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 124 of 325
Found at i:38640861 original size:8 final size:8
Alignment explanation
Indices: 38640830--38640864 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
38640820 AATAAAAATT
38640830 AAATTATGA
1 AAATTAT-A
38640839 AAATTATA
1 AAATTATA
38640847 AAA-TATA
1 AAATTATA
38640854 AAATTATA
1 AAATTATA
38640862 AAA
1 AAA
38640865 CAAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.28
8 11 0.44
9 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (8 bp):
AAATTATA
Found at i:38640872 original size:21 final size:21
Alignment explanation
Indices: 38640846--38640892 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
38640836 TGAAAATTAT
*
38640846 AAAAT-ATAAAATTATAAAACA
1 AAAATAATAAAATTA-AAAAAA
38640867 AAAATAAATAAAATTAAAAAAA
1 AAAAT-AATAAAATTAAAAAAA
38640889 AAAA
1 AAAA
38640893 GTAAAGGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 9 0.39
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAATAATAAAATTAAAAAAA
Found at i:38640877 original size:23 final size:23
Alignment explanation
Indices: 38640851--38640897 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
38640841 ATTATAAAAT
*
38640851 ATAAAATTATAAAACAAAAA-TAA
1 ATAAAATTA-AAAAAAAAAAGTAA
38640874 ATAAAATTAAAAAAAAAAAGTAA
1 ATAAAATTAAAAAAAAAAAGTAA
38640897 A
1 A
38640898 GGTGGAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (23 bp):
ATAAAATTAAAAAAAAAAAGTAA
Found at i:38641182 original size:45 final size:45
Alignment explanation
Indices: 38641132--38641222 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
38641122 TCTTTTCTTT
38641132 TTGCTTGTATTCCCTACGCAATAAAAACAAACTAAAATTCTCCTA
1 TTGCTTGTATTCCCTACGCAATAAAAACAAACTAAAATTCTCCTA
38641177 TTGCTTGTATTCCCTACGCAATAAAAACAAACTAAAATTCTCCTA
1 TTGCTTGTATTCCCTACGCAATAAAAACAAACTAAAATTCTCCTA
38641222 T
1 T
38641223 CTCATAGACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (45 bp):
TTGCTTGTATTCCCTACGCAATAAAAACAAACTAAAATTCTCCTA
Found at i:38651915 original size:178 final size:178
Alignment explanation
Indices: 38651616--38651974 Score: 700
Period size: 178 Copynumber: 2.0 Consensus size: 178
38651606 ACAAAATTAA
38651616 GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATCAGA
1 GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATCAGA
38651681 TCCAGATTCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
66 TCCAGATTCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
38651746 TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
131 TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
*
38651794 GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATTAGA
1 GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATCAGA
*
38651859 TCTAGATTCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
66 TCCAGATTCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
38651924 TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
131 TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
38651972 GCA
1 GCA
38651975 CCACATTGTG
Statistics
Matches: 179, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 179 1.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (178 bp):
GCATACATGCATACAGATTTAGATACATAATCAAAAGCAGATATAGCTTTAGATTCAGAATCAGA
TCCAGATTCATATTATAGATACAGATATGCATAAATCCTACCCCATCCTCTACACACCATCTCCG
TCCATCCCATCACACCATGTGAGGTTTAAAACACTCATCCATCCCTAC
Found at i:38661924 original size:16 final size:16
Alignment explanation
Indices: 38661900--38661941 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
38661890 AAATAATAAA
*
38661900 TAATTTAATTA-TATTT
1 TAATATAATTATTA-TT
38661916 TAATATAATTATTATT
1 TAATATAATTATTATT
*
38661932 AAATATAATT
1 TAATATAATT
38661942 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATAATTATTATT
Found at i:38661947 original size:24 final size:23
Alignment explanation
Indices: 38661920--38661987 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
38661910 ATATTTTAAT
38661920 ATAATTATTATTAAATATAATTTA
1 ATAA-TATTATTAAATATAATTTA
* * * *
38661944 ATAAAAATAATCAAAAATAATTTA
1 AT-AATATTATTAAATATAATTTA
*
38661968 ATAATATT-TTTAATATAATT
1 ATAATATTATTAAATATAATT
38661988 ATTTATATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 9 0.26
23 4 0.12
24 19 0.56
25 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAATATTATTAAATATAATTTA
Found at i:38663821 original size:29 final size:29
Alignment explanation
Indices: 38663789--38663844 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
38663779 AGAATTTGAC
*
38663789 CAAATTAAAATTTCATGTATAAAATTGTA
1 CAAAATAAAATTTCATGTATAAAATTGTA
* *
38663818 CAAAATCAAATTTCATGTATAGAATTG
1 CAAAATAAAATTTCATGTATAAAATTG
38663845 CACATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (29 bp):
CAAAATAAAATTTCATGTATAAAATTGTA
Found at i:38663858 original size:31 final size:29
Alignment explanation
Indices: 38663796--38663870 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
38663786 GACCAAATTA
*
38663796 AAATTTCATGTATAAAATTGTACAAAATC
1 AAATTTCATGTATAAAATTGCACAAAATC
*
38663825 AAATTTCATGTATAGAATTGCACATTAAATC
1 AAATTTCATGTATAAAATTGCACA--AAATC
* *
38663856 AAAGTTCATGGATAA
1 AAATTTCATGTATAA
38663871 TTTTGATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 22 0.56
31 17 0.44
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (29 bp):
AAATTTCATGTATAAAATTGCACAAAATC
Found at i:38665311 original size:18 final size:21
Alignment explanation
Indices: 38665290--38665334 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
38665280 AGGAGTAAAC
38665290 TATTGA-TGAGGA-AA-ATTT
1 TATTGACTGAGGAGAAGATTT
*
38665308 TATTTACTGAGGAGAAGGATTT
1 TATTGACTGAGGAGAA-GATTT
38665330 TATTG
1 TATTG
38665335 TTGATGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 2 0.10
22 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.40
Consensus pattern (21 bp):
TATTGACTGAGGAGAAGATTT
Found at i:38665775 original size:19 final size:18
Alignment explanation
Indices: 38665743--38665778 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
38665733 TTTTTTAAAA
38665743 ATAAAATTTGAAATTTTT
1 ATAAAATTTGAAATTTTT
*
38665761 ATAAATATTTTAAATTTT
1 ATAAA-ATTTGAAATTTT
38665779 AAAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATAAAATTTGAAATTTTT
Found at i:38665778 original size:18 final size:19
Alignment explanation
Indices: 38665743--38665800 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
38665733 TTTTTTAAAA
38665743 ATAAA-ATTTGAAATTTTT
1 ATAAATATTTGAAATTTTT
*
38665761 ATAAATATTTTAAA-TTTT
1 ATAAATATTTGAAATTTTT
* *
38665779 AAAAATTATTATGAATTTTTT
1 ATAAA-TATT-TGAAATTTTT
38665800 A
1 A
38665801 GAATTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 13 0.41
19 11 0.34
20 3 0.09
21 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
ATAAATATTTGAAATTTTT
Found at i:38665809 original size:39 final size:39
Alignment explanation
Indices: 38665717--38665810 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 39
38665707 TATATATATA
**
38665717 TTTTAGAATT-TTTATATTTTTTAAAAATAAAATTTGAAAT
1 TTTTAGAATTATTT-TAAATTTTAAAAAT-AAATTTGAAAT
* * * *
38665757 TTTTATAAATATTTTAAATTTTAAAAAT-TATTATGAATT
1 TTTTAGAATTATTTTAAATTTTAAAAATAAATT-TGAAAT
38665796 TTTTAGAATTATTTT
1 TTTTAGAATTATTTT
38665811 GATTTTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
38 3 0.07
39 18 0.41
40 20 0.45
41 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (39 bp):
TTTTAGAATTATTTTAAATTTTAAAAATAAATTTGAAAT
Found at i:38665819 original size:20 final size:20
Alignment explanation
Indices: 38665782--38665818 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38665772 AAATTTTAAA
38665782 AATTATTATGAATTTTTTAG
1 AATTATTATGAATTTTTTAG
*
38665802 AATTATTTTG-ATTTTTT
1 AATTATTATGAATTTTTT
38665819 TTAAAGAGTG
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:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
AATTATTATGAATTTTTTAG
Found at i:38666131 original size:21 final size:21
Alignment explanation
Indices: 38666092--38666131 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38666082 ACTAATGATG
* *
38666092 AGAAGTTTGTTGCGGAGGAAA
1 AGAAGTTTATTGCGAAGGAAA
*
38666113 AGAAGTTTATTGCTAAGGA
1 AGAAGTTTATTGCGAAGGA
38666132 GAAATATGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (21 bp):
AGAAGTTTATTGCGAAGGAAA
Found at i:38667519 original size:44 final size:43
Alignment explanation
Indices: 38667456--38667611 Score: 181
Period size: 44 Copynumber: 3.6 Consensus size: 43
38667446 CAAAGCGAGC
38667456 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACGAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTAC-AAT
* ** *
38667500 CTTATCTACC-GTAAGTTGTAGTGGAGCAGATTGAATTTATAAAT
1 CTTATCTCCCTG-AAGTTGTAGTGGAGCAGATTGAAGCTA-CAAT
* * *
38667544 CTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACAATT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAA-T
*
38667588 CTTATAC-CCCTGAAGTTGTTGTGG
1 CTTAT-CTCCCTGAAGTTGTAGTGG
38667612 GTTAGAACGA
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.03
44 88 0.95
45 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAT
Found at i:38669469 original size:15 final size:15
Alignment explanation
Indices: 38669451--38669480 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38669441 ATTAATCATG
38669451 TTATAATTATCATTA
1 TTATAATTATCATTA
*
38669466 TTATTATTATCATTA
1 TTATAATTATCATTA
38669481 ACTTGTGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATAATTATCATTA
Found at i:38671986 original size:142 final size:141
Alignment explanation
Indices: 38671735--38672076 Score: 303
Period size: 142 Copynumber: 2.5 Consensus size: 141
38671725 AGATAGGTAT
* * ** * * *
38671735 TTTTACTATTTAGTTTTTAATCCGAAAGCATAAAGTGAAAATTGC-TTTGAGATGAAAT--AATA
1 TTTTACTACTTAGTTTTAAATAAGGAAGCATAAAGTAAAAACTGCATTTGAGATGAAATCAAATA
* * * *
38671797 GATCTGAATATATGTCGAACACAGGTCTCATACACATAGGCTATAGGAGAAAGTGAAGAGATCT-
66 GATCTAAATATATGTCAAACACAGGTCTCATACACATAGGCTATAGGAAAAAAT-AA-AGAT-TG
38671861 AATAATATAGATTAA
128 AATAATATA-ATTAA
*
38671876 TTTTACTACTTAGTTTTAAATATGGAAGCATAAAGTAAAAACTGCATTTGAGATGAAATCAAAT-
1 TTTTACTACTTAGTTTTAAATAAGGAAGCATAAAGTAAAAACTGCATTTGAGATGAAATCAAATA
* * * * * * * *
38671940 G-TCTAAATCTATGTCAAACATAGGTCTTGAGTGCATAT-GTCT-TAGGAAAAAATAAAGGTTGG
66 GATCTAAATATATGTCAAACACAGGTC-TCA-TACACATAGGCTATAGGAAAAAATAAAGATTGA
*
38672002 ATAATATAATTTA
129 ATAATATAATTAA
* * * *
38672015 TTTT-C-ACTTAG-CTTAAA-AACGATAGCATGAAGTAAAAACTGCTATTGGAGATGAAATCAAA
1 TTTTACTACTTAGTTTTAAATAAGGA-AGCATAAAGTAAAAACTGC-ATTTGAGATGAAATCAAA
