Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 253 of 444
Found at i:72166847 original size:25 final size:25
Alignment explanation
Indices: 72166805--72166852 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
72166795 ATATATAAAC
* * *
72166805 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
72166830 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
72166853 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:72170082 original size:29 final size:29
Alignment explanation
Indices: 72170050--72170152 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
72170040 ATGACGAGAT
* *
72170050 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
72170079 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
72170108 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
72170137 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
72170153 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:72178063 original size:29 final size:29
Alignment explanation
Indices: 72178031--72178133 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
72178021 ATGACGAGAT
* *
72178031 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
72178060 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
72178089 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
72178118 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
72178134 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:72180330 original size:17 final size:17
Alignment explanation
Indices: 72180308--72180341 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
72180298 CAGTATCTGC
72180308 TACCAACTCTGGTCCAA
1 TACCAACTCTGGTCCAA
72180325 TACCAACTCTGGTCCAA
1 TACCAACTCTGGTCCAA
72180342 GTATTTGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (17 bp):
TACCAACTCTGGTCCAA
Found at i:72184962 original size:31 final size:31
Alignment explanation
Indices: 72184924--72184987 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
72184914 CCTTTTCATA
* *
72184924 TTTCATATTTCATAACATTGGGCCGAAGCCT
1 TTTCATATGTCATAACACTGGGCCGAAGCCT
** *
72184955 TTTCATATGTCATATTACTGGGCCGAATCCT
1 TTTCATATGTCATAACACTGGGCCGAAGCCT
72184986 TT
1 TT
72184988 ATTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATGTCATAACACTGGGCCGAAGCCT
Found at i:72185245 original size:24 final size:24
Alignment explanation
Indices: 72185181--72185326 Score: 197
Period size: 25 Copynumber: 6.0 Consensus size: 24
72185171 GCTTTATCAT
*
72185181 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
72185206 ATAACTGGAGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
72185229 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
72185253 ATAACTAGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
72185278 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
72185303 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
72185327 CACTTCCTCC
Statistics
Matches: 111, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
23 17 0.15
24 39 0.35
25 55 0.50
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:72185289 original size:49 final size:48
Alignment explanation
Indices: 72185172--72185324 Score: 186
Period size: 48 Copynumber: 3.1 Consensus size: 48
72185162 ACTATAGCTG
*
72185172 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGAGCA-AAGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC-CTTTTAATAACTGG-GCATAAGCC
*
72185223 CTTT-TAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCC
*
72185271 CTTTATCATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTT-TAATAACT-GGGCATAAGCC
72185321 CTTT
1 CTTT
72185325 TACACTTCCT
Statistics
Matches: 92, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
47 19 0.21
48 23 0.25
49 23 0.25
50 23 0.25
51 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (48 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCC
Found at i:72185400 original size:20 final size:20
Alignment explanation
Indices: 72185375--72185441 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
72185365 TTATGAATAC
72185375 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
72185395 ATCATGTGCATGTCATACAT
1 ATCATGTGCATATCATACAT
*
72185415 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
72185435 ACCATGT
1 ATCATGT
72185442 TTATCACAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:72185520 original size:25 final size:25
Alignment explanation
Indices: 72185478--72185525 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
72185468 ATATATAAAC
* * *
72185478 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGAAAAACGGTCATTTTTA
72185503 CCTAGGGGAAAAACGGTCATTTT
1 CCTAGGGGAAAAACGGTCATTTT
72185526 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGAAAAACGGTCATTTTTA
Found at i:72191787 original size:68 final size:68
Alignment explanation
Indices: 72191640--72191795 Score: 165
Period size: 68 Copynumber: 2.2 Consensus size: 68
72191630 AGCCAATTTG
* * * **
72191640 TCTCGTAGCTCTCTTGTCTACATGGTGTTCTTCACTTGGAATCACGCATGTGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACGCATGTGACCTAGCTACACA
*
72191705 TATC
65 TATA
*
72191709 TCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACGCATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACGCATGTGACCTAGCTAC-
72191771 ACATAGTA
62 ACATA-TA
*
72191779 TCTCGTAGCTTTCTTGT
1 TCTCGTAGCTCTCTTGT
72191796 ACACATGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
68 36 0.49
69 6 0.08
70 6 0.08
71 26 0.35
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACGCATGTGACCTAGCTACACAT
ATA
Found at i:72206335 original size:30 final size:30
Alignment explanation
Indices: 72206301--72206361 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
72206291 TCCTTAACTC
72206301 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
72206331 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
72206361 A
1 A
72206362 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:72212042 original size:12 final size:12
Alignment explanation
Indices: 72212025--72212049 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72212015 CCTAAACACA
72212025 AAAAAAAAAACT
1 AAAAAAAAAACT
72212037 AAAAAAAAAACT
1 AAAAAAAAAACT
72212049 A
1 A
72212050 GCCACCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAAAAAAACT
Found at i:72212390 original size:12 final size:11
Alignment explanation
Indices: 72212366--72212395 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
72212356 CATTTTGTTC
72212366 TTTAGTTTCTTT
1 TTTA-TTTCTTT
72212378 TTTATTTCTTT
1 TTTATTTCTTT
72212389 TTTATTT
1 TTTATTT
72212396 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:72213338 original size:2 final size:2
Alignment explanation
Indices: 72213331--72213364 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
72213321 TTATCTCTTT
72213331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72213365 TAGGTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:72213466 original size:2 final size:2
Alignment explanation
Indices: 72213459--72213501 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
72213449 TTATGTATTT
72213459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72213501 T
1 T
72213502 TTGATGCATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:72216308 original size:19 final size:21
Alignment explanation
Indices: 72216263--72216301 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
72216253 TTTCTCTTAA
72216263 ATTTTTATTATTATTTTATAT
1 ATTTTTATTATTATTTTATAT
72216284 ATTTTTA-TA-TATTTTATA
1 ATTTTTATTATTATTTTATA
72216302 GTTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTATTATTATTTTATAT
Found at i:72219556 original size:40 final size:40
Alignment explanation
Indices: 72219397--72219562 Score: 201
Period size: 40 Copynumber: 4.2 Consensus size: 40
72219387 ATTGAATCAA
* * *
72219397 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTT-T
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTG-GTTAT
* *
72219437 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTAT
* * * *
72219477 ATCCGGGCTAATACCCGAAGGCTTTTGTGCGAGTCGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTAT
* *
72219517 ATCCGGGCTAAGACCCGAAGGCATTCATGCGTGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTAT
72219557 ATCCGG
1 ATCCGG
72219563 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 5 0.05
40 104 0.95
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTTAT
Found at i:72225366 original size:28 final size:28
Alignment explanation
Indices: 72225301--72225401 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
72225291 ATAGTGAATC
*
72225301 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
72225330 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
72225358 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
72225388 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72225402 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:72233321 original size:28 final size:28
Alignment explanation
Indices: 72233256--72233356 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
72233246 ATAGTGAATC
*
