15 final size:17
Alignment explanation
Indices: 27376126--27376163 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
27376116 TTTTTTTAAT
27376126 ATAAATTTTATAATAAA
1 ATAAATTTTATAATAAA
27376143 A-AAATTTTA-AATAAA
1 ATAAATTTTATAATAAA
27376158 ATAAAT
1 ATAAAT
27376164 AAGTATGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAATTTTATAATAAA
Found at i:27376330 original size:22 final size:21
Alignment explanation
Indices: 27376284--27376334 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
27376274 TATCTTTCTT
*
27376284 TTAAAATTATCTAAAATAATA
1 TTAAAATTATATAAAATAATA
*
27376305 -TAAAATTTTATAACAATAATA
1 TTAAAATTATATAA-AATAATA
27376326 TTAAAATTA
1 TTAAAATTA
27376335 AAATATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.44
21 7 0.28
22 7 0.28
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAATTATATAAAATAATA
Found at i:27379277 original size:19 final size:21
Alignment explanation
Indices: 27379227--27379280 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 21
27379217 TTTTTAATAT
27379227 TTAAAATTA--AAAAAAATTA
1 TTAAAATTATTAAAAAAATTA
*
27379246 TTAACATTATTAAAAAAA-TA
1 TTAAAATTATTAAAAAAATTA
*
27379266 -TAAAATTTTTAAAAA
1 TTAAAATTATTAAAAA
27379281 TTTAAAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 21 0.70
20 2 0.07
21 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAAATTATTAAAAAAATTA
Found at i:27379843 original size:7 final size:7
Alignment explanation
Indices: 27379831--27379860 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
27379821 TGCAATACTC
27379831 AAATTTA
1 AAATTTA
27379838 AAATTTA
1 AAATTTA
27379845 AAATTTA
1 AAATTTA
27379852 AAATATTA
1 AAAT-TTA
27379860 A
1 A
27379861 TTTTTTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:27382859 original size:33 final size:33
Alignment explanation
Indices: 27382822--27382995 Score: 212
Period size: 33 Copynumber: 5.3 Consensus size: 33
27382812 CTTTACTTTT
* *
27382822 CTCACCTGCTTTTTTAATGGATTCACCTTCTCC
1 CTCACCTGCATTTTCAATGGATTCACCTTCTCC
*
27382855 CTCACCTGGATTTTCAATGGATTCACCTTCTCC
1 CTCACCTGCATTTTCAATGGATTCACCTTCTCC
*
27382888 CTCACCTGGATTTTCAATGGATTCACCCTTC-CC
1 CTCACCTGCATTTTCAATGGATTCA-CCTTCTCC
* * *
27382921 CTCACCTGC-TTTTGCAGTGGATTTACGTT-TCCC
1 CTCACCTGCATTTT-CAATGGATTCACCTTCT-CC
*
27382954 CTCACCTGGATTTTCAATGGATTCACCTT-TCCC
1 CTCACCTGCATTTTCAATGGATTCACCTTCT-CC
27382987 CTCACCTGC
1 CTCACCTGC
27382996 TGCTACAGGT
Statistics
Matches: 124, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
32 7 0.06
33 108 0.87
34 9 0.07
ACGTcount: A:0.16, C:0.34, G:0.13, T:0.37
Consensus pattern (33 bp):
CTCACCTGCATTTTCAATGGATTCACCTTCTCC
Found at i:27391221 original size:92 final size:92
Alignment explanation
Indices: 27391064--27391259 Score: 275
Period size: 92 Copynumber: 2.1 Consensus size: 92
27391054 TTTGACATGA
* * * * *
27391064 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTACCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTACCATGGTATCTTTCAAC
** *
27391129 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTACACATTTCATATCACGC
* * *
27391156 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTACCATGGTATCTTTCAAC
* *
27391221 CATGGTCTTACACGTTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCACGC
27391248 TGCCATGGTATC
1 TGCCATGGTATC
27391260 ACACGTTTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTACCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGC
Found at i:27391252 original size:46 final size:46
Alignment explanation
Indices: 27391064--27391259 Score: 223
Period size: 46 Copynumber: 4.3 Consensus size: 46
27391054 TTTGACATGA
* * * * * *
27391064 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGC
*
27391110 TACCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
* ** * *
27391156 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
** * * *
27391202 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
27391248 TGCCATGGTATC
1 TGCCATGGTATC
27391260 ACACGTTTCA
Statistics
Matches: 127, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
45 4 0.03
46 123 0.97
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
Found at i:27391256 original size:30 final size:30
Alignment explanation
Indices: 27391220--27391289 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
27391210 TATCTTTCAA
* *
27391220 CCATGGTCTTACACGTTTCATATCAGGCTG
1 CCATGGTATCACACGTTTCATATCAGGCTG
27391250 CCATGGTATCACACGTTTCATATCAGGCTG
1 CCATGGTATCACACGTTTCATATCAGGCTG
27391280 CCATGGTATC
1 CCATGGTATC
27391290 TTTCAACCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (30 bp):
CCATGGTATCACACGTTTCATATCAGGCTG
Found at i:27391300 original size:46 final size:46
Alignment explanation
Indices: 27391250--27391367 Score: 200
Period size: 46 Copynumber: 2.6 Consensus size: 46
27391240 TATCAGGCTG
* * *
27391250 CCATGGTATCACACGTTTCATATCAGGCTGCCATGGTATCTTTCAA
1 CCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
*
27391296 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
27391342 CCATGGTCTTACACATTTCATATCAG
1 CCATGGTCTTACACATTTCATATCAG
27391368 AAAGCACACT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (46 bp):
CCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
Found at i:27391302 original size:122 final size:122
Alignment explanation
Indices: 27391143--27391367 Score: 360
Period size: 122 Copynumber: 1.8 Consensus size: 122
27391133 GTCTTATTCA
* *** * * *
27391143 TTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCAT
1 TTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGCCAT
*
27391208 GGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCACACG
66 GGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCACACG
* *
27391265 TTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCAT
1 TTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGCCAT
27391330 GGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
66 GGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
27391368 AAAGCACACT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
122 93 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (122 bp):
TTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGCCAT
GGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCACACG
Found at i:27393542 original size:18 final size:20
Alignment explanation
Indices: 27393527--27393563 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27393517 TAATAATAAA
*
27393527 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
27393547 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
27393564 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:27396077 original size:13 final size:13
Alignment explanation
Indices: 27396059--27396083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27396049 TATAAACACC
27396059 AAAAATATTTTTG
1 AAAAATATTTTTG
27396072 AAAAATATTTTT
1 AAAAATATTTTT
27396084 CTAACTCGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
AAAAATATTTTTG
Found at i:27396278 original size:21 final size:21
Alignment explanation
Indices: 27396253--27396300 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
27396243 GGTTTTAAGG
27396253 TTAGGGTTTTACTAAAATAAT
1 TTAGGGTTTTACTAAAATAAT
* **
27396274 TTAGGTTTTTGTTAAAATAAT
1 TTAGGGTTTTACTAAAATAAT
27396295 TTAGGG
1 TTAGGG
27396301 CTAAGAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTTACTAAAATAAT
Found at i:27397111 original size:128 final size:126
Alignment explanation
Indices: 27396834--27397140 Score: 382
Period size: 128 Copynumber: 2.4 Consensus size: 126
27396824 AACGGATAAC
* * * * ** *
27396834 CGAAACCCAGCACGGTAGAGCACGATTCCTCAAACTTCCAAATATTGAACATTGCCTTGTTTTAG
1 CGAAACCCAGCACGGTAG-GCACGATTCCCCGAATTTCCAAACATCAAACATCGCCTTGTTTTAG
* * * * * *
27396899 AATTTAAAGAATACGAATGAAATTCTAAAGGAATATTTGATTATTTTGAACAAACGAGAAAT
65 AATTTAAAAAACACCAATAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGAGAAAT
* *
27396961 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAGCATCAAACATCGCCTTGTTTTAG
1 CGAAACCCAGCACGGTA-GGCACGATTCCCCGAATTTCCAAACATCAAACATCGCCTTGTTTTAG
* * *
27397026 AATTTAGAAAAACACCAGTAAAATTCTAAAGGAAGGTTCGATTATTTTGAGCAAAC-AGGAAAT
65 AATTTA-AAAAACACCAATAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGA-GAAAT
* *
27397089 CGAAACCCAACACGGTTAGGCACGATTTCCCGAATTTCCAAACATCAAACAT
1 CGAAACCCAGCACGG-TAGGCACGATTCCCCGAATTTCCAAACATCAAACAT
27397141 TACCTTCGTT
Statistics
Matches: 154, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
