Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 198 of 213
Found at i:59259059 original size:19 final size:19
Alignment explanation
Indices: 59259015--59259057 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
59259005 CGGTACTCTT
59259015 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
59259034 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
59259051 TTCTTTT
1 -TCTTTT
59259058 TCCTTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:59259063 original size:10 final size:10
Alignment explanation
Indices: 59259011--59259059 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
59259001 CGCCCGGTAC
59259011 TCTT-TCTTT
1 TCTTCTCTTT
* *
59259020 TCTTCTCCTC
1 TCTTCTCTTT
59259030 T-TTCTCTTT
1 TCTTCTCTTT
59259039 TCTTCTCTTT
1 TCTTCTCTTT
59259049 TCTTCT-TTT
1 TCTTCTCTTT
59259058 TC
1 TC
59259060 CTTCAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 16 0.47
10 18 0.53
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:59259364 original size:30 final size:30
Alignment explanation
Indices: 59259324--59259408 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
59259314 TTAAAATGAA
* * * *
59259324 TTAATGAAAGTTTAGGGGTCTAAGTGAAAT
1 TTAAAGAAAGTTTAGGGGTCAAAATAAAAT
*
59259354 TTAAAGAAAGTTTAAGGGTCAAAATAAAAT
1 TTAAAGAAAGTTTAGGGGTCAAAATAAAAT
*
59259384 TTAGAA-AAAGTTTAGGGGTCCAAAT
1 TTA-AAGAAAGTTTAGGGGTCAAAAT
59259409 GCATTTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 45 0.96
31 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
TTAAAGAAAGTTTAGGGGTCAAAATAAAAT
Found at i:59260170 original size:26 final size:27
Alignment explanation
Indices: 59260118--59260171 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
59260108 TGCTTTTAAA
*
59260118 TAATATTTTTATTAAACACTTATTATT
1 TAATATTTTTATTAAACACTTAATATT
*
59260145 TAATA-TTTTATTTAAATA-TTAATATT
1 TAATATTTTTA-TTAAACACTTAATATT
59260171 T
1 T
59260172 TGTTCCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (27 bp):
TAATATTTTTATTAAACACTTAATATT
Found at i:59263719 original size:30 final size:30
Alignment explanation
Indices: 59263656--59263729 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
59263646 AGTCTATATC
* * * *
59263656 TTTATAATTTTTAAAAGGTTAAATTAAATT
1 TTTATAATTTTTAAAAAGTCAAAATAAACT
* *
59263686 TTTATCATTTTTAAAAAGTCAAAATATACT
1 TTTATAATTTTTAAAAAGTCAAAATAAACT
* *
59263716 TTTATTATTATTAA
1 TTTATAATTTTTAA
59263730 TTTAAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (30 bp):
TTTATAATTTTTAAAAAGTCAAAATAAACT
Found at i:59263753 original size:82 final size:81
Alignment explanation
Indices: 59263594--59263755 Score: 186
Period size: 82 Copynumber: 2.0 Consensus size: 81
59263584 TGGAAGGCGA
* *
59263594 AAATTAAATTTATATTTTTACAATAGTAAAAATATAATTTCATTATTTTAATAGTCTATATCTTT
1 AAATTAAATTTATATTTTTACAAAAGTAAAAATATAATTTCATTATTTTAATA-TCTAAATCTTT
* *
59263659 ATAATTTTTAAAAGGTT
65 ATAAATTATAAAAGGTT
* * * *
59263676 AAATTAAATTTTTATCATTTTTA-AAAAGTCAAAATATACTTTTATTATTATTAAT-T-TAAATT
1 AAATTAAA--TTTAT-ATTTTTACAAAAGTAAAAATATAATTTCATTATT-TTAATATCTAAATC
59263738 TTTATAAATTATAAAAGG
62 TTTATAAATTATAAAAGG
59263756 CCTGAATTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
82 28 0.41
83 1 0.01
84 27 0.40
85 12 0.18
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (81 bp):
AAATTAAATTTATATTTTTACAAAAGTAAAAATATAATTTCATTATTTTAATATCTAAATCTTTA
TAAATTATAAAAGGTT
Found at i:59263917 original size:17 final size:17
Alignment explanation
Indices: 59263895--59263929 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59263885 TTCATTACAA
59263895 CATGTTGAAGACAAATC
1 CATGTTGAAGACAAATC
59263912 CATGTTGAAGACAAATC
1 CATGTTGAAGACAAATC
59263929 C
1 C
59263930 TTTTTGGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (17 bp):
CATGTTGAAGACAAATC
Found at i:59269009 original size:47 final size:45
Alignment explanation
Indices: 59268909--59269011 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 45
59268899 TGATAAATTT
* * * * * *
59268909 AAATAATATTAATGGTAATTTAAAATAATAGTATATTATATATTA
1 AAATAATACTAATGGAAATTTAAAACAATAGTAGATTAAATACTA
*
59268954 AAACAATACTAATGAGAAATTTAAAACAAT-GTTAAGATTAAATACTA
1 AAATAATACTAATG-GAAATTTAAAACAATAG-T-AGATTAAATACTA
59269001 AAATAATACTA
1 AAATAATACTA
59269012 TATTTAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
45 13 0.28
46 14 0.30
47 20 0.43
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (45 bp):
AAATAATACTAATGGAAATTTAAAACAATAGTAGATTAAATACTA
Found at i:59274345 original size:20 final size:20
Alignment explanation
Indices: 59274307--59274345 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59274297 CTTCGTCTCC
*
59274307 TTCTTTCTCCTTTTTTTTCT
1 TTCTTTCTCCTTTTGTTTCT
59274327 TTCTTT-TCCTTTGTGTTTC
1 TTCTTTCTCCTTT-TGTTTC
59274346 ATTTTGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (20 bp):
TTCTTTCTCCTTTTGTTTCT
Found at i:59278997 original size:24 final size:24
Alignment explanation
Indices: 59278952--59278999 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
59278942 TCTTGAGATC
* *
59278952 CATAATCTTAATAATATCTAATAT
1 CATAATATTAATAATATATAATAT
59278976 CATAATATTAATAAT-TAATAATAT
1 CATAATATTAATAATAT-ATAATAT
59279000 AATTATGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (24 bp):
CATAATATTAATAATATATAATAT
Found at i:59293865 original size:45 final size:45
Alignment explanation
Indices: 59293720--59294077 Score: 244
Period size: 44 Copynumber: 8.0 Consensus size: 45
59293710 ATAAGACTTG
* * * *
59293720 TATCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-GT
* * * *** * *
59293766 T-TCTTCGATCTACTTC-ACGCCAGTACATGAAGACAATACCTGCT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-T
* ** * *
59293810 T-TCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTGT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * *** *
59293854 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATTTGCTT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG--T
* * * *
59293900 TTTCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTAT
1 TAT-CTTTGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * ***
59293946 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* *
59293990 TTTCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * * * * * *
59294034 TATATTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTG
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
59294078 CTACTTTTCA
Statistics
Matches: 237, Mismatches: 65, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
44 123 0.52
45 76 0.32
46 9 0.04
47 11 0.05
48 18 0.08
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (45 bp):
TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
Found at i:59293949 original size:92 final size:90
Alignment explanation
Indices: 59293722--59294032 Score: 432
Period size: 89 Copynumber: 3.5 Consensus size: 90
59293712 AAGACTTGTA
* * *
59293722 TCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTT-TCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTA-TTATCTTTGATCTACTTCACGC
* *
59293786 CAGTACATGAAGACAATACCTGC-TT
65 CAGTACATGAAGACAAGATCTGCTTT
** * * *
59293811 TCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
*
59293876 AGTACATGAAGACAAGATTTGCTTTT
66 AGTACATGAAGACAAGATCTGC-TTT
*
59293902 TCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTATTATCTTTGATCTACTTCACG
1 T-CTTCGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACG
59293966 CCAGTACATGAAGACAAGATCTG-TTT
64 CCAGTACATGAAGACAAGATCTGCTTT
**
59293992 TCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
59294033 GTATATTCGA
Statistics
Matches: 195, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
88 2 0.01
89 108 0.55
90 5 0.03
91 3 0.02
92 77 0.39
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (90 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTTT
Found at i:59294070 original size:181 final size:181
Alignment explanation
Indices: 59293723--59294079 Score: 459
Period size: 181 Copynumber: 2.0 Consensus size: 181
59293713 AGACTTGTAT
59293723 CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
1 CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
* ** * *
59293788 GTACATGAAGACAATACCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTG
66 GTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
* * * * * * *
59293853 TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGCTTTTTC
131 TTATATTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTTTC
* * * *
59293904 CTTCGATC-AGCTTCGCCACCAGTATGGGAAGGCAAGATCTA-TTATCTTTGATCTACTTCACGC
1 CTTCGATCTA-CTTCACCACCAGTAGGGGAAGACAAGATCTACTT-TCTTCGATCTACTTCACGC
* * **
59293967 CAGTACATGAAGACAAGATCTGTTTTCTTTTATCTACTTCGCCACCAGTATGGGAAGACAAGATC
64 CAGTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
* * *
59294032 TG-TATATTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTGCT
129 TGTTATATTCGATCCACTTCAC-ACCAATACAGGAAGACAAGATCTGCT
59294080 ACTTTTCAAC
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
180 18 0.12
181 132 0.88
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (181 bp):
CTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA
GTACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
TTATATTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTTTTTC
Found at i:59302185 original size:20 final size:20
Alignment explanation
Indices: 59302160--59302199 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
59302150 TAAAGGTCTT
59302160 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
59302180 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
59302200 ATGAGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:59305902 original size:2 final size:2
Alignment explanation
Indices: 59305895--59305920 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59305885 GTATGTATGC
59305895 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59305921 GAATGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59306019 original size:18 final size:18
Alignment explanation
Indices: 59305996--59306032 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59305986 GTATAAATAC
59305996 GTATATATAAAATAT-AAG
1 GTATATA-AAAATATGAAG
59306014 GTATATAAAAATATGAAG
1 GTATATAAAAATATGAAG
59306032 G
1 G
59306033 ATAAAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (18 bp):
GTATATAAAAATATGAAG
Found at i:59309231 original size:30 final size:30
Alignment explanation
Indices: 59309197--59309261 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
59309187 ACTTATTTTA
59309197 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
