Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 59 of 143
Found at i:18984787 original size:11 final size:11
Alignment explanation
Indices: 18984766--18984795 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
18984756 GTATATATAC
18984766 ATTTATCTTTTT
1 ATTT-TCTTTTT
18984778 ATTTTCTTTTT
1 ATTTTCTTTTT
18984789 ATTTTCT
1 ATTTTCT
18984796 CTCTTTTTTT
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:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTCTTTTT
Found at i:18985390 original size:17 final size:17
Alignment explanation
Indices: 18985357--18985401 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
18985347 CATTAAATTA
*
18985357 CAATGACAAATGGAAATG
1 CAATGAC-AATGCAAATG
18985375 CAATGACAATGCAAATG
1 CAATGACAATGCAAATG
*
18985392 CAGTGACAAT
1 CAATGACAAT
18985402 TAAAACGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (17 bp):
CAATGACAATGCAAATG
Found at i:18990419 original size:21 final size:21
Alignment explanation
Indices: 18990393--18990439 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18990383 CTCTTCTTCC
* * *
18990393 TCCTTGTGCTTCTTCTTTTTG
1 TCCTTGCGCTTCCTCTTTTTA
18990414 TCCTTGCGCTTCCTCTTTTTA
1 TCCTTGCGCTTCCTCTTTTTA
18990435 TCCTT
1 TCCTT
18990440 CGAACCAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.30, G:0.11, T:0.57
Consensus pattern (21 bp):
TCCTTGCGCTTCCTCTTTTTA
Found at i:19002228 original size:21 final size:21
Alignment explanation
Indices: 19002189--19002229 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19002179 TGGCTGTACA
* **
19002189 TGATTTTGATGTGGCTGCATT
1 TGATCTTGATGTGAATGCATT
19002210 TGATCTTGATGTGAATGCAT
1 TGATCTTGATGTGAATGCAT
19002230 CTGAGTATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.44
Consensus pattern (21 bp):
TGATCTTGATGTGAATGCATT
Found at i:19008110 original size:16 final size:17
Alignment explanation
Indices: 19008071--19008111 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
19008061 TAAATAAACA
19008071 AAAT-AAATGCAATGAC
1 AAATAAAATGCAATGAC
*
19008087 AAAATAAAATGCGATGAC
1 -AAATAAAATGCAATGAC
19008105 -AATAAAA
1 AAATAAAA
19008112 ATGTATGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 4 0.18
18 11 0.50
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.17
Consensus pattern (17 bp):
AAATAAAATGCAATGAC
Found at i:19008114 original size:17 final size:18
Alignment explanation
Indices: 19008068--19008106 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19008058 AACTAAATAA
19008068 ACAAAAT-AAATGCAATG
1 ACAAAATAAAATGCAATG
*
19008085 ACAAAATAAAATGCGATG
1 ACAAAATAAAATGCAATG
19008103 ACAA
1 ACAA
19008107 TAAAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.15
Consensus pattern (18 bp):
ACAAAATAAAATGCAATG
Found at i:19018103 original size:89 final size:89
Alignment explanation
Indices: 19017985--19018169 Score: 352
Period size: 89 Copynumber: 2.1 Consensus size: 89
19017975 AAGTAAATGA
19017985 TCGTAAAATATCTTGTGACACTTCAAGACCCTAAATCGGTAACGATTACGGGTTAAGGGTGTTAC
1 TCGTAAAATATCTTGTGACACTTCAAGACCCTAAATCGGTAACGATTACGGGTTAAGGGTGTTAC
19018050 ATGAATAGCTTCTATCAAGTGAGT
66 ATGAATAGCTTCTATCAAGTGAGT
* *
19018074 TCGTAAAATGTCTTGTGACACTTCGAGACCCTAAATCGGTAACGATTACGGGTTAAGGGTGTTAC
1 TCGTAAAATATCTTGTGACACTTCAAGACCCTAAATCGGTAACGATTACGGGTTAAGGGTGTTAC
19018139 ATGAATAGCTTCTATCAAGTGAGT
66 ATGAATAGCTTCTATCAAGTGAGT
19018163 TCGTAAA
1 TCGTAAA
19018170 CAGTGGTTTC
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 94 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (89 bp):
TCGTAAAATATCTTGTGACACTTCAAGACCCTAAATCGGTAACGATTACGGGTTAAGGGTGTTAC
ATGAATAGCTTCTATCAAGTGAGT
Found at i:19021405 original size:43 final size:43
Alignment explanation
Indices: 19021344--19021426 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
19021334 GGTGCAGTTG
** * *
19021344 GCACAAGGGCTGGGACACAATCGTGTGACCCTATTTCGAACAT
1 GCACAAGGGCTGACACACAATCGTGTGACCCAACTTCGAACAT
*
19021387 GCACACGGGCTGACACACAATCGTGTGACCCAACTTCGAA
1 GCACAAGGGCTGACACACAATCGTGTGACCCAACTTCGAA
19021427 ACCACACAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (43 bp):
GCACAAGGGCTGACACACAATCGTGTGACCCAACTTCGAACAT
Found at i:19021447 original size:43 final size:42
Alignment explanation
Indices: 19021344--19021447 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 42
19021334 GGTGCAGTTG
* * *
19021344 GCACAAGGGCTGGGACACAATCGTGTGACCCTATTTCGAACA
1 GCACAAGGGCTGGCACACAATCGTGTGACCCAACTTCGAACA
* *
19021386 TGCACACGGGCTGACACACAATCGTGTGACCCAACTTCGAAACCA
1 -GCACAAGGGCTGGCACACAATCGTGTGACCCAACTTCG-AA-CA
*
19021431 -CACAAGGGCAGGCACAC
1 GCACAAGGGCTGGCACAC
19021448 GGCCGTGTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 47 0.92
44 2 0.04
45 2 0.04
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.14
Consensus pattern (42 bp):
GCACAAGGGCTGGCACACAATCGTGTGACCCAACTTCGAACA
Found at i:19025196 original size:37 final size:37
Alignment explanation
Indices: 19025135--19025408 Score: 189
Period size: 37 Copynumber: 7.4 Consensus size: 37
19025125 CCTTATGCTG
* * * *
19025135 TAATCGAGGCATAAGCAGATCACATAGCATTACACTC
1 TAATCGAGACGTAAGCAAATCACATAGCATTACGCTC
* *
19025172 TAACCGAGACGTAAGCAAATCACATAGCATTATGCTC
1 TAATCGAGACGTAAGCAAATCACATAGCATTACGCTC
*** * *
19025209 TAATCGAGACGTAAGCCTTTCATATAACATTACGCTC
1 TAATCGAGACGTAAGCAAATCACATAGCATTACGCTC
** * *
19025246 TAATCGAGACGTAAGC-CTTCCATATAGCATTATGCTC
1 TAATCGAGACGTAAGCAAAT-CACATAGCATTACGCTC
* * * * * *
19025283 TAATTGAGATGTAAGTC--TTCCATATAACATTATGCTC
1 TAATCGAGACGTAAG-CAAAT-CACATAGCATTACGCTC
** * * *
19025320 TAATCGAGACGTAAGC-CTTCCATATAACATTATGCTC
1 TAATCGAGACGTAAGCAAAT-CACATAGCATTACGCTC
** *
19025357 TAATCGAGACGTAAGC-CTTCCATATAGCATTACGCTC
1 TAATCGAGACGTAAGCAAAT-CACATAGCATTACGCTC
* *
19025394 TAACCGAGACATAAG
1 TAATCGAGACGTAAG
19025409 TCTCCATCGA
Statistics
Matches: 209, Mismatches: 25, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
36 3 0.01
37 205 0.98
38 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (37 bp):
TAATCGAGACGTAAGCAAATCACATAGCATTACGCTC
Found at i:19025248 original size:74 final size:74
Alignment explanation
Indices: 19025162--19025408 Score: 352
Period size: 74 Copynumber: 3.3 Consensus size: 74
19025152 GATCACATAG
* ** *
19025162 CATTACACTCTAACCGAGACGTAAGCAAAT-CACATAGCATTATGCTCTAATCGAGACGTAAGCC
1 CATTACGCTCTAACCGAGACGTAAGC-CTTCCATATAGCATTATGCTCTAATCGAGACGTAAGCC
*
19025226 TTTCATATAA
65 TTCCATATAA
* * * *
19025236 CATTACGCTCTAATCGAGACGTAAGCCTTCCATATAGCATTATGCTCTAATTGAGATGTAAGTCT
1 CATTACGCTCTAACCGAGACGTAAGCCTTCCATATAGCATTATGCTCTAATCGAGACGTAAGCCT
19025301 TCCATATAA
66 TCCATATAA
* * *
19025310 CATTATGCTCTAATCGAGACGTAAGCCTTCCATATAACATTATGCTCTAATCGAGACGTAAGCCT
1 CATTACGCTCTAACCGAGACGTAAGCCTTCCATATAGCATTATGCTCTAATCGAGACGTAAGCCT
*
19025375 TCCATATAG
66 TCCATATAA
*
19025384 CATTACGCTCTAACCGAGACATAAG
1 CATTACGCTCTAACCGAGACGTAAG
19025409 TCTCCATCGA
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
73 1 0.01
74 153 0.99
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (74 bp):
CATTACGCTCTAACCGAGACGTAAGCCTTCCATATAGCATTATGCTCTAATCGAGACGTAAGCCT
TCCATATAA
Found at i:19025409 original size:111 final size:110
Alignment explanation
Indices: 19025158--19025415 Score: 376
Period size: 111 Copynumber: 2.3 Consensus size: 110
19025148 AGCAGATCAC
* * *
19025158 ATAGCATTACACTCTAACCGAGACGTAAG-CAAAT-CACATAGCATTATGCTCTAATCGAGACGT
1 ATAGCATTACGCTCTAACCGAGACGTAAGTC---TCCATATAACATTATGCTCTAATCGAGACGT
*
19025221 AAGCCTTTCATATAACATTACGCTCTAATCGAGACGTAAGCCTTCCAT
63 AAGCCTTCCATATAACATTACGCTCTAATCGAGACGTAAGCCTTCCAT
* ** *
19025269 ATAGCATTATGCTCTAATTGAGATGTAAGTCTTCCATATAACATTATGCTCTAATCGAGACGTAA
1 ATAGCATTACGCTCTAACCGAGACGTAAGTC-TCCATATAACATTATGCTCTAATCGAGACGTAA
*
19025334 GCCTTCCATATAACATTATGCTCTAATCGAGACGTAAGCCTTCCAT
65 GCCTTCCATATAACATTACGCTCTAATCGAGACGTAAGCCTTCCAT
*
19025380 ATAGCATTACGCTCTAACCGAGACATAAGTCTCCAT
1 ATAGCATTACGCTCTAACCGAGACGTAAGTCTCCAT
19025416 CGAAGTAATC
Statistics
Matches: 130, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
110 6 0.05
111 123 0.95
112 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (110 bp):
ATAGCATTACGCTCTAACCGAGACGTAAGTCTCCATATAACATTATGCTCTAATCGAGACGTAAG
CCTTCCATATAACATTACGCTCTAATCGAGACGTAAGCCTTCCAT
Found at i:19035578 original size:29 final size:29
Alignment explanation
Indices: 19035546--19035650 Score: 138
Period size: 30 Copynumber: 3.6 Consensus size: 29
19035536 TTCTGGAACA
**
19035546 TTAGATAGCCATGAAGGCGTCCACATAAC
1 TTAGATAGCCACAAAGGCGTCCACATAAC
* *
19035575 TTAGATAGCCACAAAGGCATCCACATAATA
1 TTAGATAGCCACAAAGGCGTCCACATAA-C
19035605 TTAGATAGCCACAAAGGCGTCCACATAAC
1 TTAGATAGCCACAAAGGCGTCCACATAAC
* *
19035634 ATTAGGTATCCACAAAG
1 -TTAGATAGCCACAAAG
19035651 ACATCCAAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
29 25 0.38
30 41 0.62
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (29 bp):
TTAGATAGCCACAAAGGCGTCCACATAAC
Found at i:19035614 original size:59 final size:60
Alignment explanation
Indices: 19035545--19035657 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 60
19035535 ATTCTGGAAC
** *
19035545 ATTAGATAGCCATGAAGGCGTCCACATAAC-TTAGATAGCCACAAAGGCATCCACATAAT
1 ATTAGATAGCCACAAAGGCGTCCACATAACATTAGATAGCCACAAAGACATCCACATAAT
* *
19035604 ATTAGATAGCCACAAAGGCGTCCACATAACATTAGGTATCCACAAAGACATCCA
1 ATTAGATAGCCACAAAGGCGTCCACATAACATTAGATAGCCACAAAGACATCCA
19035658 AACACATACA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 28 0.58
60 20 0.42
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (60 bp):
ATTAGATAGCCACAAAGGCGTCCACATAACATTAGATAGCCACAAAGACATCCACATAAT
Found at i:19038074 original size:28 final size:28
Alignment explanation
Indices: 19038037--19038228 Score: 199
Period size: 28 Copynumber: 6.9 Consensus size: 28
19038027 AACTATTTTG
* *
19038037 TTTCTAGCTCGCGTAGAGCGTTATTCTA
1 TTTCTGGCTCGGGTAGAGCGTTATTCTA
*** *
19038065 TTTCTGGCTCAAATAGAGCGTTATTCTG
1 TTTCTGGCTCGGGTAGAGCGTTATTCTA
* *
19038093 TTTCTGACTCGGGTAGAGCATTATTCTA
1 TTTCTGGCTCGGGTAGAGCGTTATTCTA
* *
19038121 TTT-TGGGCTCAGGTAGAGTGTTATTCTA
1 TTTCT-GGCTCGGGTAGAGCGTTATTCTA
** * *
19038149 TTTCTATCTAGGGTAGAACGTTATTCTA
1 TTTCTGGCTCGGGTAGAGCGTTATTCTA
* * *
19038177 TTTTTGGCTCGGGTAAAGCGTTACTCTA
1 TTTCTGGCTCGGGTAGAGCGTTATTCTA
*
19038205 TTTTTGGCTC-GGTAGAGCGTTATT
1 TTTCTGGCTCGGGTAGAGCGTTATT
19038229 TTGTTTCTTG
Statistics
Matches: 132, Mismatches: 30, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
27 13 0.10
28 118 0.89
29 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.41
Consensus pattern (28 bp):
TTTCTGGCTCGGGTAGAGCGTTATTCTA
Found at i:19038239 original size:28 final size:29
Alignment explanation
Indices: 19038049--19038258 Score: 179
Period size: 28 Copynumber: 7.5 Consensus size: 29
19038039 TCTAGCTCGC
*
19038049 GTAGAGCGTTATTCTATTTC-TGGCTCAA
1 GTAGAGCGTTATTCTATTTCTTGGCTCAG
* * * *
19038077 ATAGAGCGTTATTCTGTTTC-TGACTCGG
1 GTAGAGCGTTATTCTATTTCTTGGCTCAG
* *
19038105 GTAGAGCATTATTCTATTT-TGGGCTCAG
1 GTAGAGCGTTATTCTATTTCTTGGCTCAG
*
19038133 GTAGAGTGTTATTCTATTTCTAT--CT-AGG
1 GTAGAGCGTTATTCTATTTCT-TGGCTCA-G
* *
19038161 GTAGAACGTTATTCTATTT-TTGGCTCGG
1 GTAGAGCGTTATTCTATTTCTTGGCTCAG
* *
19038189 GTAAAGCGTTACTCTATTT-TTGGCTC-G
1 GTAGAGCGTTATTCTATTTCTTGGCTCAG
* *
19038216 GTAGAGCGTTATTTTGTTTCTTGG-TCAG
1 GTAGAGCGTTATTCTATTTCTTGGCTCAG
** *
19038244 AAAGAGCATTATTCT
1 GTAGAGCGTTATTCT
19038259 GTATTTGGGC
Statistics
Matches: 145, Mismatches: 28, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
26 1 0.01
27 20 0.14
28 123 0.85
29 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (29 bp):
GTAGAGCGTTATTCTATTTCTTGGCTCAG
Found at i:19041415 original size:11 final size:11
Alignment explanation
Indices: 19041392--19041428 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19041382 ATTATAAATA
19041392 TTTTT-TTTCTC
1 TTTTTCTTT-TC