38672076 T
64 T
38672077 TGTTTTTAGA
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
135 3 0.02
136 23 0.14
137 24 0.14
138 1 0.01
139 9 0.05
140 11 0.07
141 40 0.24
142 43 0.26
143 6 0.04
144 8 0.05
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.32
Consensus pattern (141 bp):
TTTTACTACTTAGTTTTAAATAAGGAAGCATAAAGTAAAAACTGCATTTGAGATGAAATCAAATA
GATCTAAATATATGTCAAACACAGGTCTCATACACATAGGCTATAGGAAAAAATAAAGATTGAAT
AATATAATTAA
Found at i:38675538 original size:30 final size:28
Alignment explanation
Indices: 38675487--38675542 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
38675477 CGATAAATTT
38675487 AAAATTTGGTTCTTGTATTTTTATTTTTA
1 AAAATTTGGTTCTTGTATTTTT-TTTTTA
* *
38675516 AAAATTTAGTTTCTT-TACTTTTTTTTT
1 AAAATTT-GGTTCTTGTATTTTTTTTTT
38675543 GATCTCAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.64
Consensus pattern (28 bp):
AAAATTTGGTTCTTGTATTTTTTTTTTA
Found at i:38685078 original size:30 final size:31
Alignment explanation
Indices: 38685030--38685088 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
38685020 TTTAATTTGA
*
38685030 TCAATTTTAGTTCTTATACTTTTAGAATTAG
1 TCAACTTTAGTTCTTATACTTTTAGAATTAG
*
38685061 TCAACTTTAGTTC-TATACTTTTTGAATT
1 TCAACTTTAGTTCTTATACTTTTAGAATT
38685089 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (31 bp):
TCAACTTTAGTTCTTATACTTTTAGAATTAG
Found at i:38688330 original size:25 final size:25
Alignment explanation
Indices: 38688301--38688367 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
38688291 TTAATATTAA
*
38688301 ATTAATATAATATTAAGATAATCACT
1 ATTAATATAATATTAAGAAAAT-ACT
*
38688327 -TTAATATTAA-ATTAATAAAATACT
1 ATTAATA-TAATATTAAGAAAATACT
*
38688351 ATTAAGATAAGTATTAA
1 ATTAATATAA-TATTAA
38688368 ATTTAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 6 0.18
25 20 0.59
26 8 0.24
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (25 bp):
ATTAATATAATATTAAGAAAATACT
Found at i:38688333 original size:20 final size:20
Alignment explanation
Indices: 38688282--38688342 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
38688272 AAACTAGCCC
38688282 TTAATCACTTTAATATTAAA
1 TTAATCACTTTAATATTAAA
38688302 TTAAT-A---TAATATTAAGA
1 TTAATCACTTTAATATTAA-A
38688319 -TAATCACTTTAATATTAAA
1 TTAATCACTTTAATATTAAA
38688338 TTAAT
1 TTAAT
38688343 AAAATACTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
16 13 0.37
17 2 0.06
19 2 0.06
20 18 0.51
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.44
Consensus pattern (20 bp):
TTAATCACTTTAATATTAAA
Found at i:38689897 original size:21 final size:21
Alignment explanation
Indices: 38689873--38689938 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
38689863 ATTTAATGAA
38689873 GTAAGTTGTCTTTCTGACAAT
1 GTAAGTTGTCTTTCTGACAAT
38689894 GTAAACG-T-TC-TT-T-ACAAT
1 GT-AA-GTTGTCTTTCTGACAAT
38689912 GCCTAAGTTGTCTTTCTGACAAT
1 G--TAAGTTGTCTTTCTGACAAT
38689935 GTAA
1 GTAA
38689939 ACGTTCTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 18
0.67 0.00 0.33
Matches are distributed among these distances:
18 7 0.19
19 4 0.11
20 5 0.14
21 9 0.25
22 4 0.11
23 7 0.19
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (21 bp):
GTAAGTTGTCTTTCTGACAAT
Found at i:38689912 original size:18 final size:18
Alignment explanation
Indices: 38689889--38689953 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 18
38689879 TGTCTTTCTG
38689889 ACAATGTAAACGTTCTTT
1 ACAATGTAAACGTTCTTT
38689907 ACAATGCCT-AA-GTTGTCTTTCT
1 ACAATG--TAAACG-T-TC-TT-T
38689929 GACAATGTAAACGTTCTTT
1 -ACAATGTAAACGTTCTTT
38689948 ACAATG
1 ACAATG
38689954 CCACTGATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 18
0.68 0.00 0.32
Matches are distributed among these distances:
18 13 0.34
19 4 0.11
20 5 0.13
21 5 0.13
22 4 0.11
23 7 0.18
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (18 bp):
ACAATGTAAACGTTCTTT
Found at i:38689931 original size:41 final size:41
Alignment explanation
Indices: 38689874--38689955 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
38689864 TTTAATGAAG
38689874 TAAGTTGTCTTTCTGACAATGTAAACGTTCTTTACAATGCC
1 TAAGTTGTCTTTCTGACAATGTAAACGTTCTTTACAATGCC
38689915 TAAGTTGTCTTTCTGACAATGTAAACGTTCTTTACAATGCC
1 TAAGTTGTCTTTCTGACAATGTAAACGTTCTTTACAATGCC
38689956 ACTGATCTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (41 bp):
TAAGTTGTCTTTCTGACAATGTAAACGTTCTTTACAATGCC
Found at i:38696615 original size:21 final size:21
Alignment explanation
Indices: 38696581--38696632 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
38696571 TTTTTTGATT
* *
38696581 TATAACATTTATATTGAAAATA
1 TATAATATTAATATT-AAAATA
38696603 -ATAATATTAATATTAAAATA
1 TATAATATTAATATTAAAATA
38696623 TATATATATT
1 TATA-ATATT
38696633 TTCCTCCCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
21 15 0.58
22 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAATATTAATATTAAAATA
Found at i:38700463 original size:61 final size:62
Alignment explanation
Indices: 38700393--38700510 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 62
38700383 CAATGTACCT
* *
38700393 AATTTATATTA-AAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTTATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
38700454 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATAT
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATAT
38700511 TATAAAGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
61 11 0.20
62 43 0.80
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
Found at i:38701509 original size:28 final size:28
Alignment explanation
Indices: 38701477--38701541 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
38701467 GTATGTTTGT
38701477 ATTTATTTTATATTTTCATTCATTCATA
1 ATTTATTTTATATTTTCATTCATTCATA
38701505 ATTTATTTTATATTTTCATTCATTCATA
1 ATTTATTTTATATTTTCATTCATTCATA
38701533 ATTTATTTT
1 ATTTATTTT
38701542 TAATGTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTATTTTATATTTTCATTCATTCATA
Found at i:38701684 original size:12 final size:12
Alignment explanation
Indices: 38701667--38701710 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
38701657 ATTTATTTGG
38701667 TATTTTTATTAT
1 TATTTTTATTAT
*
38701679 TA-TTTTAATAT
1 TATTTTTATTAT
38701690 ATATTTTTATTAT
1 -TATTTTTATTAT
38701703 T-TTTTTAT
1 TATTTTTAT
38701711 GTAGGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 15 0.54
12 5 0.18
13 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTTATTAT
Found at i:38704610 original size:14 final size:14
Alignment explanation
Indices: 38704591--38704619 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38704581 TGGAACAAAC
38704591 TTTGTAATATAAAT
1 TTTGTAATATAAAT
38704605 TTTGTAATATAAAT
1 TTTGTAATATAAAT
38704619 T
1 T
38704620 AAATACATTA
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:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:38704638 original size:62 final size:62
Alignment explanation
Indices: 38704562--38704729 Score: 300
Period size: 62 Copynumber: 2.7 Consensus size: 62
38704552 CAACATTACA
*
38704562 ACATTACTACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
* * *
38704624 ACATTACAATATTAAAACTTGCAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
38704686 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
38704730 AGGTACATTC
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 100 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (62 bp):
ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
Found at i:38706800 original size:46 final size:46
Alignment explanation
Indices: 38706729--38706821 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
38706719 CTCAGCTAAG
38706729 TGCGTCGCGTCGGGGTCTTTAAGCTACATATGTGGCCTAGGATTAT
1 TGCGTCGCGTCGGGGTCTTTAAGCTACATATGTGGCCTAGGATTAT
*
38706775 TGCGTCGCGTCGGGGTCTTTGAGCTACATATGTGGCCTAGGATTAT
1 TGCGTCGCGTCGGGGTCTTTAAGCTACATATGTGGCCTAGGATTAT
38706821 T
1 T
38706822 ATGTATCACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.33
Consensus pattern (46 bp):
TGCGTCGCGTCGGGGTCTTTAAGCTACATATGTGGCCTAGGATTAT
Found at i:38716076 original size:28 final size:28
Alignment explanation
Indices: 38716036--38716092 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
38716026 TTATGCGGAC
38716036 TTAAAACGAAAAGATATTGAATTTGAGA
1 TTAAAACGAAAAGATATTGAATTTGAGA
38716064 TTAAAACGAAAAGATATTGAATTTGAGA
1 TTAAAACGAAAAGATATTGAATTTGAGA
38716092 T
1 T
38716093 CGATGATAAA
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:0.49, C:0.04, G:0.18, T:0.30
Consensus pattern (28 bp):
TTAAAACGAAAAGATATTGAATTTGAGA
Found at i:38723053 original size:26 final size:26
Alignment explanation
Indices: 38723024--38723131 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
38723014 TGATACAAAT
38723024 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38723050 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38723076 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38723102 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38723128 TGAT
1 TGAT
38723132 GGGCATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38725926 original size:26 final size:26
Alignment explanation
Indices: 38725897--38726003 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
38725887 TGGTACAAAT
38725897 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
38725923 TGATAAT-GGTTAGGTAAATGTTTAA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38725948 TTATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38725974 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38726000 TGAT
1 TGAT
38726004 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 22 0.30
26 52 0.70
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38725959 original size:51 final size:53
Alignment explanation
Indices: 38725894--38725996 Score: 192
Period size: 51 Copynumber: 2.0 Consensus size: 53
38725884 AATTGGTACA
38725894 AATTGATAATGGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTT
1 AATTGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTT
38725946 AATT-ATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTT
1 AATTGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTT
38725997 CCATGATGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 31 0.62
52 19 0.38
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (53 bp):
AATTGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTT
Found at i:38733001 original size:25 final size:26
Alignment explanation
Indices: 38732960--38733064 Score: 189
Period size: 25 Copynumber: 4.2 Consensus size: 26