59309227 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
59309257 TTGTT
1 TTGTT
59309262 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:59309404 original size:13 final size:12
Alignment explanation
Indices: 59309372--59309408 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
59309362 TTGATGTATT
*
59309372 AAATATATTTAA
1 AAATATATATAA
59309384 AAAT-TATATAA
1 AAATATATATAA
59309395 AAATA-ATATAA
1 AAATATATATAA
59309406 AAA
1 AAA
59309409 ATTAATACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATATATAA
Found at i:59313964 original size:38 final size:36
Alignment explanation
Indices: 59313873--59314050 Score: 142
Period size: 38 Copynumber: 4.8 Consensus size: 36
59313863 ATTTTTAATC
* * *
59313873 TTTTTGAAAATTTTATCAGATCATATTTTTTAAAATA
1 TTTTT-AAAAATTTATCAGTTCTTATTTTTTAAAATA
*
59313910 TGTTTTCAAAAA-TTATCAGTTCTTATTTTTTATTAATA
1 T-TTTT-AAAAATTTATCAGTTCTTATTTTTTA-AAATA
* * *
59313948 TTTTTATAAAATTTATCAATTTTTAAATTTTTAAAATA
1 TTTTTA-AAAATTTATCAGTTCTT-ATTTTTTAAAATA
* * * * * *
59313986 TTTTTTAGAATTTTTTAGTTTTTATTTTTTAAAACTC
1 TTTTTAAAAATTTATCAGTTCTTATTTTTTAAAA-TA
* *
59314023 TTTCTTCAAAATTTATCTGTTCTTATTT
1 TTT-TTAAAAATTTATCAGTTCTTATTT
59314051 GATTTTTAAT
Statistics
Matches: 112, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
36 11 0.10
37 44 0.39
38 50 0.45
39 7 0.06
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (36 bp):
TTTTTAAAAATTTATCAGTTCTTATTTTTTAAAATA
Found at i:59315039 original size:22 final size:22
Alignment explanation
Indices: 59315014--59315058 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
59315004 ATTCATGTTA
* *
59315014 TTTTTTGTATTTATATATCAAT
1 TTTTTTGTATCTATAAATCAAT
*
59315036 TTTTTTGTCTCTATAAATCAAT
1 TTTTTTGTATCTATAAATCAAT
59315058 T
1 T
59315059 ATTTATCTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTTGTATCTATAAATCAAT
Found at i:59315957 original size:35 final size:35
Alignment explanation
Indices: 59315882--59315962 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
59315872 TTTTCCCTAG
* *
59315882 ATAAAAGGTGTAAGTTATTTTAACATGTTTTTAAT
1 ATAAATGGTTTAAGTTATTTTAACATGTTTTTAAT
59315917 ATAAATGGTTTAAGTTATTTTAACATGTTTTTAAT
1 ATAAATGGTTTAAGTTATTTTAACATGTTTTTAAT
59315952 ATAAATGGTTT
1 ATAAATGGTTT
59315963 TTTTTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (35 bp):
ATAAATGGTTTAAGTTATTTTAACATGTTTTTAAT
Found at i:59315964 original size:16 final size:16
Alignment explanation
Indices: 59315908--59315964 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
59315898 ATTTTAACAT
59315908 GTTTTTAATATAAATG
1 GTTTTTAATATAAATG
* *
59315924 GTTTAAGTTATTTTAACAT-
1 GTTT---TTAATATAA-ATG
59315943 GTTTTTAATATAAATG
1 GTTTTTAATATAAATG
59315959 GTTTTT
1 GTTTTT
59315965 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 2 0.06
16 17 0.53
19 11 0.34
20 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (16 bp):
GTTTTTAATATAAATG
Found at i:59318809 original size:54 final size:53
Alignment explanation
Indices: 59318712--59318904 Score: 192
Period size: 54 Copynumber: 3.6 Consensus size: 53
59318702 GGAGGTGCCG
* * * *
59318712 GCCATGGGGTGTCCAAAA-CCTA-TTTTTTAAAAATTGATAAAAGGGGTGTTG
1 GCCATCGGGTGTCCAAAACCCAATTTTTTTTAAAATTGATAAAAGGGGTGTTA
* * **
59318763 GTCATCGGGTGTCCAAAACCCAATTTTCTTTTTAAATTGATAAAAGGGGTGCCA
1 GCCATCGGGTGTCCAAAACCCAATTTT-TTTTAAAATTGATAAAAGGGGTGTTA
* * *
59318817 GCCATGGGGTGTTCAAAACCTAATTTTTTTTAAAAATTGATAAAAGGGGTGTTA
1 GCCATCGGGTGTCCAAAACCCAATTTTTTTT-AAAATTGATAAAAGGGGTGTTA
* ** * **
59318871 GCTATAAGGTGTCTAAAATCTAAATTTTTTTTAA
1 GCCATCGGGTGTCCAAAA-CCCAATTTTTTTTAA
59318905 TCTGATAAAG
Statistics
Matches: 115, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
51 16 0.14
52 3 0.03
53 7 0.06
54 78 0.68
55 11 0.10
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (53 bp):
GCCATCGGGTGTCCAAAACCCAATTTTTTTTAAAATTGATAAAAGGGGTGTTA
Found at i:59330259 original size:18 final size:18
Alignment explanation
Indices: 59330238--59330276 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
59330228 TTTCTTCAAC
* *
59330238 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
59330256 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
59330274 TTC
1 TTC
59330277 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:59338029 original size:18 final size:19
Alignment explanation
Indices: 59338000--59338037 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
59337990 ATTTTTAATA
59338000 ATTTTCTGTAATTTCTTAT
1 ATTTTCTGTAATTTCTTAT
*
59338019 ATTTT-TGTAATTTTTTAT
1 ATTTTCTGTAATTTCTTAT
59338037 A
1 A
59338038 ACTTTCTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (19 bp):
ATTTTCTGTAATTTCTTAT
Found at i:59339994 original size:27 final size:27
Alignment explanation
Indices: 59339956--59340034 Score: 158
Period size: 27 Copynumber: 2.9 Consensus size: 27
59339946 CTGCTAGATA
59339956 GTTCATCGGTACTGCTAACCGGCAATT
1 GTTCATCGGTACTGCTAACCGGCAATT
59339983 GTTCATCGGTACTGCTAACCGGCAATT
1 GTTCATCGGTACTGCTAACCGGCAATT
59340010 GTTCATCGGTACTGCTAACCGGCAA
1 GTTCATCGGTACTGCTAACCGGCAA
59340035 CTCATGGCGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (27 bp):
GTTCATCGGTACTGCTAACCGGCAATT
Found at i:59340858 original size:9 final size:9
Alignment explanation
Indices: 59340840--59340881 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
59340830 AGGGGCTGCA
59340840 CCATTGGCC
1 CCATTGGCC
*
59340849 CCATTAGCC
1 CCATTGGCC
59340858 CCATTGGCC
1 CCATTGGCC
* *
59340867 CCATCGACC
1 CCATTGGCC
59340876 CCATTG
1 CCATTG
59340882 ACCCTAGCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.17, C:0.45, G:0.17, T:0.21
Consensus pattern (9 bp):
CCATTGGCC
Found at i:59345276 original size:26 final size:28
Alignment explanation
Indices: 59345246--59345305 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
59345236 AATATATTTT
* * *
59345246 AATTAAT-TGATATACATTA-TTTATAA
1 AATTAATGTGATATAAAATATTTTAAAA
*
59345272 AATTAATGTTATATAAAATATTTTAAAA
1 AATTAATGTGATATAAAATATTTTAAAA
59345300 AATTAA
1 AATTAA
59345306 ATATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.25
27 9 0.32
28 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (28 bp):
AATTAATGTGATATAAAATATTTTAAAA
Found at i:59346367 original size:6 final size:6
Alignment explanation
Indices: 59346356--59346415 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
59346346 AACCATAAAA
* * * * *
59346356 AATAAC AATAAC AACAAC AACAAC AACAAC AACAAC -A-AA- AATAAT
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
59346401 AATAAC AATAAC AAT
1 AATAAC AATAAC AAT
59346416 GGAAGTTAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 43 0.88
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.12
Consensus pattern (6 bp):
AATAAC
Found at i:59346373 original size:3 final size:3
Alignment explanation
Indices: 59346359--59346393 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
59346349 CATAAAAAAT
*
59346359 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
59346394 AAATAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.29, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:59348285 original size:88 final size:88
Alignment explanation
Indices: 59348179--59348464 Score: 290
Period size: 88 Copynumber: 3.2 Consensus size: 88
59348169 CCACTGCAAC
* * *
59348179 TTCAAGGGGATAAGAATTGTGGCGTCGATCTGCTTCAATGTAATTTTAGGGAGAAGAGATTTGTA
1 TTCAAGGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTA
* * *
59348244 GCTTCGATCTACTCCGCTGGAAT
66 GCTTCGATCTACTCCACTAGAAA
** * * * *
59348267 TTCAAGGAGATAAGAATTGGTAACTTC-AACTTGCTCCACTGCAACTTTAGGGAGATA-AGATTT
1 TTCAAGGAGATAAGAATT-GTGGCTTCGATC-TGCTCCAATGTAATTTTAGGGAGA-AGAGATTT
* ** * * * *
59348330 GCGTA-TTTTTATCCTGCTCTACTACAAC
63 --GTAGCTTCGAT-CTACTCCACTAGAAA
* * * *
59348358 TTCAGGGAGATAAGAATTGTGGCTTTGATCTGCTCCAATGTAATTTCAGGGATAAGAGATTTGTA
1 TTCAAGGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTA
59348423 GCTTCGATCTACTCCACTAGAAA
66 GCTTCGATCTACTCCACTAGAAA
59348446 TTCAAGGAGATAAGAATTG
1 TTCAAGGAGATAAGAATTG
59348465 GTAACTTCAA
Statistics
Matches: 153, Mismatches: 36, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
88 51 0.33
89 36 0.24
90 35 0.23
91 31 0.20
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (88 bp):
TTCAAGGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTTAGGGAGAAGAGATTTGTA
GCTTCGATCTACTCCACTAGAAA
Found at i:59348339 original size:179 final size:178
Alignment explanation
Indices: 59348024--59348557 Score: 705
Period size: 179 Copynumber: 3.0 Consensus size: 178
59348014 AATTGGTGTT
* * * * * * * *
59348024 TCGATCCGCTCCAATGTAATTTCAGGGAGAAGAAACTTGTAGTTTTGATCTACCCCGCTGCAACT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAAT
** * * * *
59348089 TCAAATAGATAAGAATTGGTAATTTCAACCTGCTCCACTATAACTTCAGGGAGATAAGGTTTGTA
66 TCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-C
59348154 TATTTTTATCCTGCTCCACTGCAACTTCAAGGG-GATAAGAATTGTGGCG
130 TATTTTTATCCTGCTCCACTGCAACTTC-AGGGAGATAAGAATTGTGGCG
* * *
59348203 TCGATCTGCTTCAATGTAATTTTAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAATT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAAT
* * *
59348268 TCAAGGAGATAAGAATTGGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCG
66 TCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGC-
* * *
59348333 TATTTTTATCCTGCTCTACTACAACTTCAGGGAGATAAGAATTGTGGCT
130 TATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGCG
* * * *
59348382 TTGATCTGCTCCAATGTAATTTCAGGGATAAGAGATTTGTAGCTTCGATCTACTCCACTAGAAAT
1 TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAAT
* * * *
59348447 TCAAGGAGATAAGAATTGGTAACTTCAACCTGTTCCACTACAACTTCAGGGAAATGATATTTGCT
66 TCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCT
* *
59348512 ATCTTTAGT-CTACTCCACTGCAACTTCAGGGAGATAA-AACTTGTGG
131 ATTTTTA-TCCTGCTCCACTGCAACTTCAGGGAGATAAGAA-TTGTGG
59348558 TTTCACCGAT
Statistics
Matches: 311, Mismatches: 40, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
177 2 0.01
178 42 0.14
179 267 0.86
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (178 bp):
TCGATCTGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAAT
TCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCT
ATTTTTATCCTGCTCCACTGCAACTTCAGGGAGATAAGAATTGTGGCG
Found at i:59348407 original size:44 final size:44
Alignment explanation
Indices: 59348164--59348548 Score: 203
Period size: 45 Copynumber: 8.6 Consensus size: 44
59348154 TATTTTTATC
* * *
59348164 CTGCTCCACTGCAACTTCAAGGG-GATAAGAATTGTGGCGTCGAT
