Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 122 of 297
Found at i:43231701 original size:21 final size:21
Alignment explanation
Indices: 43231677--43231721 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
43231667 TTTCTCATTT
43231677 CATTTAAATGACCAATCTTTC
1 CATTTAAATGACCAATCTTTC
* *
43231698 CATTTAAATGATCAATTTTTC
1 CATTTAAATGACCAATCTTTC
43231719 CAT
1 CAT
43231722 GTAATTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (21 bp):
CATTTAAATGACCAATCTTTC
Found at i:43231749 original size:22 final size:22
Alignment explanation
Indices: 43231694--43231760 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 22
43231684 ATGACCAATC
* * *
43231694 TTTCCATTTAAATGATCAA-TT
1 TTTCCATGTAATTTATCAATTT
43231715 TTTCCATGTAATTT-TCAATTT
1 TTTCCATGTAATTTATCAATTT
43231736 TTTCTCATAG-AATTTATCTAATTT
1 TTTC-CAT-GTAATTTATC-AATTT
43231760 T
1 T
43231761 ATTTCATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.11
21 17 0.45
22 8 0.21
23 3 0.08
24 6 0.16
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTCCATGTAATTTATCAATTT
Found at i:43234890 original size:62 final size:63
Alignment explanation
Indices: 43234820--43234960 Score: 187
Period size: 63 Copynumber: 2.3 Consensus size: 63
43234810 TTTAATACTA
* *
43234820 GTGCCGGCCATTGACAAGTCAACTCCAAAAAAAATT-AA-TTTTTTTAAAAAAATCGTATTCTG
1 GTGCCGGCCATTGACAAGCCAAC-ACAAAAAAAATTGAATTTTTTTTAAAAAAATCGTATTCTG
* * * * *
43234882 GTGCCGGCCATTGACAGGCCAGCACAAAAAAAATTGAATTTTTTTTTAAAAACTCGTATTTTG
1 GTGCCGGCCATTGACAAGCCAACACAAAAAAAATTGAATTTTTTTTAAAAAAATCGTATTCTG
*
43234945 GTGTCGGCCATTGACA
1 GTGCCGGCCATTGACA
43234961 GACTAGCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
61 11 0.16
62 22 0.32
63 36 0.52
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (63 bp):
GTGCCGGCCATTGACAAGCCAACACAAAAAAAATTGAATTTTTTTTAAAAAAATCGTATTCTG
Found at i:43234947 original size:63 final size:63
Alignment explanation
Indices: 43234820--43235155 Score: 205
Period size: 53 Copynumber: 5.8 Consensus size: 63
43234810 TTTAATACTA
* * * * * *
43234820 GTGCCGGCCATTGACAAGTCAACTCCAAAAAAAATT-AA-TTTTTTTAAAAAAATCGTATTCTG
1 GTGCCGGCCATTGACAGGCCAGC-ACAAAAAAAATTGAATTTTTTTTTAAAAACTCGTATTCTG
*
43234882 GTGCCGGCCATTGACAGGCCAGCACAAAAAAAATTGAATTTTTTTTTAAAAACTCGTATTTTG
1 GTGCCGGCCATTGACAGGCCAGCACAAAAAAAATTGAATTTTTTTTTAAAAACTCGTATTCTG
* * * * * *
43234945 GTGTCGGCCATTGACAGACTAG--C------AA--CAATTTTTTTTTGAAAACTCGTATTGTG
1 GTGCCGGCCATTGACAGGCCAGCACAAAAAAAATTGAATTTTTTTTTAAAAACTCGTATTCTG
* *
43234998 GTGCCGACCATTGACAGGCTAGCACCAAAAAAAATTG-A-TTTTTTTT---AA----TA--CTG
1 GTGCCGGCCATTGACAGGCCAGCA-CAAAAAAAATTGAATTTTTTTTTAAAAACTCGTATTCTG
* * * *
43235051 GTGCCGTCCATTGACTGGCCAGCAC----CAAA-T--A-TTTTTTTT-AAAACTCGTATTCTA
1 GTGCCGGCCATTGACAGGCCAGCACAAAAAAAATTGAATTTTTTTTTAAAAACTCGTATTCTG
* * * * *
43235105 GTGCAGGCCATTGACAGGCTAGCACCAAAAAAATCTAAAATTTTTTTTAAA
1 GTGCCGGCCATTGACAGGCCAGCACAAAAAAAAT-TGAATTTTTTTTTAAA
43235156 TAAAATTAAT
Statistics
Matches: 215, Mismatches: 28, Indels: 60
0.71 0.09 0.20
Matches are distributed among these distances:
46 9 0.04
47 1 0.00
48 5 0.02
52 3 0.01
53 67 0.31
54 23 0.11
55 4 0.02
56 1 0.00
58 3 0.01
59 2 0.01
60 1 0.00
61 12 0.06
62 33 0.15
63 49 0.23
64 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (63 bp):
GTGCCGGCCATTGACAGGCCAGCACAAAAAAAATTGAATTTTTTTTTAAAAACTCGTATTCTG
Found at i:43235185 original size:84 final size:82
Alignment explanation
Indices: 43235081--43235238 Score: 226
Period size: 84 Copynumber: 1.9 Consensus size: 82
43235071 AGCACCAAAT
* * * *
43235081 ATTTTTTTTAAAACTCGTATTCTAGTGCAGGCCATTGACAGGCTAGCACCAAAAAAATCTAAAAT
1 ATTTTTTTAAAAAATCGTATTCTAGTGCAGGCCATTGACAGGCCAGCACAAAAAAAAT-TAAAAT
43235146 TTTTTTTAAATAAAATTA
65 TTTTTTTAAATAAAATTA
* * * *
43235164 ATTTTTTTAAAAAAATCGTATTCTGGTGCCGGCCATTGACAGGCCAGCACAAAAAAAATTGAATT
1 ATTTTTTT-AAAAAATCGTATTCTAGTGCAGGCCATTGACAGGCCAGCACAAAAAAAATTAAAAT
43235229 TTTTTTTAAA
65 TTTTTTTAAA
43235239 AACTCGTATT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
83 22 0.33
84 44 0.67
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (82 bp):
ATTTTTTTAAAAAATCGTATTCTAGTGCAGGCCATTGACAGGCCAGCACAAAAAAAATTAAAATT
TTTTTTAAATAAAATTA
Found at i:43235254 original size:63 final size:63
Alignment explanation
Indices: 43235157--43235462 Score: 199
Period size: 53 Copynumber: 5.3 Consensus size: 63
43235147 TTTTTTAAAT
* * *
43235157 AAAATT-AA-TTTTTTTAAAAAAATCGTATTCTGGTGCCGGCCATTGACAGGCCAGCACAAAA
1 AAAATTGAATTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCATTGACAGGCTAGCACAAAA
* * *
43235218 AAAATTGAATTTTTTTTTAAAAACTCGTATTTTGGTGTCGGCCATTGACAGACTAG--C----
1 AAAATTGAATTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCATTGACAGGCTAGCACAAAA
* * * *
43235275 --AA--CAATTTTTTTTTGAAAACTCGTATTGTGGTGCCGACCATTGACAGGCTAGCACCAAAA
1 AAAATTGAATTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCATTGACAGGCTAGCA-CAAAA
* * *
43235335 AAAATTG-A-TTTTTTTT---AA----TA--CTGGTGCCGTCCATTGACTGGCCAGCAC----
1 AAAATTGAATTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCATTGACAGGCTAGCACAAAA
* * *
43235383 CAAA-T--A-TTTTTTTT-AAAACTCGTATTCTAGTGCAGGCCATTGACAGGCTAGCACCAAAA
1 AAAATTGAATTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCATTGACAGGCTAGCA-CAAAA
* * *
43235442 AAATTTAAAATTTTTTTTAAA
1 AAAATTGAATTTTTTTTTAAA
43235463 TACTGGTGCC
Statistics
Matches: 189, Mismatches: 25, Indels: 59
0.69 0.09 0.22
Matches are distributed among these distances:
46 9 0.05
47 1 0.01
48 5 0.03
52 3 0.02
53 67 0.35
54 22 0.12
55 5 0.03
56 1 0.01
59 4 0.02
60 1 0.01
61 7 0.04
62 13 0.07
63 49 0.26
64 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (63 bp):
AAAATTGAATTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCATTGACAGGCTAGCACAAAA
Found at i:43235404 original size:307 final size:307
Alignment explanation
Indices: 43234850--43235464 Score: 1221
Period size: 307 Copynumber: 2.0 Consensus size: 307
43234840 AACTCCAAAA
43234850 AAAATTAATTTTTTTAAAAAAATCGTATTCTGGTGCCGGCCATTGACAGGCCAGCACAAAAAAAA
1 AAAATTAATTTTTTTAAAAAAATCGTATTCTGGTGCCGGCCATTGACAGGCCAGCACAAAAAAAA
43234915 TTGAATTTTTTTTTAAAAACTCGTATTTTGGTGTCGGCCATTGACAGACTAGCAACAATTTTTTT
66 TTGAATTTTTTTTTAAAAACTCGTATTTTGGTGTCGGCCATTGACAGACTAGCAACAATTTTTTT
43234980 TTGAAAACTCGTATTGTGGTGCCGACCATTGACAGGCTAGCACCAAAAAAAATTGATTTTTTTTA
131 TTGAAAACTCGTATTGTGGTGCCGACCATTGACAGGCTAGCACCAAAAAAAATTGATTTTTTTTA
43235045 ATACTGGTGCCGTCCATTGACTGGCCAGCACCAAATATTTTTTTTAAAACTCGTATTCTAGTGCA
196 ATACTGGTGCCGTCCATTGACTGGCCAGCACCAAATATTTTTTTTAAAACTCGTATTCTAGTGCA
43235110 GGCCATTGACAGGCTAGCACCAAAAAAATCTAAAATTTTTTTTAAAT
261 GGCCATTGACAGGCTAGCACCAAAAAAATCTAAAATTTTTTTTAAAT
43235157 AAAATTAATTTTTTTAAAAAAATCGTATTCTGGTGCCGGCCATTGACAGGCCAGCACAAAAAAAA
1 AAAATTAATTTTTTTAAAAAAATCGTATTCTGGTGCCGGCCATTGACAGGCCAGCACAAAAAAAA
43235222 TTGAATTTTTTTTTAAAAACTCGTATTTTGGTGTCGGCCATTGACAGACTAGCAACAATTTTTTT
66 TTGAATTTTTTTTTAAAAACTCGTATTTTGGTGTCGGCCATTGACAGACTAGCAACAATTTTTTT
43235287 TTGAAAACTCGTATTGTGGTGCCGACCATTGACAGGCTAGCACCAAAAAAAATTGATTTTTTTTA
131 TTGAAAACTCGTATTGTGGTGCCGACCATTGACAGGCTAGCACCAAAAAAAATTGATTTTTTTTA
43235352 ATACTGGTGCCGTCCATTGACTGGCCAGCACCAAATATTTTTTTTAAAACTCGTATTCTAGTGCA
196 ATACTGGTGCCGTCCATTGACTGGCCAGCACCAAATATTTTTTTTAAAACTCGTATTCTAGTGCA
*
43235417 GGCCATTGACAGGCTAGCACCAAAAAAATTTAAAATTTTTTTTAAAT
261 GGCCATTGACAGGCTAGCACCAAAAAAATCTAAAATTTTTTTTAAAT
43235464 A
1 A
43235465 CTGGTGCCGG
Statistics
Matches: 307, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
307 307 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (307 bp):
AAAATTAATTTTTTTAAAAAAATCGTATTCTGGTGCCGGCCATTGACAGGCCAGCACAAAAAAAA
TTGAATTTTTTTTTAAAAACTCGTATTTTGGTGTCGGCCATTGACAGACTAGCAACAATTTTTTT
TTGAAAACTCGTATTGTGGTGCCGACCATTGACAGGCTAGCACCAAAAAAAATTGATTTTTTTTA
ATACTGGTGCCGTCCATTGACTGGCCAGCACCAAATATTTTTTTTAAAACTCGTATTCTAGTGCA
GGCCATTGACAGGCTAGCACCAAAAAAATCTAAAATTTTTTTTAAAT
Found at i:43235503 original size:110 final size:106
Alignment explanation
Indices: 43235250--43235503 Score: 339
Period size: 107 Copynumber: 2.4 Consensus size: 106
43235240 ACTCGTATTT
* * * * * *
43235250 TGGTGTCGGCCATTGACAGACTAGCAACAATTTTTTTTTGAAAACTCGTATTGTGGTGCCGACCA
1 TGGTGCCGGCCATTGACAGGCTAGCACCAATTTTTTTTTGAAAACTCGTATTCTAGTGCAGACCA
*
43235315 TTGACAGGCTAGCACCAAAAAAAATTGATTTTTTTTAATAC
66 TTGACAGGCTAGCACCAAAAAAAATTAATTTTTTTTAATAC
* * * *
43235356 TGGTGCCGTCCATTGACTGGCCAGCACCAAATATTTTTTTT-AAAACTCGTATTCTAGTGCAGGC
1 TGGTGCCGGCCATTGACAGGCTAGCACC-AAT-TTTTTTTTGAAAACTCGTATTCTAGTGCAGAC
*
43235420 CATTGACAGGCTAGCACCAAAAAAATTTAAAATTTTTTTTAAATAC
64 CATTGACAGGCTAGCACCAAAAAAAATT--AATTTTTTTT-AATAC
*
43235466 TGGTGCCGGCCATTGGCAGGCTAGCACCAATTTTTTTT
1 TGGTGCCGGCCATTGACAGGCTAGCACCAATTTTTTTT
43235504 AAATACTGGT
Statistics
Matches: 127, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
106 22 0.17
107 49 0.39
108 15 0.12
109 12 0.09
110 29 0.23
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (106 bp):
TGGTGCCGGCCATTGACAGGCTAGCACCAATTTTTTTTTGAAAACTCGTATTCTAGTGCAGACCA
TTGACAGGCTAGCACCAAAAAAAATTAATTTTTTTTAATAC
Found at i:43239787 original size:16 final size:16
Alignment explanation
Indices: 43239766--43239834 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
43239756 TTTGGTTCGC
43239766 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43239782 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43239798 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
43239815 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43239831 TGTA
1 TGTA
43239835 ATAACTAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:43239812 original size:33 final size:32
Alignment explanation
Indices: 43239766--43239834 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
43239756 TTTGGTTCGC
43239766 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
43239798 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
43239831 TGTA
1 TGTA
43239835 ATAACTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:43241860 original size:14 final size:15
Alignment explanation
Indices: 43241821--43241862 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43241811 NNNNNNNATA
*
43241821 ATTATTATTAAATAT
1 ATTATAATTAAATAT
43241836 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
43241850 A-TATAATTTAATA
1 ATTATAATTAAATA
43241863 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:43242034 original size:101 final size:93
Alignment explanation
Indices: 43241928--43242210 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
43241918 ACTATAAAAG
* * * *
43241928 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
43241992 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
43242029 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
43242092 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
43242120 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
43242183 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
43242211 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:43242057 original size:26 final size:28
Alignment explanation
Indices: 43242028--43242088 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
43242018 TATGAATTTG
*
43242028 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
