Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009637.1 Hibiscus syriacus cultivar Beakdansim tig00117046_pilon, whole genome shotgun sequence
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: 867493
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:4060 original size:23 final size:22
Alignment explanation
Indices: 4027--4073 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
4017 TAGAGGGCAT
*
4027 TATATTCTGAAACCTTCATTTTG
1 TATATTCTGAAACCCT-ATTTTG
* *
4050 TATATTTTGAATCCCTATTTTG
1 TATATTCTGAAACCCTATTTTG
4072 TA
1 TA
4074 ATTGAGTCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.51
Consensus pattern (22 bp):
TATATTCTGAAACCCTATTTTG
Found at i:7089 original size:31 final size:31
Alignment explanation
Indices: 7011--7090 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
7001 ACATATGCCG
7011 CGTGTCAAAAAGTGATGATATAACATGTGCA
1 CGTGTCAAAAAGTGATGATATAACATGTGCA
* * *
7042 CATGCCAAAAAATGATGATATAACACATGT-CA
1 CGTGTCAAAAAGTGATGATAT-A-ACATGTGCA
*
7074 TGTGTC-AAAAGTGATGA
1 CGTGTCAAAAAGTGATGA
7091 CATGTCACAC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 28 0.70
32 6 0.15
33 6 0.15
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (31 bp):
CGTGTCAAAAAGTGATGATATAACATGTGCA
Found at i:11143 original size:28 final size:29
Alignment explanation
Indices: 11084--11143 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
11074 GGAGTTATGA
* * *
11084 TTAGAGTATAGAATTTAAGGTTTTATGGT
1 TTAGAGTATAGAATTTAAGGGTTTAAGAT
* *
11113 TTAGAGT-TAGGATTTTAGGGTTTAAGAT
1 TTAGAGTATAGAATTTAAGGGTTTAAGAT
11141 TTA
1 TTA
11144 CTATTTAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (29 bp):
TTAGAGTATAGAATTTAAGGGTTTAAGAT
Found at i:15238 original size:42 final size:42
Alignment explanation
Indices: 15123--15354 Score: 311
Period size: 43 Copynumber: 5.4 Consensus size: 42
15113 TATTTGGCGA
*
15123 CGTTTGTATCCAAAAAATGCCGCTATAGATCCGACCTTTTGCGG
1 CGTTTGT-TCC-AAAAACGCCGCTATAGATCCGACCTTTTGCGG
* *
15167 CGTTTGTATCCAAAAACGCCACTATAGATCCAACCTTTTGCGG
1 CGTTTGT-TCCAAAAACGCCGCTATAGATCCGACCTTTTGCGG
* * * * *
15210 CATTTGTTCCAAAAATGCCACTACAGATCTGACCTTTTGCGG
1 CGTTTGTTCCAAAAACGCCGCTATAGATCCGACCTTTTGCGG
* *
15252 CGTTTATTCCAAAAACGCCGCTATAGATCTCGACCTTTTACGG
1 CGTTTGTTCCAAAAACGCCGCTATAGATC-CGACCTTTTGCGG
*
15295 CATTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGG
1 CGTTTGTTCCAAAAACGCCGCTATAGATC-CGACCTTTTGCGG
*
15338 CGTGTGTTCCAAAAACG
1 CGTTTGTTCCAAAAACG
15355 TCGTGATAGA
Statistics
Matches: 167, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
42 55 0.33
43 101 0.60
44 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (42 bp):
CGTTTGTTCCAAAAACGCCGCTATAGATCCGACCTTTTGCGG
Found at i:15384 original size:86 final size:85
Alignment explanation
Indices: 15125--15385 Score: 339
Period size: 85 Copynumber: 3.0 Consensus size: 85
15115 TTTGGCGACG
*
15125 TTTGTATCCAAAAAATGCCGCTATAGATC-CGACCTTTTGCGGCGTTTGTATCCAAAAACGCCAC
1 TTTGT-TCC-AAAAATGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGT-TCCAAAAACGCC-G
*
15189 TATAGATC-CAACCTTTTGCGGCA
62 TATAGATCTCGACCTTTTGCGGCA
* * *
15212 TTTGTTCCAAAAATGCCACTACAGATCT-GACCTTTTGCGGCGTTTATTCCAAAAACGCCGCTAT
1 TTTGTTCCAAAAATGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG-TAT
*
15276 AGATCTCGACCTTTTACGGCA
65 AGATCTCGACCTTTTGCGGCA
* * *
15297 TTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTGTGTTCCAAAAACGTCGTGAT
1 TTTGTTCCAAAAATGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGT-AT
* * *
15362 AGATCTTGACCTATTGCAGCA
65 AGATCTCGACCTTTTGCGGCA
15383 TTT
1 TTT
15386 TTTGTTCTCA
Statistics
Matches: 153, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
84 20 0.13
85 74 0.48
86 54 0.35
87 5 0.03
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (85 bp):
TTTGTTCCAAAAATGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGTATA
GATCTCGACCTTTTGCGGCA
Found at i:15478 original size:42 final size:42
Alignment explanation
Indices: 15419--15501 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
15409 TTAGCGACGC
* *
15419 TGGTATGGCCGGCGCTTCTTACGGTGTTTTTCCTATTGCCGT
1 TGGTATGGCCGACGCTTCTTACGGTGTTTTTCCTATCGCCGT
15461 TGGTATGGCCGACGCTTCTTACGGTGTTTTTCCTATCGCCG
1 TGGTATGGCCGACGCTTCTTACGGTGTTTTTCCTATCGCCG
15502 CAAGTGCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.08, C:0.25, G:0.28, T:0.39
Consensus pattern (42 bp):
TGGTATGGCCGACGCTTCTTACGGTGTTTTTCCTATCGCCGT
Found at i:16193 original size:66 final size:66
Alignment explanation
Indices: 16085--16277 Score: 359
Period size: 66 Copynumber: 2.9 Consensus size: 66
16075 TCTGTTGTCG
*
16085 AAAATGGTTCCTGACACCCCTTTACACACGACTGCAGAACTCACACTTAGAGATGAGCAATTTAG
1 AAAATGGTTCCTGACACCCCTTTACACACGACTGCAGCACTCACACTTAGAGATGAGCAATTTAG
16150 A
66 A
16151 AAAATGGTTCCTGACACCCCTTTACACACGACTGCAGCACTCACACTTAGAGATGAGCAATTTAG
1 AAAATGGTTCCTGACACCCCTTTACACACGACTGCAGCACTCACACTTAGAGATGAGCAATTTAG
16216 A
66 A
* *
16217 AAAATGGTTCCTGACACCCCTTTACACACGATTGCATCACTCACACTTAGAGATGAGCAAT
1 AAAATGGTTCCTGACACCCCTTTACACACGACTGCAGCACTCACACTTAGAGATGAGCAAT
16278 GTAACAACCC
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 124 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (66 bp):
AAAATGGTTCCTGACACCCCTTTACACACGACTGCAGCACTCACACTTAGAGATGAGCAATTTAG
A
Found at i:17050 original size:10 final size:10
Alignment explanation
Indices: 17015--17054 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
17005 GCAGCTGGAA
17015 AACCGGTTTG
1 AACCGGTTTG
*
17025 -ACCGGTTCG
1 AACCGGTTTG
*
17034 AATCGGTTTG
1 AACCGGTTTG
17044 AACCGGTTTG
1 AACCGGTTTG
17054 A
1 A
17055 CCCGACCCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:17072 original size:14 final size:14
Alignment explanation
Indices: 17053--17081 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17043 GAACCGGTTT
17053 GACCCGACCCGACC
1 GACCCGACCCGACC
17067 GACCCGACCCGACC
1 GACCCGACCCGACC
17081 G
1 G
17082 TTGACCCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.55, G:0.24, T:0.00
Consensus pattern (14 bp):
GACCCGACCCGACC
Found at i:24357 original size:7 final size:7
Alignment explanation
Indices: 24345--24388 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
24335 GACCCGACCC
24345 GACCGTT
1 GACCGTT
24352 GACCGTT
1 GACCGTT
24359 GACCG-T
1 GACCGTT
24365 GACCGTT
1 GACCGTT
24372 GACCG-T
1 GACCGTT
*
24378 GACTGTT
1 GACCGTT
24385 GACC
1 GACC
24389 TCCTTTGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 11 0.33