127 61 0.40
128 91 0.59
129 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (126 bp):
CGAAACCCAGCACGGTAGGCACGATTCCCCGAATTTCCAAACATCAAACATCGCCTTGTTTTAGA
ATTTAAAAAACACCAATAAAATTCTAAAGGAAGATTCGATTATTTTGAACAAACGAGAAAT
Found at i:27398331 original size:22 final size:22
Alignment explanation
Indices: 27398281--27398331 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
27398271 CCATTAAAAA
27398281 ACTTAACATAAAAGTAAATAAAC
1 ACTTAA-ATAAAAGTAAATAAAC
*
27398304 A-ATAAATAAAAAGT-AATAAAC
1 ACTTAAAT-AAAAGTAAATAAAC
27398325 ACTTAAA
1 ACTTAAA
27398332 AATGCCAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 10 0.42
22 13 0.54
23 1 0.04
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.22
Consensus pattern (22 bp):
ACTTAAATAAAAGTAAATAAAC
Found at i:27402693 original size:14 final size:14
Alignment explanation
Indices: 27402670--27402699 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27402660 TTGAAAATAT
27402670 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
27402684 GTTGATTTGGATTG
1 GTTGAATTGGATTG
27402698 GT
1 GT
27402700 CTTGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:27403571 original size:38 final size:41
Alignment explanation
Indices: 27403484--27403571 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 41
27403474 CACTTTCTTT
27403484 TAAAAATCACTAAAACTCTTAACCCTAAATCTTAATTTTTTTAA
1 TAAAAATCACTAAAACTCTTAACCCTAAA-CTTAA--TTTTTAA
*
27403528 AAAAAATCACTAAAACTCTTAACCCTAAA-TT-A-TTTTAA
1 TAAAAATCACTAAAACTCTTAACCCTAAACTTAATTTTTAA
27403566 TAAAAA
1 TAAAAA
27403572 CTTAAATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
38 11 0.26
41 1 0.02
42 2 0.05
44 28 0.67
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (41 bp):
TAAAAATCACTAAAACTCTTAACCCTAAACTTAATTTTTAA
Found at i:27403591 original size:21 final size:21
Alignment explanation
Indices: 27403553--27403597 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27403543 CTCTTAACCC
*
27403553 TAAATTATTTTAATAAAAACT
1 TAAATTATTTTAACAAAAACT
* *
27403574 TAAATTATTTTAGCAAAATCT
1 TAAATTATTTTAACAAAAACT
27403595 TAA
1 TAA
27403598 CCCTATAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAATTATTTTAACAAAAACT
Found at i:27404333 original size:11 final size:11
Alignment explanation
Indices: 27404317--27404348 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
27404307 TGAGATTAGA
27404317 TACTGTAGCGG
1 TACTGTAGCGG
27404328 TACTGTAGCGG
1 TACTGTAGCGG
27404339 TACTGTAGCG
1 TACTGTAGCG
27404349 TGAGACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (11 bp):
TACTGTAGCGG
Found at i:27407478 original size:91 final size:91
Alignment explanation
Indices: 27407314--27407487 Score: 269
Period size: 91 Copynumber: 1.9 Consensus size: 91
27407304 TGGGAGATGC
* **
27407314 ATGCCTAAAGCAACGTTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAGACGACACTTTTGTGGTG
1 ATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAGACGACACTTTTGTGACG
27407379 ACATTTTCCTAAGGGTTGATATATGT
66 ACATTTTCCTAAGGGTTGATATATGT
* **
27407405 ATGCCTAAAGCAACGCTTGAATAAGAGTTAGTTTTTGTGTAGTCCTAAGACGACACTTTTGTGAC
1 ATGCCTAAAGCAACGCTTAAATAAGAGTT-GCCTTTGTGTAGTCCTAAGACGACACTTTTGTGAC
*
27407470 GACA-TTTCCTAAGTGTTG
65 GACATTTTCCTAAGGGTTG
27407488 GGATAGACTA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
91 40 0.53
92 35 0.47
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (91 bp):
ATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAGACGACACTTTTGTGACG
ACATTTTCCTAAGGGTTGATATATGT
Found at i:27407500 original size:92 final size:91
Alignment explanation
Indices: 27407297--27407500 Score: 252
Period size: 91 Copynumber: 2.2 Consensus size: 91
27407287 AATCTTTGTA
** *
27407297 TAAGGGTTGGGAGATGC-ATGCCTAAAGCAACGTTTAAATAAGAGTTGCCTTTGTGTAGTCCTAA
1 TAAGGGTTGATAGAT-CTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAA
**
27407361 GACGACACTTTTGTGGTGACATTTTCC
65 GACGACACTTTTGTGACGACATTTTCC
* * * **
27407388 TAAGGGTTGATATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTAGTTTTTGTGTAGTCCTAA
1 TAAGGGTTGATAGATCTATGCCTAAAGCAACGCTTAAATAAGAGTT-GCCTTTGTGTAGTCCTAA
27407453 GACGACACTTTTGTGACGACA-TTTCC
65 GACGACACTTTTGTGACGACATTTTCC
*
27407479 TAAGTGTTGGGATAGA-CTATGC
1 TAAGGGTT--GATAGATCTATGC
27407501 TTTGGCCAAC
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
91 51 0.53
92 40 0.42
93 5 0.05
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (91 bp):
TAAGGGTTGATAGATCTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTGTGTAGTCCTAAG
ACGACACTTTTGTGACGACATTTTCC
Found at i:27409081 original size:99 final size:104
Alignment explanation
Indices: 27408917--27409165 Score: 348
Period size: 99 Copynumber: 2.4 Consensus size: 104
27408907 TGATAATAAC
**
27408917 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
27408982 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
27409019 -TGCCAACGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
27409081 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
27409123 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27409166 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
98 1 0.01
99 50 0.38
100 22 0.17
101 13 0.10
102 3 0.02
103 1 0.01
104 2 0.02
105 13 0.10
106 26 0.20
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:27409108 original size:50 final size:50
Alignment explanation
Indices: 27408918--27409165 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
27408908 GATAATAACA
* ** *
27408918 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * * *
27408969 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
27409019 TGCCAACGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
27409068 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
27409123 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27409166 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
49 45 0.27
50 46 0.27
51 33 0.20
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:27409281 original size:13 final size:13
Alignment explanation
Indices: 27409260--27409291 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27409250 GCTTGGATCA
*
27409260 TCATCAAATAAAT
1 TCATAAAATAAAT
27409273 TCATAAAATAAAT
1 TCATAAAATAAAT
27409286 TCATAA
1 TCATAA
27409292 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:27409538 original size:30 final size:30
Alignment explanation
Indices: 27409503--27409560 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27409493 CCTCGACTCT
*
27409503 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
27409533 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
27409561 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:27410626 original size:132 final size:132
Alignment explanation
Indices: 27410374--27410778 Score: 595
Period size: 132 Copynumber: 3.2 Consensus size: 132
27410364 GGGCCATTAC
*
27410374 ACACTTCCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATG
1 ACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATG
* * *
27410439 TATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTTGTCTTAAGACGACACTTTTGTGG
66 TATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACACTTTTGTGG
27410504 CG
131 CG
*
27410506 ACACTTTCCTAAGTGTTGGTATAGACTATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATG
1 ACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATG
*
27410571 TATGCCTAAGGCAATGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCT------A-A-------GG
66 TATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACACTTTTGTGG
27410622 CG
131 CG
* * *
27410624 ACACTTTTCTAAGTGTTGGGATAGACTACGTTTTGGCCAACTCTTTGTATAAGGGTTGGGATATG
1 ACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATG
* * *
27410689 TATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACAGTTTTGGGG
66 TATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACACTTTTGTGG
27410754 CG
131 CG
*
27410756 ACACTTTTCTAAGTGTTGGGATA
1 ACACTTTCCTAAGTGTTGGGATA
27410779 CACTTGTCAG
Statistics
Matches: 247, Mismatches: 12, Indels: 28
0.86 0.04 0.10
Matches are distributed among these distances:
118 110 0.45
124 1 0.00
125 2 0.01
126 1 0.00
132 133 0.54
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (132 bp):
ACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATG
TATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACACTTTTGTGG
CG
Found at i:27410710 original size:118 final size:118
Alignment explanation