38732950 TGATACAAAT
38732960 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38732986 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
38733010 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38733036 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38733061 TGAT
1 TGAT
38733065 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
24 9 0.12
25 52 0.68
26 16 0.21
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38739983 original size:12 final size:12
Alignment explanation
Indices: 38739966--38739997 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
38739956 AGATTTGAGT
38739966 AATAAAAAACAC
1 AATAAAAAACAC
38739978 AAT-AAAAACAC
1 AATAAAAAACAC
38739989 AATAAAAAA
1 AATAAAAAA
38739998 TATCTCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.09
Consensus pattern (12 bp):
AATAAAAAACAC
Found at i:38740374 original size:109 final size:107
Alignment explanation
Indices: 38740216--38740969 Score: 668
Period size: 102 Copynumber: 7.1 Consensus size: 107
38740206 GTCAAATAAA
* * * * *
38740216 TAAAAAAACAGATAAAATTACATT-ATAACAAATCACAATACACATTAAACTAAACAAATAATTT
1 TAAAAAAACA-AAAAAATTACATTCATAAC-AATAACAATAAACACTAAACTAAACAAACAATTT
* *
38740280 ATAGCCTAATCATAAATTACTAGCAAAATAACTTTAAAATAATT
64 ATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* * *
38740324 TAAAAAACACAAAAAAATTGCATTTATAACAAGTAACAATAAATACTAAACTAAACACAAACAAT
1 TAAAAAA-ACAAAAAAATTACATTCATAACAA-TAACAATAAACACTAAACT-AA-ACAAACAAT
* *
38740389 TTATAATCTAATCATAAATTACTAACAAAATAAATTTAAAATAA-T
62 TTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* **
38740434 T------A-AAAAAAATTACATTCATAAAAAATCGCAATAAACACTAAACTAAACACAATCAATT
1 TAAAAAAACAAAAAAATTACATTCAT-AACAATAACAATAAACACTAAACTAAACA-AA-CAATT
* *
38740492 TATAATCTAATCATAAATTACTAACAAAATAACTTTCAAATAA-T
63 TATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* * * * *
38740536 TAAAAAAATAAAAAATTTTACATTCATAAAAAAACACAATAAACATTAAACTAAACAAAAACAAT
1 TAAAAAAACAAAAAA-ATTACATTCATAACAATA-ACAATAAACACTAAACTAAAC--AAACAAT
* *
38740601 TTATAACCTAACCATAAATTACTAACAAAATGACTTTAAAATAATT
62 TTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
* *
38740647 TAAAAAATACAAAAAAATTACAATCATAAACAAT--C-ATAAAACACTAAACTAAATATAAACAA
1 TAAAAAA-ACAAAAAAATTACATTCAT-AACAATAACAAT-AAACACTAAACT-AA-ACAAACAA
* *
38740709 TTTATAACCTAATCATAACTTACTAACAAAATAACTATAAAATAATT
61 TTTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
** * *
38740756 T------TTAAAAAAATTATATTCATAA-AA-AATCACA-AAACACTCAACTAAACACAAACAAT
1 TAAAAAAACAAAAAAATTACATTCATAACAATAA-CA-ATAAACACTAAACT-AA-ACAAACAAT
** * * *
38740812 TTATAATATAATCATAAATTACTAAAAAAATAACTATAATATAATT
62 TTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
*****
38740858 T-----TTTTTAAAAATTACATTCATAA-AA-AATCACA-AAACACTAAACTAAACACAAACAAT
1 TAAAAAAACAAAAAAATTACATTCATAACAATAA-CA-ATAAACACTAAACT-AA-ACAAACAAT
*
38740915 TTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATTT
62 TTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAA-TT
38740962 TAAAAAAA
1 TAAAAAAA
38740970 ATTACATTCA
Statistics
Matches: 548, Mismatches: 61, Indels: 73
0.80 0.09 0.11
Matches are distributed among these distances:
100 5 0.01
101 6 0.01
102 159 0.29
103 96 0.18
104 4 0.01
108 23 0.04
109 96 0.18
110 79 0.14
111 68 0.12
112 12 0.02
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (107 bp):
TAAAAAAACAAAAAAATTACATTCATAACAATAACAATAAACACTAAACTAAACAAACAATTTAT
AACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATT
Found at i:38740474 original size:102 final size:102
Alignment explanation
Indices: 38740334--38741023 Score: 805
Period size: 102 Copynumber: 6.6 Consensus size: 102
38740324 TAAAAAACAC
* * * * * *
38740334 AAAAAAATTGCATTTATAACAAGTAACAATAAATACTAAACTAAACACAAACAATTTATAATCTA
1 AAAAAAATTACATTCATAAAAAATCAC-ATAAACACTAAACTAAACACAAACAATTTATAATCTA
* *
38740399 ATCATAAATTACTAACAAAATAAATTTAAAATAA-TTA
65 ATCATAAATTACTAACAAAATAACTATAAAATAATTTA
* *
38740436 AAAAAAATTACATTCATAAAAAATCGCAATAAACACTAAACTAAACACAATCAATTTATAATCTA
1 AAAAAAATTACATTCATAAAAAATCAC-ATAAACACTAAACTAAACACAAACAATTTATAATCTA
* * *
38740501 ATCATAAATTACTAACAAAATAACTTTCAAATAATTAAAAAA
65 ATCATAAATTACTAACAAAATAACTATAAAATAATT----TA
* * * *
38740543 ATAAAAAATTTTACATTCATAAAAAAACACAATAAACATTAAACTAAACAAAAACAATTTATAAC
1 A-AAAAAA--TTACATTCATAAAAAATCAC-ATAAACACTAAACTAAACACAAACAATTTATAAT
* * *
38740608 CTAACCATAAATTACTAACAAAATGACTTTAAAATAATTTAAAAAATA
62 CTAATCATAAATTACTAACAAAATAACTATAAAATAA-TT------TA
* * * * * *
38740656 CAAAAAAATTACAATCATAAACAATCATA-AAACACTAAACTAAATATAAACAATTTATAACCTA
1 -AAAAAAATTACATTCATAAAAAATCACATAAACACTAAACTAAACACAAACAATTTATAATCTA
* *
38740720 ATCATAACTTACTAACAAAATAACTATAAAATAATTTTT
65 ATCATAAATTACTAACAAAATAACTATAAAATAA-TTTA
* * *
38740759 AAAAAAATTATATTCATAAAAAATCACA-AAACACTCAACTAAACACAAACAATTTATAATATAA
1 AAAAAAATTACATTCATAAAAAATCACATAAACACTAAACTAAACACAAACAATTTATAATCTAA
* * *
38740823 TCATAAATTACTAAAAAAATAACTATAATATAATTTTTT
66 TCATAAATTACTAACAAAATAACTATAAAATAA--TTTA
** *
38740862 TTAAAAATTACATTCATAAAAAATCACA-AAACACTAAACTAAACACAAACAATTTATAACCTAA
1 AAAAAAATTACATTCATAAAAAATCACATAAACACTAAACTAAACACAAACAATTTATAATCTAA
38740926 TCATAAATTACTAACAAAATAACTATAAAATAATTTTA
66 TCATAAATTACTAACAAAATAACTATAAAATAA-TTTA
*
38740964 AAAAAAATTACATTCATAAAAAATCACA-AAACACTAAACTAAACACAAAAAATTTATAAT
1 AAAAAAATTACATTCATAAAAAATCACATAAACACTAAACTAAACACAAACAATTTATAAT
38741024 AATTAATAAC
Statistics
Matches: 517, Mismatches: 58, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
102 234 0.45
103 96 0.19
107 2 0.00
108 6 0.01
109 65 0.13
110 84 0.16
111 18 0.03
113 11 0.02
114 1 0.00
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (102 bp):
AAAAAAATTACATTCATAAAAAATCACATAAACACTAAACTAAACACAAACAATTTATAATCTAA
TCATAAATTACTAACAAAATAACTATAAAATAATTTA
Found at i:38740831 original size:321 final size:317
Alignment explanation
Indices: 38740207--38741022 Score: 1029
Period size: 321 Copynumber: 2.6 Consensus size: 317
38740197 ATAAAAAAAG
* * * *
38740207 TCAAATAAATAAAAAAACAGATAAAATTACATT-ATAACAAATCACAATACACATTAAACTAAAC
1 TCAAATAATTAAAAAAATA-A-AAAATTACATTCATAAAAAATCACAATAAACATTAAACTAAAC
* * * *
38740271 -AAATAATTTATAGCCTAATCATAAATTACTAGCAAAATAACTTTAAAATAATTTAAAAAACACA
64 AAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAATACA
* * * *
38740335 AAAAAATTGCATTTAT-AACAAGTAACAATAAATACTAAACTAAACACAAACAATTTATAATCTA
129 AAAAAATTACATTCATAAACAA-T--CAA-AAACACTAAACTAAACACAAACAATTTATAACCTA
* *
38740399 ATCATAAATTACTAACAAAATAAATTTAAAATAATTAAAAAAAATTACATTCATAAAAAATCGCA
190 ATCATAAATTACTAACAAAATAAATATAAAATAATTAAAAAAAATTACATTCATAAAAAATCACA
* * * *
38740464 ATAAACACTAAACTAAACACAATCAATTTATAATCTAATCATAAATTACTAACAAAATAACTT
255 ATAAACACTAAACTAAACACAAACAATTTATAATATAATCATAAATTACTAAAAAAATAACTA
*
38740527 TCAAATAATTAAAAAAATAAAAAATTTTACATTCATAAAAAAACACAATAAACATTAAACTAAAC
1 TCAAATAATTAAAAAAATAAAAAA--TTACATTCATAAAAAATCACAATAAACATTAAACTAAAC
* *
38740592 AAAAACAATTTATAACCTAACCATAAATTACTAACAAAATGACTTTAAAATAATTTAAAAAATAC
64 -AAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAATAC
* * *
38740657 AAAAAAATTACAATCATAAACAATCATAAAACACTAAACTAAATATAAACAATTTATAACCTAAT
128 AAAAAAATTACATTCATAAACAATCA-AAAACACTAAACTAAACACAAACAATTTATAACCTAAT
* * * *
38740722 CATAACTTACTAACAAAATAACTATAAAATAATTTTTAAAAAAATTATATTCATAAAAAATCAC-
192 CATAAATTACTAACAAAATAAATATAAAATAA--TTAAAAAAAATTACATTCATAAAAAATCACA
*
38740786 A-AAACACTCAACTAAACACAAACAATTTATAATATAATCATAAATTACTAAAAAAATAACTA
255 ATAAACACTAAACTAAACACAAACAATTTATAATATAATCATAAATTACTAAAAAAATAACTA
**** * *
38740848 T-AATATAATT---TTTTTTAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACA
1 TCAA-ATAATTAAAAAAATAAAAAATTACATTCATAAAAAATCACAATAAACATTAAACTAAACA
*
38740907 CAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATAATTT------TA-A
65 -AAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAATACA
* *
38740965 AAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAAAATTTATAA
129 AAAAAATTACATTCATAAACAATCA-AAAACACTAAACTAAACACAAACAATTTATAA
38741023 TAATTAATAA
Statistics
Matches: 440, Mismatches: 45, Indels: 35
0.85 0.09 0.07
Matches are distributed among these distances:
307 53 0.12
308 2 0.00
313 1 0.00
314 66 0.15
315 1 0.00
316 19 0.04
318 10 0.02
319 1 0.00
320 26 0.06
321 155 0.35
322 2 0.00
323 99 0.22
324 5 0.01
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (317 bp):
TCAAATAATTAAAAAAATAAAAAATTACATTCATAAAAAATCACAATAAACATTAAACTAAACAA
AACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAATACAAA
AAAATTACATTCATAAACAATCAAAAACACTAAACTAAACACAAACAATTTATAACCTAATCATA
AATTACTAACAAAATAAATATAAAATAATTAAAAAAAATTACATTCATAAAAAATCACAATAAAC
ACTAAACTAAACACAAACAATTTATAATATAATCATAAATTACTAAAAAAATAACTA
Found at i:38741073 original size:205 final size:204
Alignment explanation
Indices: 38740659--38741073 Score: 586
Period size: 205 Copynumber: 2.0 Consensus size: 204
38740649 AAAAATACAA
* * * *
38740659 AAAAATTACAATCATAAACAATCATAAAACACTAAACTAAATATAAACAATTTATAACCTAATCA
1 AAAAATTACAATCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCA
* * *
38740724 TAACTTACTAACAAAATAACTATAAAATAATTTTTAAAAAAATTATATTCATAAAAAATCACAAA
66 TAAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAATTACATTCATAAAAAATCACAAA
* * ** *
38740789 ACACTCAACTAAACACAAACAATTTATAATATAATCATAAATTACTAAAAAAATAACTATAATAT
131 ACACTAAACTAAACACAAAAAATTTATAATATAATCATAAAAAACTAAAAAAATAAC-ATAATAC
***
38740854 AATTTTTTTT
195 AATTTAAATT
*
38740864 AAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCA
1 AAAAATTACAATCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCA
38740929 TAAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAATTACATTCATAAAAAATCACAAA
66 TAAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAATTACATTCATAAAAAATCACAAA
38740994 ACACTAAACTAAACACAAAAAATTTATAATAATTAATAACA-AAAAAAC-ATAAAAAATAAC-TA
131 ACACTAAACTAAACACAAAAAATTTATAAT-A-TAAT--CATAAAAAACTA-AAAAAATAACATA
**
38741056 AT-CCCTTTAAATT
191 ATACAATTTAAATT
38741069 AAAAA
1 AAAAA
38741074 AAACCATTAA
Statistics
Matches: 187, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
205 160 0.86
206 5 0.03
207 5 0.03
208 15 0.08
209 2 0.01
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (204 bp):
AAAAATTACAATCATAAAAAATCACAAAACACTAAACTAAACACAAACAATTTATAACCTAATCA
TAAATTACTAACAAAATAACTATAAAATAATTTTAAAAAAAATTACATTCATAAAAAATCACAAA
ACACTAAACTAAACACAAAAAATTTATAATATAATCATAAAAAACTAAAAAAATAACATAATACA
ATTTAAATT
Found at i:38748771 original size:47 final size:47
Alignment explanation