43242054 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
43242082 TAAAATT
1 TATAATT
43242089 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:43242086 original size:47 final size:46
Alignment explanation
Indices: 43242035--43242178 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
43242025 TTGTATAATT
43242035 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
43242082 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
43242126 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
43242173 TAAAAT
1 TAAAAT
43242179 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:43242098 original size:91 final size:90
Alignment explanation
Indices: 43242003--43242210 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
43241993 TAATTATAAC
* * * *
43242003 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
43242068 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
43242094 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
43242159 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
43242185 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
43242211 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:43242170 original size:44 final size:43
Alignment explanation
Indices: 43242028--43242170 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
43242018 TATGAATTTG
* *
43242028 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
43242072 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
43242119 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
43242163 TATAATTT
1 TATAATTT
43242171 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:43242185 original size:47 final size:47
Alignment explanation
Indices: 43242053--43242191 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
43242043 TTATTATTAC
* *
43242053 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
43242100 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
43242144 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
43242191 A
1 A
43242192 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:43257187 original size:31 final size:31
Alignment explanation
Indices: 43257149--43257211 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
43257139 CAGAACGGCG
43257149 TCGTTCCATATATGTATAAAATCAAATTTTT
1 TCGTTCCATATATGTATAAAATCAAATTTTT
43257180 TCGTTCCATATATGTATAAAATCAAATTTTT
1 TCGTTCCATATATGTATAAAATCAAATTTTT
43257211 T
1 T
43257212 TTCTCATTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (31 bp):
TCGTTCCATATATGTATAAAATCAAATTTTT
Found at i:43263190 original size:31 final size:32
Alignment explanation
Indices: 43263155--43263224 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
43263145 CTTGTCACTT
* *
43263155 GTAGCTGA-AGCTACCACTATTCACTGATCAG
1 GTAGCTGAGAGCTACCACTATTCACTAATCAA
* * *
43263186 GTAGC-CAGAGCTACCATTTTTCACTAATCAA
1 GTAGCTGAGAGCTACCACTATTCACTAATCAA
43263217 GTAGCTGA
1 GTAGCTGA
43263225 TGATCAGGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
30 1 0.03
31 29 0.94
32 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (32 bp):
GTAGCTGAGAGCTACCACTATTCACTAATCAA
Found at i:43263266 original size:31 final size:31
Alignment explanation
Indices: 43263225--43263301 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
43263215 AAGTAGCTGA
*
43263225 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
* * *
43263256 TGATCGGGTAGCCGGAGCTACCATTTTTCAC
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
*
43263287 TGATCAAGTAGCCGA
1 TGATCAGGTAGCCGA
43263302 TAATCAGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAC
Found at i:43263327 original size:77 final size:77
Alignment explanation
Indices: 43263155--43263329 Score: 278
Period size: 77 Copynumber: 2.3 Consensus size: 77
43263145 CTTGTCACTT
* *
43263155 GTAGCTGAAGCTACCACTATTCACTGATCAGGTAGCCAGAGCTACCATTTTTCACTAATCAAGTA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCCAGAGCTACCATTTTTCACTAATCAAGTA
* *
43263220 GCTGATGATCAG
66 GCCGATAATCAG
* * * *
43263232 GTAGCCGAAGCTACCACTTTTCATTGATCGGGTAGCCGGAGCTACCATTTTTCACTGATCAAGTA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCCAGAGCTACCATTTTTCACTAATCAAGTA
43263297 GCCGATAATCAG
66 GCCGATAATCAG
43263309 GTAGCCGAAGCTACCACTTTT
1 GTAGCCGAAGCTACCACTTTT
43263330 TACTTGTCAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 90 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (77 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCCAGAGCTACCATTTTTCACTAATCAAGTA
GCCGATAATCAG
Found at i:43263398 original size:50 final size:50
Alignment explanation
Indices: 43263309--43263536 Score: 366
Period size: 50 Copynumber: 4.5 Consensus size: 50
43263299 CGATAATCAG
* * *
43263309 GTAGCCGAAGCTACCACTTTTTACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
43263360 GTAGCCGAAGCTATCATTTATCACTTTCATTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
43263410 GTAGCCGAAGCTATCACTTATCATTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
43263460 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
43263510 GTAGCCGAAGCTATCACTTATCACTTT
1 GTAGCCGAAGCTATCACTTATCACTTT
43263537 TGCCATGGTC
Statistics
Matches: 165, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 143 0.87
51 22 0.13
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:43266606 original size:2 final size:2
Alignment explanation
Indices: 43266599--43266631 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
43266589 TTGAATTGGA
43266599 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43266632 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:43266733 original size:16 final size:17
Alignment explanation
Indices: 43266699--43266739 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
43266689 ATATATTATG
43266699 AATAT-ATATATGTGAA
1 AATATGATATATGTGAA
* *
43266715 AATGTGATAT-TGTGCA
1 AATATGATATATGTGAA
43266731 AATATGATA
1 AATATGATA
43266740 GTTGGATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (17 bp):
AATATGATATATGTGAA
Found at i:43266911 original size:22 final size:25
Alignment explanation
Indices: 43266851--43266922 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
43266841 AGCGCACTCA
* * *
43266851 CTGATAATTAGCACGTCAGTGCTCT
1 CTGATTATTAGCACATTAGTGCTCT
43266876 CTGATTATTAGCACATTAGTGCTCT
1 CTGATTATTAGCACATTAGTGCTCT
*
43266901 CT-A-T-TTAGCACATTCGTGCTCT
1 CTGATTATTAGCACATTAGTGCTCT
43266923 TTGTTTAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 17 0.40
23 1 0.02
24 1 0.02
25 24 0.56
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (25 bp):
CTGATTATTAGCACATTAGTGCTCT
Found at i:43271872 original size:17 final size:17
Alignment explanation
Indices: 43271824--43271876 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
43271814 TTATTAGTAC
* *
43271824 TTATTTTTTTC-TTCTC
1 TTATTTTTTTCATTTTT
*
43271840 TTATTTTTTTCCTTTTT
1 TTATTTTTTTCATTTTT
*
43271857 TTATTTTTTTTATTTTT
1 TTATTTTTTTCATTTTT
43271874 TTA
1 TTA
43271877 AATTTTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (17 bp):
TTATTTTTTTCATTTTT
Found at i:43272161 original size:118 final size:118
Alignment explanation
Indices: 43272019--43272231 Score: 372
Period size: 118 Copynumber: 1.8 Consensus size: 118
43272009 TTTTACCCAA
*
43272019 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTAATCAG
* * *
43272084 TCAGTCATGATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
66 TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
43272137 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTAATCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTAATCAG
**
43272202 TCAGTCACGATCTAAGCTGTACTCATAACC
66 TCAGTCACGATCTAAGCCATACTCATAACC
43272232 ATGGAAAATA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 89 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTAATCAG
TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
Found at i:43273199 original size:5 final size:5
Alignment explanation
Indices: 43273189--43273252 Score: 55
Period size: 5 Copynumber: 13.0 Consensus size: 5
43273179 AATATTTAAC
* *
43273189 TAAAA TAAAA TAAAA TAAAA TAATAA -ATAA TAAAA -GAAA -AAAA T-AAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA
43273236 TAAAAA TAAAAA TAAAA
1 T-AAAA T-AAAA TAAAA
43273253 AGAAAGATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
4 12 0.24
5 26 0.52
6 12 0.24
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:43273222 original size:20 final size:20
Alignment explanation
Indices: 43273197--43273247 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
43273187 ACTAAAATAA
*
43273197 AATAAAATAAAATAATAAAT
1 AATAAAATAAAAAAATAAAT
*
43273217 AATAAAAGAAAAAAATAAAT
1 AATAAAATAAAAAAATAAAT
43273237 -A-AAAATAAAAA
1 AATAAAATAAAAA
43273248 TAAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 9 0.32
19 1 0.04
20 18 0.64
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (20 bp):
AATAAAATAAAAAAATAAAT
Found at i:43278991 original size:17 final size:18
Alignment explanation
Indices: 43278960--43278993 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43278950 TTAATAAAGA
*
43278960 TTCAATATAATTAAATAT
1 TTCAATATAAATAAATAT
43278978 TTCAATA-AAATAAATA
1 TTCAATATAAATAAATA
43278994 ATATAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCAATATAAATAAATAT
Found at i:43293986 original size:53 final size:53
Alignment explanation
Indices: 43293923--43294248 Score: 157
Period size: 53 Copynumber: 5.5 Consensus size: 53
43293913 TTTTAAATTG
**
43293923 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *** **
43293976 ACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAAATGAGTTAAGCCT---------TTTA---ATTTTT-G-TT-T-TTCAAA
**
43294041 ATTG
50 ATCA
* *
43294045 ACTCATGTTGCGAGAGATGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* ** **
43294098 ACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCATGCCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAAATGAGTTAAGCCT-------T--TTA---ATTTTT-G-TT-T-TTCAAA
**
43294163 ATTG
50 ATCA
* **
43294167 ACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
*
43294220 ACTCATATTGCGAGAAATGAGTTGAGCCT
1 ACTCATATTGCGAGAAATGAGTTAAGCCT
43294249 CAAGACACAT
Statistics
Matches: 198, Mismatches: 43, Indels: 64
0.65 0.14 0.21
Matches are distributed among these distances:
53 89 0.45
54 2 0.01
55 4 0.02
56 2 0.01
57 12 0.06
60 3 0.02
62 3 0.02
65 12 0.06
66 2 0.01
67 4 0.02
68 2 0.01
69 63 0.32
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (53 bp):
ACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:43294027 original size:192 final size:193
Alignment explanation
Indices: 43293581--43294005 Score: 771
Period size: 192 Copynumber: 2.2 Consensus size: 193
43293571 CTTTCCAAGG
* *
43293581 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA---TA
43293646 TTTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGGCACGCCGAGGTATTT
63 TTTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGGCACGCCGAGGTATTT
43293711 TTAGTTTATGTTCTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTT
128 TTAGTTTATGTTCTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTT
43293776 C
193 C
*
43293777 AAAATCAACTCATAGTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-ATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATATTT
*
43293841 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGGCACGCCGAGGTATTTTTA
*
43293906 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTCTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
43293969 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
43294006 GGGGCACGCC
Statistics
Matches: 223, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
192 165 0.74
196 58 0.26
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (193 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATATTT
TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGGCACGCCGAGGTATTTTTA
GTTTATGTTCTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:43294271 original size:122 final size:122
Alignment explanation
Indices: 43293847--43294249 Score: 770
Period size: 122 Copynumber: 3.3 Consensus size: 122
43293837 ATTTTTTAAA
*
43293847 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
*
43293912 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
43293969 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
*
43294034 GTTTTAAATTGACTCATGTTGCGAGAGATGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
43294091 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCATGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
43294156 GTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
43294213 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
43294250 AAGACACATT
Statistics
Matches: 276, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 276 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
GTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:43294337 original size:73 final size:73
Alignment explanation
Indices: 43294195--43294344 Score: 214
Period size: 73 Copynumber: 2.1 Consensus size: 73
43294185 GAGTTAAGCC
* *
43294195 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACAT
1 TTTTAAATTTTTGTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACAC
*
43294259 TGAGGTAT
66 CGAGGTAT
** * *
43294267 TTTTAAATTTTT-TTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACG
1 TTTTAAATTTTTGTTTTT-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACA
43294331 CCGAGGTAT
65 CCGAGGTAT
43294340 TTTTA
1 TTTTA
43294345 GTTTATGTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 9 0.13
73 60 0.87
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (73 bp):
TTTTAAATTTTTGTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACAC
CGAGGTAT
Found at i:43294409 original size:195 final size:195
Alignment explanation
Indices: 43294073--43294481 Score: 644
Period size: 195 Copynumber: 2.1 Consensus size: 195
43294063 GAGTTAAGCC
* *
43294073 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCATGCC
1 TTTTAATTTTTGTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCC
* *
43294138 GAGGTATTTTTAGTTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATT
66 GAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGAGAGAGGTGAGTTAAGCCTTTTAATT
*
43294203 TTTGTTTTTC-AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAT
131 TTTGTTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAT
43294267 TTTTAAATTTTT-TTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACG
1 TTTT-AATTTTTGTTTTT-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACG
43294331 CCGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGAGAGAGGTGAGTTAAGCCTTTTAA
64 CCGAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGAGAGAGGTGAGTTAAGCCTTTTAA
* ** * *
43294396 TTTTTGTTTTTCAAAAATCAACTCATATTTCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGA
129 TTTTTGTTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAG-ACACAT--TGA
43294460 GGTAT
191 GGTAT
* *
43294465 TTTCAATTTATGTTTTT
1 TTTTAATTTTTGTTTTT
43294482 TTCAATCTAT
Statistics
Matches: 196, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
194 9 0.05
195 127 0.65
196 38 0.19
197 6 0.03
198 16 0.08
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (195 bp):
TTTTAATTTTTGTTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCC
GAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGAGAGAGGTGAGTTAAGCCTTTTAATT
TTTGTTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAT
Found at i:43294496 original size:15 final size:16
Alignment explanation
Indices: 43294464--43294497 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
43294454 TGCTGAGGTA
*
43294464 TTTTCAATTTATGTTT
1 TTTTCAATCTATGTTT
43294480 TTTTCAATCTATGTTT
1 TTTTCAATCTATGTTT
43294496 TT
1 TT
43294498 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTTCAATCTATGTTT
Found at i:43294661 original size:85 final size:87
Alignment explanation
Indices: 43294402--43294670 Score: 300
Period size: 91 Copynumber: 3.1 Consensus size: 87
43294392 TTAATTTTTG
* *
43294402 TTTTTCAAAAATCAACTCATATTTCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATT
1 TTTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATT
*
43294466 TTCAATTTATGTTTTTTTCAA-TCTA
64 TTCAATTTCTG-TTTTTT-AATTCTA
* *
43294491 TGTTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTA
1 --TTTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTA
**
43294553 TTTTCAATTTCTGCTTTACTAATTCTA
62 TTTTCAATTTCTG-TTTTTTAATTCTA
* * *
43294580 CTTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTT
1 TTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTT
*
43294644 CAAATTCTG-TTTTTAATTTCTA
66 CAATTTCTGTTTTTTAA-TTCTA
43294666 TTTTT
1 TTTTT
43294671 TTTAATTTCT
Statistics
Matches: 154, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
84 3 0.02
85 38 0.25
86 9 0.06
87 28 0.18
88 2 0.01
89 31 0.20
91 41 0.27
93 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (87 bp):
TTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTT
CAATTTCTGTTTTTTAATTCTA
Found at i:43294843 original size:54 final size:55
Alignment explanation
Indices: 43294759--43294977 Score: 333
Period size: 54 Copynumber: 4.1 Consensus size: 55
43294749 TCAATTTCTA
*
43294759 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
43294814 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
43294868 C-TTT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
43294920 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
43294975 CTT
1 CTT
43294978 GGCTCACGTG
Statistics
Matches: 152, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
51 12 0.08
52 35 0.23
53 6 0.04
54 48 0.32
55 42 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:43295282 original size:30 final size:31
Alignment explanation
Indices: 43295248--43295349 Score: 113
Period size: 30 Copynumber: 3.4 Consensus size: 31
43295238 TAAAAAATAA
*
43295248 AAATTACATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
43295278 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
43295308 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
*
43295338 AAATTCCATTTT
1 AAATTTCATTTT
43295350 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 4 0.07
30 56 0.92
31 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.43
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:43295724 original size:3 final size:3
Alignment explanation
Indices: 43295718--43295764 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
43295708 GTGTAGGAGG
43295718 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA
43295764 A
1 A
43295765 AAAAAAAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:43295898 original size:16 final size:17
Alignment explanation
Indices: 43295879--43295935 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
43295869 AAAATTAATT
43295879 AAAAAAAACAACA-CAA
1 AAAAAAAACAACACCAA
*
43295895 AAAAAAAAAAACAGCCCAA
1 AAAAAAAACAACA--CCAA
* *
43295914 AAAAAAACCAA-AGCAA
1 AAAAAAAACAACACCAA
43295930 AAAAAA
1 AAAAAA
43295936 GCAGCCCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 21 0.62
18 1 0.03
19 12 0.35
ACGTcount: A:0.79, C:0.18, G:0.04, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAACACCAA
Found at i:43295903 original size:19 final size:19
Alignment explanation
Indices: 43295879--43295920 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
43295869 AAAATTAATT
43295879 AAAAAAAACAACACAAAAA
1 AAAAAAAACAACACAAAAA
* *
43295898 AAAAAAAACAGCCCAAAAA
1 AAAAAAAACAACACAAAAA
43295917 AAAA
1 AAAA
43295921 CCAAAGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAACACAAAAA
Found at i:43295915 original size:15 final size:15
Alignment explanation
Indices: 43295897--43295966 Score: 70
Period size: 15 Copynumber: 4.6 Consensus size: 15
43295887 CAACACAAAA
43295897 AAAAAAAAACAGCCC
1 AAAAAAAAACAGCCC
***
43295912 AAAAAAAAACCAAAGC
1 AAAAAAAAA-CAGCCC
*
43295928 AAAAAAAAGCAGCCC
1 AAAAAAAAACAGCCC
*
43295943 AAAAAGAAAA-GGCCC
1 AAAAA-AAAACAGCCC
43295958 AAAAAAAAA
1 AAAAAAAAA
43295967 GAAGAAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
14 4 0.09
15 26 0.59
16 14 0.32
ACGTcount: A:0.70, C:0.20, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAGCCC
Found at i:43295916 original size:31 final size:31
Alignment explanation
Indices: 43295880--43295952 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
43295870 AAATTAATTA
43295880 AAAAAAACAACACAAA-AAAAAAAAAACAGCCC
1 AAAAAAA-AAC-CAAAGAAAAAAAAAACAGCCC
* *
43295912 AAAAAAAAACCAAAGCAAAAAAAAGCAGCCC
1 AAAAAAAAACCAAAGAAAAAAAAAACAGCCC
43295943 AAAAAGAAAA
1 AAAAA-AAAA
43295953 GGCCCAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 4 0.11
31 22 0.59
32 11 0.30
ACGTcount: A:0.74, C:0.19, G:0.07, T:0.00
Consensus pattern (31 bp):
AAAAAAAAACCAAAGAAAAAAAAAACAGCCC
Found at i:43296105 original size:15 final size:15
Alignment explanation
Indices: 43296085--43296182 Score: 110
Period size: 15 Copynumber: 6.5 Consensus size: 15
43296075 CAGGCCAGGA
* *
43296085 AAAAAAGAGAGAAAG
1 AAAAAAGAAAAAAAG
43296100 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
43296115 AAAGAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
43296130 AAAAGAGAAAAAAAGG
1 AAAAAAGAAAAAAA-G
*
43296146 AAAAAAGGAAAAAAG
1 AAAAAAGAAAAAAAG
*
43296161 AAGAAAA-AAAGAAA-
1 AA-AAAAGAAAAAAAG
43296175 AAAAAAGA
1 AAAAAAGA
43296183 GTTTCAATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
13 4 0.06
14 3 0.04
15 47 0.66
16 17 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:43296111 original size:8 final size:8
Alignment explanation
Indices: 43296083--43296178 Score: 99
Period size: 8 Copynumber: 12.0 Consensus size: 8
43296073 AGCAGGCCAG
43296083 GAAAAAAA
1 GAAAAAAA
* *
43296091 GAGAGAAA
1 GAAAAAAA
43296099 G-AAAAAA
1 GAAAAAAA
43296106 GAAAAAAA
1 GAAAAAAA
*
43296114 G-AAAGAA
1 GAAAAAAA
43296121 GAAAAAAA
1 GAAAAAAA
*
43296129 G-AAAAGA
1 GAAAAAAA
43296136 GAAAAAAA
1 GAAAAAAA
*
43296144 GGAAAAAAG
1 -GAAAAAAA
43296153 GAAAAAAGAA
1 G-AAAAA-AA
43296163 GAAAAAAA
1 GAAAAAAA
43296171 GAAAAAAA
1 GAAAAAAA
43296179 AAGAGTTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
7 17 0.24
8 36 0.50
9 17 0.24
10 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:43296113 original size:23 final size:23
Alignment explanation
Indices: 43296083--43296182 Score: 102
Period size: 22 Copynumber: 4.4 Consensus size: 23
43296073 AGCAGGCCAG
*
43296083 GAAAAAAAGAGAGAAAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