7 22 0.67
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (7 bp):
GACCGTT
Found at i:24369 original size:13 final size:13
Alignment explanation
Indices: 24345--24388 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
24335 GACCCGACCC
24345 GACCGTTGACCGTT
1 GACCG-TGACCGTT
24359 GACCGTGACCGTT
1 GACCGTGACCGTT
*
24372 GACCGTGACTGTT
1 GACCGTGACCGTT
24385 GACC
1 GACC
24389 TCCTTTGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
13 24 0.83
14 5 0.17
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:27635 original size:19 final size:19
Alignment explanation
Indices: 27611--27682 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
27601 ATGCAAAAAT
27611 GGTATCGATACCATAGTAG
1 GGTATCGATACCATAGTAG
*
27630 GGTATCGGTACCATAGTATG
1 GGTATCGATACCATAGTA-G
* *
27650 ATAGTATCGATACCATGGTAAG
1 --GGTATCGATACCATAGT-AG
27672 GGTATCGATAC
1 GGTATCGATAC
27683 TAAAGAACCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 17 0.39
20 11 0.25
22 15 0.34
23 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (19 bp):
GGTATCGATACCATAGTAG
Found at i:28074 original size:58 final size:58
Alignment explanation
Indices: 28011--28393 Score: 621
Period size: 58 Copynumber: 6.6 Consensus size: 58
28001 ATGACACTAA
28011 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
*
28069 GTGTGCAAAAAGTTAAGAAAGTCATACTAAGTGTATGAATTT-TCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGCACTTT
28127 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTT-TCGTA-TGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGCACTTT
* *
28184 GTGTGCAAAAAGTTAAGAAATTTATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
**
28242 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
* * * * *
28300 GTTTGAAAAAAGTTTAGAGATTCATACTAAGTGTATGAATTTCTGTATTGGCCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
28358 GTGTGCAAAAAGTTAA-AAGATTCATACTAAGTGTAT
1 GTGTGCAAAAAGTTAAGAA-ATTCATACTAAGTGTAT
28394 CAAAGAGCTC
Statistics
Matches: 304, Mismatches: 17, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
57 56 0.18
58 248 0.82
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
Found at i:28300 original size:173 final size:174
Alignment explanation
Indices: 28011--28393 Score: 637
Period size: 173 Copynumber: 2.2 Consensus size: 174
28001 ATGACACTAA
*
28011 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTTGTGTGCA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCA
* * *
28076 AAAAGTTAAGAAAGTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGTT
66 AAAAGTTAAGAAAGTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTGTGTGAAAAAAGTT
*
28141 AAGAAATTCATACTAAGTGTATGAATTT-TCGTA-TGGGCACTTT
131 AAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGCCACTTT
*
28184 GTGTGCAAAAAGTTAAGAAATTTATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCA
* *
28249 AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTGTTTGAAAAAAGTT
66 AAAAGTTAAGAAAGTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTGTGTGAAAAAAGTT
* *
28314 TAGAGATTCATACTAAGTGTATGAATTTCTGTATTGGCCACTTT
131 AAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGCCACTTT
28358 GTGTGCAAAAAGTTAA-AAGATTCATACTAAGTGTAT
