Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 74 of 109
Found at i:23947783 original size:18 final size:17
Alignment explanation
Indices: 23947755--23947789 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23947745 AATTATAAGA
*
23947755 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23947772 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23947790 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23947939 original size:18 final size:17
Alignment explanation
Indices: 23947911--23947945 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23947901 AATTATAAGA
*
23947911 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23947928 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23947946 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23948095 original size:18 final size:17
Alignment explanation
Indices: 23948067--23948101 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23948057 AATTATAAGA
*
23948067 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23948084 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23948102 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23949389 original size:18 final size:19
Alignment explanation
Indices: 23949368--23949407 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23949358 TTTTACGAAC
*
23949368 TTTTT-ATAT-TTTTTAAT
1 TTTTTAATATGTTTATAAT
23949385 TTTTTAATATGTTTATAAT
1 TTTTTAATATGTTTATAAT
23949404 TTTT
1 TTTT
23949408 AAATTATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTAATATGTTTATAAT
Found at i:23950720 original size:3 final size:3
Alignment explanation
Indices: 23950712--23950748 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
23950702 CTCAGGTTCG
* *
23950712 ACA ACA ACA ACA GCA GCA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
23950749 GAAAAGCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.32, G:0.05, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:23956300 original size:20 final size:21
Alignment explanation
Indices: 23956275--23956316 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
23956265 TATATAATAA
23956275 AAAATA-TTTTTTTTATTTTT
1 AAAATACTTTTTTTTATTTTT
23956295 AAAATACTTTTTTTTATTTTT
1 AAAATACTTTTTTTTATTTTT
23956316 A
1 A
23956317 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
AAAATACTTTTTTTTATTTTT
Found at i:23957151 original size:43 final size:44
Alignment explanation
Indices: 23957103--23957185 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
23957093 ATAATATATC
23957103 AAATACA-CAAAAAAATTAAAACAAATG-TTTCTCAACAAATTGA
1 AAATACATCAAAAAAATTAAAACAAATGTTTTC-CAACAAATTGA
* * * *
23957146 AAATACATTAAAAATATTGAAACATATGTTTTCCAACAAA
1 AAATACATCAAAAAAATTAAAACAAATGTTTTCCAACAAA
23957186 ATTTAAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 7 0.21
44 23 0.68
45 4 0.12
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (44 bp):
AAATACATCAAAAAAATTAAAACAAATGTTTTCCAACAAATTGA
Found at i:23957960 original size:112 final size:113
Alignment explanation
Indices: 23957789--23958002 Score: 283
Period size: 111 Copynumber: 1.9 Consensus size: 113
23957779 TTTTTGCTGT
*
23957789 AATGTAAACTTTGGGGTTCTTTTAATTTAGCTATATTTCATATTTCATTGTTTTATCCTTAAAAA
1 AATGTAAACTTTGGGGTTCTTTTAATTCAGCTATATTTCATATTTCATTGTTTTATCCTTAAAAA
*
23957854 AAAT-TGAATTTTTGATGCAAAATTGG-GATAAATTTGGAGGCATTGA
66 AAATATGAATTTTTGATGCAAAATTGGAAATAAATTTGGAGGCATTGA
* * * * * *
23957900 AATGTAAGCTTCTGGGG-TCGTTTT-ATTCAGCTATATTTCGTGTTTTATGTGTTTTGTCCTTGA
1 AATGTAAACTT-TGGGGTTC-TTTTAATTCAGCTATATTTCATATTTCAT-TGTTTTATCCTTAA
* *
23957963 AAAAAATATGATTTTTTTATGCAAAATTGGAAATAAATTT
63 AAAAAATATGAATTTTTGATGCAAAATTGGAAATAAATTT
23958003 AAGGTTTTGA
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
111 32 0.36
112 28 0.32
113 20 0.23
114 8 0.09
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.44
Consensus pattern (113 bp):
AATGTAAACTTTGGGGTTCTTTTAATTCAGCTATATTTCATATTTCATTGTTTTATCCTTAAAAA
AAATATGAATTTTTGATGCAAAATTGGAAATAAATTTGGAGGCATTGA
Found at i:23959297 original size:31 final size:31
Alignment explanation
Indices: 23959228--23959297 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
23959218 ATAAAATAAT
** *
23959228 CATTGAATTATTTGAAAGTTTTCATTTAAAT
1 CATTGAATTATTCAAAAGTTTTCATTTAAAC
* * *
23959259 TACTGAATTATTCAAAAGTTTTCATTTAAGC
1 CATTGAATTATTCAAAAGTTTTCATTTAAAC
23959290 CATTGAAT
1 CATTGAAT
23959298 AAAAACTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (31 bp):
CATTGAATTATTCAAAAGTTTTCATTTAAAC
Found at i:23961487 original size:17 final size:18
Alignment explanation
Indices: 23961454--23961488 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23961444 GTAGATTCAG
*
23961454 ATATTTTAAATTCAAATA
1 ATATTTAAAATTCAAATA
23961472 ATATTTAAAATT-AAATA
1 ATATTTAAAATTCAAATA
23961489 TTCTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTTAAAATTCAAATA
Found at i:23967915 original size:20 final size:20
Alignment explanation
Indices: 23967870--23967916 Score: 80
Period size: 18 Copynumber: 2.5 Consensus size: 20
23967860 AAAAAAAAAA
23967870 AAAACACGAGCTCGAAGATC
1 AAAACACGAGCTCGAAGATC
23967890 --AACACGAGCTCGAAGATC
1 AAAACACGAGCTCGAAGATC
23967908 AAAACACGA
1 AAAACACGA
23967917 TTTCGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 18 0.72
20 7 0.28
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (20 bp):
AAAACACGAGCTCGAAGATC
Found at i:23969812 original size:31 final size:29
Alignment explanation
Indices: 23969765--23969834 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
23969755 ACTATTAAAA
* *
23969765 TAGTCACTTTTATTTGACTCAGGTTACATTT
1 TAGTCACTTATATTTGA--AAGGTTACATTT
* * *
23969796 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATATTTGAAAGGTTACATTT
23969825 TAGTCACTTA
1 TAGTCACTTA
23969835 CGTTATGGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATATTTGAAAGGTTACATTT
Found at i:23970200 original size:21 final size:21
Alignment explanation
Indices: 23970176--23970228 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
23970166 ATGTTGAAAG
23970176 AAATGGAGAAGAGAGGAAAAC
1 AAATGGAGAAGAGAGGAAAAC
*
23970197 AAATGGAGAAGGGAGGAAAAC
1 AAATGGAGAAGAGAGGAAAAC
23970218 AAATGGAGAAG
1 AAATGGAGAAG
23970229 CATAAGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.55, C:0.04, G:0.36, T:0.06
Consensus pattern (21 bp):
AAATGGAGAAGAGAGGAAAAC
Found at i:23978297 original size:8 final size:8
Alignment explanation
Indices: 23978278--23978308 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
23978268 TATAATAATA
23978278 TTTTAT-T
1 TTTTATAT
23978285 TTTTATAT
1 TTTTATAT
23978293 TTTTATAT
1 TTTTATAT
23978301 TTTTATAT
1 TTTTATAT
23978309 AAAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATAT
Found at i:23985555 original size:60 final size:61
Alignment explanation
Indices: 23985474--23985594 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 61
23985464 ATATTTATTC
23985474 CATCTTAATAGGTTTTTATAATTTAATCTGAATAAAAAATTTATTATT-AAATAATAATTT
1 CATCTTAATAGGTTTTTATAATTTAATCTGAATAAAAAATTTATTATTAAAATAATAATTT
23985534 CATCTTAATAGGTTTTTATAATTTAATCTGAATAAAAAATTTATTATTAAAATAATAATTT
1 CATCTTAATAGGTTTTTATAATTTAATCTGAATAAAAAATTTATTATTAAAATAATAATTT
23985595 AAAATCAAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 48 0.80
61 12 0.20
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (61 bp):
CATCTTAATAGGTTTTTATAATTTAATCTGAATAAAAAATTTATTATTAAAATAATAATTT
Found at i:23988148 original size:67 final size:67
Alignment explanation
Indices: 23988040--23988174 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
23988030 GCATGACTGT
23988040 ATCCTACCCTCACACCTAAGTCCAAGTACATAGTAATAAACTGCATGGTGATAAATGAAAGAGAG
1 ATCCTACCCTCACACCTAAGTCCAAGTACATAGTAATAAACTGCATGGTGATAAATGAAAGAGAG
23988105 AC
66 AC
23988107 ATCCTACCCTCACACCTAAGTCCAAGTACATAGTAATAAACTGCATGGTGATAAATGAAAGAGAG
1 ATCCTACCCTCACACCTAAGTCCAAGTACATAGTAATAAACTGCATGGTGATAAATGAAAGAGAG
23988172 AC
66 AC
23988174 A
1 A
23988175 CAAAAGTGAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (67 bp):
ATCCTACCCTCACACCTAAGTCCAAGTACATAGTAATAAACTGCATGGTGATAAATGAAAGAGAG
AC
Found at i:23992785 original size:94 final size:92
Alignment explanation
Indices: 23992656--23992843 Score: 256
Period size: 94 Copynumber: 2.0 Consensus size: 92
23992646 AAAACCATCA
*
23992656 ACTACGTAACGTTTAATCTTTTGGATAAAAAAAACATCA-GCAATCATCAATAATT-CCAACTTT
1 ACTACGTAACGGTTAATCTTTTGGATAAAAAAAACAT-AGGCAATCATC-A-AATTACCAACTTT
* *
23992719 AGCTAACAGCAAGATCTCCAGTACAAGTTT
63 AGCTAACAGCAAGACCTCCAGTACAAATTT
* *
23992749 ACTAGGTAACGGTT-ATCTTTTGGAATTAAAAGAAACATAGGCAATCATCAAATTAGCCAACTTT
1 ACTACGTAACGGTTAATCTTTTGG-A-TAAAAAAAACATAGGCAATCATCAAATTA-CCAACTTT
23992813 AGCTAACAGCAAGACCTCCAGTACAAATTT
63 AGCTAACAGCAAGACCTCCAGTACAAATTT
23992843 A
1 A
23992844 ACTTGCTTAA
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
92 13 0.15
93 15 0.18
94 57 0.67
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.28
Consensus pattern (92 bp):
ACTACGTAACGGTTAATCTTTTGGATAAAAAAAACATAGGCAATCATCAAATTACCAACTTTAGC
TAACAGCAAGACCTCCAGTACAAATTT
Found at i:23994547 original size:26 final size:26
Alignment explanation
Indices: 23994518--23994567 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
23994508 TCCTTCAAAT
* *
23994518 TTTGCAATTTTAAAAAATAAAAATGC
1 TTTGAAATTTAAAAAAATAAAAATGC
*
23994544 TTTGAAATTTAAAAAAATTAAAAT
1 TTTGAAATTTAAAAAAATAAAAAT
23994568 TTTCATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (26 bp):
TTTGAAATTTAAAAAAATAAAAATGC
Found at i:23996221 original size:22 final size:22
Alignment explanation
Indices: 23996194--23996247 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
23996184 TCCAAAGAAT
23996194 AACAACAAAATGGCAACAAAAC
1 AACAACAAAATGGCAACAAAAC
* * * *
23996216 AGCAACGAAATGGTAGCAAAAC
1 AACAACAAAATGGCAACAAAAC
*
23996238 AATAACAAAA
1 AACAACAAAA
23996248 AGTTTAGGCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07
Consensus pattern (22 bp):
AACAACAAAATGGCAACAAAAC
Found at i:24001021 original size:20 final size:17
Alignment explanation
Indices: 24000996--24001038 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 17
24000986 ATTAGAATGC
24000996 TTTAAAGTTTAGAGATCAAT
1 TTTAAA-TTT-GAG-TCAAT
24001016 TTTAAATTTGAGTCAA-
1 TTTAAATTTGAGTCAAT
24001032 TTTAAAT
1 TTTAAAT
24001039 GTATAAGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 4 0.17
18 3 0.13
19 3 0.13
20 6 0.26
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTAAATTTGAGTCAAT
Found at i:24009584 original size:6 final size:6
Alignment explanation
Indices: 24009573--24009621 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
24009563 AAATAAGTTG
24009573 GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT
1 GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT GCCCAT
24009621 G
1 G
24009622 ACATTGACTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.16, C:0.49, G:0.18, T:0.16
Consensus pattern (6 bp):
GCCCAT
Found at i:24012980 original size:82 final size:81
Alignment explanation
Indices: 24012813--24012987 Score: 181
Period size: 82 Copynumber: 2.1 Consensus size: 81
24012803 CTTTTTGGCC
* ** * * * *** *
24012813 AAGTATCGATATTTTATGAATTATCGATACCCTTCTTAAAAGCGATACCAAAATGGCATTTTATT
1 AAGTATCGATATTTCAAAAAATATCGATACCCTTCTTAAAAACAATACCAAAACAACATTCTATT
* **
24012878 TTTCACAAACCCTATT
66 TCTCACAAACCCTACA
*
24012894 AAGTATCGATATTTCAAAAAATATCGATACCCCTTCTTAAAAACAATACTAAAACAACATTCTAT