1 CTGCTCCACTGCAATTTC-AGGGAGATAAGAATTGTAGCTTCGAT
* * * * *
59348208 CTGCTTCAATGTAATTTTAGGGAGA-AGAGATTTGTAGCTTCGAT
1 CTGCTCCACTGCAATTTCAGGGAGATA-AGAATTGTAGCTTCGAT
* * * * * *
59348252 CTACTCCGCTGGAATTTCAAGGAGATAAGAATTGGTAACTTC-AA
1 CTGCTCCACTGCAATTTCAGGGAGATAAGAATT-GTAGCTTCGAT
* * **
59348296 CTTGCTCCACTGCAACTTT-AGGGAGATAAGATTTGCGTA-TTTTTAT
1 C-TGCTCCACTGCAA-TTTCAGGGAGATAAGAATT--GTAGCTTCGAT
* * * * *
59348342 CCTGCTCTACTACAACTTCAGGGAGATAAGAATTGTGGCTTTGAT
1 -CTGCTCCACTGCAATTTCAGGGAGATAAGAATTGTAGCTTCGAT
* *
59348387 CTGCTCCAATGTAATTTCA-GG-GATAAGAGATTTGTAGCTTCGAT
1 CTGCTCCACTGCAATTTCAGGGAGATAAGA-A-TTGTAGCTTCGAT
* * * * * *
59348431 CTACTCCACTAG-AAATTCAAGGAGATAAGAATTGGTAACTTCAAC
1 CTGCTCCACT-GCAATTTCAGGGAGATAAGAATT-GTAGCTTCGAT
* * * * * * * * *
59348476 CTGTTCCACTACAACTTCAGGGAAATGATATTTGCTATCTT-TAGT
1 CTGCTCCACTGCAATTTCAGGGAGATAAGAATTG-TAGCTTCGA-T
* *
59348521 CTACTCCACTGCAACTTCAGGGAGATAA
1 CTGCTCCACTGCAATTTCAGGGAGATAA
59348549 AACTTGTGGT
Statistics
Matches: 257, Mismatches: 64, Indels: 39
0.71 0.18 0.11
Matches are distributed among these distances:
42 7 0.03
43 8 0.03
44 99 0.39
45 103 0.40
46 39 0.15
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAATTTCAGGGAGATAAGAATTGTAGCTTCGAT
Found at i:59352569 original size:12 final size:13
Alignment explanation
Indices: 59352544--59352611 Score: 63
Period size: 12 Copynumber: 5.4 Consensus size: 13
59352534 AAAATATGTA
*
59352544 AATAAATGA-AAT
1 AATAAATAACAAT
*
59352556 AATAAA-AACCAT
1 AATAAATAACAAT
59352568 AA-AAATAACAAT
1 AATAAATAACAAT
59352580 AATGACAATAACAAT
1 AAT-A-AATAACAAT
*
59352595 AAT-AATAATAAT
1 AATAAATAACAAT
59352607 AATAA
1 AATAA
59352612 TGAAAGTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
11 4 0.09
12 28 0.61
13 1 0.02
14 1 0.02
15 12 0.26
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (13 bp):
AATAAATAACAAT
Found at i:59352636 original size:4 final size:5
Alignment explanation
Indices: 59352586--59352653 Score: 57
Period size: 6 Copynumber: 12.4 Consensus size: 5
59352576 CAATAATGAC
*
59352586 AATAA CAATAA TAATAA TAATAA TAATGAA AGTCAA GAATAA AAT-A AATAA
1 AATAA -AATAA -AATAA -AATAA -AAT-AA AAT-AA -AATAA AATAA AATAA
59352637 AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AA
59352654 ACATCATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.07
5 21 0.38
6 26 0.47
7 4 0.07
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:59352637 original size:9 final size:9
Alignment explanation
Indices: 59352623--59352652 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
59352613 GAAAGTCAAG
59352623 AATAAAATA
1 AATAAAATA
59352632 AATAAAATAA
1 AATAAAAT-A
59352642 AATAAAATA
1 AATAAAATA
59352651 AA
1 AA
59352653 AACATCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAAAATA
Found at i:59354104 original size:33 final size:30
Alignment explanation
Indices: 59354022--59354106 Score: 84
Period size: 33 Copynumber: 2.7 Consensus size: 30
59354012 GACTTATTAC
*
59354022 AAATTATATTTTAAAAA-TTAATATAATGAT
1 AAATAATA-TTTAAAAATTTAATATAATGAT
*
59354052 AAATAATTTTTAAACAATTTAATATAATGA-
1 AAATAATATTTAAA-AATTTAATATAATGAT
59354082 AACATGAGATATTTAAATAATTTAA
1 AA-AT-A-ATATTTAAA-AATTTAA
59354107 ATTTTTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 6 0.13
30 10 0.22
31 14 0.30
32 1 0.02
33 15 0.33
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (30 bp):
AAATAATATTTAAAAATTTAATATAATGAT
Found at i:59354736 original size:26 final size:27
Alignment explanation
Indices: 59354707--59354758 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
59354697 AGATCAGTTT
59354707 AGATCTTTGATTT-TTTAAAT-TTTAAA
1 AGAT-TTTGATTTATTTAAATATTTAAA
59354733 AGATTTTGATTTATTTAAATATTTAA
1 AGATTTTGATTTATTTAAATATTTAA
59354759 GAAATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 8 0.33
26 11 0.46
27 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (27 bp):
AGATTTTGATTTATTTAAATATTTAAA
Found at i:59361589 original size:16 final size:17
Alignment explanation
Indices: 59361538--59361592 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
59361528 CAATTAGTAT
59361538 TTATAAAAAATAATTTAA
1 TTATAAAAAATAATTT-A
*
59361556 TTATAAAATATAAAATTTA
1 TTATAAAA-A-ATAATTTA
*
59361575 TTATAAAACAT-ATTTA
1 TTATAAAAAATAATTTA
59361591 TT
1 TT
59361593 TTCTTTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.22
17 1 0.03
18 8 0.25
19 10 0.31
20 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATAAAAAATAATTTA
Found at i:59382853 original size:21 final size:21
Alignment explanation
Indices: 59382829--59382880 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
59382819 GAACTTTATA
59382829 TTCTTTTAAAAAGAATATAAT
1 TTCTTTTAAAAAGAATATAAT
*
59382850 TTCTTTTTCTTAAAAGAATATAAT
1 TTC--TTT-TAAAAAGAATATAAT
59382874 TTCTTTT
1 TTCTTTT
59382881 TCTTACTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.15
22 3 0.11
23 3 0.11
24 17 0.63
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (21 bp):
TTCTTTTAAAAAGAATATAAT
Found at i:59382867 original size:24 final size:24
Alignment explanation
Indices: 59382837--59382885 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
59382827 TATTCTTTTA
59382837 AAAAGAATATAATTTCTTTTTCTT
1 AAAAGAATATAATTTCTTTTTCTT
59382861 AAAAGAATATAATTTCTTTTTCTT
1 AAAAGAATATAATTTCTTTTTCTT
59382885 A
1 A
59382886 CTTTCCATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (24 bp):
AAAAGAATATAATTTCTTTTTCTT
Found at i:59384632 original size:32 final size:32
Alignment explanation
Indices: 59384591--59384655 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
59384581 ATTTCTAGGA
59384591 TTGTATGCAACTCCACTCAACTACGCAAGATC
1 TTGTATGCAACTCCACTCAACTACGCAAGATC
*
59384623 TTGTATGCAACTCCACTCAATTACGCAAGATC
1 TTGTATGCAACTCCACTCAACTACGCAAGATC
59384655 T
1 T
59384656 ACTCTTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (32 bp):
TTGTATGCAACTCCACTCAACTACGCAAGATC
Found at i:59386912 original size:17 final size:17
Alignment explanation
Indices: 59386892--59386927 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
59386882 TAGAATTGGG
59386892 TTGAGAAAA-TAATTTAA
1 TTGAGAAAATTAA-TTAA
59386909 TTGAGAAAATTAATTAA
1 TTGAGAAAATTAATTAA
59386926 TT
1 TT
59386928 TAACTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:59390059 original size:25 final size:26
Alignment explanation
Indices: 59390004--59390061 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
59389994 TTTTCTTAGT
* *
59390004 CTTTTTGGCGTATTCTGTATGTTGTA
1 CTTTGTGGCGTATACTGTATGTTGTA
*
59390030 C-TTGTGGCGTATACTGTATGTTG-C
1 CTTTGTGGCGTATACTGTATGTTGTA
59390054 CTTTGTGG
1 CTTTGTGG
59390062 TACATCTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.10, C:0.14, G:0.28, T:0.48
Consensus pattern (26 bp):
CTTTGTGGCGTATACTGTATGTTGTA
Found at i:59392460 original size:25 final size:25
Alignment explanation
Indices: 59392432--59392514 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
59392422 GCACACTCTC
*
59392432 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* * * **
59392457 GAGCCATGTAACAAGAAGCTTATCC
1 GAGCCATATAACAGGAAGCTCATGT
* * * *
59392482 GGGCTAAATAATAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
59392507 GAGCCATA
1 GAGCCATA
59392515 GTCGGGAAAC
Statistics
Matches: 40, Mismatches: 18, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:59392662 original size:26 final size:26
Alignment explanation
Indices: 59392547--59392685 Score: 94
Period size: 25 Copynumber: 5.6 Consensus size: 26
59392537 TAACAGGTAG
* *
59392547 CTCA-GAAGAGCCATTAATTAGGAAG
1 CTCACGAAGAGCCATTAATCAGGAAA
* * *
59392572 CTC-CGGATAGCCA-TATATCAGGAAG
1 CTCACGAAGAGCCATTA-ATCAGGAAA
* * * *
59392597 TTCAAG-TGAGCCA-T-ATCGGGAAA
1 CTCACGAAGAGCCATTAATCAGGAAA
59392620 CTC-CGAAGAGCCATTAATCAGGAAA
1 CTCACGAAGAGCCATTAATCAGGAAA
* * ** *
59392645 CTCACAAAGAGCCTTTAATTGGGAAG
1 CTCACGAAGAGCCATTAATCAGGAAA
59392671 CTCACGAAGAGCCAT
1 CTCACGAAGAGCCAT
59392686 ATAACGGGAC
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
22 1 0.01
23 15 0.17
24 3 0.03
25 37 0.43
26 31 0.36
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CTCACGAAGAGCCATTAATCAGGAAA
Found at i:59392694 original size:26 final size:26
Alignment explanation
Indices: 59392536--59392690 Score: 85
Period size: 25 Copynumber: 6.2 Consensus size: 26
59392526 CGTGCGAGAA
*
59392536 ATAACAGGTAGCTCA-GAAGAGCCAT
1 ATAACAGGAAGCTCACGAAGAGCCAT
* * *
59392561 -TAATTAGGAAGCTC-CGGATAGCCAT
1 ATAA-CAGGAAGCTCACGAAGAGCCAT
* * * *
59392586 ATATCAGGAAGTTCAAG-TGAGCCAT
1 ATAACAGGAAGCTCACGAAGAGCCAT
* *
59392611 AT--CGGGAAACTC-CGAAGAGCCAT
1 ATAACAGGAAGCTCACGAAGAGCCAT
* *
59392634 -TAATCAGGAAACTCACAAAGAGCC-T
1 ATAA-CAGGAAGCTCACGAAGAGCCAT
* **
59392659 TTAATTGGGAAGCTCACGAAGAGCCAT
1 ATAA-CAGGAAGCTCACGAAGAGCCAT
59392686 ATAAC
1 ATAAC
59392691 GGGACGTTCT
Statistics
Matches: 96, Mismatches: 23, Indels: 21
0.69 0.16 0.15
Matches are distributed among these distances:
22 2 0.02
23 14 0.15
24 3 0.03
25 42 0.44
26 31 0.32
27 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
ATAACAGGAAGCTCACGAAGAGCCAT
Found at i:59399572 original size:16 final size:18
Alignment explanation
Indices: 59399535--59399574 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
59399525 TTGATAACAT
59399535 ATAATATTTATAATTAAG
1 ATAATATTTATAATTAAG
59399553 ATAA-ATTTA-AATTCAA-
1 ATAATATTTATAATT-AAG
59399569 ATAATA
1 ATAATA
59399575 AAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
ATAATATTTATAATTAAG
Found at i:59403542 original size:2 final size:2
Alignment explanation
Indices: 59403535--59403565 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59403525 GTATTCTGTT
59403535 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59403566 TTGTGTCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59407110 original size:24 final size:24
Alignment explanation
Indices: 59407082--59407133 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59407072 TTAGTAAATC
*
59407082 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
59407106 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
59407130 AAAT
1 AAAT
59407134 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:59420972 original size:3 final size:3
Alignment explanation
Indices: 59420964--59421024 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
59420954 TAACATTAAA
* * *
59420964 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59421012 AAT AA- AA- AAT AAT
1 AAT AAT AAT AAT AAT
59421025 GGAGCTATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 4 0.08
3 49 0.92