19041403 TTTTTCTTTTC
1 TTTTTCTTTTC
19041414 TTTTTC-TTTC
1 TTTTTCTTTTC
19041424 TTTTT
1 TTTTT
19041429 ATGTGACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.36
11 13 0.52
12 3 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:19043679 original size:195 final size:195
Alignment explanation
Indices: 19043282--19043724 Score: 468
Period size: 195 Copynumber: 2.3 Consensus size: 195
19043272 GAAACCGACG
* * * * * *
19043282 CGATGGCTGAGGTACCGCATATGTTGCGAGCCCACAACAGCTCGTTTGAGCAGTATCGTGAGTCA
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGTATCATGACTCA
* *
19043347 AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGGCCTACGATGGCTGAGATTTATGCATAAGT
66 AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGT
* * * * * * *
19043412 GCATATTTTTGACAGCTCGTGTGAGCAGTATCATTAGGGAACAGTTATATGCACAGATATCGTTT
131 GCATACTCTCGACAGCTCGTGTGAGCAGCATCATTAGGGAACAGTTATATACACAGACACCGTTT
* * * *
19043477 CGATGGCTGAGGTACCTCATATGTTACGAGTCCTCGATAGCTCGTGTGAGCAGTATCATGACTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGTATCATGACTCA
* ** * * * * * * *
19043542 GGAAA-GAGGTATGGATCCTA-AATGGATTATAGGCCCTACGATGGCTGGGA-CTATGCTTTA-T
66 AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGT
* * *
19043603 GCATACTCTCGACAGCTCGTGTGAGCAGCATCGTTAGGGAATAGTTTATAGTACAGACAGGCACC
131 GCATACTCTCGACAGCTCGTGTGAGCAGCATCATTAGGGAACAG-TTATA-TAC--ACAGACACC
19043668 GTATT
192 GT-TT
* *
19043673 -GATGGCT-AGGGTATCGCATACGTTGC-ATGTCCTCGACAGCTCGTGTGAGCAG
1 CGATGGCTGA-GGTACCGCATATGTTGCGA-GTCCTCGACAGCTCGTGTGAGCAG
19043725 CATCGAGTAC
Statistics
Matches: 204, Mismatches: 37, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
191 39 0.19
192 12 0.06
193 29 0.14
194 12 0.06
195 110 0.54
196 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (195 bp):
CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGTATCATGACTCA
AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGT
GCATACTCTCGACAGCTCGTGTGAGCAGCATCATTAGGGAACAGTTATATACACAGACACCGTTT
Found at i:19049705 original size:13 final size:13
Alignment explanation
Indices: 19049678--19049716 Score: 62
Period size: 12 Copynumber: 3.0 Consensus size: 13
19049668 ATTTATTTAT
19049678 TAAATAAATATAAA
1 TAAATAAA-ATAAA
19049692 TAAATAAAATAAA
1 TAAATAAAATAAA
19049705 T-AATAAAATAAA
1 TAAATAAAATAAA
19049717 CTTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 11 0.44
13 6 0.24
14 8 0.32
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:19051024 original size:31 final size:32
Alignment explanation
Indices: 19050984--19051046 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
19050974 ACTTAATTTT
*
19050984 ACCCAATTTAGTGTCTATTTTCTCAAAATAAA
1 ACCCAATTTAGTGTCTATTTTCACAAAATAAA
*
19051016 ACCC-ATTTAGTGTCTGTTTTCACAAAATAAA
1 ACCCAATTTAGTGTCTATTTTCACAAAATAAA
19051047 CCCTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (32 bp):
ACCCAATTTAGTGTCTATTTTCACAAAATAAA
Found at i:19051127 original size:12 final size:11
Alignment explanation
Indices: 19051086--19051132 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
19051076 ATCTTTTTCT
*
19051086 TTATTTTTGTA
1 TTATTTTTTTA
*
19051097 TTATTTTATTTG
1 TTATTTT-TTTA
19051109 TTA-TTTTTTA
1 TTATTTTTTTA
19051119 TTGATTTTTTTA
1 TT-ATTTTTTTA
19051131 TT
1 TT
19051133 CATTCATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 5 0.17
11 11 0.37
12 14 0.47
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:19051190 original size:25 final size:23
Alignment explanation
Indices: 19051160--19051224 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
19051150 TATGCTCACC
* *
19051160 TTTATTTTATTTTTTTGGTTTTT
1 TTTATTTTATTTTTTTGATTCTT
* *
19051183 TGTGTATTTCATTTGTTTGATTCTT
1 T-T-TATTTTATTTTTTTGATTCTT
19051208 TTTATTTTATGTTTTTT
1 TTTATTTTAT-TTTTTT
19051225 TTTGCATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
23 8 0.24
24 7 0.21
25 18 0.55
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.75
Consensus pattern (23 bp):
TTTATTTTATTTTTTTGATTCTT
Found at i:19056201 original size:111 final size:112
Alignment explanation
Indices: 19055957--19056263 Score: 359
Period size: 111 Copynumber: 2.8 Consensus size: 112
19055947 ACCTTTAACG
* * * *
19055957 TTTTCATTTATGCGAGTTTTGCCTCCAATAAAATTCAATTTTGTCCACCTTCCAACCCTGTTTAA
1 TTTTCATTAATGCGAGTTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCCTGTTCAA
** * * * *
19056022 GCACGTTTGCATTGAAATAATGATTAGTTGACTAATATTTTTTAATC
66 GCATTTTTGCATTGAAATAACGACTAATGGACTAATATTTTTTAATC
* ** * ***
19056069 TTTTCATTCACACGAGTTTTGCCTCCAATAAAATTCAATTTTATCCGCCTTGTGA-CCTGTTCAA
1 TTTTCATTAATGCGAGTTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCCTGTTCAA
* *
19056133 GCATTTTTGCATCGAAATAACGGCTAATGGA-TCAATGA-TTTTTAATC
66 GCATTTTTGCATTGAAATAACGACTAATGGACT-AAT-ATTTTTTAATC
* * * * *
19056180 TTTTCATTAATGCGAGCTTTGCCTCCAATACAATTTAATTTTATCCACCTTACAATCCTATTCAA
1 TTTTCATTAATGCGAGTTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCCTGTTCAA
19056245 GCATTTTTGCATTGAAATA
66 GCATTTTTGCATTGAAATA
19056264 GTGGTTAGTG
Statistics
Matches: 163, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
110 1 0.01
111 88 0.54
112 74 0.45
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.40
Consensus pattern (112 bp):
TTTTCATTAATGCGAGTTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCCTGTTCAA
GCATTTTTGCATTGAAATAACGACTAATGGACTAATATTTTTTAATC
Found at i:19056750 original size:49 final size:49
Alignment explanation
Indices: 19056657--19056874 Score: 161
Period size: 49 Copynumber: 4.4 Consensus size: 49
19056647 AGGAAACGTT
* ** * *
19056657 GAATCATATACCCTAGAAGACATGAAGGGAAATATTGAAACCACAAC-ATC
1 GAATCTTATACCCTAG-AGATGTGAAGGGAAAGATTGAAGCCACAACGA-C
* *
19056707 GAATCTTATACCCTAGAGATGCGAAAGGAAAGATTGAAGCCACAACGAC
1 GAATCTTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAACGAC
* * * * * ** * *
19056756 GGACCTTATACCCTAGAGATGTGGAGGGAAAGGTTGAAGTCGTAATGGC
1 GAATCTTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAACGAC
* * * * ** * * *
19056805 AAACCTTATATCTTAGAGATGTGAAAAGAAAGATTGAAACCGCAACGAT
1 GAATCTTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAACGAC
*
19056854 AAATCTTATACCC-AGAAGATG
1 GAATCTTATACCCTAG-AGATG
19056875 AGGAGAAGCA
Statistics
Matches: 131, Mismatches: 35, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
48 2 0.02
49 113 0.86
50 16 0.12
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.20
Consensus pattern (49 bp):
GAATCTTATACCCTAGAGATGTGAAGGGAAAGATTGAAGCCACAACGAC
Found at i:19056891 original size:98 final size:97
Alignment explanation
Indices: 19056711--19056892 Score: 206
Period size: 98 Copynumber: 1.9 Consensus size: 97
19056701 AACATCGAAT
* * **
19056711 CTTATACCCTAGAGATGCGAAAGGAAAGATTGAAGCCACAACGACGGACCTTATACCCTAGAGAT
1 CTTATACCCTAGAGATGCGAAAAGAAAGATTGAAACCACAACGACAAACCTTATACCCTAGAGAT
* *
19056776 GTGGAGGGAAAGGTTGAAGTCGTAATGGCAAAC
66 GAGGA-GGAAAGATTGAAGTCGTAATGGCAAAC
* * * * * *
19056809 CTTATATCTTAGAGATGTGAAAAGAAAGATTGAAACCGCAACGATAAATCTTATACCC-AGAAGA
1 CTTATACCCTAGAGATGCGAAAAGAAAGATTGAAACCACAACGACAAACCTTATACCCTAG-AGA
19056873 TGAGGA-GAAGCAGATTGAAG
65 TGAGGAGGAA--AGATTGAAG
19056893 CCGCAAAGGC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
96 3 0.04
97 2 0.03
98 64 0.93
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (97 bp):
CTTATACCCTAGAGATGCGAAAAGAAAGATTGAAACCACAACGACAAACCTTATACCCTAGAGAT
GAGGAGGAAAGATTGAAGTCGTAATGGCAAAC
Found at i:19056936 original size:42 final size:42
Alignment explanation
Indices: 19056877--19056992 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 42
19056867 AGAAGATGAG
* *
19056877 GAGAAGCAGATTGAAGCCGCAAAGGCGAATCTC-TAGACTGTA
1 GAGAAGCAGATTGAAGCCGCAAAGGCGAATCTCAAAG-CTATA
* **
19056919 GAGAAGCAGATTGAAGCCACAAAGGTTAATCTCAAAGCTATA
1 GAGAAGCAGATTGAAGCCGCAAAGGCGAATCTCAAAGCTATA
* * *
19056961 AAG-GGCTAGATTGAAGCTGCAAAGGCGAATCT
1 GAGAAGC-AGATTGAAGCCGCAAAGGCGAATCT
19056993 TACGTCCTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 57 0.93
43 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (42 bp):
GAGAAGCAGATTGAAGCCGCAAAGGCGAATCTCAAAGCTATA
Found at i:19057465 original size:101 final size:101
Alignment explanation
Indices: 19057215--19057457 Score: 314
Period size: 101 Copynumber: 2.4 Consensus size: 101
19057205 AGAATGGAGA
* ** * * *
19057215 GAAGTTACAACATCAAATCCCATA-CCCTTAAGTTGTAGTGGGTCGGATTAAAGTCATGAAAGCA
1 GAAGCTACAACATCAAATCTTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGTCATGAAAGAA
*
19057279 AATCTTTATCTCTCTAAAGATTTAGTAGAGCAAGAT
66 AATCTTTATCTCTCTAAAGATTCAGTAGAGCAAGAT
* * * *
19057315 GAAGCTATAGA-ACCAAATCTTATACCCTTGAAGTTGCAGTGGGTCGGATTAAAGTCATGAAAGA
1 GAAGCTACA-ACATCAAATCTTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGTCATGAAAGA
* *
19057379 AAATCTTTATCT-TGTTAAAG-TTGCAGTGGAGCAAGAT
65 AAATCTTTATCTCT-CTAAAGATT-CAGTAGAGCAAGAT
19057416 GAAGCTACAACATCAAATCTTATACCCCTAAAGTTGCAGTGG
1 GAAGCTACAACATCAAATCTTATACCCCTAAAGTTGCAGTGG
19057458 ATTGGATTGA
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
100 21 0.17
101 101 0.83
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (101 bp):
GAAGCTACAACATCAAATCTTATACCCCTAAAGTTGCAGTGGGTCGGATTAAAGTCATGAAAGAA
AATCTTTATCTCTCTAAAGATTCAGTAGAGCAAGAT
Found at i:19057914 original size:90 final size:90
Alignment explanation
Indices: 19057780--19057956 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 90
19057770 AACAGTAAAT
* * * * *
19057780 CCTATATCCCTGGAGTTGTAGTGGATCGGATTGAAGATACGAAAGCAAATCCTTATCTCTTTGAA
1 CCTATACCCCTGAAGTTGCAGTGGATCGGATTAAAGATACGAAAGCAAATCCTTATCTCCTTGAA
*
19057845 GTTGCAGTAGAGCAGGATGAAGCTA
66 GTTGCAGTAGAGCAAGATGAAGCTA
* * *
19057870 CCTATACCCCTGAAGTTGCAGTGGGTCGGATTAAAG-TCATGAAAGCAAATCTTTATCTCCTTGA
1 CCTATACCCCTGAAGTTGCAGTGGATCGGATTAAAGAT-ACGAAAGCAAATCCTTATCTCCTTGA
*
19057934 AGTTGCAGTGGAGCAAGATGAAG
65 AGTTGCAGTAGAGCAAGATGAAG
19057957 TTGTAATACT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
89 1 0.01
90 75 0.99
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (90 bp):
CCTATACCCCTGAAGTTGCAGTGGATCGGATTAAAGATACGAAAGCAAATCCTTATCTCCTTGAA
GTTGCAGTAGAGCAAGATGAAGCTA
Found at i:19058322 original size:10 final size:10
Alignment explanation
Indices: 19058307--19058331 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19058297 CCATACAAGT
19058307 CCAAATAAGC
1 CCAAATAAGC
19058317 CCAAATAAGC
1 CCAAATAAGC
19058327 CCAAA
1 CCAAA
19058332 ACCTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (10 bp):
CCAAATAAGC
Found at i:19059536 original size:31 final size:31
Alignment explanation
Indices: 19059501--19059568 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
19059491 ACTTAATTTT
*
19059501 ACCCCATTTAGTGTCTATTTTCTCAAAATAA
1 ACCCCATTTAGTGTCTATTTTCACAAAATAA
* *
19059532 ACCCCATTTAGTGTTTGTTTTCACAAAATAA
1 ACCCCATTTAGTGTCTATTTTCACAAAATAA
19059563 ACCCCA
1 ACCCCA
19059569 CTATTTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.35
Consensus pattern (31 bp):
ACCCCATTTAGTGTCTATTTTCACAAAATAA
Found at i:19062071 original size:26 final size:29
Alignment explanation
Indices: 19062041--19062099 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
19062031 TACAACAACT
*
19062041 TTTTAC-CATTTTAAT-ATTT-TTTATAA
1 TTTTACTCATTTTAATAATTTCTTAATAA
* *
19062067 TTTTACTCTTTTTATTAATTTCTTAATAA
1 TTTTACTCATTTTAATAATTTCTTAATAA
19062096 TTTT
1 TTTT
19062100 TAATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 7 0.26
28 4 0.15
29 10 0.37
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTACTCATTTTAATAATTTCTTAATAA
Found at i:19062104 original size:10 final size:10
Alignment explanation
Indices: 19062049--19062107 Score: 52
Period size: 9 Copynumber: 6.1 Consensus size: 10
19062039 CTTTTTACCA
19062049 TTTTAAT-AT
1 TTTTAATAAT
*
19062058 TTTTTATAA-
1 TTTTAATAAT
* *
19062067 TTTTACT-CT
1 TTTTAATAAT
*
19062076 TTTTATTAAT