Indices: 27410502--27410749 Score: 424
Period size: 118 Copynumber: 2.1 Consensus size: 118
27410492 ACACTTTTGT
* * *
27410502 GGCGACACTTTCCTAAGTGTTGGTATAGACTATGCTTTGGCCAACTCTTTGTATAAGGGTTGGGA
1 GGCGACACTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTGTATAAGGGTTGGGA
* *
27410567 TATGTATGCCTAAGGCAATGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
66 TATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
27410620 GGCGACACTTTTCTAAGTGTTGGGATAGACTACGTTTTGGCCAACTCTTTGTATAAGGGTTGGGA
1 GGCGACACTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTGTATAAGGGTTGGGA
27410685 TATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
66 TATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* *
27410738 GACGACAGTTTT
1 GGCGACACTTTT
27410750 GGGGCGACAC
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 122 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (118 bp):
GGCGACACTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTGTATAAGGGTTGGGA
TATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
Found at i:27411104 original size:22 final size:22
Alignment explanation
Indices: 27411078--27411151 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
27411068 AGTTTATATA
* *
27411078 GTTTAAGGTTTTAGGGTTTTGT
1 GTTTATGGATTTAGGGTTTTGT
* *
27411100 GTTTATGGGTTTAGGGTTTTAT
1 GTTTATGGATTTAGGGTTTTGT
* *
27411122 GATTATGGATTTGGGGTTTTGT
1 GTTTATGGATTTAGGGTTTTGT
*
27411144 GATTATGG
1 GTTTATGG
27411152 GTTTGCGATT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (22 bp):
GTTTATGGATTTAGGGTTTTGT
Found at i:27411156 original size:22 final size:22
Alignment explanation
Indices: 27411091--27411156 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
27411081 TAAGGTTTTA
* *
27411091 GGGTTTTGTGTTTATGGGTTTA
1 GGGTTTTGTGATTATGGGTTTG
* *
27411113 GGGTTTTATGATTATGGATTTG
1 GGGTTTTGTGATTATGGGTTTG
27411135 GGGTTTTGTGATTATGGGTTTG
1 GGGTTTTGTGATTATGGGTTTG
27411157 CGATTAATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (22 bp):
GGGTTTTGTGATTATGGGTTTG
Found at i:27414381 original size:7 final size:6
Alignment explanation
Indices: 27414346--27414389 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
27414336 TTCAATCTTT
*
27414346 ATTTTA ATTTTA ATTTTA ATTTTGT ATTTTAA ATTTTAA ATTTT
1 ATTTTA ATTTTA ATTTTA ATTTT-A ATTTT-A ATTTT-A ATTTT
27414390 TTTAGTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 17 0.50
7 17 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (6 bp):
ATTTTA
Found at i:27414616 original size:73 final size:73
Alignment explanation
Indices: 27414497--27414883 Score: 349
Period size: 73 Copynumber: 5.3 Consensus size: 73
27414487 TATTATACGT
* * * *
27414497 GTCTATCCCAACCTTTTTAAAGTTGCTTTAAACAGGTCTATCCCAACCTTTTTTAAAAGTTACCT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAACAGCTCTATCCCAACCTTTTTTAAAAGTTTCCT
27414562 TAAACATG
66 TAAACATG
* * *
27414570 GTCTATCCCAACCTTTTTAAGGTTACCTTAAACGAG-TCTATTCCAACCTTTTTTAAAGGTTTCC
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAAC-AGCTCTATCCCAACCTTTTTTAAAAGTTTCC
*
27414634 TTAGACATG
65 TTAAACATG
* * * * * *
27414643 GTCTATCCTAACCTGTTTAAGGTTGCCTTAGACAGCTCTATCCCAACATTTTTTTATAGGTTGT-
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAACAGCTCTATCCCAAC-CTTTTTTAAAAGTT-TC
*
27414707 TTTAGAGA-AT-
64 CTTA-A-ACATG
* * *
27414717 GT-TGATCCCAACCTTTTTAAGGTTGCTTTAGACAGCTCTATCCCAACCGTTTTTAAAAGTTTCC
1 GTCT-ATCCCAACCTTTTTAAGGTTGCCTTAAACAGCTCTATCCCAACCTTTTTTAAAAGTTTCC
*
27414781 TTAAACAAG
65 TTAAACATG
** ** * * * * * * * *
27414790 AACTATATCGACCTTTTTAAGGTTGTCTTAGACAGGTTTATCACAACCTTTTTCAAAGGTTGGT-
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAACAGCTCTATCCCAACCTTTTTTAAAAGTT--TC
27414854 CTT-AAC-TAG
64 CTTAAACAT-G
27414863 GTCTATCCCAACCCTTTTTAA
1 GTCTATCCCAA-CCTTTTTAA
27414884 AGGTCGGCAT
Statistics
Matches: 255, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
71 1 0.00
72 5 0.02
73 172 0.67
74 72 0.28
75 4 0.02
76 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (73 bp):
GTCTATCCCAACCTTTTTAAGGTTGCCTTAAACAGCTCTATCCCAACCTTTTTTAAAAGTTTCCT
TAAACATG
Found at i:27414879 original size:147 final size:143
Alignment explanation
Indices: 27414499--27414883 Score: 371
Period size: 147 Copynumber: 2.6 Consensus size: 143
27414489 TTATACGTGT
* * * * **
27414499 CTATCCCAACCTTTTTAAAGTTGCTTTAAACAGGTCTATCCCAACCTTTTTTAAAAGTTACCTTA
1 CTATCCTAACCTTTTTAAGGTTGC-TTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGTCTT-
* * *
27414564 AACATGGTCTATCCCAACCTTTTTAAGGTTACCTTAAACGAGTCTATTCCAACCTTTTTTAAAGG
64 AACA-GGTCTATCCCAACCTTTTTAAGGTTACCTTAAACGAGTCTATCCCAACCGTTTTTAAAAG
* * **
27414629 TTTCCTTAGACATGGT
128 TTTCCTTAAACAAGAA
* * * * *
27414645 CTATCCTAACCTGTTTAAGGTTGCCTTAGACAGCTCTATCCCAACATTTTTTTATAGGTTGTTTT
1 CTATCCTAACCTTTTTAAGGTTG-CTTAGACAGGTCTATCCCAAC-CTTTTTTAAAGGTTGTCTT
* * * * *
27414710 AGAGAATGT-TGATCCCAACCTTTTTAAGGTTGCTTTAGAC-AGCTCTATCCCAACCGTTTTTAA
64 A-A-CAGGTCT-ATCCCAACCTTTTTAAGGTTACCTTAAACGAG-TCTATCCCAACCGTTTTTAA
27414773 AAGTTTCCTTAAACAAGAA
125 AAGTTTCCTTAAACAAGAA
* * * * *
27414792 CTAT-ATCGACCTTTTTAAGGTTGTCTTAGACAGGTTTATCACAACCTTTTTCAAAGGTTGGTCT
1 CTATCCT-AACCTTTTTAAGGTTG-CTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTT-GTCT
27414856 TAACTAGGTCTATCCCAACCCTTTTTAA
63 TAAC-AGGTCTATCCCAA-CCTTTTTAA
27414884 AGGTCGGCAT
Statistics
Matches: 192, Mismatches: 36, Indels: 21
0.77 0.14 0.08
Matches are distributed among these distances:
146 65 0.34
147 126 0.66
148 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (143 bp):
CTATCCTAACCTTTTTAAGGTTGCTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTGTCTTAA
CAGGTCTATCCCAACCTTTTTAAGGTTACCTTAAACGAGTCTATCCCAACCGTTTTTAAAAGTTT
CCTTAAACAAGAA
Found at i:27419357 original size:32 final size:32
Alignment explanation
Indices: 27419321--27419382 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
27419311 TCAATGACAT
* * * *
27419321 AAATAAAAACTTTTGTATAGTTTAGTGACTTA
1 AAATAAAAAATTTCGAATAGTTCAGTGACTTA
27419353 AAATAAAAAATTTCGAATAGTTCAGTGACT
1 AAATAAAAAATTTCGAATAGTTCAGTGACT
27419383 ATTTTGTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (32 bp):
AAATAAAAAATTTCGAATAGTTCAGTGACTTA
Found at i:27425050 original size:126 final size:126
Alignment explanation
Indices: 27424816--27425047 Score: 338
Period size: 126 Copynumber: 1.8 Consensus size: 126
27424806 TTCCAAATAC
* * *
27424816 TAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAAAATCA
1 TAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTCTGTATTCTAGTCGAATGAAAAATCA
* *
27424881 AAACCCAGCATGATTGGGCACGATCTCCCAAATCCCCAAAACACAAAATATTGCCTCGTTT
66 AAACCCAGCACGATTAGGCACGATCTCCCAAATCCCCAAAACACAAAATATTGCCTCGTTT
* * * * *
27424942 TAATTTAAGAAAACATAGACGAAATTTCACAAGGATATTTTGTATTCTAGTCGATTGAGAAATCG
1 TAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTCTGTATTCTAGTCGAATGAAAAATCA
* * *
27425007 AAACCCAGCACGATTAGGTACGATCTCTCAAACCTCCCAAA
66 AAACCCAGCACGATTAGGCACGATCTCCCAAATC-CCCAAA
27425048 CACGGAAGAT
Statistics
Matches: 92, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
126 86 0.93
127 6 0.07
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (126 bp):
TAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTCTGTATTCTAGTCGAATGAAAAATCA
AAACCCAGCACGATTAGGCACGATCTCCCAAATCCCCAAAACACAAAATATTGCCTCGTTT
Found at i:27427535 original size:21 final size:20
Alignment explanation
Indices: 27427509--27427560 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
27427499 ATACATGCAG
27427509 TATTTATAAATTTCGTAATGA
1 TATTTATAAATTTCGT-ATGA
* * **
27427530 TATTTA-AATTTTTGTATTT
1 TATTTATAAATTTCGTATGA
27427549 TATTTATAAATT
1 TATTTATAAATT
27427561 ATACGGTAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 8 0.32
20 11 0.44
21 6 0.24
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
TATTTATAAATTTCGTATGA
Found at i:27432100 original size:5 final size:5
Alignment explanation
Indices: 27432090--27432114 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27432080 TTTTAATGCC
27432090 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
27432115 CTATGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:27432953 original size:21 final size:23
Alignment explanation
Indices: 27432929--27432981 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
27432919 TCTTAATGAA
27432929 AAATTAAATATATA-T-ATATAT
1 AAATTAAATATATATTCATATAT
*
27432950 AAATTCAATATATATTCATATAT
1 AAATTAAATATATATTCATATAT
