Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 252 of 313
Found at i:77407927 original size:282 final size:282
Alignment explanation
Indices: 77407571--77408136 Score: 1080
Period size: 282 Copynumber: 2.0 Consensus size: 282
77407561 GCTCTTGGCA
77407571 CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
1 CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
77407636 CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
66 CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
*
77407701 TGACTACGGTGTAGATGAAGCGACTTTTCCAACTCTACTA-CCTGGGCTTTTAATCTTGCTTCTT
131 TGACTACGGTGCAGATGAAGCGACTTTTCCAACTCTACTACCCT-GGCTTTTAATCTTGCTTCTT
* *
77407765 CATTCTGGCATTCTGACAAGTTTTTCTCCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTC
195 AATTCTAGCATTCTGACAAGTTTTTCTCCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTC
77407830 TTCTCCCACTGATCAGCTTTGGT
260 TTCTCCCACTGATCAGCTTTGGT
77407853 CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
1 CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
77407918 CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
66 CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
77407983 TGACTACGGTGCAGATGAAGCGACTTTTCCAACTCTACTACCCTGGCTTTTAATCTTGCTTCTTA
131 TGACTACGGTGCAGATGAAGCGACTTTTCCAACTCTACTACCCTGGCTTTTAATCTTGCTTCTTA
*
77408048 ATTCTAGCATTCTGACAAGTTTTTCTTCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTCT
196 ATTCTAGCATTCTGACAAGTTTTTCTCCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTCT
77408113 TCTCCCACTGATCAGCTTTGGT
261 TCTCCCACTGATCAGCTTTGGT
77408135 CT
1 CT
77408137 TTTCTTATTT
Statistics
Matches: 279, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
282 276 0.99
283 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (282 bp):
CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
TGACTACGGTGCAGATGAAGCGACTTTTCCAACTCTACTACCCTGGCTTTTAATCTTGCTTCTTA
ATTCTAGCATTCTGACAAGTTTTTCTCCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTCT
TCTCCCACTGATCAGCTTTGGT
Found at i:77410955 original size:107 final size:107
Alignment explanation
Indices: 77410718--77411124 Score: 647
Period size: 107 Copynumber: 3.8 Consensus size: 107
77410708 AAGTTAAGAA
* * * * * * *
77410718 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCCAGCTCGTTAGGGCACATTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* *
77410783 TTCCAAACGC-AAATATTGCCTTACTTTGAAAGTTT-AAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
* * * *
77410823 GATATTTGGCTATTTGGTCAAACGAGAAGTCGAAACCCAACACGTTAGGGTACGTTTGCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
77410888 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
* *
77410930 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
77410995 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
*
77411037 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
77411102 TTCCAAACGCAAAATATTGCCTT
66 TTCCAAACGCGAAATATTGCCTT
77411125 GTTTAGAAAA
Statistics
Matches: 280, Mismatches: 20, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
105 64 0.23
106 23 0.08
107 193 0.69
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (107 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
Found at i:77411906 original size:15 final size:15
Alignment explanation
Indices: 77411883--77411913 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77411873 ATTTTAACAT
77411883 AGATAATAATATATA
1 AGATAATAATATATA
*
77411898 AGATGATAATATATA
1 AGATAATAATATATA
77411913 A
1 A
77411914 ATTTAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AGATAATAATATATA
Found at i:77413798 original size:13 final size:13
Alignment explanation
Indices: 77413777--77413810 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
77413767 GTTCTAATAC
*
77413777 TATGCTTTCAAGA
1 TATGTTTTCAAGA
77413790 TATGTTTTCAAGA
1 TATGTTTTCAAGA
77413803 TATGTTTT
1 TATGTTTT
77413811 ATGCATGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (13 bp):
TATGTTTTCAAGA
Found at i:77414881 original size:16 final size:16
Alignment explanation
Indices: 77414860--77414891 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
77414850 ACATCATATA
77414860 CAAGCCAATTTTATTG
1 CAAGCCAATTTTATTG
77414876 CAAGCCAATTTTATTG
1 CAAGCCAATTTTATTG
77414892 TGAAGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
CAAGCCAATTTTATTG
Found at i:77415425 original size:17 final size:17
Alignment explanation
Indices: 77415405--77415443 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
77415395 GGTTTTTATC
*
77415405 ATTTGTTTATTTTTCTT
1 ATTTATTTATTTTTCTT
* *
77415422 ATTTATTTGTTTTTGTT
1 ATTTATTTATTTTTCTT
77415439 ATTTA
1 ATTTA
77415444 AATTTTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTTTCTT
Found at i:77417557 original size:57 final size:55
Alignment explanation
Indices: 77417471--77417578 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 55
77417461 TTATAGATTG
* *
77417471 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATTTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGACGATTTATCATTTTA
* *
77417526 CAAATTTAATTAATTCATAAGGATTATTCAAATTAAAAGTGACGATTTATCAT
1 CAAA-TTAATT-ATTCATAAGCACTATTCAAATTAAAAGTGACGATTTATCAT
77417579 CCAATGGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
55 4 0.09
56 6 0.13
57 37 0.79
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGACGATTTATCATTTTA
Found at i:77419835 original size:56 final size:55
Alignment explanation
Indices: 77419750--77419858 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 55
77419740 TTATAGATTG
*
77419750 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
77419805 CAAATTTAATTATTCATAAGCA-TCATTCAAATTAAAAGTGATGATTTATCATCT
1 CAAA-TTAATTATTCATAAGCACT-ATTCAAATTAAAAGTGATGATTTATCATCT
77419859 AATGGATACA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
55 5 0.10
56 46 0.90
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
Found at i:77420263 original size:19 final size:19
Alignment explanation
Indices: 77420239--77420279 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
77420229 TATTAGATTT
77420239 TTTATATTTTTAAATTGAG
1 TTTATATTTTTAAATTGAG
77420258 TTTATATTTTTAAATTGAG
1 TTTATATTTTTAAATTGAG
77420277 TTT
1 TTT
77420280 TTACTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTATATTTTTAAATTGAG
Found at i:77421169 original size:20 final size:20
Alignment explanation
Indices: 77421144--77421183 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
77421134 TGCTACTTAA
*
77421144 TATTAAATT-TTAAATATTTT
1 TATT-AATTATTAAAAATTTT
77421164 TATTAATTATTAAAAATTTT
1 TATTAATTATTAAAAATTTT
77421184 ATCACACACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTAATTATTAAAAATTTT
Found at i:77421656 original size:100 final size:100
Alignment explanation
Indices: 77421480--77421660 Score: 222
Period size: 100 Copynumber: 1.8 Consensus size: 100
77421470 TTAGTTACGG
** * *
77421480 AAGGATATTTTCGTAATTTCTCTAATCGAGTTGGTACTCGGTTGACTTAAGACACCAACTCTATT
1 AAGGATATTTTCGTAATTTCTCTAATCGAGTTGGTACTCAATTGACTCAAGACACCAACTCTATC
* **
77421545 AGGGGTTTAAATAATAGTATAAATACAAATTATGA
66 AAGGGCCTAAATAATAGTATAAATACAAATTATGA
* * ** *
77421580 AAGGATATTTTCGTAATTTTTCTAATTGAGTTGGTAC-CTAATTGACTCGTGATACCAACT-TAG
1 AAGGATATTTTCGTAATTTCTCTAATCGAGTTGGTACTC-AATTGACTCAAGACACCAACTCTA-
77421643 TCAAGGGCCTAAATAATA
64 TCAAGGGCCTAAATAATA
77421661 AAAACAATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
99 3 0.04
100 64 0.96
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (100 bp):
AAGGATATTTTCGTAATTTCTCTAATCGAGTTGGTACTCAATTGACTCAAGACACCAACTCTATC
AAGGGCCTAAATAATAGTATAAATACAAATTATGA
Found at i:77423088 original size:43 final size:43
Alignment explanation
Indices: 77423002--77423083 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
77422992 TTCTATAATT
*
77423002 TTTATAATGATTTATGGATGGAAAGACTCTGCTTTTTTTTTGG
1 TTTATAATGATTTATGGACGGAAAGACTCTGCTTTTTTTTTGG
77423045 TTTATAATGATTTATGGACGGAAAGA--CTGCTTTTTTTTT
1 TTTATAATGATTTATGGACGGAAAGACTCTGCTTTTTTTTT
77423084 TTGGTGGGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 13 0.34
43 25 0.66
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (43 bp):
TTTATAATGATTTATGGACGGAAAGACTCTGCTTTTTTTTTGG
Found at i:77428117 original size:331 final size:330
Alignment explanation
Indices: 77427516--77428178 Score: 1220
Period size: 331 Copynumber: 2.0 Consensus size: 330
77427506 ATGAATTACA
77427516 CTACAAAGCTATTTACTGGTTGGTTCTCTATGATAGCCTGGGACTTCAATTTATCAATTTTCTGA
1 CTACAAAGCTATTTACTGGTTGGTTCTCTATGATAGCCTGGGACTTCAATTTATCAATTTTCTGA
* *
77427581 AAGAATTCACGTTGTACACATTCAAACATGAATACAAAGGTATGATTCTTCAAACACTTACCTCA
66 AAGAAGTCACGTTGTACACATTCAAACATGAATACAAAGGTATGATTCTTCAAACACTTACCACA
* * *
77427646 ACAGAGTGCAATTAGTACTTGCCTAAAAAATTCATTTGCAGCAATTTCTGCTGGTAAACTTATTA
131 ACAGAGGGCAATTAGTACTAGCCTAAAAAATTCATTTGCAGCAATTTCTGCTGGTAAACTAATTA
*
77427711 AGCAGTACTGACTCTTAAGAGAATCCTAAAAATGATACACAAAACCGGCAACACTTCCTTTGTTT
196 AGCAGTACTGACTATTAAGAGAATCCTAAAAATGATACACAAAACCGGCAACACTTCCTTTGTTT
77427776 CCAGAAGTTGTATGACATTGATATGTTCTACCTCAACTTTGTCTTATTTCTACTTCAGATCGCTC
261 CCAGAAGTTGTATGACATTGATATGTTCTACCTCAACTTTGTCTTATTTCTACTTCAGATCGCTC
77427841 TTAAG
326 TTAAG
*
77427846 CTACAAAGCTATTTACTGGTTGGTTTTCTATGATAGCCTGGGACTTCAATTTATCAATTTTCTGA
1 CTACAAAGCTATTTACTGGTTGGTTCTCTATGATAGCCTGGGACTTCAATTTATCAATTTTCTGA
* *
77427911 AAGAAGTCTCGTTGTACACATTCAAACATGAATACAAAGGTATGATTCTT-TAACACTTACCACA
66 AAGAAGTCACGTTGTACACATTCAAACATGAATACAAAGGTATGATTCTTCAAACACTTACCACA
77427975 ACAGAGGGCAATTAGTAGCCTAGCCTAAAAAATTCATTTGCAGCAATTTCTGCTGGTAAACTAAT
131 ACAGAGGGCAATTAGTA--CTAGCCTAAAAAATTCATTTGCAGCAATTTCTGCTGGTAAACTAAT
77428040 TAAGCAGTACTGACTATTAAGAGAATCCTAAAAATGATACACAAAACCGGCAACACTTCCTTTGT
194 TAAGCAGTACTGACTATTAAGAGAATCCTAAAAATGATACACAAAACCGGCAACACTTCCTTTGT
77428105 TTCCAGAAGTTGTATGACATTGATATGTTCTACCTCAACTTTGTCTTATTTCTACTTCAGATCGC
259 TTCCAGAAGTTGTATGACATTGATATGTTCTACCTCAACTTTGTCTTATTTCTACTTCAGATCGC
77428170 TCTTAAG
324 TCTTAAG
77428177 CT
1 CT
77428179 TCGTTTACCA
Statistics
Matches: 322, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
329 28 0.09
330 112 0.35
331 182 0.57
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (330 bp):
CTACAAAGCTATTTACTGGTTGGTTCTCTATGATAGCCTGGGACTTCAATTTATCAATTTTCTGA
AAGAAGTCACGTTGTACACATTCAAACATGAATACAAAGGTATGATTCTTCAAACACTTACCACA
ACAGAGGGCAATTAGTACTAGCCTAAAAAATTCATTTGCAGCAATTTCTGCTGGTAAACTAATTA
AGCAGTACTGACTATTAAGAGAATCCTAAAAATGATACACAAAACCGGCAACACTTCCTTTGTTT
CCAGAAGTTGTATGACATTGATATGTTCTACCTCAACTTTGTCTTATTTCTACTTCAGATCGCTC
TTAAG
Found at i:77450251 original size:45 final size:45
Alignment explanation
Indices: 77450200--77450355 Score: 215
Period size: 45 Copynumber: 3.5 Consensus size: 45
77450190 CACGAGTAAA
*
77450200 ACCATAGTTGAAAGACGCTATGGCATCATGATGGAAATGAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAATAAG
* * *
77450245 ACCATAGTTGAAAGACACTATGGCAACATGACGAAAATGAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAATAAG
* *
77450290 ACCATAGTTGAAAGACACTATGGCATCATG-TCAGAAATAAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATGAT-GGAAATGAATAAG
** *
77450335 ACTGTAGTTGAAAGAAACTAT
1 ACCATAGTTGAAAGACACTAT
77450356 AACATCATTT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22
Consensus pattern (45 bp):
ACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAATAAG
Found at i:77460197 original size:27 final size:30
Alignment explanation
Indices: 77460142--77460208 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 30
77460132 TTAGTTGTTT
*
77460142 TTATTTTATTTGTGAGACTTCTTTGTTTTA
1 TTATTTTATTTGTGAGACTTCTTTATTTTA
*
77460172 TTTTTTTATTT-TGA-ACTT-TTTATTTTA
1 TTATTTTATTTGTGAGACTTCTTTATTTTA
77460199 TTATTTTATT
1 TTATTTTATT
77460209 GGTTGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.50
28 4 0.12
29 3 0.09
30 10 0.29
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.70
Consensus pattern (30 bp):
TTATTTTATTTGTGAGACTTCTTTATTTTA
Found at i:77465189 original size:12 final size:12
Alignment explanation
Indices: 77465169--77465198 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
77465159 TATTCAAGAA
*
77465169 AACAACTCGAAG
1 AACATCTCGAAG
77465181 AACATCTCGAAG
1 AACATCTCGAAG
77465193 AACATC
1 AACATC
77465199 ATTGAAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (12 bp):
AACATCTCGAAG
Found at i:77469442 original size:43 final size:43
Alignment explanation
Indices: 77469381--77469468 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
77469371 TCTTGCGGGT
77469381 AAGCTTAAAATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
1 AAGCTTAAAATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
*
77469424 AAGCTTAATATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
1 AAGCTTAAAATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
77469467 AA
1 AA
77469469 CACATCTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.26
Consensus pattern (43 bp):
AAGCTTAAAATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
Found at i:77473549 original size:15 final size:15
Alignment explanation
Indices: 77473509--77473559 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
77473499 GCAAAATAGT
*
77473509 GAAAAAAATAACAAG
1 GAAAAAAAAAACAAG
* *
77473524 AAAATAAAAAAAAAAG
1 GAAA-AAAAAAACAAG
*
77473540 GAAAAAAAAAGCAAG
1 GAAAAAAAAAACAAG
77473555 GAAAA
1 GAAAA
77473560 GCAACAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.04
Consensus pattern (15 bp):
GAAAAAAAAAACAAG
Found at i:77477703 original size:7 final size:7
Alignment explanation
Indices: 77477691--77477718 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
77477681 AATTAAGTTA
77477691 ATTTCAC
1 ATTTCAC
77477698 ATTTCAC
1 ATTTCAC
77477705 ATTTCAC
1 ATTTCAC
77477712 ATTTCAC
1 ATTTCAC
77477719 TATTATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (7 bp):
ATTTCAC
Found at i:77481395 original size:20 final size:20
Alignment explanation
Indices: 77481357--77481396 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
77481347 AGGCTGTTAA
* * *
77481357 TAATGTGTTTGTAATGTGTT
1 TAATGTGTATGAAAAGTGTT
77481377 TAATGTGTATGAAAAGTGTT
1 TAATGTGTATGAAAAGTGTT
77481397 AGACTCGTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (20 bp):
TAATGTGTATGAAAAGTGTT
Found at i:77488010 original size:3 final size:3
Alignment explanation
Indices: 77488002--77488117 Score: 196
Period size: 3 Copynumber: 38.7 Consensus size: 3
77487992 AGTACTAATG
* *
77488002 TCT TCT TCT TCT TCT TCT TCT CCT TCT TCT CCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
77488050 CCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
77488098 TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TC
77488118 AGATTTACTT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:77491704 original size:4 final size:4
Alignment explanation
Indices: 77491695--77491755 Score: 56
Period size: 4 Copynumber: 15.2 Consensus size: 4
77491685 CTTTTATAAT
* *
77491695 TTTA TTTA TTT- TTGTA TTGT- TATTA TTTT TTTA TCT- TTTA TTTA TTTA
1 TTTA TTTA TTTA TT-TA TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
77491743 TTTA TTTA TTTA T
1 TTTA TTTA TTTA T
77491756 GTGTTCATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
3 4 0.08
4 38 0.79
5 6 0.12
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:77491707 original size:18 final size:18
Alignment explanation
Indices: 77491681--77491741 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
77491671 TACATAGATT
*
77491681 TTTACTTTTATAATTTTA
1 TTTATTTTTATAATTTTA
*
77491699 TTTATTTTTGT-ATTGTTA
1 TTTATTTTTATAATT-TTA
* *
77491717 -TTATTTTTTTATCTTTTA
1 TTTATTTTTATA-ATTTTA
77491735 TTTATTT
1 TTTATTT
77491742 ATTTATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 12 0.34
18 15 0.43
19 8 0.23
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTTTATAATTTTA
Found at i:77491728 original size:8 final size:8
Alignment explanation
Indices: 77491679--77491753 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
77491669 CATACATAGA
77491679 TTTTTACTT
1 TTTTTA-TT
* *
77491688 TTATAATT
1 TTTTTATT
77491696 TTATTTATT
1 TT-TTTATT
*
77491705 TTTGTATT
1 TTTTTATT
*
77491713 GTTATTATT
1 -TTTTTATT
77491722 TTTTTA-T
1 TTTTTATT
*
77491729 CTTTTATT
1 TTTTTATT
*
77491737 TATTTATT
1 TTTTTATT
*
77491745 TATTTATT
1 TTTTTATT
77491753 T
1 T
77491754 ATGTGTTCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
7 6 0.12
8 30 0.58
9 16 0.31
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (8 bp):
TTTTTATT
Found at i:77491733 original size:44 final size:47
Alignment explanation
Indices: 77491678--77491775 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 47
77491668 ACATACATAG
*
77491678 ATTTTTA-CTTTTATA-ATTTTATTTATTT-TTGTAT-TGTT-ATTATT
1 ATTTTTATCTTTTATATA-TTTATTTATTTATT-TATGTGTTCATCATT
*
77491722 -TTTTTATCTTTTATTTATTTATTTATTTATTTATGTGTTCATCATT
1 ATTTTTATCTTTTATATATTTATTTATTTATTTATGTGTTCATCATT
77491768 ATTTTTAT
1 ATTTTTAT
77491776 GAAATGTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
43 6 0.13
44 21 0.46
45 7 0.15
46 5 0.11
47 7 0.15
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (47 bp):
ATTTTTATCTTTTATATATTTATTTATTTATTTATGTGTTCATCATT
Found at i:77496895 original size:17 final size:14
Alignment explanation
Indices: 77496863--77496913 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
77496853 TTTTAAGTAA
77496863 TTTATTTTTTTTCT
1 TTTATTTTTTTTCT
77496877 TTTATGTTTTTTTAACT
1 TTTAT-TTTTTTT--CT
*
77496894 TTT-TTTTATTT-T
1 TTTATTTTTTTTCT
77496906 TTTATTTT
1 TTTATTTT
77496914 CCATTCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
12 4 0.12
13 4 0.12
14 5 0.16
15 13 0.41
16 1 0.03
17 5 0.16
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTATTTTTTTTCT
Found at i:77501983 original size:23 final size:23
Alignment explanation
Indices: 77501957--77502003 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
77501947 GAAGAAAGGG
77501957 TTTTTATAAAGAAATGATTTGGA
1 TTTTTATAAAGAAATGATTTGGA
77501980 TTTTTATAAAGAAATGATTTGGA
1 TTTTTATAAAGAAATGATTTGGA
77502003 T
1 T
77502004 ATAAGTGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (23 bp):
TTTTTATAAAGAAATGATTTGGA
Found at i:77504784 original size:16 final size:16
Alignment explanation
Indices: 77504745--77504785 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
77504735 AGAGTTAAAA
77504745 TATAATTTTATCATTT
1 TATAATTTTATCATTT
77504761 TA-ATATTTTAT-ATCTT
1 TATA-ATTTTATCAT-TT
77504777 TATAATTTT
1 TATAATTTT
77504786 TGAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 18 0.82
17 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATCATTT
Found at i:77505124 original size:20 final size:20
Alignment explanation
Indices: 77505099--77505138 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
77505089 TTATTTTTAA
*
77505099 TTAAAA-AATTCAAAATAATT
1 TTAAAATAATT-AAAAAAATT
77505119 TTAAAATAATTAAAAAAATT
1 TTAAAATAATTAAAAAAATT
77505139 AATAGTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTAAAATAATTAAAAAAATT
Found at i:77514579 original size:28 final size:28
Alignment explanation
Indices: 77514533--77514621 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
77514523 CCATTCAGTA
* *
77514533 ACAGT-ACAGTGTAGGCCTTAGGCCAAT
1 ACAGTAACAATGTGGGCCTTAGGCCAAT
77514560 ACAGTAACAATGTGGGCCTTA-GCCTAAT
1 ACAGTAACAATGTGGGCCTTAGGCC-AAT
*
77514588 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGGCCAAT
77514616 ACAGTA
1 ACAGTA
77514622 TCGGTACAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 8 0.14
28 46 0.82
29 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGGCCAAT
Found at i:77515096 original size:26 final size:27
Alignment explanation
Indices: 77514985--77515099 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
77514975 GGGGTATAAT
*
77514985 AGTCATTTTACCCTATGGGGGTAATTT
1 AGTCATTTTACCCTATGGGGGTAATTC
*
77515012 AGTCATTTTACCTTATGGGGGTAATTC
1 AGTCATTTTACCCTATGGGGGTAATTC
* * *
77515039 GGTCATTTTACCCTGTAGGGGTAATTC
1 AGTCATTTTACCCTATGGGGGTAATTC
* *
77515066 GGTCATTTTACCCTGT-GGGGTAATTC
1 AGTCATTTTACCCTATGGGGGTAATTC
77515092 AGTCATTT
1 AGTCATTT
77515100 ATTGACCTCT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 17 0.21
27 64 0.79
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTAATTC
Found at i:77519084 original size:194 final size:194
Alignment explanation
Indices: 77518744--77519127 Score: 590
Period size: 194 Copynumber: 2.0 Consensus size: 194
77518734 ATCAAAATTG
* * *
77518744 AGGAAATTGATTGAAAGACTATTATGCTGTTTCTCAAGTCCAATTGGTGAGATAACTTTTACCGT
1 AGGAAATTGATTGAAAAACTATTATGCTGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCGT
* *
77518809 GTTTCGGACTAGACGACTCTTAAAAGATAGAGACATAGATGTGATTGTTTGGACTGACAATACAT
66 GTTTCGGACTAGACGACTCTTAAAAGATAGAGACATAGATCTAATTGTTTGGACTGACAATACAT
* *
77518874 TGAACATGACCCAAGTAAAATAAATCTTGTATCCATTTATGGATTTATTCGCTTGTGACAATCA
131 TGAACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACAATCA
77518938 AGGAAATTGATTGAAAAACTATTATG-TCGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCG
1 AGGAAATTGATTGAAAAACTATTATGCT-GTCTATCAAGTCCAATTGGTGAGATAACTTTTACCG
* * * ** * * *
77519002 TGTTTTGGACTGGATGACTCTTATTAGATAGAGACATAGATCTAATTTTTTGGACTGTCAATTCA
65 TGTTTCGGACTAGACGACTCTTAAAAGATAGAGACATAGATCTAATTGTTTGGACTGACAATACA
* * *
77519067 TTGGACATGATCCAAGTAGAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACA
130 TTGAACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACA
77519128 TTCATAGTGT
Statistics
Matches: 171, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
193 1 0.01
194 170 0.99
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (194 bp):
AGGAAATTGATTGAAAAACTATTATGCTGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCGT
GTTTCGGACTAGACGACTCTTAAAAGATAGAGACATAGATCTAATTGTTTGGACTGACAATACAT
TGAACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACAATCA
Found at i:77521252 original size:39 final size:40
Alignment explanation
Indices: 77521157--77521385 Score: 253
Period size: 39 Copynumber: 5.8 Consensus size: 40
77521147 TTGAATGATG
*
77521157 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
77521195 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
77521236 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
77521275 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
77521314 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-AT--TAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
77521351 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG
1 -T--CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
77521386 GAGCTATATC