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59422816 original size:36 final size:36
Alignment explanation
Indices: 59422769--59422839 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
59422759 CCATGATGTG
*
59422769 TAAGGTGGCTTGTGTTGGTCTATGTTTTTTTGTTGA
1 TAAGGTGGCTTGTGTTGGTCTATGTTTTTTCGTTGA
59422805 TAAGGTGGCTTGTGTTGGTCTATGTTTTTTCGTTG
1 TAAGGTGGCTTGTGTTGGTCTATGTTTTTTCGTTG
59422840 CTATAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.10, C:0.07, G:0.31, T:0.52
Consensus pattern (36 bp):
TAAGGTGGCTTGTGTTGGTCTATGTTTTTTCGTTGA
Found at i:59432259 original size:2 final size:2
Alignment explanation
Indices: 59432252--59432281 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
59432242 ATTTTTCCCG
59432252 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
59432282 GCCTCTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:59434516 original size:23 final size:23
Alignment explanation
Indices: 59434489--59434544 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
59434479 AAACTAATCC
59434489 TCTCTCAAATTTCC-TCTC-AATT
1 TCTCTCAAATTTCCTTC-CAAATT
59434511 TGCTCTCAAA-TTCCTTCCAAATT
1 T-CTCTCAAATTTCCTTCCAAATT
59434534 TCTCTCAAATT
1 TCTCTCAAATT
59434545 CATATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Found at i:59434538 original size:22 final size:21
Alignment explanation
Indices: 59434489--59434545 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
59434479 AAACTAATCC
59434489 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAA-TTCCTCTCAATT
59434511 TGCTCTCAAATTCCT-TCCAAATT
1 T-CTCTCAAATTCCTCT-C-AATT
59434534 TCTCTCAAATTC
1 TCTCTCAAATTC
59434546 ATATTTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 1 0.03
22 18 0.56
23 13 0.41
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCTCAAATTCCTCTCAATT
Found at i:59434542 original size:11 final size:11
Alignment explanation
Indices: 59434489--59434544 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
59434479 AAACTAATCC
59434489 TCTCTCAAATT
1 TCTCTCAAATT
59434500 TCCTCTC-AATT
1 T-CTCTCAAATT
59434511 TGCTCTCAAATT
1 T-CTCTCAAATT
*
59434523 CCT-TCCAAATT
1 TCTCT-CAAATT
59434534 TCTCTCAAATT
1 TCTCTCAAATT
59434545 CATATTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.03
11 27 0.71
12 10 0.26
ACGTcount: A:0.25, C:0.30, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:59434602 original size:51 final size:51
Alignment explanation
Indices: 59434503--59434602 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
59434493 TCAAATTTCC
*
59434503 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATTCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* * * *
59434554 TCTCAATTTGCTCTCAAGTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTTC-CAAATTTCTCTCAAATCCATATTT
59434603 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:59435756 original size:7 final size:7
Alignment explanation
Indices: 59435744--59435769 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59435734 TAGTTGATTG
59435744 GTATTTA
1 GTATTTA
59435751 GTATTTA
1 GTATTTA
59435758 GTATTTA
1 GTATTTA
59435765 GTATT
1 GTATT
59435770 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:59436446 original size:18 final size:18
Alignment explanation
Indices: 59436419--59436458 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59436409 CAAGTACGTT
* *
59436419 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
59436437 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
59436455 TCCT
1 TCCT
59436459 TTTCCGAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:59437038 original size:21 final size:21
Alignment explanation
Indices: 59437014--59437135 Score: 122
Period size: 21 Copynumber: 5.8 Consensus size: 21
59437004 ACTCTAACTC
*
59437014 TAACCCTTAACTTAAAAATCG
1 TAACCCTTAACTTAAAAACCG
*
59437035 TAACCCTTAAATTAAAAACTC-
1 TAACCCTTAACTTAAAAAC-CG
* *
59437056 TAAGCCCTTAACTTTAAAACTG
1 TAA-CCCTTAACTTAAAAACCG
* *
59437078 TAACCCTTAA-ATAACAAACCC
1 TAACCCTTAACTTAA-AAACCG
* * *
59437099 TAACACTTAAGTTAAAAACCT
1 TAACCCTTAACTTAAAAACCG
59437120 TAACCCTTAACTTAAA
1 TAACCCTTAACTTAAA
59437136 TATAATTTTA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
20 2 0.02
21 59 0.72
22 21 0.26
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (21 bp):
TAACCCTTAACTTAAAAACCG
Found at i:59437067 original size:43 final size:41
Alignment explanation
Indices: 59437009--59437135 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 41
59436999 TAAAAACTCT
59437009 AACTCTAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAA
1 AACTCTAACCCTTAACTTAAAAA-CGTAACCCTTAAATTAAA
*
59437051 AACTCTAAGCCCTTAACTTTAAAACTGTAACCCTTAAA-TAACA
1 AACTCTAA-CCCTTAACTTAAAAAC-GTAACCCTTAAATTAA-A
* * * * *
59437094 AACCCTAACACTTAAGTTAAAAACCTTAACCCTTAACTTAAA
1 AACTCTAACCCTTAACTTAAAAA-CGTAACCCTTAAATTAAA
59437136 TATAATTTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
42 35 0.48
43 38 0.52
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (41 bp):
AACTCTAACCCTTAACTTAAAAACGTAACCCTTAAATTAAA
Found at i:59437108 original size:64 final size:63
Alignment explanation
Indices: 59437009--59437132 Score: 153
Period size: 64 Copynumber: 2.0 Consensus size: 63
59436999 TAAAAACTCT
* * * *
59437009 AACTCTAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAAA-CTCTAAGCCCTTAACTTTAA
1 AACTCTAACCCTTAACATAAAAACCCTAACACTTAAATTAAAAACCT-TAA-CCCTTAACTTTAA
* *
59437073 AACTGTAACCCTTAA-ATAACAAACCCTAACACTTAAGTTAAAAACCTTAACCCTTAACTT
1 AACTCTAACCCTTAACATAA-AAACCCTAACACTTAAATTAAAAACCTTAACCCTTAACTT
59437133 AAATATAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
63 13 0.25
64 37 0.71
65 2 0.04
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (63 bp):
AACTCTAACCCTTAACATAAAAACCCTAACACTTAAATTAAAAACCTTAACCCTTAACTTTAA
Found at i:59440628 original size:125 final size:124
Alignment explanation
Indices: 59440320--59440760 Score: 636
Period size: 125 Copynumber: 3.5 Consensus size: 124
59440310 CCCAAACATG
*
59440320 CTACTGTAGCAAAAGCACGTTCACG-GAGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTG
1 CTACTGTAGCAAAAGCGCGTTCACGAG-GGCGCGATTTCACAAATTCTTCTCAAATAGCATACTG
* * *
59440384 CTAGAAGTGTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * *
59440444 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTGC
* *
59440509 TTGAAGCGTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* **
59440569 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTACTCATAA-AGCATTTTG
1 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATACTG
59440633 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * * *
59440694 CTACTATAGCAAAAGCGCGTACACGTGGGCGCGACTTCAGAAATCCTTCT-AATAAAGCATATTG
1 CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAA-ATAGCATACTG
59440758 CTT
65 CTT
59440761 TAATTTTATC
Statistics
Matches: 287, Mismatches: 24, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
123 1 0.00
124 106 0.37
125 138 0.48
126 42 0.15
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTTCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:59441580 original size:73 final size:72
Alignment explanation
Indices: 59441440--59441591 Score: 209
Period size: 73 Copynumber: 2.1 Consensus size: 72
59441430 TTAGCGGTAT
* * *
59441440 TTTTTAA-AAAGCACCGCAAAAAACCTAAGCCCAACAACGCCATTTTCTGAGCTTTTGGGGATTT
1 TTTTTAAGAAAGCACCGCAAAAAACCTAAGCCCAAAAACACCATTTTCTGAGCTTTCGGGGATTT
59441504 AGCGGCG
66 AGCGGCG
* * * *
59441511 TTTTTAAGAAAGCGCTGCAAAAAACCTAAG-CCAAAATGACACCGTTTTGTGAGCTTTCGGGGAT
1 TTTTTAAGAAAGCACCGCAAAAAACCTAAGCCCAAAA--ACACCATTTTCTGAGCTTTCGGGGAT
59441575 TTAGCGGCG
64 TTAGCGGCG
59441584 TTTTTAAG
1 TTTTTAAG
59441592 GAATCGCCGC
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
71 12 0.17
72 20 0.28
73 39 0.55
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
TTTTTAAGAAAGCACCGCAAAAAACCTAAGCCCAAAAACACCATTTTCTGAGCTTTCGGGGATTT
AGCGGCG
Found at i:59441828 original size:114 final size:114
Alignment explanation
Indices: 59441501--59441815 Score: 490
Period size: 113 Copynumber: 2.8 Consensus size: 114
59441491 CTTTTGGGGA
* * * *
59441501 TTTAGCGGCGTTTTTAAGAAAGCGCTGCAAAAAACCTAAGCCAAAATGACACCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
59441566 TTCGGGGATTTAGCGGCGTTTTTAAGGAATCGCCGCTAATGCTCAAGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGC
* * * *
59441615 TTTAGCGGCG-TTTTGGGAAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
59441679 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGC
* * *
59441728 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACTTAAGCCGAAAA-GACGCCATTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCC-AAAACGACGCCGTTTTGTGAGC
59441792 TTTCGGGGATTTAGCGGCGTTTTT
65 TTTCGGGGATTTAGCGGCGTTTTT
59441816 TATAAAGCGC
Statistics
Matches: 182, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
113 103 0.57
114 75 0.41
115 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAAGGC
Found at i:59441859 original size:73 final size:73
Alignment explanation
Indices: 59441728--59441888 Score: 252
Period size: 73 Copynumber: 2.2 Consensus size: 73
59441718 TGCTCAGGGC
*
59441728 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACTTAAGCCGAAAAGACGCCATTTTGTGAGCT
1 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACCTAAGCCGAAAAGACGCCATTTTGTGAGCT
59441793 TTCGGGGA
66 TTCGGGGA
* * * * *
59441801 TTTAGCGGCGTTTTTTATAAAGCGCCGCAAATAACCTGAGCC-AAAACGATGCCGTTTTGTGAGC
1 TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACCTAAGCCGAAAA-GACGCCATTTTGTGAGC
59441865 TTTCGGGGA
65 TTTCGGGGA
59441874 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
59441889 AAGGAAGCGC
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 4 0.05
73 77 0.95
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACCTAAGCCGAAAAGACGCCATTTTGTGAGCT
TTCGGGGA
Found at i:59441868 original size:187 final size:186
Alignment explanation
Indices: 59441615--59442027 Score: 639
Period size: 187 Copynumber: 2.2 Consensus size: 186
59441605 TGCTCAAGGC
**
59441615 TTTAGCGGCGTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCGTTTTGTAAGCTT
1 TTTAGCGGCGTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCGTTTTGTAAGCTT
59441680 TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
66 TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
* * * *
59441745 TAAAGCGCCGCAAAAAACTTAAGCCGAAAA-GACGCCATTTTGTGAGCTTTCGGGGA
131 GAAAGCGCAGCAAAAAACTTAAGCC-AAAACGACGCCATTTTGTGAGCTTTAGAGGA
* * * * *
59441801 TTTAGCGGCGTTTTTTATAAAGCGCCGCAAATAACCTGAGCCAAAACGATGCCGTTTTGTGAGCT