27432973 ATAATTAAA
1 A-AATTAAA
27432982 AAAGTTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 13 0.48
22 1 0.04
23 7 0.26
24 6 0.22
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATTAAATATATATTCATATAT
Found at i:27433320 original size:33 final size:34
Alignment explanation
Indices: 27433256--27433320 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 34
27433246 TTCAAAATTC
* * *
27433256 AACATTTTATGTAACAATTACAAATTTTAAAACTA
1 AACATTTTATATAACAA-TACAAAATATAAAACTA
*
27433291 AACATTTTATATGACAA-ACAAAATATAAAA
1 AACATTTTATATAACAATACAAAATATAAAA
27433321 AAAACTTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 11 0.42
35 15 0.58
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (34 bp):
AACATTTTATATAACAATACAAAATATAAAACTA
Found at i:27433402 original size:19 final size:18
Alignment explanation
Indices: 27433359--27433402 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
27433349 AAAATATAAA
27433359 TTCAAAAAATTTTAAAAT
1 TTCAAAAAATTTTAAAAT
* *
27433377 TTCCAAAACATTTTGAAAGT
1 TT-CAAAAAATTTT-AAAAT
27433397 TTCAAA
1 TTCAAA
27433403 TTAAAAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 6 0.27
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (18 bp):
TTCAAAAAATTTTAAAAT
Found at i:27435689 original size:88 final size:89
Alignment explanation
Indices: 27435575--27435795 Score: 331
Period size: 89 Copynumber: 2.5 Consensus size: 89
27435565 CTTAATGGTG
* * *
27435575 CAAAAAGATCTCTCAAACTTTTTCAAAAAGAGCAATTAAGCTCCTA-TTTTTTTTTCACTCATTT
1 CAAAAAG-TCTCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTACTTTTTTTTGCACTCAATT
27435639 GAATACTTGAACTTTCAAAATGCAT
65 GAATACTTGAACTTTCAAAATGCAT
* *
27435664 CAAAAAAGTC-CTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTGCGCTCAATT
1 C-AAAAAGTCTCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTACTTTTTTTTGCACTCAATT
**
27435728 GGGTACTTGAACTTTCAAAATGCAT
65 GAATACTTGAACTTTCAAAATGCAT
*
27435753 CAAAAAGACTCTCAAACTTTTTCAAAAAAAGCAATTAAG-TCCT
1 CAAAAAGTCTCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCT
27435796 TGCTTTTAGT
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
88 43 0.36
89 71 0.59
90 6 0.05
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (89 bp):
CAAAAAGTCTCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTACTTTTTTTTGCACTCAATTG
AATACTTGAACTTTCAAAATGCAT
Found at i:27435831 original size:9 final size:9
Alignment explanation
Indices: 27435819--27435999 Score: 59
Period size: 10 Copynumber: 19.4 Consensus size: 9
27435809 AATTAGAAAA
27435819 AAAAATTAT
1 AAAAATTAT
27435828 AAAAA--AT
1 AAAAATTAT
* *
27435835 TAAAATCAAT
1 AAAAAT-TAT
**
27435845 AAAAGCTAT
1 AAAAATTAT
*
27435854 AAATATTATT
1 AAAAATTA-T
**
27435864 AAATTTTAAT
1 AAAAATT-AT
*
27435874 AAAAAAT-T
1 AAAAATTAT
*
27435882 AAATATTA-
1 AAAAATTAT
27435890 AAAAATTATT
1 AAAAATTA-T
27435900 AAAAA-TAT
1 AAAAATTAT
**
27435908 AAAAATCGT
1 AAAAATTAT
*
27435917 AAAAATATAAAA
1 AAAAAT-T--AT
*
27435929 AAAAATTGT
1 AAAAATTAT
*
27435938 AAAATTTTAT
1 AAAA-ATTAT
*
27435948 AAAAATTGT
1 AAAAATTAT
27435957 AAAAAATTAT
1 -AAAAATTAT
27435967 -AAAATATAT
1 AAAAAT-TAT
* *
27435976 AGATATATAT
1 AAAAAT-TAT
27435986 AAAAAATTAT
1 -AAAAATTAT
27435996 AAAA
1 AAAA
27436000 TTTTATAAAG
Statistics
Matches: 124, Mismatches: 31, Indels: 34
0.66 0.16 0.18
Matches are distributed among these distances:
7 6 0.05
8 24 0.19
9 35 0.28
10 47 0.38
11 6 0.05
12 6 0.05
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:27435900 original size:18 final size:18
Alignment explanation
Indices: 27435858--27435912 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
27435848 AGCTATAAAT
*
27435858 ATTATTAAATTTTAATAAA
1 ATTATTAAATATTAA-AAA
*
27435877 A-AATTAAATATTAAAAA
1 ATTATTAAATATTAAAAA
*
27435894 ATTATTAAAAATATAAAAA
1 ATTATTAAATAT-TAAAAA
27435913 TCGTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 4 0.13
18 19 0.63
19 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTATTAAATATTAAAAA
Found at i:27435953 original size:19 final size:19
Alignment explanation
Indices: 27435886--27436058 Score: 79
Period size: 19 Copynumber: 9.1 Consensus size: 19
27435876 AAAATTAAAT
* *
27435886 ATTA-AAAAATTATTAAAA
1 ATTATAAAAATTGTAAAAA
*
27435904 A-TATAAAAATCGTAAAAA
1 ATTATAAAAATTGTAAAAA
* * *
27435922 TATAAAAAAAAATTGTAAAAT
1 -AT-TATAAAAATTGTAAAAA
*
27435943 TTTATAAAAATTGTAAAAA
1 ATTATAAAAATTGTAAAAA
* * *
27435962 ATTAT-AAAA-TATATAGAT
1 ATTATAAAAATTGTA-AAAA
* *
27435980 ATATATAAAAAAT-TATAAA
1 AT-TATAAAAATTGTAAAAA
* *
27435999 ATTTTATAAAGTTGTAAGAAA
1 ATTATA-AAAATTGTAA-AAA
*
27436020 ATTATACAAAA-AGTAAAAA
1 ATTATA-AAAATTGTAAAAA
* **
27436039 AATATAAATTTTGTAAAAA
1 ATTATAAAAATTGTAAAAA
27436058 A
1 A
27436059 GAAAAAGAAA
Statistics
Matches: 113, Mismatches: 30, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
17 5 0.04
18 25 0.22
19 45 0.40
20 13 0.12
21 25 0.22
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTATAAAAATTGTAAAAA
Found at i:27435960 original size:29 final size:29
Alignment explanation
Indices: 27435928--27436025 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
27435918 AAAATATAAA
*
27435928 AAAAAATTGTAAAATTTTATAAAAATTGT
1 AAAAAATTATAAAATTTTATAAAAATTGT
* * * *
27435957 AAAAAATTATAAAA-TATATAGATATATAT
1 AAAAAATTATAAAATTTTATAAAAAT-TGT
*
27435986 AAAAAATTATAAAATTTTAT-AAAGTTGT
1 AAAAAATTATAAAATTTTATAAAAATTGT
27436014 AAGAAAATTATA
1 AA-AAAATTATA
27436026 CAAAAAGTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 12 0.21
29 40 0.71
30 4 0.07
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (29 bp):
AAAAAATTATAAAATTTTATAAAAATTGT
Found at i:27435996 original size:10 final size:10
Alignment explanation
Indices: 27435888--27436046 Score: 66
Period size: 10 Copynumber: 16.4 Consensus size: 10
27435878 AATTAAATAT
27435888 TAAAAAATTA
1 TAAAAAATTA
*
27435898 TTAAAAA-TA
1 TAAAAAATTA
**
27435907 T-AAAAATCG
1 TAAAAAATTA
*
27435916 TAAAAATATAA
1 TAAAAA-ATTA
* *
27435927 AAAAAAATTG
1 TAAAAAATTA
**
27435937 TAAAATTTTA
1 TAAAAAATTA
*
27435947 T-AAAAATTG
1 TAAAAAATTA
27435956 TAAAAAATTA
1 TAAAAAATTA
*
27435966 TAAAATA-TA
1 TAAAAAATTA
* *
27435975 T-AGATATATA
1 TAAAAAAT-TA
27435985 TAAAAAATTA
1 TAAAAAATTA
*
27435995 T--AAAATTT
1 TAAAAAATTA
* * *
27436003 TATAAAGTTG
1 TAAAAAATTA
27436013 TAAGAAAATTA
1 TAA-AAAATTA
*
27436024 TACAAAAAGTA
1 TA-AAAAATTA
27436035 -AAAAAA-TA
1 TAAAAAATTA
27436043 TAAA
1 TAAA
27436047 TTTTGTAAAA
Statistics
Matches: 110, Mismatches: 27, Indels: 25
0.68 0.17 0.15
Matches are distributed among these distances:
8 18 0.16
9 21 0.19
10 46 0.42
11 24 0.22
12 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:27436044 original size:58 final size:58
Alignment explanation
Indices: 27435928--27436046 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 58
27435918 AAAATATAAA
* * * *
27435928 AAAAAATTGTAAAATTTTATAAAAATTGTAAAAAATTATAAAATATATAGATATATAT
1 AAAAAATTATAAAATTTTATAAAAATTGTAAAAAATTATAAAATATATAAAAAAATAT
*
27435986 AAAAAATTATAAAATTTTAT-AAAGTTGTAAGAAAATTATACAAA-A-AGTAAAAAAATAT
1 AAAAAATTATAAAATTTTATAAAAATTGTAA-AAAATTATA-AAATATA-TAAAAAAATAT
27436044 AAA
1 AAA
27436047 TTTTGTAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
57 10 0.19
58 40 0.75
59 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (58 bp):
AAAAAATTATAAAATTTTATAAAAATTGTAAAAAATTATAAAATATATAAAAAAATAT
Found at i:27436249 original size:29 final size:28
Alignment explanation
Indices: 27436203--27436257 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
27436193 TTAGAGGTCA
**
27436203 TTAATTTTTTTATGATTTTTATAAAATT
1 TTAATTTTTTTACAATTTTTATAAAATT
27436231 TTAATTTTTTTTACAATTTTTATAAAA
1 TTAA-TTTTTTTACAATTTTTATAAAA
27436258 AAATTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTAATTTTTTTACAATTTTTATAAAATT
Found at i:27436270 original size:19 final size:19
Alignment explanation
Indices: 27436248--27436291 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
27436238 TTTTTACAAT
27436248 TTTTATAAAAAAATTAT-AA
1 TTTT-TAAAAAAATTATAAA
* *
27436267 TTTTTAATAAATTTATAAA
1 TTTTTAAAAAAATTATAAA
27436286 TTTTTA
1 TTTTTA
27436292 TATTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTTAAAAAAATTATAAA
Found at i:27436284 original size:18 final size:18
Alignment explanation
Indices: 27436261--27436317 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
27436251 TATAAAAAAA
27436261 TTATAATTTTTAATAAAT
1 TTATAATTTTTAATAAAT
*