Indices: 38748684--38748774 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
38748674 CTAACACTAA
* *
38748684 TCACGCCAATTACATTGACACCACCAGAAAAAATCAATTTTTTAGAG
1 TCACGCCAATTACATTGACACAACCAAAAAAAATCAATTTTTTAGAG
* * *
38748731 TCACGCCAATTACATTGACACAATCAAATAAAAATTATTTTTTT
1 TCACGCCAATTACATTGACACAACCAAA-AAAAATCAATTTTTT
38748775 TAAAAACTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 25 0.66
48 13 0.34
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (47 bp):
TCACGCCAATTACATTGACACAACCAAAAAAAATCAATTTTTTAGAG
Found at i:38752239 original size:11 final size:11
Alignment explanation
Indices: 38752223--38752248 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38752213 AAAAAGTACC
38752223 GGCGTATTTGG
1 GGCGTATTTGG
38752234 GGCGTATTTGG
1 GGCGTATTTGG
38752245 GGCG
1 GGCG
38752249 AGATCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.50, T:0.31
Consensus pattern (11 bp):
GGCGTATTTGG
Found at i:38762190 original size:16 final size:16
Alignment explanation
Indices: 38762166--38762221 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
38762156 GGTTAGGGGG
38762166 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
*
38762182 AATGTAATAGAGCTGT
1 AATGGAATAGAGCTGT
*
38762198 AATGGAATAGACCTGT
1 AATGGAATAGAGCTGT
38762214 AAT-GAATA
1 AATGGAATA
38762222 ATTCAGTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
15 5 0.14
16 32 0.86
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:38762251 original size:46 final size:44
Alignment explanation
Indices: 38762198--38762288 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 44
38762188 ATAGAGCTGT
38762198 AATGGAATAGACCTGTAATGAATAATTCAGT-TGTTTGGTTGAATGG
1 AATGGAATAGACCTGTAAT-AAT-ATTC-GTGTGTTTGGTTGAATGG
** * *
38762244 AATGGAATAGAGTTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGACCTGTAATAATATTCGTGTGTTTGGTTGAATGG
38762288 A
1 A
38762289 GTAGATGTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.03
44 20 0.50
45 2 0.05
46 17 0.43
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.37
Consensus pattern (44 bp):
AATGGAATAGACCTGTAATAATATTCGTGTGTTTGGTTGAATGG
Found at i:38771784 original size:31 final size:31
Alignment explanation
Indices: 38771748--38771809 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
38771738 TTGACAAATA
38771748 AGTTTTTATTGAATTATTTGAAATTGTGTAT
1 AGTTTTTATTGAATTATTTGAAATTGTGTAT
38771779 AGTTTTTATTGAATTATTTGAAATTGTGTAT
1 AGTTTTTATTGAATTATTTGAAATTGTGTAT
38771810 GTCGCTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (31 bp):
AGTTTTTATTGAATTATTTGAAATTGTGTAT
Found at i:38772333 original size:148 final size:148
Alignment explanation
Indices: 38772162--38772431 Score: 423
Period size: 148 Copynumber: 1.8 Consensus size: 148
38772152 ACTGTTTTGG
* * * * *
38772162 ATTTGTTTGTATTTAATTGTTTGGTTATTGTACATGACAGAAATGCATTTCTTTGTGTTAAATTA
1 ATTTATTTGTATTAAATTATTTGGTTATTGTACATAACAGAAATGCATTTCTTTGTATTAAATTA
* * * *
38772227 TTTTTGTATTGGTTATTATCTGCCATTGCTTAGGTTGTATTAAAGTGTTTGGTTATTGTCTGCTA
66 TTCTTGTATTGGTTATTATCAGACATTGCTTAGGTTGTATTAAAATGTTTGGTTATTGTCTGCTA
38772292 TGTATACGACAGAAATGA
131 TGTATACGACAGAAATGA
* * *
38772310 ATTTATTTGTATTAAATTATTTGGTTATTGTACATAACAGAAATGGATTTGTTTGTATTAAATTG
1 ATTTATTTGTATTAAATTATTTGGTTATTGTACATAACAGAAATGCATTTCTTTGTATTAAATTA
*
38772375 TTCTTGTATTGGTTATTGTCAGACATTGCTTAGGTTGTATTAAAATGTTTGGTTATT
66 TTCTTGTATTGGTTATTATCAGACATTGCTTAGGTTGTATTAAAATGTTTGGTTATT
38772432 ATCTACCACT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
148 109 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.49
Consensus pattern (148 bp):
ATTTATTTGTATTAAATTATTTGGTTATTGTACATAACAGAAATGCATTTCTTTGTATTAAATTA
TTCTTGTATTGGTTATTATCAGACATTGCTTAGGTTGTATTAAAATGTTTGGTTATTGTCTGCTA
TGTATACGACAGAAATGA
Found at i:38774990 original size:49 final size:48
Alignment explanation
Indices: 38774883--38775003 Score: 138
Period size: 49 Copynumber: 2.5 Consensus size: 48
38774873 ATGCCGACGC
*
38774883 CATGTCCCAGACATGGTCTTACACTGGCTAACACATCAAAGTCGATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTAACACATCAAAGTCAATGT
* * ** **
38774931 CATGTCCCAGACAT-GTTTTACACTGGTTCTCATCTATCAGTGTCAATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTAACA-C-ATCAAAGTCAATGT
*
38774980 CATGTCCCAGATA-GGTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
38775004 AGCTTGTATA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 14 0.23
48 15 0.25
49 32 0.52
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTAACACATCAAAGTCAATGT
Found at i:38775047 original size:48 final size:48
Alignment explanation
Indices: 38774980--38775100 Score: 197
Period size: 48 Copynumber: 2.5 Consensus size: 48
38774970 GTGTCAATGT
* * * *
38774980 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTTGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
*
38775028 CATGTCCCAGACATATCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
38775076 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
38775101 ACACACATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:38775111 original size:48 final size:48
Alignment explanation
Indices: 38775011--38775111 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 48
38775001 ACTAGCTTGT
* * * ****
38775011 ATATCTTGAGGCTGATGCATGTCCCAGACATATCTTACACTAGCTTGT
1 ATATCTCGAGGCCGATGCATGTCCCAGACATATCTTACACTAACACAC
*
38775059 ATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACACAC
1 ATATCTCGAGGCCGATGCATGTCCCAGACATATCTTACACTAACACAC
38775107 ATATC
1 ATATC
38775112 ACCCAATGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
ATATCTCGAGGCCGATGCATGTCCCAGACATATCTTACACTAACACAC
Found at i:38775621 original size:31 final size:31
Alignment explanation
Indices: 38775586--38775649 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
38775576 TTTCACACAA
38775586 GTACAACATATTTTATAACTTTTATAAAATG
1 GTACAACATATTTTATAACTTTTATAAAATG
38775617 GTACAACATATTTTATAACTTTTATAAAATG
1 GTACAACATATTTTATAACTTTTATAAAATG
38775648 GT
1 GT
38775650 CTTTTTAGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (31 bp):
GTACAACATATTTTATAACTTTTATAAAATG
Found at i:38780288 original size:19 final size:19
Alignment explanation
Indices: 38780264--38780302 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
38780254 TGTAGGCAAA
38780264 TTTGGCAATAGTTTGCCTT
1 TTTGGCAATAGTTTGCCTT
*
38780283 TTTGGCAATATTTTGCCTT
1 TTTGGCAATAGTTTGCCTT
38780302 T
1 T
38780303 CTTTTTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCAATAGTTTGCCTT
Found at i:38789456 original size:135 final size:134
Alignment explanation
Indices: 38789308--38789666 Score: 415
Period size: 140 Copynumber: 2.6 Consensus size: 134
38789298 TCTTATTTAA
38789308 ATTTGTATTTTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTTAATTTTTTTAACTTATTA
1 ATTTGTA--TTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTTAATTTTTTTAACTT-TTA
* * * * * *
38789373 GTTCTTTAGTTAGATGGTTAGATAGTTGTAATTACATTATTGAGTCTCGAATTTGACTCCTCTCT
63 GTTCTTTTGTTAGATGGTTAGATAGTTGCAATTACATCACTGAGTCTCGAATTCGACTCCTCTAT
*
38789438 TACTTTT
128 TACTTAT
* **
38789445 ATTTGTATTTTTTATTTTATGTTGCTTCAAGCGTTTTAAATTTTTAATTGATGTTTTTTAACATT
1 ATTTGTATTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTT-A---AT-TTTTTTAAC-TT
* * * *
38789510 TTAATTCTTTTGTTAGATGGTTAGATAGTTGCAATTACATCACTGAGTCTCGAGTTCGATTTCTC
60 TTAGTTCTTTTGTTAGATGGTTAGATAGTTGCAATTACATCACTGAGTCTCGAATTCGACTCCTC
38789575 TATTACTTAT
125 TATTACTTAT
* * * *
38789585 ATTTGTA-TTTTT-TTTCATGTTGCTTCAA-TTTTTTTAA---TTAATATTTTTAACATGTTAGC
1 ATTTGTATTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTTAATTTTTTTAAC-TTTTAGT
38789644 TCATTTTGTTAGATGGTTAGATA
65 TC-TTTTGTTAGATGGTTAGATA
38789667 ATTACGATTA
Statistics
Matches: 193, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
129 15 0.08
130 22 0.11
133 1 0.01
134 2 0.01
135 35 0.18
136 1 0.01
137 13 0.07
138 15 0.08
139 7 0.04
140 80 0.41
141 2 0.01
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (134 bp):
ATTTGTATTTTTTATTTCATGTTGCTTCAAGTTTTTTAAATTTTTAATTTTTTTAACTTTTAGTT
CTTTTGTTAGATGGTTAGATAGTTGCAATTACATCACTGAGTCTCGAATTCGACTCCTCTATTAC
TTAT
Found at i:38789808 original size:15 final size:16
Alignment explanation
Indices: 38789779--38789812 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38789769 TTTATGATAT
*
38789779 TTTTTAATTATTTTTA
1 TTTTTAACTATTTTTA
38789795 TTTTTAACTA-TTTTA
1 TTTTTAACTATTTTTA
38789810 TTT
1 TTT
38789813 ATAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTAACTATTTTTA
Found at i:38793721 original size:12 final size:12
Alignment explanation
Indices: 38793704--38793730 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38793694 GATAATATGG
38793704 TTTTTTTAATTA
1 TTTTTTTAATTA
38793716 TTTTTTTAATTA
1 TTTTTTTAATTA
38793728 TTT
1 TTT
38793731 CCTTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTAATTA
Found at i:38797525 original size:44 final size:44
Alignment explanation
Indices: 38797460--38797545 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
38797450 TTGATATCTC
* * *
38797460 AAAGTCCATGGTTGTACCATGGTGA-TTAAGGAAGAATTGACGAA
1 AAAGTCCATGGTTATAACATGG-CATTTAAGGAAGAATTGACGAA
*
38797504 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACG
1 AAAGTCCATGGTT-ATAACATGGCATTTAAGGAAGAATTGACG
38797546 GTTAAGGATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 4 0.11
44 32 0.89
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCATTTAAGGAAGAATTGACGAA
Found at i:38797859 original size:55 final size:54
Alignment explanation
Indices: 38797730--38797926 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
38797720 TTGGTAAGAT
* * *
38797730 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * * *
38797784 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTGTAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * **
38797840 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGGGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
38797892 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
38797927 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.26
54 42 0.35
55 40 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:38807228 original size:29 final size:29
Alignment explanation
Indices: 38807194--38807251 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
38807184 CCACTGGTAG
*
38807194 GTCGAATCTCTCAAGAGCTATACTGCACA
1 GTCGAATCTCTCAAAAGCTATACTGCACA
38807223 GTCGAATCTCTCAAAAGCTATACTGCACA
1 GTCGAATCTCTCAAAAGCTATACTGCACA
38807252 CTTCATGCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (29 bp):