1 TTTTAATAAT
19062086 TTCTTAATAAT
1 TT-TTAATAAT
19062097 TTTTAATAAT
1 TTTTAATAAT
19062107 T
1 T
19062108 ATTTCTCAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
9 17 0.44
10 13 0.33
11 9 0.23
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:19063566 original size:24 final size:21
Alignment explanation
Indices: 19063537--19063607 Score: 54
Period size: 25 Copynumber: 3.0 Consensus size: 21
19063527 ATTAATCCAC
19063537 ATTTAATTAGTACAAATATATAT
1 ATTTAATTA-TA-AAATATATAT
19063560 ATTTTAAAATTATAAGAATATAT-T
1 A-TTT--AATTATAA-AATATATAT
*
19063584 ATTTAATAATTAAAAATATATAT
1 ATTTAATTA-T-AAAATATATAT
19063607 A
1 A
19063608 AAATCTAGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
21 4 0.10
22 8 0.20
23 8 0.20
24 6 0.15
25 9 0.22
26 5 0.12
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTTAATTATAAAATATATAT
Found at i:19065596 original size:16 final size:17
Alignment explanation
Indices: 19065575--19065606 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19065565 CCCAATGCAT
19065575 TTTCATATTA-ATTTTA
1 TTTCATATTATATTTTA
19065591 TTTCATATTATATTTT
1 TTTCATATTATATTTT
19065607 GCATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTCATATTATATTTTA
Found at i:19070430 original size:555 final size:555
Alignment explanation
Indices: 19069379--19070488 Score: 1925
Period size: 555 Copynumber: 2.0 Consensus size: 555
19069369 CAAGAAGTTT
*
19069379 ACACCAGATCTCCGTGAGTGCACAGCTGAACTATAACAAACTTTTACAGCTGCAATTGGATCTGG
1 ACACCAGATCTCCGTGAGTGCACAGCTGAACTATAACAAACTTTTACAGCTGCAATTGGATCTAG
* *
19069444 GTCTGAGAAGAGAAAAGGTTTACCATTCTTGAAGCCTATAAATATAGGAGAAAAGATGAAGAAAA
66 ATCTGAGAAGAGAAAAGGTTTACCATTCTTGAAGCCTATAAATAGAGGAGAAAAGATGAAGAAAA
19069509 ATATCAAGAGGGAAGAAATTAAATCTACAATTACTTTGTGTTTTTGAAGTTTTACTGGAGATCAG
131 ATATCAAGAGGGAAGAAATTAAATCTACAATTACTTTGTGTTTTTGAAGTTTTACTGGAGATCAG
*
19069574 TGAGCTGATTGAGCAGACGAGCAATAACTCCTGACGAGGAGTGCTTGGTGCAGGCACAAGAGGAG
196 TGAGCTGATTGAGCAGACGAGCAACAACTCCTGACGAGGAGTGCTTGGTGCAGGCACAAGAGGAG
*
19069639 CGGTTAAGGAATAGTTCTAATAGTCTAAAGATAGTAAGCTTCAATGTATTTGTTGACCCCTCTTT
261 CGGTTAAGGAATAGTCCTAATAGTCTAAAGATAGTAAGCTTCAATGTATTTGTTGACCCCTCTTT
*
19069704 TATGCTGATGGATTATTATTCATAATTGAATGGATATGGGAATATCTTTCAATATTAGATTACTT
326 TATGCTGATGGATTATTATTCATAATTGAATGAATATGGGAATATCTTTCAATATTAGATTACTT
* *
19069769 TTATTCTTATTTAATTCTTCTCATATGTTTATTCTTGGACTTAACTGCATTAAACACGAGAGTGG
391 TGATTCTTATTTAATTCTTCTCATATGTTTATTCTTGGACTTAACTGCATTAAACACGAGAGTAG
* * *
19069834 AATTGCAGTTTACCGACATTGAGAGATGCGATGACAAGTTAGGTTAACAAGCAAGTCAGCGAGAG
456 AATTGCAGTCTACCGACATCGAGAGATGCGATGACAAGTTAGGTTAACAAGCAAGTCAGCAAGAG
19069899 CTGCTTGGGATTAGAAGAGATTCTATCACTTGTTC
521 CTGCTTGGGATTAGAAGAGATTCTATCACTTGTTC
** * * * * *
19069934 ACACCAGATCTGTGTGAGTGCATAGTTGGACTGTAACAAACTTTTACAGCTGCAATTGTATCTAG
1 ACACCAGATCTCCGTGAGTGCACAGCTGAACTATAACAAACTTTTACAGCTGCAATTGGATCTAG
19069999 ATCTGAGAAGA-AAGAAGGTTTACCATTCTTGAAGCCTATAAATAGAGGAGAAAAGATGAAGAAA
66 ATCTGAGAAGAGAA-AAGGTTTACCATTCTTGAAGCCTATAAATAGAGGAGAAAAGATGAAGAAA
* * *
19070063 AATATCAAGAGGGAAGAAATTAAATCTGCAATTACTTTGTGTTTTTGAAGTTTTATTGGAGTTCA
130 AATATCAAGAGGGAAGAAATTAAATCTACAATTACTTTGTGTTTTTGAAGTTTTACTGGAGATCA
19070128 GTGAGCTGATTGAGCAGACGAGCAACAACTCCTGACGAGGAGTGCTTGGTGCAGGCACAAGAGGA
195 GTGAGCTGATTGAGCAGACGAGCAACAACTCCTGACGAGGAGTGCTTGGTGCAGGCACAAGAGGA
** * *
19070193 GTTGTTAAGGAATAGTCCTAGTAGTCTAAAGATAGTAAGCTTCGATGTATTTGTTGACCCCTCTT
260 GCGGTTAAGGAATAGTCCTAATAGTCTAAAGATAGTAAGCTTCAATGTATTTGTTGACCCCTCTT
*
19070258 TTATGCTGATGGATTATTATTGATAATTGAATGAATATGGGAATATCTTTCAATATTAGATTACT
325 TTATGCTGATGGATTATTATTCATAATTGAATGAATATGGGAATATCTTTCAATATTAGATTACT
* * *
19070323 TTGATTCTTATTTAATTCTTTTCATCTGTTTATTCTTGGACTTAACTGTATTAAACACGAGAGTA
390 TTGATTCTTATTTAATTCTTCTCATATGTTTATTCTTGGACTTAACTGCATTAAACACGAGAGTA
* *
19070388 GAATTGCAGTCTACCGACATCGAGAGATGCGGTGATAAGTTAGGTTAACAAGCAAGTCAGCAAGA
455 GAATTGCAGTCTACCGACATCGAGAGATGCGATGACAAGTTAGGTTAACAAGCAAGTCAGCAAGA
19070453 GCTGCTTGGGATTAGAAGAGATTCTATCACTTGTTC
520 GCTGCTTGGGATTAGAAGAGATTCTATCACTTGTTC
19070489 TTAAGTGCAC
Statistics
Matches: 523, Mismatches: 31, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
554 2 0.00
555 521 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (555 bp):
ACACCAGATCTCCGTGAGTGCACAGCTGAACTATAACAAACTTTTACAGCTGCAATTGGATCTAG
ATCTGAGAAGAGAAAAGGTTTACCATTCTTGAAGCCTATAAATAGAGGAGAAAAGATGAAGAAAA
ATATCAAGAGGGAAGAAATTAAATCTACAATTACTTTGTGTTTTTGAAGTTTTACTGGAGATCAG
TGAGCTGATTGAGCAGACGAGCAACAACTCCTGACGAGGAGTGCTTGGTGCAGGCACAAGAGGAG
CGGTTAAGGAATAGTCCTAATAGTCTAAAGATAGTAAGCTTCAATGTATTTGTTGACCCCTCTTT
TATGCTGATGGATTATTATTCATAATTGAATGAATATGGGAATATCTTTCAATATTAGATTACTT
TGATTCTTATTTAATTCTTCTCATATGTTTATTCTTGGACTTAACTGCATTAAACACGAGAGTAG
AATTGCAGTCTACCGACATCGAGAGATGCGATGACAAGTTAGGTTAACAAGCAAGTCAGCAAGAG
CTGCTTGGGATTAGAAGAGATTCTATCACTTGTTC
Found at i:19073564 original size:43 final size:43
Alignment explanation
Indices: 19073503--19073748 Score: 377
Period size: 43 Copynumber: 5.7 Consensus size: 43
19073493 CCGCAAAAAA
*
19073503 TAGCGGCGCTTT-TCCCACAAGCGCCGCTAAAGGCCATGGTCTT
1 TAGCGGCGCTTTCT-CCACAAGCGCCGCTAAAGGCCATGTTCTT
19073546 TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
1 TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
* *
19073589 TAGCGACGCTTTCTCCCACAAGCGCCGTTAAAGGCCATGTTCTT
1 TAGCGGCGCTTTCT-CCACAAGCGCCGCTAAAGGCCATGTTCTT
*
19073633 TAGCGGCGCTTTCTCCACAAGCGTCGCTAAAGGCCATGTTCTT
1 TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
* * * *
19073676 TAGCGACGCTTTCTCCACAAGCACCGTTAAAGGCCATGTTCAT
1 TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
* *
19073719 TAGCAGCGCTTTCTCCAAAAGCGCCGCTAA
1 TAGCGGCGCTTTCTCCACAAGCGCCGCTAA
19073749 TATAACAGAT
Statistics
Matches: 185, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
43 143 0.77
44 42 0.23
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (43 bp):
TAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
Found at i:19073648 original size:87 final size:87
Alignment explanation
Indices: 19073503--19073748 Score: 406
Period size: 87 Copynumber: 2.9 Consensus size: 87
19073493 CCGCAAAAAA
* * *
19073503 TAGCGGCGCTTT-TCCCACAAGCGCCGCTAAAGGCCATGGTCTTTAGCGGCGCTTTCTCCACAAG
1 TAGCGACGCTTTCTCCCACAAGCGCCGTTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAG
19073567 CGCCGCTAAAGGCCATGTTCTT
66 CGCCGCTAAAGGCCATGTTCTT
19073589 TAGCGACGCTTTCTCCCACAAGCGCCGTTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAG
1 TAGCGACGCTTTCTCCCACAAGCGCCGTTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAG
*
19073654 CGTCGCTAAAGGCCATGTTCTT
66 CGCCGCTAAAGGCCATGTTCTT
* * * *
19073676 TAGCGACGCTTTCT-CCACAAGCACCGTTAAAGGCCATGTTCATTAGCAGCGCTTTCTCCAAAAG
1 TAGCGACGCTTTCTCCCACAAGCGCCGTTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAG
19073740 CGCCGCTAA
66 CGCCGCTAA
19073749 TATAACAGAT
Statistics
Matches: 150, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 65 0.43
87 85 0.57
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (87 bp):
TAGCGACGCTTTCTCCCACAAGCGCCGTTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAG
CGCCGCTAAAGGCCATGTTCTT
Found at i:19073669 original size:130 final size:129
Alignment explanation
Indices: 19073503--19073744 Score: 380
Period size: 130 Copynumber: 1.9 Consensus size: 129
19073493 CCGCAAAAAA
*
19073503 TAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGGTCTTTAGCGGCGCTTTCTCCACAAGC
1 TAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGGTCTTTAGCGACGCTTTCTCCACAAGC
* * *
19073568 GCCGCTAAAGGCCATGTTCTTTAGC-GACGCTTTCTCCCACAAGCGCCGTTAAAGGCCATGTTCT
66 ACCGCTAAAGGCCATGTTCATTAGCAG-CGCTTTCT-CCAAAAGCGCCGTTAAAGGCCATGTTCT
19073632 T
129 T
* *
19073633 TAGCGGCGC-TTTCTCCACAAGCGTCGCTAAAGGCCATGTTCTTTAGCGACGCTTTCTCCACAAG
1 TAGCGGCGCTTTTC-CCACAAGCGCCGCTAAAGGCCATGGTCTTTAGCGACGCTTTCTCCACAAG
*
19073697 CACCGTTAAAGGCCATGTTCATTAGCAGCGCTTTCTCCAAAAGCGCCG
65 CACCGCTAAAGGCCATGTTCATTAGCAGCGCTTTCTCCAAAAGCGCCG
19073745 CTAATATAAC
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
129 15 0.15
130 87 0.84
131 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (129 bp):
TAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGGCCATGGTCTTTAGCGACGCTTTCTCCACAAGC
ACCGCTAAAGGCCATGTTCATTAGCAGCGCTTTCTCCAAAAGCGCCGTTAAAGGCCATGTTCTT
Found at i:19074080 original size:21 final size:21
Alignment explanation
Indices: 19074047--19074098 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
19074037 TTGTAGCCTC
* *
19074047 TGCTTCCTTCGCTTGCCTCGA
1 TGCTGCCTCCGCTTGCCTCGA
*
19074068 TGCTGCCTCCGCTTGCCTCGC
1 TGCTGCCTCCGCTTGCCTCGA
19074089 TGCTGCCTCC
1 TGCTGCCTCC
19074099 ACTTTAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.44, G:0.21, T:0.33
Consensus pattern (21 bp):
TGCTGCCTCCGCTTGCCTCGA
Found at i:19074228 original size:66 final size:65
Alignment explanation
Indices: 19074084--19074240 Score: 242
Period size: 66 Copynumber: 2.4 Consensus size: 65
19074074 CTCCGCTTGC
* * * *
19074084 CTCGCTGCTGCCTCCACTTTAAGTTGTAGGTGGAGTTCTTCATATTTTTTTGAGACTCTGCTTCT
1 CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTGAGACTCTGCTTCT
* * *
19074149 CTCACTGCAGCCTCCTCTTTAAGTTTTAGATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTC
1 CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATA-TTTTTTTGAGACTCTGCTTC
19074214 T
65 T
19074215 CTCGCTGCAGCCTCCTCTTTAAGTTG
1 CTCGCTGCAGCCTCCTCTTTAAGTTG
19074241 AGCAATTTGC
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 38 0.46
66 44 0.54
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (65 bp):
CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTGAGACTCTGCTTCT
Found at i:19079704 original size:31 final size:33
Alignment explanation
Indices: 19079662--19079728 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
19079652 TTGATTTAAA
19079662 TTTAAAA-ATATATATTAGTGACAACATTTTAC
1 TTTAAAATATATATATTAGTGACAACATTTTAC
19079694 TTTAAAATATATATATTAGTGACAACATTTTAC
1 TTTAAAATATATATATTAGTGACAACATTTTAC
19079727 TT
1 TT
19079729 AAATATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
TTTAAAATATATATATTAGTGACAACATTTTAC
Found at i:19079784 original size:22 final size:21
Alignment explanation
Indices: 19079748--19079884 Score: 93
Period size: 22 Copynumber: 6.3 Consensus size: 21
19079738 GGTTCTTTTT
*
19079748 ATTAA-TTAAATAATTAAATA
1 ATTAATTTATATAATTAAATA
*
19079768 TTTAATTTAGTATAATTAAATA
1 ATTAATTTA-TATAATTAAATA
*
19079790 ATTAATTAAT-TAATTAAAATTA
1 ATTAATTTATATAATT-AAA-TA
**
19079812 ATTAATTATATATAATTATTTA
1 ATTAATT-TATATAATTAAATA
* *
19079834 CGA-AAATATTTTA-AATTAAATA
1 --ATTAAT-TTATATAATTAAATA
* *
19079856 TTTAATTAAATATAATTAAATA
1 ATTAATT-TATATAATTAAATA
19079878 ATTAATT
1 ATTAATT
19079885 GATACTGTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
20 10 0.11
21 12 0.13
22 51 0.57
23 9 0.10
24 7 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (21 bp):
ATTAATTTATATAATTAAATA
Found at i:19079797 original size:4 final size:4
Alignment explanation
Indices: 19079748--19079829 Score: 69
Period size: 4 Copynumber: 20.0 Consensus size: 4
19079738 GGTTCTTTTT
* * * * *
19079748 ATTA ATTA AATA ATTA AATA TTTA ATTTA GTATA ATTA AATA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA AT-TA ATTA ATTA ATTA ATTA
19079798 ATTA ATTA A--A ATTA ATTA ATTA TATATA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA -AT-TA ATTA
19079830 TTTACGAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
2 2 0.03
4 48 0.77
5 10 0.16
6 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:19079828 original size:18 final size:18
Alignment explanation
Indices: 19079787--19079829 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19079777 GTATAATTAA
19079787 ATAATTAATTAATTAATT
1 ATAATTAATTAATTAATT
*
19079805 AAAATTAATTAATT-ATAT
1 ATAATTAATTAATTAAT-T
19079823 ATAATTA
1 ATAATTA