43296106 GAAAAAAAGAAAG-AAGAAAAAA
1 GAAAAAAAGAAAGAAAGAAAAAA
* *
43296128 -AGAAAAGAGAAAAAAAGGAAAAAA
1 GA-AAAAAAGAAAGAAA-GAAAAAA
*
43296152 GGAAAAAAG-AAGAAA-AAAAGAA
1 GAAAAAAAGAAAGAAAGAAAA-AA
43296174 -AAAAAAAGA
1 GAAAAAAAGA
43296183 GTTTCAATTC
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
21 12 0.19
22 20 0.31
23 19 0.30
24 13 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
GAAAAAAAGAAAGAAAGAAAAAA
Found at i:43296140 original size:27 final size:26
Alignment explanation
Indices: 43296083--43296178 Score: 94
Period size: 26 Copynumber: 3.7 Consensus size: 26
43296073 AGCAGGCCAG
43296083 GAAAAAAAGAGAGAAAGAAAA-AAGAAAA
1 GAAAAAAAGA-AGAAA-AAAAGAA-AAAA
* *
43296111 -AAAGAAAGAAGAAAAAAAGAAAAGA
1 GAAAAAAAGAAGAAAAAAAGAAAAAA
*
43296136 GAAAAAAAG--GAAAAAAGGAAAAAA
1 GAAAAAAAGAAGAAAAAAAGAAAAAA
43296160 GAAGAAAAA-AAGAAAAAAA
1 GAA-AAAAAGAAGAAAAAAA
43296179 AAGAGTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
24 16 0.28
25 12 0.21
26 21 0.37
27 8 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (26 bp):
GAAAAAAAGAAGAAAAAAAGAAAAAA
Found at i:43296768 original size:20 final size:22
Alignment explanation
Indices: 43296727--43296769 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
43296717 AATTTTGTGT
*
43296727 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
43296749 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
43296769 A
1 A
43296770 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:43296801 original size:219 final size:219
Alignment explanation
Indices: 43296383--43296806 Score: 472
Period size: 219 Copynumber: 1.9 Consensus size: 219
43296373 TTTTAGATAA
* *
43296383 TTTTAATAAATAAGGCAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGGGTG
1 TTTTAATAAATAAGACAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGAGTG
* *
43296448 AATATCACCGGTTCGCGTTAAAATCGATACGCCCTTTTTAAAATAAAAAATATTAAAAAAAAGTC
66 AATATCACCGATTCGCGTTAAAATCGATACGCCCTTTTAAAAATAAAAAATATTAAAAAAAAGTC
** * *
43296513 TCATATTTACAAAAAAAAAATTTTTATTTTTCAAAACTTTTCGTGCCTTCAAAAATTTTTCTCGT
131 TCATATTTACAAAAAAAAAA-TTCCATTTTCCAAAACTTTTAGTGCCTTCAAAAATTTTTCTCGT
43296578 GTTTCAAAAAAAAATATATTCGTGT
195 GTTTCAAAAAAAAATATATTCGTGT
* * * * *
43296603 TTTTAA-AAATAAGACAATGAATCGATTTGACACT-AATTCGTTGATTTCATTGCTATGTTGAGT
1 TTTTAATAAATAAGACAACGAATCGATTTAACA-TAAAATCGTTGATTTCATCGCTACGTTGAGT
* ** * * *
43296666 GAATATCACCGATTCGTGTT-AAATACGATACG-TGTTTAATAAAAAATCAAAAATTTTGTGTAA
65 GAATATCACCGATTCGCGTTAAAAT-CGATACGCCCTTT--T-AAAAAT-AAAAAATAT-T-AAA
* * * *
43296729 AAAAA-TC-CAGTGTTTTCAAAAAAAAAA-TCCATTTTCCAAAATTTTTAGTGTCTTCTAAAAA-
123 AAAAAGTCTCA-TATTTACAAAAAAAAAATTCCATTTTCCAAAACTTTTAGTGCCTTC-AAAAAT
43296790 TTTT-T-GTGTTTCAAAAA
186 TTTTCTCGTGTTTCAAAAA
43296807 TTTTCGTTTT
Statistics
Matches: 171, Mismatches: 23, Indels: 21
0.80 0.11 0.10
Matches are distributed among these distances:
218 7 0.04
219 85 0.50
220 9 0.05
221 31 0.18
222 14 0.08
223 18 0.11
224 7 0.04
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (219 bp):
TTTTAATAAATAAGACAACGAATCGATTTAACATAAAATCGTTGATTTCATCGCTACGTTGAGTG
AATATCACCGATTCGCGTTAAAATCGATACGCCCTTTTAAAAATAAAAAATATTAAAAAAAAGTC
TCATATTTACAAAAAAAAAATTCCATTTTCCAAAACTTTTAGTGCCTTCAAAAATTTTTCTCGTG
TTTCAAAAAAAAATATATTCGTGT
Found at i:43296839 original size:18 final size:17
Alignment explanation
Indices: 43296765--43296927 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
43296755 ATCCATTTTC
* *
43296765 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
43296783 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
43296801 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
43296817 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
43296834 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
43296852 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
43296869 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
43296887 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
**
43296904 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
43296922 CAAAAA
1 CAAAAA
43296928 AAAATCTCGT
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 51 0.43
18 41 0.34
19 12 0.10
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:43296927 original size:35 final size:34
Alignment explanation
Indices: 43296765--43296927 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
43296755 ATCCATTTTC
* * * *
43296765 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
43296801 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
43296834 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
43296869 CAAAAATCCTCTTGTTTTCAAAAATTTCGGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTC-GTGTTT
**
43296904 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
43296928 AAAATCTCGT
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 9 0.08
35 60 0.57
36 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:43298336 original size:22 final size:22
Alignment explanation
Indices: 43298293--43298336 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
43298283 CCTATACTAT
* *
43298293 TCTGTCAAAAAACAAAGCGAAA
1 TCTGACAAAAAACAAAGAGAAA
43298315 TCTGACAAAAAAGCAAA-AGAAA
1 TCTGACAAAAAA-CAAAGAGAAA
43298337 ACAACCCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.11
Consensus pattern (22 bp):
TCTGACAAAAAACAAAGAGAAA
Found at i:43298561 original size:166 final size:167
Alignment explanation
Indices: 43298379--43298717 Score: 567
Period size: 166 Copynumber: 2.0 Consensus size: 167
43298369 ACATATGGGC
43298379 TTTCATCGGTGTTGTTTCAAGCATTCTTTTCATTTTCCATGCTAAAAAATTACAAGCAAATCGAA
1 TTTCATCGGTGTTGTTTCAAGCATTCTTTTCATTTTCCATGCTAAAAAATTACAAGCAAATCGAA
*
43298444 AGAAAAGGAGGGAAAAAAAAGAAATA-G-G-TCACCTTTCGATAATTTTTTGATTTCTTTTTTTC
66 AGAAAAGG-GGG-AAAAAAAGAAATAGGTGATCACCTTTCGATAATTTTTTGATTTCTCTTTTTC
* *
43298506 TGCTATTTAATATGCGTATTTCAATATGCGTAAAAAAAA
129 TACTATTTAATATGCATATTTCAATATGCGTAAAAAAAA
43298545 TTTCATCGGTGTTGTTTCAAGCATTCTTTTCATTTTCCATGCTAAAAAATTACAAGCAAATCGAA
1 TTTCATCGGTGTTGTTTCAAGCATTCTTTTCATTTTCCATGCTAAAAAATTACAAGCAAATCGAA
43298610 AGAAAAGGGGGAAAAAAAGAAATAGGATTTGAAATCACCTTTCGATAATTTTTTGATTTCTCTTT
66 AGAAAAGGGGGAAAAAAAGAAATAGG---TG--ATCACCTTTCGATAATTTTTTGATTTCTCTTT
43298675 TTCTACTATTTAATATGCATATTTCAATATGCGTAAAAAAAA
126 TTCTACTATTTAATATGCATATTTCAATATGCGTAAAAAAAA
43298717 T
1 T
43298718 ACAATGAAGA
Statistics
Matches: 162, Mismatches: 3, Indels: 10
0.93 0.02 0.06
Matches are distributed among these distances:
164 13 0.08
165 4 0.02
166 73 0.45
169 1 0.01
172 71 0.44
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (167 bp):
TTTCATCGGTGTTGTTTCAAGCATTCTTTTCATTTTCCATGCTAAAAAATTACAAGCAAATCGAA
AGAAAAGGGGGAAAAAAAGAAATAGGTGATCACCTTTCGATAATTTTTTGATTTCTCTTTTTCTA
CTATTTAATATGCATATTTCAATATGCGTAAAAAAAA
Found at i:43300779 original size:44 final size:44
Alignment explanation
Indices: 43300635--43301169 Score: 204
Period size: 44 Copynumber: 11.6 Consensus size: 44
43300625 TTCAATCTGT
* *
43300635 TCCACTGCAA-TATCAGAGAGATAAGATTTGTAGCTTTAATATGC
1 TCCACTGCAACT-TCAGAGAGATAAGATTTGTAGCTTTAATCTAC
* * * * * * **
43300679 TCTACTACAACCTCAGAGAGATAAGATTTACTATCCTCGATCTAC
1 TCCACTGCAACTTCAGAGAGATAAGATTT-GTAGCTTTAATCTAC
* * * *
43300724 TTCTCTGCAACTTCAGAGAGATAAGATCTGTGGCTTTAATCTAC
1 TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTAC
* * * *
43300768 TCCACTGCAACTTTAGGGAGATAAGATTCGCCATAATAACTTTAATTCGTCCCAC
1 TCCACTGCAACTTCAGAGAGATAAGATT-----T-GTAGCTTTAA-TC-T---AC
* * **
43300823 TGCTCAGCTGCAACTTCAG-GTAGATAA-AGTCTGTGGCTTTAATCTGT
1 T-C-CA-CTGCAACTTCAGAG-AGATAAGA-TTTGTAGCTTTAATCTAC
* * * * * * *
43300870 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTAC
* * **
43300914 TCCACTACAACTTCA-AGGAGATAAGATTTGTAACTTGATAACTTTAATATGT
1 TCCACTGCAACTTCAGA-GAGATAAGATTTGT-A---G----CTTTAATCTAC
* * * * * * * *
43300966 TCCACTGTAGCCTCAGGGA-AGTAAGATTTGCTATCATCAACCTAC
1 TCCACTGCAACTTCAGAGAGA-TAAGATTTG-TAGCTTTAATCTAC
* * *
43301011 TCCACTGCAACTTCA-AGGAGATAAGGTTTATAGCTTTAATCTGC
1 TCCACTGCAACTTCAGA-GAGATAAGATTTGTAGCTTTAATCTAC
* * * *
43301055 TCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTTGATCTAA
1 TCCACTGCAACTTCAGAGAGATAAGATTTG-TAGCTTTAATCTAC
* * * * * * *
43301100 TCTAGTACAACTTTA-AGGAGATAAGATATGTGGCTTTGATCTGA-
1 TCCACTGCAACTTCAGA-GAGATAAGATTTGTAGCTTTAATCT-AC
* *
43301144 TCCACTACAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGAGAGATAAGA
43301170 CTTGCCACAA
Statistics
Matches: 358, Mismatches: 94, Indels: 78
0.68 0.18 0.15
Matches are distributed among these distances:
44 177 0.49
45 98 0.27
46 2 0.01
47 1 0.00
49 1 0.00
50 8 0.02
51 5 0.01
52 38 0.11
53 2 0.01
55 3 0.01
56 1 0.00
57 4 0.01
58 18 0.05
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTAC
Found at i:43301190 original size:89 final size:89
Alignment explanation
Indices: 43301018--43301182 Score: 197
Period size: 89 Copynumber: 1.9 Consensus size: 89
43301008 TACTCCACTG
* * * * * *
43301018 CAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
1 CAACTTCAAGGAGATAAGATATATAGCTTTAATCTGATCCACTACAACTTCAGAGAGATAAGACT
* **
43301083 TGCTATCTTTGATCTAATCTAGTA
66 TGCCATCAATGATCTAATCTAGTA
* * * * *
43301107 CAACTTTAAGGAGATAAGATATGTGGCTTTGATCTGATCCACTACAACTTCAGGGAGATAAGACT
1 CAACTTCAAGGAGATAAGATATATAGCTTTAATCTGATCCACTACAACTTCAGAGAGATAAGACT
43301172 TGCCA-CAATGA
66 TGCCATCAATGA
43301183 CTTTAATCCA
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
88 4 0.06
89 58 0.94
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (89 bp):
CAACTTCAAGGAGATAAGATATATAGCTTTAATCTGATCCACTACAACTTCAGAGAGATAAGACT
TGCCATCAATGATCTAATCTAGTA
Found at i:43313106 original size:34 final size:33
Alignment explanation
Indices: 43313034--43313108 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
43313024 TTCTAAAATT
* *
43313034 ATATAAAAGGATATAAAATAAATGGTAAAGTAA
1 ATATAAAAGGATATAAAAAAAATGGTAAAGCAA
* *
43313067 A-ATAAATGTATATAAAAAAAATTAGGTAAA-CAA
1 ATATAAAAGGATATAAAAAAAA-T-GGTAAAGCAA
43313100 ATATAAAAG
1 ATATAAAAG
43313109 AAATATAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
32 17 0.50
33 5 0.15
34 12 0.35
ACGTcount: A:0.63, C:0.01, G:0.12, T:0.24
Consensus pattern (33 bp):
ATATAAAAGGATATAAAAAAAATGGTAAAGCAA
Found at i:43315768 original size:17 final size:17
Alignment explanation
Indices: 43315746--43315783 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
43315736 TTCATTCCCC
*
43315746 TTAGGTATTTAGGGTTT
1 TTAGGTATTTAGGGGTT
43315763 TTAGGTATTTAGGGGTT
1 TTAGGTATTTAGGGGTT
43315780 TTAG
1 TTAG
43315784 TTCATAACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (17 bp):
TTAGGTATTTAGGGGTT
Found at i:43327728 original size:22 final size:22
Alignment explanation
Indices: 43327700--43327741 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43327690 AGACTTTGAA
*
43327700 TTTGTATATGATATGCTCTATG
1 TTTGTATATAATATGCTCTATG
*
43327722 TTTGTATCTAATATGCTCTA
1 TTTGTATATAATATGCTCTA
43327742 AATCTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (22 bp):
TTTGTATATAATATGCTCTATG
Found at i:43334117 original size:6 final size:6
Alignment explanation
Indices: 43334108--43334152 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
43334098 TTTTGTTTTA
* * * *