1 TTTAGCGGCG-TTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCGTTTTGTAAGCT
* *
59441866 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGTTAATGCTCAGGGCTTTAGTGGCGTTTTTG
65 TTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * *
59441931 GGAAAGCGCAGCAAAAAACTTAAGCCAAAACGGCGCCGTTTTGTGAGCTTTAGAGGA
130 AGAAAGCGCAGCAAAAAACTTAAGCCAAAACGACGCCATTTTGTGAGCTTTAGAGGA
* *
59441988 TTTTGCGGCGTTTTTAGAAAGCGTCGCAAAAAACCTAAGC
1 TTTAGCGGCGTTTTTAGAAAGCGCCGCAAAAAACCTAAGC
59442028 GCTTTCGGGG
Statistics
Matches: 204, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
186 40 0.20
187 164 0.80
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (186 bp):
TTTAGCGGCGTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAATGCCGTTTTGTAAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
GAAAGCGCAGCAAAAAACTTAAGCCAAAACGACGCCATTTTGTGAGCTTTAGAGGA
Found at i:59442341 original size:22 final size:21
Alignment explanation
Indices: 59442316--59442363 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
59442306 GTGTTACCAT
*
59442316 TTTAAGGTTTATAGATTATGGG
1 TTTAAGGGTTATAGATTAT-GG
* * *
59442338 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATAGATTATGG
59442359 TTTAA
1 TTTAA
59442364 AGACTGAGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATAGATTATGG
Found at i:59442439 original size:21 final size:21
Alignment explanation
Indices: 59442411--59442458 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
59442401 AGGGGCTAGT
*
59442411 AGTTAGGGGTCAGAGGTTTAAG
1 AGTTAGGGATCAGAGG-TTAAG
*
59442433 A-TTAGGGATTAGAGGTTAAG
1 AGTTAGGGATCAGAGGTTAAG
59442453 AGTTAG
1 AGTTAG
59442459 TGATTTAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 16 0.70
22 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.38, T:0.29
Consensus pattern (21 bp):
AGTTAGGGATCAGAGGTTAAG
Found at i:59442463 original size:21 final size:22
Alignment explanation
Indices: 59442422--59442483 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
59442412 GTTAGGGGTC
59442422 AGAGGTTTAAGATTAGGGA-TT
1 AGAGGTTTAAGATTAGGGATTT
*
59442443 AGAGG-TTAAGAGTTAGTGATTT
1 AGAGGTTTAAGA-TTAGGGATTT
59442465 AGA-GTTTAGAGATTCAGGG
1 AGAGGTTTA-AGATT-AGGG
59442484 TCGGGTTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 6 0.18
21 12 0.35
22 10 0.29
23 6 0.18
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (22 bp):
AGAGGTTTAAGATTAGGGATTT
Found at i:59444541 original size:13 final size:13
Alignment explanation
Indices: 59444523--59444548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59444513 TTATAAAATT
59444523 TTTACATTTTACA
1 TTTACATTTTACA
59444536 TTTACATTTTACA
1 TTTACATTTTACA
59444549 AAGCTTCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTACATTTTACA
Found at i:59446873 original size:43 final size:43
Alignment explanation
Indices: 59446825--59447097 Score: 330
Period size: 43 Copynumber: 6.3 Consensus size: 43
59446815 TTTTTTATGA
* * *
59446825 TCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCAGGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
* * *
59446868 TCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCAGGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
** * * * * *
59446911 TCTTTAGCGATGTTTGTGAGAAAAGCGCTGCTAAAGAACCTGA
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
* * * *
59446954 CCTTTAGCGGCGTTTGTGGGTAAAGCGCTGCTAAAGATTATGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
* * *
59446997 TTTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
* * * *
59447040 TCTTTAGCGGCATTTGTGGGTAAAGTGCCGTTAAAGATCATGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
59447083 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
59447098 TTTCAAATAA
Statistics
Matches: 196, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 196 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
Found at i:59450025 original size:21 final size:22
Alignment explanation
Indices: 59449988--59450029 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
59449978 TAAATTGATT
*
59449988 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAATATAAC
59450010 CATTAAAAAT-TAAAATATAA
1 CATTAAAAATGTAAAATATAA
59450030 TTAACAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
CATTAAAAATGTAAAATATAAC
Found at i:59450956 original size:18 final size:20
Alignment explanation
Indices: 59450936--59450972 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59450926 TTTAATAATA
*
59450936 TTTTA-TAAAACAATTATAT
1 TTTTATTAAAAAAATTATAT
59450955 TTTTATTAAAAAAATTAT
1 TTTTATTAAAAAAATTAT
59450973 TATATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTATTAAAAAAATTATAT
Found at i:59473815 original size:30 final size:30
Alignment explanation
Indices: 59473779--59473843 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
59473769 TCATAATTTT
59473779 TTATATAAA-TGTTTTAAAA-ATTAAAAGAAA
1 TTATATAAACT-TTTTAAAATA-TAAAAGAAA
59473809 TTATATAAACTTTTTAAAATATAAAAGAAA
1 TTATATAAACTTTTTAAAATATAAAAGAAA
*
59473839 CTATA
1 TTATA
59473844 AATTATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
TTATATAAACTTTTTAAAATATAAAAGAAA
Found at i:59479569 original size:106 final size:106
Alignment explanation
Indices: 59479384--59479590 Score: 292
Period size: 106 Copynumber: 2.0 Consensus size: 106
59479374 AGTTTGGCCT
* *
59479384 TTATTATATGCTTTTTCCTGGGGTAGCTATCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
1 TTATTATATGCTTTTTCATGGGGTAGCTACCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
* *
59479449 TCCTCTTTGCTTTTGGCAAAACATAGTGATAGCTTTAGCCA
66 TCATCTTTGCTTTTGGCAAAACATAATGATAGCTTTAGCCA
*** *
59479490 TTATTATATGCTTTTTCAT-GGGTGAGCTACCATTTTGGTTAAAATTTCTT-TAACTTAATGGTC
1 TTATTATATGCTTTTTCATGGGGT-AGCTACCATTTTGGTTAAAAAAACTTAT-ACTCAATGGTC
* *
59479553 TCTTATCTTTGCTTTTGGCAAAGCATAATGATAGCTTT
64 TCTCATCTTTGCTTTTGGCAAAACATAATGATAGCTTT
59479591 GGCTGAGGCC
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 5 0.06
106 84 0.94
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (106 bp):
TTATTATATGCTTTTTCATGGGGTAGCTACCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
TCATCTTTGCTTTTGGCAAAACATAATGATAGCTTTAGCCA
Found at i:59494602 original size:13 final size:14
Alignment explanation
Indices: 59494579--59494607 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
59494569 TGGATTTGGG
59494579 TAAAAATATAAATT
1 TAAAAATATAAATT
59494593 TAAAAA-ATAAATT
1 TAAAAATATAAATT
59494606 TA
1 TA
59494608 GGAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAAATATAAATT
Found at i:59501502 original size:13 final size:13
Alignment explanation
Indices: 59501484--59501523 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
59501474 AGTTCTTCGT
59501484 TGCTGTGGAAAAG
1 TGCTGTGGAAAAG
59501497 TGCTGTGGAAAAG
1 TGCTGTGGAAAAG
* *
59501510 TGCTTTTGAAAAG
1 TGCTGTGGAAAAG
59501523 T
1 T
59501524 TTGATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (13 bp):
TGCTGTGGAAAAG
Found at i:59505332 original size:8 final size:8
Alignment explanation
Indices: 59505321--59505364 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
59505311 TAATTCCTTA
59505321 AAAATAAT
1 AAAATAAT
59505329 AAAATAAT
1 AAAATAAT
59505337 AAAATAAT
1 AAAATAAT
59505345 AAAATAAT
1 AAAATAAT
*
59505353 -AAATGAT
1 AAAATAAT
59505360 AAAAT
1 AAAAT
59505365 TATAGACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 6 0.18
8 28 0.82
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (8 bp):
AAAATAAT
Found at i:59513755 original size:3 final size:3
Alignment explanation
Indices: 59513747--59513833 Score: 70
Period size: 3 Copynumber: 28.0 Consensus size: 3
59513737 AAAATAAAAC
* * *
59513747 TAA TAA TAA TTAA TAA TGA TAA TAA TAG TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
59513793 TAA TAAA TGA TAA TACA TTAA -AA TAA TTAA CAA -AA TAA TAA
1 TAA T-AA TAA TAA TA-A -TAA TAA TAA -TAA TAA TAA TAA TAA
59513834 GATTGCTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
2 4 0.06
3 51 0.75
4 11 0.16
5 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:59514615 original size:14 final size:14
Alignment explanation
Indices: 59514596--59514622 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59514586 ATGTAAAAGA
59514596 TAAAATAAAATAAG
1 TAAAATAAAATAAG
59514610 TAAAATAAAATAA
1 TAAAATAAAATAA
59514623 ACAAGCAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
TAAAATAAAATAAG
Found at i:59515485 original size:44 final size:44
Alignment explanation
Indices: 59515421--59516214 Score: 643
Period size: 44 Copynumber: 18.2 Consensus size: 44
59515411 GTTTTTTCTG
* ***
59515421 TCTGCTCCGCTACTGCTTAGGGAGATAGGATCTAATATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **
59515465 CCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **** **
59515509 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * * * * *
59515552 TCTACTTCACTACTACTTAGGAAGATAAGAT-TCGCCGTCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT-GCCATCTTTGA
***
59515596 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * **** **
59515640 CCTGCTCCACTACTGCTTAGGGAGATATGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * * * *
59515683 TCTGCTTCACTGCTGCTTAGGAAGAT-GAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCT-GCCATCTTTGA
***
59515727 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **
59515771 CCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **** **
59515815 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * * * *
59515858 TCTGCTTCACTACTGCTTAGGAAGATAAGATTTGCCGTCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * *
59515902 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT-TTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* ** ***
59515945 TCTGCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTCTTCTG-
1 TCTGCTCCACTACTGC-TTAGGGAGATAGGATCTGCCATCTT-TGA
* * *
59515989 TCTGCTCCACTACTTCTTAGGGAGATAAGA-CTTG--GTGC---GA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATC-TGCCAT-CTTTGA
* *
59516029 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATATTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **** **
59516073 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * *
59516116 TCTGCTTCACTACTGCTTAGGAAGAT-GAGATTTGCCAT-TTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCTGCCATCTTT-GA
* * *
59516160 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
*
59516204 CCTGCTCCACT
1 TCTGCTCCACT
59516215 GTAACCTCAG
Statistics
Matches: 597, Mismatches: 126, Indels: 54
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.00
40 29 0.05
41 1 0.00