Statistics
Matches: 166, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
37 3 0.02
38 1 0.01
39 92 0.55
40 59 0.36
41 10 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:77521342 original size:79 final size:80
Alignment explanation
Indices: 77521157--77521385 Score: 267
Period size: 79 Copynumber: 2.9 Consensus size: 80
77521147 TTGAATGATG
* * *
77521157 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-T-ACTAATATCCGGGCTAAGACCCGAAGGCAT
* *
77521219 TTGTGTGAGATACTAAT
64 TTGTGCGAGATACTAAA
77521236 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
77521298 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * *
77521314 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAT--TAATATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATACTAATAT--CCGGGCTAAGACCCGAAGGCAT
*
77521377 TTGAGCGAG
64 TTGTGCGAG
77521386 GAGCTATATC
Statistics
Matches: 132, Mismatches: 9, Indels: 17
0.84 0.06 0.11
Matches are distributed among these distances:
76 4 0.03
77 1 0.01
78 45 0.34
79 51 0.39
80 30 0.23
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATACTAATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:77521401 original size:79 final size:78
Alignment explanation
Indices: 77521157--77521412 Score: 215
Period size: 79 Copynumber: 3.3 Consensus size: 78
77521147 TTGAATGATG
* * * * *
77521157 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGACAATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ATAAT-TCCGGGCTAAG-CCCGAAGGCAT
* * *
77521219 TTGTGTGAGAT-ACTAAT
62 TTGAGCGAG-TGACTAAA
*
77521236 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATA-TAATTCCGGGCTAAGCCCGAAGGCATTTG
* *
77521300 TGCGAGTTACTAAA
65 AGCGAGTGACTAAA
*
77521314 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-AT-TAATATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATAAT-T--CCGGGCTAAG-CCCGAAGGCAT
*
77521377 TTGAGCGAG-GAGCTATA
62 TTGAGCGAGTGA-CTAAA
* *
77521394 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
77521413 TACGTGATTT
Statistics
Matches: 153, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
76 4 0.03
77 2 0.01
78 44 0.29
79 65 0.42
80 37 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATAATTCCGGGCTAAGCCCGAAGGCATTTGA
GCGAGTGACTAAA
Found at i:77530721 original size:15 final size:14
Alignment explanation
Indices: 77530682--77530720 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
77530672 CATATACATA
77530682 TTTTAAAAAATATT
1 TTTTAAAAAATATT
**
77530696 TTTTCCTAAAATATT
1 TTTT-AAAAAATATT
77530711 TTTTAAAAAA
1 TTTTAAAAAA
77530721 ACTTTAATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTAAAAAATATT
Found at i:77531679 original size:28 final size:26
Alignment explanation
Indices: 77531639--77531693 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
77531629 TATTTCACAT
*
77531639 TAAAAACAGAATTAAAAGTTCGATAAAA
1 TAAAAACAAAATTAAAAGTT--ATAAAA
* *
77531667 TAAACACAAAATTAGAAGTTATAAAA
1 TAAAAACAAAATTAAAAGTTATAAAA
77531693 T
1 T
77531694 TTGTAAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.29
28 17 0.71
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (26 bp):
TAAAAACAAAATTAAAAGTTATAAAA
Found at i:77532190 original size:16 final size:16
Alignment explanation
Indices: 77532169--77532199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77532159 AATACTTTTT
*
77532169 TATAAATTTATTATAC
1 TATAAATTAATTATAC
77532185 TATAAATTAATTATA
1 TATAAATTAATTATA
77532200 ATTTATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAAATTAATTATAC
Found at i:77535213 original size:27 final size:27
Alignment explanation
Indices: 77535175--77535226 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
77535165 AATTTTTATT
77535175 TTTTTTTATTTTTTA-TTTTAAAATAC
1 TTTTTTTATTTTTTATTTTTAAAATAC
77535201 TTTTTTTATTTTTTATTTTTAAAATA
1 TTTTTTTATTTTTTATTTTTAAAATA
77535227 AATTTTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTTTATTTTTTATTTTTAAAATAC
Found at i:77535232 original size:26 final size:26
Alignment explanation
Indices: 77535177--77535233 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
77535167 TTTTTATTTT
**
77535177 TTTTTATTTTTTATTTTAAAATACTT
1 TTTTTATTTTTTATTTTAAAATACAA
77535203 TTTTTATTTTTTATTTTTAAAATA-AA
1 TTTTTATTTTTTA-TTTTAAAATACAA
77535229 TTTTT
1 TTTTT
77535234 GGTGTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTATTTTTTATTTTAAAATACAA
Found at i:77535232 original size:27 final size:26
Alignment explanation
Indices: 77535176--77535233 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
77535166 ATTTTTATTT
**
77535176 TTTTTTATTTTTTATTTTAAAATACT
1 TTTTTTATTTTTTATTTTAAAATAAA
77535202 TTTTTTATTTTTTATTTTTAAAATAAA
1 TTTTTTATTTTTTA-TTTTAAAATAAA
77535229 TTTTT
1 TTTTT
77535234 GGTGTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTTATTTTTTATTTTAAAATAAA
Found at i:77546501 original size:9 final size:9
Alignment explanation
Indices: 77546487--77546515 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
77546477 TATCGAATAT
77546487 ATATAATTA
1 ATATAATTA
77546496 ATATAATTA
1 ATATAATTA
77546505 ATATAATTA
1 ATATAATTA
77546514 AT
1 AT
77546516 TTGATAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATATAATTA
Found at i:77546508 original size:20 final size:20
Alignment explanation
Indices: 77546464--77546515 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
77546454 ATTCAATATA
*
77546464 AATATATAATTATTATCGAAT
1 AATATATAATTAATATC-AAT
77546485 -ATATATAATTAATAT-AAT
1 AATATATAATTAATATCAAT
*
77546503 TA-ATATAATTAAT
1 AATATATAATTAAT
77546516 TTGATAAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 14 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AATATATAATTAATATCAAT
Found at i:77559918 original size:12 final size:12
Alignment explanation
Indices: 77559903--77559933 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
77559893 TTCTAGTTTT
77559903 CACACGGCCTAG
1 CACACGGCCTAG
*
77559915 CACACGGCTTAG
1 CACACGGCCTAG
77559927 CACACGG
1 CACACGG
77559934 GCGACTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.39, G:0.26, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:77566419 original size:19 final size:18
Alignment explanation
Indices: 77566395--77566433 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
77566385 AAGACTAAGA
77566395 AATAATTATAAAGAAAAAT
1 AATAATT-TAAAGAAAAAT
* *
77566414 AATAATTTCATGAAAAAT
1 AATAATTTAAAGAAAAAT
77566432 AA
1 AA
77566434 AGACAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAATTTAAAGAAAAAT
Found at i:77569560 original size:27 final size:27
Alignment explanation
Indices: 77569530--77569707 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
77569520 ATATTGAGCC
* *
77569530 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
77569557 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
77569584 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
77569612 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
77569639 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
77569666 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
77569693 AGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77569708 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:77575127 original size:47 final size:47
Alignment explanation
Indices: 77575056--77575147 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
77575046 GTGATTGGTG
* *
77575056 AAACTATATTTGGTGATCAGGAATTATATATTGTCTCATTAAATGTT
1 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATGTT
*
77575103 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCTTTAAATG
1 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATG
77575148 CTTACTTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (47 bp):
AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATGTT
Found at i:77575579 original size:20 final size:20
Alignment explanation
Indices: 77575501--77575581 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
77575491 TTGTACGGGA
* * * *
77575501 TTGCACTTTGGTGTCTCTAT
1 TTGCACTTCGATGCCTCTGT
*
77575521 TTGCACTTCGATGCCTCTGA
1 TTGCACTTCGATGCCTCTGT
77575541 TTGCA-TAATC-ATGCCTCTGT
1 TTGCACT--TCGATGCCTCTGT
*
77575561 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGATGCCTCTGT
77575581 T
1 T
77575582 ACACATATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 3 0.06
20 44 0.88
21 3 0.06
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGATGCCTCTGT
Found at i:77584977 original size:20 final size:20
Alignment explanation
Indices: 77584949--77585005 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
77584939 AAGATTATGA
*
77584949 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
77584969 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* **
77584989 TCCATTATATTTACTTA
1 ACCATTCCATTTACTTA
77585006 GCATAAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:77588634 original size:17 final size:16
Alignment explanation
Indices: 77588611--77588671 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
77588601 TTTAATCACT
77588611 TTAATATTAAATTTAA
1 TTAATATTAAATTTAA
* *
77588627 TGTAATATT-TATCTTGA
1 T-TAATATTAAAT-TTAA
*
77588644 TAAATATTAAATTTAA
1 TTAATATTAAATTTAA
77588660 TTTAATATTAAA
1 -TTAATATTAAA
77588672 ATAATCACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
16 12 0.34
17 23 0.66
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (16 bp):
TTAATATTAAATTTAA
Found at i:77591695 original size:27 final size:26
Alignment explanation
Indices: 77591638--77591696 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
77591628 CTCATTTCTG
* *
77591638 TAAAATAAAATTTAAAAAATATGAAA
1 TAAATTAAAATTTAAAAAATATCAAA
*
77591664 AAAATTAAAATATTAAAAAAT-TCAATA
1 TAAATTAAAAT-TTAAAAAATATCAA-A
77591691 TAAATT
1 TAAATT
77591697 TAATTTAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAATTAAAATTTAAAAAATATCAAA
Found at i:77595649 original size:123 final size:123
Alignment explanation
Indices: 77595430--77595679 Score: 482
Period size: 123 Copynumber: 2.0 Consensus size: 123
77595420 GGGTATGTGT
*
77595430 TTCCATCAAAACTTACGGCCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
1 TTCCATCAAAACTTACGACCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
77595495 AAAACAGTTTAGAGCAGAGGTCGACGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
66 AAAACAGTTTAGAGCAGAGGTCGACGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
77595553 TTCCATCAAAACTTACGACCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
1 TTCCATCAAAACTTACGACCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
*
77595618 AAAACAGTTTAGAGCAGAGGTCGATGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
66 AAAACAGTTTAGAGCAGAGGTCGACGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
77595676 TTCC
1 TTCC
77595680 TTATCCTGCA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (123 bp):
TTCCATCAAAACTTACGACCAAAAAGAAGGGCTAAAAGATACGACCATCACAAAACTATAACTGG
AAAACAGTTTAGAGCAGAGGTCGACGAAAACTGTTAAAGATTCTGGGGTATGCCCAGA
Found at i:77598032 original size:13 final size:14
Alignment explanation
Indices: 77598008--77598036 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
77597998 ACCTAGAGTA
77598008 TTTTTCTAATTTTT
1 TTTTTCTAATTTTT
77598022 TTTTTCT-ATTTTT
1 TTTTTCTAATTTTT
77598035 TT
1 TT