1 AAGTATCGATATTTCAAAAAATATCGATA-CCCTTCTTAAAAACAATACCAAAACAACATTCTAT
*
24012959 TTCTCACAATA-CTTACA
65 TTCTCACAA-ACCCTACA
*
24012976 AAGTATCAATAT
1 AAGTATCGATAT
24012988 GGTATCGATA
Statistics
Matches: 76, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 25 0.33
82 50 0.66
83 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (81 bp):
AAGTATCGATATTTCAAAAAATATCGATACCCTTCTTAAAAACAATACCAAAACAACATTCTATT
TCTCACAAACCCTACA
Found at i:24019617 original size:42 final size:38
Alignment explanation
Indices: 24019533--24019649 Score: 216
Period size: 38 Copynumber: 3.1 Consensus size: 38
24019523 ATAAATTTTA
* *
24019533 TTTATCTATCTATTTTTCAAGATTGGCATTGGATGAAT
1 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT
24019571 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT
1 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT
24019609 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT
1 TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT
24019647 TTT
1 TTT
24019650 TTAAAAAAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (38 bp):
TTTATTTATCTATTTTTCAAGATTGGGATTGGATGAAT
Found at i:24021070 original size:42 final size:42
Alignment explanation
Indices: 24021005--24021110 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 42
24020995 TTCTGATAAA
24021005 TGTTTTCGTGTAAGACCACGTCTGGG-AGTTGGCATCGA-CTT
1 TGTTTTCGTGTAAGACCACGTCTGGGAAG-TGGCATCGATCTT
24021046 GTGTTTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATCTT
1 -TGTTTTCGTGTAAGACCAC-GTCTGGGA-AGTGGCATCGATCTT
* * *
24021090 TGTTTACATGTAAGACTACGT
1 TGTTTTCGTGTAAGACCACGT
24021111 TTGAGACATT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
41 1 0.02
42 24 0.43
43 25 0.45
44 6 0.11
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (42 bp):
TGTTTTCGTGTAAGACCACGTCTGGGAAGTGGCATCGATCTT
Found at i:24022901 original size:39 final size:39
Alignment explanation
Indices: 24022853--24022932 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
24022843 GAATTGGAAA
*
24022853 ATATGCATGTTTATGTGTATGTTATTTTCGATTTTAGTT
1 ATATACATGTTTATGTGTATGTTATTTTCGATTTTAGTT
*
24022892 ATATACATGTTTATGTGTATGTTATTTTTGATTTTAGTT
1 ATATACATGTTTATGTGTATGTTATTTTCGATTTTAGTT
24022931 AT
1 AT
24022933 TTGGCTTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.04, G:0.16, T:0.57
Consensus pattern (39 bp):
ATATACATGTTTATGTGTATGTTATTTTCGATTTTAGTT
Found at i:24035152 original size:31 final size:31
Alignment explanation
Indices: 24035114--24035174 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
24035104 AAAGTAAGAA
24035114 AAGTTTTGTTGCCTAATAGTAAATACTCAAC
1 AAGTTTTGTTGCCTAATAGTAAATACTCAAC
24035145 AAGTTTTGTTGCCTAATAGTAAATACTCAA
1 AAGTTTTGTTGCCTAATAGTAAATACTCAA
24035175 AATTTGAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (31 bp):
AAGTTTTGTTGCCTAATAGTAAATACTCAAC
Found at i:24039398 original size:94 final size:95
Alignment explanation
Indices: 24039273--24039461 Score: 294
Period size: 94 Copynumber: 2.0 Consensus size: 95
24039263 AAAGAGGTTC
24039273 GAATGTAAGATACAAGTTTCTTTAAGCTAAACTTAATGTTAAT-AATTATATATAATTATACATG
1 GAATGTAAGATACAAGTTTCTTTAAGCTAAACTTAATGTT-ATGAATTATATATAATTATACATG
24039337 TGGATCGAAA-ATAGGATTTGAGTTTCTTGAG
65 TGGATC-AAATATAGGATTTGAGTTTCTTGAG
* * * *
24039368 GAATGTAATATACAAG-TTCTTTGAGCTAAACTTAATGTTATGAATTATATATATTTATTCATGT
1 GAATGTAAGATACAAGTTTCTTTAAGCTAAACTTAATGTTATGAATTATATATAATTATACATGT
*
24039432 GGATCAAATATATGATTTGAGTTTCTTGAG
66 GGATCAAATATAGGATTTGAGTTTCTTGAG
24039462 AAGGATTTAT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
93 5 0.06
94 67 0.77
95 15 0.17
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (95 bp):
GAATGTAAGATACAAGTTTCTTTAAGCTAAACTTAATGTTATGAATTATATATAATTATACATGT
GGATCAAATATAGGATTTGAGTTTCTTGAG
Found at i:24039631 original size:41 final size:41
Alignment explanation
Indices: 24039530--24039635 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
24039520 TCAGGCTCTG
**
24039530 TGCCTAGCAGGCTTAATGCAAGTGAAATATTTCAGACTTTA
1 TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA
* *
24039571 CGTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA
1 TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA
24039612 TGCCTAGCAGGCTTAATGCCGGTG
1 TGCCTAGCAGGCTTAATGCCGGTG
24039636 TTCTAAATCA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA
Found at i:24039658 original size:41 final size:41
Alignment explanation
Indices: 24039531--24039678 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 41
24039521 CAGGCTCTGT
** ** * *
24039531 GCCTAGCAGGCTTAATGCAAGTGAAATATTTCAGACTTTAC
1 GCCTAGCAGGCTTAATGCCGGTGAAATAAATCAGACTTCAA
* ** * *
24039572 GTCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTAT
1 GCCTAGCAGGCTTAATGCCGGTGAAATAAATCAGACTTCAA
*** *
24039613 GCCTAGCAGGCTTAATGCCGGTGTTCTAAATCAGGCTTCAA
1 GCCTAGCAGGCTTAATGCCGGTGAAATAAATCAGACTTCAA
*
24039654 GCCTAGCAGGC-TACATGCTGGTGAA
1 GCCTAGCAGGCTTA-ATGCCGGTGAA
24039679 TCATTTTAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 2 0.02
41 88 0.98
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (41 bp):
GCCTAGCAGGCTTAATGCCGGTGAAATAAATCAGACTTCAA
Found at i:24048621 original size:29 final size:27
Alignment explanation
Indices: 24048571--24048633 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
24048561 TTCTCCCTCC
* * *
24048571 AAAAATAACATATATCGATAAATATATAA
1 AAAAATAACACAAATCCATAAAT-T-TAA
*
24048600 AAAAATAACACAAATCCTTAAATTTAA
1 AAAAATAACACAAATCCATAAATTTAA
24048627 AAAAATA
1 AAAAATA
24048634 TGCATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 10 0.33
28 1 0.03
29 19 0.63
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAAATAACACAAATCCATAAATTTAA
Found at i:24050873 original size:6 final size:6
Alignment explanation
Indices: 24050864--24050937 Score: 61
Period size: 6 Copynumber: 13.2 Consensus size: 6
24050854 AATGACAAGC
* *
24050864 AAAAG- AAAA-A AAAAGA AAAAG- AAAAG- GAAAGA AAAAGA AATAG-
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
24050907 -AAAGA AAAAGA AAAGGA AAAATGG AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAA-GA AAAAGA A
24050938 GGAGAATGAC
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
4 3 0.05
5 17 0.31
6 30 0.55
7 5 0.09
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:24050885 original size:16 final size:16
Alignment explanation
Indices: 24050864--24050925 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 16
24050854 AATGACAAGC
*
24050864 AAAAGAAAAAAAAAGA
1 AAAAGAAAAAGAAAGA
*
24050880 AAAAGAAAAGGAAAGA
1 AAAAGAAAAAGAAAGA
*
24050896 AAAAGAAATAGAAAGA
1 AAAAGAAAAAGAAAGA
*
24050912 AAAAGAAAAGGAAA
1 AAAAGAAAAAGAAA
24050926 AATGGAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAGAAAGA
Found at i:24050901 original size:32 final size:32
Alignment explanation
Indices: 24050864--24050925 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
24050854 AATGACAAGC
24050864 AAAAGAAAAAAAAAGAAAAAGAAAAGGAAAGA
1 AAAAGAAAAAAAAAGAAAAAGAAAAGGAAAGA
* *
24050896 AAAAGAAATAGAAAGAAAAAGAAAAGGAAA
1 AAAAGAAAAAAAAAGAAAAAGAAAAGGAAA
24050926 AATGGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (32 bp):
AAAAGAAAAAAAAAGAAAAAGAAAAGGAAAGA
Found at i:24051355 original size:45 final size:47
Alignment explanation
Indices: 24051279--24051373 Score: 115
Period size: 45 Copynumber: 2.1 Consensus size: 47
24051269 GGGGCGTTAC
* * * *
24051279 ACTAAATAATAGATTAAATTATATAATATTTATTA-TAATTTTTTAAT
1 ACTAAATAATAGACTAAATTACATAACATTTATTATTAATTGTTT-AT
*
24051326 ACTAAAT-ATA-ACTAAATTACATAGCATTTATTATTAATTGTTTAT
1 ACTAAATAATAGACTAAATTACATAACATTTATTATTAATTGTTTAT
24051371 ACT
1 ACT
24051374 TGGTTAAAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 24 0.57
46 11 0.26
47 7 0.17
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (47 bp):
ACTAAATAATAGACTAAATTACATAACATTTATTATTAATTGTTTAT
Found at i:24051945 original size:27 final size:27
Alignment explanation
Indices: 24051913--24051971 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
24051903 CTTAAATTTC
*
24051913 ATAAAAAATCAAAAAATA-GAA-AAATA
1 ATAAAAAA-CAAAAAATACAAATAAATA
*
24051939 ATAAAAAACAATAAATACAAATAAATA
1 ATAAAAAACAAAAAATACAAATAAATA
24051966 ATAAAA
1 ATAAAA
24051972 GGAACATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.28
26 10 0.34
27 11 0.38
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (27 bp):
ATAAAAAACAAAAAATACAAATAAATA
Found at i:24055335 original size:36 final size:36
Alignment explanation
Indices: 24055293--24055363 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
24055283 TCTTGATGGG
* *
24055293 CAAGACATTAGCAAAATGAAGTTCTGTGAGTACTAA
1 CAAGACATTAACAAAATGAAGTTCTGTGAGCACTAA
*
24055329 CAAGACATTAACAAAATGAAGTTTTGTGAGCACTA
1 CAAGACATTAACAAAATGAAGTTCTGTGAGCACTA
24055364 CATTTTTGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (36 bp):
CAAGACATTAACAAAATGAAGTTCTGTGAGCACTAA
Found at i:24058561 original size:20 final size:20
Alignment explanation
Indices: 24058536--24058576 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24058526 TCCAATTTAG
*
24058536 TCCCTAAACCGAGACGAATT
1 TCCCTAAACCGAGACAAATT
24058556 TCCCTAAACCGAGACAAATT
1 TCCCTAAACCGAGACAAATT
24058576 T
1 T
24058577 TATTCTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (20 bp):
TCCCTAAACCGAGACAAATT
Found at i:24059012 original size:3 final size:3
Alignment explanation
Indices: 24059004--24059047 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
24058994 GTTTTGTTTT
*
24059004 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
24059048 TATTATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:24059052 original size:3 final size:3
Alignment explanation
Indices: 24059046--24059089 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
24059036 GATAATAATA
* *
24059046 ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24059090 ATAATACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:24085022 original size:27 final size:26
Alignment explanation
Indices: 24084965--24085024 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
24084955 GAATATATAT
* * * *
24084965 ATTTTTAAATTTTAAGTTTTTTTGCA
1 ATTTTTAAAATTTAAATATTTTTCCA
24084991 ATTTTCTAAAATTTAAATATTTTTCCA
1 ATTTT-TAAAATTTAAATATTTTTCCA
*
24085018 TTTTTTA
1 ATTTTTA
24085025 CAAAATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTTTTAAAATTTAAATATTTTTCCA
Found at i:24086567 original size:15 final size:15
Alignment explanation
Indices: 24086547--24086577 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24086537 TATAAAAAGG
24086547 ATATAACCTAATATA
1 ATATAACCTAATATA
*
24086562 ATATAACCTATTATA
1 ATATAACCTAATATA
24086577 A
1 A
24086578 GTTTTTTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATAACCTAATATA
Found at i:24087885 original size:11 final size:11
Alignment explanation
Indices: 24087869--24087910 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
24087859 CATATCTTTC
24087869 TTTTTTTTCTT
1 TTTTTTTTCTT
24087880 TTTTTTTTCTT
1 TTTTTTTTCTT
* *
24087891 TTCTTTATGCTT
1 TT-TTTTTTCTT
24087903 TTTTTTTT
1 TTTTTTTT
24087911 TGGATTTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:24087890 original size:20 final size:23
Alignment explanation
Indices: 24087865--24087910 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
24087855 GTGGCATATC
24087865 TTTCTTTT-TTT-T-CTTTTTTT
1 TTTCTTTTCTTTATGCTTTTTTT
24087885 TTTCTTTTCTTTATGCTTTTTTT
1 TTTCTTTTCTTTATGCTTTTTTT
24087908 TTT
1 TTT