1 GTGTGCAAAAAGTTAAGAA-ATTCATACTAAGTGTAT
28394 CAAAGAGCTC
Statistics
Matches: 196, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
173 154 0.79
174 42 0.21
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (174 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCA
AAAAGTTAAGAAAGTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTGTGTGAAAAAAGTT
AAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGCCACTTT
Found at i:33134 original size:19 final size:19
Alignment explanation
Indices: 33110--33181 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
33100 ATGCAAAAAT
33110 GGTATCGATACCATAGTAG
1 GGTATCGATACCATAGTAG
*
33129 GGTATCGGTACCATAGTATG
1 GGTATCGATACCATAGTA-G
* *
33149 ATAGTATCGATACCATGGTAAG
1 --GGTATCGATACCATAGT-AG
33171 GGTATCGATAC
1 GGTATCGATAC
33182 TAAATAACCA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 17 0.39
20 11 0.25
22 15 0.34
23 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (19 bp):
GGTATCGATACCATAGTAG
Found at i:33572 original size:57 final size:58
Alignment explanation
Indices: 33510--33788 Score: 461
Period size: 58 Copynumber: 4.8 Consensus size: 58
33500 ATGACACTAA
**
33510 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTTGTATTGGGCAC-TT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
33567 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
33625 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
33683 GTATGCAAAAAGTTAAGAAATTCATACTAGGTGTATGAATTTCCGTATTGGACACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
33741 GTCTGCAAAAAGTTAAGAGATTCATACTAAGTGTATGGATTTCCGTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
33789 GGGAAATATT
Statistics
Matches: 210, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 0.26
58 156 0.74
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:36420 original size:14 final size:14
Alignment explanation
Indices: 36401--36437 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
36391 CTTCTGTTTT
36401 TCTCGCTCTATTCG
1 TCTCGCTCTATTCG
36415 TCTCGCTCTATTCG
1 TCTCGCTCTATTCG
*
36429 TCTCTCTCT
1 TCTCGCTCT
36438 CCCTGTCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.05, C:0.38, G:0.11, T:0.46
Consensus pattern (14 bp):
TCTCGCTCTATTCG
Found at i:37455 original size:42 final size:42
Alignment explanation
Indices: 37382--37490 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
37372 GGTTTTATGG
* *
37382 ATGACCCTGAAGGACTTATCATCTTGATCGAAAGACTTACAA
1 ATGACCCTGAAGGACTTAGCATCATGATCGAAAGACTTACAA
* * **
37424 ATGA-CCTGAAGGATTTTAGCATCATGCTCGAAAGACTTACTG
1 ATGACCCTGAAGGA-CTTAGCATCATGATCGAAAGACTTACAA
* *
37466 ATAACCCT-AAGGATTTAGACATCAT
1 ATGACCCTGAAGGACTTAG-CATCAT
37491 TGGGAAATAG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 14 0.25
42 40 0.70
43 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGACCCTGAAGGACTTAGCATCATGATCGAAAGACTTACAA
Found at i:37670 original size:253 final size:253
Alignment explanation
Indices: 37189--37701 Score: 759
Period size: 253 Copynumber: 2.0 Consensus size: 253
37179 AATGGACTTA
* * *
37189 ACATCTTGCTCGAAAGACTAATAGATGACCCGAAGGATTTAAGCATCATTGGGAAATAGTCTATT
1 ACATCATGCTCGAAAGACTAATAGATAACCCGAAGGATTTAAGCATCATTGGGAAATAGTCTACT