77598037 CGAATTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTAATTTTT
Found at i:77598630 original size:11 final size:10
Alignment explanation
Indices: 77598603--77598667 Score: 67
Period size: 11 Copynumber: 6.0 Consensus size: 10
77598593 ACTTAAATCC
77598603 TTTCTCTCAA
1 TTTCTCTCAA
*
77598613 ATTCTCTCATA
1 TTTCTCTCA-A
77598624 TTTCTCTCCAA
1 TTTCTCT-CAA
77598635 TATTCTCTCATA
1 T-TTCTCTCA-A
77598647 TTTCTCTCAAA
1 TTTCTCTC-AA
*
77598658 TTCCTCTCAA
1 TTTCTCTCAA
77598668 GTTCCTCTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 10 0.21
11 26 0.55
12 11 0.23
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:77598639 original size:23 final size:21
Alignment explanation
Indices: 77598603--77598666 Score: 101
Period size: 23 Copynumber: 2.9 Consensus size: 21
77598593 ACTTAAATCC
77598603 TTTCTCTCAAATTCTCTCATA
1 TTTCTCTCAAATTCTCTCATA
77598624 TTTCTCTCCAATATTCTCTCATA
1 TTTCTCT-CAA-ATTCTCTCATA
77598647 TTTCTCTCAAATTCCTCTCA
1 TTTCTCTCAAATT-CTCTCA
77598667 AGTTCCTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.25
22 12 0.30
23 18 0.45
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTCTCTCAAATTCTCTCATA
Found at i:77598672 original size:11 final size:11
Alignment explanation
Indices: 77598606--77598675 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
77598596 TAAATCCTTT
77598606 CTCTCAAATT-
1 CTCTCAAATTC
* *
77598616 CTCTCATATTT
1 CTCTCAAATTC
77598627 CTCTCCAATATT-
1 CTCT-CAA-ATTC
* *
77598639 CTCTCATATTT
1 CTCTCAAATTC
77598650 CTCTCAAATTC
1 CTCTCAAATTC
*
77598661 CTCTCAAGTTC
1 CTCTCAAATTC
77598672 CTCT
1 CTCT
77598676 TAAAGCTCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
10 12 0.24
11 29 0.58
12 6 0.12
13 3 0.06
ACGTcount: A:0.21, C:0.33, G:0.01, T:0.44
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:77603732 original size:44 final size:44
Alignment explanation
Indices: 77603684--77603869 Score: 282
Period size: 44 Copynumber: 4.2 Consensus size: 44
77603674 TGCAATGTCG
** *
77603684 GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTGCTGGTCA
1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
* *
77603728 GGGAGATAAGACTTACAATCTCCCACCTATTCCACTGCTGGTCA
1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
** * *
77603772 GGGAGATAGGACTTGTAATCTTCGACCTATTCCACTACTGGTCA
1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
77603816 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
1 GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
*
77603860 GAGAGATAGG
1 GGGAGATAGG
77603870 GCTAGTATCT
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 126 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (44 bp):
GGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCA
Found at i:77603783 original size:88 final size:88
Alignment explanation
Indices: 77603684--77603869 Score: 327
Period size: 88 Copynumber: 2.1 Consensus size: 88
77603674 TGCAATGTCG
*
77603684 GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAAGACTTACAATCT
1 GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTACTGGTCAGGGAGATAAGACTTACAATCT
77603749 CCCACCTATTCCACTGCTGGTCA
66 CCCACCTATTCCACTGCTGGTCA
* *
77603772 GGGAGATAGGACTTGTAATCTTCGACCTATTCCACTACTGGTCAGGGAGATAGGACTTACAATCT
1 GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTACTGGTCAGGGAGATAAGACTTACAATCT
*
77603837 TCCACCTATTCCACTGCTGGTCA
66 CCCACCTATTCCACTGCTGGTCA
*
77603860 GAGAGATAGG
1 GGGAGATAGG
77603870 GCTAGTATCT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 93 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (88 bp):
GGGAGATAGGACTTGTAATCTTCAACCTATTCCACTACTGGTCAGGGAGATAAGACTTACAATCT
CCCACCTATTCCACTGCTGGTCA
Found at i:77604102 original size:45 final size:45
Alignment explanation
Indices: 77603965--77604103 Score: 131
Period size: 45 Copynumber: 3.1 Consensus size: 45
77603955 AAGGCTAGTG
* * *
77603965 TCTTCAATCTGCTTTACTGTCAGTATAGAAAGGCAAGATCTGCTA
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
* * * *** * *
77604010 TCTTCAACCTACTCCACTG-CAACCCAGGGAGGCAACG--CTGATA
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAA-GATCTGCTA
* *
77604053 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
77604098 TCTTCA
1 TCTTCA
77604104 GCCTATTCCG
Statistics
Matches: 68, Mismatches: 22, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
43 20 0.29
44 22 0.32
45 26 0.38
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (45 bp):
TCTTCAATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTA
Found at i:77604232 original size:87 final size:87
Alignment explanation
Indices: 77603995--77604832 Score: 891
Period size: 87 Copynumber: 9.6 Consensus size: 87
77603985 CAGTATAGAA
* * * *
77603995 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAGGGAGGCAACGCTGATATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * * * *
77604060 TCTGCTTCGCTGTCAG-TACAGGA
66 TCTGCTCCACT-ACTGCT-TAGGG
* ** * * *
77604083 AGGCAAGATCTGCTATCTTCAGCCTATTCCGCTACAACGGAGGGAGGCAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
*
77604148 TTTGCTCCACTACTGCTTAGGG
66 TCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
77604170 AGGTAAGAT-TCGTTATATTCAACCTGCTCCGCTGCAACCCAGAGAAGCAAGGCTAGTGTCTTCG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCG
* * * * *
77604234 ATCTGCTTCACTGTCAG-TACAGGA
65 ATCTGCTCCACT-ACTGCT-TAGGG
* * **
77604258 AGGTATGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTTAA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* *
77604323 TCTGCTCTACTACTGTTTAGGG
66 TCTGCTCCACTACTGCTTAGGG
* * * *
77604345 AGGGAAGATCTGCTATCTTTAACCTGTTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTTGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
*
77604410 TCTGCTCCACTACTGCTTAAGG
66 TCTGCTCCACTACTGCTTAGGG
* * * * * * *
77604432 AGGCAAGAT-TCGTTATATTCAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCG
* * * * *
77604496 ATCTGCTTCACTGTCAG-TACAGGA
65 ATCTGCTCCACT-ACTGCT-TAGGG
** *** *
77604520 AGGCAAGATCTGCTATCTTCAGTCTGCTTTGCTGCAACCGAGGGAGGAAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
*
77604585 TCTGCTCCACTATTGCTTAGGG
66 TCTGCTCCACTACTGCTTAGGG
* *
77604607 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAGAGAGGCAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
77604672 TCTGCTCCACTACTGCTTAGGG
66 TCTGCTCCACTACTGCTTAGGG
* * *
77604694 AGGCAAGGTCTGCTATTTTCAACCTGCTCCAC-GCCACCGAGGGAGGCAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * *
77604758 TCTGCTTCGCTGTCGATGC--AGGA
66 TCTGCTCCACT-AC--TGCTTAGGG
77604781 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGG
77604833 ATTTGTGATT
Statistics
Matches: 621, Mismatches: 114, Indels: 30
0.81 0.15 0.04
Matches are distributed among these distances:
86 41 0.07
87 357 0.57
88 218 0.35
89 5 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (87 bp):
AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
TCTGCTCCACTACTGCTTAGGG
Found at i:77604250 original size:175 final size:174
Alignment explanation
Indices: 77603995--77604832 Score: 970
Period size: 175 Copynumber: 4.8 Consensus size: 174
77603985 CAGTATAGAA
* * * *
77603995 AGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAGGGAGGCAACGCTGATATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * * * *
77604060 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGCCTATTCCGCTACAACGGAG
66 TCTGCTTCACTGTC-GTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAG
*
77604125 GGAGGCAAGGCTGGTATCTTCGATTTGCTCCACTACTGCTTAGGG
130 GGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
77604170 AGGTAAGAT-TCGTTATATTCAACCTGCTCCGCTGCAACCCAGAGAAGCAAGGCTAGTGTCTTCG
1 AGGCAAGATCT-GCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCG
* * *
77604234 ATCTGCTTCACTGTCAGTACAGGAAGGTATGATCTGCTATCTTCAACCTGCTCCACTGCAACCGA
65 ATCTGCTTCACTGTC-GTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGA
** * *
77604299 GGGAGGCAAGGCTGGTATCTTTAATCTGCTCTACTACTGTTTAGGG
129 GGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
* * * *
77604345 AGGGAAGATCTGCTATCTTTAACCTGTTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTTGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * * * * *
77604410 TCTGCTCCACTACTGCTTA-AGG-AGGCAAGAT-TCGTTATATTCAACCTACTCCGCTGCAACCC
66 TCTGCTTCACT-GT-CGTACAGGAAGGCAAGATCT-GCTATCTTCAACCTACTCCACTGCAACCG
* * * * * * *
77604472 AGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAG-TACAGGA
128 AGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACT-ACTGCT-TAGGG
** *** *
77604520 AGGCAAGATCTGCTATCTTCAGTCTGCTTTGCTGCAACCGAGGGAGGAAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * * * *
77604585 TCTGCTCCACTATTGCT-TAGGGAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAG
66 TCTGCTTCACTGTCG-TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAG
*
77604649 AGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
130 GGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
* * *
77604694 AGGCAAGGTCTGCTATTTTCAACCTGCTCCAC-GCCACCGAGGGAGGCAAGGCTGGTATCTTCGA
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
* * *
77604758 TCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
66 TCTGCTTCACTGTCG-TACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAG
77604823 GGAGGCAAGG
130 GGAGGCAAGG
77604833 ATTTGTGATT
Statistics
Matches: 550, Mismatches: 100, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
173 43 0.08
174 151 0.27
175 350 0.64
176 5 0.01
177 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (174 bp):
AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGA
TCTGCTTCACTGTCGTACAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCGAGG
GAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGG
Found at i:77604389 original size:44 final size:44
Alignment explanation
Indices: 77604264--77604831 Score: 253
Period size: 43 Copynumber: 13.0 Consensus size: 44
77604254 AGGAAGGTAT
*
77604264 GATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * * * * ***** *
77604308 G-GCTGGTATCTTTAATCTGCTCTACTACTGTTTAGGGAGGGAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
*
77604351 GATCTGCTATCTTTAACCTGTTCCACTGCAACCGAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * * * * ** ** *
77604395 G-GCTGGTATCTTTGATCTGCTCCACTACTGCTTAAGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * * * * *
77604438 GAT-TCGTTATATTCAACCTACTCCGCTGCAACCCAGGGAGGCAA
1 GATCT-GCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * ** * * *
77604482 G-GCTAG-TGTCTTCGATCTGCTTCACTGTCAGTA-C-AGGAAGGCAA
1 GATCT-GCTATCTTTAACCTGCTCCACTG-CA--ACCGAGGGAGGCAA
* ** *** *
77604526 GATCTGCTATCTTCAGTCTGCTTTGCTGCAACCGAGGGAGGAAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * ** * **** **
77604570 G-GCTGGTATCTTCGATCTGCTCCACTATTGCTTAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * *
77604613 GATCTGCTATCTTCAACCTACTCCACTGCAACCGAGAGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* * ** * * ** **
77604657 G-GCTGGTATCTTCGATCTGCTCCACTACTGCTTAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
* *
77604700 GGTCTGCTAT-TTTCAACCTGCTCCAC-GCCACCGAGGGAGGCAA
1 GATCTGCTATCTTT-AACCTGCTCCACTGCAACCGAGGGAGGCAA
* * ** * * * * * *
77604743 G-GCTGGTATCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTG-CAACCG-AGGGAGGCAA
*