72233256 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
72233285 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
72233313 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
72233343 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72233357 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:72241275 original size:28 final size:28
Alignment explanation
Indices: 72241210--72241310 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
72241200 ATAGTGAATC
*
72241210 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
72241239 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
72241267 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
72241297 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72241311 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:72246602 original size:80 final size:79
Alignment explanation
Indices: 72246469--72246619 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 79
72246459 CAATTGAATG
* *
72246469 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
72246534 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTTGTT
* *
72246549 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
72246613 ATTCGTG
64 ATTCGTG
72246620 TGTGTGGTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
79 2 0.03
80 62 0.95
81 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTTGTT
Found at i:72246614 original size:40 final size:39
Alignment explanation
Indices: 72246469--72246636 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 39
72246459 CAATTGAATG
* *
72246469 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTG--TT
*
72246510 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG-TGTT
* *
72246549 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
* *
72246589 ATATCCGGGCTAAGACCCGAAGGCATTCGTGTGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
72246629 ATATCCGG
1 ATATCCGG
72246637 TTGTATTCCG
Statistics
Matches: 113, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
39 6 0.05
40 105 0.93
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGTT
Found at i:72246630 original size:80 final size:79
Alignment explanation
Indices: 72246469--72246636 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
72246459 CAATTGAATG
* *
72246469 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
72246534 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
72246549 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
***
72246613 ATTCGTGTGTGTGGTT
64 ATTCGTGCAAGTGGTT
72246629 ATATCCGG
1 ATATCCGG
72246637 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:72248725 original size:21 final size:21
Alignment explanation
Indices: 72248686--72248753 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
72248676 GTTGTATAGA
*
72248686 GTTTA-TGGTTTTAGTGTTTAG
1 GTTTAGTGG-TTTAGAGTTTAG
72248707 GATTTAG-GGTTTAGAGTTTAG
1 G-TTTAGTGGTTTAGAGTTTAG
* *
72248728 GGTTAGTGG-TTGGAGTTTAGG
1 GTTTAGTGGTTTAGAGTTTA-G
72248749 GTTTA
1 GTTTA
72248754 AGGTGTAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 13 0.33
21 20 0.51
22 6 0.15
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (21 bp):
GTTTAGTGGTTTAGAGTTTAG
Found at i:72248752 original size:7 final size:7
Alignment explanation
Indices: 72248695--72248753 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
72248685 AGTTTATGGT
*
72248695 TTTAGTG
1 TTTAGGG
*
72248702 TTTAGGA
1 TTTAGGG
72248709 TTTAGGG
1 TTTAGGG
*
72248716 TTTAGAG
1 TTTAGGG
72248723 TTTAGGG
1 TTTAGGG
72248730 -TTAGTGG
1 TTTAG-GG
72248737 -TT-GGAG
1 TTTAGG-G
72248743 TTTAGGG
1 TTTAGGG
72248750 TTTA
1 TTTA
72248754 AGGTGTAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 1 0.02
6 6 0.14
7 34 0.79
8 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:72248766 original size:34 final size:34
Alignment explanation
Indices: 72248696--72248766 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
72248686 GTTTATGGTT
* * *
72248696 TTAGTGTTTAGGATTTAGGGTTTAGAGTTTAGGG
1 TTAGTGGTTAGGATTTAGGGTTTAGAGTGTAAGG
72248730 TTAGTGGTT-GGAGTTTAGGGTTTA-AGGTGTAAGG
1 TTAGTGGTTAGGA-TTTAGGGTTTAGA-GTGTAAGG
72248764 TTA
1 TTA
72248767 ATGATTCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (34 bp):
TTAGTGGTTAGGATTTAGGGTTTAGAGTGTAAGG
Found at i:72250227 original size:2 final size:2
Alignment explanation
Indices: 72250222--72250246 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
72250212 TGCATATATA
72250222 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
72250247 TTAAATAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:72252973 original size:49 final size:48
Alignment explanation
Indices: 72252914--72253227 Score: 217
Period size: 49 Copynumber: 6.6 Consensus size: 48
72252904 ACATCTAAGT
* *
72252914 CGATGTCATGTCCCAGTCAGGTCTTACACTGACTTTCATATATTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATTGAGGC
* * *
72252963 CGATGCCATGTCCCA-AGCAGGTCTTACACTGGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAGA-CAGGTCTTACACTGACT-TCATATATTGAG-GC
* * * * *
72253012 CAATGCCATGTCCTAGATAGGTCTTACACTGAC-ACATGTCA---A-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATAT-ATTGAGGC
* * *
72253056 CGATTCCATGTCCCAGACAGGTCTTACACT-AGCTTGCATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-CATATATTGAGGC
* * * * *
72253105 TGATG-CATGTCCCAGACATGTCTTACACT-AGC-TC-TAGTCTTAATGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCATA-TATTGAGGC
* * * *
72253151 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-A-TGTGGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGACT-TCATATATTGAGGC
*
72253199 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
72253228 AGCATACATC
Statistics
Matches: 210, Mismatches: 35, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 2 0.01
46 25 0.12
47 29 0.14
48 48 0.23
49 71 0.34
50 3 0.01
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATTGAGGC
Found at i:72253078 original size:93 final size:93
Alignment explanation
Indices: 72252961--72253231 Score: 270
Period size: 93 Copynumber: 2.9 Consensus size: 93
72252951 ATATATTGAG
*
72252961 GCCGATGCCATGTCCCAAGCAGGTCTTACACTGGCTCTCATCTATCG-GTGCCAATGCCATGTCC
1 GCCGATGCCATGTCCCAA-CAGGTCTTACACTGGCTCTCATATATCGAG-GCCAATG-CATGTCC
* *
72253025 TAGATAGGTCTTACACT-GACAC-ATGTC-AA-
63 CAGACAGGTCTTACACTAG-CACTA-GTCTAAT
* * * **
72253054 GCCGATTCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAGGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCA-ACAGGTCTTACACTGGCTCT-CATATATCGAGGCCAATGCATGTCCC
* *
72253118 AGACATGTCTTACACTAGCTCTAGTCTTAAT
64 AGACAGGTCTTACACTAGCACTAGTC-TAAT
* * *
72253149 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-AT-GTGGTCGATGCATGTCCC
1 GCCGATGCCATGTCCC-AACA-GGTCTTACACTGGCTCTCATATATCGAGGCCAATGCATGTCCC
*
72253212 AGACATGTCTTACACTAGCA
64 AGACAGGTCTTACACTAGCA
72253232 TACATCCATA
Statistics
Matches: 150, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
92 27 0.18
93 46 0.31
94 38 0.25
95 19 0.13
96 19 0.13
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAACAGGTCTTACACTGGCTCTCATATATCGAGGCCAATGCATGTCCCAG
ACAGGTCTTACACTAGCACTAGTCTAAT
Found at i:72253208 original size:142 final size:144
Alignment explanation
Indices: 72252862--72253230 Score: 378
Period size: 142 Copynumber: 2.6 Consensus size: 144
72252852 ATAGGGTACG
* * * *
72252862 ATGCCGATGCCATGTTCCAAACATGGTCTTACGCTGGCTAACACATCTAAGTCGATGTCATGTCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCT-AGTCGATG-CATGTCC
* * *
72252927 CAGTCAGGTCTTACACT-GACTTTCATATATTGAGGCCGATGCCATGTCCCAAGCAGGTCTTACA
64 CAGACAGGTCTTACACTAG-CTTGCATATATCGAGGCCGATGCCATGTCCCAAGCAGGTCTTACA
* *
72252991 CTGGCTCTCATCTATCG
128 CTAGCTCTCATCTATCA
* * * * * * * * * *
72253008 GTGCCAATGCCATGTCCTAGATA-GGTCTTACACT-G-ACACATGTCAAGCCGATTCCATGTCCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCTAGTCGA-TGCATGTCCC
* * *
72253070 AGACAGGTCTTACACTAGCTTGCATATCTCGAGGCTGATG-CATGTCCC-AGACATGTCTTACAC
65 AGACAGGTCTTACACTAGCTTGCATATATCGAGGCCGATGCCATGTCCCAAG-CAGGTCTTACAC
72253133 TAGCTCT-AGTCT-T-A
129 TAGCTCTCA-TCTATCA
* * *
72253147 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-ATCTAGTCGATGCATGTCCC
*
72253212 AGACATGTCTTACACTAGC
65 AGACAGGTCTTACACTAGC
72253231 ATACATCCAT
Statistics
Matches: 179, Mismatches: 36, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
139 18 0.10
140 15 0.08
141 29 0.16
142 77 0.43
143 12 0.07
144 1 0.01
145 10 0.06
146 17 0.09
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (144 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCTAGTCGATGCATGTCCCA
GACAGGTCTTACACTAGCTTGCATATATCGAGGCCGATGCCATGTCCCAAGCAGGTCTTACACTA
GCTCTCATCTATCA
Found at i:72255690 original size:24 final size:23
Alignment explanation
Indices: 72255592--72255697 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 23
72255582 AAAGGCTGTC
72255592 AGGAGAAGATTTAGGAGCTGATA
1 AGGAGAAGATTTAGGAGCTGATA
*
72255615 AGAGAGACGATTTAGGAGCTGATA
1 AG-GAGAAGATTTAGGAGCTGATA
72255639 AGGGAGAAGATTTAGGAGCTGATAA
1 A-GGAGAAGATTTAGGAGCTGAT-A
*
72255664 AGGAGAATATTTAGGAGCTGATCA