*
37254 AGGTAAGAAACTTTAGAAATCACTTTCTTACTTTTCAATAAATTCATTTTCTCAAAACATTAAAT
66 AGGAAAGAAACTTTAGAAATCACTTTCTTACTTTTCAATAAATTCATTTTCTCAAAACATTAAAT
*
37319 GAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAGAACATCCTACCTGAAGGTTTTATGGAT
131 GAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAGAACATCCTACCTGAAGGTTTTACGGAT
* * *
37384 GACCCTGAAGGACTTATCATCTTGATCGAAAGACTTACAAATGACCTGAAGGATTT-T
196 GACCCTGAAGGACTTAGCATCATGATCGAAAGACTTACAAATGACCCGAAGGATTTAT
* * *
37441 AGCATCATGCTCGAAAGACTTACT-GATAACCCTAAGGATTT-AGACATCATTGGGAAATAGTTT
1 A-CATCATGCTCGAAAGAC-TAATAGATAACCCGAAGGATTTAAG-CATCATTGGGAAATAGTCT
* *
37504 ACTATGAAAGAAACTTT-GAAAATCGCTTTCTTACTTTTCAA-AAATTTCATTTTCTCAAAACAT
63 ACTAGGAAAGAAACTTTAG-AAATCACTTTCTTACTTTTCAATAAA-TTCATTTTCTCAAAACAT
*
37567 TAAATGAGAAACTTTGGTAATCGCTTTCTTATTTTCATGTGAGAACATCCTACCTGAAGGTTTTA
126 TAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAGAACATCCTACCTGAAGGTTTTA
* * * **
37632 CGGATGACCC-GAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGACCCGAAGGATTTAT
191 CGGATGACCCTGAAGGACTT-AGCATCATGATCGAAAGACTTACAAATGACCCGAAGGATTTAT
37695 ACATCAT
1 ACATCAT
37702 TGGGAAATAG
Statistics
Matches: 235, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
252 15 0.06
253 215 0.91
254 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (253 bp):
ACATCATGCTCGAAAGACTAATAGATAACCCGAAGGATTTAAGCATCATTGGGAAATAGTCTACT
AGGAAAGAAACTTTAGAAATCACTTTCTTACTTTTCAATAAATTCATTTTCTCAAAACATTAAAT
GAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAGAACATCCTACCTGAAGGTTTTACGGAT
GACCCTGAAGGACTTAGCATCATGATCGAAAGACTTACAAATGACCCGAAGGATTTAT
Found at i:37795 original size:211 final size:211
Alignment explanation
Indices: 37424--37911 Score: 714
Period size: 211 Copynumber: 2.3 Consensus size: 211
37414 AGACTTACAA
* * * * * *
37424 ATGACCTGAAGGATTTTAGCATCATGCTCGAAAGACTTACTGATAACCCTAAGGATTTAGACATC
1 ATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGACCCAAAGGATTTAAACATC
*
37489 ATTGGGAAATAGTTTACTATGAAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATTTCAT
66 ATTGGGAAATAGTCTACTATGAAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATTTCAT
** *
37554 TTTCTCAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTTATTTTCATGTGAGAACATCC-T
131 TTTAACAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAGAACA-CCTT
37618 ACCTGAAGGTTTTACGG
195 ACCTGAAGGTTTTACGG
* *
37635 ATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGACCCGAAGGATTTATACATC
1 ATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGACCCAAAGGATTTAAACATC
* * *
37700 ATTGGGAAATAGTCTACTA-GCTAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAACAATTTTA
66 ATTGGGAAATAGTCTACTATG-AAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATTTCA
* * *
37764 TTTTAAGAAAATATTAAATGAGAAACTTTGGTAATCTCTTTCTCATTTTCATGTGAGAACACCTT
130 TTTTAACAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAGAACACCTT
37829 ACCTGAAGGTTTTACGG
195 ACCTGAAGGTTTTACGG
* * * * *
37846 ATGACCCGAAAGACTTAA-CATCTTGC-TCAGAAGACTTACAGATGACCCAAAGGATTTAAACAT
1 ATGACCCGAAGGATTTAAGCATCATGCTTGA-AAGACTTACTGATGACCCAAAGGATTTAAACAT
37909 CAT
65 CAT
37912 GCTCGAAGGA
Statistics