19079830 TTTACGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATTAATTAATTAATT
Found at i:19079873 original size:10 final size:11
Alignment explanation
Indices: 19079847--19079884 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
19079837 AAATATTTTA
19079847 AATTAAATATTT
1 AATTAAATA-TT
19079859 AATTAAATA-T
1 AATTAAATATT
19079869 AATTAAATAATT
1 AATTAAAT-ATT
19079881 AATT
1 AATT
19079885 GATACTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
12 14 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTAAATATT
Found at i:19079954 original size:112 final size:108
Alignment explanation
Indices: 19079807--19081206 Score: 1795
Period size: 112 Copynumber: 12.8 Consensus size: 108
19079797 AATTAATTAA
* ***
19079807 AATTAATTAA-TTATATATAATTATTTACGAAAATATTTTAAATTAAATATTTAATTAAATATAA
1 AATTAAATAATTTA-ATATAATTATTTACTTTAATATTTTAAATTAAATA-TT--TTAAAT-TAA
**
19079871 TTAAATAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
61 TTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * *
19079919 AATTAATTAATTTAATATAATTATTCACTTTAATATAAATTAAATAATTAAATATTTTAAATTAA
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT---TT-TA-AATTAAATATTTTAAATTAA
* * * *
19079984 TTATTTAATTAATTTAAAATATTTACAATTAAATACATAATTAAACAT
61 TTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* *
19080032 AATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTTAAATTAAT
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT--TT-TA-AATTAAATATTTTAAATTAAT
* *
19080097 TATTTAATTAATTGATACTGTTTATATTTAAATACATAATTAAACAT
62 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
19080144 AATTAAATAATTTAATATAATTATTTACTTTAATA---T-AATTAAATATTTTAAATTAATTATT
1 AATTAAATAATTTAATATAATTATTTACTTTAATATTTTAAATTAAATATTTTAAATTAATTATT
* *
19080205 TAATTACTTGATATTGTTTACAATTAAATACATAATTAAACAT
66 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* *
19080248 AATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTTAAATTAAT
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT--TT-TA-AATTAAATATTTTAAATTAAT
* * * *
19080313 TATTTAATTAATTTAAAATATTTACAATTAAATACATAATTAAACAT
62 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
*
19080360 AATTAAATAATTTAATATAATTATTTACTTTAATA---T-AATTAAATATTTTAAATTAATTAGT
1 AATTAAATAATTTAATATAATTATTTACTTTAATATTTTAAATTAAATATTTTAAATTAATTATT
*
19080421 TAATTACTTGATACTGTTTACAATTAAATACATAATTAAACAT
66 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* *
19080464 AATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAATATTTTAAATTAAT
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT--TT-TA-AATTAAATATTTTAAATTAAT
*
19080529 TATTTAATTAATTGATACTGTTTATAATTAAATACATAATTAAACAT
62 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
*
19080576 AATTAAATAATTTAATATAATTATTTACTTTAATA---T-AATTAAATTTTTTAAATTAATTATT
1 AATTAAATAATTTAATATAATTATTTACTTTAATATTTTAAATTAAATATTTTAAATTAATTATT
*
19080637 TAATTAATTGATACTATTTACAATTAAATACATAATTAAACAT
66 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * * *
19080680 AATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTATTAAATTAAA
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT--TT-TA-AATTAAATATTTTAAATTAAT
19080745 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
62 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* *
19080792 AATTAAATAATTTAATATAATTATTTAGTTTAATATAATTACATAATTAAATATTTTAAATTAAT
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT--TT-TA-AATTAAATATTTTAAATTAAT
*
19080857 TATTTAATTAATTGATACTGTTT---A-T-AAT---TAA--ATACAT
62 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
*
19080894 AATTAAATAATTTAATATAATTATTTACTTTAATATAATTACATAATTAAATATTTTAAATTAAT
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT--TT-TA-AATTAAATATTTTAAATTAAT
*
19080959 TATTTAATTAATTGATACTATTTACAATTAAATACATAATTAAACAT
62 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* * * *
19081006 AATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTATTAAATTAAA
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT--TT-TA-AATTAAATATTTTAAATTAAT
* *
19081071 TATTTAATTAATTGGTACTGTTTATAATTAAATACATAATTAAACAT
62 TATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
* *
19081118 AATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCA-TTCAAATTAA
1 AATTAAATAATTTAATATAATTATTTACTTTAATAT--TT-TA-AATTAAAT-ATTTTAAATTAA
*
19081182 ATATTTAATTAATTGATACTGTTTA
61 TTATTTAATTAATTGATACTGTTTA
19081207 TAATAATATA
Statistics
Matches: 1171, Mismatches: 76, Indels: 82
0.88 0.06 0.06
Matches are distributed among these distances:
102 91 0.08
104 297 0.25
105 1 0.00
106 1 0.00
107 6 0.01
108 1 0.00
109 1 0.00
110 3 0.00
112 669 0.57
113 81 0.07
114 6 0.01
115 2 0.00
116 3 0.00
117 9 0.01
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (108 bp):
AATTAAATAATTTAATATAATTATTTACTTTAATATTTTAAATTAAATATTTTAAATTAATTATT
TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACAT
Found at i:19079980 original size:22 final size:22
Alignment explanation
Indices: 19079954--19080095 Score: 62
Period size: 22 Copynumber: 6.4 Consensus size: 22
19079944 CACTTTAATA
19079954 TAAATTAAATAATTAAATATTT
1 TAAATTAAATAATTAAATATTT
* * *
19079976 TAAATTAATTATTTAATTAATTT
1 TAAATTAAATAATTAAAT-ATTT
* ** * **
19079999 AAAATATTTACAATTAAATA-CA
1 TAAAT-TAAATAATTAAATATTT
*
19080021 T-AATTAAACATAATTAAATAATT
1 TAAATT-AA-ATAATTAAATATTT
**
19080044 T-AA-T--ATAATTATTTAGTTT
1 TAAATTAAATAATTAAATA-TTT
19080063 AATATAATTAAATAATTAAATATTT
1 --TA-AATTAAATAATTAAATATTT
19080088 TAAATTAA
1 TAAATTAA
19080096 TTATTTAATT
Statistics
Matches: 84, Mismatches: 23, Indels: 26
0.63 0.17 0.20
Matches are distributed among these distances:
18 9 0.11
19 2 0.02
20 1 0.01
21 4 0.05
22 32 0.38
23 16 0.19
24 8 0.10
25 3 0.04
26 9 0.11
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (22 bp):
TAAATTAAATAATTAAATATTT
Found at i:19080026 original size:58 final size:56
Alignment explanation
Indices: 19079847--19080920 Score: 485
Period size: 58 Copynumber: 19.5 Consensus size: 56
19079837 AAATATTTTA
** * *
19079847 AATTAAATATTTAATTAAATATAATTAAATAATTAATTGATACTGTTTACAATTAAATACAT
1 AATTAAATA-TT--TTAAAT-TAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* ** * *
19079909 AATTAAACA---T-AATTAATTAATTTAATATAATTATTCA-CTTT-AATATAAATTAAAT
1 AATTAAATATTTTAAATTAATT-ATTTAAT-TAATT-TAAATGTTTAAAT-TAAA-TACAT
*
19079964 AATTAAATATTTTAAATTAATTATTTAATTAATTTAAAATATTTACAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTT-AAATGTTTA-AATTAAATACAT
* * * * *
19080022 AATTAAACATAATTAAA-TAATTTAATATAATT-ATTT--A-GTTT-AATATAATTAAAT
1 AATTAAATAT-TTTAAATTAA-TT-ATTTAATTAATTTAAATGTTTAAAT-TAAATACAT
* * *
19080076 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTATATTTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* * * *
19080134 AATTAAACA---T-AATTAAATAATTTAATATAA-TT--A--TTT-ACTTTAAT--AT
1 AATTAAATATTTTAAATT-AATTATTTAAT-TAATTTAAATGTTTAAATTAAATACAT
* * *
19080180 AATTAAATATTTTAAATTAATTATTTAATTACTTGATATTGTTTACAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* * * * *
19080238 AATTAAACATAATTAAA-TAATTTAATATAATT-ATTT--A-GTTT-AATATAATTAAAT
1 AATTAAATAT-TTTAAATTAA-TT-ATTTAATTAATTTAAATGTTTAAAT-TAAATACAT
*
19080292 AATTAAATATTTTAAATTAATTATTTAATTAATTTAAAATATTTACAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTT-AAATGTTTA-AATTAAATACAT
* * * *
19080350 AATTAAACA---T-AATTAAATAATTTAATATAA-TT--A--TTT-ACTTTAAT--AT
1 AATTAAATATTTTAAATT-AATTATTTAAT-TAATTTAAATGTTTAAATTAAATACAT
* * * *
19080396 AATTAAATATTTTAAATTAATTAGTTAATTACTTGATACTGTTTACAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* * * * *
19080454 AATTAAACATAATTAAA-TAATTTAATATAATT-ATTT--A-GTTT-AATATAATTAAAT
1 AATTAAATAT-TTTAAATTAA-TT-ATTTAATTAATTTAAATGTTTAAAT-TAAATACAT
* *
19080508 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTATAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* * * *
19080566 AATTAAACA---T-AATTAAATAATTTAATATAA-TT--A--TTT-ACTTTAAT--AT
1 AATTAAATATTTTAAATT-AATTATTTAAT-TAATTTAAATGTTTAAATTAAATACAT
* * * *
19080612 AATTAAATTTTTTAAATTAATTATTTAATTAATTGATACTATTTACAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* * * * * *
19080670 AATTAAACATAATTAAA-TAATTTAATATAATT-ATTT--A-CTTT-AATATAATTAAAT
1 AATTAAATAT-TTTAAATTAA-TT-ATTTAATTAATTTAAATGTTTAAAT-TAAATACAT
* * * * *
19080724 AATTAAATCTATTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* * * *
19080782 AATTAAACATAATTAAA-TAATTTAATATAATT-ATTT--A-GTTT-AATATAATTACAT
1 AATTAAATAT-TTTAAATTAA-TT-ATTTAATTAATTTAAATGTTTAAAT-TAAATACAT
* *
19080836 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTATAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
*
19080894 AATTAAATAATTT-AATATAATTATTTA
1 AATTAAATATTTTAAAT-TAATTATTTA
19080921 CTTTAATATA
Statistics
Matches: 762, Mismatches: 128, Indels: 248
0.67 0.11 0.22
Matches are distributed among these distances:
46 29 0.04
48 25 0.03
49 35 0.05
50 21 0.03
52 36 0.05
53 69 0.09
54 125 0.16
55 78 0.10
56 36 0.05
57 27 0.04
58 161 0.21
59 75 0.10
60 37 0.05
62 8 0.01
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (56 bp):
AATTAAATATTTTAAATTAATTATTTAATTAATTTAAATGTTTAAATTAAATACAT
Found at i:19080276 original size:216 final size:216
Alignment explanation
Indices: 19079847--19081206 Score: 2049
Period size: 216 Copynumber: 6.2 Consensus size: 216
19079837 AAATATTTTA
**
19079847 AATTAAATATTTAATTAAATATAATTAAATAATTAATTGATACTGTTTACAATTAAATACATAAT
1 AATTAAATA-TT--TTAAAT-TAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAAT
* *
19079912 TAAACATAATTAATTAATTTAATATAATTATTCACTTTAATATAAATTAAATAATTAAATATTTT
62 TAAACATAATTAAATAATTTAATATAATTATTTAC--T--T-T-AA-T--ATAATTAAATATTTT
* * * *
19079977 AAATTAATTATTTAATTAATTTAAAATATTTACAATTAAATACATAATTAAACATAATTAAATAA
118 AAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAA
*
19080042 TTTAATATAATTATTTAGTTTAATATAATTAAAT
183 TTTAATATAATTATTTACTTTAATATAATTAAAT
* *
19080076 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTATATTTAAATACATAATTAAA
1 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
19080141 CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATATTTTAAATTAATTATTT
66 CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATATTTTAAATTAATTATTT
* *
19080206 AATTACTTGATATTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATTA
131 AATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATTA
*
19080271 TTTAGTTTAATATAATTAAAT
196 TTTACTTTAATATAATTAAAT
* * * *
19080292 AATTAAATATTTTAAATTAATTATTTAATTAATTTAAAATATTTACAATTAAATACATAATTAAA
1 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
*
19080357 CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATATTTTAAATTAATTAGTT
66 CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATATTTTAAATTAATTATTT
*
19080422 AATTACTTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATTA
131 AATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATTA
*
19080487 TTTAGTTTAATATAATTAAAT
196 TTTACTTTAATATAATTAAAT
*
19080508 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTATAATTAAATACATAATTAAA
1 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
*
19080573 CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATTTTTTAAATTAATTATTT
66 CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATATTTTAAATTAATTATTT
*
19080638 AATTAATTGATACTATTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATTA
131 AATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATTA
19080703 TTTACTTTAATATAATTAAAT
196 TTTACTTTAATATAATTAAAT
* * *
19080724 AATTAAATCTATTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
1 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
*
19080789 CATAATTAAATAATTTAATATAATTATTTAGTTTAATATAATTACATAATTAAATATTTTAAATT
66 CATAATTAAATAATTTAATATAATTATTTA--CT--T-TAA-T--ATAATTAAATATTTTAAATT
*