GTCGAATCTCTCAAAAGCTATACTGCACA
Found at i:38809793 original size:7 final size:7
Alignment explanation
Indices: 38809767--38809805 Score: 51
Period size: 7 Copynumber: 5.1 Consensus size: 7
38809757 AAAGTATAAT
38809767 ATAAAAA
1 ATAAAAA
38809774 ATACAAGAA
1 ATA-AA-AA
38809783 ATAAAAA
1 ATAAAAA
38809790 ATAAAAAA
1 AT-AAAAA
38809798 ATAAAAA
1 ATAAAAA
38809805 A
1 A
38809806 AATTTACCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 13 0.45
8 11 0.38
9 5 0.17
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (7 bp):
ATAAAAA
Found at i:38809799 original size:15 final size:16
Alignment explanation
Indices: 38809767--38809805 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
38809757 AAAGTATAAT
*
38809767 ATAAAAAATACAAGAA
1 ATAAAAAATACAAAAA
38809783 ATAAAAAATA-AAAAA
1 ATAAAAAATACAAAAA
38809798 ATAAAAAA
1 ATAAAAAA
38809806 AATTTACCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
ATAAAAAATACAAAAA
Found at i:38809806 original size:16 final size:17
Alignment explanation
Indices: 38809764--38809806 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
38809754 ATGAAAGTAT
*
38809764 AATATAAAAAATACAAGA
1 AATA-AAAAAATACAAAA
38809782 AAT-AAAAAATA-AAAA
1 AATAAAAAAATACAAAA
38809797 AATAAAAAAA
1 AATAAAAAAA
38809807 ATTTACCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 6 0.26
16 14 0.61
18 3 0.13
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (17 bp):
AATAAAAAAATACAAAA
Found at i:38809958 original size:3 final size:3
Alignment explanation
Indices: 38809945--38809992 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
38809935 TATTCCAATG
*
38809945 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38809993 GTTTATGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:38811262 original size:16 final size:17
Alignment explanation
Indices: 38811231--38811263 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38811221 TTCATAAGTA
38811231 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
38811248 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
38811264 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:38811619 original size:46 final size:47
Alignment explanation
Indices: 38811549--38811867 Score: 393
Period size: 46 Copynumber: 6.9 Consensus size: 47
38811539 TTTGACATGA
* * * * *
38811549 TGCCATGGTGTCTTTCAACTATGGTATTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* * * * *
38811595 TGCCATGGTATTTTTCAACCATGGTCTTATTCA-TTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* * *** *
38811641 TGCCATGGTATCTTTCAACCATTGTCTTATTCA-TTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
38811687 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
38811733 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
38811779 TGCCATGGTATCTTTCAACCATGGTCTTA--CATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCAT-TTTCATATCAGGT
* *
38811825 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCA
38811868 AAGAGCACAC
Statistics
Matches: 247, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
44 2 0.01
45 4 0.02
46 239 0.97
48 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
Found at i:38811706 original size:92 final size:92
Alignment explanation
Indices: 38811549--38811861 Score: 448
Period size: 92 Copynumber: 3.4 Consensus size: 92
38811539 TTTGACATGA
* * * * *
38811549 TGCCATGGTGTCTTTCAACTATGGTATTACTCATTTTCTGTCATGTTGCCATGGTATTTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* * *
38811614 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATATCAGGT
* * *
38811641 TGCCATGGTATCTTTCAACCATTGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
38811706 CATGGTCTTATTCATTTCATATCAGGT
66 CATGGTCTTATTCATTTCATATCAGGT
* * * *
38811733 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
38811798 CATGGTCTTACAT-ATTTCATATCAGGT
66 CATGGTCTTA-TTCATTTCATATCAGGT
* *
38811825 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
38811862 ATATCAAAGA
Statistics
Matches: 200, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
92 199 1.00
93 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCAGGT
Found at i:38826130 original size:40 final size:40
Alignment explanation
Indices: 38826075--38826151 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
38826065 ACGGTACCAT
*
38826075 TTGGTGTGTAGGGTTGGATGAGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCATAC
* *
38826115 TTGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCA
1 TTGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCA
38826152 CATGGTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.17, C:0.13, G:0.32, T:0.38
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTGGATGAGTCGATTATATCCCCATAC
Found at i:38829985 original size:21 final size:21
Alignment explanation
Indices: 38829930--38829986 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
38829920 ACACGCCAAT
* *
38829930 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCATAATAGCTAAAC
*
38829951 AGAAGCTCGTAATAGCTAAAC
1 AGAAGCTCATAATAGCTAAAC
*
38829972 AGAAGCTCAAAATAG
1 AGAAGCTCATAATAG
38829987 TTGATCCACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (21 bp):
AGAAGCTCATAATAGCTAAAC
Found at i:38832648 original size:15 final size:15
Alignment explanation
Indices: 38832593--38832649 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
38832583 TTTATACTAC
*
38832593 AAAACATTTATTATT
1 AAAATATTTATTATT
* *
38832608 AACATATTTATAATTCT
1 AAAATATTTATTA-T-T
38832625 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
38832642 AAAATATT
1 AAAATATT
38832650 AATATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:38832710 original size:14 final size:13
Alignment explanation
Indices: 38832682--38832720 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
38832672 ATATGAATAA
38832682 TATTATTTAAATT
1 TATTATTTAAATT
*
38832695 TATTATTCTTAATT
1 TATTATT-TAAATT
*
38832709 TATTATTAAAAT
1 TATTATTTAAAT
38832721 AAAATTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATTTAAATT
Found at i:38832755 original size:16 final size:16
Alignment explanation
Indices: 38832730--38832781 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
38832720 TAAAATTGAA
38832730 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
* *
38832747 AAATTAATAA---AGT
1 ATATTAATAATTTATT
38832760 ATATTAATAATTTATT
1 ATATTAATAATTTATT
38832776 ATATTA
1 ATATTA
38832782 TTATATATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
13 11 0.39
16 13 0.46
17 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:38834148 original size:24 final size:24
Alignment explanation
Indices: 38834120--38834168 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
38834110 CTTGTACATA
* *
38834120 TATTTTTCTTATTATTACTATTAT
1 TATTTTACCTATTATTACTATTAT
*
38834144 TATTTTACCTATTATTATTATTAT
1 TATTTTACCTATTATTACTATTAT
38834168 T
1 T
38834169 TATATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTTTACCTATTATTACTATTAT
Found at i:38834155 original size:15 final size:15
Alignment explanation
Indices: 38834128--38834182 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
38834118 TATATTTTTC
38834128 TTATTATTACTATTA
1 TTATTATTACTATTA
38834143 TTATT-TTACCTATTA
1 TTATTATTA-CTATTA
38834158 TTATTATTA-T-TTA
1 TTATTATTACTATTA
38834171 TATATT-TTACTA
1 T-TATTATTACTA
38834183 CAAATTGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.20
14 9 0.26
15 16 0.46
16 3 0.09
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATTACTATTA
Found at i:38835901 original size:22 final size:22
Alignment explanation
Indices: 38835873--38835916 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38835863 TCAGGTATTA
38835873 ACCAAATCAACCGTTTGAACAT
1 ACCAAATCAACCGTTTGAACAT
*
38835895 ACCAAATCTACCGTTTGAACAT
1 ACCAAATCAACCGTTTGAACAT
38835917 TCCTACTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (22 bp):
ACCAAATCAACCGTTTGAACAT
Found at i:38843373 original size:19 final size:19
Alignment explanation
Indices: 38843354--38843391 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
38843344 AGGGAATAAT
38843354 AAAAGAAAAATAATTAAATA
1 AAAAG-AAAATAATTAAATA
38843374 AAAAGAAAATAATTAAAT
1 AAAAGAAAATAATTAAAT
38843392 TGTTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAAGAAAATAATTAAATA
Found at i:38844539 original size:8 final size:8
Alignment explanation
Indices: 38844526--38844563 Score: 53
Period size: 7 Copynumber: 5.0 Consensus size: 8
38844516 CAATAAATAA
38844526 AAAATATT
1 AAAATATT
38844534 AAAATATT
1 AAAATATT
38844542 -AAATATT
1 AAAATATT
*
38844549 AAAATA-A
1 AAAATATT
38844556 AAAATATT
1 AAAATATT
38844564 TTATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATATT
Found at i:38844560 original size:15 final size:15
Alignment explanation
Indices: 38844520--38844563 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
38844510 AATTTTCAAT
38844520 AAATAAAAAATATTA
1 AAATAAAAAATATTA
**
38844535 AAATATTAAATATTA
1 AAATAAAAAATATTA
38844550 AAATAAAAAATATT
1 AAATAAAAAATATT
38844564 TTATAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATAAAAAATATTA
Found at i:38844581 original size:22 final size:22
Alignment explanation
Indices: 38844519--38844581 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
38844509 AAATTTTCAA
38844519 TAAAT-AAAAAATATTAAAATAT
1 TAAATAAAAAAAT-TTAAAATAT
** **
38844541 TAAATATTAAAATAAAAAATAT
1 TAAATAAAAAAATTTAAAATAT
**
38844563 TTTATAAAAAAATTTAAAA
1 TAAATAAAAAAATTTAAAA
38844582 AAATAATATG
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATAAAAAAATTTAAAATAT
Found at i:38851393 original size:29 final size:27
Alignment explanation
Indices: 38851331--38851390 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
38851321 TTATTTTATA
* *
38851331 ATTTATTTTTAAATTTTTATAGTTTTT
1 ATTTGTTTTTAAATTTTTATAATTTTT
38851358 ATTTGTTTTTAGAATTTTTAATATATTTTT
1 ATTTGTTTTTA-AATTTTT-ATA-ATTTTT
38851388 ATT
1 ATT
38851391 GTTAATACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 7 0.25
29 3 0.11
30 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (27 bp):
ATTTGTTTTTAAATTTTTATAATTTTT
Found at i:38859481 original size:23 final size:24
Alignment explanation
Indices: 38859438--38859484 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38859428 AAATAAAGAC
**
38859438 TAATGAAATAAAAATCTATTTAAA
1 TAATGAAATAAAAATAAATTTAAA
38859462 TAATGAAATAAAAA-AAATTTAAA
1 TAATGAAATAAAAATAAATTTAAA
38859485 AGGTAATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
TAATGAAATAAAAATAAATTTAAA
Found at i:38860273 original size:16 final size:15