1 AGGAGAAGATTTAGGAGCTGAT-A
72255688 AGGAGCAAGA
1 AGGAG-AAGA
72255698 GTTGGCCAGC
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
23 2 0.03
24 66 0.89
25 6 0.08
ACGTcount: A:0.40, C:0.07, G:0.34, T:0.20
Consensus pattern (23 bp):
AGGAGAAGATTTAGGAGCTGATA
Found at i:72257089 original size:27 final size:26
Alignment explanation
Indices: 72257049--72257126 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
72257039 AGGAAGCGTC
72257049 CTGGTGGCTA-TGCCATAATTATCTGAT
1 CTGGTGGC-ACTGCCAT-ATTATCTGAT
*
72257076 CTGGTGGCACTGCCACGTA-TATCTGTT
1 CTGGTGGCACTGCCA--TATTATCTGAT
* *
72257103 CTGGTGGCTCTGCCACATTATCTG
1 CTGGTGGCACTGCCATATTATCTG
72257127 TTATGGCAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 1 0.02
26 7 0.16
27 34 0.77
28 1 0.02
29 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCACTGCCATATTATCTGAT
Found at i:72263413 original size:24 final size:24
Alignment explanation
Indices: 72263381--72263472 Score: 132
Period size: 24 Copynumber: 3.8 Consensus size: 24
72263371 AGGCTGTCAG
*
72263381 GAGAAGATTTAGAAGCTGATAAGA
1 GAGAAGATTTAGGAGCTGATAAGA
* *
72263405 GAGACGATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGA
*
72263429 GAGAGGATTTAGGAGCTGATAA-A
1 GAGAAGATTTAGGAGCTGATAAGA
72263452 TGAGAAGATTTAGGAGCTGAT
1 -GAGAAGATTTAGGAGCTGAT
72263473 CAAAGAGCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.38, C:0.05, G:0.34, T:0.23
Consensus pattern (24 bp):
GAGAAGATTTAGGAGCTGATAAGA
Found at i:72270957 original size:48 final size:48
Alignment explanation
Indices: 72270620--72270983 Score: 228
Period size: 49 Copynumber: 7.7 Consensus size: 48
72270610 AGGGTACGAT
** * * * *
72270620 GCCGATGCCATGGACCAAACATGGTCTTACACTGGCTCACA-CATCTAA
1 GCCGATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCATAATCGAG
* * * *
72270668 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATA-ATCGAG
* * * * *
72270717 GCTGATGCCATGTCCCAGACAGGTCTTACTCTGGCTCTTATCTATCG-G
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCAT-AATCGAG
* ** * * *
72270765 TGTCGATGCCATGTCCCAAACAGGTCTTACACT--AACACAT-GTC-AA
1 -GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATAATCGAG
* * * *
72270810 GCCAATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAG
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCT-CATA-ATCGAG
** * * * * * * ** *
72270859 GCTAAT-CAATGTCCCAAACATGTCTTCCACTAGCTCTCGT-CTTAAT
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATAATCGAG
*
72270905 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCATAATCGAG
* * *
72270953 GCCGATG-CATGTCCTAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAAACAGGTCTTACACT
72270984 AGCACACATC
Statistics
Matches: 243, Mismatches: 58, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
44 29 0.12
45 2 0.01
46 20 0.08
47 43 0.18
48 70 0.29
49 79 0.33
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATAATCGAG
Found at i:72270964 original size:142 final size:145
Alignment explanation
Indices: 72270618--72270986 Score: 403
Period size: 142 Copynumber: 2.6 Consensus size: 145
72270608 ATAGGGTACG
** * *
72270618 ATGCCGATGCCATGGACCAAACATGGTCTTACACTGGCTCACACATCTAAGTCGATGCCATGTCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCT-AGCCGATGCCATGTCC
* * * * *
72270683 CAGACAGGTCTTACACT-GACTTTCATATATCGAGGCTGATGCCATGTCCCAGACAGGTCTTACT
65 CAGACAGGTCTTACACTAG-CTTGCATATATCGAGGCTAATGCAATGTCCCAAACAGGTCTTACA
* * *
72270747 CTGGCTCTTATCTATCG
129 CTAGCTCTCATCTATCA
* * ** * * *
72270764 GTGTCGATGCCATGTCCCAAACA-GGTCTTACACT--AACACATGTCAAGCCAATGCCATGTCCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCTAGCCGATGCCATGTCCC
* * *
72270826 AGACAGGTCTTACACTAGCTTGCATATCTCGAGGCTAAT-CAATGTCCCAAACATGTCTTCCACT
66 AGACAGGTCTTACACTAGCTTGCATATATCGAGGCTAATGCAATGTCCCAAACAGGTCTTACACT
*
72270890 AGCTCTCGTCT-T-A
131 AGCTCTCATCTATCA
* * *
72270903 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG-CATGTCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-ATCTAGCCGATGCCATGTCC
* *
72270967 TAGACATGTCTTACACTAGC
65 CAGACAGGTCTTACACTAGC
72270987 ACACATCCAT
Statistics
Matches: 183, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
139 21 0.11
140 12 0.07
141 28 0.15
142 78 0.43
143 14 0.08
145 11 0.06
146 19 0.10
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (145 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCTAGCCGATGCCATGTCCC
AGACAGGTCTTACACTAGCTTGCATATATCGAGGCTAATGCAATGTCCCAAACAGGTCTTACACT
AGCTCTCATCTATCA
Found at i:72272684 original size:6 final size:6
Alignment explanation
Indices: 72272673--72272707 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
72272663 CATAGTAAAA
72272673 TATATT TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATATT TATAT
72272708 AAATATCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:72272713 original size:18 final size:18
Alignment explanation
Indices: 72272674--72272713 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
72272664 ATAGTAAAAT
**
72272674 ATATTTATATTTATATTT
1 ATATTTATATTTATATAA
72272692 ATATTTATATTTATATAA
1 ATATTTATATTTATATAA
72272710 ATAT
1 ATAT
72272714 CATAATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTATATTTATATAA
Found at i:72273275 original size:9 final size:9
Alignment explanation
Indices: 72273261--72273410 Score: 192
Period size: 9 Copynumber: 16.0 Consensus size: 9
72273251 AAAATCTAAC
72273261 CATAACTTA
1 CATAACTTA
72273270 CATAACTTA
1 CATAACTTA
* *
72273279 TATAACATA
1 CATAACTTA
72273288 CATAACTTA
1 CATAACTTA
*
72273297 CATAGCTTA
1 CATAACTTA
72273306 CATAACTTA
1 CATAACTTA
72273315 CATAACTTA
1 CATAACTTA
*
72273324 TATAACTTA
1 CATAACTTA
72273333 CATAACATTTA
1 CATAAC--TTA
72273344 CATAACTTA
1 CATAACTTA
*
72273353 CATAGCTTA
1 CATAACTTA
72273362 CATAACTTA
1 CATAACTTA
*
72273371 CATAAATATATA
1 CAT-AA-CT-TA
72273383 TCATAACTTA
1 -CATAACTTA
72273393 CATAACTTA
1 CATAACTTA
72273402 CATAACTTA
1 CATAACTTA
72273411 AGTAATACAT
Statistics
Matches: 123, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
9 101 0.82
10 4 0.03
11 11 0.09
12 4 0.03
13 3 0.02
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:72284639 original size:9 final size:8
Alignment explanation
Indices: 72284593--72284636 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
72284583 TTTTAAAAAT
72284593 AAATTTTA
1 AAATTTTA
*
72284601 AATTTTTTA
1 AA-ATTTTA
*
72284610 AGATTTTA
1 AAATTTTA
*
72284618 AGATTTTA
1 AAATTTTA
72284626 AAATTTTA
1 AAATTTTA
72284634 AAA
1 AAA
72284637 ATTAATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 25 0.81
9 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (8 bp):
AAATTTTA
Found at i:72286374 original size:13 final size:12
Alignment explanation
Indices: 72286335--72286375 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
72286325 ACCCACATTT
72286335 AATTAAAAAATA
1 AATTAAAAAATA
72286347 TAATTACAAAAATA
1 -AATTA-AAAAATA
72286361 AATTAAAACAATA
1 AATTAAAA-AATA
72286374 AA
1 AA
72286376 AAATTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.12
13 16 0.62
14 7 0.27
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (12 bp):
AATTAAAAAATA
Found at i:72286754 original size:17 final size:17
Alignment explanation
Indices: 72286732--72286765 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
72286722 TGACTATGTG
*
72286732 TATTTAATTATTTTTAT
1 TATTTAATAATTTTTAT
72286749 TATTTAATAATTTTTAT
1 TATTTAATAATTTTTAT
72286766 ATAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTAATAATTTTTAT
Found at i:72290889 original size:21 final size:21
Alignment explanation
Indices: 72290863--72290905 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
72290853 AAGATGCAGG
72290863 GGACACACGGCCAATCCACAT
1 GGACACACGGCCAATCCACAT
72290884 GGACACACGGCCAATCCACAT
1 GGACACACGGCCAATCCACAT
72290905 G
1 G
72290906 CCCATGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.37, G:0.21, T:0.09
Consensus pattern (21 bp):
GGACACACGGCCAATCCACAT
Found at i:72292304 original size:34 final size:34
Alignment explanation
Indices: 72292266--72292333 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
72292256 ATCACATATA
* *
72292266 TCCATCAAAATTCATCATTCAAACAGAGCTTAAC
1 TCCATCAAAATTCACCATTCAAACAGAACTTAAC
** *
72292300 TCCATTGAAATTCACCATTCAAATAGAACTTAAC
1 TCCATCAAAATTCACCATTCAAACAGAACTTAAC
72292334 ATTTTCGGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (34 bp):
TCCATCAAAATTCACCATTCAAACAGAACTTAAC
Found at i:72297194 original size:13 final size:13
Alignment explanation
Indices: 72297172--72297205 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
72297162 TTGTTTTTAG
72297172 TTTAATTTTTCTT
1 TTTAATTTTTCTT
72297185 TTCTAATTTTTCTT
1 TT-TAATTTTTCTT
72297199 TTTAATT
1 TTTAATT
72297206 GCTTCTGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTAATTTTTCTT
Found at i:72308124 original size:28 final size:28
Alignment explanation
Indices: 72308059--72308157 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
72308049 TCATGAATTG
* * *
72308059 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
72308088 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