19080854 AATTATTTAATTAATTGATACTGTTT---A-T-AAT---TAA--ATACATAATTAAATAATTTAA
123 AATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAA
*
19080909 TATAATTATTTACTTTAATATAATTACAT
188 TATAATTATTTACTTTAATATAATTAAAT
*
19080938 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTATTTACAATTAAATACATAATTAAA
1 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
19081003 CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTATTAAATT
66 CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATT--A-AA-T--AT-T-TTAAATT
* * *
19081068 AAATATTTAATTAATTGGTACTGTTTATAATTAAATACATAATTAAACATAATTAAATAATTTAA
123 AATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAA
19081133 TATAATTATTTACTTTAATATAATTAAAT
188 TATAATTATTTACTTTAATATAATTAAAT
* *
19081162 AATTAAATCA-TTCAAATTAAATATTTAATTAATTGATACTGTTTA
1 AATTAAAT-ATTTTAAATTAATTATTTAATTAATTGATACTGTTTA
19081207 TAATAATATA
Statistics
Matches: 1054, Mismatches: 50, Indels: 59
0.91 0.04 0.05
Matches are distributed among these distances:
206 6 0.01
208 2 0.00
209 5 0.00
210 2 0.00
212 3 0.00
213 1 0.00
214 170 0.16
216 617 0.59
217 1 0.00
218 3 0.00
219 8 0.01
220 3 0.00
221 5 0.00
222 4 0.00
223 1 0.00
224 132 0.13
225 74 0.07
226 6 0.01
228 2 0.00
229 9 0.01
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (216 bp):
AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
CATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATATTTTAAATTAATTATTT
AATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATTA
TTTACTTTAATATAATTAAAT
Found at i:19080319 original size:22 final size:22
Alignment explanation
Indices: 19080284--19080329 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
19080274 AGTTTAATAT
*
19080284 AATTAAATAATTAAATATTTTA
1 AATTAAATAATTAAATAATTTA
* * *
19080306 AATTAATTATTTAATTAATTTA
1 AATTAAATAATTAAATAATTTA
19080328 AA
1 AA
19080330 ATATTTACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTAAATAATTAAATAATTTA
Found at i:19080371 original size:46 final size:46
Alignment explanation
Indices: 19080316--19080478 Score: 112
Period size: 50 Copynumber: 3.3 Consensus size: 46
19080306 AATTAATTAT
*
19080316 TTAATTAATTTAAAATATTTACAATTAAATACATAATTAAACATAA
1 TTAAATAATTTAAAATATTTACAATTAAATACATAATTAAACATAA
* * * *
19080362 TTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATATTTTAAA-TTAA
1 TTAAATAATTT-A-A-AA-TATTTAC---AAT-TAAATACATA-ATTAAACATAA
* * * * *
19080416 TTAGTTAATTACTTGATACTGTTTACAATTAAATACATAATTAAACATAA
1 TTA---AA-TAATTTAAAATATTTACAATTAAATACATAATTAAACATAA
19080466 TTAAATAATTTAA
1 TTAAATAATTTAA
19080479 TATAATTATT
Statistics
Matches: 86, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
46 15 0.17
47 3 0.03
48 1 0.01
49 7 0.08
50 21 0.24
51 3 0.03
53 3 0.03
54 20 0.23
55 6 0.07
57 3 0.03
58 4 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (46 bp):
TTAAATAATTTAAAATATTTACAATTAAATACATAATTAAACATAA
Found at i:19081163 original size:36 final size:36
Alignment explanation
Indices: 19081004--19081195 Score: 128
Period size: 36 Copynumber: 5.2 Consensus size: 36
19080994 ATAATTAAAC
**
19081004 ATAATTAAATAATTTAATATAATTATTTACTTTAAT
1 ATAATTAAATAATTTAATATAATTAAATACTTTAAT
*
19081040 ATAATTAAATAATTAAATCTATTAAATTAAATA-TTTAAT
1 ATAATTAAATAATTTAA--TA-T-AATTAAATACTTTAAT
** * *
19081079 -TAATT-GGTACTGTT--TATAATTAAATACATAATTAAAC
1 ATAATTAAATAAT-TTAATATAATTAAATAC-T--TT-AAT
**
19081116 ATAATTAAATAATTTAATATAATTATTTACTTTAAT
1 ATAATTAAATAATTTAATATAATTAAATACTTTAAT
*
19081152 ATAATTAAATAATTAAATCATTCAAATTAAATA-TTTAAT
1 ATAATTAAATAATTTAAT-A-T--AATTAAATACTTTAAT
19081191 -TAATT
1 ATAATT
19081196 GATACTGTTT
Statistics
Matches: 121, Mismatches: 17, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
32 9 0.07
33 1 0.01
34 3 0.02
36 37 0.31
37 8 0.07
38 21 0.17
39 17 0.14
40 25 0.21
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (36 bp):
ATAATTAAATAATTTAATATAATTAAATACTTTAAT
Found at i:19085762 original size:41 final size:40
Alignment explanation
Indices: 19085535--19085945 Score: 409
Period size: 41 Copynumber: 10.0 Consensus size: 40
19085525 TTTAAATAAA
19085535 TTAGCGGCGCTTATGGGAAAGCGCCGCTAATG-CAC--ACCT
1 TTAGCGGCGCTTA-GGGAAAGCGCCGCTAATGAC-CTGACCT
* * *
19085574 TTAGCGACGCTTATTAGAAAAGCGCCGCTAATGACCTGACCT
1 TTAGCGGCGCTTA--GGGAAAGCGCCGCTAATGACCTGACCT
* *** * *
19085616 TTACCGGCGCTTTATATATAAGCGCCGCTAATGACCCGAACT
1 TTAGCGGCGC-TTAGGGA-AAGCGCCGCTAATGACCTGACCT
*
19085658 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACTTGACCTT
1 TTAGCGGCGCTT-AGGGAAAGCGCCGCTAATGACCTGACC-T
* * *
19085700 TTAGTGGCGCTTTAGGGAAAGCGTCGCTAATGATCAT-ACCT
1 TTAGCGGCGC-TTAGGGAAAGCGCCGCTAATGA-CCTGACCT
* *
19085741 TTAGCGGCGCTTGAGGTAAAGCGCCGCTAATTACCTGACCT
1 TTAGCGGCGCTT-AGGGAAAGCGCCGCTAATGACCTGACCT
* * *
19085782 TTAGCGACGCTTGAGGGAAAGCGCCGCTAATTACCCGACCT
1 TTAGCGGCGCTT-AGGGAAAGCGCCGCTAATGACCTGACCT
* * * *
19085823 TTAGTGGCGCATTAGAGAAAGCGCCGCTAATGACTTGAACT
1 TTAGCGGCGC-TTAGGGAAAGCGCCGCTAATGACCTGACCT
* *
19085864 TTAGCGGCGCTT-GTGATAAAGCGCCGCTAATGACATGACCT
1 TTAGCGGCGCTTAG-G-GAAAGCGCCGCTAATGACCTGACCT
*
19085905 TTAGCGGCGCTTATGGGTAAAGCGCCGCTAATGACCCGACC
1 TTAGCGGCGCTTA-GGG-AAAGCGCCGCTAATGACCTGACC
19085946 ACAAGCGCCG
Statistics
Matches: 311, Mismatches: 43, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
39 13 0.04
40 24 0.08
41 166 0.53
42 100 0.32
43 8 0.03
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.24
Consensus pattern (40 bp):
TTAGCGGCGCTTAGGGAAAGCGCCGCTAATGACCTGACCT
Found at i:19085889 original size:123 final size:123
Alignment explanation
Indices: 19085535--19085945 Score: 503
Period size: 123 Copynumber: 3.3 Consensus size: 123
19085525 TTTAAATAAA
* * *
19085535 TTAGCGGCGCTTATGGGAAAGCGCCGCTAATG-CAC-ACCTTTAGCGACGCTTATTAGA-AAAGC
1 TTAGCGGCGCTTATGGGAAAGCGCCGCTAATGACCCGACCTTTAGTGGCGC--ATTAGAGAAAGC
* * * * *
19085597 GCCGCTAATGACCTGACCTTTACCGGCGCTT-TATATATAAGCGCCGCTAATGACCCGAACT
64 GCCGCTAATGACATGACCTTTAGCGGCGCTTGT-GATA-AAGCGCCGCTAATGACCTGACCT
** * *
19085658 TTAGCGGCGCTTGA-GGGAAAGCGCCGCTAATGACTTGACCTTTTAGTGGCGCTTTAGGGAAAGC
1 TTAGCGGCGCTT-ATGGGAAAGCGCCGCTAATGACCCGACC-TTTAGTGGCGCATTAGAGAAAGC
* * * *
19085722 GTCGCTAATGATCAT-ACCTTTAGCGGCGCTTGAGGTAAAGCGCCGCTAATTACCTGACCT
64 GCCGCTAATGA-CATGACCTTTAGCGGCGCTTGTGATAAAGCGCCGCTAATGACCTGACCT
* *
19085782 TTAGCGACGCTTGA-GGGAAAGCGCCGCTAATTACCCGACCTTTAGTGGCGCATTAGAGAAAGCG
1 TTAGCGGCGCTT-ATGGGAAAGCGCCGCTAATGACCCGACCTTTAGTGGCGCATTAGAGAAAGCG
* * *
19085846 CCGCTAATGACTTGAACTTTAGCGGCGCTTGTGATAAAGCGCCGCTAATGACATGACCT
65 CCGCTAATGACATGACCTTTAGCGGCGCTTGTGATAAAGCGCCGCTAATGACCTGACCT
19085905 TTAGCGGCGCTTATGGGTAAAGCGCCGCTAATGACCCGACC
1 TTAGCGGCGCTTATGGG-AAAGCGCCGCTAATGACCCGACC
19085946 ACAAGCGCCG
Statistics
Matches: 248, Mismatches: 30, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
122 3 0.01
123 115 0.46
124 84 0.34
125 35 0.14
126 11 0.04
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.24
Consensus pattern (123 bp):
TTAGCGGCGCTTATGGGAAAGCGCCGCTAATGACCCGACCTTTAGTGGCGCATTAGAGAAAGCGC
CGCTAATGACATGACCTTTAGCGGCGCTTGTGATAAAGCGCCGCTAATGACCTGACCT
Found at i:19093449 original size:23 final size:22
Alignment explanation
Indices: 19093410--19093455 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
19093400 TTTCAGTCCC
*
19093410 TTTACTTTGGTTGTAATGACATT
1 TTTACTTTAGTTGTAATG-CATT
19093433 TTTAGCTTTAGTT-TAATGCATT
1 TTTA-CTTTAGTTGTAATGCATT
19093455 T
1 T
19093456 CAGTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 9 0.43
24 7 0.33
ACGTcount: A:0.22, C:0.09, G:0.15, T:0.54
Consensus pattern (22 bp):
TTTACTTTAGTTGTAATGCATT
Found at i:19099260 original size:8 final size:7
Alignment explanation
Indices: 19099235--19099272 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
19099225 ACCCAAATTC
19099235 ATTTTT-
1 ATTTTTA
19099241 ATTTTTA
1 ATTTTTA
19099248 ATTTTTA
1 ATTTTTA
19099255 ATTTTTA
1 ATTTTTA
*
19099262 A-GTTTA
1 ATTTTTA
19099268 ATTTT
1 ATTTT
19099273 AGTTGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (7 bp):
ATTTTTA
Found at i:19103139 original size:20 final size:20
Alignment explanation
Indices: 19103053--19103217 Score: 102
Period size: 20 Copynumber: 8.2 Consensus size: 20
19103043 CCAAAGGCAC
* * *
19103053 CAAACAAGGGCACTGAAGTG
1 CAAACAGGGGCACAGATGTG
* *
19103073 CAAACAAGGGCACAAATGTG
1 CAAACAGGGGCACAGATGTG
** *
19103093 CAAGTAGGGGCACCAGA-GAG
1 CAAACAGGGGCA-CAGATGTG
19103113 CAAACAGGGGCACAGATGTG
1 CAAACAGGGGCACAGATGTG
* * *
19103133 CAAACAGGGACATC-GAAGTT
1 CAAACAGGGGCA-CAGATGTG
* *
19103153 TATACAGGGGCACAGATGTG
1 CAAACAGGGGCACAGATGTG
* * * *
19103173 TAAGCAGGGACACCA-AAGTG
1 CAAACAGGGGCA-CAGATGTG
* * *
19103193 TATACAAGGGCACAGATGTG
1 CAAACAGGGGCACAGATGTG
19103213 CAAAC
1 CAAAC
19103218 TTGGGCATTG
Statistics
Matches: 109, Mismatches: 30, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
19 7 0.06
20 96 0.88
21 6 0.06
ACGTcount: A:0.38, C:0.19, G:0.30, T:0.12
Consensus pattern (20 bp):
CAAACAGGGGCACAGATGTG
Found at i:19103160 original size:40 final size:40
Alignment explanation
Indices: 19103080--19103217 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 40
19103070 GTGCAAACAA
* ** * * * * *
19103080 GGGCACAAATGTGCAAGTAGGGGCACCAGAGAGCAAACAG
1 GGGCACAGATGTGCAAACAGGGACACCAAAGTGTATACAG
* * *
19103120 GGGCACAGATGTGCAAACAGGGACATCGAAGTTTATACAG
1 GGGCACAGATGTGCAAACAGGGACACCAAAGTGTATACAG
* * *
19103160 GGGCACAGATGTGTAAGCAGGGACACCAAAGTGTATACAA
1 GGGCACAGATGTGCAAACAGGGACACCAAAGTGTATACAG
19103200 GGGCACAGATGTGCAAAC
1 GGGCACAGATGTGCAAAC
19103218 TTGGGCATTG
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.36, C:0.19, G:0.32, T:0.13
Consensus pattern (40 bp):
GGGCACAGATGTGCAAACAGGGACACCAAAGTGTATACAG
Found at i:19103378 original size:27 final size:27
Alignment explanation
Indices: 19103348--19103401 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
19103338 CTAATAATCT
19103348 CTTCTCAATT-TCA-TATATACATAAATA
1 CTTC-CAATTCTCATTAT-TACATAAATA
*
19103375 CTTCCAATTCTCATTATTATATAAATA
1 CTTCCAATTCTCATTATTACATAAATA
19103402 ACCAAGGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
27 16 0.67
28 3 0.12
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.43
Consensus pattern (27 bp):
CTTCCAATTCTCATTATTACATAAATA
Found at i:19104506 original size:16 final size:16
Alignment explanation
Indices: 19104463--19104517 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
19104453 ATCTTCTTTG
*
19104463 AATCCCTAAAATATTAA
1 AATCCC-AAAATATTGA
*
19104480 AATACCAAAATATTGA
1 AATCCCAAAATATTGA
*
19104496 AATCCCCAAATCATTG-
1 AATCCCAAAAT-ATTGA
19104512 AATCCC
1 AATCCC
19104518 TAACCCAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 24 0.73
17 9 0.27
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (16 bp):
AATCCCAAAATATTGA
Found at i:19104917 original size:22 final size:23
Alignment explanation
Indices: 19104891--19104935 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19104881 TTGTAATTTT
19104891 TTGTTAATTT-CTGAGTTTTGTA
1 TTGTTAATTTACTGAGTTTTGTA
* *
19104913 TTGTTAGTTTAGTGAGTTTTGTA
1 TTGTTAATTTACTGAGTTTTGTA
19104936 ACTTTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.18, C:0.02, G:0.22, T:0.58
Consensus pattern (23 bp):
TTGTTAATTTACTGAGTTTTGTA
Found at i:19105430 original size:33 final size:31
Alignment explanation
Indices: 19105392--19105534 Score: 153
Period size: 33 Copynumber: 4.4 Consensus size: 31
19105382 GTTGACGTTA
*
19105392 GGGAGGGTGATGATGAAGTTGTAAAAGTTGATG
1 GGGAGGGTGATGATGAAG--GTAGAAGTTGATG
19105425 GGGAGGGTGATGATGAAGAGGTAGAAGTTGATG
1 GGGAGGGTGATGATG-A-AGGTAGAAGTTGATG
*
19105458 GGGAGGGTGATGTAGGAGAGGTAGAAGTTGATG
1 GGGAGGGTGATG-ATGA-AGGTAGAAGTTGATG
*
19105491 GGGAGAGTGATGATGAATGGGTAGAA-TCTGATG
1 GGGAGGGTGATGATGAA--GGTAGAAGT-TGATG
* *
19105524 GTGAAGGTGAT
1 GGGAGGGTGAT
19105535 CTGGAAAGGG
Statistics