Alignment explanation
Indices: 38860231--38860281 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
38860221 TAAAACATAG
*
38860231 AATTATATAAGAAAA
1 AATTATATAATAAAA
* *
38860246 AATTTTAAAATAAATA
1 AATTATATAATAAA-A
38860262 AATTATATAATAAAA
1 AATTATATAATAAAA
38860277 CAATT
1 -AATT
38860282 TAAAAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AATTATATAATAAAA
Found at i:38860303 original size:14 final size:14
Alignment explanation
Indices: 38860284--38860325 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
38860274 AAACAATTTA
38860284 AAAATATAC-AAAAG
1 AAAATA-ACAAAAAG
38860298 AAAATAACAAAAAG
1 AAAATAACAAAAAG
*
38860312 AAAAAAACTAAAAA
1 AAAATAAC-AAAAA
38860326 AAACTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 18 0.72
15 5 0.20
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.10
Consensus pattern (14 bp):
AAAATAACAAAAAG
Found at i:38866786 original size:132 final size:132
Alignment explanation
Indices: 38866549--38866789 Score: 286
Period size: 132 Copynumber: 1.8 Consensus size: 132
38866539 AAATTCTTTA
* * ** * * * *
38866549 AAACGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
1 AAACGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTCGCAAT
* ** * * * * *
38866614 TCCTCGTTTGTTCAAAGTAATCGAAGGTCCTTTTAGAATTTCACCCACGGCTATTAAAAAATCCC
66 TCCTCGTCTGTTCAAAACAATCAAAGATCCCTTCAAAATTTCACCCACGGCTATTAAAAAATCCC
38866679 TT
131 TT
*
38866681 AAACGAAGGCGATATGCGATATTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTCGCAAT
1 AAACGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTCGCAAT
* * *
38866746 TTCTTGTCTGCTT-AAAACAATCAAATATCCCTTCAAAATTTCAC
66 TCCTCGTCTG-TTCAAAACAATCAAAGATCCCTTCAAAATTTCAC
38866790 TCATATCTTT
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
132 86 0.98
133 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (132 bp):
AAACGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTCGCAAT
TCCTCGTCTGTTCAAAACAATCAAAGATCCCTTCAAAATTTCACCCACGGCTATTAAAAAATCCC
TT
Found at i:38866894 original size:131 final size:131
Alignment explanation
Indices: 38866759--38867060 Score: 340
Period size: 132 Copynumber: 2.3 Consensus size: 131
38866749 TTGTCTGCTT
* *
38866759 AAAACAATCAAATATCCCTTCAAAATTTCACTCATATCTT-TTAAAAATCCTTT-AAAACGAAGG
1 AAAACAATCGAATATCCCTTCAAAATTTCACTCATAT-TTATTAAAAA-CCTTTCAAAACAAAGG
* * * ** * *
38866822 CAATACTCGGGGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTTATTTG
64 CAATACTCGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTAGGTTGCAATCTCTCATTTG
38866887 TTC
129 TTC
*** * * *
38866890 AAAACAATCGAATATTCCCTT-AGGTTTTTTACTTATGTTTATTAAAAACCTTTCAAAACAAAGG
1 AAAACAATCGAATA-TCCCTTCA-AAATTTCACTCATATTTATTAAAAACCTTTCAAAACAAAGG
* ** * * * *
38866954 CTATGTTTGATGTTTGGCAATTCGAGAATCGTGCCCTATCGTGCTAGGTTGCAATCTCTCATTTG
64 CAATACTCGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTAGGTTGCAATCTCTCATTTG
38867019 TTC
129 TTC
*
38867022 AAAACAATCGAATATCTCTTCAAAATTTCACTCATATTT
1 AAAACAATCGAATATCCCTTCAAAATTTCACTCATATTT
38867061 TCTAAGGTGA
Statistics
Matches: 137, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
131 37 0.27
132 100 0.73
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (131 bp):
AAAACAATCGAATATCCCTTCAAAATTTCACTCATATTTATTAAAAACCTTTCAAAACAAAGGCA
ATACTCGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTAGGTTGCAATCTCTCATTTGTT
C
Found at i:38868612 original size:19 final size:19
Alignment explanation
Indices: 38868590--38868637 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
38868580 TCATCCCACG
* *
38868590 CATTTGCATTGCATTGTAT
1 CATTTGCATTGCATTGAAC
38868609 CATTTGCATTGCATTGAAC
1 CATTTGCATTGCATTGAAC
38868628 CATTTGCATT
1 CATTTGCATT
38868638 AGATTTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (19 bp):
CATTTGCATTGCATTGAAC
Found at i:38872784 original size:88 final size:88
Alignment explanation
Indices: 38872667--38873075 Score: 703
Period size: 88 Copynumber: 4.7 Consensus size: 88
38872657 CTGACCTTCA
* * *
38872667 TTGAAGTAGATCCAAGATGATCTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
*
38872732 GATTTAGCTTTCACGTGTTTACG
66 GATTTGGCTTTCACGTGTTTACG
*
38872755 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGTGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
38872820 GATTTGGCTTTCACGTGTTTACG
66 GATTTGGCTTTCACGTGTTTACG
* *
38872843 TTGAAGTAGATCCAAGATGATTTGGTATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
38872908 GATTTGGCTTTCACGTGTTTACG
66 GATTTGGCTTTCACGTGTTTACG
*
38872931 TTGAAGCAGATCCAAGATGATTTGGCATCTTTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
*
38872996 AATTTGGCTTTCACGTGTTTACG
66 GATTTGGCTTTCACGTGTTTACG
* * *
38873019 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAGC-GGCAGAGAGCAGATCGAAGA
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
38873076 TAACAGATTT
Statistics
Matches: 305, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
87 18 0.06
88 287 0.94
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (88 bp):
TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
GATTTGGCTTTCACGTGTTTACG
Found at i:38872804 original size:41 final size:41
Alignment explanation
Indices: 38872759--38872988 Score: 108
Period size: 41 Copynumber: 5.3 Consensus size: 41
38872749 TTTACGTTGA
38872759 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGTGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGTGGGG
* * * * * * *
38872800 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTACGT-TGA
1 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGTGGGG
* * *
38872847 AGTAGATCCAAGATGATTTGGTATCTCTGTATCAGGCGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGTGGGG
* * * * * * *
38872888 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTACGT-TGA
1 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGTGGGG
* *
38872935 AGCAGATCCAAGATGATTTGGCATCTTTGTATCAGGCGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGTGGGG
*
38872976 AGCAGATCGAAGA
1 AGCAGATCCAAGA
38872989 CATAGCTAAT
Statistics
Matches: 132, Mismatches: 37, Indels: 40
0.63 0.18 0.19
Matches are distributed among these distances:
39 6 0.05
40 11 0.08
41 50 0.38
42 4 0.03
46 4 0.03
47 38 0.29
48 13 0.10
49 6 0.05
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (41 bp):
AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGTGGGG
Found at i:38872854 original size:47 final size:47
Alignment explanation
Indices: 38872712--38873035 Score: 178
Period size: 47 Copynumber: 7.3 Consensus size: 47
38872702 TTAGGCGGGG
*
38872712 AGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * * * *
38872759 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGTGGGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTACGT-TGA
38872800 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * * * *
38872847 AGTAGATC-----CA-AGATGATTTGG-TATCTC-TGTATCAGGCG-GGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
38872888 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * ** * * *
38872935 AGCAGATC-----CA-AGATGATTTGGC-ATC-TTTGTATCAGGCG-GGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
*
38872976 AGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
*
38873023 AGCAGATCCAAGA
1 AGCAGATCGAAGA
38873036 TGATTTGGCA
Statistics
Matches: 198, Mismatches: 45, Indels: 68
0.64 0.14 0.22
Matches are distributed among these distances:
39 9 0.05
40 17 0.09
41 57 0.29
42 10 0.05
46 10 0.05
47 69 0.35
48 17 0.09
49 9 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (47 bp):
AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:38873094 original size:44 final size:44
Alignment explanation
Indices: 38873037--38873453 Score: 582
Period size: 44 Copynumber: 9.5 Consensus size: 44
38873027 GATCCAAGAT
* ** *
38873037 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
** * * *
38873081 GATTTGGCGTCTCTGTAACGGTAGAGAGCAGATCAAAGATAGTA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
38873125 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
*
38873169 GATTTGGCGTCTCTGTATTGGCAGAGAACAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
*
38873213 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * *
38873257 GATTTGGCGTCTCTGTATTGCCAGAGAGTAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
* * * *
38873301 GATTTGCCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
** * *
38873345 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
** * ** *
38873389 GATTTGGCGGATCCGTAACGGCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
38873433 GATTTGGCGTCTCTGTATTGG
1 GATTTGGCGTCTCTGTATTGG
38873454 GATAGCAGAT
Statistics
Matches: 331, Mismatches: 42, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 331 1.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
Found at i:38873131 original size:176 final size:176
Alignment explanation
Indices: 38872667--38873318 Score: 561
Period size: 176 Copynumber: 3.7 Consensus size: 176
38872657 CTGACCTTCA
* * * * * *
38872667 TTGAAGTAGATCCAAGATGATCTGGCATCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA-TCGGCAGAGAGCAGATCGAAG--ATAGCA
* * * * * *
38872732 GATTTAGCTTTCACGTGTTTAC-GTTGA-AGCAGATCCAAG--A-T-GATTTGGCATCTCTGTAT
63 GATTTGGC-GTCTC-TG-TAACGGTAGAGAGCAGATCAAAGATAGTAGATTTGGCATCTCTGTAT
* *
38872791 CAGGTGGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACG
125 CAGGCGGGGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACG
* * * * *
38872843 TTGAAGTAGATCCAAGATGATTTGGTATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATC-GGCAGAGAGCAGATCGAAG--ATAGCA
* * * * * *
38872908 GATTTGGCTTTCACGTGTTTAC-GTTGA-AGCAGATCCAAG--A-T-GATTTGGCATCTTTGTAT
63 GATTTGGC-GTCTC-TG-TAACGGTAGAGAGCAGATCAAAGATAGTAGATTTGGCATCTCTGTAT
38872967 CAGGCGGGGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACG
125 CAGGCGGGGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACG
* *
38873019 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGAT
1 TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCGGCAGAGAGCAGATCGAAGATAGCAGAT
* * *
38873084 TTGGCGTCTCTGTAACGGTAGAGAGCAGATCAAAGATAGTAGATTTGGCGTCTCTGTAT-TGGCA
66 TTGGCGTCTCTGTAACGGTAGAGAGCAGATCAAAGATAGTAGATTTGGCATCTCTGTATCAGGCG
* * * *
38873148 GAGAGCAGATCGAAG--ATAGC-AGATTTGGC-GTCTC-TGTATTGGCAG
131 GGGAGCAGATCGAAGACATAGCTA-ATTTGGCTTTCACGTGT-TT-AC-G
* * * * *
38873193 -AGAA-CAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
1 TTGAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATCGGCAGAGAGCAGATCGAAGATAGC