72308116 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
72308144 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
72308158 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:72310750 original size:40 final size:40
Alignment explanation
Indices: 72310623--72310752 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
72310613 ATGCTGGAAA
* *
72310623 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
72310663 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
72310703 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
72310743 TTATATCCGG
1 TTATATCCGG
72310753 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:72316545 original size:170 final size:170
Alignment explanation
Indices: 72316263--72316602 Score: 671
Period size: 170 Copynumber: 2.0 Consensus size: 170
72316253 ATAAAGGTGA
72316263 ATTCCACAAGAAAGGACTTAGTAGTGAACTTTGAAAGTACGATAGGGAAATGTGTGATGACTAAT
1 ATTCCACAAGAAAGGACTTAGTAGTGAACTTTGAAAGTACGATAGGGAAATGTGTGATGACTAAT
*
72316328 TAAAGCATGCATGCAAAATAATGGACTTGCATGTCAAATTCCCCTTTTTACAAGTGATGGCCGGC
66 TAAAGCATGCATGCAAAATAATGGACTTGCATGGCAAATTCCCCTTTTTACAAGTGATGGCCGGC
72316393 CATGACAAAGAGATATGGGCTAAACATGTCATGAAACATG
131 CATGACAAAGAGATATGGGCTAAACATGTCATGAAACATG
72316433 ATTCCACAAGAAAGGACTTAGTAGTGAACTTTGAAAGTACGATAGGGAAATGTGTGATGACTAAT
1 ATTCCACAAGAAAGGACTTAGTAGTGAACTTTGAAAGTACGATAGGGAAATGTGTGATGACTAAT
72316498 TAAAGCATGCATGCAAAATAATGGACTTGCATGGCAAATTCCCCTTTTTACAAGTGATGGCCGGC
66 TAAAGCATGCATGCAAAATAATGGACTTGCATGGCAAATTCCCCTTTTTACAAGTGATGGCCGGC
72316563 CATGACAAAGAGATATGGGCTAAACATGTCATGAAACATG
131 CATGACAAAGAGATATGGGCTAAACATGTCATGAAACATG
72316603 TTTTGTTGGG
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 169 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (170 bp):
ATTCCACAAGAAAGGACTTAGTAGTGAACTTTGAAAGTACGATAGGGAAATGTGTGATGACTAAT
TAAAGCATGCATGCAAAATAATGGACTTGCATGGCAAATTCCCCTTTTTACAAGTGATGGCCGGC
CATGACAAAGAGATATGGGCTAAACATGTCATGAAACATG
Found at i:72318150 original size:40 final size:40
Alignment explanation
Indices: 72318023--72318152 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
72318013 ATGCTGGAAA
* *
72318023 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
72318063 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
72318103 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
72318143 TTATATCCGG
1 TTATATCCGG
72318153 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:72324041 original size:28 final size:28
Alignment explanation
Indices: 72323976--72324074 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
72323966 TCATGAATTG
* * *
72323976 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
72324005 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
72324033 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
72324061 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
72324075 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:72331772 original size:28 final size:28
Alignment explanation
Indices: 72331707--72331805 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
72331697 TCATGAATTG
* * *
72331707 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
72331736 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
72331764 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
72331792 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
72331806 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:72336708 original size:25 final size:25
Alignment explanation
Indices: 72336676--72336762 Score: 111
Period size: 25 Copynumber: 3.5 Consensus size: 25
72336666 TATTCTGATT
* *
72336676 ATGGCTTTGTGTCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* *
72336701 AAGGCTTTATGCCGATATGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
72336726 ATCGTTTTGTGCCGGTATGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
72336751 ATGGCTTTGTGC
1 ATGGCTTTGTGC
72336763 TGCCACTGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.16, C:0.13, G:0.28, T:0.44
Consensus pattern (25 bp):
ATGGCTTTGTGCCGATATGTTATTG
Found at i:72336809 original size:20 final size:20
Alignment explanation
Indices: 72336746--72336883 Score: 123
Period size: 20 Copynumber: 6.9 Consensus size: 20
72336736 GCCGGTATGT
*
72336746 TATTGATGGCTTTGTGCTGC
1 TATTGATGGCTTTGTGCCGC
* * *
72336766 CACTGAAGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCGC
**
72336786 TATTGATGGCTTTGTGCCTT
1 TATTGATGGCTTTGTGCCGC
* *
72336806 TATTAATGGCTTTGTGCCGA
1 TATTGATGGCTTTGTGCCGC
* * * *
72336826 TATTGACGGCTTTATACTGC
1 TATTGATGGCTTTGTGCCGC
* * *
72336846 TATTGATGGCTTCGTACAGC
1 TATTGATGGCTTTGTGCCGC
* *
72336866 TATTCATGGCTGTGTGCC
1 TATTGATGGCTTTGTGCC
72336884 ATATACTTAT
Statistics
Matches: 91, Mismatches: 27, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 91 1.00
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.39
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCGC
Found at i:72336837 original size:60 final size:60
Alignment explanation
Indices: 72336745--72336857 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
72336735 TGCCGGTATG
* * * * *
72336745 TTATTGATGGCTTTGTGCTGCCACTGAAGGCTTTGTGCCGCTATTGATGGCTTTGTGCCT
1 TTATTAATGGCTTTGTGCCGACACTGAAGGCTTTATACCGCTATTGATGGCTTTGTGCCT
* * * *
72336805 TTATTAATGGCTTTGTGCCGATATTGACGGCTTTATACTGCTATTGATGGCTT
1 TTATTAATGGCTTTGTGCCGACACTGAAGGCTTTATACCGCTATTGATGGCTT
72336858 CGTACAGCTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.42
Consensus pattern (60 bp):
TTATTAATGGCTTTGTGCCGACACTGAAGGCTTTATACCGCTATTGATGGCTTTGTGCCT
Found at i:72336921 original size:26 final size:25
Alignment explanation
Indices: 72336890--72336966 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 25
72336880 TGCCATATAC
* *
72336890 TTATACTGGCAGCTTTGCTGCGTTA
1 TTATACTGGCAGCTATGCTGCGATA
* *
72336915 TTGATACTGGCAGCTCTGTTGCGATA
1 TT-ATACTGGCAGCTATGCTGCGATA
72336941 TTATTACTGGCAGCTATGCTGCGATA
1 TTA-TACTGGCAGCTATGCTGCGATA
72336967 CTGGTATGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.07
26 42 0.93
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (25 bp):
TTATACTGGCAGCTATGCTGCGATA
Found at i:72338957 original size:21 final size:20
Alignment explanation
Indices: 72338931--72338970 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
72338921 GTTATAATGA
72338931 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGTGTG-TGCCCTT
72338952 CCACACGGGTGTGTGCCCT
1 CCACACGGGTGTGTGCCCT
72338971 GTTTCAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (20 bp):
CCACACGGGTGTGTGCCCTT
Found at i:72341506 original size:79 final size:80
Alignment explanation
Indices: 72341371--72341552 Score: 248
Period size: 79 Copynumber: 2.3 Consensus size: 80
72341361 TCGAATGATG
*
72341371 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
72341436 TGCGAGTTACTA-AA
66 TGCGAGTTACTATAA
* * **
72341450 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCAT
72341512 TTGTGCGAGTTACTATAA
63 TTGTGCGAGTTACTATAA
*
72341530 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
72341553 TGAACGAGTA
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
78 16 0.17
79 63 0.68
80 13 0.14
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:72341561 original size:40 final size:40
Alignment explanation
Indices: 72341371--72341554 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
72341361 TCGAATGATG
* *
72341371 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
72341410 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
72341450 TTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72341489 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
72341530 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72341555 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 7, Indels: 15
0.86 0.05 0.10
Matches are distributed among these distances:
38 10 0.08
39 51 0.39
40 57 0.44
41 12 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:72341568 original size:40 final size:38
Alignment explanation
Indices: 72341372--72341554 Score: 169
Period size: 39 Copynumber: 4.7 Consensus size: 38
72341362 CGAATGATGT
* * * *
72341372 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATT-TGC-GAGTTACTATAA
*
72341411 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCA-TT-TGCGAGTTACTATAA
72341450 TTCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTA-AA
1 --CCGGGCTAAGTCCCGAAGGCATT-TGCGAGTTACTATAA
*
72341489 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCA-TT-TGCGAGTTACTATAA
*
72341530 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
72341555 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
38 12 0.09
39 54 0.43
40 50 0.39
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGAGTTACTATAA
Found at i:72341576 original size:79 final size:78
Alignment explanation
Indices: 72341371--72341587 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 78
72341361 TCGAATGATG
* * * **
72341371 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATT
72341434 TGTGCGAGTTACTAAA
63 TGTGCGAGTTACTAAA
*