24087911 TGGATTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.35
21 3 0.13
22 1 0.04
23 11 0.48
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (23 bp):
TTTCTTTTCTTTATGCTTTTTTT
Found at i:24094036 original size:44 final size:44
Alignment explanation
Indices: 24093972--24094751 Score: 566
Period size: 44 Copynumber: 18.0 Consensus size: 44
24093962 CTGCCACACT
** *
24093972 ACCAATATAAAAAGACAAGATCTGCTATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * * * * * * *
24094016 GCCAATACATGAAGATAAGATATGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-AC
*
24094061 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * * *
24094103 TACCAATATAAGAAGACAGGATCTGTTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * * * * *
24094148 GCCAATACATGAAGACGAGATCTACTTTCTTCGATCCA-TTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * *
24094190 TACAAAATATAGGAAGACAGGATCTGCTATCTTCTATCCA-TTGC-C
1 -AC-CAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTT-CAC
* * ** *
24094235 TACTAATATAGGAAGACAGGATCTGCTATCTTTTATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * * * * *
24094280 GCCAATACATGAAGACGAGATCTACTTTCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * *
24094323 TACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCA-TTGC-C
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTT-CAC
* * *
24094367 TACTAATATAGGAAGACAGGATCTGCTATCTTCTATCCA-TT---
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * * *
24094408 GCC----T--GAAGACAGGATCTGTTATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * * * * *
24094446 GCCAATACATGAAGACGAGATCTACTTTCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * *
24094489 TACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCA-TTGC-C
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTT-CAC
* * ** *
24094533 TACTAATATAGGAAGACAGGATCTGCTATCTTTTATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * * * * * *
24094578 GCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-AC
24094623 ACCAATAT-GGAAAGACAAGATCTGC-ATCTTCGATCCACTT-AC
1 ACCAATATAGG-AAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * *
24094665 AACCAATATAGGAAAACAGGATCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
* * * * * *
24094710 GCCAATACATGAAGACAAGATCTGCTTTTTTCGATCTACTTC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC
24094752 GCCACGCATC
Statistics
Matches: 591, Mismatches: 114, Indels: 62
0.77 0.15 0.08
Matches are distributed among these distances:
34 25 0.04
35 2 0.00
36 1 0.00
38 3 0.01
40 1 0.00
42 3 0.01
43 51 0.09
44 451 0.76
45 54 0.09
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCAC
Found at i:24094222 original size:132 final size:132
Alignment explanation
Indices: 24093970--24094399 Score: 641
Period size: 132 Copynumber: 3.3 Consensus size: 132
24093960 GTCTGCCACA
* * **
24093970 CTACCAATATAAAAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAAG
1 CTACCAATATAAGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACGAG
* * * * * * * *
24094035 ATATGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCAC
66 ATCTACTTTCTTCGATCCACTTC-CTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCA-
24094099 TT-C
129 TTGC
*
24094102 CTACCAATATAAGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAG
1 CTACCAATATAAGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACGAG
24094167 ATCTACTTTCTTCGATCCA-TTCCTACAAAATATAGGAAGACAGGATCTGCTATCTTCTATCCAT
66 ATCTACTTTCTTCGATCCACTTCCTAC-AAATATAGGAAGACAGGATCTGCTATCTTCTATCCAT
24094231 TGC
130 TGC
* * **
24094234 CTACTAATATAGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGACGAG
1 CTACCAATATAAGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACGAG
24094299 ATCTACTTTCTTCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATT
66 ATCTACTTTCTTCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATT
24094364 GC
131 GC
* *
24094366 CTACTAATATAGGAAGACAGGATCTGCTATCTTC
1 CTACCAATATAAGAAGACAGGATCTGCTATCTTC
24094400 TATCCATTGC
Statistics
Matches: 275, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
130 3 0.01
131 25 0.09
132 240 0.87
133 7 0.03
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (132 bp):
CTACCAATATAAGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACGAG
ATCTACTTTCTTCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATT
GC
Found at i:24094520 original size:166 final size:166
Alignment explanation
Indices: 24094246--24094697 Score: 613
Period size: 166 Copynumber: 2.7 Consensus size: 166
24094236 ACTAATATAG
**
24094246 GAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
1 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
24094311 CGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATAT
66 CGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATAT
24094376 AGGAAGACAGGATCTGCTATCTTCTATCCATTGCCT
131 AGGAAGACAGGATCTGCTATCTTCTATCCATTGCCT
*
24094412 GAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
1 GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
24094477 CGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATAT
66 CGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATAT
* *
24094542 AGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACAT
131 AGGAAGACAGGATCTGCTATCTTCTATCCA-TT---G-C----C-T
* * * * * * * *
24094588 GAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAAT--ATGGAAAGACAAGATCTGC-AT
1 GAAGACAGGATCTGCTATCTTCGATCTACTTC-ACGCCAATACAT-G-AAGACGAGATCTACTTT
* * * *
24094650 CTTCGATCCACTTACAACCAATATAGGAAAACAGGATCTGCTATCTTC
63 CTTCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTC
24094698 GATCTACTTC
Statistics
Matches: 255, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
166 155 0.61
167 2 0.01
170 1 0.00
171 1 0.00
175 3 0.01
176 75 0.29
177 18 0.07
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (166 bp):
GAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
CGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATAT
AGGAAGACAGGATCTGCTATCTTCTATCCATTGCCT
Found at i:24094675 original size:298 final size:298
Alignment explanation
Indices: 24094114--24094697 Score: 996
Period size: 298 Copynumber: 2.0 Consensus size: 298
24094104 ACCAATATAA
24094114 GAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
1 GAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
24094179 CGATCCATTCCTACAAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATAT
66 CGATCCATTCCTACAAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATAT
*
24094244 AGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTC
131 AGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTC
* * * * * *
24094309 TTCGATCCACTTCCTACAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAAT
196 TTCGATCCACTTCCCACAAATATAGGAAGACAAGATCTGCTATCTTCGATCCATTGACAACCAAT
*
24094374 ATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCT
261 ATAGGAAAACAGGATCTGCTATCTTCTATCCATTGCCT
24094412 GAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
1 GAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
24094477 CGATCCACTTCCTAC-AAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATA
66 CGATCCA-TTCCTACAAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATA
* *
24094541 TAGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTT
130 TAGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGACAAGATCTACTTT
* *
24094606 CTTCGATCTACTTCGCCACCAATAT-GGAAAGACAAGATCTGC-ATCTTCGATCCACTT-ACAAC
195 CTTCGATCCACTTC-CCACAAATATAGG-AAGACAAGATCTGCTATCTTCGATCCA-TTGACAAC
24094668 CAATATAGGAAAACAGGATCTGCTATCTTC
257 CAATATAGGAAAACAGGATCTGCTATCTTC
24094698 GATCTACTTC
Statistics
Matches: 270, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
298 240 0.89
299 30 0.11
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (298 bp):
GAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACGAGATCTACTTTCTT
CGATCCATTCCTACAAAATATAGGAAGACAGGATCTGCTATCTTCTATCCATTGCCTACTAATAT
AGGAAGACAGGATCTGCTATCTTTTATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTC
TTCGATCCACTTCCCACAAATATAGGAAGACAAGATCTGCTATCTTCGATCCATTGACAACCAAT
ATAGGAAAACAGGATCTGCTATCTTCTATCCATTGCCT
Found at i:24095650 original size:25 final size:26
Alignment explanation
Indices: 24095622--24095670 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
24095612 GTGTCTTGAA
*
24095622 AAGAA-AAAGATATT-CAATAACAATG
1 AAGAATAAAG-TATTACAAGAACAATG
24095647 AAGAATAAAGTATTACAAGAACAA
1 AAGAATAAAGTATTACAAGAACAA
24095671 ACAAATTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.61, C:0.08, G:0.12, T:0.18
Consensus pattern (26 bp):
AAGAATAAAGTATTACAAGAACAATG
Found at i:24110280 original size:16 final size:17
Alignment explanation
Indices: 24110261--24110294 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
24110251 ATTAGTAAAT
24110261 AAAATTGAAAAT-ATAA
1 AAAATTGAAAATAATAA
24110277 AAAATTGAAAATAATAA
1 AAAATTGAAAATAATAA
24110294 A
1 A
24110295 TTTAATATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAATTGAAAATAATAA
Found at i:24110401 original size:17 final size:16
Alignment explanation
Indices: 24110339--24110397 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
24110329 TTCAATCATA
* **
24110339 ATTTAAAAATATTTAA
1 ATTTGAAAATATTTTT
24110355 ATTATGAAAATATTTTT
1 ATT-TGAAAATATTTTT
24110372 ATTTGAAAATATTTTT
1 ATTTGAAAATATTTTT
*
24110388 ATTTTAAAAT
1 ATTTGAAAAT
24110398 TATTATAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTGAAAATATTTTT
Found at i:24115380 original size:100 final size:100
Alignment explanation
Indices: 24115198--24115690 Score: 618
Period size: 100 Copynumber: 5.0 Consensus size: 100
24115188 AACTTGTAAT
** ** * * * *
24115198 TTTAATCCGTTTAACTATAATGTCGAGGAGGCAAGATTCGCTATTGTAGC-TTCAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTT-AATCTGTTCCA
* * *
24115262 CTACACCGCCTG-GAAAGTAAGATTTGCTGTTATAGC
65 CTGCACCGCTTGAG-AAGTAAGATTCGCTGTTATAGC
* * * *
24115298 TTTAATATTTTTAAATGCAATGTCAAGGAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCAC
*
24115363 TGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAGC
66 TGCACCGCTTGAGAAGTAAGATTCGCTGTTATAGC
* **
24115398 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTTCCATTGTGGCGTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCAC
* *
24115463 TGCACCACTTGAGAAGTAAGATTCGCCGTTATAGC
66 TGCACCGCTTGAGAAGTAAGATTCGCTGTTATAGC
* * *
24115498 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAATATT-ACCAATGTGGCGTTAATCTGTTCTAC
1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCAC
* *
24115562 TGCACCGCTTGAGAAGTAAAATTCGC-GTTATAAC
66 TGCACCGCTTGAGAAGTAAGATTCGCTGTTATAGC
* *
24115596 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACC-ATTGTGGCGTTAATCTGTTCCA
* * * * * *
24115660 CTGAATCGCCTGGGGAGTAAGATTTGCTGTT
65 CTGCACCGCTTGAGAAGTAAGATTCGCTGTT
24115691 CTCAGTCTGC
Statistics
Matches: 343, Mismatches: 45, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
98 43 0.13
99 88 0.26
100 209 0.61
101 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (100 bp):
TTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCATTGTGGCGTTAATCTGTTCCAC
TGCACCGCTTGAGAAGTAAGATTCGCTGTTATAGC
Found at i:24115384 original size:50 final size:50
Alignment explanation
Indices: 24115325--24115662 Score: 191
Period size: 50 Copynumber: 6.8 Consensus size: 50
24115315 CAATGTCAAG
*
24115325 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCCACTGCACCGCTTGA
1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA
* * * * * * * ** * *
24115375 GAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATG-TCGGG
1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCT-TGA
** * * *
24115425 GAAGCAAGATTTTCCATTGTGGCGTTAATCTGTTCCACTGCACCACTTGA
1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA
* * * * * * * ** *
24115475 GAAGTAAGATTCGCCGTTATAGCTTTAATCTTTTTAACTGCAATG-TCGA
1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA
* ** *
24115524 GGAAGCAATATT-ACCAATGTGGCGTTAATCTGTTCTACTGCACCGCTTGA
1 -GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA
* * * * ** * * * ** * *
24115574 GAAGTAAAATTC-GCGTTATAACTTTAATCTTTTTAACTGCAATG-TCGGG
1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCT-TGA
* * *
24115623 GAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTG
1 GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTG
24115663 AATCGCCTGG
Statistics
Matches: 200, Mismatches: 81, Indels: 14
0.68 0.27 0.05
Matches are distributed among these distances:
48 1 0.00
49 66 0.33
50 132 0.66
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (50 bp):
GAAGCAAGATTCACCGTTGTGGCGTTAATCTGTTCAACTGCACCGCTTGA
Found at i:24115753 original size:44 final size:45
Alignment explanation
Indices: 24115671--24115774 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
24115661 TGAATCGCCT
* *
24115671 GGGGAGTAAGATTTGCTGTTCTCAGTCTGCCCCACTGCAACTTCAG
1 GGGGA-TAAGACTTGCTGTACTCAGTCTGCCCCACTGCAACTTCAG
* * * *
24115717 GGGGATAAGACTTGCT-TACTCAGTTTGCTCCGCTGCAACTTTAG
1 GGGGATAAGACTTGCTGTACTCAGTCTGCCCCACTGCAACTTCAG
*
24115761 GGAGATAAGACTTG
1 GGGGATAAGACTTG
24115775 ATGCGATCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 36 0.71
45 10 0.20
46 5 0.10
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (45 bp):
GGGGATAAGACTTGCTGTACTCAGTCTGCCCCACTGCAACTTCAG
Found at i:24115878 original size:44 final size:45
Alignment explanation
Indices: 24115830--24115933 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
24115820 TTTAATCCGT
* * * *
24115830 TCCACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGC
1 TCCACTACAACCTCAGGAAGATAAGATATATCAGCTTCAATCTGC
* * **
24115874 TCCACTACATCCTCAGGAAGATAAGATATATCATCTTCGGTCTGC
1 TCCACTACAACCTCAGGAAGATAAGATATATCAGCTTCAATCTGC
*
24115919 CCCACTACAACCTCA
1 TCCACTACAACCTCA
24115934 AGGGGATAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
44 23 0.47
45 26 0.53
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (45 bp):
TCCACTACAACCTCAGGAAGATAAGATATATCAGCTTCAATCTGC
Found at i:24116304 original size:218 final size:218
Alignment explanation
Indices: 24115696--24116338 Score: 964
Period size: 217 Copynumber: 3.0 Consensus size: 218
24115686 CTGTTCTCAG
* * * * * *
24115696 TCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTACTCAGTTTGCTCCGCTGCAACTTTAG
1 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
24115761 GGAGATAAGACTTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAAATCTATTACTTTAAT
66 GGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT
* * *
24115826 CCGTTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACATCCTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
* * *
24115891 AAGATAAGATATATCATCTTCGG
196 GAGATAAGATTTATCATCTTCGA
* *
24115914 TCTGCCCCACTACAACCTCAAGGGGATAAGACCTGCTTACTCAGTCTGCT-CACTGCAACCTCAG
1 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
24115978 AGAGATAAGACCTGATGCGATCCACTCTATTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT
* * * * * *
24116043 CCTCCCCACCACAACTTCAGGGAGATAGGATTATCGTCTTCAATCTACTCCACTGCAACCTTAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
24116108 GAGATAAGATTTATCATCTTCGA
196 GAGATAAGATTTATCATCTTCGA
* *
24116131 TTTGCCCCACTGCAACCTCAGGGGGATAAGACCTGTTTACTCAGTCTGCTCCACTGCAACCTCAG
1 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
24116196 GGAGATAAGATTTGATGGGATCCACTCTACTGCAACTTTAGAGAGATAAGATCCATTACTTTAAT
66 GGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT
* * *
24116261 TCGCTCCACTACAATTTCAGGGAGATAGGACTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
*
24116326 GAGATAATATTTA
196 GAGATAAGATTTA
24116339 ATAAGATCCA
Statistics
Matches: 378, Mismatches: 46, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
217 192 0.51
218 186 0.49
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (218 bp):
TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
GGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTAAT
CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
GAGATAAGATTTATCATCTTCGA
Found at i:24116310 original size:129 final size:129
Alignment explanation
Indices: 24116175--24116467 Score: 444
Period size: 129 Copynumber: 2.3 Consensus size: 129
24116165 GTTTACTCAG
** * *
24116175 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATGGGATCCACTCTACTGCAACTTTAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATAAGATCCACTCTACTACAACTTCAGAGA
* * *
24116240 GATAAGATCCATTACTTTAAT-TCGCTCCACTACAATTTCAGGGAGATAGGACTATCGGCTTCAA
66 GATAAGATCCATTACTTTAATCT-GCTCCACTACAACTGCAGGGAGATAGAACTATCGGCTTCAA
* *
24116304 TCTGCTCCACTGCAACCTCAGGGAGATAATATTTAATAAGATCCACTCTACTACAACTTCAGAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATAAGATCCACTCTACTACAACTTCAGAGA
* * *
24116369 GATAAGATCTATTACTTTAATCTGCTCCACTACAACTGCAGGGAGATAGAATTATCGGTTTCAA
66 GATAAGATCCATTACTTTAATCTGCTCCACTACAACTGCAGGGAGATAGAACTATCGGCTTCAA
* *
24116433 TCTGTTCCACTGCAACCTTAGGGAGATAAGATTTG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTG
24116468 CCATCTTCAA
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
129 146 0.99
130 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (129 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATAAGATCCACTCTACTACAACTTCAGAGA
GATAAGATCCATTACTTTAATCTGCTCCACTACAACTGCAGGGAGATAGAACTATCGGCTTCAA
Found at i:24116378 original size:347 final size:346
Alignment explanation
Indices: 24115958--24116637 Score: 981
Period size: 347 Copynumber: 2.0 Consensus size: 346
24115948 GCTTACTCAG
* ** * * *
24115958 TCTGCTCACTGCAACCTCAGAGAGATAAGACCTGATGCGATCCACTCTATTGCAACTTTAGAGAG
1 TCTGCTCACTGCAACCTCAGAGAGATAAGACCTAATAAGATCCACTCTACTACAACTTCAGAGAG
* *
24116023 ATAAGATCTATTACTTTAATCCT-CCCCACCACAACTTCAGGGAGATAGGATTATC-GTCTTCAA
66 ATAAGATCTATTACTTTAAT-CTGCCCCACCACAACTGCAGGGAGATAGAATTATCGGT-TTCAA
* * *
24116086 TCTACTCCACTGCAACCTTAGGGAGATAAGATTTATCATCTTCGATTTGCCCCACTGCAACCTCA
129 TCTACTCCACTGCAACCTTAGGGAGATAAGATTTACCATCTTCAATCTGCCCCACTGCAACCTCA
* ** * *
24116151 GGGGGATAAGACCTGTTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGATGGGA
194 GGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTAATGCGA
* ** *
24116216 TCCACTCTACTGCAACTTTAGAGAGATAAGATCCATTACTTTAATTC-GCTCCACTACAA-TTTC
259 TCCACTCCACTAAAACTTCAGAGAGATAAGATCCATTACTTTAA-TCAGCTCCACTACAAGTTT-
24116279 AGGGAGATAGGACTATCGGCTTCAA
322 AGGGAGATAGGACTATCGGCTTCAA
* * **
24116304 TCTGCTCCACTGCAACCTCAGGGAGATAATATTTAATAAGATCCACTCTACTACAACTTCAGAGA
1 TCTGCT-CACTGCAACCTCAGAGAGATAAGACCTAATAAGATCCACTCTACTACAACTTCAGAGA
* *
24116369 GATAAGATCTATTACTTTAATCTGCTCCACTACAACTGCAGGGAGATAGAATTATCGGTTTCAAT
65 GATAAGATCTATTACTTTAATCTGCCCCACCACAACTGCAGGGAGATAGAATTATCGGTTTCAAT
** * * *
24116434 CTGTTCCACTGCAACCTTAGGGAGATAAGATTTGCCATCTTCAATCTGTCCCACTGCAACTTCAG
130 CTACTCCACTGCAACCTTAGGGAGATAAGATTTACCATCTTCAATCTGCCCCACTGCAACCTCAG
*
24116499 GGGGATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTAATGCGAT
195 GGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTAATGCGAT
* *
24116564 CCACTCCACTAAAACTTCAGAGAGATAAGATCTATTACTTTAATCATCTCCACTACAAGTTTAGG
260 CCACTCCACTAAAACTTCAGAGAGATAAGATCCATTACTTTAATCAGCTCCACTACAAGTTTAGG
24116629 GAGATAGGA
325 GAGATAGGA
24116638 TTTGTGGCTT
Statistics
Matches: 295, Mismatches: 34, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
346 10 0.03
347 280 0.95
348 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (346 bp):
TCTGCTCACTGCAACCTCAGAGAGATAAGACCTAATAAGATCCACTCTACTACAACTTCAGAGAG
ATAAGATCTATTACTTTAATCTGCCCCACCACAACTGCAGGGAGATAGAATTATCGGTTTCAATC
TACTCCACTGCAACCTTAGGGAGATAAGATTTACCATCTTCAATCTGCCCCACTGCAACCTCAGG
GGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTAATGCGATC
CACTCCACTAAAACTTCAGAGAGATAAGATCCATTACTTTAATCAGCTCCACTACAAGTTTAGGG
AGATAGGACTATCGGCTTCAA
Found at i:24116403 original size:44 final size:44
Alignment explanation
Indices: 24115789--24116634 Score: 339
Period size: 44 Copynumber: 19.5 Consensus size: 44
24115779 GATCCACTCT
* * * * *
24115789 ACTACAACTTCAGAGAGATAAAATCTATTACTTTAATCCGTTCC
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC
* **
24115833 ACTACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCC
1 ACTACAACTTCAGGGAGATAAGATCTAT-TACTTCAATCTGCTCC
* * * * * ** *
24115877 ACTACATCCTCAGGAAGATAAGATATATCATCTTCGGTCTGCCCC
1 ACTACAACTTCAGGGAGATAAGATCTATTA-CTTCAATCTGCTCC
* * * *
24115922 ACTACAACCTCAAGGG-GATAAGACCTGCTTAC-TCAGTCTGCT-C
1 ACTACAACTTC-AGGGAGATAAGATCT-ATTACTTCAATCTGCTCC
* * * * * * * ** *
24115965 ACTGCAACCTCAGAGAGATAAGA-C-CTGA-TGCGATCCACTCT
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC
* * * * * *
24116006 ATTGCAACTTTAGAGAGATAAGATCTATTACTTTAATCCT-CCCC
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAAT-CTGCTCC
* * *
24116050 ACCACAACTTCAGGGAGATAGGAT-TATCGT-CTTCAATCTACTCC
1 ACTACAACTTCAGGGAGATAAGATCTAT--TACTTCAATCTGCTCC
* * * * * *
24116094 ACTGCAACCTT-AGGGAGATAAGATTTATCATCTTCGATTTGCCCC
1 ACTACAA-CTTCAGGGAGATAAGATCTATTA-CTTCAATCTGCTCC
* * * * * *
24116139 ACTGCAACCTCAGGGGGATAAGACCTGTTTAC-TCAGTCTGCTCC
1 ACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCTGCTCC
* * * *** ** *
24116183 ACTGCAACCTCAGGGAGATAAGAT-T-TGA-TGGGATCCACTCT
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC
* * * * *
24116224 ACTGCAACTTTAGAGAGATAAGATCCATTACTTTAAT-TCGCTCC
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCT-GCTCC
* * **
24116268 ACTACAATTTCAGGGAGATAGGA-CTATCGGCTTCAATCTGCTCC
1 ACTACAACTTCAGGGAGATAAGATCTAT-TACTTCAATCTGCTCC
* * * * * ** *
24116312 ACTGCAACCTCAGGGAGAT-A-ATAT-TTA-ATAAGATCCACTCT
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCA-ATCTGCTCC
* *
24116353 ACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCC
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC
* *** *
24116397 ACTACAACTGCAGGGAGAT-AGAAT-TATCGGTTTCAATCTGTTCC
1 ACTACAACTTCAGGGAGATAAG-ATCTAT-TACTTCAATCTGCTCC
* * ***
24116441 ACTGCAACCTT-AGGGAGATAAGATTTGCCATCTTCAATCTG-TCCC
1 ACTACAA-CTTCAGGGAGATAAGATCTATTA-CTTCAATCTGCT-CC
* * * * *
24116486 ACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTGCTCC
1 ACTACAACTTCAGGGAGATAAGATCT-ATTACTTCAATCTGCTCC
* * * * * * **
24116530 GCTGCAACCTCAGGGAGATAAGACCTA--A-TGCGATCCACTCC
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC
* * *
24116571 ACTAAAACTTCAGAGAGATAAGATCTATTACTTTAATCAT-CTCC
1 ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATC-TGCTCC
* *
24116615 ACTACAAGTTTAGGGAGATA
1 ACTACAACTTCAGGGAGATA
24116635 GGATTTGTGG
Statistics
Matches: 587, Mismatches: 166, Indels: 98
0.69 0.20 0.12
Matches are distributed among these distances:
40 10 0.02
41 99 0.17
42 8 0.01
43 44 0.07
44 307 0.52
45 111 0.19
46 8 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
ACTACAACTTCAGGGAGATAAGATCTATTACTTCAATCTGCTCC
Found at i:24116777 original size:129 final size:129
Alignment explanation
Indices: 24116626--24117028 Score: 662
Period size: 129 Copynumber: 3.1 Consensus size: 129
24116616 CTACAAGTTT
* * **