Matches: 97, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
31 1 0.01
32 4 0.04
33 87 0.90
34 3 0.03
35 2 0.02
ACGTcount: A:0.29, C:0.01, G:0.46, T:0.24
Consensus pattern (31 bp):
GGGAGGGTGATGATGAAGGTAGAAGTTGATG
Found at i:19105463 original size:18 final size:18
Alignment explanation
Indices: 19105442--19105495 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
19105432 TGATGATGAA
19105442 GAGGTAGAAGTTGATGGG
1 GAGGTAGAAGTTGATGGG
* *
19105460 GAGGGT-GATG-T-A-GGA
1 GA-GGTAGAAGTTGATGGG
19105475 GAGGTAGAAGTTGATGGG
1 GAGGTAGAAGTTGATGGG
19105493 GAG
1 GAG
19105496 AGTGATGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
14 3 0.11
15 7 0.26
16 2 0.07
17 2 0.07
18 10 0.37
19 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.52, T:0.20
Consensus pattern (18 bp):
GAGGTAGAAGTTGATGGG
Found at i:19105486 original size:66 final size:68
Alignment explanation
Indices: 19105416--19105606 Score: 205
Period size: 66 Copynumber: 2.9 Consensus size: 68
19105406 GAAGTTGTAA
*
19105416 AAGTTGATGGGGAGGGTGATGATGAA-GAGGTAGAAGTTGATGGGGAGGGTGATGTAGGAGA-GG
1 AAGTTGATGGGGAGGGTGATGATGAAGGAGGTAGAAGTTGATGGGGAGGGTGATGTAGGAAAGGG
19105479 TAG
66 TAG
* * * * *
19105482 AAGTTGATGGGGAGAGTGATGATGAATG-GGTAGAA-TCTGATGGTGAAGGTGATCT-GGAAAGG
1 AAGTTGATGGGGAGGGTGATGATGAAGGAGGTAGAAGT-TGATGGGGAGGGTGATGTAGGAAAGG
19105544 GTAG
65 GTAG
* * * * * *
19105548 AAGCTGTTGAGGAAGGTGA-GATGAAGGAGGGGTAGAAGCTGATGTGGAGGGTGATGTAG
1 AAGTTGATGGGGAGGGTGATGATGAAGGA--GGTAGAAGTTGATGGGGAGGGTGATGTAG
19105607 CAGCGTCTAC
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
65 12 0.12
66 66 0.65
67 1 0.01
68 21 0.21
69 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.47, T:0.22
Consensus pattern (68 bp):
AAGTTGATGGGGAGGGTGATGATGAAGGAGGTAGAAGTTGATGGGGAGGGTGATGTAGGAAAGGG
TAG
Found at i:19105726 original size:51 final size:51
Alignment explanation
Indices: 19105650--19105750 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
19105640 AAGTTGCTAC
* *
19105650 TGATGAATATGTCGCTGATTTTGCAACATCAGATGGAGAGGATAATGTTGT
1 TGATGAATATGTCGCTAATTTTGCAACATCAAATGGAGAGGATAATGTTGT
*
19105701 TGATGAATATGAT-GCTAATTTTGCAACATCAAATGGAGTGGATAATGTTG
1 TGATGAATATG-TCGCTAATTTTGCAACATCAAATGGAGAGGATAATGTTG
19105751 CTGAGCAAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.34
Consensus pattern (51 bp):
TGATGAATATGTCGCTAATTTTGCAACATCAAATGGAGAGGATAATGTTGT
Found at i:19118448 original size:16 final size:17
Alignment explanation
Indices: 19118417--19118467 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19118407 ATGTATCAAT
19118417 AATTTTAAATTAAATTA
1 AATTTTAAATTAAATTA
* *
19118434 AATTTTAATTTAATTTTA
1 AATTTTAAATTAA-ATTA
**
19118452 AAGATTAAATTAAATT
1 AATTTTAAATTAAATT
19118468 TTTATTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
AATTTTAAATTAAATTA
Found at i:19118461 original size:30 final size:28
Alignment explanation
Indices: 19118416--19118474 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
19118406 AATGTATCAA
19118416 TAATTTTAAATTAAATTAAATTTTAATT
1 TAATTTTAAATTAAATTAAATTTTAATT
*
19118444 TAATTTTAAAGATTAAATTAAATTTTTATT
1 TAATTTT-AA-ATTAAATTAAATTTTAATT
19118474 T
1 T
19118475 TAAAAGAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 7 0.25
29 2 0.07
30 19 0.68
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
TAATTTTAAATTAAATTAAATTTTAATT
Found at i:19119098 original size:25 final size:24
Alignment explanation
Indices: 19119067--19119138 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 24
19119057 ATTTACAATG
19119067 TATTTAAAAATTTAAATTAATTTA
1 TATTTAAAAATTTAAATTAATTTA
**
19119091 TATATTAACTATTT-AA--AA--TA
1 TAT-TTAAAAATTTAAATTAATTTA
*
19119111 TATTT-AAAATTTAGATTAATTTA
1 TATTTAAAAATTTAAATTAATTTA
19119134 TATTT
1 TATTT
19119139 TATCTATCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 13
0.67 0.09 0.24
Matches are distributed among these distances:
18 5 0.14
19 3 0.08
20 5 0.14
21 2 0.05
22 2 0.05
23 7 0.19
24 5 0.14
25 8 0.22
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
TATTTAAAAATTTAAATTAATTTA
Found at i:19119134 original size:43 final size:44
Alignment explanation
Indices: 19119048--19119145 Score: 144
Period size: 43 Copynumber: 2.2 Consensus size: 44
19119038 ATTTTTATTC
* *
19119048 ATATTAACTATTTACAATGTATTTAAAAATTTAAATTAATTTAT
1 ATATTAACTATTTAAAATATATTTAAAAATTTAAATTAATTTAT
*
19119092 ATATTAACTATTTAAAATATATTT-AAAATTTAGATTAATTTAT
1 ATATTAACTATTTAAAATATATTTAAAAATTTAAATTAATTTAT
* *
19119135 ATTTTATCTAT
1 ATATTAACTAT
19119146 CATTATATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 27 0.55
44 22 0.45
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (44 bp):
ATATTAACTATTTAAAATATATTTAAAAATTTAAATTAATTTAT
Found at i:19125378 original size:18 final size:19
Alignment explanation
Indices: 19125352--19125392 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
19125342 CTTAGACTAA
*
19125352 TAATTAATTAAACCTT-AT
1 TAATCAATTAAACCTTAAT
*
19125370 TAATCAATTAATCCTTAAT
1 TAATCAATTAAACCTTAAT
19125389 TAAT
1 TAAT
19125393 TAGGATCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATCAATTAAACCTTAAT
Found at i:19139144 original size:22 final size:22
Alignment explanation
Indices: 19139119--19139162 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19139109 CATAATTTTT
19139119 TTATGTTTTTAATTTGTTAAAA
1 TTATGTTTTTAATTTGTTAAAA
19139141 TTATGTTTTTAATTTGTTAAAA
1 TTATGTTTTTAATTTGTTAAAA
19139163 CTAGTCCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (22 bp):
TTATGTTTTTAATTTGTTAAAA
Found at i:19139177 original size:22 final size:22
Alignment explanation
Indices: 19139127--19139177 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
19139117 TTTTATGTTT
* **
19139127 TTAATTTGTTAAAATTATGTTT
1 TTAATTTGTTAAAACTATGTCC
19139149 TTAATTTGTTAAAACTA-GTCC
1 TTAATTTGTTAAAACTATGTCC
19139170 TTATATTT
1 TTA-ATTT
19139178 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
TTAATTTGTTAAAACTATGTCC
Found at i:19139218 original size:20 final size:20
Alignment explanation
Indices: 19139199--19139235 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19139189 GAATAATTTA
19139199 ATTTT-CTTTTTATTTCTTT
1 ATTTTCCTTTTTATTTCTTT
19139218 ATTTTCCTTTTTATTTCT
1 ATTTTCCTTTTTATTTCT
19139236 CTCTTCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTTCCTTTTTATTTCTTT
Found at i:19143655 original size:16 final size:16
Alignment explanation
Indices: 19143634--19143693 Score: 93
Period size: 16 Copynumber: 3.8 Consensus size: 16
19143624 TTTGGCTCAC
19143634 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
**
19143650 TGTAATAAAATAGAGT
1 TGTAATGGAATAGAGT
*
19143666 TGTAATGGAATAGAGA
1 TGTAATGGAATAGAGT
19143682 TGTAATGGAATA
1 TGTAATGGAATA
19143694 TGACTGTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:19143702 original size:32 final size:31
Alignment explanation
Indices: 19143632--19143703 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 31
19143622 CGTTTGGCTC
*
19143632 ACTGTAATGGAATAGAGTTGTAATAAAATAG
1 ACTGTAATGGAATAGAGATGTAATAAAATAG
* **
19143663 AGTTGTAATGGAATAGAGATGTAATGGAATATG
1 A-CTGTAATGGAATAGAGATGTAATAAAATA-G
19143696 ACTGTAAT
1 ACTGTAAT
19143704 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 1 0.03
32 31 0.91
33 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (31 bp):
ACTGTAATGGAATAGAGATGTAATAAAATAG
Found at i:19143937 original size:58 final size:59
Alignment explanation
Indices: 19143875--19144025 Score: 207
Period size: 58 Copynumber: 2.6 Consensus size: 59
19143865 TTTTAATAAG
* *
19143875 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
* * *
19143933 ATTATTATTAAATATAATTAAAT-AAAATAATATATAATTTAATAACATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
* * *
19143991 ATTATTATTAAAATATAAATTAGTAAAAATTATAA
1 ATTATTATT-AAATATAATTTAATAAAAATAATAA
19144026 TAAATAATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
57 21 0.26
58 40 0.50
59 11 0.14
60 8 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTAACATA
Found at i:19144042 original size:24 final size:25
Alignment explanation
Indices: 19144005--19144053 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
19143995 TTATTAAAAT
*
19144005 ATAAATTAGTAAAAATTATA-ATAA
1 ATAAATTAGTAAAAATAATATATAA
19144029 ATAATATTAG-AAAAATAATATATAA
1 ATAA-ATTAGTAAAAATAATATATAA
19144054 CTTACTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
ATAAATTAGTAAAAATAATATATAA
Found at i:19152272 original size:46 final size:47
Alignment explanation
Indices: 19152206--19152306 Score: 150
Period size: 51 Copynumber: 2.1 Consensus size: 47
19152196 CTTTGCCTAC
*
19152206 TTTTTCTGCATGCGTA-TTCCTTGCCTACATTATTGGTGCAAGTTAT
1 TTTTTCTGCACGCGTATTTCCTTGCCTACATTATTGGTGCAAGTTAT
19152252 TTTTTCTGCACGCGTATTCCTTTCCTTGCCTACATTATTGGTGCAAGTTAT
1 TTTTTCTGCACGCGTA----TTTCCTTGCCTACATTATTGGTGCAAGTTAT
19152303 TTTT
1 TTTT
19152307 CTGATGCATA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
46 15 0.31
51 34 0.69
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.48
Consensus pattern (47 bp):
TTTTTCTGCACGCGTATTTCCTTGCCTACATTATTGGTGCAAGTTAT
Found at i:19177578 original size:60 final size:61
Alignment explanation
Indices: 19177468--19177581 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 61
19177458 TGAAAACTAA
*
19177468 ATGCCAAAATTCCCATGTTACCCCCCACACTTTAGAAAACATATTATCCTCAATATGCTAT
1 ATGCCAAAATTCCCATGTTACCCCCCACACTTTAGAAAACACATTATCCTCAATATGCTAT
* * * * *
19177529 ATGCCAGAATTCCTATGTTA-TCCTCACACTTTAGAAAACACATTGTCCTCAAT
1 ATGCCAAAATTCCCATGTTACCCCCCACACTTTAGAAAACACATTATCCTCAAT
19177582 GTGTAACGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 29 0.62
61 18 0.38
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (61 bp):
ATGCCAAAATTCCCATGTTACCCCCCACACTTTAGAAAACACATTATCCTCAATATGCTAT
Found at i:19178643 original size:3 final size:3
Alignment explanation
Indices: 19178635--19178668 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
19178625 CACATTTTCT
19178635 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
19178669 CTACACGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:19179430 original size:41 final size:41
Alignment explanation
Indices: 19179381--19179539 Score: 205
Period size: 41 Copynumber: 3.9 Consensus size: 41
19179371 TTGTATAAAT
*
19179381 GGAAGACTCATATCTCAAGATGA-AAGTGAGATTATGAATAA
1 GGAAGACTCATGTCTCAAGATGAGAA-TGAGATTATGAATAA
* * *
19179422 GGAAGACTCATGTCTCTAGATGAGAATGAGACTATGAATAT
1 GGAAGACTCATGTCTCAAGATGAGAATGAGATTATGAATAA
* * *
19179463 GGAAGACTCATGTCTCGAA-ATCAGAATGAGATTTTGATTAA
1 GGAAGACTCATGTCTC-AAGATGAGAATGAGATTATGAATAA
* *
19179504 GGAAGACTCATGTCTCTAGATGAGAATGAGAATATG
1 GGAAGACTCATGTCTCAAGATGAGAATGAGATTATG
19179540 GTTAGAGGAA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.01
41 97 0.96
42 3 0.03
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.26
Consensus pattern (41 bp):
GGAAGACTCATGTCTCAAGATGAGAATGAGATTATGAATAA
Found at i:19179493 original size:82 final size:82
Alignment explanation
Indices: 19179379--19179539 Score: 245
Period size: 82 Copynumber: 2.0 Consensus size: 82
19179369 AATTGTATAA
*
19179379 ATGGAAGACTCATATCTCAAGATGAAAGTGAGATTATGAATAAGGAAGACTCATGTCTCTAGATG
1 ATGGAAGACTCATATCTCAAGATCAAAGTGAGATTATGAATAAGGAAGACTCATGTCTCTAGATG
*
19179444 AGAATGAGACTATGAAT
66 AGAATGAGAATATGAAT
* * *
19179461 ATGGAAGACTCATGTCTCGAA-ATCAGAA-TGAGATTTTGATTAAGGAAGACTCATGTCTCTAGA
1 ATGGAAGACTCATATCTC-AAGATCA-AAGTGAGATTATGAATAAGGAAGACTCATGTCTCTAGA
19179524 TGAGAATGAGAATATG
64 TGAGAATGAGAATATG
19179540 GTTAGAGGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
82 68 0.94
83 4 0.06
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.27
Consensus pattern (82 bp):
ATGGAAGACTCATATCTCAAGATCAAAGTGAGATTATGAATAAGGAAGACTCATGTCTCTAGATG
AGAATGAGAATATGAAT
Found at i:19186277 original size:40 final size:41
Alignment explanation