72341450 TTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTG
72341515 TGCGAGTTACTATAA
65 TGCGAGTTACTA-AA
* * *
72341530 -CCGGGCTATGTCCCGAAGGCATT-TGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTGTG--CGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
72341588 TACGTGATTC
Statistics
Matches: 120, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 18 0.15
79 78 0.65
80 24 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:72349641 original size:40 final size:39
Alignment explanation
Indices: 72349564--72349746 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 39
72349554 TCGAATGATG
* *
72349564 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
72349603 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
72349643 TCCGGGCTAAGCCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
72349681 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
72349722 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
72349747 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
38 26 0.20
39 28 0.22
40 65 0.51
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:72349707 original size:78 final size:79
Alignment explanation
Indices: 72349564--72349744 Score: 242
Period size: 78 Copynumber: 2.3 Consensus size: 79
72349554 TCGAATGATG
* *
72349564 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
72349629 TGCGAGTTACTA-A
66 TGCGAGTTACTATA
* * **
72349642 TTCCGGGCTAAGCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 -TCCGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
72349705 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* *
72349721 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATT
72349745 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 52 0.57
79 38 0.42
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:72357266 original size:39 final size:39
Alignment explanation
Indices: 72357210--72357322 Score: 163
Period size: 39 Copynumber: 2.9 Consensus size: 39
72357200 TTTTTGATTT
* * *
72357210 TTTTGATATATTTTTGAATGCTATGTGATTATATGAGTA
1 TTTTGATATATTCTTGAATGTTATGTGATTATATGAATA
72357249 TTTTGATATATTCTTGAATGTTATGTGATTATATGAATA
1 TTTTGATATATTCTTGAATGTTATGTGATTATATGAATA
* * * *
72357288 TTGTGATATATGCTTAAATGTTATGTGATTTTATG
1 TTTTGATATATTCTTGAATGTTATGTGATTATATG
72357323 TGTAATGTGA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (39 bp):
TTTTGATATATTCTTGAATGTTATGTGATTATATGAATA
Found at i:72357332 original size:39 final size:39
Alignment explanation
Indices: 72357226--72357335 Score: 148
Period size: 39 Copynumber: 2.8 Consensus size: 39
72357216 TATATTTTTG
* * * *
72357226 AATGCTATGTGATTATATGAGTATTTTGATATATTCTTG
1 AATGTTATGTGATTATATGAGTATTGTGATATATGCTTA
*
72357265 AATGTTATGTGATTATATGAATATTGTGATATATGCTTA
1 AATGTTATGTGATTATATGAGTATTGTGATATATGCTTA
* * *
72357304 AATGTTATGTGATTTTATGTGTAATGTGATAT
1 AATGTTATGTGATTATATGAGTATTGTGATAT
72357336 GTAACGGTCT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (39 bp):
AATGTTATGTGATTATATGAGTATTGTGATATATGCTTA
Found at i:72359587 original size:15 final size:15
Alignment explanation
Indices: 72359568--72359602 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
72359558 AGTCGTGTGT
*
72359568 GACACACGACTTGGC
1 GACACACGACCTGGC
*
72359583 TACACACGACCTGGC
1 GACACACGACCTGGC
72359598 GACAC
1 GACAC
72359603 GACTGTGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.37, G:0.23, T:0.11
Consensus pattern (15 bp):
GACACACGACCTGGC
Found at i:72371357 original size:5 final size:5
Alignment explanation
Indices: 72371316--72371348 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
72371306 GACTTCTTCT
72371316 AATAA AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT
72371349 TACAATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:72373651 original size:20 final size:20
Alignment explanation
Indices: 72373626--72373666 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
72373616 GATCTAAAAA
*
72373626 GAAAAGGTATATAATTTACT
1 GAAAAGATATATAATTTACT
72373646 GAAAAGATATATAATTTACT
1 GAAAAGATATATAATTTACT
72373666 G
1 G
72373667 TTGACGATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (20 bp):
GAAAAGATATATAATTTACT
Found at i:72386826 original size:27 final size:28
Alignment explanation
Indices: 72386770--72386839 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
72386760 AAATTTGTAC
*
72386770 AGCACTAAGTTTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
72386798 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
72386825 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
72386840 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:72386850 original size:27 final size:27
Alignment explanation
Indices: 72386794--72386851 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
72386784 GAGTTTGATC
* * *
72386794 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
72386821 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
72386848 ATAT
1 ATAT
72386852 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:72389243 original size:42 final size:42
Alignment explanation
Indices: 72389126--72389248 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
72389116 GTGAGTTATA
* * *
72389126 AGCTTGGATACACGCCCATGCCCTT-GCTTGTGTGCCTCACAC
1 AGCTTGGACACACGCCCATGTCCTTGGCATGTGT-CCTCACAC
* * * * * *
72389168 GGCTTGGACACATGCCAATGTCTTTGCCCATGTGT-CTCACAT
1 AGCTTGGACACACGCCCATGTCCTTG-GCATGTGTCCTCACAC
*
72389210 AGCTTGGGCACACGCCCATGTCCTTGGCAATGTGGTCCT
1 AGCTTGGACACACGCCCATGTCCTTGGC-ATGT-GTCCT
72389249 AAATAAAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
41 1 0.02
42 50 0.82
43 2 0.03
44 8 0.13
ACGTcount: A:0.17, C:0.32, G:0.24, T:0.28
Consensus pattern (42 bp):
AGCTTGGACACACGCCCATGTCCTTGGCATGTGTCCTCACAC
Found at i:72391730 original size:14 final size:15
Alignment explanation
Indices: 72391703--72391739 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
72391693 TTAGGCGTAT
72391703 GTGACACACGGCCTG
1 GTGACACACGGCCTG
72391718 GTGACAC-CGGCCTG
1 GTGACACACGGCCTG
72391732 GTGACACA
1 GTGACACA
72391740 GTTGTGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.14
Consensus pattern (15 bp):
GTGACACACGGCCTG
Found at i:72391796 original size:62 final size:63
Alignment explanation
Indices: 72391725--72391855 Score: 174
Period size: 63 Copynumber: 2.1 Consensus size: 63
72391715 CTGGTGACAC
* * * * * *
72391725 CGGCCTGGTGACACAGTTGTGTGTTCCCTGTA-GTTCCATTGTATACAAGTCAGGTAGTTAGA
1 CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCATTGCATACAAGTCAGGTAGTTACA
* * *
72391787 CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCGTTGCATACTAGTTAGGTAGTTACA
1 CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCATTGCATACAAGTCAGGTAGTTACA
72391850 CGGCCT
1 CGGCCT
72391856 AGCACACGGG
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
62 28 0.47
63 31 0.53
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.31
Consensus pattern (63 bp):
CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCATTGCATACAAGTCAGGTAGTTACA
Found at i:72398334 original size:142 final size:142
Alignment explanation
Indices: 72398078--72398344 Score: 374
Period size: 142 Copynumber: 1.9 Consensus size: 142
72398068 GCGTGCTAAA
* * * * *
72398078 GTAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGAGAGCCAATGTAAGACCTTTCTGGG
1 GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTTTCTGGG
* * * *
72398143 ACACGGCATCGGCCTCAAGATATGCAAGCTAGTGTAAAACCTTTCTGGGACATGGCATCGGCTTG
66 ACACGGCATCGACCTCAACATATGCAAGCTAGTATAAAACCTGTCTGGGACATGGCATCGGCTTG
72398208 AGGTGTGTTAGT
131 AGGTGTGTTAGT
* * *
72398220 GTAAGACCTGTCTAGGATATGGCATCGATACAGATAAATGAGAGCCAGTATAAGA-CTTGTCTGG
1 GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTT-TCTGG
* * * *
72398284 GACATGGCATCGACCTCAACTTATGCAAGTTAGTATAAGACCTGTCTGGGACATGGCATCG
65 GACACGGCATCGACCTCAACATATGCAAGCTAGTATAAAACCTGTCTGGGACATGGCATCG
72398345 ACTTAGATGT
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
141 3 0.03
142 105 0.97
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (142 bp):
GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTTTCTGGG
ACACGGCATCGACCTCAACATATGCAAGCTAGTATAAAACCTGTCTGGGACATGGCATCGGCTTG
AGGTGTGTTAGT
Found at i:72400500 original size:28 final size:27
Alignment explanation
Indices: 72400437--72400506 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
72400427 ATAGTGAGTC
*
72400437 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
72400464 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
72400492 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72400507 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:72407647 original size:28 final size:27
Alignment explanation
Indices: 72407584--72407653 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
72407574 ATAGTGAGTC
*
72407584 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
72407611 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
72407639 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72407654 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:72408461 original size:46 final size:46