42 3 0.01
43 160 0.27
44 397 0.66
45 6 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
Found at i:59515740 original size:175 final size:173
Alignment explanation
Indices: 59515421--59516186 Score: 753
Period size: 175 Copynumber: 4.4 Consensus size: 173
59515411 GTTTTTTCTG
*
59515421 TCTGCTCCGCTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
***** ** * * * * ** * *
59515486 GAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
66 GAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATA-GATTGCCGTCTTAG
* * * * * *
59515551 ATCTACTTCACTACTACTTAGGAAGATAAGAT-TCGCCGTCTTTGA
129 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTTGA
59515596 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
* * *
59515661 GAGATATGACTGGTGGCTTAAATCTGCTTCACTGCTGCTTAGGAAGATGAGATTCGCCGTCTTCG
66 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGAT-AGATT-GCCGTCTTAG
* **
59515726 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGA
129 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* *
59515771 CCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
*
59515836 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTTGCCGTCTTTG
66 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGAT-AGA-TTGCCGTCTTAG
*
59515901 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT-TTTAA
129 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* ** ** * * *
59515945 TCTGCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTCTTCTG-TCTGCTCCACTACTTCTTA
1 TCTGCTCCACTACTGC-TTAGGGAGATAGGATCTAATATCTT-TGACCTGCTCCACTACTGCTTA
* * * * * * *
59516008 GGGAGATAAGACTTGGT-GC---GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATAT
64 GGGAGATAGGAC-TGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATA-GAT-TGCCGTCT
* * * ***** **
59516069 TTGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
126 TAGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * * *** *
59516116 TCTGCTTCACTACTGCTTAGGAAGAT-GAGATTTGCCAT-TTTCGATCTGCTCCACTACTGCTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCTAATATCTTT-GACCTGCTCCACTACTGCTTA
59516179 GGGAGATA
64 GGGAGATA
59516187 AGATCTACCA
Statistics
Matches: 505, Mismatches: 72, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
169 2 0.00
170 19 0.04
171 109 0.22
174 82 0.16
175 290 0.57
176 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (173 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAGATTGCCGTCTTAGAT
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
Found at i:59515861 original size:131 final size:131
Alignment explanation
Indices: 59515422--59516214 Score: 719
Period size: 131 Copynumber: 6.1 Consensus size: 131
59515412 TTTTTTCTGT
* ** * * *
59515422 CTGCTCCGCTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGTCTTAGATCTGCTCCACTACTGCTTAGGG
***** *
59515487 AGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
65 AGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTA
*
59515551 AT
130 AC
* * * * * * ** *
59515553 CTACTTCACTACTACTTAGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGTCTTAGATCTGCTCCACTACTGCTTAGGG
* * ***** *
59515618 AGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGGGAGATATGA-CTGGTGGCTTAA
65 AGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTA
*
59515682 AT
130 AC
* * * * ** *
59515684 CTGCTTCACTGCTGCTTAGGAAGAT-GAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAG-GACT-GGTGTCTTAGATCTGCTCCACTACTGCTTAGG
* *
59515748 GAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTT
64 GAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTT
*
59515813 GAC
129 AAC
* * * *
59515816 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGTCTTAGATCTGCTCCACTACTGCTTAGGGA
* * ** * * *
59515881 GATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT-TTTAA
66 GATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTAA
*
59515945 T
131 C
* ** * * * *
59515946 CTGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTG-TCTGCTCCACTACTTCTTAGG
1 CTGCTCCACTACTGC-TTAGGGAGATAGGACTGGTGTCTT-AGATCTGCTCCACTACTGCTTAGG
* * ** * *
59516010 GAGATAAGA-CT----TGGTGCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATATT
64 GAGATAGGATCTAACAT-CTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTT
*
59516070 TGAC
128 TAAC
* * * *
59516074 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGTCTTAGATCTGCTCCACTACTGCTTAGGGA
* ** * * *
59516139 GAT-GAGATTTGCCAT-TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTC
66 GATAG-GATCTAACATCTTT-GACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTT
*
59516202 GAC
129 AAC
59516205 CTGCTCCACT
1 CTGCTCCACT
59516215 GTAACCTCAG
Statistics
Matches: 560, Mismatches: 86, Indels: 32
0.83 0.13 0.05
Matches are distributed among these distances:
126 1 0.00
127 86 0.15
128 17 0.03
130 19 0.03
131 404 0.72
132 32 0.06
133 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGTCTTAGATCTGCTCCACTACTGCTTAGGGA
GATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTAA
C
Found at i:59516526 original size:44 final size:43
Alignment explanation
Indices: 59516197--59516986 Score: 355
Period size: 44 Copynumber: 17.8 Consensus size: 43
59516187 AGATCTACCA
* * **
59516197 TCTTCGACCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAAT
1 TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG---T
* * * *
59516243 TCTTTGGTTTACTCCACTGTAACCTT-AGGGAGATAAGATTTG-
1 TCTTCGATCTGCTCCACTGTAA-CTTCAGGGAGATAAGATTTGT
* * * * *
59516285 T-TGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTT-T
1 TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGAT--TTGT
** * * * **
59516328 AT-TTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTACT
1 -TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT
* * * * *
59516371 AGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG---T
* ** * * *
59516418 TCTTCGGTCCACTCCACTGTAACCTCAGGGAGATAAGACTTGCA
1 TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG-T
* * * * * *
59516462 TATTCAACCAGCCCCACTGTAACTTCAGGGAGATAAGGTTTGT
1 TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT
* * * * *
59516505 GGCTTCGATCTGCTCCTCTGTAA-TCTCAGGAAGATAAGATCTCT
1 -TCTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATTTGT
* * * * *
59516549 AGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGAATTGAAAT
1 -TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG---T
* * * ***
59516596 TCTTCGGTCTACTCCACTGTAA-TCTCAAGGAGATAAGACCTAAAAT
1 TCTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAAGA--T-TTGT
* * * * *
59516642 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCA
1 TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG-T
* * * * * * *
59516686 TATTCAACCTGCCCCACTGTAACTTCAGGGAAATAAGGTTCGT
1 TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT
* * *
59516729 GGCTTCGATCTGCTCCTCTGTAA-TCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATTTG---T
* * * *
59516776 TCTTCGGTCTACTCCACTGTAA-TCTCAGGGAGATAAGACTTGCA
1 TCTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAAGATTTG-T
* * * * * *
59516820 TATTCAACCTGCCCCACTGTAACTTCAGAGAGATAAGGTTTGT
1 TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT
* ** * *
59516863 GGCTTCGATCTGCTCTTCTGTAACTTCAGAGAGATAGGATCCTT-T
1 -TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGAT--TTGT
** * * * *
59516908 AT-TTTAATCCGCTCCACTATAACTTCAGGGAGATAGGA-TAGT
1 -TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT
*
59516950 GTCTTCGATCTGCTCCGCTGTAA-TCTCAGGGAGATAA
1 -TCTTCGATCTGCTCCACTGTAACT-TCAGGGAGATAA
59516987 AATCTCTGAC
Statistics
Matches: 550, Mismatches: 159, Indels: 73
0.70 0.20 0.09
Matches are distributed among these distances:
40 3 0.01
41 27 0.05
42 5 0.01
43 32 0.06
44 305 0.55
45 2 0.00
46 171 0.31
47 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT
Found at i:59516785 original size:134 final size:134
Alignment explanation
Indices: 59516597--59516903 Score: 481
Period size: 134 Copynumber: 2.3 Consensus size: 134
59516587 AATTGAAATT
* * * * *
59516597 CTTCGGTCTACTCCACTGTAATCTCAAGGAGATAAGACCTAAAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGT
*
59516662 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAAATAAGGTTC
66 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAAATAAGGTTC
59516727 GTGG
131 GTGG
*
59516731 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGT
* * *
59516796 AATCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAGATAAGGTTT
66 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAAATAAGGTTC
59516861 GTGG
131 GTGG
* * *
59516865 CTTCGATCTGCTCTTCTGTAA-CTTCAGAGAGATAGGATC
1 CTTCGATCTGCTCCTCTGTAATC-TCAGGGAGATAAGATC
59516904 CTTTATTTTA
Statistics
Matches: 159, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
133 1 0.01
134 158 0.99
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (134 bp):
CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGT
AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAAATAAGGTTC
GTGG
Found at i:59516797 original size:358 final size:353
Alignment explanation
Indices: 59516182--59516885 Score: 963
Period size: 358 Copynumber: 2.0 Consensus size: 353
59516172 CTGCTTAGGG
* * * *
59516182 AGATAAGATCTACCATCTTCGACCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTT
1 AGATAAGATCTACCAGCTTCAACCTGCTCCACTGTAACCTCAAGGAGATAAGAACTGAAATTCTT
* * * * * * *
59516247 TGGTTTACTCCACTGTAACCTTAGGGAGATAAGATTTGTTGCGATCTACTCTACTGTAACTTCAG
66 CGGTCTACTCCACTGTAACCTCAAGGAGATAAGATTTCTTGCGATCTACTCCACTGTAACCTCAG
* * * *
59516312 AGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTACTAGCTCC
131 AGAGATAAGA-CCTTCATTTCAATCCGCCCCACTGTAACTTCAGGAAGATAGGATTACTAGCTCC
59516377 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACC
195 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACC
*
59516442 TCAGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGG
260 TCAGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGAGAGATAAGGTTTGTGG
59516507 CTTCGATCTGCTCCTCTGTAATCTCAGGA
325 CTTCGATCTGCTCCTCTGTAATCTCAGGA
* * *
59516536 AGATAAGATCT-CTAGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGAATTGAAATTCTT
1 AGATAAGATCTACCAGCTTCAACCTGCTCCACTGTAACCTCAAGGAGATAAGAACTGAAATTCTT
* *
59516600 CGGTCTACTCCACTGTAATCTCAAGGAGATAAGACCTAAAATTCTT-CGGTCTACTCCACTGTAA
66 CGGTCTACTCCACTGTAACCTCAAGGAGATAAGA--T----TTCTTGCGATCTACTCCACTGTAA
*
59516664 CCTCAGGGAGATAAGA-CTTGCATATTCAA-CCTGCCCCACTGTAACTTCAGGGAA-ATAAGG-T
125 CCTCAGAGAGATAAGACCTT-CAT-TTCAATCC-GCCCCACTGTAACTTCA-GGAAGAT-AGGAT
* * * * * *