Indices: 19186216--19186403 Score: 238
Period size: 41 Copynumber: 4.6 Consensus size: 41
19186206 AAGAAATTGT
19186216 ATAAATGGAAGACTCATGTCTCGAGATGAGAATGAGACTATG
1 ATAAA-GGAAGACTCATGTCTCGAGATGAGAATGAGACTATG
*
19186258 A-AAAGGAAGACTCATGTCTCAAGATGAGAATGAGACTATG
1 ATAAAGGAAGACTCATGTCTCGAGATGAGAATGAGACTATG
* * * *
19186298 A-ATATGGAAGACTCATGTCTCGAAATGAGAATGAGATTTTG
1 ATA-AAGGAAGACTCATGTCTCGAGATGAGAATGAGACTATG
* *
19186339 ATTAAA-GAAGACTCATGTCTCGAGATGAGAATAAGAATATGG
1 A-TAAAGGAAGACTCATGTCTCGAGATGAGAATGAGACTAT-G
* *
19186381 ATAAAGGAAGACTTATGACTCGA
1 ATAAAGGAAGACTCATGTCTCGA
19186404 TAGAGCATAA
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
40 37 0.29
41 71 0.55
42 19 0.15
43 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (41 bp):
ATAAAGGAAGACTCATGTCTCGAGATGAGAATGAGACTATG
Found at i:19199066 original size:52 final size:52
Alignment explanation
Indices: 19198988--19199281 Score: 444
Period size: 52 Copynumber: 5.7 Consensus size: 52
19198978 CCGTAAAAAG
* * * *
19198988 AAAAGGTCCGATGATTATGTGTCGTCGTGAGTATTTGAATCCTTCATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * *
19199040 AAAAGGTCTGATGACTATGTTTCGTCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
19199092 AAAAGGTTCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
19199144 AAAAGGTTCGATGACTATGTGTCATTGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
19199196 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGATTCCTTTACGGATT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * *
19199248 AAGAGGTCCAATGACTATGTGTCATCATGAGTAT
1 AAAAGGTCCGATGACTATGTGTCATCGTGAGTAT
19199282 TAAATGGAAA
Statistics
Matches: 223, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 223 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (52 bp):
AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:19204035 original size:23 final size:23
Alignment explanation
Indices: 19203996--19204052 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
19203986 TATACATTCT
19203996 AATTAGAT-TTTATAAATAATTAA
1 AATTA-ATATTTATAAATAATTAA
* *
19204019 TATTAATTATTTA-AAATATTTAA
1 AATTAA-TATTTATAAATAATTAA
19204042 AATTAATATTT
1 AATTAATATTT
19204053 CATATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 6 0.21
23 19 0.66
24 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
AATTAATATTTATAAATAATTAA
Found at i:19204059 original size:22 final size:22
Alignment explanation
Indices: 19204004--19204065 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
19203994 CTAATTAGAT
*
19204004 TTTATAAATAATTAATATTAATTA
1 TTTA-AAAT-ATTAAAATTAATTA
19204028 TTTAAAATATTTAAAATTAA-TA
1 TTTAAAATA-TTAAAATTAATTA
* *
19204050 TTTCATATATTAAAAT
1 TTTAAAATATTAAAAT
19204066 ATTAACAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.21
22 10 0.29
23 13 0.38
24 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAAATATTAAAATTAATTA
Found at i:19204267 original size:13 final size:13
Alignment explanation
Indices: 19204246--19204275 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19204236 CTTAAACCAA
*
19204246 ACTTTTCAAAAGT
1 ACTTCTCAAAAGT
19204259 ACTTCTCAAAAGT
1 ACTTCTCAAAAGT
19204272 ACTT
1 ACTT
19204276 TTCCACCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (13 bp):
ACTTCTCAAAAGT
Found at i:19204478 original size:24 final size:24
Alignment explanation
Indices: 19204451--19204499 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
19204441 TCGCGTCCCA
19204451 CTTCATCTCACC-TCCTTATTTCTC
1 CTTC-TCTCACCTTCCTTATTTCTC
*
19204475 CTTCTCTCGCCTTCCTTATTTCTC
1 CTTCTCTCACCTTCCTTATTTCTC
19204499 C
1 C
19204500 ATTTAGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.08, C:0.43, G:0.02, T:0.47
Consensus pattern (24 bp):
CTTCTCTCACCTTCCTTATTTCTC
Found at i:19204648 original size:23 final size:23
Alignment explanation
Indices: 19204622--19204666 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19204612 TCTCACACTT
*
19204622 TTTCTTACTC-TTTTCTTTTTGTA
1 TTTC-TACTCATTTTCATTTTGTA
19204645 TTTCTACTCATTTTCATTTTGT
1 TTTCTACTCATTTTCATTTTGT
19204667 TCTTTTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.11, C:0.18, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTCTACTCATTTTCATTTTGTA
Found at i:19215006 original size:14 final size:14
Alignment explanation
Indices: 19214983--19215020 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
19214973 AATTTTTTCA
19214983 TTTCCTTTTATCT-
1 TTTCCTTTTATCTG
*
19214996 TTTCACTTTTATTTG
1 TTTC-CTTTTATCTG
19215011 TTTCCTTTTA
1 TTTCCTTTTA
19215021 ATTTCTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCCTTTTATCTG
Found at i:19223205 original size:70 final size:67
Alignment explanation
Indices: 19223095--19223227 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
19223085 ATAAACAATA
* * * *
19223095 TAATGGTTTTGCCTTTTAACTTAATGGGTAAACATTTATCAAAATGACATAATTTTACCTTTTAA
1 TAATGGCTTTGACTTTTAACTTAAAGGGTAAACATTTATCAAAACGACATAATTTTACCTTTTAA
19223160 CT
66 CT
* * *
19223162 TAATGGCTTTGACTTTTAACTTTAGAAAGGGTAAACATTTATCAAAACGACGTAGTTTTGCCTTT
1 TAATGGCTTTGACTTTTAAC-TT--AAAGGGTAAACATTTATCAAAACGACATAATTTTACCTTT
19223227 T
63 T
19223228 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 18 0.32
68 2 0.04
70 36 0.64
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (67 bp):
TAATGGCTTTGACTTTTAACTTAAAGGGTAAACATTTATCAAAACGACATAATTTTACCTTTTAA
CT
Found at i:19224272 original size:17 final size:18
Alignment explanation
Indices: 19224250--19224286 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
19224240 GGCCTATAAC
*
19224250 AATATAAACATG-AATTA
1 AATATAAACAAGCAATTA
19224267 AATATAAACAAGCAATTA
1 AATATAAACAAGCAATTA
19224285 AA
1 AA
19224287 CACAATCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (18 bp):
AATATAAACAAGCAATTA
Found at i:19224353 original size:12 final size:12
Alignment explanation
Indices: 19224336--19224360 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19224326 ATTAAATAAT
19224336 TAATAGCATTCA
1 TAATAGCATTCA
19224348 TAATAGCATTCA
1 TAATAGCATTCA
19224360 T
1 T
19224361 CATAATAACA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:19228371 original size:16 final size:18
Alignment explanation
Indices: 19228335--19228371 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
19228325 AATAAATAAT
*
19228335 AAAAAAATTAAATAGTTC
1 AAAAAAATTAAATAGTGC
19228353 AAAAAAA-TAAA-AGTGC
1 AAAAAAATTAAATAGTGC
19228369 AAA
1 AAA
19228372 GATTAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 4 0.22
18 7 0.39
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.19
Consensus pattern (18 bp):
AAAAAAATTAAATAGTGC
Found at i:19235668 original size:25 final size:25
Alignment explanation
Indices: 19235640--19236004 Score: 308
Period size: 25 Copynumber: 14.5 Consensus size: 25
19235630 CTCTTATGAG
** *
19235640 CTTACGAGCCAGTTAGAACATCGCT
1 CTTACGAGCCAGACAGAATATCGCT
* * * *
19235665 CTTACGAGTCAAACAGAAAAGCGCT
1 CTTACGAGCCAGACAGAATATCGCT
*
19235690 CTTATGAGCCAGACAGAATATCGCT
1 CTTACGAGCCAGACAGAATATCGCT
* * *
19235715 CTTACGAGCCAGAAAAAATATCACT
1 CTTACGAGCCAGACAGAATATCGCT
* *
19235740 CTTATGAGCCA-ATCAGAACATCGCT
1 CTTACGAGCCAGA-CAGAATATCGCT
19235765 CTTACGAGCCAGACAGAATATCGCT
1 CTTACGAGCCAGACAGAATATCGCT
* * ** *
19235790 CTTACAAGCTAGTTAGAACATCGC-
1 CTTACGAGCCAGACAGAATATCGCT
* *
19235814 CTTTACGAGCCA-ATCAGAACATTGCT
1 C-TTACGAGCCAGA-CAGAATATCGCT
** * *
19235840 CTATTTTGAGCCAGACAAAATATTGCT
1 C--TTACGAGCCAGACAGAATATCGCT
* * *
19235867 CTTATGAGCCAGACAAAATATCACT
1 CTTACGAGCCAGACAGAATATCGCT
* *
19235892 CTTACAAGCCA-ATCAGAACATCGCT
1 CTTACGAGCCAGA-CAGAATATCGCT
* * *
19235917 CTTACAAGCCA-ATCAGAACATCACT
1 CTTACGAGCCAGA-CAGAATATCGCT
* *
19235942 CTTACGAGCCAGATAAAATATCGCT
1 CTTACGAGCCAGACAGAATATCGCT
*
19235967 CTTACGAGCCAAACAGAATATCGCT
1 CTTACGAGCCAGACAGAATATCGCT
*
19235992 CTTACGAACCAGA
1 CTTACGAGCCAGA
19236005 GTTCGAAATA
Statistics
Matches: 275, Mismatches: 56, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
24 3 0.01
25 249 0.91
26 3 0.01
27 19 0.07
28 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (25 bp):
CTTACGAGCCAGACAGAATATCGCT
Found at i:19235765 original size:75 final size:75
Alignment explanation
Indices: 19235640--19236004 Score: 401
Period size: 75 Copynumber: 4.8 Consensus size: 75
19235630 CTCTTATGAG
* * * * * * * *
19235640 CTTACGAGCCAGTTAGAACATCGCTCTTACGAGTCAAACAGAAAAGCGCTCTTATGAGCCAGACA
1 CTTACGAGCCAGATAAAATATCGCTCTTACGAGCCAATCAGAACATCGCTCTTACGAGCCAGACA
19235705 GAATATCGCT
66 GAATATCGCT
* * *
19235715 CTTACGAGCCAGAAAAAATATCACTCTTATGAGCCAATCAGAACATCGCTCTTACGAGCCAGACA
1 CTTACGAGCCAGATAAAATATCGCTCTTACGAGCCAATCAGAACATCGCTCTTACGAGCCAGACA
19235780 GAATATCGCT
66 GAATATCGCT
* * * * * * **
19235790 CTTACAAGCTAGTTAGAACATCGC-CTTTACGAGCCAATCAGAACATTGCTCTATTTTGAGCCAG
1 CTTACGAGCCAGATAAAATATCGCTC-TTACGAGCCAATCAGAACATCGCTC--TTACGAGCCAG
* *
19235854 ACAAAATATTGCT
63 ACAGAATATCGCT
* * * * *
19235867 CTTATGAGCCAGACAAAATATCACTCTTACAAGCCAATCAGAACATCGCTCTTACAAGCCA-ATC
1 CTTACGAGCCAGATAAAATATCGCTCTTACGAGCCAATCAGAACATCGCTCTTACGAGCCAGA-C
* *
19235931 AGAACATCACT
65 AGAATATCGCT
* * *
19235942 CTTACGAGCCAGATAAAATATCGCTCTTACGAGCCAAACAGAATATCGCTCTTACGAACCAGA
1 CTTACGAGCCAGATAAAATATCGCTCTTACGAGCCAATCAGAACATCGCTCTTACGAGCCAGA
19236005 GTTCGAAATA
Statistics
Matches: 235, Mismatches: 49, Indels: 11
0.80 0.17 0.04
Matches are distributed among these distances:
74 2 0.01
75 172 0.73
76 1 0.00
77 59 0.25
78 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (75 bp):
CTTACGAGCCAGATAAAATATCGCTCTTACGAGCCAATCAGAACATCGCTCTTACGAGCCAGACA
GAATATCGCT
Found at i:19235902 original size:127 final size:127
Alignment explanation
Indices: 19235640--19235952 Score: 314
Period size: 127 Copynumber: 2.5 Consensus size: 127
19235630 CTCTTATGAG
* * * * * * * * * *
19235640 CTTACGAGCCAGTTAGAACATCGCTCTTACGAGTCAAACAGAAAAGCGCTCTTATGAGCCAGA-C
1 CTTACAAGCCAATCAGAACATCGCTCTTACAAGCCAATCAGAACATCACTCTTACGAGCCA-ATC
* * ** * *
19235704 AGAATATCGCTC--TTACGAGCCAGAAAAAATATCACTCTTATGAGCCAATCAGAACATCGCT
65 AGAACATTGCTCTATTTTGAGCCAGAAAAAATATCACTCTTATGAGCCAATCAAAACATCACT
* * * * * *
19235765 CTTACGAGCCAGA-CAGAATATCGCTCTTACAAGCTAGTTAGAACATCGC-CTTTACGAGCCAAT
1 CTTACAAGCCA-ATCAGAACATCGCTCTTACAAGCCAATCAGAACATCACTC-TTACGAGCCAAT
* ** *
19235828 CAGAACATTGCTCTATTTTGAGCCAGACAAAATATTGCTCTTATGAGCCAGA-CAAAATATCACT
64 CAGAACATTGCTCTATTTTGAGCCAGAAAAAATATCACTCTTATGAGCCA-ATCAAAACATCACT
19235892 CTTACAAGCCAATCAGAACATCGCTCTTACAAGCCAATCAGAACATCACTCTTACGAGCCA
1 CTTACAAGCCAATCAGAACATCGCTCTTACAAGCCAATCAGAACATCACTCTTACGAGCCA
19235953 GATAAAATAT
Statistics
Matches: 152, Mismatches: 28, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
124 2 0.01
125 57 0.38
126 1 0.01
127 90 0.59
128 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (127 bp):
CTTACAAGCCAATCAGAACATCGCTCTTACAAGCCAATCAGAACATCACTCTTACGAGCCAATCA
GAACATTGCTCTATTTTGAGCCAGAAAAAATATCACTCTTATGAGCCAATCAAAACATCACT
Found at i:19247818 original size:19 final size:19
Alignment explanation
Indices: 19247796--19247840 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19247786 TTTTATTAGG
19247796 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
19247815 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
19247834 ATTTAAT
1 ATTTAAT
19247841 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:19248641 original size:15 final size:16
Alignment explanation
Indices: 19248623--19248652 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19248613 CACTCCTATT
19248623 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
19248638 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
19248653 TTTTTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:19248660 original size:16 final size:16
Alignment explanation
Indices: 19248619--19248660 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