43334108 TTTATT TTTATT TTTAGT TGTAAT TTTATT TTTATT GTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
43334153 TTATTTGTGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:43334136 original size:18 final size:17
Alignment explanation
Indices: 43334103--43334151 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
43334093 TAGTTTTTTG
*
43334103 TTTTATT-TATTTTTAT
1 TTTTATTGTAATTTTAT
43334119 TTTTAGTTGTAATTTTAT
1 TTTTA-TTGTAATTTTAT
*
43334137 TTTTATTGTTATTTT
1 TTTTATTGTAATTTT
43334152 TTTATTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 5 0.17
17 11 0.38
18 13 0.45
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTATTGTAATTTTAT
Found at i:43334152 original size:18 final size:19
Alignment explanation
Indices: 43334109--43334152 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
43334099 TTTGTTTTAT
43334109 TTATTTTTATTTTTAGTTG
1 TTATTTTTATTTTTAGTTG
*
43334128 -TAATTTTATTTTTA-TTG
1 TTATTTTTATTTTTAGTTG
43334145 TTATTTTT
1 TTATTTTT
43334153 TTATTTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (19 bp):
TTATTTTTATTTTTAGTTG
Found at i:43335104 original size:16 final size:16
Alignment explanation
Indices: 43335083--43335116 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43335073 CACTCGTAAA
43335083 AAGAAAAA-AAAGAAAG
1 AAGAAAAAGAAA-AAAG
43335099 AAGAAAAAGAAAAAAG
1 AAGAAAAAGAAAAAAG
43335115 AA
1 AA
43335117 ATGAAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAAAAAG
Found at i:43335127 original size:22 final size:22
Alignment explanation
Indices: 43335078--43335128 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
43335068 TACTTCACTC
43335078 GTAAAAAGAAAAAAAAGAAAGAA
1 GTAAAAAG-AAAAAAAGAAAGAA
43335101 G-AAAAAG-AAAAAAGAAATGAA
1 GTAAAAAGAAAAAAAGAAA-GAA
43335122 GTAAAAA
1 GTAAAAA
43335129 AATTTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 10 0.38
21 4 0.15
22 11 0.42
23 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (22 bp):
GTAAAAAGAAAAAAAGAAAGAA
Found at i:43336783 original size:56 final size:56
Alignment explanation
Indices: 43336697--43336809 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
43336687 GCTAAGTTAA
* * *
43336697 GAAATTGTGTACTTTAAATTGATAGTGACAGATGAAATCTAGGTGAATTCTTTCCT
1 GAAATTGAGTAATTTAAATTGATAGTGACAGATGAAAGCTAGGTGAATTCTTTCCT
*
43336753 GAAATTGAGTAATTTAGATTGATAGTGACAGATGAAAGCTAGGTGAATTCTTTCCT
1 GAAATTGAGTAATTTAAATTGATAGTGACAGATGAAAGCTAGGTGAATTCTTTCCT
43336809 G
1 G
43336810 GGTATTGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (56 bp):
GAAATTGAGTAATTTAAATTGATAGTGACAGATGAAAGCTAGGTGAATTCTTTCCT
Found at i:43343918 original size:14 final size:14
Alignment explanation
Indices: 43343899--43343937 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
43343889 AAAGTTTGGC
43343899 ATGAGTAATAAATT
1 ATGAGTAATAAATT
* *
43343913 ATGAGTATTCAATT
1 ATGAGTAATAAATT
*
43343927 ATGAATAATAA
1 ATGAGTAATAA
43343938 TTAGTTATGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (14 bp):
ATGAGTAATAAATT
Found at i:43344631 original size:10 final size:9
Alignment explanation
Indices: 43344606--43344630 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43344596 TTATTATTTA
43344606 TTAAAAATT
1 TTAAAAATT
43344615 TTAAAAATT
1 TTAAAAATT
43344624 TTAAAAA
1 TTAAAAA
43344631 AATTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTAAAAATT
Found at i:43344643 original size:18 final size:18
Alignment explanation
Indices: 43344601--43344643 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
43344591 TAATTTTATT
**
43344601 ATTTATTAAAAATTTTAAA
1 ATTT-TTAAAAAAATTAAA
*
43344620 AATTTTAAAAAAATTAAA
1 ATTTTTAAAAAAATTAAA
43344638 ATTTTT
1 ATTTTT
43344644 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTTAAAAAAATTAAA
Found at i:43345011 original size:11 final size:10
Alignment explanation
Indices: 43344977--43345042 Score: 50
Period size: 9 Copynumber: 6.9 Consensus size: 10
43344967 AAAAAACTAT
43344977 AAAAT-TATA
1 AAAATATATA
*
43344986 AAAATACA-A
1 AAAATATATA
43344995 AAAATATATA
1 AAAATATATA
*
43345005 TAAA-ATATA
1 AAAATATATA
*
43345014 AAAATTTACT-
1 AAAATATA-TA
* *
43345024 AAAATTTTTA
1 AAAATATATA
43345034 AAAATATAT
1 AAAATATAT
43345043 TGGATATTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
9 22 0.50
10 21 0.48
11 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATATA
Found at i:43345617 original size:27 final size:29
Alignment explanation
Indices: 43345574--43345636 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 29
43345564 CAAGTTACAC
* *
43345574 AATTTTTACTAGTTTTTA-ACTTTTT-TT
1 AATTTTTACTAGTTTTTATAATTTTTAAT
*
43345601 AATTTTTAC-CGTCTTTTATAATTTTTAAT
1 AATTTTTACTAGT-TTTTATAATTTTTAAT
43345630 AATTTTT
1 AATTTTT
43345637 TACATAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 14 0.47
28 6 0.20
29 8 0.27
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.63
Consensus pattern (29 bp):
AATTTTTACTAGTTTTTATAATTTTTAAT
Found at i:43345631 original size:10 final size:10
Alignment explanation
Indices: 43345614--43345674 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
43345604 TTTTACCGTC
43345614 TTTT-ATAAT
1 TTTTAATAAT
43345623 TTTTAATAATT
1 TTTTAATAA-T
43345634 TTTTACATAA-
1 TTTTA-ATAAT
*
43345644 --TTAACAAT
1 TTTTAATAAT
*
43345652 TTCTAATAAT
1 TTTTAATAAT
43345662 TTTTAATAAT
1 TTTTAATAAT
43345672 TTT
1 TTT
43345675 ATTATTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
7 3 0.07
8 3 0.07
9 4 0.10
10 22 0.52
11 6 0.14
12 4 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:43346311 original size:13 final size:13
Alignment explanation
Indices: 43346291--43346330 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
43346281 ATTTTGATTC
43346291 TATTAAAAAATTA
1 TATTAAAAAATTA
*
43346304 TTTTAAAAAATATA
1 TATTAAAAAAT-TA
*
43346318 TAATAAAAAATTA
1 TATTAAAAAATTA
43346331 AAATTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAAAAAATTA
Found at i:43348606 original size:22 final size:21
Alignment explanation
Indices: 43348577--43348618 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
43348567 AATGAATAAT
43348577 ATAAACAATTTAAAACAAATC
1 ATAAACAATTTAAAACAAATC
* *
43348598 ATAAGACAATTTTAAATAAAT
1 ATAA-ACAATTTAAAACAAAT
43348619 AATACATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAAACAATTTAAAACAAATC
Found at i:43348922 original size:22 final size:21
Alignment explanation
Indices: 43348881--43348922 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43348871 AAAATAAATT
* *
43348881 ATAATAAAAGGTTTACAATAA
1 ATAATAAAAGATTTAAAATAA
43348902 ATAATAAAAGAATTTAAAATA
1 ATAATAAAAG-ATTTAAAATA
43348923 GTTAACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (21 bp):
ATAATAAAAGATTTAAAATAA
Found at i:43349052 original size:26 final size:25
Alignment explanation
Indices: 43349022--43349084 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
43349012 AAAAAACTTC
* * *
43349022 AAAATAAATCATATGTATAATAGTTT
1 AAAATAAATAATATATATAA-AATTT
43349048 AAAATAAATAATATATATAAAATTT
1 AAAATAAATAATATATATAAAATTT
*
43349073 AAAATGAATAAT
1 AAAATAAATAAT
43349085 GGTTTAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 15 0.45
26 18 0.55
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
AAAATAAATAATATATATAAAATTT
Found at i:43349082 original size:25 final size:26
Alignment explanation
Indices: 43348962--43349084 Score: 108
Period size: 25 Copynumber: 4.7 Consensus size: 26
43348952 ACATGTAAGA
*
43348962 AATTTAAAA-AAATAATATATAAAAT
1 AATTTAAAATAAATAATATATATAAT
* *
43348987 AGTTTAAAATAAA-AAGGTATATATAAAAA
1 AATTTAAAATAAATAA--TATATAT--AAT
* * *
43349016 AACTTCAAAATAAATCATATGTATAAT
1 AA-TTTAAAATAAATAATATATATAAT
*
43349043 AGTTTAAAATAAATAATATATATAA-
1 AATTTAAAATAAATAATATATATAAT
*
43349068 AATTTAAAATGAATAAT
1 AATTTAAAATAAATAAT
43349085 GGTTTAAAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
25 25 0.32
26 23 0.30
27 9 0.12
29 9 0.12
30 10 0.13
31 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTTAAAATAAATAATATATATAAT
Found at i:43350688 original size:44 final size:44
Alignment explanation
Indices: 43350552--43351501 Score: 214
Period size: 44 Copynumber: 20.6 Consensus size: 44
43350542 CTTTGATCTA
** * * * *
43350552 CTCCACTATAACTTCAGGGAGATCAGACCTATAACTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTG
* * * * * * *
43350596 CTCTATTCCAACTTCAGGGAGATCAGATTTGTTAACTT-TAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACT-TG
*
43350641 CTCCACTGCAACCTCAGGGAGATAAGACTTGTAACTTCAACTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTG
* * ** * ** *
43350685 CTCCACTGTAACTTCAAGGAGATAAGGTTTATTGCTTTAA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACT-TG
* * ** * * * *
43350729 CTCTACTGTAACTTCAAAGAGATAAGATTTCCTATCTTC-AGTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAACTTG
* ** ** * *
43350773 TTCCACTGCAACTTCAGGGAGATAAGTTTTGTGGCTTTCATC-TA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC-TTCAACTTG
* ** * *
43350817 CTCCACTACAACTTCATTGAGATAAGA-TTCGCAA-TGAT-AGATTTGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACT--TCA-ACTT-G
* * *
43350863 TCCGACCTACTGCAACTTCAGAGG-TATAGGACTTGTAAC-TCATAACTTTAATCTG
1 --C-TCC-ACTGCAACTTCAG-GGAGATAAGACTTGTAACTTC--AAC-----T-TG
* * * * * * *
43350918 TTCCACTGCAACTTCAGGGAAACAAGATTTGCTATCTTC-AGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACT-TG
* * *
43350963 CTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTG
* * * * ** *
43351007 TTCCACTGCAACTTTAAGGAGATAAG-GTTCGTGGCTTTAA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAACT-TG
* * * *
43351051 CTCCACTGTAACTTCAGGGAGATAGGATTTGCCATGATAACTTCGA-TATG
1 CTCCACTGCAACTTCAGGGAGATA--A---GACTTG-TAACTTCAACT-TG
* * * * * **
43351101 CTCTACTGTAACTTTAGGGAGATAAAATTTGTGGCTTCAA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACT-TG
* * * *
43351145 CTCCACTACAACTTCAAGGAGATAAGATTCGCCATGATAACTGCAA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----CTTG-TAACTTCAACT-TG
* * ** * * * **
43351195 CTCCATTGCAACTTTAATGAGATAAAATTTATGGCTTCAA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACT-TG
** * *
43351239 CTCCACTGCAACTTCAAAGAGATAAGATTCGCCATGATAACTTCGA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----CTTG-TAACTTCAACT-TG
* * * **
43351289 CTCTACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACT-TG
* * *
43351333 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATGGTAACTTCGA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----C-TTGTAACTTCAACT-TG
* * * **
43351383 CTCTACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACT-TG
**
43351427 CTCCACTGCAACTTCAGGGAGATAAGATTCGCTATGGTAACTTTGA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGA----CT-T-GTAACTTCAACT-TG
43351477 CTCCACTGCAACTTCAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
43351502 AATTTGTGAT
Statistics
Matches: 658, Mismatches: 181, Indels: 128
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.00
43 8 0.01
44 340 0.52
45 76 0.12
46 1 0.00
48 4 0.01
49 8 0.01
50 186 0.28
51 24 0.04
52 5 0.01
53 2 0.00
55 2 0.00
56 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTG
Found at i:43350706 original size:89 final size:88
Alignment explanation
Indices: 43350542--43350843 Score: 237
Period size: 88 Copynumber: 3.4 Consensus size: 88
43350532 GGAATTAGTG