Alignment explanation
Indices: 72408408--72408502 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
72408398 CTCTAAATCA
72408408 AAACATCAAAAATGTCACACATGAGTTAACACATATTATAGGCAAT
1 AAACATCAAAAATGTCACACATGAGTTAACACATATTATAGGCAAT
72408454 AAACATCAAAAATGTCACACATGAGTTAACACATATTATAGGCAAT
1 AAACATCAAAAATGTCACACATGAGTTAACACATATTATAGGCAAT
72408500 AAA
1 AAA
72408503 ATAAATATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (46 bp):
AAACATCAAAAATGTCACACATGAGTTAACACATATTATAGGCAAT
Found at i:72413908 original size:40 final size:38
Alignment explanation
Indices: 72413857--72414002 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 38
72413847 GCGACTTGCT
*
72413857 CAAAAGCCTTCGGGACATAGCCCGGTTATAATAGCTCGCA
1 CAAAAGCCTTCGGGACATAGCCCGGTT-TAGTA-CTCGCA
* * * *
72413897 CAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCA
1 CAAAAGCCTTCGGGACATAGCCCGG-TTTAGT-ACTCGCA
* * *
72413937 CAAATGCCTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCA
1 CAAAAGCCTTCGGGACATAG-CCCGG-TTTAGT-AC-TCGCA
*
72413978 CAAAAGCCTTCGGGACTTAGCCCGG
1 CAAAAGCCTTCGGGACATAGCCCGG
72414003 ATACCATTCG
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.01
40 57 0.66
41 26 0.30
42 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CAAAAGCCTTCGGGACATAGCCCGGTTTAGTACTCGCA
Found at i:72418722 original size:49 final size:46
Alignment explanation
Indices: 72418663--72418818 Score: 161
Period size: 49 Copynumber: 3.2 Consensus size: 46
72418653 GAGGTCTGTT
*
72418663 AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CAGAT--ATGAGAGCC
* * * *
72418712 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCGACGTATG-GAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACC-AGA--TATGAG-AGCC
* * *
72418761 AGTGTAAGACCTGTTTGGGACATGGCATCGACTTAGATGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CAGATATGAGAGCC
72418808 AGTGTAAGACC
1 AGTGTAAGACC
72418819 ATGTTTGGAG
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
47 17 0.19
48 3 0.03
49 68 0.76
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCAGATATGAGAGCC
Found at i:72418728 original size:93 final size:93
Alignment explanation
Indices: 72418570--72418818 Score: 243
Period size: 93 Copynumber: 2.6 Consensus size: 93
72418560 TGTGTGTACT
* * * * * *
72418570 AGTGTAAGACCTGTCTGGGACACGACATCGGCCTCAAGATATGCA-AGCTAGTGTAAGACCTGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATC-GACAC-AGATATG-AGAGCCAGTGTAAGACCTGTC
* * * *
72418634 TGAGACATGGCAACGG-CTTGAGGTCT-GTT
63 TGAGACATGGCAACGGCCTCGACGTATAGTC
72418663 AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGAT--ATGAGAGCCAGTGTAAGACCTGTCT
* **
72418728 GGGACATGGCATTGGCCTCGACGTATGGAAGTC
64 GAGACATGGCAACGGCCTCGACGTAT---AGTC
* * ** *
72418761 AGTGTAAGACCTGTTTGGGACATGGCATCGACTTAGATGTGAGAGCCAGTGTAAGACC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATATGAGAGCCAGTGTAAGACC
72418819 ATGTTTGGAG
Statistics
Matches: 130, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
91 4 0.03
92 4 0.03
93 60 0.46
94 7 0.05
96 19 0.15
98 36 0.28
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATATGAGAGCCAGTGTAAGACCTGTCTGA
GACATGGCAACGGCCTCGACGTATAGTC
Found at i:72420282 original size:46 final size:45
Alignment explanation
Indices: 72420232--72420406 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
72420222 TGTTTGGGCA
72420232 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
72420278 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
72420325 TCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
72420370 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72420407 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 1 0.01
45 7 0.06
46 84 0.77
47 8 0.07
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:72420394 original size:92 final size:93
Alignment explanation
Indices: 72420228--72420398 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
72420218 AGGATGTTTG
* *
72420228 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
72420293 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
72420321 GGCATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
72420385 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
72420399 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.89
93 8 0.11
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:72423396 original size:15 final size:15
Alignment explanation
Indices: 72423357--72423436 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
72423347 GTATCTTGGG
*
72423357 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
72423372 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
72423387 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
72423402 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
72423417 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
72423431 TTTCTT
1 TTTCTT
72423437 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:72423426 original size:30 final size:30
Alignment explanation
Indices: 72423348--72423435 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
72423338 CATAGTATCG
* * *
72423348 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
72423378 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
72423408 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
72423436 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:72426469 original size:27 final size:27
Alignment explanation
Indices: 72426430--72426627 Score: 252
Period size: 27 Copynumber: 7.3 Consensus size: 27
72426420 GATAAGTTGC
72426430 AGAATTACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
** * *
72426457 AGAATTATTGAAATACCCCAGTAAGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
**
72426484 AGAATTATTGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* * *
72426511 AGAATTACCGAAATACCCCTATAAGAT
1 AGAATTACCGAAATACCCCTGTAGGGT
* *
72426538 AGAATTACCAAAATACCCTTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
72426565 AGAAATACCGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* * *
72426592 AGAATTACCGAGATACCCTTGTGGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
72426619 AAAATTACC
1 AGAATTACC
72426628 ATTTTGCCCC
Statistics
Matches: 147, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AGAATTACCGAAATACCCCTGTAGGGT
Found at i:72427316 original size:31 final size:32
Alignment explanation
Indices: 72427278--72427339 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
72427268 CTCGCTGCAA
* *
72427278 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
72427309 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
72427340 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:72429595 original size:22 final size:22
Alignment explanation
Indices: 72429570--72429630 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
72429560 CTCCTGAGCT
**
72429570 GATGAACAGTAAGCTCTATTGA
1 GATGAACAGTAAGCTCTATCAA
* *
72429592 GATGAAACGGTAAGCTTTATCAA
1 GATG-AACAGTAAGCTCTATCAA
* *
72429615 GCTTAACAGTAAGCTC
1 GATGAACAGTAAGCTC
72429631 ATACGAACTA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (22 bp):
GATGAACAGTAAGCTCTATCAA
Found at i:72429688 original size:24 final size:24
Alignment explanation
Indices: 72429619--72429688 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
72429609 TATCAAGCTT
72429619 AACAGTAAGCTCATACGAAC-T-AA
1 AACAGTAAGCTCATAC-AACTTGAA
* ** *
72429642 AACAGTCAGCTCCA-ATGAGTTGAA
1 AACAGTAAGCT-CATACAACTTGAA
72429666 AACAGTAAGCTCATACAACTTGA
1 AACAGTAAGCTCATACAACTTGA
72429689 TATATTGGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
22 1 0.03
23 14 0.40
24 20 0.57
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (24 bp):
AACAGTAAGCTCATACAACTTGAA
Found at i:72432048 original size:9 final size:9
Alignment explanation
Indices: 72432034--72432130 Score: 68
Period size: 9 Copynumber: 11.3 Consensus size: 9
72432024 GCAAAAGATT
72432034 TTAAAATTA
1 TTAAAATTA
72432043 TTAAAATTA
1 TTAAAATTA
72432052 TTAAAATTA
1 TTAAAATTA
72432061 TT----TT-
1 TTAAAATTA
72432065 TTAAAA-TA
1 TTAAAATTA
72432073 -TAAAATTAA
1 TTAAAATT-A
*
72432082 TTTAAATTA
1 TTAAAATTA
*
72432091 TTAAATTATTTT
1 TTAAA--A-TTA
*
72432103 TTGAAA-TA
1 TTAAAATTA
72432111 -TAAAATTA
1 TTAAAATTA
72432119 TTAAAATTA
1 TTAAAATTA
72432128 TTA
1 TTA
72432131 TATTAAAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 26
0.68 0.06 0.26
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
7 10 0.14
8 4 0.06
9 37 0.54
10 7 0.10
11 1 0.01
12 6 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (9 bp):
TTAAAATTA
Found at i:72432078 original size:20 final size:20
Alignment explanation
Indices: 72432043--72432120 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
72432033 TTTAAAATTA
72432043 TTAAAATTATTAAAATTATTTT
1 TTAAAA-TA-TAAAATTATTTT
*
72432065 TTAAAATATAAAATTA--AT
1 TTAAAATATAAAATTATTTT
* *
72432083 TTAAATTATTAAATTATTTT
1 TTAAAATATAAAATTATTTT
*
72432103 TTGAAATATAAAATTATT
1 TTAAAATATAAAATTATT
72432121 AAAATTATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
18 15 0.32
20 24 0.51
21 2 0.04