19248609 TCGACACTCC
19248619 TATTTTCTA-TTTCTTT
1 TATTTT-TATTTTCTTT
* *
19248635 TAATTCTATTTTCTTT
1 TATTTTTATTTTCTTT
19248651 TATTTTTATT
1 TATTTTTATT
19248661 GTTCCCCAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTATTTTCTTT
Found at i:19250205 original size:21 final size:21
Alignment explanation
Indices: 19250188--19250237 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
19250178 GAATTTCAGC
*
19250188 AGCAATCTATAGATTTTCAAA
1 AGCAAACTATAGATTTTCAAA
*
19250209 AGCAAACTGTAGATTTTCAAA
1 AGCAAACTATAGATTTTCAAA
*
19250230 AGAAAACT
1 AGCAAACT
19250238 GAGGCATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (21 bp):
AGCAAACTATAGATTTTCAAA
Found at i:19250238 original size:21 final size:21
Alignment explanation
Indices: 19250197--19250238 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19250187 CAGCAATCTA
*
19250197 TAGATTTTCAAAAGCAAACTG
1 TAGATTTTCAAAAGAAAACTG
19250218 TAGATTTTCAAAAGAAAACTG
1 TAGATTTTCAAAAGAAAACTG
19250239 AGGCATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (21 bp):
TAGATTTTCAAAAGAAAACTG
Found at i:19251427 original size:12 final size:13
Alignment explanation
Indices: 19251410--19251452 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
19251400 GGCAACCTAA
19251410 TTATTTTTAT-TT
1 TTATTTTTATATT
*
19251422 TTATTTTTCTATT
1 TTATTTTTATATT
19251435 TTATTTATT-TATT
1 TTATTT-TTATATT
19251448 TTATT
1 TTATT
19251453 ATATGTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
13 17 0.61
14 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTTATATT
Found at i:19251583 original size:13 final size:14
Alignment explanation
Indices: 19251553--19251584 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
19251543 TTCTCAACCC
*
19251553 TTTTCTTTTCGTAT
1 TTTTCTTTTCCTAT
19251567 TTTTCTTTTCCTAT
1 TTTTCTTTTCCTAT
19251581 TTTT
1 TTTT
19251585 ATCTACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTCTTTTCCTAT
Found at i:19254809 original size:20 final size:21
Alignment explanation
Indices: 19254786--19254827 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19254776 TTATAAATAG
*
19254786 GTTTAA-TAAAGGTTAAAAAT
1 GTTTAATTAAAGCTTAAAAAT
*
19254806 GTTTAATTAAAGCTTAATAAT
1 GTTTAATTAAAGCTTAAAAAT
19254827 G
1 G
19254828 AAAGTCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (21 bp):
GTTTAATTAAAGCTTAAAAAT
Found at i:19267053 original size:26 final size:27
Alignment explanation
Indices: 19267008--19267078 Score: 108
Period size: 26 Copynumber: 2.6 Consensus size: 27
19266998 GCTTGAGGAG
*
19267008 TATTCTGATTTTGGCTCAAAAGAGCGT
1 TATTCTGATTCTGGCTCAAAAGAGCGT
19267035 TATTCTGA-TCTGGCTCAAAAGAGCGT
1 TATTCTGATTCTGGCTCAAAAGAGCGT
*
19267061 TATTCTAATTCTGAGCTC
1 TATTCTGATTCTG-GCTC
19267079 GTAAGAGCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.60
27 12 0.30
28 4 0.10
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
TATTCTGATTCTGGCTCAAAAGAGCGT
Found at i:19267257 original size:24 final size:24
Alignment explanation
Indices: 19267068--19267249 Score: 238
Period size: 24 Copynumber: 7.6 Consensus size: 24
19267058 CGTTATTCTA
* *
19267068 ATTCTGAGCTCGTAAGAGCTAATC
1 ATTCTGGGCTCGTAAGAGCTAACC
* * *
19267092 GTTCTAGGCTCGTAAGAGCTAACT
1 ATTCTGGGCTCGTAAGAGCTAACC
* *
19267116 ATTCTGGGCTTGTAAAAGCTAACC
1 ATTCTGGGCTCGTAAGAGCTAACC
* *
19267140 ATTCTGGGCCCGTAAGAGCTAACT
1 ATTCTGGGCTCGTAAGAGCTAACC
* *
19267164 ATTCTGGGCTCGTAAAAGCTAATC
1 ATTCTGGGCTCGTAAGAGCTAACC
*
19267188 ATTTTGGGCTCGTAAGAGCTAACC
1 ATTCTGGGCTCGTAAGAGCTAACC
* *
19267212 GTTTTGGGCTCGTAAGAGCTAACC
1 ATTCTGGGCTCGTAAGAGCTAACC
19267236 ATTCTGGGCTCGTA
1 ATTCTGGGCTCGTA
19267250 TTGGCTAAAT
Statistics
Matches: 134, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 134 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
ATTCTGGGCTCGTAAGAGCTAACC
Found at i:19271035 original size:18 final size:18
Alignment explanation
Indices: 19270997--19271036 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19270987 GAGAGAGACC
* *
19270997 AAAAGCATTGTGAGGGTT
1 AAAAGCATTGAGAGGGAT
*
19271015 AAAAGCATTGAGAGTGAT
1 AAAAGCATTGAGAGGGAT
19271033 AAAA
1 AAAA
19271037 AGCTTTGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.23
Consensus pattern (18 bp):
AAAAGCATTGAGAGGGAT
Found at i:19271039 original size:19 final size:18
Alignment explanation
Indices: 19270997--19271044 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
19270987 GAGAGAGACC
* * *
19270997 AAAAGCATTGTGAGGGTT
1 AAAAGCATTGAGAGGATA
19271015 AAAAGCATTGAGAGTGATA
1 AAAAGCATTGAGAG-GATA
*
19271034 AAAAGCTTTGA
1 AAAAGCATTGA
19271045 TTCGGTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.25
Consensus pattern (18 bp):
AAAAGCATTGAGAGGATA
Found at i:19283535 original size:23 final size:22
Alignment explanation
Indices: 19283507--19283562 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
19283497 AATTAATAAT
*
19283507 AAAATAAATTAACTAAACTCCC
1 AAAATAAATTAACAAAACTCCC
* * *
19283529 AAGAATAAAATATCAAAAGTCCC
1 AA-AATAAATTAACAAAACTCCC
19283552 AAAATAAATTA
1 AAAATAAATTA
19283563 TATTTACAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.59, C:0.16, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAATAAATTAACAAAACTCCC
Found at i:19283622 original size:3 final size:3
Alignment explanation
Indices: 19283614--19283664 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
19283604 AAAATTCCAA
*
19283614 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
19283660 AAT AA
1 AAT AA
19283665 CCAAAATGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19284759 original size:7 final size:7
Alignment explanation
Indices: 19284736--19284846 Score: 68
Period size: 7 Copynumber: 16.4 Consensus size: 7
19284726 TTGAAACAAA
19284736 GTCAACG
1 GTCAACG
* *
19284743 ATCAA-A
1 GTCAACG
*
19284749 GTCAATG
1 GTCAACG
19284756 GTCAACG
1 GTCAACG
* *
19284763 ATCAA-T
1 GTCAACG
*
19284769 GTCAACT
1 GTCAACG
*
19284776 GTCAACA
1 GTCAACG
*
19284783 GTCAATG
1 GTCAACG
19284790 GTCAACG
1 GTCAACG
*
19284797 ATCAACG
1 GTCAACG
*
19284804 GTCAATG
1 GTCAACG
* *
19284811 GTGAA-A
1 GTCAACG
*
19284817 GTCAAGG
1 GTCAACG
19284824 GTCAACG
1 GTCAACG
*
19284831 GTCAA-A
1 GTCAACG
19284837 GTCAACG
1 GTCAACG
19284844 GTC
1 GTC
19284847 GGTCAACGGC
Statistics
Matches: 78, Mismatches: 22, Indels: 8
0.72 0.20 0.07
Matches are distributed among these distances:
6 17 0.22
7 61 0.78
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (7 bp):
GTCAACG
Found at i:19284787 original size:34 final size:33
Alignment explanation
Indices: 19284732--19284842 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 33
19284722 TTTTTTGAAA
19284732 CAAAGTCAAC-GATCAAAGTCAATGGTCAACGAT
1 CAAAGTCAACTG-TCAAAGTCAATGGTCAACGAT
*
19284765 CAATGTCAACTGTCAACAGTCAATGGTCAACGAT
1 CAAAGTCAACTGTCAA-AGTCAATGGTCAACGAT
* * * *
19284799 CAACGGTCAA-TGGTGAAAGTCAAGGGTCAACGGT
1 CAA-AGTCAACT-GTCAAAGTCAATGGTCAACGAT
19284833 CAAAGTCAAC
1 CAAAGTCAAC
19284843 GGTCGGTCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
33 18 0.27
34 40 0.60
35 9 0.13
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (33 bp):
CAAAGTCAACTGTCAAAGTCAATGGTCAACGAT
Found at i:19284826 original size:20 final size:20
Alignment explanation
Indices: 19284732--19284846 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 20
19284722 TTTTTTGAAA
* *
19284732 CAAAGTCAACGATCAA-AGT
1 CAAAGTCAACGGTCAATGGT
* *
19284751 CAATGGTCAACGATCAAT-GT
1 CAA-AGTCAACGGTCAATGGT
* *
19284771 CAACTGTCAACAGTCAATGGT
1 CAA-AGTCAACGGTCAATGGT
*
19284792 CAACGATCAACGGTCAATGGT
1 CAAAG-TCAACGGTCAATGGT
* * *
19284813 GAAAGTCAAGGGTCAACGGT
1 CAAAGTCAACGGTCAATGGT
19284833 CAAAGTCAACGGTC
1 CAAAGTCAACGGTC
19284847 GGTCAACGGC
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
19 3 0.04
20 54 0.68
21 22 0.28
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (20 bp):
CAAAGTCAACGGTCAATGGT
Found at i:19284853 original size:11 final size:11
Alignment explanation
Indices: 19284838--19284900 Score: 74
Period size: 11 Copynumber: 5.7 Consensus size: 11
19284828 ACGGTCAAAG
*
19284838 TCAACGGTCGG
1 TCAACGGTCGA
19284849 TCAACGG-CAGA
1 TCAACGGTC-GA
19284860 TCAACGGTCGA
1 TCAACGGTCGA
* *
19284871 TCAATGGCCGA
1 TCAACGGTCGA
*
19284882 TCAACAGTCGA
1 TCAACGGTCGA
19284893 TCAACGGT
1 TCAACGGT
19284901 TTGACTTGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
10 1 0.02
11 41 0.95
12 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (11 bp):
TCAACGGTCGA
Found at i:19284866 original size:22 final size:22
Alignment explanation
Indices: 19284838--19284899 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
19284828 ACGGTCAAAG
*
19284838 TCAACGGTCGGTCAACGGCAGA
1 TCAACGGTCGATCAACGGCAGA
* *
19284860 TCAACGGTCGATCAATGGCCGA
1 TCAACGGTCGATCAACGGCAGA
*
19284882 TCAACAGTCGATCAACGG
1 TCAACGGTCGATCAACGG
19284900 TTTGACTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.16
Consensus pattern (22 bp):
TCAACGGTCGATCAACGGCAGA
Found at i:19284941 original size:14 final size:15
Alignment explanation
Indices: 19284922--19284956 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19284912 TGGGTTGGAC
*
19284922 TTGGTTC-AATTGGT
1 TTGGTTCAAATGGGT
19284936 TTGGTTCAAATGGGT
1 TTGGTTCAAATGGGT
19284951 TTGGTT
1 TTGGTT
19284957 AGGTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.31, T:0.49
Consensus pattern (15 bp):
TTGGTTCAAATGGGT
Found at i:19288696 original size:121 final size:122
Alignment explanation
Indices: 19288502--19288864 Score: 486
Period size: 123 Copynumber: 3.0 Consensus size: 122
19288492 TTTTGCTATC
*
19288502 TTTCCTTTTATTTAATATATCATATTAAAAC-AAAATTATTCCTTT-GTAGAAATATATGGAAGG
1 TTTCCTTTTATTTAATATCTCATATTAAAACGAAAA-TATTCCTTTAG-AGAAATATATGGAAGG
* **
19288565 TTTATTAAAACCA-T-TATCATTTCCAAAAGGATATTAACTTTAATGTTTTAATATTCAA
64 TTTATTAAAA-CATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTAATATTCAA
19288623 TTTCCTTTTATTTAATATCTCATATTAAAACGAAAATATTCCTTTAGAGAAATATATGGAAGGTT
1 TTTCCTTTTATTTAATATCTCATATTAAAACGAAAATATTCCTTTAGAGAAATATATGGAAGGTT
* * *
19288688 TATTAAAACATTATATCCTTTCCAAAATGATATTATCTTCCATGTTTTTAATATTTAA
66 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATG-TTTTAATATTCAA
* * * * * ** *
19288746 TTTCCTTTTATTTAACATCTTATTTTAAAATGAAAGTATTTATTTAGAGATAATATATGGAAAG-
1 TTTCCTTTTATTTAATATCTCATATTAAAACGAAAATATTCCTTTAGAGA-AATATATGGAAGGT
*
19288810 TTATCAAAACATTATATCCTTTCCAAAAGGATATTAA-TATCCATGTTTTAATATT
65 TTATTAAAACATTATATCCTTTCCAAAAGGATATTAACT-TCCATGTTTTAATATT
19288865 TAATGAAATC
Statistics
Matches: 217, Mismatches: 18, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
120 2 0.01
121 66 0.30
122 42 0.19
123 95 0.44
124 12 0.06
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.44
Consensus pattern (122 bp):
TTTCCTTTTATTTAATATCTCATATTAAAACGAAAATATTCCTTTAGAGAAATATATGGAAGGTT
TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTAATATTCAA
Found at i:19292353 original size:27 final size:27
Alignment explanation
Indices: 19292315--19292404 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
19292305 AGGAGTAATC
19292315 TGATTCTGGCTCGAAAGAGCGTTATTT
1 TGATTCTGGCTCGAAAGAGCGTTATTT
*
19292342 TGATTCTGGCTCGAAAGAGAGTTATTT
1 TGATTCTGGCTCGAAAGAGCGTTATTT
* * *
19292369 TGATTTTGGCTTGAAAGAGCATTATTT
1 TGATTCTGGCTCGAAAGAGCGTTATTT
19292396 TGATTCTGG
1 TGATTCTGG
19292405 GCTCATAAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (27 bp):
TGATTCTGGCTCGAAAGAGCGTTATTT
Found at i:19294499 original size:11 final size:11
Alignment explanation
Indices: 19294483--19294507 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19294473 AATCTACAGG
19294483 TTGTCGCGACA
1 TTGTCGCGACA
19294494 TTGTCGCGACA
1 TTGTCGCGACA
19294505 TTG
1 TTG
19294508 CTAGGTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (11 bp):
TTGTCGCGACA
Done.