27436279 TTATAAATTTTT-AT-ATT
1 TTAT-AATTTTTAATAAAT
**
27436296 TTATTAAAATTTAATAAAT
1 TTA-TAATTTTTAATAAAT
27436315 TTA
1 TTA
27436318 CTAAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 10 0.32
18 9 0.29
19 12 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATAATTTTTAATAAAT
Found at i:27436317 original size:19 final size:18
Alignment explanation
Indices: 27436269--27436327 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
27436259 AATTATAATT
*
27436269 TTTAATAAATTTATAAAT
1 TTTAATAAATTTATAAAA
* *
27436287 TTTTAT-ATTTTATTAAAA
1 TTTAATAAATTTA-TAAAA
27436305 TTTAATAAATTTACTAAAA
1 TTTAATAAATTTA-TAAAA
27436324 TTTA
1 TTTA
27436328 TTATTTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 5 0.15
18 14 0.42
19 14 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATAAATTTATAAAA
Found at i:27437620 original size:264 final size:264
Alignment explanation
Indices: 27437150--27437678 Score: 941
Period size: 264 Copynumber: 2.0 Consensus size: 264
27437140 ATTTTGATTA
27437150 TCAGATTAGTCGTCAATGGGATCGCTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
1 TCAGATTAGTCGTCAATGGGATCGCTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
* * *
27437215 ACCGCGATTTGTCCGCCGGTATTGTGTTTGCTTCCAGTGTTGCATTGGTTTGGGGAGATTTGAAA
66 ACCCCGATTTGTCCGCCGGTATTGTGTTTGCTTCCAGCGTTGCATTGGTTTGGGGAGACTTGAAA
* * *
27437280 GAGAGATTCAATAAGATCGATGGGGCGAGGATTTTTTACTTGCTTAGAGAGATTGCCACGGCAAG
131 GAGAGATTCAATAAAATCAATGGGGCGAGGATTTTTTACTTGCATAGAGAGATTGCCACGGCAAG
27437345 TCAGGGTGATTCTTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATAAGCATAGTG
196 TCAGGGTGATTCTTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATAAGCATAGTG
27437410 CTCT
261 CTCT
*
27437414 TCAGATTAGTCGTCAATGGGATCGTTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
1 TCAGATTAGTCGTCAATGGGATCGCTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
* * * *
27437479 TCCCCGATTTGTCCGCCGGTGTTGTGTTTGCTTCTAGCGTTGCATTGGTTTGGGGAGACTTGAAG
66 ACCCCGATTTGTCCGCCGGTATTGTGTTTGCTTCCAGCGTTGCATTGGTTTGGGGAGACTTGAAA
*
27437544 GAGAGATTCAATAAAATCAATGGGGCGAGGATTTTTTACTTGCATAGAGAGATTGCTACGGCAAG
131 GAGAGATTCAATAAAATCAATGGGGCGAGGATTTTTTACTTGCATAGAGAGATTGCCACGGCAAG
*
27437609 TCAGGGTGATTCTTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATGAGCATAGTG
196 TCAGGGTGATTCTTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATAAGCATAGTG
27437674 CTCT
261 CTCT
27437678 T
1 T
27437679 GTGCCCTATA
Statistics
Matches: 252, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
264 252 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (264 bp):
TCAGATTAGTCGTCAATGGGATCGCTGTAATGCTTTAGTCTTGTCTTGGATCATCAATACCGTGA
ACCCCGATTTGTCCGCCGGTATTGTGTTTGCTTCCAGCGTTGCATTGGTTTGGGGAGACTTGAAA
GAGAGATTCAATAAAATCAATGGGGCGAGGATTTTTTACTTGCATAGAGAGATTGCCACGGCAAG
TCAGGGTGATTCTTCGATTGCTGCATACTTTAATCGATTGAAGTTGTTGTGGGATAAGCATAGTG
CTCT
Found at i:27439987 original size:28 final size:27
Alignment explanation
Indices: 27439956--27440021 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
27439946 AAGATTTAAG
27439956 GTTTATAATTTAAGATTTAAGGCTTAGA
1 GTTTATAATTTAA-ATTTAAGGCTTAGA
* * * *
27439984 GTTTAATATTTTAATTTTAGGGTTTAGA
1 GTTT-ATAATTTAAATTTAAGGCTTAGA
27440012 GTTTA-AATTT
1 GTTTATAATTT
27440022 TAATATTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.12
27 1 0.03
28 19 0.59
29 8 0.25
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.50
Consensus pattern (27 bp):
GTTTATAATTTAAATTTAAGGCTTAGA
Found at i:27439988 original size:21 final size:21
Alignment explanation
Indices: 27439941--27439994 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
27439931 TTGGTTTCCA
* *
27439941 AGTTTAAGATTTAAGGTTTAT
1 AGTTTAAGATTTAAGGCTTAG
*
27439962 AATTTAAGATTTAAGGCTTAG
1 AGTTTAAGATTTAAGGCTTAG
*
27439983 AGTTTAATATTT
1 AGTTTAAGATTT
27439995 TAATTTTAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (21 bp):
AGTTTAAGATTTAAGGCTTAG
Found at i:27440036 original size:28 final size:28
Alignment explanation
Indices: 27439979--27440036 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
27439969 GATTTAAGGC
*
27439979 TTAGAGTTTAATATTTTAATTTTAGGGT
1 TTAGAGTTTAATATTTTAATTTTAGAGT
*
27440007 TTAGAGTTTAA-ATTTTAATATTTTGAGT
1 TTAGAGTTTAATATTTTAAT-TTTAGAGT
27440035 TT
1 TT
27440037 TAGGCTAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (28 bp):
TTAGAGTTTAATATTTTAATTTTAGAGT
Found at i:27440732 original size:25 final size:26
Alignment explanation
Indices: 27440703--27440753 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
27440693 CTTATTTCAT
*
27440703 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
27440728 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
27440754 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:27440746 original size:26 final size:24
Alignment explanation
Indices: 27440715--27440763 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
27440705 AATAAAAAAT
*
27440715 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
27440741 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
27440764 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:27440783 original size:21 final size:21
Alignment explanation
Indices: 27440726--27440789 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
27440716 TTAAAAATAT
*
27440726 AATAAAT-CAAAT-ATATTTAA
1 AATAAATAAAAATAATA-TTAA
* *
27440746 AA-ACATAAAAACAAATATTAA
1 AATAAATAAAAA-TAATATTAA
*
27440767 AATAAATAAAAATAATACTAA
1 AATAAATAAAAATAATATTAA
27440788 AA
1 AA
27440790 CAATTCTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 15 0.44
22 11 0.32
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAATAAAAATAATATTAA
Found at i:27441704 original size:17 final size:18
Alignment explanation
Indices: 27441682--27441715 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
27441672 TATAATTATG
27441682 ATTAATATA-ATAAATTT
1 ATTAATATATATAAATTT
27441699 ATTAATATATATAAATT
1 ATTAATATATATAAATT
27441716 GTAATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATATATATAAATTT
Found at i:27442075 original size:4 final size:4
Alignment explanation
Indices: 27442066--27442093 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
27442056 GTGCACTCCT
27442066 CACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG
27442094 TATCAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.50, G:0.25, T:0.00
Consensus pattern (4 bp):
CACG
Found at i:27446352 original size:14 final size:15
Alignment explanation
Indices: 27446333--27446375 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
27446323 TCATTAATTG
27446333 ATATATTTTTATA-A
1 ATATATTTTTATATA
27446347 ATATATTTTTTAATATA
1 ATATA-TTTTT-ATATA
*
27446364 AAATATTTTTAT
1 ATATATTTTTAT
27446376 TCACTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 8 0.32
17 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATATTTTTATATA
Found at i:27446950 original size:29 final size:30
Alignment explanation
Indices: 27446900--27446965 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
27446890 TTTTATAAAA
* * *
27446900 TAATTAAGTTTTTAAACGAAAATT-ACACT
1 TAATTAAATTTTTAAACAAAAATTAACAAT
**
27446929 TAATTAAATTTTTAATTAAAAATTAACAAT
1 TAATTAAATTTTTAAACAAAAATTAACAAT
27446959 TAATTAA
1 TAATTAA
27446966 GGCCTTGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (30 bp):
TAATTAAATTTTTAAACAAAAATTAACAAT
Found at i:27447338 original size:20 final size:20
Alignment explanation
Indices: 27447300--27447338 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27447290 AAATATATTT
* *
27447300 TTATAATTTTCTAAAAATTG
1 TTATAATATTATAAAAATTG
*
27447320 TTATAATATTATAATAATT
1 TTATAATATTATAAAAATT
27447339 TCTAATCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TTATAATATTATAAAAATTG
Found at i:27447681 original size:19 final size:18
Alignment explanation
Indices: 27447644--27447678 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27447634 TCGAAACCGG
27447644 TCGGTTAACCGAAAAAAT
1 TCGGTTAACCGAAAAAAT
27447662 TCGGTTAACCGAAAAAA
1 TCGGTTAACCGAAAAAA
27447679 ATTAATAAAA
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:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (18 bp):
TCGGTTAACCGAAAAAAT
Found at i:27447791 original size:18 final size:18
Alignment explanation
Indices: 27447768--27447805 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
27447758 AATATATATT
27447768 AACCCAAATACCCAACCC
1 AACCCAAATACCCAACCC
*
27447786 AACCCAATTACCCAACCC