77604787 GATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAA
1 GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
77604831 G
1 G
77604832 GATTTGTGAT
Statistics
Matches: 371, Mismatches: 133, Indels: 40
0.68 0.24 0.07
Matches are distributed among these distances:
42 15 0.04
43 159 0.43
44 156 0.42
45 40 0.11
46 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (44 bp):
GATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAA
Found at i:77604471 original size:262 final size:262
Alignment explanation
Indices: 77603907--77604832 Score: 1275
Period size: 262 Copynumber: 3.5 Consensus size: 262
77603897 CAGTACAAGA
* * * * *
77603907 AGGCAAGATTCATTATATTCAACTTGCTCCGCTACAACCCAGGGAGGTAAGGCTAGTGTCTTCAA
1 AGGCAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
* * * * *
77603972 TCTGCTTTACTGTCAGTATAGAAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACCCAG
66 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
* * * * * ** *
77604037 GGAGGCAACGCTGATATCTTCGATCTGCT-TCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCT
131 GGAGGCAAGGCTGGTATCTTCGATCTGCTCT-ACT-ACTGTTTAGGGAGGCAAGATCTGCTATCT
* * * * *
77604101 TCAGCCTATTCCGCTACAACGGAGGGAGGCAAGGCTGGTATCTTCGATTTGCTCCACTACTGCTT
194 TCAACCTATTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTT
77604166 AGGG
259 AGGG
* * *
77604170 AGGTAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGAGAAGCAAGGCTAGTGTCTTCGA
1 AGGCAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
* *
77604235 TCTGCTTCACTGTCAGTACAGGAAGGTATGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
66 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
** * *
77604300 GGAGGCAAGGCTGGTATCTTTAATCTGCTCTACTACTGTTTAGGGAGGGAAGATCTGCTATCTTT
131 GGAGGCAAGGCTGGTATCTTCGATCTGCTCTACTACTGTTTAGGGAGGCAAGATCTGCTATCTTC
* * *
77604365 AACCTGTTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTTGATCTGCTCCACTACTGCTTAA
196 AACCTATTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAG
77604430 GG
261 GG
*
77604432 AGGCAAGATTCGTTATATTCAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
1 AGGCAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
** ***
77604497 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTTTGCTGCAACCGAG
66 TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
* * * *
77604562 GGAGGAAAGGCTGGTATCTTCGATCTGCTCCACTATTGCTTAGGGAGGCAAGATCTGCTATCTTC
131 GGAGGCAAGGCTGGTATCTTCGATCTGCTCTACTACTGTTTAGGGAGGCAAGATCTGCTATCTTC
* *
77604627 AACCTACTCCACTGCAACCGAGAGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAG
196 AACCTATTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAG
77604692 GG
261 GG
* * * * * * * *
77604694 AGGCAAG-GTCTGCTATTTTCAACCTGCTCCAC-GCCACCGAGGGAGGCAAGGCTGGTATCTTCG
1 AGGCAAGATTC-GTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCG
* *
77604757 ATCTGCTTCGCTGTC-GATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCG
65 ATCTGCTTCACTGTCAG-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCG
77604821 AGGGAGGCAAGG
129 AGGGAGGCAAGG
77604833 ATTTGTGATT
Statistics
Matches: 584, Mismatches: 76, Indels: 8
0.87 0.11 0.01
Matches are distributed among these distances:
260 1 0.00
261 95 0.16
262 345 0.59
263 142 0.24
264 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (262 bp):
AGGCAAGATTCGTTATATTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGA
TCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAG
GGAGGCAAGGCTGGTATCTTCGATCTGCTCTACTACTGTTTAGGGAGGCAAGATCTGCTATCTTC
AACCTATTCCACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCACTACTGCTTAG
GG
Found at i:77607104 original size:24 final size:25
Alignment explanation
Indices: 77607058--77607115 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
77607048 ATTTTCATAT
77607058 TTTTTATTTTGACTTTGATTTTTTTC
1 TTTTT-TTTTGACTTTGATTTTTTTC
77607084 TTTTTTTTTG-CTTCTGATTTTTTTC
1 TTTTTTTTTGACTT-TGATTTTTTTC
77607109 TTTTTTT
1 TTTTTTT
77607116 CATTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 3 0.10
25 23 0.74
26 5 0.16
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.78
Consensus pattern (25 bp):
TTTTTTTTTGACTTTGATTTTTTTC
Found at i:77615658 original size:19 final size:19
Alignment explanation
Indices: 77615631--77615669 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
77615621 CCCTATTTTA
77615631 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
*
77615650 CCCTTTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
77615669 C
1 C
77615670 TTCCTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:77616978 original size:54 final size:53
Alignment explanation
Indices: 77616896--77617003 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 53
77616886 GGAAATGGAT
* *
77616896 AGGGAAAGATCATGCGAAATGGTCACCTGCCGCGACTG-TGACTTTCATGTATG
1 AGGGAAAGATCACGCCAAATGGTCACCTGCCGCGAC-GATGACTTTCATGTATG
* *
77616949 NAGGGAAAGATCACGCCAAATGGTCACCTGCTGCGACGATGACTTTTATGTATG
1 -AGGGAAAGATCACGCCAAATGGTCACCTGCCGCGACGATGACTTTCATGTATG
77617003 A
1 A
77617004 ACCTGAGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 2 0.04
54 47 0.96
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (53 bp):
AGGGAAAGATCACGCCAAATGGTCACCTGCCGCGACGATGACTTTCATGTATG
Found at i:77618866 original size:88 final size:89
Alignment explanation
Indices: 77618695--77618899 Score: 279
Period size: 88 Copynumber: 2.3 Consensus size: 89
77618685 TTGATTTTAG
* *
77618695 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATAT--CTATTAAATTAT
* *
77618760 ATTTAATATTAATTATTTTAAATTGTA
63 ATGTAATATTAATTATTTTAAATTATA
*
77618787 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATAT-TATTATATTATATG
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCTATTAAATTATATG
77618851 TAATAATT-ATTATTTTAAATTATA
66 TAAT-ATTAATTATTTTAAATTATA
* * * *
77618875 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
77618900 GTTATAATTA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
88 52 0.50
89 3 0.03
91 32 0.31
92 16 0.16
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (89 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCTATTAAATTATATG
TAATATTAATTATTTTAAATTATA
Found at i:77618941 original size:47 final size:49
Alignment explanation
Indices: 77618817--77618942 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 49
77618807 TATTATCAAG
* * *
77618817 AATTTTATGAAATTATATATTATTATATTATATGTAATAATTATTATTTTA
1 AATTTTATCAAATCATATATT-TTA-ATTATATGTAATAATAATTATTTTA
* * * * * *
77618868 AATTATA-CAAATTCATAAAATATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
77618915 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
77618943 AAATATATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
47 32 0.55
48 6 0.10
49 3 0.05
50 5 0.09
51 12 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:77619070 original size:16 final size:16
Alignment explanation
Indices: 77619049--77619090 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
77619039 TTATTAAATT
*
77619049 ATATATTTTAATTATA
1 ATATATTTTAATAATA
77619065 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
77619080 AT-TATGTTTAA
1 ATATAT-TTTAA
77619091 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:77619075 original size:15 final size:15
Alignment explanation
Indices: 77619040--77619081 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
77619030 TTAAGAATTT
*
77619040 TATTAAATTAT-ATA
1 TATTTAATTATAATA
77619054 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
77619068 TATTTAATAATAAT
1 TATTTAATTATAAT
77619082 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:77619287 original size:44 final size:45
Alignment explanation
Indices: 77619238--77619328 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
77619228 ACCTCTATTC
* *
77619238 CATTCAACCAAACACAAGA-TTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCAATA
*** *
77619282 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCAATA
1 CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCAATA
77619327 CA
1 CA
77619329 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTTACTATTACACCTCTATTCCAATA
Found at i:77619330 original size:16 final size:16
Alignment explanation
Indices: 77619309--77619358 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
77619299 GATTTGCTAT
*
77619309 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
77619325 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
77619341 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
77619357 TA
1 TA
77619359 TAGCGAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:77619841 original size:126 final size:126
Alignment explanation
Indices: 77619617--77620028 Score: 646
Period size: 126 Copynumber: 3.3 Consensus size: 126
77619607 CAGGCCAAAT
* * * * *
77619617 AGGAACTACTATAGC-AAAAAGCATCCACGTGGGAGCTTCATTCAGTACTTTTGCTAACAAAGCA
1 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
* *
77619681 TCCTGCTTAAAGCGTTATTGACACTATTTGCTCAGAAACGTCCTCTCGAAATTATTTTTTC
66 TCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
*
77619742 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTTAGTACTTTTGCTGACAATGCA
1 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
*
77619807 TCCTGCTTAAAGCGTTTTTGGCACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
66 TCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
* * * *
77619868 AGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATACA
1 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
* * * *
77619933 TCCTACTTAAAGCGTTTTTGCCACCATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTC
66 TCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
* *
77619994 AGTAAATACTGTAGCAAAAAAGCATCCACGTAGGA
1 AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGA
77620029 TCTTTTTTAA
Statistics
Matches: 263, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 14 0.05
126 249 0.95
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (126 bp):
AGGAACTACTGTAGCAAAAAAGCATCCACGTAGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
TCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTTC
Found at i:77620212 original size:96 final size:94
Alignment explanation
Indices: 77620069--77620369 Score: 381
Period size: 96 Copynumber: 3.1 Consensus size: 94
77620059 AGTAACCCTA
*
77620069 AACCCCAAACCCTAATTTATTTAAGTTTTTCCTT-AAAACCCTAAACACTAAACCTTAATCTAAA
1 AACCCTAAACCCTAATTTATTTAA-TTTTTCCTTAAAAACCCTAAACACTAAACCTTAATCT-AA
*
77620133 TTGTTTAAAATTTATAATTAATTTACTCAAGT
64 TT-TTTAAAATTTATAATTAATTTAATCAAGT
* * * * * *
77620165 AACCCTAAACCCTAATTTGTTTGATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATATGATT
1 AACCCTAAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCTTAATCT-AAT
77620230 TTTTAAAAATTTATAATTAATTTAATCAAGT
65 TTTT-AAAATTTATAATTAATTTAATCAAGT
* * * * *
77620261 AACCTTAAACCTTAATTTCA-TTAATTTTTCTTTAAAAACCATAAACACGAAACCTTAATCTAAT
1 AACCCTAAACCCTAATTT-ATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCTTAATCTAAT
* * *
77620325 TTTGAAAAATTTATAATTAATTTAATTAAGA
65 TTT-TAAAATTTATAATTAATTTAATCAAGT
77620356 AACCCTAAACCCTA
1 AACCCTAAACCCTA
77620370 GCCCTTATTT
Statistics
Matches: 176, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
95 53 0.30
96 123 0.70
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCTTAATCTAATT
TTTAAAATTTATAATTAATTTAATCAAGT
Found at i:77620421 original size:15 final size:16
Alignment explanation
Indices: 77620393--77620429 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
77620383 TAATTTTTTC
77620393 CTTTAAACCCCTAAAA
1 CTTTAAACCCCTAAAA
77620409 CTTTAAA-CCCTAAAA
1 CTTTAAACCCCTAAAA
*
77620424 CCTTAA
1 CTTTAA
77620430 TCCTAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (16 bp):
CTTTAAACCCCTAAAA
Found at i:77620436 original size:14 final size:15
Alignment explanation
Indices: 77620395--77620476 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 15
77620385 ATTTTTTCCT
*
77620395 TTAAACCCCTAAAACT
1 TTAAA-CCCTAAAACC
77620411 TTAAACCCTAAAACC
1 TTAAACCCTAAAACC
*
77620426 TT-AATCCT-AAACC
1 TTAAACCCTAAAACC
* *
77620439 CTAAACCAT-AAACC
1 TTAAACCCTAAAACC
* *
77620453 CTAAACCAT-AAACC
1 TTAAACCCTAAAACC
*
77620467 CT-AACCCTAA
1 TTAAACCCTAA
77620477 CCCTAACGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.19
14 31 0.53
15 11 0.19
16 5 0.09
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
TTAAACCCTAAAACC
Found at i:77620483 original size:6 final size:7
Alignment explanation
Indices: 77620412--77620482 Score: 83
Period size: 7 Copynumber: 10.4 Consensus size: 7
77620402 CCTAAAACTT
77620412 TAAACCC
1 TAAACCC
*
77620419 TAAAACC
1 TAAACCC
* *
77620426 TTAATCC
1 TAAACCC
77620433 TAAACCC
1 TAAACCC
*
77620440 TAAACCA
1 TAAACCC
77620447 TAAACCC
1 TAAACCC
*
77620454 TAAACCA
1 TAAACCC
77620461 TAAACCC
1 TAAACCC
77620468 T-AACCC
1 TAAACCC
77620474 T-AACCC
1 TAAACCC
77620480 TAA
1 TAA
77620483 CGCAGAGACA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
6 12 0.22
7 42 0.78
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:77621329 original size:40 final size:39
Alignment explanation
Indices: 77621281--77621392 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
77621271 TGGCGTTTGA
77621281 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCAGCGC-TT
* * *
77621321 ACATAAAACGCCGCTAAAGATCGAGCATTAGCTGCGCTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTT
* * *
77621360 CCAAAAAAGCGCCACTAAAAAT-TAGCATTAGCA
1 ACAAAAAA-CGCCGCTAAAAATCGAGCATTAGCA
77621393 ACGTTTTTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 17 0.27
40 45 0.73
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (39 bp):
ACAAAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTT
Found at i:77621522 original size:41 final size:41
Alignment explanation
Indices: 77621460--77621653 Score: 268
Period size: 41 Copynumber: 4.8 Consensus size: 41
77621450 CATTTGGTTC
* *
77621460 TTTAGCGGCGTTTTTGAAAAAGCGCCTCTAATGCTCAGAG-A
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAG-GCT
* * * * *
77621501 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATACACA-GAT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
*
77621541 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 -TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
77621583 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
*
77621624 TTTAGCGTCGTTTTTG-AAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
77621654 AAGCCTGATA
Statistics
Matches: 138, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 14 0.10
41 121 0.88
42 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:77621811 original size:26 final size:26
Alignment explanation
Indices: 77621763--77621813 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
77621753 AAAATGGATA
** * *
77621763 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
77621789 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
77621814 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:77622014 original size:14 final size:14
Alignment explanation
Indices: 77621997--77622033 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
77621987 GGGTTTAATA
*
77621997 TATATGTTTTAGGG
1 TATATGGTTTAGGG
77622011 TATATGGTTTAGGG
1 TATATGGTTTAGGG
77622025 TATATGGTT
1 TATATGGTT
77622034 AATTTAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:77622110 original size:14 final size:15
Alignment explanation
Indices: 77622082--77622114 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
77622072 AAGGTTTATA
77622082 GATTATGGAATTAGG
1 GATTATGGAATTAGG
77622097 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
77622111 GATT
1 GATT
77622115 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:77622598 original size:129 final size:130
Alignment explanation
Indices: 77622352--77622598 Score: 275
Period size: 129 Copynumber: 1.9 Consensus size: 130
77622342 CGAGGTCGGG
*
77622352 TTAGGGTTTAAGGTTTAGATTAAGTAGTATTTTTTAATTTATATATTAATTAAGTTCTTATATAA
1 TTAGGGTTTAAGGTTTAGATTAAGTAGTAGTTTTTAATTTATATATTAATTAAGTTCTTATATAA
* ** ** * * ** * *
77622417 TTGTAAAAGAGGGGTTAGGGGTTTAGTGTTTATATTTTATGATTTAGGGTTTAGAAGCTAGGGGT
66 TTGTAAAAGAGAGAATAGAAGTTTAATATTTATAAATTATGAGTTAGAGTTTAGAAGCTAGGGGT
* * * *
77622482 TTAGGGTTTAGGGTTTAGATTAATTGGT-GTTTTTAATTTATATATTAATTAATTTCTTATATAA
1 TTAGGGTTTAAGGTTTAGATTAAGTAGTAGTTTTTAATTTATATATTAATTAAGTTCTTATATAA
* * * *
77622546 TTGTAAAAGAGATAATATTAATTTTAATATATTA-AAATTAT-AGTTATAGTTTA
66 TTGTAAAAGAGAGAATA-GAAGTTTAATAT-TTATAAATTATGAGTTAGAGTTTA
77622599 AATTATTTAA
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
129 56 0.59
130 36 0.38
131 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (130 bp):
TTAGGGTTTAAGGTTTAGATTAAGTAGTAGTTTTTAATTTATATATTAATTAAGTTCTTATATAA
TTGTAAAAGAGAGAATAGAAGTTTAATATTTATAAATTATGAGTTAGAGTTTAGAAGCTAGGGGT
Found at i:77627875 original size:14 final size:14
Alignment explanation
Indices: 77627858--77627891 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
77627848 GGGTTTAATA
77627858 TATATGTTTTAAGG
1 TATATGTTTTAAGG
*
77627872 TATATGTTTTAGGG
1 TATATGTTTTAAGG
77627886 TATATG
1 TATATG
77627892 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (14 bp):
TATATGTTTTAAGG
Found at i:77627948 original size:7 final size:7
Alignment explanation
Indices: 77627938--77627989 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
77627928 ATTTTAAGGT
*
77627938 TTATAGA
1 TTATGGA
77627945 TTATGGAA
1 TTATGG-A
77627953 TTATGGA
1 TTATGGA
77627960 TTATGGA
1 TTATGGA
*
77627967 TTAGGGA
1 TTATGGA
* *
77627974 TTCTGGT
1 TTATGGA
*
77627981 TTAAGGA
1 TTATGGA
77627988 TT
1 TT
77627990 GTGATTTAGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (7 bp):
TTATGGA
Found at i:77628152 original size:139 final size:139
Alignment explanation
Indices: 77627999--77628256 Score: 360
Period size: 139 Copynumber: 1.9 Consensus size: 139
77627989 TGTGATTTAG
* * * * *
77627999 GGGTTAAGGGTTAGGTGTTAGAGATTAAGAGTTAGA-AATTTAGGGTTTATG-G-ATTCGGTGTT
1 GGGTTAAGGGTTAGGGGTTAGAGATTAAGAATTA-ATAATTTAAGGTTTA-GAGTATTAGG-GTC
77628061 AGGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAGGG
63 AGGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAGGG
77628126 GGTAGTAGTTAA
128 GGTAGTAGTTAA
* * * * *
77628138 GGGTTTAGGGTTAGGGGTTAGGGGTTAAGAATTAATGATTTAAGGTTTAGAGTTTTAGGGTCAGG
1 GGGTTAAGGGTTAGGGGTTAGAGATTAAGAATTAATAATTTAAGGTTTAGAGTATTAGGGTCAGG
* *
77628203 TTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAATTAAG
66 ATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAG
77628257 TTCTTATATA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
138 2 0.02
139 98 0.94
140 4 0.04
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.41
Consensus pattern (139 bp):
GGGTTAAGGGTTAGGGGTTAGAGATTAAGAATTAATAATTTAAGGTTTAGAGTATTAGGGTCAGG
ATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAGGGGGT
AGTAGTTAA
Found at i:77630940 original size:43 final size:40
Alignment explanation
Indices: 77630855--77631046 Score: 156
Period size: 43 Copynumber: 4.5 Consensus size: 40
77630845 TTAATTTTTT
* *
77630855 TAAAAG-CATGTTTTTAGTGGCGTTTGTGAAAAAGCGTCGC
1 TAAAAGTCATATTTTTAGCGGCGTTTGT-AAAAAGCGTCGC
*
77630895 TAAAAGTCATTTTTTATAGCGGCGTTTGTAATAGAAGCGTCGC
1 TAAAAGTCATATTTT-TAGCGGCGTTTGTAA-A-AAGCGTCGC
*
77630938 TAAAGGTCATGATTTTTAGCGGCGTTTGTAGCAAAAGCG-CTGC
1 TAAAAGTCAT-ATTTTTAGCGGCGTTTGTA--AAAAGCGTC-GC
* * * * *
77630981 TAAAGGCCATGATCTTTAGCGTCGTTTGTGGCAAAAGCGTCGC
1 TAAAAGTCAT-ATTTTTAGCGGCGTTTGT--AAAAAGCGTCGC
*
77631024 TAAAGAG-CATGATCTTTAGCGGC
1 TAAA-AGTCAT-ATTTTTAGCGGC
77631047 ATTTTGCGCT
Statistics
Matches: 130, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
40 6 0.05
41 9 0.07
42 14 0.11
43 93 0.72
44 7 0.05
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (40 bp):
TAAAAGTCATATTTTTAGCGGCGTTTGTAAAAAGCGTCGC
Found at i:77631009 original size:86 final size:85
Alignment explanation
Indices: 77630855--77631046 Score: 205
Period size: 86 Copynumber: 2.3 Consensus size: 85
77630845 TTAATTTTTT
* * * *
77630855 TAAA-AGCATG-TTTTTAGTGGCGTTTGTGAAAAAGCGTCGCTAAAAGTCATTTTTTATAGCGGC
1 TAAAGAGCATGATTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAAGCCATATCTTATAGCGGC
* *
77630918 GTTTGTAATAGAAGCGTCGC
66 GTTTGTAACAAAAGCGTCGC
* *
77630938 TAAAG-GTCATGATTTTTAGCGGCGTTTGTAGCAAAAGCG-CTGCTAAAGGCCATGATCTT-TAG
1 TAAAGAG-CATGATTTTTAGCGGCGTTTGT-GAAAAAGCGTC-GCTAAAAGCCAT-ATCTTATAG
* **
77631000 CGTCGTTTGTGGCAAAAGCGTCGC
62 CGGCGTTTGTAACAAAAGCGTCGC
*
77631024 TAAAGAGCATGATCTTTAGCGGC
1 TAAAGAGCATGATTTTTAGCGGC
77631047 ATTTTGCGCT
Statistics
Matches: 90, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
83 5 0.06
84 4 0.04
85 17 0.19
86 60 0.67
87 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (85 bp):
TAAAGAGCATGATTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAAGCCATATCTTATAGCGGC
GTTTGTAACAAAAGCGTCGC
Found at i:77631235 original size:30 final size:30
Alignment explanation
Indices: 77631201--77631263 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
77631191 ACTTATTTTA
77631201 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
77631231 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
77631261 TTG
1 TTG
77631264 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:77641115 original size:36 final size:37
Alignment explanation
Indices: 77641068--77641154 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
77641058 CCACTTTTGT
* * * *
77641068 GGTGTGTAGGGTGAATGGCCTATTATGGTCTT-ATGC
1 GGTGTGCAGGGTGAATGGCCTACTATAGCCTTAATGC
* * *
77641104 GGTGTGCAGGGTGGATTGGCCTACTGTAGCCTTAATGT
1 GGTGTGCAGGGT-GAATGGCCTACTATAGCCTTAATGC
77641142 GGTGTGCAGGGTG
1 GGTGTGCAGGGTG
77641155 GACGAAGTGG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 11 0.26
37 16 0.38
38 15 0.36
ACGTcount: A:0.15, C:0.13, G:0.40, T:0.32
Consensus pattern (37 bp):
GGTGTGCAGGGTGAATGGCCTACTATAGCCTTAATGC
Found at i:77641148 original size:38 final size:37
Alignment explanation
Indices: 77641065--77641156 Score: 105
Period size: 38 Copynumber: 2.5 Consensus size: 37
77641055 GTTCCACTTT
* * * *
77641065 TGTGGTGTGTAGGGT-GAATGGCCTATTATGGTCTTA
1 TGTGGTGTGCAGGGTGGAATGGCCTACTATAGCCTTA
* * *
77641101 TGCGGTGTGCAGGGTGGATTGGCCTACTGTAGCCTTAA
1 TGTGGTGTGCAGGGTGGAATGGCCTACTATAGCCTT-A
77641139 TGTGGTGTGCAGGGTGGA
1 TGTGGTGTGCAGGGTGGA
77641157 CGAAGTGGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 13 0.28
37 15 0.33
38 18 0.39
ACGTcount: A:0.15, C:0.12, G:0.40, T:0.33
Consensus pattern (37 bp):
TGTGGTGTGCAGGGTGGAATGGCCTACTATAGCCTTA