59516725 T-CGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACT
185 TAC-TAGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACT
* *
59516789 CCACTGTAATCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAGAT
249 CCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGAGAGAT
*
59516854 AAGGTTTGTGGCTTCGATCTGCTCTTCTGTAA
314 AAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
59516886 CTTCAGAGAG
Statistics
Matches: 307, Mismatches: 31, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
353 75 0.24
354 11 0.04
355 1 0.00
356 3 0.01
357 5 0.02
358 201 0.65
359 11 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (353 bp):
AGATAAGATCTACCAGCTTCAACCTGCTCCACTGTAACCTCAAGGAGATAAGAACTGAAATTCTT
CGGTCTACTCCACTGTAACCTCAAGGAGATAAGATTTCTTGCGATCTACTCCACTGTAACCTCAG
AGAGATAAGACCTTCATTTCAATCCGCCCCACTGTAACTTCAGGAAGATAGGATTACTAGCTCCA
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACCT
CAGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGAGAGATAAGGTTTGTGGC
TTCGATCTGCTCCTCTGTAATCTCAGGA
Found at i:59516839 original size:224 final size:222
Alignment explanation
Indices: 59516380--59516856 Score: 670
Period size: 224 Copynumber: 2.1 Consensus size: 222
59516370 TAGCTCCAAT
* * *
59516380 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACCTCA
1 CTGCTCCACTGTAACCTCAAGGAGATAAGACCTAAAATTCTTCGGTCCACTCCACTGTAACCTCA
* *
59516445 GGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTT
66 GGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAAATAAGGTTCGTGGCTT
** *
59516510 CGATCTGCTCCTCTGTAATCTCAGGAAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCT
131 CGATCTGCTCCTCTGTAATCTCAGGAAGATAAGATCTAAAGCTTCAATCTACTCCACTGTAACCT
**
59516575 CAAGGAGATAAGAATTGAAATTCTTCGG
196 CAAGGAGATAAGAATTGAAATTCAAC-G
* * *
59516603 TCTACTCCACTGTAATCTCAAGGAGATAAGACCTAAAATTCTTCGGTCTACTCCACTGTAACCTC
1 -CTGCTCCACTGTAACCTCAAGGAGATAAGACCTAAAATTCTTCGGTCCACTCCACTGTAACCTC
*
59516668 AGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAAATAAGGTTCGTGGCT
65 AGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAAATAAGGTTCGTGGCT
* * **
59516733 TCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAA
130 TCGATCTGCTCCTCTGTAATCTCAGGAAGATAAGATCT-AAA-GCTTCAATCTACTCCACTGTAA
* * * *
59516798 TCTCAGGGAGATAAGACTTGCATATTCAAC-
193 CCTCAAGGAGATAAGAATTG-AAATTCAACG
* *
59516828 CTGCCCCACTGTAACTTC-AGAGAGATAAG
1 CTGCTCCACTGTAACCTCAAG-GAGATAAG
59516857 GTTTGTGGCT
Statistics
Matches: 223, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
223 2 0.01
224 179 0.80
225 1 0.00
226 35 0.16
227 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (222 bp):
CTGCTCCACTGTAACCTCAAGGAGATAAGACCTAAAATTCTTCGGTCCACTCCACTGTAACCTCA
GGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAAATAAGGTTCGTGGCTT
CGATCTGCTCCTCTGTAATCTCAGGAAGATAAGATCTAAAGCTTCAATCTACTCCACTGTAACCT
CAAGGAGATAAGAATTGAAATTCAACG
Found at i:59518296 original size:27 final size:28
Alignment explanation
Indices: 59518265--59518321 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
59518255 TTAGCCTCTC
59518265 CAATTTTCAATT-TTCA-TTTTC-TTTTTT
1 CAATTTTC-ATTCTT-ATTTTTCATTTTTT
59518292 CAATTTTCATTCTTATTTTTCATTTTTT
1 CAATTTTCATTCTTATTTTTCATTTTTT
59518320 CA
1 CA
59518322 GAGTGCCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.15
27 15 0.56
28 8 0.30
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (28 bp):
CAATTTTCATTCTTATTTTTCATTTTTT
Found at i:59518316 original size:7 final size:7
Alignment explanation
Indices: 59518268--59518318 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
59518258 GCCTCTCCAA
*
59518268 TTTTCAA
1 TTTTCAT
59518275 TTTTCA-
1 TTTTCAT
*
59518281 TTTTCTT
1 TTTTCAT
*
59518288 TTTTCAA
1 TTTTCAT
59518295 TTTTCAT
1 TTTTCAT
*
59518302 TCTT-AT
1 TTTTCAT
59518308 TTTTCAT
1 TTTTCAT
59518315 TTTT
1 TTTT
59518319 TCAGAGTGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 10 0.28
7 26 0.72
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:59518318 original size:20 final size:20
Alignment explanation
Indices: 59518268--59518317 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
59518258 GCCTCTCCAA
*
59518268 TTTTCAATTTTCATTTTCTT
1 TTTTCAATTTTCATTTTCAT
59518288 TTTTCAATTTTCATTCTT-AT
1 TTTTCAATTTTCATT-TTCAT
59518308 TTTTC-ATTTT
1 TTTTCAATTTT
59518318 TTCAGAGTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 5 0.18
20 21 0.75
21 2 0.07
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCAATTTTCATTTTCAT
Found at i:59519312 original size:40 final size:40
Alignment explanation
Indices: 59519259--59519379 Score: 115
Period size: 40 Copynumber: 3.0 Consensus size: 40
59519249 TTTCATTTTC
59519259 ATTTTGA-TCTTGATTTTGATTTTTTTCTTCTTTC-TTCTTT
1 ATTTTGACT-TTGATTTTGATTTTTTTCTTCTTTCATT-TTT
* * * * *
59519299 TTTTTTATTTTGATTTTTAATTTTTTTCCT-TTTCATTTTT
1 ATTTTGACTTTGA-TTTTGATTTTTTTCTTCTTTCATTTTT
*
59519339 ATTTTGACTTTGATTTTGATTTTTCTTTTTC-TTCACTTTTT
1 ATTTTGACTTTGATTTTGATTTTT-TTCTTCTTTCA-TTTTT
59519380 GATCTGAGCC
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
39 10 0.15
40 33 0.51
41 22 0.34
ACGTcount: A:0.12, C:0.11, G:0.06, T:0.72
Consensus pattern (40 bp):
ATTTTGACTTTGATTTTGATTTTTTTCTTCTTTCATTTTT
Found at i:59524123 original size:3 final size:3
Alignment explanation
Indices: 59524115--59524207 Score: 82
Period size: 3 Copynumber: 30.0 Consensus size: 3
59524105 AAAATAAAAC
* *
59524115 TAA TAA TAA TTAA TAA TGA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
59524161 TAG TAA TAA TAAA TGA TAA TACA TTAA -AA TAA TTAA CAA -AA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TA-A -TAA TAA TAA -TAA TAA TAA TAA TAA
59524208 GATTGCTAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
2 4 0.05
3 57 0.77
4 11 0.15
5 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:59524988 original size:14 final size:14
Alignment explanation
Indices: 59524969--59524995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59524959 ATGTAAAAGA
59524969 TAAAATAAAATAAG
1 TAAAATAAAATAAG
59524983 TAAAATAAAATAA
1 TAAAATAAAATAA
59524996 ACAAGCAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
TAAAATAAAATAAG
Found at i:59526308 original size:19 final size:19
Alignment explanation
Indices: 59526271--59526311 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
59526261 AGATTACCTG
59526271 AAAGTAATTTCCAAGAAAA
1 AAAGTAATTTCCAAGAAAA
*
59526290 AAAGTTAATTTTCAA-AAAA
1 AAAG-TAATTTCCAAGAAAA
59526309 AAA
1 AAA
59526312 AAAATTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAGTAATTTCCAAGAAAA
Found at i:59526312 original size:20 final size:19
Alignment explanation
Indices: 59526271--59526312 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
59526261 AGATTACCTG
*
59526271 AAAGTAATTTCCAAGAAAA
1 AAAGTAATTTCCAAAAAAA
*
59526290 AAAGTTAATTTTCAAAAAAA
1 AAAG-TAATTTCCAAAAAAA
59526310 AAA
1 AAA
59526313 AAATTTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAGTAATTTCCAAAAAAA
Found at i:59527863 original size:16 final size:16
Alignment explanation
Indices: 59527842--59527906 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
59527832 TTCGCTGTAT
*
59527842 TGGAATAGAGGCATAA
1 TGGAATAGAGGCGTAA
59527858 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
59527874 TGGAATAAAGGTGTAA
1 TGGAATAGAGGCGTAA
59527890 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
59527906 T
1 T
59527907 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.40, C:0.05, G:0.34, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:59528226 original size:61 final size:60
Alignment explanation
Indices: 59528156--59528344 Score: 206
Period size: 61 Copynumber: 3.1 Consensus size: 60
59528146 ATTTAATAAA
59528156 AATATATAATTTAGTAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTA-TAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
* * * * * ** ** * *
59528217 AATATATAATACTATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-TTATAAAATTCTTAATATTAA-AT-ATTCTTATATGAATTTTCTAAAATCAT
59528276 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTT-ATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
59528337 AATATATA
1 AATATATA
59528345 TATAATACTA
Statistics
Matches: 98, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 5 0.05
59 32 0.33
60 16 0.16
61 39 0.40
62 6 0.06
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
Found at i:59528256 original size:120 final size:120
Alignment explanation
Indices: 59528121--59528344 Score: 439
Period size: 120 Copynumber: 1.9 Consensus size: 120
59528111 TTAATCATAT
*
59528121 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
59528186 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
59528241 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
59528306 AAATATTCTTATATGAATTTTCTAAAATCATAATATATA
66 AAATATTCTTATATGAATTTTCTAAAATCATAATATATA
59528345 TATAATACTA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 103 1.00
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
Found at i:59528950 original size:58 final size:58
Alignment explanation
Indices: 59528827--59528976 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
59528817 AAAGTTGCTA
* **
59528827 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
* * * *
59528885 TGTTTTGGCACCAAAAGTAAACCACAAGTCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
*
59528944 TGTTTGGGCACTAAAAGCAACCGCAA-TCACAAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAG
59528977 CCACAAGTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:59532121 original size:13 final size:13
Alignment explanation
Indices: 59532103--59532140 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
59532093 TATAAATTAC
59532103 ATAATATATAAAA
1 ATAATATATAAAA
59532116 ATAATATAATATAAA
1 ATAATAT-ATA-AAA
59532131 ATAATA-ATAA
1 ATAATATATAA
59532141 TTTAAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 3 0.13
15 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATATATAAAA
Found at i:59532124 original size:18 final size:18
Alignment explanation
Indices: 59532103--59532139 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59532093 TATAAATTAC
59532103 ATAATATATAAA-AATAAT
1 ATAATATA-AAATAATAAT
59532121 ATAATATAAAATAATAAT
1 ATAATATAAAATAATAAT
59532139 A
1 A
59532140 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAATATAAAATAATAAT
Found at i:59532127 original size:16 final size:17
Alignment explanation
Indices: 59532103--59532149 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
59532093 TATAAATTAC
59532103 ATAAT-ATATAAAAATA
1 ATAATAATATAAAAATA