** ** * * * *
38873256 AGATTTGGCGTCTCTGTATTGCCAGAGAGTAGATCGAAGATAGTAGATTTGCCGTCTCTGTAT
62 AGATTTGGCGTCTCTGTAACGGTAGAGAGCAGATCAAAGATAGTAGATTTGGCATCTCTGTAT
38873319 TGTCAGAGGG
Statistics
Matches: 420, Mismatches: 41, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
170 3 0.01
171 9 0.02
172 31 0.07
173 28 0.07
174 2 0.00
175 36 0.09
176 311 0.74
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (176 bp):
TTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCGGCAGAGAGCAGATCGAAGATAGCAGAT
TTGGCGTCTCTGTAACGGTAGAGAGCAGATCAAAGATAGTAGATTTGGCATCTCTGTATCAGGCG
GGGAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACG
Found at i:38873192 original size:132 final size:132
Alignment explanation
Indices: 38873037--38873674 Score: 736
Period size: 132 Copynumber: 4.9 Consensus size: 132
38873027 GATCCAAGAT
* ** **
38873037 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGG
* * *
38873102 TAGAGAGCAGATCAAAGATAGTAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
66 CAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATAG
38873167 CA
131 CA
* * *
38873169 GATTTGGCGTCTCTGTATTGGCAGAGAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGG
*
38873234 CAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGCCAGAGAGTAGATCGAAGATAG
66 CAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATAG
*
38873299 TA
131 CA
* * * *
38873301 GATTTGCCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGG
* * * ** * **
38873366 CGGAGAGCAGATCGAAGATAACAGATTTGGCGGATCCGTAACGGCAGAGAGTAGATCGAAGATAG
66 CAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATAG
38873431 CA
131 CA
38873433 GATTTGGCGTCTCTGTATT------G-G--GAT---AG----CAGATTTGGCGTCTCTGTAGTGG
1 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGG
* * * ** **
38873482 CAGAGAGCAGATCGAAGGTAACAGATTTGGTATCTCTGTAGCGGCAGAGAGTAGATCGAAGATAG
66 CAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATAG
38873547 CA
131 CA
* * * * ** * *
38873549 GATTTGACGTCTCCGTAATTGTCAGAGGGCAGATCGAAGATAGTAGATTTGGCATCTCTAT-GTT
1 GATTTGGCGTCTCTGT-ATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAG-T
* * *
38873613 GACAGAGAGCAGATCAAAGAT-GACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAA
64 GGCAGAGAGCAGATCAAAGATAG-CAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAA
38873675 AATAATAGAT
Statistics
Matches: 435, Mismatches: 52, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
116 95 0.22
117 3 0.01
120 2 0.00
123 4 0.01
124 1 0.00
125 1 0.00
126 4 0.01
129 2 0.00
132 254 0.58
133 69 0.16
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (132 bp):
GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGG
CAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGTAGATCGAAGATAG
CA
Found at i:38873493 original size:30 final size:28
Alignment explanation
Indices: 38873429--38873493 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 28
38873419 GATCGAAGAT
* *
38873429 AGCAGATTTGGCGTCTCTGTATTGGGAT
1 AGCAGATTTGGCGTCTCTGTAGTGGGAG
38873457 AGCAGATTTGGCGTCTCTGTAGTGGCAGAG
1 AGCAGATTTGGCGTCTCTGTAGTGG--GAG
38873487 AGCAGAT
1 AGCAGAT
38873494 CGAAGGTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 24 0.73
30 9 0.27
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (28 bp):
AGCAGATTTGGCGTCTCTGTAGTGGGAG
Found at i:38873522 original size:44 final size:44
Alignment explanation
Indices: 38873454--38873685 Score: 241
Period size: 44 Copynumber: 5.2 Consensus size: 44
38873444 TCTGTATTGG
* *
38873454 GATAGCAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAA
* * * *
38873498 GGTAACAGATTTGGTATCTCTGTAGCGGCAGAGAGTAGATCGAA
1 GATAACAGATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAA
* * * * * * *
38873542 GATAGCAGATTTGACGTCTCCGTAATTGTCAGAGGGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGT-AGTGGCAGAGAGCAGATCGAA
** * * *
38873587 GATAGTAGATTTGGCATCTCTAT-GTTGACAGAGAGCAGATCAAA
1 GATAACAGATTTGGCATCTCTGTAG-TGGCAGAGAGCAGATCGAA
* *
38873631 GATGACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAA
* *
38873675 AATAATAGATT
1 GATAACAGATT
38873686 GGTGTTCTTG
Statistics
Matches: 149, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
44 115 0.77
45 34 0.23
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (44 bp):
GATAACAGATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAA
Found at i:38873547 original size:116 final size:116
Alignment explanation
Indices: 38873338--38873561 Score: 353
Period size: 116 Copynumber: 1.9 Consensus size: 116
38873328 GCAGATCGAA
*
38873338 GATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGGATCC
1 GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGGATCC
*
38873403 GTAACGGCAGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGG
66 GTAACGGCAGAGAGTAGATCGAAGATAGCAGATTTGACGTCTCTGTATTGG
* * * *
38873454 GATAGCAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGGTAACAGATTT-G-GTATCT
1 GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGGATC-
*
38873517 CTGTAGCGGCAGAGAGTAGATCGAAGATAGCAGATTTGACGTCTC
65 C-GTAACGGCAGAGAGTAGATCGAAGATAGCAGATTTGACGTCTC
38873562 CGTAATTGTC
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
114 4 0.04
115 2 0.02
116 93 0.94
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (116 bp):
GATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGGATCC
GTAACGGCAGAGAGTAGATCGAAGATAGCAGATTTGACGTCTCTGTATTGG
Found at i:38873566 original size:160 final size:161
Alignment explanation
Indices: 38873294--38873607 Score: 441
Period size: 160 Copynumber: 2.0 Consensus size: 161
38873284 GTAGATCGAA
* * * * *
38873294 GATAGTAGATTTGCCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAACAGATTTGGCGTCTCT
1 GATAGCAGATTTGCCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCT
* * *
38873359 GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGGATCCGTAA-CGGCAGAGAGTAGATC
66 GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGGATCCGTAATCGGCAGAGAGCAGATC
*
38873423 GAAGATAGCAGATTTGGCGTCTCTGTATTGG
131 GAAGATAGCAGATTTGGCATCTCTGTATTGG
* * *
38873454 GATAGCAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGGTAACAGATTTGGTATCTCT
1 GATAGCAGATTTGCCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCT
* * ** * * *
38873519 GTAGCGGCAGAGAGTAGATCGAAGATAGCAGATTTGACGTCTCCGTAATTGTCAGAGGGCAGATC
66 GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGGATCCGTAATCGGCAGAGAGCAGATC
*
38873584 GAAGATAGTAGATTTGGCATCTCT
131 GAAGATAGCAGATTTGGCATCTCT
38873608 ATGTTGACAG
Statistics
Matches: 133, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
160 99 0.74
161 34 0.26
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (161 bp):
GATAGCAGATTTGCCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCT
GTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGGATCCGTAATCGGCAGAGAGCAGATC
GAAGATAGCAGATTTGGCATCTCTGTATTGG
Found at i:38873606 original size:89 final size:88
Alignment explanation
Indices: 38873454--38873685 Score: 279
Period size: 89 Copynumber: 2.6 Consensus size: 88
38873444 TCTGTATTGG
* * * *
38873454 GATAGCAGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGGTAACAGATTTGGTATCTCT
1 GATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCATCTCT
* * * *
38873519 GTAG-CGGCAGAGAGTAGATCGAA
66 AT-GTCGACAGAGAGCAGATCAAA
* * * * *
38873542 GATAGCAGATTTGACGTCTCCGTAATTGTCAGAGGGCAGATCGAAGATAGTAGATTTGGCATCTC
1 GATAGCAGATTTGGCGTCTCTGT-ATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCATCTC
*
38873607 TATGTTGACAGAGAGCAGATCAAA
65 TATGTCGACAGAGAGCAGATCAAA
* *
38873631 GAT-GACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAATAGATT
1 GATAG-CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATT
38873686 GGTGTTCTTG
Statistics
Matches: 120, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
88 51 0.43
89 69 0.57
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (88 bp):
GATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCATCTCT
ATGTCGACAGAGAGCAGATCAAA
Found at i:38875150 original size:11 final size:11
Alignment explanation
Indices: 38875134--38875158 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38875124 TTAGCTCATT
38875134 TATTTTAATTG
1 TATTTTAATTG
38875145 TATTTTAATTG
1 TATTTTAATTG
38875156 TAT
1 TAT
38875159 CCTTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTTAATTG
Found at i:38876947 original size:131 final size:131
Alignment explanation
Indices: 38876775--38877103 Score: 351
Period size: 132 Copynumber: 2.5 Consensus size: 131
38876765 TACCCTAACG
* * * * *
38876775 TGCTGGGTTGCAATTTCTTGTCTGCTT-AAAAAAATCAAATATCCCTTCAAAATTTCACTCATAT
1 TGCTGGGTTGCAATTTCTCGTTTG-TTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATAT
* * *
38876839 CTT-TTAAAAATCCTTT-AAAACGAAGGCAATACTCGGGGTTTGACAATTCGGGAATCATGCCCT
65 -TTATTAAAAA-CCTTTCAAAACAAAGGCAATACTCGAGGTTTGACAATTCGAGAATCATGCCCT
*
38876902 ATTA
128 ATCA
** ** * *
38876906 TGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCCTT-AGGTTTTTTACTCATG
1 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATA-TCCCTTCA-GAATTTCACTCATA
* ** * * *
38876970 TTTATTAAAAACCTTTCAAAACAAAGGCTATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTA
64 TTTATTAAAAACCTTTCAAAACAAAGGCAATACTCGAGGTTTGACAATTCGAGAATCATGCCCTA
*
38877035 TCG
129 TCA
* * * *
38877038 TGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTCGGAATTTCACTCGTATT
1 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATATT
38877103 T
66 T
38877104 TCTAAGGTGA
Statistics
Matches: 160, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
130 2 0.01
131 57 0.36
132 101 0.63
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (131 bp):
TGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATATT
TATTAAAAACCTTTCAAAACAAAGGCAATACTCGAGGTTTGACAATTCGAGAATCATGCCCTATC
A
Found at i:38884272 original size:7 final size:7
Alignment explanation
Indices: 38884260--38884284 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38884250 TTATATGACA
38884260 AAGCATT
1 AAGCATT
38884267 AAGCATT
1 AAGCATT
38884274 AAGCATT
1 AAGCATT
38884281 AAGC
1 AAGC
38884285 TCATATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (7 bp):
AAGCATT
Found at i:38884930 original size:3 final size:3
Alignment explanation
Indices: 38884922--38884970 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
38884912 CACAAACCTT
*
38884922 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38884970 T
1 T
38884971 ATTTTTTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38884979 original size:12 final size:14