Found at i:77647176 original size:18 final size:18
Alignment explanation
Indices: 77647153--77647192 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
77647143 GATACTGTAT
77647153 ACTGAAAA-TAGTAGTAAA
1 ACTGAAAACTA-TAGTAAA
*
77647171 ACTGAAAACTATAGTAAG
1 ACTGAAAACTATAGTAAA
77647189 ACTG
1 ACTG
77647193 CGATTCGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (18 bp):
ACTGAAAACTATAGTAAA
Found at i:77654508 original size:49 final size:46
Alignment explanation
Indices: 77654452--77654568 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 46
77654442 TTTATTTTCT
77654452 CGATGCCATAGTCCAACTATTGTCTTACACATAATCACATAACATATAC
1 CGATGCCATAG-CC-ACTA-TGTCTTACACATAATCACATAACATATAC
77654501 CGATGCCATAGCC-C-A-G-----CACATAATCACATAACATATAC
1 CGATGCCATAGCCACTATGTCTTACACATAATCACATAACATATAC
77654539 CGATGCCATAGCCCAGCTATGGTCTTACAC
1 CGATGCCATAG-CCA-CTAT-GTCTTACAC
77654569 GAAATTACAT
Statistics
Matches: 57, Mismatches: 0, Indels: 22
0.72 0.00 0.28
Matches are distributed among these distances:
38 33 0.58
39 2 0.04
41 1 0.02
42 1 0.02
43 1 0.02
44 1 0.02
45 1 0.02
46 1 0.02
48 2 0.04
49 14 0.25
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (46 bp):
CGATGCCATAGCCACTATGTCTTACACATAATCACATAACATATAC
Found at i:77654530 original size:38 final size:38
Alignment explanation
Indices: 77654479--77654555 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
77654469 TATTGTCTTA
77654479 CACATAATCACATAACATATACCGATGCCATAGCCCAG
1 CACATAATCACATAACATATACCGATGCCATAGCCCAG
77654517 CACATAATCACATAACATATACCGATGCCATAGCCCAG
1 CACATAATCACATAACATATACCGATGCCATAGCCCAG
77654555 C
1 C
77654556 TATGGTCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.18
Consensus pattern (38 bp):
CACATAATCACATAACATATACCGATGCCATAGCCCAG
Found at i:77655497 original size:23 final size:22
Alignment explanation
Indices: 77655467--77655513 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
77655457 GAAAATAGAG
77655467 TCATTTAGCTT-TAATTTCATATT
1 TCATTTAGCTTCTAA-TTCA-ATT
77655490 TCATTTAGCTTCTAATTCAATT
1 TCATTTAGCTTCTAATTCAATT
77655512 TC
1 TC
77655514 CACCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.22
23 15 0.65
24 3 0.13
ACGTcount: A:0.26, C:0.17, G:0.04, T:0.53
Consensus pattern (22 bp):
TCATTTAGCTTCTAATTCAATT
Found at i:77655805 original size:26 final size:26
Alignment explanation
Indices: 77655774--77655826 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
77655764 AATAAATAAT
77655774 TCGGGGAAT-TAACACTTAGAAACCCC
1 TCGGGGAATCT-ACACTTAGAAACCCC
* *
77655800 TCGGGGAATCTGCACTTAGCAACCCC
1 TCGGGGAATCTACACTTAGAAACCCC
77655826 T
1 T
77655827 TTTTGATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (26 bp):
TCGGGGAATCTACACTTAGAAACCCC
Found at i:77658428 original size:10 final size:10
Alignment explanation
Indices: 77658413--77658445 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
77658403 TAGCATAAAG
77658413 AAGTGTTTTA
1 AAGTGTTTTA
77658423 AAGTGTTTT-
1 AAGTGTTTTA
77658432 -AGTGTTTTA
1 AAGTGTTTTA
77658441 AAGTG
1 AAGTG
77658446 GTTTGTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (10 bp):
AAGTGTTTTA
Found at i:77661431 original size:19 final size:19
Alignment explanation
Indices: 77661404--77661441 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
77661394 ATCAAAGCTT
*
77661404 GAAATGGTATCGATACTTA
1 GAAAGGGTATCGATACTTA
*
77661423 GAAAGGGTATTGATACTTA
1 GAAAGGGTATCGATACTTA
77661442 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (19 bp):
GAAAGGGTATCGATACTTA
Found at i:77661978 original size:35 final size:35
Alignment explanation
Indices: 77661939--77662011 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
77661929 AACAAACCAG
* *
77661939 ATGCTCGTAAGAGCCAATCCATCCGAAACACACTA
1 ATGCTCATAAGAGCCAATCCATCCAAAACACACTA
* *
77661974 ATGCTCATAAGAGCTAATCCCTCCAAAACACACTA
1 ATGCTCATAAGAGCCAATCCATCCAAAACACACTA
77662009 ATG
1 ATG
77662012 TTTACCGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.19
Consensus pattern (35 bp):
ATGCTCATAAGAGCCAATCCATCCAAAACACACTA
Found at i:77663108 original size:9 final size:9
Alignment explanation
Indices: 77663094--77663426 Score: 222
Period size: 9 Copynumber: 38.4 Consensus size: 9
77663084 CTTATATATA
77663094 AACTTACAT
1 AACTTACAT
*
77663103 AACTTAAAT
1 AACTTACAT
77663112 AACTTACAT
1 AACTTACAT
77663121 AA--TACAT
1 AACTTACAT
*
77663128 AACTTTCAT
1 AACTTACAT
77663137 AACTTACAT
1 AACTTACAT
* *
77663146 TA--TACAC
1 AACTTACAT
77663153 AACTTACAT
1 AACTTACAT
77663162 AACTTA-AT
1 AACTTACAT
* *
77663170 CAATATTATACAC
1 --A-ACT-TACAT
77663183 AACTTACAT
1 AACTTACAT
77663192 AA--TACAT
1 AACTTACAT
*
77663199 TACTTACAT
1 AACTTACAT
77663208 AACTTACAT
1 AACTTACAT
* *
77663217 TA--TACAC
1 AACTTACAT
77663224 AACTTACAT
1 AACTTACAT
77663233 AACTTA-ATT
1 AACTTACA-T
*
77663242 ACATTATACAT
1 A-ACT-TACAT
* *
77663253 GATTTACAT
1 AACTTACAT
77663262 AACTTACAT
1 AACTTACAT
77663271 AACTTACAT
1 AACTTACAT
*
77663280 AGCTTACAT
1 AACTTACAT
* *
77663289 -TC-TACAC
1 AACTTACAT
77663296 AACTTACAT
1 AACTTACAT
*
77663305 AACATACAT
1 AACTTACAT
*
77663314 AA--TACAC
1 AACTTACAT
77663321 AACTTACAT
1 AACTTACAT
*
77663330 AGCTTACAT
1 AACTTACAT
77663339 AA--TACAT
1 AACTTACAT
77663346 AACTTACAT
1 AACTTACAT
*
77663355 AACTTATAT
1 AACTTACAT
77663364 AA--TACAT
1 AACTTACAT
77663371 AACTTACAT
1 AACTTACAT
* *
77663380 AATTTACTT
1 AACTTACAT
77663389 AA--TACAT
1 AACTTACAT
* *
77663396 AA-ATATAT
1 AACTTACAT
* *
77663404 ATCATATCAT
1 AACTTA-CAT
77663414 AACTTACAT
1 AACTTACAT
77663423 AACT
1 AACT
77663427 CATTTATACT
Statistics
Matches: 254, Mismatches: 42, Indels: 56
0.72 0.12 0.16
Matches are distributed among these distances:
7 52 0.20
8 10 0.04
9 168 0.66
10 14 0.06
11 6 0.02
12 3 0.01
13 1 0.00
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:77663126 original size:25 final size:25
Alignment explanation
Indices: 77663098--77663424 Score: 125
Period size: 25 Copynumber: 13.0 Consensus size: 25
77663088 TATATAAACT
*
77663098 TACATAACTTAAATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
77663123 TACATAACTTTCATAACTTACATTA
1 TACATAACTTACATAACTTACATAA
*
77663148 TACACAACTTACATAACTTAATCAATATTA
1 TACATAACTTACATAACTT-A-C-ATA--A
* *
77663178 TACACAACTTACATAA--TACATTACT
1 TACATAACTTACATAACTTACA-TA-A
* *
77663203 TACATAACTTACATTA--TACACAA
1 TACATAACTTACATAACTTACATAA
*
77663226 CTTACATAAC-T---TAA-TTACATTA
1 --TACATAACTTACATAACTTACATAA
* *
77663248 TACATGATTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
77663273 CTTACATAGCTTACAT-TC-TACACAA
1 --TACATAACTTACATAACTTACATAA
* *
77663298 CTTACATAACATACATAA--TACACAA
1 --TACATAACTTACATAACTTACATAA
*
77663323 CTTACATAGCTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
*
77663348 CTTACATAACTTATATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
* *
77663373 CTTACATAATTTACTTAA--TACATAAA
1 --TACATAACTTACATAACTTACAT-AA
* * *
77663399 TATATATCATATCATAACTTACATAA
1 TACATAACTTA-CATAACTTACATAA
77663425 CTCATTTATA
Statistics
Matches: 242, Mismatches: 39, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
20 6 0.02
21 3 0.01
22 5 0.02
24 12 0.05
25 169 0.70
26 9 0.04
27 18 0.07
28 3 0.01
30 17 0.07
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:77663131 original size:16 final size:16
Alignment explanation
Indices: 77663094--77663382 Score: 115
Period size: 16 Copynumber: 17.8 Consensus size: 16
77663084 CTTATATATA
*
77663094 AACTTACATAACTTAAAT
1 AACTTACATAA--TACAT
77663112 AACTTACATAATACAT
1 AACTTACATAATACAT
*
77663128 AACTTTCATAACTTACAT
1 AACTTACATAA--TACAT
* *
77663146 TA--TACACAACTTACAT
1 AACTTACATAA--TACAT
*
77663162 AACTTAATCAATATTATACAC
1 AACTT-A-C-ATA--ATACAT
77663183 AACTTACATAATAC--
1 AACTTACATAATACAT
77663197 -A-TTAC-T--TACAT
1 AACTTACATAATACAT
* *
77663208 AACTTACATTATACAC
1 AACTTACATAATACAT
*
77663224 AACTTACAT-A-ACTT
1 AACTTACATAATACAT
*
77663238 AA-TTACATTATACAT
1 AACTTACATAATACAT
* *
77663253 GATTTACATAACTTACAT
1 AACTTACATAA--TACAT
*
77663271 AACTTACATAGCTTACAT
1 AACTTACATA--ATACAT
* *
77663289 -TC-TACACAACTTACAT
1 AACTTACATAA--TACAT
* *
77663305 AACATACATAATACAC
1 AACTTACATAATACAT
*
77663321 AACTTACATAGCTTACAT
1 AACTTACATA--ATACAT
77663339 AA--TACATAACTTACAT
1 AACTTACATAA--TACAT
*
77663355 AACTTATATAATACAT
1 AACTTACATAATACAT
77663371 AACTTACATAAT
1 AACTTACATAAT
77663383 TTACTTAATA
Statistics
Matches: 209, Mismatches: 29, Indels: 68
0.68 0.09 0.22
Matches are distributed among these distances:
9 3 0.01
11 1 0.00
12 5 0.02
13 11 0.05
14 6 0.03
15 5 0.02
16 103 0.49
17 2 0.01
18 57 0.27
19 2 0.01
20 2 0.01
21 11 0.05
23 1 0.00
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:77663161 original size:34 final size:34
Alignment explanation
Indices: 77663123--77663307 Score: 139
Period size: 34 Copynumber: 5.2 Consensus size: 34
77663113 ACTTACATAA
77663123 TACATAACTTTCATAACTTACATTATACACAACT
1 TACATAACTTTCATAACTTACATTATACACAACT
*
77663157 TACATAAC-TTAATCAA--T--ATTATACACAACT
1 TACATAACTTTCAT-AACTTACATTATACACAACT
77663187 TACATAATACATTACTTACATAACTTACATTATACACAACT
1 TACAT-A-AC--T--TT-CATAACTTACATTATACACAACT
* * * *
77663228 TACATAAC-TTAATTACATTATACATGATTTACATAACT
1 TACATAACTTTCA-TA-ACT-TACAT--TATACACAACT
* * *
77663266 TACATAACTTACATAGCTTACATTCTACACAACT
1 TACATAACTTTCATAACTTACATTATACACAACT
77663300 TACATAAC
1 TACATAAC
77663308 ATACATAATA
Statistics
Matches: 120, Mismatches: 12, Indels: 38
0.71 0.07 0.22
Matches are distributed among these distances:
30 18 0.15
31 1 0.01
32 3 0.03
33 5 0.04
34 31 0.26
35 2 0.02
36 10 0.08
37 5 0.04
38 21 0.17
39 5 0.04
40 1 0.01
41 18 0.15
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.35
Consensus pattern (34 bp):
TACATAACTTTCATAACTTACATTATACACAACT
Found at i:77663244 original size:29 final size:29
Alignment explanation
Indices: 77663211--77663267 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
77663201 CTTACATAAC
77663211 TTACATTATACACAACTTACATAACTTAA
1 TTACATTATACACAACTTACATAACTTAA
** *
77663240 TTACATTATACATGATTTACATAACTTA
1 TTACATTATACACAACTTACATAACTTA
77663268 CATAACTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.39
Consensus pattern (29 bp):
TTACATTATACACAACTTACATAACTTAA
Found at i:77668595 original size:41 final size:41
Alignment explanation
Indices: 77668492--77668611 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
77668482 TTCTTACCTT
* *
77668492 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCCAATGA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGA
* * ** * * *
77668533 TCAGGGCTCTAATGGCATTTTTGAAAATGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGA
* * *
77668574 TCGGGGTTTTAGCGGCGTTTTTTAAAAAGTGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
77668612 AAATATTTTA
Statistics
Matches: 61, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGA
Found at i:77668998 original size:14 final size:15
Alignment explanation
Indices: 77668963--77669009 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
77668953 TATTTTAAAG
*
77668963 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
77668978 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
77668993 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
77669006 TTTA
1 TTTA