59532119 AT-ATAATAT-AAAATA
1 ATAATAATATAAAAATA
*
59532134 ATAATAATTTAAAAAT
1 ATAATAATATAAAAAT
59532150 CCAATCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.37
16 12 0.44
17 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATATAAAAATA
Found at i:59559301 original size:17 final size:17
Alignment explanation
Indices: 59559279--59559313 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59559269 CAATCTATAA
59559279 TGACAATGAATATATGC
1 TGACAATGAATATATGC
59559296 TGACAATGAATATATGC
1 TGACAATGAATATATGC
59559313 T
1 T
59559314 TAAATGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (17 bp):
TGACAATGAATATATGC
Found at i:59561228 original size:13 final size:12
Alignment explanation
Indices: 59561193--59561230 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
59561183 ATTTAAAAAA
59561193 TTGTTGTTTTTGT
1 TTGTTGTTTTT-T
*
59561206 TTGTTG-TTTTC
1 TTGTTGTTTTTT
59561217 TTGTTGTTTTTT
1 TTGTTGTTTTTT
59561229 TT
1 TT
59561231 TTTTTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 6 0.27
12 10 0.45
13 6 0.27
ACGTcount: A:0.00, C:0.03, G:0.18, T:0.79
Consensus pattern (12 bp):
TTGTTGTTTTTT
Found at i:59564068 original size:2 final size:2
Alignment explanation
Indices: 59564051--59564172 Score: 112
Period size: 2 Copynumber: 64.0 Consensus size: 2
59564041 AAGAGACTAT
* * * * *
59564051 GA GA GA GG GA GG GA GA GA GA GG GA GG GA GA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
59564093 GA GA GA GA GA GA GA GA GA GA -A G- GA -A GA GG GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * *
59564132 GA G- GA GA GA G- GA G- GG GA GA GA GA TA GA GA TA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
59564171 GA
1 GA
59564173 TTAAATGGAA
Statistics
Matches: 95, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
1 6 0.06
2 89 0.94
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.02
Consensus pattern (2 bp):
GA
Found at i:59566490 original size:27 final size:27
Alignment explanation
Indices: 59566459--59566529 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
59566449 CTAAGAAATG
59566459 CCTTTGTGGCATACTCTGAAAAGAATA
1 CCTTTGTGGCATACTCTGAAAAGAATA
* * ** *
59566486 CCTTTGTGGCAAATTCTGAATGGAATG
1 CCTTTGTGGCATACTCTGAAAAGAATA
*
59566513 CCTTGGTGGCATACTCT
1 CCTTTGTGGCATACTCT
59566530 ATATGATTGC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (27 bp):
CCTTTGTGGCATACTCTGAAAAGAATA
Found at i:59567328 original size:35 final size:35
Alignment explanation
Indices: 59567288--59567359 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
59567278 ACAAGATTGC
59567288 AAAACATCCATTAAGGTATGGTTAATGAGCTCACT
1 AAAACATCCATTAAGGTATGGTTAATGAGCTCACT
59567323 AAAACATCCATTAAGGTATGGTTAATGAGCTCACT
1 AAAACATCCATTAAGGTATGGTTAATGAGCTCACT
59567358 AA
1 AA
59567360 GTACTCTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (35 bp):
AAAACATCCATTAAGGTATGGTTAATGAGCTCACT
Found at i:59568742 original size:29 final size:28
Alignment explanation
Indices: 59568710--59568771 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
59568700 AAAAAGCTGT
59568710 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** * *
59568739 TTTTTTGATTATTTACCGGAATGGTCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
59568767 TTTTT
1 TTTTT
59568772 CGGGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:59569223 original size:105 final size:106
Alignment explanation
Indices: 59569101--59569301 Score: 323
Period size: 105 Copynumber: 1.9 Consensus size: 106
59569091 TCATGTAAAA
* *
59569101 AATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAAAATGCTATTTGAG
1 AATAATTTTTTTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAAAATGCTATTTGAG
*
59569166 AAGAAATTGTGAAATCGTGCCCTCATGGACGTGATTTTACT
66 AAGAAATTGTGAAATCGCGCCCTCATGGACGTGATTTTACT
* * *
59569207 AATAA-TTTTTTTGACGTTTTTGAGCAAATAATATAAAATCGCTTTTACCATAATGCTATTTGAG
1 AATAATTTTTTTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAAAATGCTATTTGAG
* *
59569271 AAGAAATTGTGAAATTGCGCCCTCGTGGACG
66 AAGAAATTGTGAAATCGCGCCCTCATGGACG
59569302 CAATTTTGCT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
105 82 0.94
106 5 0.06
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (106 bp):
AATAATTTTTTTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTACCAAAATGCTATTTGAG
AAGAAATTGTGAAATCGCGCCCTCATGGACGTGATTTTACT
Found at i:59572442 original size:10 final size:10
Alignment explanation
Indices: 59572427--59572451 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59572417 CAAATCTAAT
59572427 ATTATGTAAA
1 ATTATGTAAA
59572437 ATTATGTAAA
1 ATTATGTAAA
59572447 ATTAT
1 ATTAT
59572452 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:59572534 original size:29 final size:29
Alignment explanation
Indices: 59572500--59572690 Score: 274
Period size: 29 Copynumber: 6.3 Consensus size: 29
59572490 AAATTATGTA
59572500 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
59572529 AAATTAGGTTAGGGTTTAGGGTTTTAAGGTTTTTAATT
1 AAATTAGGTTAGGG-TTA--G------GGTTTTTAATT
*
59572567 AAATTAGGTTAGAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
59572596 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
59572625 AAATTAGGTTAGGGTTAGGATTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
59572654 AAATTAGGTTAGGGTTAGGGCTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
59572683 AAATTAGG
1 AAATTAGG
59572691 GTGTTTATTA
Statistics
Matches: 148, Mismatches: 5, Indels: 18
0.87 0.03 0.11
Matches are distributed among these distances:
29 116 0.78
30 3 0.02
32 1 0.01
35 1 0.01
37 3 0.02
38 24 0.16
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:59572563 original size:38 final size:37
Alignment explanation
Indices: 59572503--59572590 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 37
59572493 TTATGTAAAA
*
59572503 TTAG-GTTAGGG--TTAGGGTTTTTAATTAAATTAGG
1 TTAGAGTTAGGGTTTTAAGGTTTTTAATTAAATTAGG
*
59572537 TTAGGGTTTAGGGTTTTAAGGTTTTTAATTAAATTAGG
1 TTAGAG-TTAGGGTTTTAAGGTTTTTAATTAAATTAGG
59572575 TTAGAGTTAGGGTTTT
1 TTAGAGTTAGGGTTTT
59572591 TAATTAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
34 4 0.08
35 1 0.02
36 6 0.12
37 10 0.21
38 27 0.56
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (37 bp):
TTAGAGTTAGGGTTTTAAGGTTTTTAATTAAATTAGG
Found at i:59572593 original size:38 final size:38
Alignment explanation
Indices: 59572518--59572590 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
59572508 TTAGGGTTAG
*
59572518 GGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTAA
1 GGTTTTTAATTAAATTAGGTTAGAGTTTAGGGTTTTAA
59572556 GGTTTTTAATTAAATTAGGTTAGAG-TTAGGGTTTT
1 GGTTTTTAATTAAATTAGGTTAGAGTTTAGGGTTTT
59572591 TAATTAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 10 0.29
38 24 0.71
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (38 bp):
GGTTTTTAATTAAATTAGGTTAGAGTTTAGGGTTTTAA
Found at i:59572802 original size:25 final size:25
Alignment explanation
Indices: 59572694--59572878 Score: 83
Period size: 25 Copynumber: 7.7 Consensus size: 25
59572684 AATTAGGGTG
*
59572694 TTTATTATATCAAATAGAACTTCTAT
1 TTTATTACATCAAATA-AACTTCTAT
*
59572720 TTTATTATATCAAAT-AA-TATC-A-
1 TTTATTACATCAAATAAACT-TCTAT
** * *
59572742 -AAATAAC-TCGAAA-AAATTTCTAT
1 TTTATTACATC-AAATAAACTTCTAT
* *
59572765 GTCTATTATATCAAATAAACTTCTAT
1 -TTTATTACATCAAATAAACTTCTAT
59572791 TTTATTACATCAAAT-AA-TATC-A-
1 TTTATTACATCAAATAAACT-TCTAT
** * *
59572813 -AAATAAC-TCGAAA-AAATTTCTAT
1 TTTATTACATC-AAATAAACTTCTAT
**
59572836 GCATATTACATCAAATAAACTTCTAT
1 -TTTATTACATCAAATAAACTTCTAT
59572862 TTTATTACATCAAATAA
1 TTTATTACATCAAATAA
59572879 TAAATTTAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 41
0.67 0.11 0.23
Matches are distributed among these distances:
20 4 0.03
21 21 0.17
22 4 0.03
23 4 0.03
24 8 0.07
25 42 0.35
26 37 0.31
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.39
Consensus pattern (25 bp):
TTTATTACATCAAATAAACTTCTAT
Found at i:59572803 original size:71 final size:71
Alignment explanation
Indices: 59572696--59572880 Score: 327
Period size: 71 Copynumber: 2.6 Consensus size: 71
59572686 TTAGGGTGTT
*
59572696 TATTATATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTATATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
59572761 CTATGTC-
65 CTATG-CA
59572768 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
59572833 TATGCA
66 TATGCA
*
59572839 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATA
59572881 AATTTAAATA
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
70 1 0.01
71 95 0.86
72 14 0.13
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (71 bp):
TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCA
Found at i:59573976 original size:7 final size:7
Alignment explanation
Indices: 59573966--59573990 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59573956 TTATATACAT
59573966 AATACTA
1 AATACTA
59573973 AATACTA
1 AATACTA
59573980 AATACTA
1 AATACTA
59573987 AATA
1 AATA
59573991 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:59574998 original size:22 final size:23
Alignment explanation
Indices: 59574945--59575000 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
59574935 CCCGTTTTTA
* * *
59574945 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
59574968 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
59574990 ATTAAAATTAA
1 ATTAAAATTAA
59575001 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:59575013 original size:16 final size:16
Alignment explanation
Indices: 59574976--59575015 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
59574966 TTAATAAAAT
* *
59574976 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
59574992 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
59575008 TAAAATTA
1 TAAAATTA
59575016 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:59575095 original size:59 final size:59
Alignment explanation
Indices: 59575032--59575195 Score: 310
Period size: 59 Copynumber: 2.8 Consensus size: 59
59575022 TATTAATTGC
59575032 TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTAT
1 TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTAT
*
59575091 TAATTGTATTAATTGTTGTAATAAAATCTAACATCTGATTAGTAAATTTATCAAATTAT
1 TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTAT
*
59575150 TAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
59575196 ACAAACTTGA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 102 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (59 bp):
TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTAT
Done.