1 AACCCAAATACCCAACCC
27447804 AA
1 AA
27447806 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.47, G:0.00, T:0.08
Consensus pattern (18 bp):
AACCCAAATACCCAACCC
Found at i:27447798 original size:13 final size:13
Alignment explanation
Indices: 27447782--27447806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27447772 CAAATACCCA
27447782 ACCCAACCCAATT
1 ACCCAACCCAATT
27447795 ACCCAACCCAAT
1 ACCCAACCCAAT
27447807 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:27447850 original size:6 final size:6
Alignment explanation
Indices: 27447831--27447928 Score: 133
Period size: 6 Copynumber: 15.5 Consensus size: 6
27447821 ATAATTTAAT
*
27447831 AAATAA AAACTAA AAATAA AAATAA AAATAA AAATCTAA AACTAA AAATAA
1 AAATAA AAA-TAA AAATAA AAATAA AAATAA AAA--TAA AAATAA AAATAA
*
27447882 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
27447929 ACATATAATT
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
6 67 0.81
7 6 0.07
8 10 0.12
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:27447872 original size:32 final size:32
Alignment explanation
Indices: 27447836--27447928 Score: 186
Period size: 32 Copynumber: 2.9 Consensus size: 32
27447826 TTAATAAATA
27447836 AAAACTAAAAATAAAAATAAAAATAAAAATCT
1 AAAACTAAAAATAAAAATAAAAATAAAAATCT
27447868 AAAACTAAAAATAAAAATAAAAATAAAAATCT
1 AAAACTAAAAATAAAAATAAAAATAAAAATCT
27447900 AAAACTAAAAATAAAAATAAAAATAAAAA
1 AAAACTAAAAATAAAAATAAAAATAAAAA
27447929 ACATATAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.17
Consensus pattern (32 bp):
AAAACTAAAAATAAAAATAAAAATAAAAATCT
Found at i:27447930 original size:26 final size:25
Alignment explanation
Indices: 27447831--27447928 Score: 137
Period size: 26 Copynumber: 3.9 Consensus size: 25
27447821 ATAATTTAAT
27447831 AAATAAAAACTAAAAATAAAAATAA
1 AAATAAAAACTAAAAATAAAAATAA
*
27447856 AAATAAAAATCTAAAACTAAAAATAA
1 AAATAAAAA-CTAAAAATAAAAATAA
*
27447882 AAATAAAAA-TAAAAATCTAAAACTAA
1 AAATAAAAACTAAAAA--TAAAAATAA
27447908 AAATAAAAA-TAAAAATAAAAA
1 AAATAAAAACTAAAAATAAAAA
27447929 ACATATAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
24 10 0.15
25 9 0.14
26 47 0.71
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (25 bp):
AAATAAAAACTAAAAATAAAAATAA
Found at i:27447962 original size:9 final size:9
Alignment explanation
Indices: 27447948--27448007 Score: 68
Period size: 9 Copynumber: 6.7 Consensus size: 9
27447938 TTTATACAAA
27447948 TAATTCGGT
1 TAATTCGGT
*
27447957 TAATTCAGT
1 TAATTCGGT
*
27447966 TAATTCGAT
1 TAATTCGGT
* *
27447975 TAATTTGGG
1 TAATTCGGT
27447984 TAATTCAGG-
1 TAATTC-GGT
27447993 TAATTCGGT
1 TAATTCGGT
27448002 TAATTC
1 TAATTC
27448008 AATTAATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
8 2 0.05
9 38 0.90
10 2 0.05
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:27447971 original size:18 final size:18
Alignment explanation
Indices: 27447948--27448015 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
27447938 TTTATACAAA
* *
27447948 TAATTCGGTTAATTCAGT
1 TAATTCAGTTAATTCGGT
* *
27447966 TAATTC-GATTAATTTGGG
1 TAATTCAG-TTAATTCGGT
*
27447984 TAATTCAGGTAATTCGGT
1 TAATTCAGTTAATTCGGT
*
27448002 TAATTCAATTAATT
1 TAATTCAGTTAATT
27448016 TTATACTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.03
18 38 0.95
19 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (18 bp):
TAATTCAGTTAATTCGGT
Found at i:27447987 original size:27 final size:27
Alignment explanation
Indices: 27447948--27448007 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
27447938 TTTATACAAA
* *
27447948 TAATTCGGTTAATTCAGTTAATTCGAT
1 TAATTCGGGTAATTCAGGTAATTCGAT
* *
27447975 TAATTTGGGTAATTCAGGTAATTCGGT
1 TAATTCGGGTAATTCAGGTAATTCGAT
27448002 TAATTC
1 TAATTC
27448008 AATTAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.43
Consensus pattern (27 bp):
TAATTCGGGTAATTCAGGTAATTCGAT
Found at i:27448014 original size:27 final size:27
Alignment explanation
Indices: 27447956--27448015 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
27447946 AATAATTCGG
* ***
27447956 TTAATTCAGTTAATTCGATTAATTTGG
1 TTAATTCAGGTAATTCGATTAATTCAA
* *
27447983 GTAATTCAGGTAATTCGGTTAATTCAA
1 TTAATTCAGGTAATTCGATTAATTCAA
27448010 TTAATT
1 TTAATT
27448016 TTATACTTAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (27 bp):
TTAATTCAGGTAATTCGATTAATTCAA
Found at i:27448412 original size:20 final size:19
Alignment explanation
Indices: 27448387--27448442 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
27448377 TCAAAATAAC
27448387 AATTTTTTATATTTTAAAT
1 AATTTTTTATATTTTAAAT
* *
27448406 AA-ATTTTATAACTTTTTAAT
1 AATTTTTTAT-A-TTTTAAAT
27448426 AATTTTTGTATTATTTT
1 AATTTTT-TA-TATTTT
27448443 CTATAACCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 6 0.21
19 3 0.10
20 9 0.31
21 7 0.24
22 3 0.10
23 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTTTTTATATTTTAAAT
Found at i:27450459 original size:28 final size:28
Alignment explanation
Indices: 27450419--27450475 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
27450409 AACAATAAGG
27450419 TAAATTTTATTTTTGTGGTCTCGAGACA
1 TAAATTTTATTTTTGTGGTCTCGAGACA
27450447 TAAATTTTATTTTTGTGGTCTCGAGACA
1 TAAATTTTATTTTTGTGGTCTCGAGACA
27450475 T
1 T
27450476 GTTCATGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.47
Consensus pattern (28 bp):
TAAATTTTATTTTTGTGGTCTCGAGACA
Found at i:27457717 original size:106 final size:107
Alignment explanation
Indices: 27457517--27457792 Score: 387
Period size: 106 Copynumber: 2.6 Consensus size: 107
27457507 AAATATGGTT
* * * *
27457517 TCAAATTTGTCAATGCATTAATAAAATAAGGGGAAGGTTTTCTAAAATTTTATATAAATATAAGT
1 TCAAATTTATCAATGTATAAATAAAATAAGGGGAAAGTTTTCTAAAATTTTATATAAATATAAGT
*
27457582 ATCTTAAATACGATAATCTTGTGATAAAATAAAA-TTCAAATG
66 ATCTTAAATACGATAATCTTGTGACAAAATAAAACTT-AAATG
*
27457624 TCAAATTAATCAATGTATAAATAAAATAAGGGGAAAGTTTTCTAAAA-TTTATATAAATATAAGT
1 TCAAATTTATCAATGTATAAATAAAATAAGGGGAAAGTTTTCTAAAATTTTATATAAATATAAGT
* *
27457688 ATCTTAAATACGATGATCTTGTTACAAAATAAAACTTAAATG
66 ATCTTAAATACGATAATCTTGTGACAAAATAAAACTTAAATG
* * * * * *
27457730 TAAAATTTATCGATATATAAATAAAATAAAGGG-AATTTTTTTAAAAATTTTATATAAATATAA
1 TCAAATTTATCAATGTATAAATAAAATAAGGGGAAAGTTTTCT-AAAATTTTATATAAATATAA
27457793 ATATAAATAT
Statistics
Matches: 151, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
105 7 0.05
106 85 0.56
107 59 0.39
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (107 bp):
TCAAATTTATCAATGTATAAATAAAATAAGGGGAAAGTTTTCTAAAATTTTATATAAATATAAGT
ATCTTAAATACGATAATCTTGTGACAAAATAAAACTTAAATG
Found at i:27457792 original size:6 final size:6
Alignment explanation
Indices: 27457781--27457808 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27457771 TAAAAATTTT
27457781 ATATAA ATATAA ATATAA ATATAA ATAT
1 ATATAA ATATAA ATATAA ATATAA ATAT
27457809 TTTAAATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:27476341 original size:39 final size:39
Alignment explanation
Indices: 27476287--27476365 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
27476277 TAAAAAAAGT
27476287 ATGAAATTTCTGGTAGCAATGATACAAAATAAGATCTTA
1 ATGAAATTTCTGGTAGCAATGATACAAAATAAGATCTTA
*
27476326 ATGAAATTTCTGGTAGCAGTGATACAAAATAAGATCTTA
1 ATGAAATTTCTGGTAGCAATGATACAAAATAAGATCTTA
27476365 A
1 A
27476366 ACTATAAGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (39 bp):
ATGAAATTTCTGGTAGCAATGATACAAAATAAGATCTTA
Found at i:27479489 original size:8 final size:8
Alignment explanation
Indices: 27479476--27479516 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
27479466 ATTATTTGAT
27479476 AATTTTAA
1 AATTTTAA
*
27479484 ATTTTTAA
1 AATTTTAA
27479492 AATTTTAA
1 AATTTTAA
27479500 AA--TTAA
1 AATTTTAA
27479506 AATATTTAA
1 AAT-TTTAA
27479515 AA
1 AA
27479517 GATAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
6 6 0.21
8 16 0.57
9 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:27479507 original size:14 final size:15
Alignment explanation
Indices: 27479488--27479516 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27479478 TTTTAAATTT
27479488 TTAAAAT-TTTAAAA
1 TTAAAATATTTAAAA
27479502 TTAAAATATTTAAAA
1 TTAAAATATTTAAAA
27479517 GATAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATATTTAAAA
Found at i:27480625 original size:15 final size:16
Alignment explanation
Indices: 27480607--27480636 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27480597 TTAAATTTTT
27480607 TTTAAA-AAAATTATA
1 TTTAAATAAAATTATA
27480622 TTTAAATAAAATTAT