* * ** * * * * * * *
43350542 CTTTGATCTACTCCACTATAACTTCAGGGAGATCAGACCTATAACTTCAATTTGCTCTATTCCAA
1 CTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAACTTCAACTTGCTCCACTGCAA
*
43350607 CTTCAGGGAGATCAGATTTGTTAA
66 CTTCAGGGAGATAAGATTTGTT-A
* * *
43350631 CTTTAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGTAA
1 CTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAACTTCAACTTGCTCCACTGCAA
* * * *
43350696 CTTCAAGGAGATAAGGTTTATTG
66 CTTCAGGGAGATAAGATTTGTTA
* * * ** * * * * *
43350719 CTTTAATCTGCTCTACTGTAACTTCAAAGAGATAAGATTTCCTATCTTC-AGTTGTTCCACTGCA
1 CTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTT-ATAACTTCAACTTGCTCCACTGCA
* **
43350783 ACTTCAGGGAGATAAGTTTTGTGG
65 ACTTCAGGGAGATAAGATTTGTTA
* * * * **
43350807 CTTTCATCTACTCCACTACAACTTCATTGAGATAAGA
1 CTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGA
43350844 TTCGCAATGA
Statistics
Matches: 170, Mismatches: 42, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
88 95 0.56
89 75 0.44
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (88 bp):
CTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAACTTCAACTTGCTCCACTGCAA
CTTCAGGGAGATAAGATTTGTTA
Found at i:43351125 original size:94 final size:94
Alignment explanation
Indices: 43351011--43351509 Score: 737
Period size: 94 Copynumber: 5.3 Consensus size: 94
43351001 AACCTATTCC
* * ** * * * *
43351011 ACTGCAACTTTAAGGAGATAAGGTTCGTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAG
1 ACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
*
43351076 GATTTGCCATGATAACTTCGATATGCTCT
66 GATTCGCCATGATAACTTCGATATGCTCT
* * * *
43351105 ACTGTAACTTTAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTACAACTTCAAGGAGATAA
1 ACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
43351170 GATTCGCCATGATAACTGCAATATGCTCC
66 GATTCGCCATGATAACTTCGATATGCTCT
* * ** * **
43351199 ATTGCAACTTTAATGAGATAAAATTTATGGCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAA
1 ACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
43351264 GATTCGCCATGATAACTTCGATATGCTCT
66 GATTCGCCATGATAACTTCGATATGCTCT
*
43351293 ACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
*
43351358 GATTCGCCATGGTAACTTCGATATGCTCT
66 GATTCGCCATGATAACTTCGATATGCTCT
43351387 ACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
43351452 GATTCGCTATGGTAACTTTGATATGCTCC
66 GATTCGCCATGATAACTTCGATATGCTCT
43351481 ACTGCAACTTCAGGGAGATAAAATTTGTG
1 ACTGCAACTTCAGGGAGATAAAATTTGTG
43351510 ATTTCTTCCA
Statistics
Matches: 368, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 368 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (94 bp):
ACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTCGCCATGATAACTTCGATATGCTCT
Found at i:43351563 original size:46 final size:45
Alignment explanation
Indices: 43351527--43351651 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 45
43351517 CCATGCATCT
*
43351527 CACTGCAACTCAGAGGTATAGGATTTGTATCATCTTCAATCCAGC
1 CACTACAACTCAGAGGTATAGGATTTGTATCATCTTCAATCCAGC
*
43351572 CTACTACAACCCA-AGGGTATAGGATTTGTATCATCTTCAATCCAGCC
1 C-ACTACAACTCAGA-GGTATAGGATTTGTATCATCTTCAATCCAG-C
43351619 CACTACAACTCACG-GGTATAGGATTTGTATCAT
1 CACTACAACTCA-GAGGTATAGGATTTGTATCAT
43351652 TGATCTATTA
Statistics
Matches: 72, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
45 2 0.03
46 68 0.94
47 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (45 bp):
CACTACAACTCAGAGGTATAGGATTTGTATCATCTTCAATCCAGC
Found at i:43352497 original size:6 final size:6
Alignment explanation
Indices: 43352488--43352626 Score: 109
Period size: 6 Copynumber: 23.2 Consensus size: 6
43352478 CTCCTTTTTA
* * **
43352488 TTTTCC TTTTCT TTTTCT TTTTCT TCTTT-T TCTTCT TCCTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTTCT TTTTCT
* * * * * * *
43352536 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TTTTCT TCTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* * * * * *
43352584 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TTTTCT TCTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
43352627 ATTTATTTAT
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
5 2 0.02
6 116 0.96
7 3 0.02
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCT
Found at i:43352510 original size:12 final size:12
Alignment explanation
Indices: 43352496--43352626 Score: 199
Period size: 12 Copynumber: 10.9 Consensus size: 12
43352486 TATTTTCCTT
* *
43352496 TTCTTTTTCTTT
1 TTCTTCTTCTTC
*
43352508 TTCTTCTTTTTC
1 TTCTTCTTCTTC
* *
43352520 TTCTTCCTCTTT
1 TTCTTCTTCTTC
43352532 TTCTTCTTCTTC
1 TTCTTCTTCTTC
43352544 TTCTTCTTCTTC
1 TTCTTCTTCTTC
43352556 TTCTTCTTCTTC
1 TTCTTCTTCTTC
*
43352568 TTCTTTTTCTTC
1 TTCTTCTTCTTC
43352580 TTCTTCTTCTTC
1 TTCTTCTTCTTC
43352592 TTCTTCTTCTTC
1 TTCTTCTTCTTC
*
43352604 TTCTTCTTCTTT
1 TTCTTCTTCTTC
43352616 TTCTTCTTCTT
1 TTCTTCTTCTT
43352627 ATTTATTTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 108 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTCTTCTTCTTC
Found at i:43352516 original size:9 final size:9
Alignment explanation
Indices: 43352496--43352626 Score: 199
Period size: 9 Copynumber: 14.6 Consensus size: 9
43352486 TATTTTCCTT
*
43352496 TTCTTTTTC
1 TTCTTCTTC
*
43352505 TTTTTCTTC
1 TTCTTCTTC
*
43352514 TTTTTCTTC
1 TTCTTCTTC
* *
43352523 TTCCTCTTT
1 TTCTTCTTC
43352532 TTCTTCTTC
1 TTCTTCTTC
43352541 TTCTTCTTC
1 TTCTTCTTC
43352550 TTCTTCTTC
1 TTCTTCTTC
43352559 TTCTTCTTC
1 TTCTTCTTC
*
43352568 TTCTTTTTC
1 TTCTTCTTC
43352577 TTCTTCTTC
1 TTCTTCTTC
43352586 TTCTTCTTC
1 TTCTTCTTC
43352595 TTCTTCTTC
1 TTCTTCTTC
43352604 TTCTTCTTC
1 TTCTTCTTC
*
43352613 TTTTTCTTC
1 TTCTTCTTC
43352622 TTCTT
1 TTCTT
43352627 ATTTATTTAT
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 111 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (9 bp):
TTCTTCTTC
Found at i:43352516 original size:15 final size:15
Alignment explanation
Indices: 43352496--43352626 Score: 199
Period size: 15 Copynumber: 8.7 Consensus size: 15
43352486 TATTTTCCTT
* *
43352496 TTCTTTTTCTTTTTC
1 TTCTTCTTCTTCTTC
*
43352511 TTCTTTTTCTTCTTC
1 TTCTTCTTCTTCTTC
* *
43352526 CTCTTTTTCTTCTTC
1 TTCTTCTTCTTCTTC
43352541 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTC
43352556 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTC
*
43352571 TTTTTCTTCTTCTTC
1 TTCTTCTTCTTCTTC
43352586 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTC
*
43352601 TTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTC
43352616 TTCTTCTTCTT
1 TTCTTCTTCTT
43352627 ATTTATTTAT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 109 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTTCTTCTTCTTC
Found at i:43357901 original size:22 final size:21
Alignment explanation
Indices: 43357872--43357913 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
43357862 AATGAATAAT
43357872 ATAAACAATTTAAAACAAATC
1 ATAAACAATTTAAAACAAATC
* *
43357893 ATAAGACAATTTTAAATAAAT
1 ATAA-ACAATTTAAAACAAAT
43357914 AATACATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAAACAATTTAAAACAAATC
Found at i:43358217 original size:22 final size:21
Alignment explanation
Indices: 43358176--43358217 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43358166 AAAATAAATG
* *
43358176 ATAATAAAAGGTTTACAATAA
1 ATAATAAAAGATTTAAAATAA
43358197 ATAATAAAAGAATTTAAAATA
1 ATAATAAAAG-ATTTAAAATA
43358218 GTTAACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (21 bp):
ATAATAAAAGATTTAAAATAA
Found at i:43358370 original size:51 final size:52
Alignment explanation
Indices: 43358256--43358439 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 52
43358246 GACATGTAAG
43358256 AAATTT-AAA-AAATATATATATAAAATAGTTTAAAATAAAGGTATATATAAAA
1 AAATTTAAAATAAATA-ATATATAAAATAGTTTAAAATAAA-GTATATATAAAA
* * * *
43358308 AAACTTCAAAATAAATAATATGTATAATAGTTTAAAATAAA-TA-ATATATATA
1 AAA-TTTAAAATAAATAATATATAAAATAGTTTAAAATAAAGTATATATA-AAA
* * * * *
43358360 AAATTTAAAATGAATAATAGTTTAAAATA-TGTAAAAACTTAAAATACATAATAATAA
1 AAATTTAAAATAAATAATA-TATAAAATAGT-TTAAAA--TAAAGTATAT-ATAA-AA
43358417 AGCAATTTAAAATAAATAATATA
1 A--AATTTAAAATAAATAATATA
43358440 AGAAAAAAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
51 20 0.19
52 22 0.21
53 2 0.02
54 29 0.27
55 7 0.07
56 3 0.03
57 5 0.05
58 1 0.01
59 17 0.16
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (52 bp):
AAATTTAAAATAAATAATATATAAAATAGTTTAAAATAAAGTATATATAAAA
Found at i:43358375 original size:25 final size:25
Alignment explanation
Indices: 43358256--43358378 Score: 101
Period size: 26 Copynumber: 4.8 Consensus size: 25
43358246 GACATGTAAG
43358256 AAATTT-AAA-AAAT-ATATATATAA
1 AAATTTAAAATAAATAATATATAT-A
*
43358279 AATAGTTTAAAATAAAGGT-ATATATAAAA
1 AA-A-TTTAAAATAAA--TAATATAT-ATA
* *
43358308 AAACTTCAAAATAAATAATATGTATA
1 AAA-TTTAAAATAAATAATATATATA
*
43358334 ATAGTTTAAAATAAATAATATATATA
1 A-AATTTAAAATAAATAATATATATA
*
43358360 AAATTTAAAATGAATAATA
1 AAATTTAAAATAAATAATA
43358379 GTTTAAAATA
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.02
24 1 0.01
25 19 0.23
26 28 0.35
27 9 0.11
28 11 0.14
29 10 0.12
30 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (25 bp):
AAATTTAAAATAAATAATATATATA
Found at i:43358471 original size:25 final size:25
Alignment explanation
Indices: 43358392--43358471 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
43358382 TAAAATATGT
*
43358392 AAAAACTTAAAATACATAATAATAA
1 AAAAACTTAAAATAAATAATAATAA
** * *
43358417 AGCAATTTAAAATAAATAATATAAGAAA
1 AAAAACTTAAAATAAAT-A-ATAA-TAA
43358445 AAAAACTTAAAATAAATAATAATAA
1 AAAAACTTAAAATAAATAATAATAA
43358470 AA
1 AA
43358472 GAGTTCCTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
25 17 0.40
26 5 0.12
27 5 0.12
28 16 0.37
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.24
Consensus pattern (25 bp):
AAAAACTTAAAATAAATAATAATAA
Found at i:43361295 original size:15 final size:16
Alignment explanation
Indices: 43361275--43361304 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43361265 TTTTACTTCT
43361275 TCTTCCTTCA-CATCA
1 TCTTCCTTCATCATCA
43361290 TCTTCCTTCATCATC
1 TCTTCCTTCATCATC
43361305 TTAACTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.43
Consensus pattern (16 bp):
TCTTCCTTCATCATCA
Found at i:43363254 original size:21 final size:21
Alignment explanation
Indices: 43363229--43363272 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43363219 TGTATAATTT
43363229 ATCCGGATGAAGTATGTATTA
1 ATCCGGATGAAGTATGTATTA
43363250 ATCCGGATGAAGTATGTATTA
1 ATCCGGATGAAGTATGTATTA
43363271 AT
1 AT
43363273 AGAAAACTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (21 bp):
ATCCGGATGAAGTATGTATTA
Found at i:43363289 original size:61 final size:61
Alignment explanation
Indices: 43363194--43363311 Score: 227
Period size: 61 Copynumber: 1.9 Consensus size: 61
43363184 CAGAAAATCT
43363194 GATGAAGTATGTATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATCCG
1 GATGAAGTATGTATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATCCG
*
43363255 GATGAAGTATGTATTAATAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAA
1 GATGAAGTATGTATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAA
43363312 CAAAAAACTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (61 bp):
GATGAAGTATGTATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATCCG
Found at i:43363295 original size:40 final size:40
Alignment explanation
Indices: 43363250--43363353 Score: 172
Period size: 40 Copynumber: 2.6 Consensus size: 40
43363240 GTATGTATTA
* *
43363250 ATCCGGATGAAGTATGTATTAATAGAAAACTGTATAATTT
1 ATCCGGATGAAGTATGTATTAACAAAAAACTGTATAATTT
43363290 ATCCGGATGAAGTATGTATTAACAAAAAACTGTATAATTT
1 ATCCGGATGAAGTATGTATTAACAAAAAACTGTATAATTT
* *
43363330 AACCGGATAAAGTATGTATTAACA
1 ATCCGGATGAAGTATGTATTAACA
43363354 GATATACTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (40 bp):
ATCCGGATGAAGTATGTATTAACAAAAAACTGTATAATTT
Found at i:43363935 original size:17 final size:17
Alignment explanation
Indices: 43363915--43363947 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43363905 ATAATGAATG
43363915 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
*
43363932 TTATTTAATTATATTT
1 TTATTAAATTATATTT
43363948 AATAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:43364213 original size:16 final size:16
Alignment explanation
Indices: 43364192--43364247 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
43364182 TGAATTACTT
*
43364192 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
*
43364208 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCA
* *
43364224 ATTATAG-TCCTATTCT
1 ATTACAGCT-CTATTCA
43364240 ATTACAGC
1 ATTACAGC
43364248 CAACCATACA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:43364290 original size:31 final size:31
Alignment explanation
Indices: 43364249--43364310 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
43364239 TATTACAGCC
*
43364249 AACCATACATGCTGTAAAGCTTCAGATTAGT
1 AACCAAACATGCTGTAAAGCTTCAGATTAGT
43364280 AACCAAACATGCTGTAAAGCTTCAGATTAGT
1 AACCAAACATGCTGTAAAGCTTCAGATTAGT
43364311 TCAATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (31 bp):
AACCAAACATGCTGTAAAGCTTCAGATTAGT
Found at i:43366088 original size:19 final size:20
Alignment explanation
Indices: 43366064--43366104 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
43366054 AAATTAATTG
*
43366064 TTTT-AAATCATTTTGTATA
1 TTTTAAAATCATTTTGCATA
43366083 TTTTAAAATCATTTTGCATA
1 TTTTAAAATCATTTTGCATA
43366103 TT
1 TT
43366105 AATTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTAAAATCATTTTGCATA
Found at i:43367340 original size:26 final size:26
Alignment explanation
Indices: 43367302--43367367 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
43367292 GTGAGTTCTC
*
43367302 CACAGCTCATGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
*
43367328 CACAGCTCGTGTGAGCAGGCTCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
43367354 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
43367368 ACATTGATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGGCCCATTT
Found at i:43380458 original size:28 final size:27
Alignment explanation
Indices: 43380398--43380462 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
43380388 TCTAAAACTA
*
43380398 TATTTGATTGGGCTAAGGCCCAGACCG
1 TATTTGACTGGGCTAAGGCCCAGACCG
*
43380425 -AGTTTGTACTGGGCTCAGGCCCAG-CCTG
1 TA-TTTG-ACTGGGCTAAGGCCCAGACC-G
43380453 TATTTGACTG
1 TATTTGACTG
43380463 TATTCTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
26 1 0.03
27 10 0.31
28 20 0.62
29 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.29
Consensus pattern (27 bp):
TATTTGACTGGGCTAAGGCCCAGACCG
Found at i:43384054 original size:22 final size:22
Alignment explanation
Indices: 43384026--43384088 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
43384016 AGAATATTAC
43384026 ATAATATACTAAATATTTAATA
1 ATAATATACTAAATATTTAATA
* *
43384048 ATAATATA-TGTATTATTTAATA
1 ATAATATACT-AAATATTTAATA
* *
43384070 ATAATTTAC-AAATTTTTAA
1 ATAATATACTAAATATTTAA
43384089 AATTATACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (22 bp):
ATAATATACTAAATATTTAATA
Found at i:43384153 original size:30 final size:29
Alignment explanation
Indices: 43384100--43384156 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 29
43384090 ATTATACATA
43384100 ATAATAAATAATAAATAATTATATAATGT
1 ATAATAAATAATAAATAATTATATAATGT
43384129 ATAATAGAATAA-AAATAATATATATAAT
1 ATAATA-AATAATAAATAAT-TATATAAT
43384157 AAAATGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
ATAATAAATAATAAATAATTATATAATGT
Found at i:43384155 original size:15 final size:16
Alignment explanation
Indices: 43384097--43384174 Score: 67
Period size: 15 Copynumber: 5.1 Consensus size: 16
43384087 AAAATTATAC
*
43384097 ATAATAATAAATAATAA
1 ATAAT-ATATATAATAA
**
43384114 ATAAT-TATATAATGT
1 ATAATATATATAATAA
*
43384129 ATAATAGA-ATAA-AA
1 ATAATATATATAATAA
43384143 ATAATATATATAAT-A
1 ATAATATATATAATAA
43384158 A-AATGATATATAATAA
1 ATAAT-ATATATAATAA
43384174 A
1 A
43384175 ATGTATAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 10 0.20
15 31 0.63
16 3 0.06
17 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATAATATATATAATAA
Found at i:43384166 original size:17 final size:16
Alignment explanation
Indices: 43384124--43384181 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 16
43384114 ATAATTATAT
*
43384124 AATGTATAATAGAATAAA
1 AATGTAT-ATATAAT-AA
*
43384142 AATAATATATATAATAA
1 AAT-GTATATATAATAA
43384159 AATG-ATATATAATAA
1 AATGTATATATAATAA
43384174 AATGTATA
1 AATGTATA
43384182 AATCAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
15 15 0.43
16 3 0.09
17 5 0.14
18 9 0.26
19 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (16 bp):
AATGTATATATAATAA
Found at i:43384168 original size:19 final size:20
Alignment explanation
Indices: 43384129--43384219 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 20
43384119 TATATAATGT
*
43384129 ATAATAGAATAAAA--AT-A
1 ATAATATAATAAAATGATAA
*
43384146 ATATATATAATAAAATGATAT
1 ATA-ATATAATAAAATGATAA
* *
43384167 ATAATAAAATGTATAAATCA-AA
1 ATAATATAA--TA-AAATGATAA
43384189 AT-ATATAATAAAATG-TAA
1 ATAATATAATAAAATGATAA
43384207 ATAATATAATAAA
1 ATAATATAATAAA
43384220 CAATACACAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
17 3 0.05
18 18 0.31
19 12 0.21
20 7 0.12
21 8 0.14
22 5 0.09
23 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (20 bp):
ATAATATAATAAAATGATAA
Found at i:43384189 original size:14 final size:13
Alignment explanation
Indices: 43384149--43384205 Score: 62
Period size: 15 Copynumber: 4.2 Consensus size: 13
43384139 AAAAATAATA
43384149 TATATAATAAAATG
1 TATA-AATAAAATG
43384163 ATATATAATAAAATG
1 -TATA-AATAAAATG
*
43384178 TATAAATCAAAATA
1 TATAAAT-AAAATG
43384192 TAT-AATAAAATG
1 TATAAATAAAATG
43384204 TA
1 TA
43384206 AATAATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.18
13 6 0.15
14 12 0.31
15 14 0.36
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (13 bp):
TATAAATAAAATG
Found at i:43384210 original size:14 final size:14
Alignment explanation
Indices: 43384149--43384212 Score: 80
Period size: 14 Copynumber: 4.6 Consensus size: 14
43384139 AAAAATAATA
43384149 TATATAATAAAATG
1 TATATAATAAAATG
43384163 ATATATAATAAAATG
1 -TATATAATAAAATG
43384178 TATA-AATCAAAA--
1 TATATAAT-AAAATG
43384190 TATATAATAAAATG
1 TATATAATAAAATG
*
43384204 TAAATAATA
1 TATATAATA
43384213 TAATAAACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
12 8 0.18
13 6 0.14
14 16 0.36
15 14 0.32
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (14 bp):
TATATAATAAAATG
Found at i:43384217 original size:26 final size:25
Alignment explanation
Indices: 43384104--43384218 Score: 76
Period size: 26 Copynumber: 4.6 Consensus size: 25
43384094 TACATAATAA
* *
43384104 TAAATAATA-AATAATTATATAATG
1 TAAATAATATAATAATAATAAAATG
* * * *
43384128 T--ATAATAGAATAAAAATAATATA
1 TAAATAATATAATAATAATAAAATG
* *
43384151 TATAATAAAATGATATATAATAAAATG
1 TA-AATAATATAATA-ATAATAAAATG
* *
43384178 TATA-AATCAAAATATATAATAAAATG
1 TAAATAAT-ATAATA-ATAATAAAATG
43384204 TAAATAATATAATAA
1 TAAATAATATAATAA
43384219 ACAATACACA
Statistics
Matches: 67, Mismatches: 17, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
22 6 0.09
23 11 0.16
24 1 0.01
25 3 0.04
26 33 0.49
27 13 0.19
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAATAATATAATAATAATAAAATG
Found at i:43384232 original size:41 final size:38
Alignment explanation
Indices: 43384129--43384257 Score: 104
Period size: 40 Copynumber: 3.3 Consensus size: 38
43384119 TATATAATGT
* * *
43384129 ATAATAGAATAAAAAT-AATATATATAATAAAATGATAT
1 ATAATATAATAAAAATCAAAATATATAATAAAATG-TAA
* *
43384167 ATAATAAAATGTATAAATCAAAATATATAATAAAATGTAA
1 ATAATATAA--TAAAAATCAAAATATATAATAAAATGTAA
* *
43384207 ATAATATAATAAACAATACACAAATA-AAAATAAAA-ATAA
1 ATAATATAATAAA-AAT-CA-AAATATATAATAAAATGTAA
43384246 A-ATATATAATAA
1 ATA-ATATAATAA
43384258 CCATTTTTAC
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
38 12 0.16
39 16 0.21
40 26 0.34
41 22 0.29
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (38 bp):
ATAATATAATAAAAATCAAAATATATAATAAAATGTAA
Found at i:43384256 original size:12 final size:12
Alignment explanation
Indices: 43384086--43384257 Score: 81
Period size: 12 Copynumber: 14.2 Consensus size: 12
43384076 TACAAATTTT
43384086 TAAAAT-TATACA
1 TAAAATATATA-A
*
43384098 TAATAATAAATAA
1 TAA-AATATATAA
*
43384111 T-AAATA-ATTA
1 TAAAATATATAA
* *
43384121 TATAATGTATAA
1 TAAAATATATAA
* *
43384133 TAGAATA-AAAA
1 TAAAATATATAA
*
43384144 TAATATATATAA
1 TAAAATATATAA
43384156 TAAAATGATATATAA
1 T-AAA--ATATATAA
*
43384171 TAAAATGTATAAA
1 TAAAATATAT-AA
43384184 TCAAAATATATAA
1 T-AAAATATATAA
*
43384197 TAAAATGTA-AA
1 TAAAATATATAA
*
43384208 TAATATA-ATAA
1 TAAAATATATAA
* * *
43384219 -ACAATACACAAA
1 TAAAATATA-TAA
*
43384231 TAAAA-ATAAAAA
1 TAAAATAT-ATAA
43384243 TAAAATATATAA
1 TAAAATATATAA
43384255 TAA
1 TAA
43384258 CCATTTTTAC
Statistics
Matches: 121, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
10 9 0.07
11 25 0.21
12 45 0.37
13 19 0.16
14 14 0.12
15 9 0.07
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (12 bp):
TAAAATATATAA
Found at i:43384328 original size:25 final size:24
Alignment explanation
Indices: 43384283--43384347 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
43384273 TAAATAATGT
43384283 TTATAGTAAAAA-T-AAATAAT-AA
1 TTATA-TAAAAATTAAAATAATAAA
* *
43384305 TATATATAATATTTAAAATAAATAAA
1 T-TATATAAAAATTAAAAT-AATAAA
43384331 TTATATAAAAATTAAAA
1 TTATATAAAAATTAAAA
43384348 AAGATTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 5 0.15
23 5 0.15
24 4 0.12
25 17 0.50
26 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TTATATAAAAATTAAAATAATAAA
Found at i:43384849 original size:50 final size:50
Alignment explanation
Indices: 43384774--43384873 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
43384764 AAAGAGGATT
43384774 GAGGGCAGGCTCTCGGAGCTCCGTCGAGCCTCCGTCCAAGGGCTCCCACG
1 GAGGGCAGGCTCTCGGAGCTCCGTCGAGCCTCCGTCCAAGGGCTCCCACG
43384824 GAGGGCAGGCTCTCGGAGCTCCGTCGAGCCTCCGTCCAAGGGCTCCCACG
1 GAGGGCAGGCTCTCGGAGCTCCGTCGAGCCTCCGTCCAAGGGCTCCCACG
43384874 CGCCCACGCG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.14, C:0.38, G:0.34, T:0.14
Consensus pattern (50 bp):
GAGGGCAGGCTCTCGGAGCTCCGTCGAGCCTCCGTCCAAGGGCTCCCACG
Found at i:43385903 original size:90 final size:90
Alignment explanation
Indices: 43385751--43386154 Score: 566
Period size: 90 Copynumber: 4.5 Consensus size: 90
43385741 TAATATCCTT
* * *