Alignment explanation
Indices: 38884922--38884979 Score: 75
Period size: 15 Copynumber: 4.1 Consensus size: 14
38884912 CACAAACCTT
38884922 TTATTATTATTATTA
1 TTATTATTATT-TTA
38884937 TTATTATTATTATTA
1 TTATTATTATT-TTA
38884952 TTATTATTATTGTTA
1 TTATTATTATT-TTA
38884967 TTA-TATT-TTTTA
1 TTATTATTATTTTA
38884979 T
1 T
38884980 AGCTCTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
14 4 0.10
15 32 0.76
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTATTATTATTTTA
Found at i:38889945 original size:22 final size:22
Alignment explanation
Indices: 38889917--38889965 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
38889907 ACAACTCAGA
*
38889917 GCTCGCATCAAATTACAACAGG
1 GCTCGCATCAAAATACAACAGG
* *
38889939 GCTCGCATGAAAATATAACAGG
1 GCTCGCATCAAAATACAACAGG
38889961 GCTCG
1 GCTCG
38889966 TATGCACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (22 bp):
GCTCGCATCAAAATACAACAGG
Found at i:38890285 original size:14 final size:15
Alignment explanation
Indices: 38890266--38890298 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
38890256 AACTGCAACC
38890266 CTTTTCTTACGCT-A
1 CTTTTCTTACGCTAA
*
38890280 CTTTTCTTATGCTAA
1 CTTTTCTTACGCTAA
38890295 CTTT
1 CTTT
38890299 GATAGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.15, C:0.24, G:0.06, T:0.55
Consensus pattern (15 bp):
CTTTTCTTACGCTAA
Found at i:38893424 original size:10 final size:11
Alignment explanation
Indices: 38893409--38893438 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
38893399 TATTTAATTA
38893409 TAATTT-TTTT
1 TAATTTATTTT
38893419 TAATTTATTTT
1 TAATTTATTTT
38893430 TAATTTATT
1 TAATTTATT
38893439 GTGAAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TAATTTATTTT
Found at i:38894159 original size:23 final size:22
Alignment explanation
Indices: 38894126--38894187 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 22
38894116 AAATAAATTT
38894126 TTTTAAAAAAAATTCTATATAAA
1 TTTT-AAAAAAATTCTATATAAA
38894149 TTTTAATAAAAAAATTCTATATAAA
1 -TTT--TAAAAAAATTCTATATAAA
38894174 TTTTAAAAAGAATT
1 TTTTAAAAA-AATT
38894188 TTAATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.17
23 4 0.11
24 6 0.17
25 18 0.51
26 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTTAAAAAAATTCTATATAAA
Found at i:38894159 original size:25 final size:25
Alignment explanation
Indices: 38894131--38894179 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
38894121 AATTTTTTTA
38894131 AAAAAAATTCTATATAAATTTTAAT
1 AAAAAAATTCTATATAAATTTTAAT
38894156 AAAAAAATTCTATATAAATTTTAA
1 AAAAAAATTCTATATAAATTTTAA
38894180 AAAGAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
AAAAAAATTCTATATAAATTTTAAT
Found at i:38895788 original size:2 final size:2
Alignment explanation
Indices: 38895781--38895815 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
38895771 TTAAAGAGAA
38895781 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38895816 AAAGATAAAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38895889 original size:13 final size:13
Alignment explanation
Indices: 38895871--38895902 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
38895861 TTGTTAAACT
38895871 AGAAACCTTTTAC
1 AGAAACCTTTTAC
38895884 AGAAACCTTTTAC
1 AGAAACCTTTTAC
38895897 AGAAAC
1 AGAAAC
38895903 AAAATAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (13 bp):
AGAAACCTTTTAC
Found at i:38899828 original size:206 final size:206
Alignment explanation
Indices: 38899569--38900536 Score: 1454
Period size: 206 Copynumber: 4.7 Consensus size: 206
38899559 AAATCTACTT
* * *
38899569 CTTCGATTTGTT-TCCGGACAATGCAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAGCA
1 CTTCGATTTGTTCT-CTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCA
* *
38899633 CGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCATAAGGATACCAAACCATCT
65 CGTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCT
* * * ** *
38899698 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCAAATAT
130 TGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
38899763 GGAGACACCAAA
195 GGAGACGCCAAA
* *
38899775 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
** *
38899840 GCAAAAACCAAATCAGCTATGTCTTAGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * *
38899905 GGATCAGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCTGTCGAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
38899970 GAGACGCCAAA
196 GAGACGCCAAA
* * * *
38899981 CTTTGATTTGTTATCTGACAATACAGAGATGCCAAATCACCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
38900046 GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * * * ** * * * * *
38900111 GGATCTGCTTTAGTCTAATCATCTGAAGGTTAAATCTACTATGTGTCTACCCTTCGTCGAATATA
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
38900176 GAGACGCCAAA
196 GAGACGCCAAA
* * **
38900187 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGTTTCATTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * * *
38900252 GTGAAAGCC-AATCAGCTATGTCTTCGATTTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAACCAAATCAGCTATGTCTTCGA-TTTGCTCCTTGTAAGCACAAGGATACCAAACCATCT
*
38900316 TGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
38900381 GGAGACGCCAAA
195 GGAGACGCCAAA
*
38900393 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
38900458 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
38900523 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
38900537 CCAGATCTGC
Statistics
Matches: 689, Mismatches: 69, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
205 18 0.03
206 644 0.93
207 27 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
GAGACGCCAAA
Found at i:38901430 original size:11 final size:11
Alignment explanation
Indices: 38901416--38901462 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
38901406 GGCCTCTCCA
38901416 TTTTTCTCTTT
1 TTTTTCTCTTT
*
38901427 TTTTCCTCTTCT
1 TTTTTCTCTT-T
38901439 TTCTTTCTCTTT
1 TT-TTTCTCTTT
38901451 TTTTT-TCTTT
1 TTTTTCTCTTT
38901461 TT
1 TT
38901463 GAAACCCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 7 0.22
11 12 0.38
12 6 0.19
13 7 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:38901435 original size:23 final size:24
Alignment explanation
Indices: 38901408--38901454 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38901398 TTCACCATGG
38901408 CCTCTCCATT-TTTCTCTTTTTTT
1 CCTCTCCATTCTTTCTCTTTTTTT
* *
38901431 CCTCTTCTTTCTTTCTCTTTTTTT
1 CCTCTCCATTCTTTCTCTTTTTTT
38901455 TTCTTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (24 bp):
CCTCTCCATTCTTTCTCTTTTTTT
Found at i:38912574 original size:18 final size:19
Alignment explanation
Indices: 38912547--38912600 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
38912537 AACATAATGT
*
38912547 TATAAAAAATAATATA-TA
1 TATAATAAATAATATATTA
* *
38912565 TATATTAAATAAGATAATTA
1 TATAATAAATAATAT-ATTA
*
38912585 TATAATATATAATATA
1 TATAATAAATAATATA
38912601 AAAGTATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 12 0.43
19 2 0.07
20 14 0.50
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TATAATAAATAATATATTA
Found at i:38912762 original size:16 final size:17
Alignment explanation
Indices: 38912731--38912765 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
38912721 TAATACATGA
38912731 AATAATATATGAAAAGT
1 AATAATATATGAAAAGT
38912748 AATAATATA-GAAAAGT
1 AATAATATATGAAAAGT
38912764 AA
1 AA
38912766 AACAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (17 bp):
AATAATATATGAAAAGT
Found at i:38914379 original size:8 final size:8
Alignment explanation
Indices: 38914366--38914392 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
38914356 GGCTATTACA
38914366 ACATATAT
1 ACATATAT
38914374 ACATATAT
1 ACATATAT
38914382 ACATATAT
1 ACATATAT
38914390 ACA
1 ACA
38914393 ATAATGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (8 bp):
ACATATAT
Found at i:38915743 original size:28 final size:28
Alignment explanation
Indices: 38915703--38915760 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
38915693 GCTTGTAACA
38915703 GTTTCCTTCATTGGATTTTTGACACATT
1 GTTTCCTTCATTGGATTTTTGACACATT
**
38915731 GTTTCCTTCATTGGATTTTTGTTACATT
1 GTTTCCTTCATTGGATTTTTGACACATT
38915759 GT
1 GT
38915761 CCATTAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (28 bp):
GTTTCCTTCATTGGATTTTTGACACATT
Found at i:38924723 original size:12 final size:12
Alignment explanation
Indices: 38924702--38924732 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38924692 AATCAATTTC
*
38924702 TATATATATATA
1 TATATTTATATA
38924714 TATATTTATATA
1 TATATTTATATA
38924726 TATATTT
1 TATATTT
38924733 TAAATGCCAT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATTTATATA
Found at i:38928301 original size:26 final size:26
Alignment explanation
Indices: 38928265--38928320 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
38928255 TGAAATTCTC
38928265 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38928291 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38928317 ATCA
1 ATCA
38928321 ATTTGTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38932200 original size:21 final size:22
Alignment explanation
Indices: 38932141--38932204 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
38932131 CAGAAGCAGT
* *
38932141 ATACGACACATAAAGTGCTTGA
1 ATACGACACATATAGTGCCTGA
** *
38932163 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
38932183 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
38932205 TCGGCAAAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:38932314 original size:6 final size:6
Alignment explanation
Indices: 38932303--38932348 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
38932293 AAATAATTTC
* *
38932303 TCAATT TCAATT TCAATT TCACTT TCAATGT ACAA-T TCAA-T TCAAT
1 TCAATT TCAATT TCAATT TCAATT TCAAT-T TCAATT TCAATT TCAAT
38932349 ACAATTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 9 0.26
6 21 0.62
7 4 0.12
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (6 bp):
TCAATT
Found at i:38932341 original size:18 final size:18
Alignment explanation
Indices: 38932307--38932355 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
38932297 AATTTCTCAA
*
38932307 TTTCAATTTCAATTTCAC
1 TTTCAATTACAATTTCAC
38932325 TTTCAATGTACAA-TTCA-
1 TTTCAAT-TACAATTTCAC
*
38932342 ATTCAA-TACAATTT
1 TTTCAATTACAATTT
38932356 TCCACTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 5 0.19
16 2 0.07
17 5 0.19
18 11 0.41
19 4 0.15
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (18 bp):
TTTCAATTACAATTTCAC
Done.