1 TTTAAATAAAATTAT
27480637 CAACAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAATAAAATTATA
Found at i:27482484 original size:14 final size:14
Alignment explanation
Indices: 27482467--27482495 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27482457 TATTTAAAAG
27482467 TATTAAATATTTAT
1 TATTAAATATTTAT
27482481 TATTAAATATTTAT
1 TATTAAATATTTAT
27482495 T
1 T
27482496 TATTTATAAT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTAAATATTTAT
Found at i:27499232 original size:38 final size:38
Alignment explanation
Indices: 27499189--27499265 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
27499179 CCTTAAATGT
27499189 TCCTAATTATTAGTTCGGTTTTAGATTAATTTTTAGAC
1 TCCTAATTATTAGTTCGGTTTTAGATTAATTTTTAGAC
*
27499227 TCCTAATTATTAGTTCTGTTTTAGATTAATTTTTAGAC
1 TCCTAATTATTAGTTCGGTTTTAGATTAATTTTTAGAC
27499265 T
1 T
27499266 AAGATTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (38 bp):
TCCTAATTATTAGTTCGGTTTTAGATTAATTTTTAGAC
Found at i:27502445 original size:19 final size:19
Alignment explanation
Indices: 27502406--27502445 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27502396 TATTGAATTC
*
27502406 AAATATAAAATATACATAT
1 AAATATAAAATATACAAAT
27502425 AAATATAAAATGA-ACAAAT
1 AAATATAAAAT-ATACAAAT
27502444 AA
1 AA
27502446 GAGCAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATATAAAATATACAAAT
Found at i:27505951 original size:19 final size:21
Alignment explanation
Indices: 27505929--27505976 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
27505919 AATAGTAGTG
*
27505929 AACATATATATA-TATA-TAA
1 AACATATATATACTAGATTAA
27505948 AACATATA-ATACTAGATTAA
1 AACATATATATACTAGATTAA
27505968 AA-ATATATA
1 AACATATATA
27505977 CAATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 16 0.64
20 6 0.24
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (21 bp):
AACATATATATACTAGATTAA
Found at i:27506092 original size:21 final size:20
Alignment explanation
Indices: 27506068--27506111 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
27506058 GTACGTAATA
27506068 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* * *
27506089 ATAGTATTAAAAATATGTAC
1 ATAGGAATAAAAATATATAC
27506109 ATA
1 ATA
27506112 ATATAGTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:27506117 original size:25 final size:25
Alignment explanation
Indices: 27506089--27506242 Score: 127
Period size: 25 Copynumber: 6.1 Consensus size: 25
27506079 AAGTATATAC
*
27506089 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
* * *
27506114 ATAGTGTTCAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
27506139 ATAGTTATTAAAAAATATATACATGAG
1 ATAG-TATT-AAAAATATATACATAAT
** *
27506166 ATAACA-TAAAAAGTATATGA-ATAGT
1 ATAGTATTAAAAA-TATAT-ACATAAT
27506191 AT-GATATTAAAAATATATACATAAT
1 ATAG-TATTAAAAATATATACATAAT
* * *
27506216 ATA-TATAAAAAACATATACATTAT
1 ATAGTATTAAAAATATATACATAAT
27506240 ATA
1 ATA
27506243 TATATTAGAA
Statistics
Matches: 101, Mismatches: 20, Indels: 17
0.73 0.14 0.12
Matches are distributed among these distances:
24 27 0.27
25 47 0.47
26 11 0.11
27 16 0.16
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:27506248 original size:50 final size:50
Alignment explanation
Indices: 27506084--27506254 Score: 127
Period size: 52 Copynumber: 3.4 Consensus size: 50
27506074 ATAAAAAGTA
* * * ** *
27506084 TATACATAGTATTAAAAATATGTACATAATATAGTGTTCAAAATACATACAT
1 TATATATA-TATTAAAAATATATACATAATATA-TATAAAAAATATATACAT
* * *
27506136 AATATAGT-TATTAAAAAATATATACATGAGATA-ACATAAAAAGTATATGA-A-
1 TATATA-TATATT-AAAAATATATACAT-A-ATATATATAAAAAATATAT-ACAT
* *
27506187 TAGTAT-GATATTAAAAATATATACATAATATATATAAAAAACATATACAT
1 TA-TATATATATTAAAAATATATACATAATATATATAAAAAATATATACAT
*
27506237 TATATATATATTAGAAAT
1 TATATATATATTAAAAAT
27506255 GATAATAATA
Statistics
Matches: 92, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
48 4 0.04
49 17 0.18
50 26 0.28
51 9 0.10
52 29 0.32
53 4 0.04
54 3 0.03
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (50 bp):
TATATATATATTAAAAATATATACATAATATATATAAAAAATATATACAT
Found at i:27506419 original size:3 final size:3
Alignment explanation
Indices: 27506354--27506403 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
27506344 ATACTAGTAC
* *
27506354 TAA TAA TAT TAA TAA TAA -ATA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
27506399 TAA TA
1 TAA TA
27506404 TATGCATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 39 0.95
4 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:27506622 original size:19 final size:20
Alignment explanation
Indices: 27506598--27506684 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 20
27506588 AAATATACAC
27506598 ATATATATATATAT-TAAAA
1 ATATATATATATATATAAAA
* *
27506617 ATATATACATA-AGATAATAA
1 ATATATATATATATATAA-AA
27506637 GATATATGAATAATATGATATAAAA
1 -ATATAT--AT-ATAT-ATATAAAA
27506662 ATATATATA-ATATATAAAA
1 ATATATATATATATATAAAA
27506681 ATAT
1 ATAT
27506685 TAAAAAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
18 1 0.02
19 25 0.45
20 4 0.07
21 7 0.12
22 2 0.04
23 1 0.02
24 9 0.16
25 2 0.04
26 5 0.09
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.36
Consensus pattern (20 bp):
ATATATATATATATATAAAA
Found at i:27506674 original size:17 final size:18
Alignment explanation
Indices: 27506645--27506723 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 18
27506635 AAGATATATG
*
27506645 AATA-ATATGATATAAA-
1 AATATATATAATATAAAT
27506661 AATATATATAATATATAA-
1 AATATATATAATATA-AAT
*
27506679 AA-ATAT-TAA-AAAAAT
1 AATATATATAATATAAAT
**
27506694 AATATACGTAATATAATATT
1 AATATATATAATATAA-A-T
27506714 AATATATATA
1 AATATATATA
27506724 TGCGTAATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
14 2 0.04
15 4 0.08
16 10 0.20
17 16 0.33
18 7 0.14
19 1 0.02
20 9 0.18
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (18 bp):
AATATATATAATATAAAT
Found at i:27506914 original size:22 final size:20
Alignment explanation
Indices: 27506862--27506915 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
27506852 AATGAAATGC
27506862 TAATAAAT-A-AAAATATAA
1 TAATAAATAATAAAATATAA
27506880 TAATAACAGTAATAAAATATAA
1 TAATAA-A-TAATAAAATATAA
27506902 TAGTATAAATAATA
1 TA--ATAAATAATA
27506916 TTAAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.20
19 1 0.03
20 1 0.03
21 1 0.03
22 16 0.53
23 1 0.03
24 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
TAATAAATAATAAAATATAA
Found at i:27510162 original size:51 final size:50
Alignment explanation
Indices: 27510003--27510159 Score: 251
Period size: 51 Copynumber: 3.1 Consensus size: 50
27509993 ACTTTTGATC
* *
27510003 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
27510054 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
27510104 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
27510155 AGTGA
1 AGTGA
27510160 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
50 46 0.47
51 52 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:27513625 original size:26 final size:25
Alignment explanation
Indices: 27513589--27513698 Score: 139
Period size: 26 Copynumber: 4.2 Consensus size: 25
27513579 TGATACAAAT
27513589 TGATAATAGGTTAGGTAAATATTCAA
1 TGATAATAGGTTAGGTAAATATTC-A
*
27513615 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATATT-CA
* *
27513641 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAAT-ATTCA
* *
27513667 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAAT-ATTCA
27513693 TGATAA
1 TGATAA
27513699 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
26 76 0.96
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATATTCA
Found at i:27513653 original size:52 final size:52
Alignment explanation
Indices: 27513589--27513698 Score: 168
Period size: 52 Copynumber: 2.1 Consensus size: 52
27513579 TGATACAAAT
27513589 TGATAATAGGTTAGGTAAAT-ATTCAATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGATTC-ATGATAATAGGTTAGGTAAATGTTCCA
* * * *
27513641 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGATTCATGATAATAGGTTAGGTAAATGTTCCA
27513693 TGATAA
1 TGATAA
27513699 GAATTTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 50 0.94
53 3 0.06
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGATTCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:27514888 original size:8 final size:8
Alignment explanation
Indices: 27514875--27514903 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27514865 CTAGATTGGC