24116626 AGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCG
1 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG
* *
24116691 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCTAGCCTATTCCACTGCTGACC
66 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACC
* *
24116755 AGGGATATAGGACTTATGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG
1 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG
* *
24116820 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCTAACATATTCCACTGCTGACC
66 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACC
24116884 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG
1 AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG
* * * * * *
24116949 ATCTGCTCCGCTATTACTTAGAGAGACAAGATCTGTAATTTCCCAACCTATTCCATTGCTGACC
66 ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACC
24117013 AGGGATATAGGACTTG
1 AGGGATATAGGACTTG
24117029 CAATCTTCAA
Statistics
Matches: 254, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 254 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (129 bp):
AGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCG
ATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCTAACCTATTCCACTGCTGACC
Found at i:24117074 original size:44 final size:44
Alignment explanation
Indices: 24117026--24117116 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
24117016 GATATAGGAC
*
24117026 TTGCAATCTTCAACCTATTCCGCTGCTGGTCA-ATGAGCTAGGTT
1 TTGCAATCTTCAACCTATTCCACTGCTGGTCAGA-GAGCTAGGTT
24117070 TTGCAATCTTCAACCTATTCCACTGCTGGTCAGAGAGCTAGGTT
1 TTGCAATCTTCAACCTATTCCACTGCTGGTCAGAGAGCTAGGTT
24117114 TTG
1 TTG
24117117 TGATTTCACA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 44 0.98
45 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (44 bp):
TTGCAATCTTCAACCTATTCCACTGCTGGTCAGAGAGCTAGGTT
Found at i:24118420 original size:8 final size:7
Alignment explanation
Indices: 24118378--24118419 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
24118368 TACTCTTTCA
24118378 TCATTTT
1 TCATTTT
24118385 T-ATTTT
1 TCATTTT
24118391 TCA-TTT
1 TCATTTT
24118397 TCACTTTT
1 TCA-TTTT
24118405 TCATTTT
1 TCATTTT
24118412 TCATTTT
1 TCATTTT
24118419 T
1 T
24118420 TTTACTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.38
7 14 0.44
8 6 0.19
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
TCATTTT
Found at i:24119273 original size:6 final size:6
Alignment explanation
Indices: 24119248--24119323 Score: 75
Period size: 6 Copynumber: 12.8 Consensus size: 6
24119238 CCTTCTCTCT
* * * * * *
24119248 ATTTTC ATTTTG ACTTTG ATTTTG ATTTTC CTTTTT CTTCTT- -TTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT-TTG ATTTTG
24119295 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
24119324 TTTTGGATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
6 55 0.90
7 2 0.03
ACGTcount: A:0.13, C:0.08, G:0.11, T:0.68
Consensus pattern (6 bp):
ATTTTG
Found at i:24119324 original size:41 final size:42
Alignment explanation
Indices: 24119240--24119324 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
24119230 CTTTTTTTCC
*
24119240 TTCTCTCTATTTTCATTTTGACTTTGATTTTGATTTTCCTTT
1 TTCTCTCTATTTTCATTTTGACTTTGATTTTGATTTTCATTT
* * * *
24119282 TTCT-TCTTTTTTGATTTTGATTTTGATTTTGATTTTGATTT
1 TTCTCTCTATTTTCATTTTGACTTTGATTTTGATTTTCATTT
24119323 TT
1 TT
24119325 TTTGGATTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.12, C:0.11, G:0.09, T:0.68
Consensus pattern (42 bp):
TTCTCTCTATTTTCATTTTGACTTTGATTTTGATTTTCATTT
Found at i:24119327 original size:35 final size:35
Alignment explanation
Indices: 24119255--24119328 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
24119245 TCTATTTTCA
* * **
24119255 TTTTGACTTTGATTTTGATTTTCCTTTTTCTTCTT
1 TTTTGATTTTGATTTTGATTTTCATTTTGATTCTT
*
24119290 TTTTGATTTTGATTTTGATTTTGATTTTGATT-TT
1 TTTTGATTTTGATTTTGATTTTCATTTTGATTCTT
24119324 TTTTG
1 TTTTG
24119329 GATTGGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 7 0.21
35 27 0.79
ACGTcount: A:0.11, C:0.07, G:0.12, T:0.70
Consensus pattern (35 bp):
TTTTGATTTTGATTTTGATTTTCATTTTGATTCTT
Found at i:24129698 original size:20 final size:21
Alignment explanation
Indices: 24129672--24129714 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
24129662 CGGCAAAAGT
* *
24129672 TTTTTAAAATTGTATTATAAA
1 TTTTAAAAATTATATTATAAA
24129693 TTTTAAAAAATTATATTATAAA
1 TTTT-AAAAATTATATTATAAA
24129715 AAATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTTAAAAATTATATTATAAA
Found at i:24129967 original size:16 final size:16
Alignment explanation
Indices: 24129946--24129979 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24129936 ATCATTTTTT
24129946 TTATAAATGTTATATA
1 TTATAAATGTTATATA
* *
24129962 TTATAAATTTTATTTA
1 TTATAAATGTTATATA
24129978 TT
1 TT
24129980 TTTTCTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTATAAATGTTATATA
Found at i:24130000 original size:94 final size:96
Alignment explanation
Indices: 24129900--24130107 Score: 359
Period size: 94 Copynumber: 2.2 Consensus size: 96
24129890 AATTATATGA
24129900 TTTAAAAGAAGTGTTATGGAAGTTATTGGACACTTAATCATTTTTTTTATAAATGTTATATATTA
1 TTTAAAAGAAGTGTTATGGAAGTTATTGGACACTTAATCATTTTTTTTATAAATGTTATATATTA
*
24129965 TAAATTTTAT-TTATTTTT-TCTAATTTACC
66 TAAATTTTATATTATTTTTACCTAATTTACC
24129994 TTTAAAAGAAGTGTTATGGAAGTTATTGGACACTTAATCATTTTTTTTATAAATGTTATATATTA
1 TTTAAAAGAAGTGTTATGGAAGTTATTGGACACTTAATCATTTTTTTTATAAATGTTATATATTA
24130059 TAAATTTTATATTATTTTTACCTAATTTACC
66 TAAATTTTATATTATTTTTACCTAATTTACC
*
24130090 TATTATAAA-AAGTTTTAT
1 T-TTA-AAAGAAGTGTTAT
24130108 AACTTAGCAT
Statistics
Matches: 108, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
94 75 0.69
95 8 0.07
96 11 0.10
97 11 0.10
98 3 0.03
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (96 bp):
TTTAAAAGAAGTGTTATGGAAGTTATTGGACACTTAATCATTTTTTTTATAAATGTTATATATTA
TAAATTTTATATTATTTTTACCTAATTTACC
Found at i:24130061 original size:16 final size:14
Alignment explanation
Indices: 24130040--24130073 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
24130030 ATCATTTTTT
24130040 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
24130056 TTATAAATTTTATA
1 TTATAAATTTTATA
24130070 TTAT
1 TTAT
24130074 TTTTACCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:24138315 original size:61 final size:60
Alignment explanation
Indices: 24138240--24138364 Score: 214
Period size: 61 Copynumber: 2.1 Consensus size: 60
24138230 GGATGCGAAC
**
24138240 TATGATGAGTAAAATAGACGGATGACGTTTAGTGAAACAATGATGTTTAGTTTAAGAAAAA
1 TATGATGAGTAAAATAGACGGATGACGTTTAGTGAAACAATGAACTTTAGTTTAAG-AAAA
*
24138301 TATGATGAGTAAAATAGACGGGTGACGTTTAGTGAAACAATGAACTTTAGTTTAAGAAAA
1 TATGATGAGTAAAATAGACGGATGACGTTTAGTGAAACAATGAACTTTAGTTTAAGAAAA
24138361 TATG
1 TATG
24138365 GCAAACTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
60 8 0.13
61 53 0.87
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.30
Consensus pattern (60 bp):
TATGATGAGTAAAATAGACGGATGACGTTTAGTGAAACAATGAACTTTAGTTTAAGAAAA
Found at i:24141415 original size:30 final size:31
Alignment explanation
Indices: 24141381--24141451 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
24141371 TTGCCCAAGA
* *
24141381 GTAAATATTTAAAATTTGAGGGGTTAA-AGT
1 GTAAATATTTAAAATTTGAAGGATTAATAGT
** *
24141411 GTAAATATGAAAAATTTGAAGGATTAATTGT
1 GTAAATATTTAAAATTTGAAGGATTAATAGT
24141442 GTAAATATTT
1 GTAAATATTT
24141452 TAAGGGTGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 23 0.70
31 10 0.30
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (31 bp):
GTAAATATTTAAAATTTGAAGGATTAATAGT
Found at i:24145042 original size:11 final size:11
Alignment explanation
Indices: 24144997--24145042 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
24144987 ACTATTCAAT
24144997 TTAATTTAATA
1 TTAATTTAATA
*
24145008 CTAATATTAATA
1 TTAAT-TTAATA
24145020 TT-ATTT--TA
1 TTAATTTAATA
24145028 TTAATTTAATA
1 TTAATTTAATA
24145039 TTAA
1 TTAA
24145043 AGTAATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 2 0.07
11 12 0.41
12 7 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:24145050 original size:20 final size:18
Alignment explanation
Indices: 24144989--24145076 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 18
24144979 ATATTTTTAC
24144989 TATTCAATTTAAT-TT-AA
1 TATT-AATTTAATATTAAA
* **
24145006 TACTAATATTAATATTATTT
1 TATTAAT-TTAATATTA-AA
24145026 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
24145044 GTAATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
24145064 T-TTAATTTAATAT
1 TATTAATTTAATAT
24145077 CTATCTTGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
16 3 0.05
17 17 0.30
18 4 0.07
19 13 0.23
20 20 0.35
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:24149782 original size:254 final size:255
Alignment explanation
Indices: 24149333--24149842 Score: 986
Period size: 254 Copynumber: 2.0 Consensus size: 255
24149323 ATCCAAATTT
24149333 TGTACCAAAAGATAATTAATTTTTAGCAAAGAAGGGTTAAAGCTGTGAGACAGCAGAATAGGGGT
1 TGTACCAAAAGATAATTAATTTTTAGCAAAGAAGGGTTAAAGCTGTGAGACAGCAGAATAGGGGT
24149398 AAGTTTGAAGATTTTACTGTGTTTATTGGCTAATCCAAAAAATCTTCAAATTTTATGGTAGAAAG
66 AAGTTTGAAGATTTTACTGTGTTTATTGGCTAATCCAAAAAATCTTCAAATTTTATGGTAGAAAG
**
24149463 TTATTTCAGGCTAGTTTTAAAAACATCAAGAATTTTTTAATTTGGAATTCTGTAGCTCAAGATAT
131 TTATTTCAGGCTAGTTTTAAAAACATCAAGAAAATTTTAATTTGGAATTCTGTAGCTCAAGATAT
24149528 AAATAATTTAGTAACAGTGACTCAAGTAGACAGCTTTGAAGGAACACAT-GTAAATACTG
196 AAATAATTTAGTAACAGTGACTCAAGTAGACAGCTTTGAAGGAACACATAGTAAATACTG
24149587 TGTACCAAAAGATAATTAATTTTTAGCAAAGAAGGGTTAAAGCTGTGAGACAGCAGAATAGGGGT
1 TGTACCAAAAGATAATTAATTTTTAGCAAAGAAGGGTTAAAGCTGTGAGACAGCAGAATAGGGGT
24149652 AAGTTTGAAGATTTTACTGTGTTTATTGGCTAATCCAAAAAATCTTCAAATTTTATGGTAGAAAG
66 AAGTTTGAAGATTTTACTGTGTTTATTGGCTAATCCAAAAAATCTTCAAATTTTATGGTAGAAAG
24149717 TTATTTCAGGCTAGTTTTAAAAACATCAAGAAAATTTTAATTTGGAATTCTGTAGCTCAAGATAT
131 TTATTTCAGGCTAGTTTTAAAAACATCAAGAAAATTTTAATTTGGAATTCTGTAGCTCAAGATAT
24149782 AAATAATTTAGTAACAGTGACTCAAGTAGACAGCTTTGAAGGAACACATAAGTAAATACTG
196 AAATAATTTAGTAACAGTGACTCAAGTAGACAGCTTTGAAGGAACACAT-AGTAAATACTG
24149843 GAAACATATA
Statistics
Matches: 252, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
254 242 0.96
256 10 0.04
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (255 bp):
TGTACCAAAAGATAATTAATTTTTAGCAAAGAAGGGTTAAAGCTGTGAGACAGCAGAATAGGGGT
AAGTTTGAAGATTTTACTGTGTTTATTGGCTAATCCAAAAAATCTTCAAATTTTATGGTAGAAAG
TTATTTCAGGCTAGTTTTAAAAACATCAAGAAAATTTTAATTTGGAATTCTGTAGCTCAAGATAT
AAATAATTTAGTAACAGTGACTCAAGTAGACAGCTTTGAAGGAACACATAGTAAATACTG
Found at i:24153510 original size:18 final size:18
Alignment explanation
Indices: 24153479--24153528 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
24153469 TAAAAAAAAC
*
24153479 ATTTTGAAATTGAATAAT
1 ATTTTGAAAATGAATAAT
*
24153497 GA-TTTGTAAATGAATAAT
1 -ATTTTGAAAATGAATAAT
24153515 ATTTTGAAAATGAA
1 ATTTTGAAAATGAA
24153529 CGACATGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (18 bp):
ATTTTGAAAATGAATAAT
Found at i:24161208 original size:21 final size:21
Alignment explanation
Indices: 24161183--24161258 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
24161173 TAAAAAGTTA
*
24161183 TATGTTATGTATGATCTGTG-T
1 TATGTTAAGTATGATCTG-GAT
* *
24161204 TATGTTAAATATGATCAGGAT
1 TATGTTAAGTATGATCTGGAT
* **
24161225 TATGTAAAGTATGATCTATAT
1 TATGTTAAGTATGATCTGGAT
*
24161246 TATGGTAAGTATG
1 TATGTTAAGTATG