43385751 GATCTGCTTCCCGTCAAATACAGAG-CGCCAAATCTG-CTATCTTCGATCTGCTTTGATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAAC
* *
43385814 ATACGAATGTCAGTTCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* * *
43385840 GATCTGCTCCCCGTCTAATATAGAGACGCCAAATCTGTCATTTTCGATCTGCTTTGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
43385905 CACGAATATCAGA-CTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* *
43385929 AATCTGC-CCCCTGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAAC
1 GATCTGCTCCCC-GTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAAC
*
43385993 ACACGAATGTTAGATCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* * * *
43386019 GATCTACTCCCTGTCTAATATAGAGACGCCAAATCTGTCATCTTCGATCTGCTCCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
*
43386084 CACGAATGTCAGATCTTCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * * *
43386109 GATCTGCTCTCTGTCTAATACAGGGACGCC-AATCTATCATCTTCGA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGA
43386155 ACGGAGACGC
Statistics
Matches: 285, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
88 4 0.01
89 116 0.41
90 161 0.56
91 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTGCTATCTTC
Found at i:43386020 original size:45 final size:45
Alignment explanation
Indices: 43385782--43386116 Score: 188
Period size: 45 Copynumber: 7.5 Consensus size: 45
43385772 AGAGCGCCAA
* *
43385782 ATCTGCTATCTTCGATCTGCTTTGATGTAAACATACGAATGTCAG
1 ATCTGCTATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAG
* * * * * * * *
43385827 TTCTGCTATCTTCGATCTGCTCCCCG-TCT-AATATA-GAGACGCCAA
1 ATCTGCTATCTTCGATCTGCT--TCGATGTAAACACACGA-ATGTCAG
* * *
43385872 ATCTG-TCATTTTCGATCTGCTTTGATGTAAACACACGAATATCAG
1 ATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAG
* * ** * * * * *
43385917 A-CTGCTATCTTCAATCTGC-CCCCTGTCTAATACA-GAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTTCGATGT-AAACACACGA-ATGTCAG
* *
43385961 ATCTG-TCATTTTCGATCTGCTTCGATGTAAACACACGAATGTTAG
1 ATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAG
* ** * * * * * *
43386006 ATCTGCTATCTTCGATCTAC-TCCCTGTCTAATATA-GAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTTCGATGT-AAACACACGA-ATGTCAG
*
43386051 ATCTG-TCATCTTCGATCTGCTCCGATGTAAACACACGAATGTCAG
1 ATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAG
*
43386096 ATCTTCTATCTTCGATCTGCT
1 ATCTGCTATCTTCGATCTGCT
43386117 CTCTGTCTAA
Statistics
Matches: 205, Mismatches: 64, Indels: 42
0.66 0.21 0.14
Matches are distributed among these distances:
43 6 0.03
44 37 0.18
45 143 0.70
46 18 0.09
47 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAG
Found at i:43386080 original size:179 final size:180
Alignment explanation
Indices: 43385767--43386154 Score: 586
Period size: 179 Copynumber: 2.2 Consensus size: 180
43385757 CTTCCCGTCA
* * *
43385767 AATACAGAG-CGCCAAATCTG-CTATCTTCGATCTGCTTTGATGTAAACATACGAATGTCAGTTC
1 AATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATC
* * **
43385830 TGCTATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCTGTCATTTTCGATCTGCTTT
65 TGCTATCTTCGATCTACTCCCCGTCTAATATAGAGACGCCAAATCTGTCATCTTCGATCTGCTCC
43385895 GATGTAAACACACGAATATCAGA-CTGCTATCTTCAATCTGCCCCCTGTCT
130 GATGTAAACACACGAATATCAGATCTGCTATCTTCAATCTGCCCCCTGTCT
* *
43385945 AATACAGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTTAGATCT
1 AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCT
*
43386010 GCTATCTTCGATCTACTCCCTGTCTAATATAGAGACGCCAAATCTGTCATCTTCGATCTGCTCCG
66 GCTATCTTCGATCTACTCCCCGTCTAATATAGAGACGCCAAATCTGTCATCTTCGATCTGCTCCG
* * * * *
43386075 ATGTAAACACACGAATGTCAGATCTTCTATCTTCGATCTGCTCTCTGTCT
131 ATGTAAACACACGAATATCAGATCTGCTATCTTCAATCTGCCCCCTGTCT
* *
43386125 AATACAGGGACGCC-AATCTATCATCTTCGA
1 AATACAGAGACGCCAAATCTGTCATCTTCGA
43386155 ACGGAGACGC
Statistics
Matches: 189, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
178 9 0.05
179 143 0.76
180 37 0.20
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (180 bp):
AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCT
GCTATCTTCGATCTACTCCCCGTCTAATATAGAGACGCCAAATCTGTCATCTTCGATCTGCTCCG
ATGTAAACACACGAATATCAGATCTGCTATCTTCAATCTGCCCCCTGTCT
Found at i:43386254 original size:117 final size:118
Alignment explanation
Indices: 43386041--43386272 Score: 367
Period size: 117 Copynumber: 2.0 Consensus size: 118
43386031 GTCTAATATA
*
43386041 GAGACGCCAAATCTGTCATCTTCGATCTGCTCCGATGTAAACACACGAATGTCAGATCTTCTATC
1 GAGACGCCAAATCTGTCATCTTCGATCTGCTCCGATGTAAACACACGAATGTCAGATCTACTATC
* * * **
43386106 TTCGATCTGCTCTCTGTCTAATACAGGGACGCC-AATCTATCATCTTCGAACG
66 TTCGATCTACTCCCCGTCTAATACAAAGACGCCAAATCTATCATCTTCGAACG
* *
43386158 GAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTACTATC
1 GAGACGCCAAATCTGTCATCTTCGATCTGCTCCGATGTAAACACACGAATGTCAGATCTACTATC
* *
43386223 TTCGATCTACTCCCCGTCTAATATAAAGACGCCAAATCTGTCATCTTCGA
66 TTCGATCTACTCCCCGTCTAATACAAAGACGCCAAATCTATCATCTTCGA
43386273 TCTACTTCAC
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
117 89 0.86
118 15 0.14
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (118 bp):
GAGACGCCAAATCTGTCATCTTCGATCTGCTCCGATGTAAACACACGAATGTCAGATCTACTATC
TTCGATCTACTCCCCGTCTAATACAAAGACGCCAAATCTATCATCTTCGAACG
Found at i:43386350 original size:171 final size:171
Alignment explanation
Indices: 43386155--43386784 Score: 963
Period size: 171 Copynumber: 3.6 Consensus size: 171
43386145 TCATCTTCGA
*
43386155 ACGGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTACT
1 ACGGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* * * *
43386220 ATCTTCGATCTACTCCCCGTCTAATATAAAGACGCCAAATCTGTCATCTTCGATCTACTTCACAC
66 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCAATCTACTTCACAC
* *
43386285 GAATGCCAAATCTACTATCTTCGATCTGCTCCCCGTCTAAT
131 GAATGTCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAAT
43386326 ACGGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
1 ACGGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* *
43386391 ATCTTCGATCTGCTCCCCGTCTAATACAGAGGCGCCAAATCTGTCATCTTCAATCTGCTTCACAC
66 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCAATCTACTTCACAC
43386456 GAATGTCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAAT
131 GAATGTCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAAT
* *
43386497 ACGGAGACGCCAAATCTGTCATTTTCGATCTACTTCGATGTAAACACACGAATGTCAGATTTGCT
1 ACGGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
* * * * * * * *
43386562 ATATTTGATCTGCTCCCCATCTAGTACGGAGATGCCAAATCTGTCATTTTCAATCTGCTTCGATG
66 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCAA--T-CTAC--T-
*
43386627 TAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAAT
125 T---CACACGAATGTCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAAT
* * *
43386677 ACAGAGATGCCAAATCTGTCATTTTCAATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
1 ACGGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
*
43386742 ATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTG
66 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
43386785 CTATCAGTGA
Statistics
Matches: 419, Mismatches: 31, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
171 270 0.64
173 1 0.00
174 3 0.01
176 1 0.00
177 1 0.00
180 143 0.34
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (171 bp):
ACGGAGACGCCAAATCTGTCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCT
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCAATCTACTTCACAC
GAATGTCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAAT
Found at i:43386395 original size:90 final size:90
Alignment explanation
Indices: 43386280--43386784 Score: 767
Period size: 90 Copynumber: 5.7 Consensus size: 90
43386270 CGATCTACTT
* * * *
43386280 CACACGAATGCCAAATCTACTATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGT
1 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
*
43386345 CATTTTCGATCTGCTTCGATGTAAA
66 CATTTTCAATCTGCTTCGATGTAAA
*
43386370 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGGCGCCAAATCTGT
1 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
*
43386435 CATCTTCAATCTG---C--T-T---
66 CATTTTCAATCTGCTTCGATGTAAA
* *
43386451 CACACGAATGTCAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGT
1 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* *
43386516 CATTTTCGATCTACTTCGATGTAAA
66 CATTTTCAATCTGCTTCGATGTAAA
* * * * * * *
43386541 CACACGAATGTCAGATTTGCTATATTTGATCTGCTCCCCATCTAGTACGGAGATGCCAAATCTGT
1 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
43386606 CATTTTCAATCTGCTTCGATGTAAA
66 CATTTTCAATCTGCTTCGATGTAAA
*
43386631 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
43386696 CATTTTCAATCTGCTTCGATGTAAA
66 CATTTTCAATCTGCTTCGATGTAAA
*
43386721 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTG
1 CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
43386785 CTATCAGTGA
Statistics
Matches: 378, Mismatches: 28, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
81 72 0.19
84 2 0.01
85 1 0.00
86 1 0.00
87 2 0.01
90 300 0.79
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (90 bp):
CACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
CATTTTCAATCTGCTTCGATGTAAA
Found at i:43386797 original size:45 final size:45
Alignment explanation
Indices: 43386462--43386789 Score: 203
Period size: 45 Copynumber: 7.3 Consensus size: 45
43386452 ACACGAATGT
* *
43386462 CAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACGGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
* * * * * *
43386507 CAAATCTG-TCATTTTCGATCTACT--TCGATGTAA-ACACACGAATGT
1 CAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGC
* * * * * * *
43386552 CAGATTTGCTATATTTGATCTGCTCCCCATCTAGTACGGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
* * * * * *
43386597 CAAATCTG-TCATTTTCAATCTGCT--TCGATGTAA-ACACACGAATGT
1 CAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGC
*
43386642 CAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
* * * * * *
43386687 CAAATCTG-TCATTTTCAATCTGCT--TCGATGTAA-ACACACGAATGT
1 CAAATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGC
*
43386732 CAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
43386777 CAAATCTGCTATC
1 CAAATCTGCTATC
43386790 AGTGATCTAC
Statistics
Matches: 205, Mismatches: 54, Indels: 48
0.67 0.18 0.16
Matches are distributed among these distances:
43 15 0.07
44 17 0.08
45 140 0.68
46 17 0.08
47 16 0.08
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (45 bp):
CAAATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
Found at i:43394841 original size:10 final size:10
Alignment explanation
Indices: 43394826--43394851 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
43394816 TTTTCTCTCA
43394826 CTCTCTTTCT
1 CTCTCTTTCT
43394836 CTCTCTTTCT
1 CTCTCTTTCT
43394846 CTCTCT
1 CTCTCT
43394852 CTCTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (10 bp):
CTCTCTTTCT
Found at i:43394853 original size:14 final size:14
Alignment explanation
Indices: 43394817--43394855 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
43394807 AGGTTTTCTT
*
43394817 TTTCTCTCACTCTC
1 TTTCTCTCTCTCTC
*
43394831 TTTCTCTCTCTTTC
1 TTTCTCTCTCTCTC
*
43394845 TCTCTCTCTCT
1 TTTCTCTCTCT
43394856 ATAATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTCTCTCTCTCTC
Done.