Matches: 251, Mismatches: 23, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
209 2 0.01
210 43 0.17
211 206 0.82
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (211 bp):
ATGACCCGAAGGATTTAAGCATCATGCTTGAAAGACTTACTGATGACCCAAAGGATTTAAACATC
ATTGGGAAATAGTCTACTATGAAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATTTCAT
TTTAACAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAGAACACCTTA
CCTGAAGGTTTTACGG
Found at i:37915 original size:42 final size:42
Alignment explanation
Indices: 37840--37953 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 42
37830 CCTGAAGGTT
* * *
37840 TTACGGATGACCCGAAA-GACTT-AACATCTTGCTCAGAA-GAC
1 TTACAGATGACCC-AAAGGATTTAAACATCATGCTC-GAAGGAC
37881 TTACAGATGACCCAAAGGATTTAAACATCATGCTCGAAGGAC
1 TTACAGATGACCCAAAGGATTTAAACATCATGCTCGAAGGAC
* * *
37923 TTACTGATGACCCGAAGGATTTAGACATCAT
1 TTACAGATGACCCAAAGGATTTAAACATCAT
37954 TGGGAAATAG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 3 0.05
41 19 0.30
42 42 0.66
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (42 bp):
TTACAGATGACCCAAAGGATTTAAACATCATGCTCGAAGGAC
Found at i:38038 original size:463 final size:463
Alignment explanation
Indices: 37160--38051 Score: 1323
Period size: 463 Copynumber: 1.9 Consensus size: 463
37150 CATCCTCTAA
* *
37160 AAGGTCTTACGGATGGCCCAATGGACTTAACATCTTGCTCGAAAGACTAATAGATGACCCGAAGG
1 AAGGTCTTACGGATGACCCAATGGACTTAACATCATGCTCGAAAGACTAATAGATGACCCGAAGG
* *
37225 ATTTAAGCATCATTGGGAAATAGTCTATTAGGTAAGAAACTTTAGAAATCACTTTCTTACTTTTC
66 ATTTAAGCATCATTGGGAAATAGTCTACTAGCTAAGAAACTTTAGAAATCACTTTCTTACTTTTC
* **
37290 AATAAATTCATTTTCTCAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTG
131 AACAAATTCATTTTAACAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTG
* * *
37355 AGAACATCCTACCTGAAGGTTTTATGGATGACCCTGAAGGACTTATCATCTTGATCGAAAGACTT
196 AGAACATCCTACCTGAAGGTTTTACGGATGACCCTGAAAGACTTAACATCTTGATCGAAAGACTT
** * * *
37420 ACAAATGACCTGAAGGATTTTAGCATCATGCTCGAAAGACTTACTGATAACCCTAAGGATTTAGA
261 ACAAATGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACTGATAACCCGAAGGATTTAGA
*
37485 CATCATTGGGAAATAGTTTACTATGAAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATT
326 CATCATTGGGAAATAGTTTACTAGGAAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATT
*
37550 TCATTTTCTCAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTTATTTTCATGTGAGAACAT
391 TCATTTTCTCAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTTATTTTCATGTGAGAACAT
37615 CCTACCTG
456 CCTACCTG
* * * *
37623 AAGGTTTTACGGATGACCCGAA-GGATTTAAGCATCATGCTTGAAAGACTTACT-GATGACCCGA
1 AAGGTCTTACGGATGACCC-AATGGACTTAA-CATCATGCTCGAAAGAC-TAATAGATGACCCGA
*
37686 AGGATTTATA-CATCATTGGGAAATAGTCTACTAGCTAAGAAACTTT-GAAAATCGCTTTCTTAC
63 AGGATTTA-AGCATCATTGGGAAATAGTCTACTAGCTAAGAAACTTTAG-AAATCACTTTCTTAC
* * * * *
37749 TTTTCAACAATTTTATTTTAAGAAAATATTAAATGAGAAACTTTGGTAATCTCTTTCTCATTTTC
126 TTTTCAACAAATTCATTTTAACAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTC
*
37814 ATGTGAGAACA-CCTTACCTGAAGGTTTTACGGATGACCC-GAAAGACTTAACATCTTGCTC-AG
191 ATGTGAGAACATCC-TACCTGAAGGTTTTACGGATGACCCTGAAAGACTTAACATCTTGATCGA-
* * *
37876 AAGACTTACAGATGACCCAAAGGATTTAAACATCATGCTCGAAGGACTTACTGATGACCCGAAGG