24161259 TATGAATCTA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (21 bp):
TATGTTAAGTATGATCTGGAT
Found at i:24161510 original size:20 final size:20
Alignment explanation
Indices: 24161482--24161523 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
24161472 TAACAAAATC
*
24161482 TCAAAACTGTCACATA-GGTA
1 TCAAAACTGACAC-TAGGGTA
*
24161502 TCAATACTGACACTAGGGTA
1 TCAAAACTGACACTAGGGTA
24161522 TC
1 TC
24161524 GATATTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (20 bp):
TCAAAACTGACACTAGGGTA
Found at i:24162431 original size:39 final size:38
Alignment explanation
Indices: 24162371--24162520 Score: 169
Period size: 39 Copynumber: 3.9 Consensus size: 38
24162361 AATATCAAGA
* *
24162371 ATATATGACAATACTC-AATAATCACATAACATCTAAGC
1 ATATATCACAATACTCGTATAATCACATAACAT-TAAGC
* * *
24162409 ATATATCACAATTCACGTATAAT-ATCATAACATTCAAAC
1 ATATATCACAATACTCGTATAATCA-CATAACATT-AAGC
* * *
24162448 ATATATAACAATACTCATATAATCGCATAACATTTAAGC
1 ATATATCACAATACTCGTATAATCACATAACA-TTAAGC
*
24162487 ATATATCACAATACTCGTTTAATCACATAACATT
1 ATATATCACAATACTCGTATAATCACATAACATT
24162521 CATAATTTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
38 17 0.18
39 73 0.79
40 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (38 bp):
ATATATCACAATACTCGTATAATCACATAACATTAAGC
Found at i:24162516 original size:78 final size:77
Alignment explanation
Indices: 24162371--24162522 Score: 225
Period size: 78 Copynumber: 2.0 Consensus size: 77
24162361 AATATCAAGA
* *
24162371 ATATATGACAATACTCAATAATCACATAACATCTAAGCATATATCACAATTCACGTATAATATCA
1 ATATATAACAATACTCAATAATCACATAACATCTAAGCATATATCACAATACACGTATAATATCA
24162436 TAACATTCAAAC
66 TAACATTCAAAC
* * * *
24162448 ATATATAACAATACTCATATAATCGCATAACATTTAAGCATATATCACAATACTCGTTTAATCA-
1 ATATATAACAATACTCA-ATAATCACATAACATCTAAGCATATATCACAATACACGTATAAT-AT
24162512 CATAACATTCA
64 CATAACATTCA
24162523 TAATTTAAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
77 16 0.24
78 50 0.75
79 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.30
Consensus pattern (77 bp):
ATATATAACAATACTCAATAATCACATAACATCTAAGCATATATCACAATACACGTATAATATCA
TAACATTCAAAC
Found at i:24170351 original size:88 final size:87
Alignment explanation
Indices: 24170202--24170744 Score: 694
Period size: 88 Copynumber: 6.2 Consensus size: 87
24170192 TGGGGTCTTC
* * * *
24170202 GATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT
1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
* *
24170267 TCATTGTCAGTACAGGAAGGCAA
66 TCACTGTC-GTGCAGGAAGGCAA
* * *
24170290 GATCTGATATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGTTGGTATCTTCGATCTGCT
1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
* *
24170355 TCGCTGTCGATGCAAGAAGGCAA
66 TCACTGTCG-TGCAGGAAGGCAA
* * *
24170378 GATCTGCTATCTTTAACCTGCTCCACTGCAACTGAGGGAGGCAAGGCTGGTGTCTTCGATCTACT
1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
* *
24170443 TCACTATCGGTGCAAGAAGGCAA
66 TCACTGTC-GTGCAGGAAGGCAA
* * * * *
24170466 GATCTGCTATTTTTAACTTGCTCCACTGTAA-TCGAGGGAGGCAAGGCTGGTGTCTTTGATCTGC
1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGC
*
24170530 TTCACTGTCAGTACAGGAAGGCAA
65 TTCACTGTC-GTGCAGGAAGGCAA
* * * *
24170554 GATCTGCTATCTTCAACCTCCTCCACTGCAACCCAGGGAGGCAAGGCTGATATCTTCGATCTGCT
1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
**
24170619 TCGTTGTCGATGCAGGAAGGCAA
66 TCACTGTCG-TGCAGGAAGGCAA
* * * *
24170642 GATCTGCTATCTTCAACCTGCTCCACTGTAAC-CAAGGGAAGCAAGGCTAGTGTCTTCAATCTGC
1 GATCTGCTATCTTCAACCTGCTCCACTGCAACTC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGC
*
24170706 TTCACTGTCGGTGCAGGAAAGCAA
65 TTCACTGTC-GTGCAGGAAGGCAA
*
24170730 GATATGCTATCTTCA
1 GATCTGCTATCTTCA
24170745 CTGATCTATT
Statistics
Matches: 396, Mismatches: 52, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
87 4 0.01
88 389 0.98
89 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (87 bp):
GATCTGCTATCTTCAACCTGCTCCACTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
TCACTGTCGTGCAGGAAGGCAA
Found at i:24170688 original size:264 final size:264
Alignment explanation
Indices: 24170202--24170744 Score: 825
Period size: 264 Copynumber: 2.1 Consensus size: 264
24170192 TGGGGTCTTC
*
24170202 GATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT
1 GATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT
* * *
24170267 TCATTGTCAGTACAGGAAGGCAAGATCTGATATCTTCAACCTGCTCCACTGCAACTCAGGGAGGC
66 TCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTCAACCTCCTCCACTGCAACCCAGGGAGGC
* * *
24170332 AAGGTTGGTATCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTTAACCT
131 AAGGCTGATATCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCT
** * * * *
24170397 GCTCCACTGCAACTGAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTATCGGTGCAAGAAG
196 GCTCCACTGCAACCAAGGGAAGCAAGGCTAGTGTCTTCAATCTACTTCACTATCGGTGCAAGAAA
24170462 GCAA
261 GCAA
* * * * * * *
24170466 GATCTGCTATTTTTAACTTGCTCCACTGTAATCGAGGGAGGCAAGGCTGGTGTCTTTGATCTGCT
1 GATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT
*
24170531 TCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTCCTCCACTGCAACCCAGGGAGGC
66 TCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTCAACCTCCTCCACTGCAACCCAGGGAGGC
* *
24170596 AAGGCTGATATCTTCGATCTGCTTCGTTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCT
131 AAGGCTGATATCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCT
* * * *
24170661 GCTCCACTGTAACCAAGGGAAGCAAGGCTAGTGTCTTCAATCTGCTTCACTGTCGGTGCAGGAAA
196 GCTCCACTGCAACCAAGGGAAGCAAGGCTAGTGTCTTCAATCTACTTCACTATCGGTGCAAGAAA
24170726 GCAA
261 GCAA
* *
24170730 GATATGCTATCTTCA
1 GATCTGCTATTTTCA
24170745 CTGATCTATT
Statistics
Matches: 249, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
264 249 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (264 bp):
GATCTGCTATTTTCAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCT
TCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTCAACCTCCTCCACTGCAACCCAGGGAGGC
AAGGCTGATATCTTCGATCTGCTTCGCTGTCGATGCAAGAAGGCAAGATCTGCTATCTTCAACCT
GCTCCACTGCAACCAAGGGAAGCAAGGCTAGTGTCTTCAATCTACTTCACTATCGGTGCAAGAAA
GCAA
Found at i:24172021 original size:15 final size:16
Alignment explanation
Indices: 24171997--24172028 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
24171987 GGCCTCTCCA
24171997 TTTTCTTTTTTCTTCT
1 TTTTCTTTTTTCTTCT
24172013 TTTTC-TTTTTCTTCT
1 TTTTCTTTTTTCTTCT
24172028 T
1 T
24172029 CATTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTTTCTTCT
Found at i:24172045 original size:24 final size:24
Alignment explanation
Indices: 24172010--24172056 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24172000 TCTTTTTTCT
* *
24172010 TCTTTTTCTTTTTCTTCTTCATTA
1 TCTTTTTCTTTTTATTCATCATTA
24172034 TCTTTATT-TTTTTATTCATCATT
1 TCTTT-TTCTTTTTATTCATCATT
24172057 TTTTTGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TCTTTTTCTTTTTATTCATCATTA
Found at i:24183067 original size:21 final size:20
Alignment explanation
Indices: 24183043--24183108 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
24183033 AATAAGTTAG
*
24183043 ATGTTAAGTATGATCTGTGTT
1 ATGTTAAGTATGAT-TGTATT
*
24183064 ATGTTAAATATGATTAGTATT
1 ATGTTAAGTATGATT-GTATT
*
24183085 ATGTAAAGTATGATTTGTATT
1 ATGTTAAGTATGA-TTGTATT
24183106 ATG
1 ATG
24183109 GTAACTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 36 0.92
22 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (20 bp):
ATGTTAAGTATGATTGTATT
Found at i:24183117 original size:21 final size:21
Alignment explanation
Indices: 24183051--24183122 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
24183041 AGATGTTAAG
* * *
24183051 TATGATCTGTGTTATGTTAAA
1 TATGATTTGTATTATGGTAAA
*
24183072 TATGATTAGTATTAT-GTAAA
1 TATGATTTGTATTATGGTAAA
*
24183092 GTATGATTTGTATTATGGTAAC
1 -TATGATTTGTATTATGGTAAA
*
24183114 TATGTTTTG
1 TATGATTTG
24183123 AATCTGTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.10
21 34 0.81
22 4 0.10
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (21 bp):
TATGATTTGTATTATGGTAAA
Found at i:24184976 original size:13 final size:13
Alignment explanation
Indices: 24184958--24184982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24184948 AATAAACTCA
24184958 AATAATTATCTTT
1 AATAATTATCTTT
24184971 AATAATTATCTT
1 AATAATTATCTT
24184983 CGAAACACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
AATAATTATCTTT
Found at i:24190281 original size:43 final size:43
Alignment explanation
Indices: 24190201--24190403 Score: 230
Period size: 43 Copynumber: 4.7 Consensus size: 43
24190191 AAAAAACACG
* **
24190201 GCTATAGAACATGACCTTTAGCGATGC-TTTACCTACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTA-CTACAAACGCC
* * *
24190244 GCTAAAGAACATGACCTTTAGCGGCACTTTTATTACAAATGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCC
24190287 GCTAAAGAACATGACCTTTAGCGGCGCTTTTATCT-CAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTA-CTACAAACGCC
* * * ** **
24190330 ACTAAAAAACATGACCTTTAGCGGAGCTGCTACCGCAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCC
** *
24190373 GCTAAAGAGTATGATCTTTAGCGGCGCTTTT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTT
24190404 TAAAACAAAT
Statistics
Matches: 134, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 128 0.96
44 5 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCGCTTTTACTACAAACGCC
Found at i:24191863 original size:7 final size:7
Alignment explanation
Indices: 24191851--24192063 Score: 117
Period size: 7 Copynumber: 29.9 Consensus size: 7
24191841 ACTAATTAAT
24191851 CTAAACC
1 CTAAACC
24191858 CTAAACTC
1 CTAAAC-C
* **
24191866 ATATCCC
1 CTAAACC
24191873 CTAAACC
1 CTAAACC
*
24191880 CTAAATC
1 CTAAACC
* *
24191887 ATAAAAC
1 CTAAACC
*
24191894 ATAAACC
1 CTAAACC
24191901 CTAAACC
1 CTAAACC
24191908 CTAAACC
1 CTAAACC
24191915 CTAAACC
1 CTAAACC
24191922 TCTAAACC
1 -CTAAACC
24191930 CTAAACC
1 CTAAACC
*
24191937 TTAAACC
1 CTAAACC
*
24191944 C-CAACC
1 CTAAACC
24191950 CTTAAACC
1 C-TAAACC
*
24191958 ATAAACC
1 CTAAACC
* *
24191965 ATAATCC
1 CTAAACC
* **
24191972 ATAATTC
1 CTAAACC
24191979 CTAAACC
1 CTAAACC
*
24191986 CATAATCC
1 C-TAAACC
*
24191994 ATAAACC
1 CTAAACC
*
24192001 TTAAA--
1 CTAAACC
*
24192006 ATAGTAACTC
1 CTA--AAC-C
*
24192016 TTAAACC
1 CTAAACC
*
24192023 TTAAACC
1 CTAAACC
*
24192030 CTAAATC
1 CTAAACC
* *
24192037 ATATACC
1 CTAAACC
24192044 CTAAACC
1 CTAAACC
*
24192051 ATAAACC
1 CTAAACC
24192058 CTAAAC
1 CTAAAC
24192064 TATAATGATA
Statistics
Matches: 160, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
5 2 0.01
6 5 0.03
7 128 0.80
8 23 0.14
10 2 0.01
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:24191905 original size:14 final size:14
Alignment explanation
Indices: 24191852--24192068 Score: 143
Period size: 14 Copynumber: 15.2 Consensus size: 14
24191842 CTAATTAATC
24191852 TAAACCCTAAACTCA
1 TAAACCCTAAAC-CA
** *
24191867 TATCCCCTAAACCC
1 TAAACCCTAAACCA
* * *
24191881 TAAATCATAAAACA
1 TAAACCCTAAACCA
*
24191895 TAAACCCTAAACCC
1 TAAACCCTAAACCA
*
24191909 TAAACCCTAAACCTC
1 TAAACCCTAAACC-A
*
24191924 TAAACCCTAAACCT
1 TAAACCCTAAACCA
* * *
24191938 TAAACCCCAACCCT
1 TAAACCCTAAACCA
*
24191952 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * *
24191966 TAATCCATAATTCC-
1 TAAACCCTAA-ACCA
*
24191980 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
24191995 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* *
24192007 TAGTAACTCTTAAACCT
1 TA--AAC-CCTAAACCA
*
24192024 TAAACCCTAAATCA
1 TAAACCCTAAACCA