27514875 AAAAGCCG
1 AAAAGCCG
27514883 AAAAGCCG
1 AAAAGCCG
27514891 AAAAGCCG
1 AAAAGCCG
27514899 AAAAG
1 AAAAG
27514904 TCAGAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.21, G:0.24, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:27515360 original size:27 final size:27
Alignment explanation
Indices: 27515319--27515458 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
27515309 GAGGAAGCGT
*
27515319 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
27515346 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
27515373 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
27515400 TCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
27515428 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
27515454 TCTGG
1 TCTGG
27515459 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 81 0.81
28 14 0.14
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:27515404 original size:54 final size:55
Alignment explanation
Indices: 27515319--27515458 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
27515309 GAGGAAGCGT
* * * *
27515319 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
27515373 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
* *
27515428 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
27515459 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 59 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCCCTGCCACAAATATCTGTA
Found at i:27520017 original size:51 final size:50
Alignment explanation
Indices: 27519858--27520014 Score: 251
Period size: 51 Copynumber: 3.1 Consensus size: 50
27519848 ACTTCTGATC
* *
27519858 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
27519909 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
*
27519959 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
27520010 AGTGA
1 AGTGA
27520015 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
50 46 0.47
51 52 0.53
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:27524105 original size:18 final size:18
Alignment explanation
Indices: 27524065--27524107 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
27524055 GTTCAATGTA
27524065 TAATTAATCTAAAATTTT
1 TAATTAATCTAAAATTTT
* *
27524083 CAATTAAT-TAAATTTATT
1 TAATTAATCTAAAATT-TT
27524101 TAATTAA
1 TAATTAA
27524108 AAATCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTAATCTAAAATTTT
Found at i:27524653 original size:6 final size:7
Alignment explanation
Indices: 27524635--27524662 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
27524625 AAAGGGTCAT
27524635 ATTTTTA
1 ATTTTTA
27524642 ATTTTTA
1 ATTTTTA
27524649 ATTTTTA
1 ATTTTTA
27524656 ATTTTTA
1 ATTTTTA
27524663 CAGTTTCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:27528994 original size:3 final size:3
Alignment explanation
Indices: 27528988--27529140 Score: 93
Period size: 3 Copynumber: 51.7 Consensus size: 3
27528978 AAAAAGAAAT
* * *
27528988 ATA ATA ATA ATA GTA ATA ATA TTA A-A TTA ATTA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * * *
27529032 ATA AGTA A-A CAAA CACA AAA AGA A-A AT- ATA ATT ATA ATA GTA ATA
1 ATA A-TA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *
27529077 ATA ATA AAA ATA ATA GCA ATA ATA ATA GTG ATA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
27529124 ATA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
27529141 GTTAAATTAA
Statistics
Matches: 116, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
2 10 0.09
3 96 0.83
4 10 0.09
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:27529008 original size:15 final size:14
Alignment explanation
Indices: 27528952--27529140 Score: 63
Period size: 15 Copynumber: 13.1 Consensus size: 14
27528942 ATAGTGTACT
27528952 TAAAG-AATAATAA
1 TAAAGTAATAATAA
*
27528965 T-AAGTAAATAAAAA
1 TAAAGT-AATAATAA
* *
27528979 AAAAGAAATATAATAA
1 TAAAG-TA-ATAATAA
*
27528995 TAATAGTAATAATAT
1 TAA-AGTAATAATAA
*
27529010 TAAATTAATTAATAA
1 TAAAGTAA-TAATAA
*
27529025 TAAAATAATAAGTAA
1 TAAAGTAATAA-TAA
* *
27529040 -ACAA--ACACAAAAA
1 TA-AAGTA-ATAATAA
* * *
27529053 GAAAAT-ATAATTA
1 TAAAGTAATAATAA
27529066 TAATAGTAATAATAA
1 TAA-AGTAATAATAA
*
27529081 TAAAAATAATAGCAATAA
1 T-AAAGTAAT---AATAA
*
27529099 TAATAGTGATAA-AA
1 TAA-AGTAATAATAA
27529113 T-AA-TAATAATAA
1 TAAAGTAATAATAA
27529125 TAATAGTAATAATAA
1 TAA-AGTAATAATAA
27529140 T
1 T
27529141 GTTAAATTAA
Statistics
Matches: 130, Mismatches: 22, Indels: 46
0.66 0.11 0.23
Matches are distributed among these distances:
11 5 0.04
12 7 0.05
13 14 0.11
14 25 0.19
15 54 0.42
16 11 0.08
17 4 0.03
18 10 0.08
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (14 bp):
TAAAGTAATAATAA
Found at i:27529098 original size:71 final size:69
Alignment explanation
Indices: 27528957--27529103 Score: 190
Period size: 71 Copynumber: 2.1 Consensus size: 69
27528947 GTACTTAAAG
* * *
27528957 AATAATAATAAGTAAATAAAAAAAAAGAAATATAATAATAATAGTAATAATATTAAATTAATTAA
1 AATAATAATAAGTAAACAAAAAAAAAGAAATATAATAATAATAGTAATAATATAAAAATAATTAA
*
27529022 TAAT
66 CAAT
*
27529026 AA-AATAATAAGTAAACAAACACAAAAAGAAAATATAATTATAATAGTAATAATAATAAAAATAA
1 AATAATAATAAGTAAACAAA-A-AAAAAG-AAATATAATAATAATAGTAATAAT-ATAAAAATAA
*
27529090 -TAGCAAT
62 TTAACAAT
27529097 AATAATA
1 AATAATA
27529104 GTGATAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
68 16 0.24
69 3 0.04
70 6 0.09
71 30 0.45
72 12 0.18
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.27
Consensus pattern (69 bp):
AATAATAATAAGTAAACAAAAAAAAAGAAATATAATAATAATAGTAATAATATAAAAATAATTAA
CAAT
Found at i:27530899 original size:44 final size:45
Alignment explanation
Indices: 27530795--27530918 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 45
27530785 AGTTTTAATT
* * * * * * *
27530795 TGTTCCATTGCAACGTCAGGGAAATAAGATTCGCTGTCTTCAGTC
1 TGTTCCACTGCAACTTCAGGGAGATAAGACTCGCTGGCATCAATC
* *
27530840 TGCTCCACTGCAACTTCAGGGAGATAAGACT-GGTGGCATCAATC
1 TGTTCCACTGCAACTTCAGGGAGATAAGACTCGCTGGCATCAATC
* * *
27530884 TGTTCCACTGCAACTTCAAGAAGATAAGATTCGCT
1 TGTTCCACTGCAACTTCAGGGAGATAAGACTCGCT
27530919 ATAATTTGTA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 36 0.56
45 28 0.44
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (45 bp):
TGTTCCACTGCAACTTCAGGGAGATAAGACTCGCTGGCATCAATC
Found at i:27531211 original size:144 final size:144
Alignment explanation
Indices: 27530638--27531351 Score: 885
Period size: 143 Copynumber: 5.0 Consensus size: 144
27530628 GATTTGTAAC
* * * * * * * * * * *
27530638 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCCTCTATCTTCAGTTTGCTCT
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* *
27530703 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATATGCTCCACTGCAACTTCAAGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
*
27530768 AGATTCGCCAT-AT
131 AGATCCGCCATAAT
* * * * *
27530781 TTGTAGTTTTAATTTGTTCCATTGCAACGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * *
27530846 -ACTGCAACTTCAGGGAGATAAGACTGGTGGCATCAATCTGTTCCACTGCAACTTCAAGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
* *
27530910 AGATTCGCTATAAT
131 AGATCCGCCATAAT
* * *
27530924 TTGTAGCTTTAATCTGTTCCACTATAACGTCAGCAAAATAAGATTCGTTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * * * * ** * *
27530989 -GCAGCAACTTTAGAGAGATAAGGCTGGTGGCTTTAATCTGCTCTACTGTGACTTTAGGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
*
27531053 AGATCCTCCATAAT
131 AGATCCGCCATAAT
* * * * * *
27531067 TTGTAGTTTTAATCTGTTCTACTACGACGTCAGGGAAATAAGATTCGTTGTCTTCAGTCTACTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
*
27531132 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCGAGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
* * *
27531197 ATATCCTCTATAAT
131 AGATCCGCCATAAT
* * *
27531211 TTGTAGCTTTAATCTGTTCCACTACAACCTCAGCTAAATAAGATTCGCTGTCTTCAGTTTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * ** * *
27531276 TACTGCAACTTCAGGGAGATAAGGTTGATGGCTTCAATCTATTCCACTGCAACTTTAGGAAGATA
66 TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
*
27531341 AGATTCGCCAT
131 AGATCCGCCAT
27531352 TTTCGATCTA
Statistics
Matches: 487, Mismatches: 82, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
142 69 0.14
143 232 0.48
144 186 0.38
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (144 bp):
TTGTAGCTTTAATCTGTTCCACTACAACGTCAGCGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
TACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATA
AGATCCGCCATAAT
Done.