22 6 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (20 bp):
TTAAAATATAAAATTATTTT
Found at i:72432091 original size:30 final size:31
Alignment explanation
Indices: 72432032--72432144 Score: 97
Period size: 38 Copynumber: 3.4 Consensus size: 31
72432022 GAGCAAAAGA
72432032 TTTTAAAATTATTAAAATTATTAAAATTATT
1 TTTTAAAATTATTAAAATTATTAAAATTATT
72432063 TTTTAAAATATAAAATTAATTTAAATTATT-AAATTATT
1 TTTTAAAAT-T---ATT-A---AAATTATTAAAATTATT
*
72432101 TTTTGAAA-TA-TAAAATTATTAAAATTATT
1 TTTTAAAATTATTAAAATTATTAAAATTATT
*
72432130 ATATTAAAATATATT
1 -TTTTAAAAT-TATT
72432145 TTTAACATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 24
0.71 0.03 0.26
Matches are distributed among these distances:
28 8 0.12
29 8 0.12
30 6 0.09
31 10 0.15
32 4 0.06
33 2 0.03
35 3 0.05
36 2 0.03
38 15 0.23
39 8 0.12
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (31 bp):
TTTTAAAATTATTAAAATTATTAAAATTATT
Found at i:72432097 original size:38 final size:37
Alignment explanation
Indices: 72432035--72432135 Score: 157
Period size: 38 Copynumber: 2.7 Consensus size: 37
72432025 CAAAAGATTT
72432035 TAAAATTATTAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATT-AAATTATTTTTTAAAATA
* *
72432073 TAAAATTAATTTAAATTATTAAATTATTTTTTGAAATA
1 TAAAATT-ATTAAAATTATTAAATTATTTTTTAAAATA
*
72432111 TAAAATTATTAAAATTATTATATTA
1 TAAAATTATTAAAATTATTAAATTA
72432136 AAATATATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
37 16 0.28
38 31 0.53
39 11 0.19
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (37 bp):
TAAAATTATTAAAATTATTAAATTATTTTTTAAAATA
Found at i:72433724 original size:25 final size:25
Alignment explanation
Indices: 72433690--72433740 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
72433680 AAGTATGTAG
72433690 ATTTTTTTGGTGACTCATCCATGGA
1 ATTTTTTTGGTGACTCATCCATGGA
72433715 ATTTTTTTGGTGACTCATCCATGGA
1 ATTTTTTTGGTGACTCATCCATGGA
72433740 A
1 A
72433741 AAATTAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (25 bp):
ATTTTTTTGGTGACTCATCCATGGA
Found at i:72434266 original size:26 final size:26
Alignment explanation
Indices: 72434237--72434344 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
72434227 TGGTACAAAT
72434237 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
72434263 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72434289 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
72434315 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72434341 TGAT
1 TGAT
72434345 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:72438617 original size:63 final size:64
Alignment explanation
Indices: 72438449--72438619 Score: 195
Period size: 63 Copynumber: 2.7 Consensus size: 64
72438439 TCTCTTGTAC
* * * *
72438449 ACATGGTGAACACATAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTAGCTCTCTTATCT
1 ACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATCCCGTAGCTCTCTTATCT
* * * * *
72438512 ACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTT-T
1 ACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTAT
72438576 CT
63 CT
*
72438578 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 ACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT
72438620 CATAATGTCT
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
63 36 0.41
66 33 0.38
67 17 0.19
68 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (64 bp):
ACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCT
Found at i:72440427 original size:40 final size:39
Alignment explanation
Indices: 72440382--72440511 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
72440372 CGGAATATAA
72440382 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
72440422 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
72440462 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
72440502 CCGGATATAA
1 CCGGATATAA
72440512 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:72440526 original size:40 final size:40
Alignment explanation
Indices: 72440398--72440549 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
72440388 ATAACCATGT
* * *
72440398 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
72440438 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
72440478 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
72440518 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
72440550 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:72440532 original size:80 final size:80
Alignment explanation
Indices: 72440398--72440547 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
72440388 ATAACCATGT
*
72440398 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
72440462 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
72440478 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
72440541 CCCGGAT
64 CCCGGAT
72440548 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:72447641 original size:40 final size:39
Alignment explanation
Indices: 72447596--72447725 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
72447586 CGGAATATAA
72447596 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
72447636 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
72447676 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
72447716 CCGGATATAA
1 CCGGATATAA
72447726 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:72447740 original size:40 final size:40
Alignment explanation
Indices: 72447612--72447763 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
72447602 ATAACCATGT
* * *
72447612 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
72447652 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
72447692 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
72447732 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
72447764 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:72447746 original size:80 final size:80
Alignment explanation
Indices: 72447612--72447761 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
72447602 ATAACCATGT
*
72447612 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
72447676 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
72447692 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
72447755 CCCGGAT
64 CCCGGAT
72447762 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:72449008 original size:30 final size:30
Alignment explanation
Indices: 72448974--72449034 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
72448964 TCCTTAACTC
72448974 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
72449004 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
72449034 A
1 A
72449035 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:72452433 original size:26 final size:26
Alignment explanation
Indices: 72452404--72452511 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
72452394 TGGTACAAAT
72452404 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
72452430 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
72452456 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
72452482 TAATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
72452508 TGAT
1 TGAT
72452512 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:72458944 original size:40 final size:40
Alignment explanation
Indices: 72458899--72459066 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
72458889 CGGAATATAA
72458899 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
72458939 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
72458979 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
72459019 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
72459059 CCGGATAT
1 CCGGATAT
72459067 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:72468234 original size:22 final size:21
Alignment explanation
Indices: 72468209--72468268 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 21
72468199 TTTGAGTATT
72468209 GTGATTTATGCTTGAATGTTA
1 GTGATTTATGCTTGAATGTTA
* *
72468230 CGTGA-TTAT--ATGAGTGTT-
1 -GTGATTTATGCTTGAATGTTA
*
72468248 GTGATATATGCTTGAATGTTA
1 GTGATTTATGCTTGAATGTTA
72468269 TGTAATTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 9
0.67 0.12 0.21
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 7 0.24
20 7 0.24
21 4 0.14
22 4 0.14
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (21 bp):
GTGATTTATGCTTGAATGTTA
Found at i:72468258 original size:39 final size:39
Alignment explanation
Indices: 72468201--72468294 Score: 152
Period size: 39 Copynumber: 2.4 Consensus size: 39
72468191 AACATATTTT
* *
72468201 TGAGTATTGTGATTTATGCTTGAATGTTACGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTACGTAATTATA
* *
72468240 TGAGTGTTGTGATATATGCTTGAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTACGTAATTATA
72468279 TGAGTATTGTGATATA
1 TGAGTATTGTGATATA
72468295 AATGTTATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTACGTAATTATA
Found at i:72468304 original size:33 final size:33
Alignment explanation
Indices: 72468262--72468327 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
72468252 TATATGCTTG
*