*
24192038 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
24192052 TAAACCCTAAACTA
1 TAAACCCTAAACCA
24192066 TAA
1 TAA
24192069 TGATAATTAA
Statistics
Matches: 159, Mismatches: 34, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
12 3 0.02
14 110 0.69
15 44 0.28
17 2 0.01
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:24191941 original size:29 final size:28
Alignment explanation
Indices: 24191896--24191964 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
24191886 CATAAAACAT
*
24191896 AAACCCTAAACCCTAAACCCTAAACCTCT
1 AAACCCTAAA-CCTAAACCCCAAACCTCT
*
24191925 AAACCCTAAACCTTAAACCCCAACCCT-T
1 AAACCCTAAACC-TAAACCCCAAACCTCT
*
24191953 AAACCATAAACC
1 AAACCCTAAACC
24191965 ATAATCCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (28 bp):
AAACCCTAAACCTAAACCCCAAACCTCT
Found at i:24191990 original size:15 final size:15
Alignment explanation
Indices: 24191952--24192000 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
24191942 CCCCAACCCT
*
24191952 TAAA-CCATAAACCA
1 TAAACCCATAATCCA
*
24191966 T-AATCCATAATTCC-
1 TAAACCCATAA-TCCA
24191980 TAAACCCATAATCCA
1 TAAACCCATAATCCA
24191995 TAAACC
1 TAAACC
24192001 TTAAAATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 2 0.07
14 11 0.38
15 16 0.55
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:24192545 original size:40 final size:40
Alignment explanation
Indices: 24192485--24192575 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
24192475 TATAGGTAGC
*
24192485 GCCGCTAATGGTCGACCTATAGCAGCGTTTTTCAAAAAGT
1 GCCGCTAATGCTCGACCTATAGCAGCGTTTTTCAAAAAGT
* * * *
24192525 GCCGGTAATGCTCGATCTATAGCTGCGTTTTTCAAAAAGC
1 GCCGCTAATGCTCGACCTATAGCAGCGTTTTTCAAAAAGT
*
24192565 GCCACTAATGC
1 GCCGCTAATGC
24192576 CATTAAAGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCGCTAATGCTCGACCTATAGCAGCGTTTTTCAAAAAGT
Found at i:24192644 original size:106 final size:106
Alignment explanation
Indices: 24192509--24192786 Score: 396
Period size: 106 Copynumber: 2.6 Consensus size: 106
24192499 ACCTATAGCA
* * * *
24192509 GCGTTTTTCAAAAAGTGCCGGTAATGCTCGATCTATAGCTGCGTTTTTCAAAAAGCGCCACTAAT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAT
* *
24192574 GCCATTAAAGCTCAATATAAAACGTGCTTAATTTTTTTGTG
66 GCCACTAAAGCTCAATATAAAACGTGCTTAATTTTTTTGCG
* *
24192615 GCGTTTTTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGGC-TTTTTCCAAAAAGCGACGCTAA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTT-CAAAAAGCGCCGCTAA
*
24192679 TGCCACTAAAGCTTAATATAAAACGTGCTTAATTTTTTTGCG
65 TGCCACTAAAGCTCAATATAAAACGTGCTTAATTTTTTTGCG
* ** * * * *
24192721 GTGTTTTTCAAAAAGCATCGCTAATGGTCGACCTATAGCGGTGTTTTTCAAAAAGCACCGCTAAT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAT
24192786 G
66 G
24192787 GTCAACCTAT
Statistics
Matches: 152, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
105 5 0.03
106 142 0.93
107 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (106 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAT
GCCACTAAAGCTCAATATAAAACGTGCTTAATTTTTTTGCG
Found at i:24192773 original size:40 final size:40
Alignment explanation
Indices: 24192718--24192816 Score: 171
Period size: 40 Copynumber: 2.5 Consensus size: 40
24192708 TAATTTTTTT
* *
24192718 GCGGTGTTTTTCAAAAAGCATCGCTAATGGTCGACCTATA
1 GCGGTGTTTTTCAAAAAGCACCGCTAATGGTCAACCTATA
24192758 GCGGTGTTTTTCAAAAAGCACCGCTAATGGTCAACCTATA
1 GCGGTGTTTTTCAAAAAGCACCGCTAATGGTCAACCTATA
*
24192798 GCGGCGTTTTTCAAAAAGC
1 GCGGTGTTTTTCAAAAAGC
24192817 CCTAAGCGCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (40 bp):
GCGGTGTTTTTCAAAAAGCACCGCTAATGGTCAACCTATA
Found at i:24200331 original size:3 final size:3
Alignment explanation
Indices: 24200325--24200379 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
24200315 ATCATCGAAG
*
24200325 GTA GTA GTA GTA GTA GTA GTC GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
24200373 GTA GTA G
1 GTA GTA G
24200380 AAGTTGAAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.02, G:0.35, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:24204687 original size:12 final size:12
Alignment explanation
Indices: 24204655--24204687 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24204645 ACTTAATAAG
24204655 CTTTAATTCCATA
1 CTTTAATT-CATA
24204668 CTTT-ATTCATA
1 CTTTAATTCATA
24204679 CTTTAATTC
1 CTTTAATTC
24204688 TATTTTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 7 0.37
13 4 0.21
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (12 bp):
CTTTAATTCATA
Found at i:24209833 original size:18 final size:18
Alignment explanation
Indices: 24209803--24209850 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
24209793 TGTCGTTCGT
24209803 TTTCAAAAT-ATTATTC-A
1 TTTC-AAATCATTATTCAA
24209820 TTTACAAATCATTATTCAA
1 TTT-CAAATCATTATTCAA
*
24209839 TTTCAAAACATT
1 TTTCAAATCATT
24209851 TTTTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTCAAATCATTATTCAA
Found at i:24210818 original size:17 final size:18
Alignment explanation
Indices: 24210786--24210820 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24210776 CCATGATGTT
24210786 CGCCCGTGTGGGCCCACA
1 CGCCCGTGTGGGCCCACA
*
24210804 CGCCCTTGT-GGCCCACA
1 CGCCCGTGTGGGCCCACA
24210821 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.46, G:0.29, T:0.14
Consensus pattern (18 bp):
CGCCCGTGTGGGCCCACA
Found at i:24219805 original size:28 final size:28
Alignment explanation
Indices: 24219773--24219866 Score: 116
Period size: 28 Copynumber: 3.4 Consensus size: 28
24219763 ATAAGTTCAG
24219773 ACACTTAGTGCTTAATAATTAAACTCGC
1 ACACTTAGTGCTTAATAATTAAACTCGC
* *
24219801 ACACTTAGTGCTTTACAATTAAACTCGC
1 ACACTTAGTGCTTAATAATTAAACTCGC
* * ** * *
24219829 ACACTTAGTGATAAATTTTTATACCCGC
1 ACACTTAGTGCTTAATAATTAAACTCGC
24219857 ACACTTAGTG
1 ACACTTAGTG
24219867 TCGAAAGTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (28 bp):
ACACTTAGTGCTTAATAATTAAACTCGC
Found at i:24222240 original size:14 final size:14
Alignment explanation
Indices: 24222221--24222250 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24222211 CATTTCACTA
*
24222221 TTATGTCTTTTTAT
1 TTATGTCTTTATAT
24222235 TTATGTCTTTATAT
1 TTATGTCTTTATAT
24222249 TT
1 TT
24222251 TGCATGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
TTATGTCTTTATAT
Found at i:24223619 original size:19 final size:19
Alignment explanation
Indices: 24223577--24223619 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
24223567 ATTTTCTTAA
* **
24223577 AAATTAATTTGGAAAATCT
1 AAATTAATTTAGAAAAAAT
24223596 AAATTAATTTAGAAAAAAT
1 AAATTAATTTAGAAAAAAT
*
24223615 TAATT
1 AAATT
24223620 TTGATCAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (19 bp):
AAATTAATTTAGAAAAAAT
Found at i:24224101 original size:37 final size:36
Alignment explanation
Indices: 24224055--24224165 Score: 115
Period size: 37 Copynumber: 3.1 Consensus size: 36
24224045 ATTCCAAAAA
24224055 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAGTATT-ATATT-AATTTAATAT
*
24224091 TAATACTTATTTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATTTTAATAGTATTATATTAATTTAATAT
**
24224128 TAA-ATTTAATGATAA-A-TATTATATTAATTTAATAT
1 TAATA-TT-ATTTTAATAGTATTATATTAATTTAATAT
24224163 TAA
1 TAA
24224166 AGTCATTAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
35 21 0.32
36 17 0.26
37 26 0.39
38 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATTTTAATAGTATTATATTAATTTAATAT
Found at i:24224128 original size:11 final size:11
Alignment explanation
Indices: 24224055--24224165 Score: 79
Period size: 12 Copynumber: 9.8 Consensus size: 11
24224045 ATTCCAAAAA
*
24224055 TAATATTATTT
1 TAATATTAATT
24224066 TAATAGTTTAATAT
1 TAATA--TTAAT-T
24224080 TAA-ATTTAATT
1 TAATA-TTAATT
*
24224091 TAATACTTATTT
1 TAATA-TTAATT
*
24224103 TAATAGT-ATT
1 TAATATTAATT
24224113 T--TATTAATT
1 TAATATTAATT
24224122 TAATATTAAATT
1 TAATATT-AATT
*
24224134 TAATGATAAATAT
1 TAAT-ATTAAT-T
24224147 T-ATATTAATT
1 TAATATTAATT
24224157 TAATATTAA
1 TAATATTAA
24224166 AGTCATTAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 5 0.06
11 26 0.32
12 30 0.37
13 9 0.11
14 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:24227931 original size:29 final size:28
Alignment explanation
Indices: 24227874--24227939 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
24227864 TACATAGTAC
*
24227874 ATATATATGTGCGGTTCTGCTATACATA
1 ATATATATGTGCGGTTCTACTATACATA
* * *
24227902 ATATATATGTGTGAGTTCTATTATATATA
1 ATATATATGTGCG-GTTCTACTATACATA
24227931 ATATATATG
1 ATATATATG
24227940 CGGTTATAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (28 bp):
ATATATATGTGCGGTTCTACTATACATA
Found at i:24240191 original size:22 final size:22
Alignment explanation
Indices: 24240149--24240215 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 22
24240139 AATCCAAATC
24240149 AATA-AAAATTTTA-AAACATA
1 AATATAAAATTTTATAAACATA
*
24240169 AA-ATAAAATTTTATAAATTATA
1 AATATAAAATTTTATAAA-CATA
24240191 AATTATAATACATTTTATAAACATA
1 AA-TATAA-A-ATTTTATAAACATA
24240216 TACATATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.29
21 3 0.08
22 5 0.13
24 4 0.11
25 4 0.11
26 10 0.26
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATAAAATTTTATAAACATA
Found at i:24258759 original size:98 final size:98
Alignment explanation
Indices: 24258639--24258829 Score: 319
Period size: 98 Copynumber: 1.9 Consensus size: 98
24258629 AGAATAAAAC
* *
24258639 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTATGGCACGATCCCTT
1 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
*
24258704 TAGAATCCCAAACTCGGAATATTTCCTTTACTT
66 TAGAATCCCAAACTCGGAACATTTCCTTTACTT
* * *
24258737 TAAAAGAACTTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCTT
1 TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
*
24258802 TAGAATCTCAAACTCGGAACATTTCCTT
66 TAGAATCCCAAACTCGGAACATTTCCTT
24258830 CATGATTTGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (98 bp):
TAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCCTT
TAGAATCCCAAACTCGGAACATTTCCTTTACTT
Found at i:24260707 original size:14 final size:15
Alignment explanation
Indices: 24260675--24260708 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24260665 TTTCATCCGT
*
24260675 TTTGGGCCATTGTAA
1 TTTGGGCCACTGTAA
24260690 TTTGGGCCACTG-AA
1 TTTGGGCCACTGTAA
24260704 TTTGG
1 TTTGG
24260709 TTTTGGGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.18, C:0.15, G:0.29, T:0.38
Consensus pattern (15 bp):
TTTGGGCCACTGTAA
Found at i:24261057 original size:44 final size:44
Alignment explanation
Indices: 24260960--24261080 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 44
24260950 GGACTACTGG
* * * * *
24260960 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTCAT
1 CTTCAATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAAT
** *
24261004 CTTTGATCTACTCCACTATTGCTTAGGGAGATAAAATCTATAAT
1 CTTCAATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAAT
* * *
24261048 CTTCAATCTATTCCATTGCTGAC-TAGGGAGATA
1 CTTCAATCTACTCCACTACTG-CTTAGGGAGATA
24261081 GGACTACTGG
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 61 0.98
45 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (44 bp):
CTTCAATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAAT
Found at i:24261166 original size:131 final size:130
Alignment explanation
Indices: 24260828--24261168 Score: 400
Period size: 131 Copynumber: 2.6 Consensus size: 130
24260818 AAGATTCATC
*