77669010 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:77669030 original size:21 final size:20
Alignment explanation
Indices: 77668996--77669036 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
77668986 TTATGGATTA
*
77668996 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
77669016 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
77669037 AGGGGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:77669038 original size:7 final size:7
Alignment explanation
Indices: 77669028--77669083 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
77669018 GATTTAAGGT
77669028 TTAGGGG
1 TTAGGGG
77669035 TTAGGGG
1 TTAGGGG
77669042 TTAGGGG
1 TTAGGGG
77669049 TTTAGGGG
1 -TTAGGGG
**
77669057 TTAGACG
1 TTAGGGG
77669064 TTAGGGG
1 TTAGGGG
* *
77669071 TTAAGAG
1 TTAGGGG
77669078 TTAGGG
1 TTAGGG
77669084 ATTTAAGGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 33 0.82
8 7 0.17
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:77669051 original size:22 final size:22
Alignment explanation
Indices: 77669025--77669072 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
77669015 TGGGATTTAA
**
77669025 GGTTTAGGGGTTAGGGGTTAGG
1 GGTTTAGGGGTTAGACGTTAGG
77669047 GGTTTAGGGGTTAGACGTTAGG
1 GGTTTAGGGGTTAGACGTTAGG
77669069 GGTT
1 GGTT
77669073 AAGAGTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.50, T:0.33
Consensus pattern (22 bp):
GGTTTAGGGGTTAGACGTTAGG
Found at i:77669096 original size:15 final size:16
Alignment explanation
Indices: 77669078--77669108 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
77669068 GGGTTAAGAG
77669078 TTAGGGATTTA-AGGT
1 TTAGGGATTTAGAGGT
77669093 TTAGGGATTTAGAGGT
1 TTAGGGATTTAGAGGT
77669109 CGGGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (16 bp):
TTAGGGATTTAGAGGT
Found at i:77669520 original size:19 final size:18
Alignment explanation
Indices: 77669491--77669543 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
77669481 GGACCAAATT
*
77669491 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
77669509 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
77669528 ATAAAAAACTAAAATT
1 ATAAAAAA-TAAAATT
77669544 TATAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:77670315 original size:124 final size:124
Alignment explanation
Indices: 77669840--77670298 Score: 614
Period size: 124 Copynumber: 3.7 Consensus size: 124
77669830 TTTAATGGAT
* * * * * *** *
77669840 TTAGCGGCGCTAAGATAAAAACGCCTCTAAAGGTGAGCATTAGAGGCGCTACTTGGGAAATGCCA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
* * * * *
77669905 CAAAACTTCATTTTAATTTAAACAAAACTGTGTCATTTTGT-TTGTCGAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAG-CGAAATTAGCGGCA
*
77669964 TTAGCGGCGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
* * * *
77670029 CAAAGCTTCATTGTAGTTTATAGAAAACGGTGTCATTTTGTCTGGCGAAATTAGTGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
* * * * * * *
77670088 TTAGCGGCACTATGCTAAAAACGCCGCAAAAGGCGAGAATTAGAGGCTCTATTTTAGAAACTCCG
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
*
77670153 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCGTTTTGTCTAGCGAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
* * * * *
77670212 TTAGCGGCGCTAGGCTAAAAACGCCTCGAAATGTGAGAATTAGAGGCGCTATTTTAAAAACGCTA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
77670277 CAAAGCTTCATTGTAGTTTAAA
66 CAAAGCTTCATTGTAGTTTAAA
77670299 TAAGATGCTT
Statistics
Matches: 293, Mismatches: 41, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
124 291 0.99
125 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (124 bp):
TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCA
CAAAGCTTCATTGTAGTTTAAACAAAACGGTGTCATTTTGTCTAGCGAAATTAGCGGCA
Found at i:77671301 original size:37 final size:37
Alignment explanation
Indices: 77671253--77671333 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 37
77671243 ATATTTTTTA
77671253 TTTTTATTTTTTAATTTTAAAATACTTTTAAAATATTT
1 TTTTTATTTTTTAATTTTAAAATA-TTTTAAAATATTT
* **
77671291 TTTTTATTTTTTATTTTTAAAATATTTTTTAATATTT
1 TTTTTATTTTTTAATTTTAAAATATTTTAAAATATTT
*
77671328 ATTTTA
1 TTTTTA
77671334 AAAATGGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 16 0.41
38 23 0.59
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (37 bp):
TTTTTATTTTTTAATTTTAAAATATTTTAAAATATTT
Found at i:77671318 original size:25 final size:26
Alignment explanation
Indices: 77671278--77671338 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
77671268 TTTAAAATAC
* *
77671278 TTTTAAAATATTTTTTTTATTTTTTAT
1 TTTTAAAATA-TTTTTTTAATATTTAT
77671305 TTTTAAAATA-TTTTTTAATATTTAT
1 TTTTAAAATATTTTTTTAATATTTAT
*
77671330 TTTAAAAAT
1 TTTTAAAAT
77671339 GGGCCGGGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 21 0.68
27 10 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTAAAATATTTTTTTAATATTTAT
Found at i:77672960 original size:3 final size:3
Alignment explanation
Indices: 77672952--77672995 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
77672942 TTATACAATG
*
77672952 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATC ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
77672996 TGGTTAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:77673643 original size:16 final size:18
Alignment explanation
Indices: 77673610--77673648 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
77673600 ACAGAAAAAG
77673610 AAAGAAAAGCAATCGGAA
1 AAAGAAAAGCAATCGGAA
*
77673628 AAAGAACAG-AAT-GGAA
1 AAAGAAAAGCAATCGGAA
77673644 AAAGA
1 AAAGA
77673649 GGAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.64, C:0.08, G:0.23, T:0.05
Consensus pattern (18 bp):
AAAGAAAAGCAATCGGAA
Found at i:77674651 original size:19 final size:19
Alignment explanation
Indices: 77674627--77674671 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
77674617 ACATAACTTA
77674627 TTAATATTTATATACATTT
1 TTAATATTTATATACATTT
*
77674646 TTAATA--TATATATATTT
1 TTAATATTTATATACATTT
*
77674663 TTAAAATTT
1 TTAATATTT
77674672 TAATACATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 15 0.68
19 7 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAATATTTATATACATTT
Found at i:77674687 original size:9 final size:9
Alignment explanation
Indices: 77674675--77675126 Score: 244
Period size: 9 Copynumber: 52.0 Consensus size: 9
77674665 AAAATTTTAA
77674675 TACATAACT
1 TACATAACT
77674684 TACATAACT
1 TACATAACT
*
77674693 TATATAA--
1 TACATAACT
77674700 TACATAACT
1 TACATAACT
*
77674709 TACATAATT
1 TACATAACT
*
77674718 TACTTAA--
1 TACATAACT
*
77674725 TACATAA-A
1 TACATAACT
* * *
77674733 TATATATCA
1 TACATAACT
77674742 TATCATAACT
1 TA-CATAACT
77674752 TACATAAC-
1 TACATAACT
*
77674760 T-CA-AATT
1 TACATAACT
* *
77674767 TATCA-ATCA
1 TA-CATAACT
77674776 TATCATAACTT
1 TA-CATAAC-T
*
77674787 ATATATAAACT
1 -TACAT-AACT
77674798 TACATAACT
1 TACATAACT
*
77674807 TAAATAACT
1 TACATAACT
77674816 TACATAA--
1 TACATAACT
77674823 TACATAACT
1 TACATAACT
*
77674832 TTCATAACT
1 TACATAACT
*
77674841 TACATTA--
1 TACATAACT
*
77674848 TACACAACT
1 TACATAACT
77674857 TACATAACT
1 TACATAACT
*
77674866 TA-ATCAATATT
1 TACAT--A-ACT
*
77674877 ATACACAACT
1 -TACATAACT
77674887 TACATAA--
1 TACATAACT
*
77674894 TACATTACT
1 TACATAACT
77674903 TACATAACT
1 TACATAACT
*
77674912 TACATTA--
1 TACATAACT
*
77674919 TACACAACT
1 TACATAACT
77674928 TACATAACT
1 TACATAACT
*
77674937 TA-ATTACATT
1 TACA-TA-ACT
* *
77674947 ATACATGATT
1 -TACATAACT
77674957 TACATAACT
1 TACATAACT
77674966 TACATAACT
1 TACATAACT
*
77674975 TACATAGCT
1 TACATAACT
*
77674984 TACAT-TC-
1 TACATAACT
*
77674991 TACACAACT
1 TACATAACT
*
77675000 TACATAACA
1 TACATAACT
77675009 TACATAA--
1 TACATAACT
*
77675016 TACACAACT
1 TACATAACT
*
77675025 TACATAGCT
1 TACATAACT
77675034 TACATAA--
1 TACATAACT
77675041 TACATAACT
1 TACATAACT
77675050 TACATAACT
1 TACATAACT
*
77675059 TATATAA--
1 TACATAACT
77675066 TACATAACT
1 TACATAACT
*
77675075 TACATAATT
1 TACATAACT
*
77675084 TACTTAA--
1 TACATAACT
*
77675091 TACATAA-A
1 TACATAACT
* * *
77675099 TATATATCA
1 TACATAACT
77675108 TATCATAACT
1 TA-CATAACT
77675118 TACATAACT
1 TACATAACT
77675127 CATTTATACT
Statistics
Matches: 343, Mismatches: 60, Indels: 80
0.71 0.12 0.17
Matches are distributed among these distances:
6 2 0.01
7 67 0.20
8 16 0.05
9 214 0.62
10 26 0.08
11 9 0.03
12 8 0.02
13 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:77674700 original size:25 final size:25
Alignment explanation
Indices: 77674672--77674867 Score: 117
Period size: 25 Copynumber: 7.9 Consensus size: 25
77674662 TTTAAAATTT
77674672 TAATACATAACTTACATAACTTATA
1 TAATACATAACTTACATAACTTATA
*
77674697 TAATACATAACTTACATAATTTACT-
1 TAATACATAACTTACATAACTTA-TA
* * * *
77674722 TAATACATAA-ATATATATCATATCA
1 TAATACATAACTTACATAACTTAT-A
*
77674747 TAACTTACATAAC-T-CA-AATTTATCAA
1 TAA--TACATAACTTACATAACTTAT--A
*
77674773 TCATATCATAACTT--AT-A--TATA
1 TAATA-CATAACTTACATAACTTATA
* *
77674794 -AACTTACATAACTTAAATAACTTACA
1 TAA--TACATAACTTACATAACTTATA
* *
77674820 TAATACATAACTTTCATAACTTACA
1 TAATACATAACTTACATAACTTATA
* *
77674845 TTATACACAACTTACATAACTTA
1 TAATACATAACTTACATAACTTA
77674868 ATCAATATTA
Statistics
Matches: 134, Mismatches: 19, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
20 1 0.01
21 9 0.07
22 2 0.01
23 6 0.04
24 10 0.07
25 87 0.65
26 9 0.07
27 10 0.07
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.36
Consensus pattern (25 bp):
TAATACATAACTTACATAACTTATA
Found at i:77674705 original size:16 final size:16
Alignment explanation
Indices: 77674672--77675082 Score: 132
Period size: 16 Copynumber: 25.2 Consensus size: 16
77674662 TTTAAAATTT
77674672 TAATACATAACTTACA
1 TAATACATAACTTACA
*
77674688 TAACTTATATAA--TACA
1 TAA--TACATAACTTACA
* *
77674704 TAACTTACATAATTTACT
1 TAA--TACATAACTTACA
* *
77674722 TAATACATAAATATATA
1 TAATACATAACT-TACA
*
77674739 TCATATCATAACTTACA
1 TAATA-CATAACTTACA
*
77674756 TAACT-CA-AATTTATCAA
1 TAA-TACATAACTTA-C-A
*
77674773 TCATATCATAACTT--A
1 TAATA-CATAACTTACA
*
77674788 T-ATATA-AACTTACA
1 TAATACATAACTTACA
*
77674802 TAACTTAAATAACTTACA
1 TAA--TACATAACTTACA
*
77674820 TAATACATAACTTTCA
1 TAATACATAACTTACA
*
77674836 TAACTTACATTA--TACA
1 TAA--TACATAACTTACA
*
77674852 CAACTTACATAACTTAATCAA
1 TAA--TACATAACTT-A-C-A
*
77674873 TATTATACACAACTTACA
1 TA--ATACATAACTTACA
77674891 TAATAC---A-TTAC-
1 TAATACATAACTTACA
77674902 T--TACATAACTTACA
1 TAATACATAACTTACA
* *
77674916 TTATACACAACTTACA
1 TAATACATAACTTACA
*
77674932 T-A-ACTTAA-TTACA
1 TAATACATAACTTACA
* * *
77674945 TTATACATGATTTACA
1 TAATACATAACTTACA
77674961 TAACTTACATAACTTACA
1 TAA--TACATAACTTACA
* *
77674979 TAGCTTACAT-TC-TACA
1 TA--ATACATAACTTACA
* *
77674995 CAACTTACATAACATACA
1 TAA--TACATAACTTACA
*
77675013 TAATACACAACTTACA
1 TAATACATAACTTACA
*
77675029 TAGCTTACATAA--TACA
1 TA--ATACATAACTTACA
*
77675045 TAACTTACATAACTTATA
1 TAA--TACATAACTTACA
77675063 TAATACATAACTTACA
1 TAATACATAACTTACA
77675079 TAAT
1 TAAT
77675083 TTACTTAATA
Statistics
Matches: 300, Mismatches: 44, Indels: 102
0.67 0.10 0.23
Matches are distributed among these distances:
9 3 0.01
11 1 0.00
12 10 0.03
13 12 0.04
14 11 0.04
15 13 0.04
16 133 0.44
17 19 0.06
18 78 0.26
19 6 0.02
20 2 0.01
21 11 0.04
23 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (16 bp):
TAATACATAACTTACA
Done.