72468262 AATGTTATGTAATTATATGAGTATTGTGATATA
1 AATGTTATGTAATTATATGAGTAATGTGATATA
* *
72468295 AATGTTATGTGATTATATGTGTAATGTGATATA
1 AATGTTATGTAATTATATGAGTAATGTGATATA
72468328 TGCTTAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (33 bp):
AATGTTATGTAATTATATGAGTAATGTGATATA
Found at i:72468321 original size:17 final size:17
Alignment explanation
Indices: 72468268--72468329 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 17
72468258 CTTGAATGTT
* *
72468268 ATGTAATTATATGAGTA
1 ATGTGATTATATGTGTA
* *
72468285 TTGTGATATAAATGT-T-
1 ATGTGAT-TATATGTGTA
72468301 ATGTGATTATATGTGTA
1 ATGTGATTATATGTGTA
72468318 ATGTGA-TATATG
1 ATGTGATTATATG
72468330 CTTAAAAGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
15 6 0.17
16 13 0.36
17 12 0.33
18 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
ATGTGATTATATGTGTA
Found at i:72469949 original size:39 final size:39
Alignment explanation
Indices: 72469895--72469972 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
72469885 AATGTTTTTA
* * * *
72469895 AGTATTGTGATATATGCTTGAATGTTATGTGGTTATATG
1 AGTATCGTCATATATGCTTAAATGTTATGTGATTATATG
72469934 AGTATCGTCATATATGCTTAAATGTTATGTGATTATATG
1 AGTATCGTCATATATGCTTAAATGTTATGTGATTATATG
72469973 TGTAATGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (39 bp):
AGTATCGTCATATATGCTTAAATGTTATGTGATTATATG
Found at i:72469994 original size:39 final size:38
Alignment explanation
Indices: 72469895--72469994 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 38
72469885 AATGTTTTTA
* *
72469895 AGTATTGTGATATATGCTTGAATGTTATGTGGTTATATG
1 AGTA-TGTGATATATGCTTAAATGTTATGTGATTATATG
*
72469934 AGTATCGTCATATATGCTTAAATGTTATGTGATTATATG
1 AGTAT-GTGATATATGCTTAAATGTTATGTGATTATATG
* * *
72469973 TGTAATGTGATACATGATTAAA
1 AGT-ATGTGATATATGCTTAAA
72469995 AGTGAATATG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.02
39 49 0.94
40 2 0.04
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (38 bp):
AGTATGTGATATATGCTTAAATGTTATGTGATTATATG
Found at i:72471913 original size:27 final size:28
Alignment explanation
Indices: 72471883--72471935 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
72471873 ATAGAGATCA
*
72471883 CCATAAAGG-TT-TTATTTACAAATATTT
1 CCATAAAGGCTTCTT-TTAACAAATATTT
72471910 CCATAAAGGCTTCTTTTAACAAATAT
1 CCATAAAGGCTTCTTTTAACAAATAT
72471936 CGCCACAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 9 0.39
28 12 0.52
29 2 0.09
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (28 bp):
CCATAAAGGCTTCTTTTAACAAATATTT
Found at i:72471945 original size:28 final size:28
Alignment explanation
Indices: 72471900--72472011 Score: 73
Period size: 28 Copynumber: 4.0 Consensus size: 28
72471890 GGTTTTATTT
** *
72471900 ACAAATATTTCCATAAAGGCTTCTTTTA
1 ACAAATATCGCCACAAAGGCTTCTTTTA
*
72471928 ACAAATATCGCCACAAAGAG-TTCCTTTA
1 ACAAATATCGCCACAAAG-GCTTCTTTTA
* * * * * * *
72471956 ATAGACATCACTACAAAGGTTTCTTGTA
1 ACAAATATCGCCACAAAGGCTTCTTTTA
* * * *
72471984 ACAGAGATTGCCACAAAAGCTTCTTTTA
1 ACAAATATCGCCACAAAGGCTTCTTTTA
72472012 TAGAGATTGC
Statistics
Matches: 63, Mismatches: 19, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
27 1 0.02
28 61 0.97
29 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (28 bp):
ACAAATATCGCCACAAAGGCTTCTTTTA
Found at i:72474034 original size:29 final size:29
Alignment explanation
Indices: 72473944--72474103 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
72473934 ACTCGATTTC
* * **
72473944 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
72473973 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
72474001 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
72474031 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
72474060 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
72474089 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
72474104 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:72482131 original size:29 final size:29
Alignment explanation
Indices: 72482041--72482200 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
72482031 ACTCGATTTC
* * **
72482041 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
72482070 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
72482098 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
72482128 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
72482157 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
72482186 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
72482201 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:72485036 original size:43 final size:43
Alignment explanation
Indices: 72485006--72485123 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
72484996 TGTAATCTCG
**
72485006 TATCGATGCCAATAGCCCATCA-ATGGTCTTACAAGAAGTCCCA
1 TATCGATGCC-ATAGCCCAAAATATGGTCTTACAAGAAGTCCCA
* **
72485049 TATCGATGCCATATCCCAAAATATGGTCTTACACA-AAGTCTTA
1 TATCGATGCCATAGCCCAAAATATGGTCTTACA-AGAAGTCCCA
* *
72485092 TA-CTGATGCCATATCCC-AGATATGGTCTTACA
1 TATC-GATGCCATAGCCCAAAATATGGTCTTACA
72485124 CGTAGTCTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
42 23 0.35
43 42 0.64
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
TATCGATGCCATAGCCCAAAATATGGTCTTACAAGAAGTCCCA
Found at i:72487053 original size:28 final size:27
Alignment explanation
Indices: 72486990--72487059 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
72486980 ATAGTGAGTC
72486990 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
72487017 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
72487045 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72487060 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:72494813 original size:28 final size:27
Alignment explanation
Indices: 72494750--72494819 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
72494740 ATAGTGAGTC
72494750 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
72494777 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
72494805 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72494820 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:72505199 original size:29 final size:30
Alignment explanation
Indices: 72505139--72505199 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
72505129 TTAAATATAA
72505139 ATACTATAAAAACTACTAAAAATCATAATT
1 ATACTATAAAAACTACTAAAAATCATAATT
* *
72505169 ATACTATATAAACT-CTGAAAAT-ATAAATT
1 ATACTATAAAAACTACTAAAAATCAT-AATT
72505198 AT
1 AT
72505200 TATTAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 13 0.46
30 13 0.46
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (30 bp):
ATACTATAAAAACTACTAAAAATCATAATT
Found at i:72507292 original size:43 final size:43
Alignment explanation
Indices: 72507239--72507588 Score: 610
Period size: 43 Copynumber: 8.1 Consensus size: 43
72507229 CCGGCATTAC
*
72507239 GCCTGTTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
72507282 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
72507325 GCTTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
72507368 GCTTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
72507411 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
72507454 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
72507497 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCAAGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
72507540 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
72507583 GCCTGC
1 GCCTGC
72507589 GGGATTTTAC
Statistics
Matches: 295, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 295 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:72520929 original size:34 final size:32
Alignment explanation
Indices: 72520890--72520982 Score: 82
Period size: 34 Copynumber: 2.8 Consensus size: 32
72520880 TCAAGCCCAT
*
72520890 TGGGCCTAAGCCCTATTCAGATAACAGCGAGTAC
1 TGGGCCTAAGCCCTATTCAGATAACAG-GA-AAC
* *
72520924 TGGGCCGAAGCCC-ATTTCAGA-ATACAGTAAAC
1 TGGGCCTAAGCCCTA-TTCAGATA-ACAGGAAAC
* *
72520956 TGGGCCTTAGCCCCTTTTCAGATAACA
1 TGGGCCTAAG-CCCTATTCAGATAACA
72520983 ATATGGCCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
32 10 0.21
33 15 0.31
34 23 0.48
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (32 bp):
TGGGCCTAAGCCCTATTCAGATAACAGGAAAC
Found at i:72521662 original size:20 final size:21
Alignment explanation
Indices: 72521637--72521675 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
72521627 TGGGCTCGTA
*
72521637 AGCCTATTG-GGCCCAATTTT
1 AGCCTATCGAGGCCCAATTTT
72521657 AGCCTATCGAGGCCCAATT
1 AGCCTATCGAGGCCCAATT
72521676 ACCGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAATTTT
Found at i:72524794 original size:20 final size:18
Alignment explanation
Indices: 72524751--72524800 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
72524741 GTTCGTATGA
* *
72524751 TTATATATTGTTTTAATG
1 TTATATATTGATCTAATG
72524769 TTATATATTGATCTATATG
1 TTATATATTGATCTA-ATG
*
72524788 TTAATATGTTGAT
1 TT-ATATATTGAT
72524801 TGCTATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 13 0.48
19 5 0.19
20 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (18 bp):
TTATATATTGATCTAATG
Done.