24260828 GCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGACCTGCTCCACTACT
1 GCTTAAATCT-CTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACT
* ** * *
24260893 GTTTAGGGAGACCAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAAATAGGACTACT
65 GCTTAGGGAGATAAAATCTATAATTTCTAACCTATTCCACTGCTGACCAGGGAAATAGGACTACT
24260958 G
130 G
* * * * * * *
24260959 GCTTCAATCTGC-TCCACTACTGCTTAGGG-AGATAAGATTTGTCATCTTTGATCTACTCCACTA
1 GCTTAAATCT-CTTCC-CTACT-CCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTA
* * * * *
24261022 TTGCTTAGGGAGATAAAATCTATAATCTTC-AATCTATTCCATTGCTGACTAGGGAGATAGGACT
63 CTGCTTAGGGAGATAAAATCTATAAT-TTCTAACCTATTCCACTGCTGACCAGGGAAATAGGACT
24261086 ACTG
127 ACTG
* * * *
24261090 GCTTAAATCTATTTCCCTACTCCTGGGGAATATAAGATTCGCCGTCTTCGATCTGCTCTACTACT
1 GCTTAAATCT-CTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACT
*
24261155 GCTTAGAGAGATAA
65 GCTTAGGGAGATAA
24261169 GATATGTACT
Statistics
Matches: 173, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
130 8 0.05
131 154 0.89
132 11 0.06
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (130 bp):
GCTTAAATCTCTTCCCTACTCCTGGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
CTTAGGGAGATAAAATCTATAATTTCTAACCTATTCCACTGCTGACCAGGGAAATAGGACTACTG
Found at i:24261325 original size:154 final size:154
Alignment explanation
Indices: 24261029--24261313 Score: 435
Period size: 154 Copynumber: 1.9 Consensus size: 154
24261019 CTATTGCTTA
* * *
24261029 GGGAGATAAAATCTATAATCTTCAATCTATTCCATTGCTGACTAGGGAGATAGGACTACTGGCTT
1 GGGAGATAAAATCTATAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTT
* *
24261094 AAATCTATTTCCCTACTCCTGGGGAATATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTT
66 AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
24261159 AGAGAGATAAGATATGTACTATTC
131 AGAGAGATAAGATATGTACTATTC
* * * * * *
24261183 GGGAGATAAGATCTGTACTCTTCATTCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT
1 GGGAGATAAAATCTATAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTT
* * * *
24261248 AAATCTATTTCCCTACTCTTGGGGAAGATGAGATTCGCCGTCTTTGATTTGCTCCACTACTGCTT
66 AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
24261313 A
131 A
24261314 AGGGGATAAG
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
154 116 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (154 bp):
GGGAGATAAAATCTATAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTT
AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
AGAGAGATAAGATATGTACTATTC
Found at i:24261416 original size:285 final size:285
Alignment explanation
Indices: 24260924--24261461 Score: 785
Period size: 285 Copynumber: 1.9 Consensus size: 285
24260914 AATTTCTAAC
* *
24260924 CTATTCCACTGCTGACCAGGGAAATAGGACTACTGGCTTCAATCTGCTCCACTACTGCTTAGGGA
1 CTATTCCACTGCTGACCAGGGAAATAGAACTACTGGCTTAAATCTGCTCCACTACTGCTTAGGGA
* * *
24260989 GATAAGATTTGTCATCTTTGATCTACTCCACTATTGCTTAGGGAGATAAAATCTATAATCTTCAA
66 GATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAA
* * *
24261054 TCTATTCCATTGCTGACTAGGGAGATAGGACTACTGGCTTAAATCTATTTCCCTACTCCTGGGGA
131 TCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTTAAATCTATTTCCCTACTCCTGGGGA
* *
24261119 ATATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTTAGAGAGATAAGATATGTACTATTCG
196 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATATGTACTATTCG
24261184 GGAGATAAGATCTGTACTCTTCATT
261 GGAGATAAGATCTGTACTCTTCATT
* * * ** *
24261209 CTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTAAATCTATTTCC-CTACT-CTTGGGG
1 CTATTCCACTGCTGACCAGGGAAATAGAACTACTGGCTTAAATCT-GCTCCACTACTGCTTAGGG
* * * * * *
24261272 AAGATGAGATTCGCCGTCTTTGATTTGCTCCACTACTGCTTAAGGG-GATAAGATCTATACTCTT
65 -AGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTT-AGGGAGATAAAATCTATAATCTT
* * *
24261336 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTAAATCTGTTTCCCTACTCCTGG
128 CAATCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTTAAATCTATTTCCCTACTCCTGG
* *
24261401 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
193 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATATGTA
24261462 ATCTTTAACT
Statistics
Matches: 223, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
284 6 0.03
285 210 0.94
286 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (285 bp):
CTATTCCACTGCTGACCAGGGAAATAGAACTACTGGCTTAAATCTGCTCCACTACTGCTTAGGGA
GATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAAATCTATAATCTTCAA
TCTATTCCACTGCTGACCAGGGAGATAGAACTACTGGCTTAAATCTATTTCCCTACTCCTGGGGA
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATATGTACTATTCG
GGAGATAAGATCTGTACTCTTCATT
Found at i:24261421 original size:131 final size:131
Alignment explanation
Indices: 24261183--24261458 Score: 473
Period size: 131 Copynumber: 2.1 Consensus size: 131
24261173 TGTACTATTC
* *
24261183 GGGAGATAAGATCTGTACTCTTCATTCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT
1 GGGAGATAAGATCTATACTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT
* * * *
24261248 AAATCTATTTCCCTACTCTTGGGGAAGATGAGATTCGCCGTCTTTGATTTGCTCCACTACTGCTT
66 AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
24261313 AA
131 -A
24261315 GGG-GATAAGATCTATACTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT
1 GGGAGATAAGATCTATACTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT
*
24261379 AAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
66 AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
24261444 A
131 A
24261445 GGGAGATAAGATCT
1 GGGAGATAAGATCT
24261459 GTAATCTTTA
Statistics
Matches: 136, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
130 4 0.03
131 129 0.95
132 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (131 bp):
GGGAGATAAGATCTATACTCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT
AAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
A
Found at i:24273660 original size:21 final size:21
Alignment explanation
Indices: 24273635--24273679 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24273625 TCAAATTGAG
24273635 AAATAAAACTATAA-AAATTTA
1 AAATAAAACT-TAATAAATTTA
* *
24273656 AAATAATACTTAATGAATTTA
1 AAATAAAACTTAATAAATTTA
24273677 AAA
1 AAA
24273680 CATATTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATAAAACTTAATAAATTTA
Found at i:24283549 original size:35 final size:35
Alignment explanation
Indices: 24283452--24283551 Score: 155
Period size: 35 Copynumber: 2.9 Consensus size: 35
24283442 TTTGTTTGGC
* * *
24283452 GTGTTACGGTTGGATTAGCTCTTATGAACATTGGT
1 GTGTTTCGGTTGGATTAGCTCTTATGAGCAATGGT
*
24283487 GTGTTTCGGTTGAATTAGCTCTTATGAGCAATGGT
1 GTGTTTCGGTTGGATTAGCTCTTATGAGCAATGGT
*
24283522 GTGTTTCGATTGGATTAGCTCTTATGAGCA
1 GTGTTTCGGTTGGATTAGCTCTTATGAGCA
24283552 TCAGCGTGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.20, C:0.12, G:0.28, T:0.40
Consensus pattern (35 bp):
GTGTTTCGGTTGGATTAGCTCTTATGAGCAATGGT
Found at i:24283561 original size:35 final size:34
Alignment explanation
Indices: 24283448--24283570 Score: 147
Period size: 35 Copynumber: 3.5 Consensus size: 34
24283438 ACTTTTTGTT
*
24283448 TGGCGTGTTACGGTTGGATTAGCTCTTATGAACA
1 TGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* * *
24283482 TTGGTGTGTTTCGGTTGAATTAGCTCTTATGAGCAA
1 -TGGCGTGTTACGGTTGGATTAGCTCTTATGAGC-A
* * *
24283518 TGGTGTGTTTCGATTGGATTAGCTCTTATGAGCA
1 TGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
*
24283552 TCAGCGTGTTACGGTTGGA
1 T-GGCGTGTTACGGTTGGA
24283571 CTGACAATGT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
34 2 0.03
35 73 0.96
36 1 0.01
ACGTcount: A:0.19, C:0.13, G:0.30, T:0.38
Consensus pattern (34 bp):
TGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
Found at i:24294333 original size:16 final size:16
Alignment explanation
Indices: 24294289--24294336 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
24294279 TTCCACTAAT
*
24294289 AAGATTAATTATAATTA
1 AAGATTAAAT-TAATTA
*
24294306 AAG--TAAACTAATTA
1 AAGATTAAATTAATTA
24294320 AAGATTAAATTAATTA
1 AAGATTAAATTAATTA
24294336 A
1 A
24294337 TTAAGGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.35
15 3 0.12
16 11 0.42
17 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (16 bp):
AAGATTAAATTAATTA
Found at i:24294337 original size:20 final size:20
Alignment explanation
Indices: 24294292--24294340 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
24294282 CACTAATAAG
*
24294292 ATTAATTATAATTAAAGTAA
1 ATTAATTAAAATTAAAGTAA
* *
24294312 ACTAATTAAAGATTAAA-TTA
1 ATTAATTAAA-ATTAAAGTAA
24294332 ATTAATTAA
1 ATTAATTAA
24294341 GGTATAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (20 bp):
ATTAATTAAAATTAAAGTAA
Found at i:24294696 original size:21 final size:22
Alignment explanation
Indices: 24294672--24294718 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
24294662 TTTATTATTG
* * *
24294672 TTTTGCTGTTG-TTTGCTGCCA
1 TTTTGATGTTGCTCTGCTACCA
24294693 TTTTGATGTTGCTCTGCTACCA
1 TTTTGATGTTGCTCTGCTACCA
24294715 TTTT
1 TTTT
24294719 TCTATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (22 bp):
TTTTGATGTTGCTCTGCTACCA
Found at i:24294732 original size:22 final size:22
Alignment explanation
Indices: 24294707--24294748 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24294697 GATGTTGCTC
24294707 TGCTACCATTTT-TCTATTATAT
1 TGCTACCATTTTGT-TATTATAT
*
24294729 TGCTACTATTTTGTTATTAT
1 TGCTACCATTTTGTTATTAT
24294749 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (22 bp):
TGCTACCATTTTGTTATTATAT
Found at i:24296021 original size:29 final size:29
Alignment explanation
Indices: 24295987--24296251 Score: 229
Period size: 29 Copynumber: 9.3 Consensus size: 29
24295977 CAGAGTCTTA
* * *
24295987 CCACAAAGGCACCCTTTTAAAAGAGTTAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* * *
24296016 TCACAAAGGTATCCTATTAACAGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
*
24296045 CCACAAAGTCATCCTTTTAACAGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* *
24296074 CCACAAAGTCATCCTTTTAATAGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* * **
24296103 CCACAAAGGAATCCTTTTAAGATCGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* * ** *
24296132 CCACAAAGGCATTCATTTAACTTAGATCG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* * * * *
24296161 ACACAAAGAC-TTCTTTGTAATAGAGATCG
1 CCACAAAGGCATCCTTT-TAACAGAGATAG
* *
24296190 CTACAAAGGCTTCC-TTT--CAGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* *
24296216 CCACAAAGGCTTCCATTT---AGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
24296242 CCACAAAGGC
1 CCACAAAGGC
24296252 TCATTTATAC
Statistics
Matches: 197, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
26 38 0.19
27 3 0.02
28 6 0.03
29 148 0.75
30 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (29 bp):
CCACAAAGGCATCCTTTTAACAGAGATAG
Found at i:24297127 original size:24 final size:24
Alignment explanation
Indices: 24297100--24297173 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
24297090 TTTAAATATG
24297100 CTTAATAATTAATTCATTTGTTAC
1 CTTAATAATTAATTCATTTGTTAC
* * * ** *
24297124 CTTACATTA-CAATTTAAAT-ATA-
1 CTTA-ATAATTAATTCATTTGTTAC
24297146 CTTAATAATTAATTCATTTGTTAC
1 CTTAATAATTAATTCATTTGTTAC
24297170 CTTA
1 CTTA
24297174 CATTTTACAA
Statistics
Matches: 34, Mismatches: 12, Indels: 8
0.63 0.22 0.15
Matches are distributed among these distances:
21 3 0.09
22 10 0.29
23 4 0.12
24 14 0.41
25 3 0.09
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (24 bp):
CTTAATAATTAATTCATTTGTTAC
Done.