254 AAGACTTACAAATGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACTGATAACCCGAAGG
* * * *
37941 ATTTAGACATCATTGGGAAATAGTTTATTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTC
319 ATTTAGACATCATTGGGAAATAGTTTACTAGGAAAGAAACTTTGAAAATCGCTTTCTTACTTTTC
* *
38006 AAAAATTTCATTTT-TAGAAAAGATTAAATGAGAAACTTTGGAAATC
384 AAAAATTTCATTTTCT-CAAAACATTAAATGAGAAACTTTGGAAATC
38052 ATTTTCTCAT
Statistics
Matches: 384, Mismatches: 37, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
462 2 0.01
463 203 0.53
464 175 0.46
465 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (463 bp):
AAGGTCTTACGGATGACCCAATGGACTTAACATCATGCTCGAAAGACTAATAGATGACCCGAAGG
ATTTAAGCATCATTGGGAAATAGTCTACTAGCTAAGAAACTTTAGAAATCACTTTCTTACTTTTC
AACAAATTCATTTTAACAAAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTG
AGAACATCCTACCTGAAGGTTTTACGGATGACCCTGAAAGACTTAACATCTTGATCGAAAGACTT
ACAAATGACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACTGATAACCCGAAGGATTTAGA
CATCATTGGGAAATAGTTTACTAGGAAAGAAACTTTGAAAATCGCTTTCTTACTTTTCAAAAATT
TCATTTTCTCAAAACATTAAATGAGAAACTTTGGAAATCGCTTTCTTATTTTCATGTGAGAACAT
CCTACCTG
Found at i:39384 original size:19 final size:18
Alignment explanation
Indices: 39356--39391 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
39346 CATTGGTTGG
39356 CCTAGTGTATCGGTACAT
1 CCTAGTGTATCGGTACAT
39374 CCTAGGTGTATCGGTACA
1 CCTA-GTGTATCGGTACA
39392 CTAATTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (18 bp):
CCTAGTGTATCGGTACAT
Found at i:44243 original size:12 final size:12
Alignment explanation
Indices: 44226--44250 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44216 ATGATGGTTC
44226 TCCAACGTCATG
1 TCCAACGTCATG
44238 TCCAACGTCATG
1 TCCAACGTCATG
44250 T
1 T
44251 GTATTTACAA
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:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:46090 original size:21 final size:21
Alignment explanation
Indices: 46053--46092 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46043 TCATTTTTCA
*
46053 ATTTTGAAATATCTTTCTTGT
1 ATTTTGAAATATATTTCTTGT
46074 ATTTTGAAA-ATAATTTCTT
1 ATTTTGAAATAT-ATTTCTT
46093 ATAATCCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTTGAAATATATTTCTTGT
Found at i:50586 original size:16 final size:18
Alignment explanation
Indices: 50555--50593 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
50545 TGATTGCTTT
50555 ATTTTCTCTCTTTTTTTC
1 ATTTTCTCTCTTTTTTTC
50573 ATTTTCT-T-TTTTTTTC
1 ATTTTCTCTCTTTTTTTC
50589 -TTTTC
1 ATTTTC
50594 CCCCCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 1 0.05
18 7 0.33
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (18 bp):
ATTTTCTCTCTTTTTTTC
Found at i:51476 original size:25 final size:25
Alignment explanation
Indices: 51442--51504 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
51432 TTCTTTGCTC
*
51442 ATAACATTAAAAGCAACACAAATTT
1 ATAACCTTAAAAGCAACACAAATTT
51467 ATAACCTTAAAAGCAACACAAATTT
1 ATAACCTTAAAAGCAACACAAATTT
51492 ATAACCTTAAAAG
1 ATAACCTTAAAAG
51505 GGCTGAGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.54, C:0.17, G:0.05, T:0.24
Consensus pattern (25 bp):
ATAACCTTAAAAGCAACACAAATTT
Found at i:64107 original size:14 final size:14
Alignment explanation
Indices: 64088--64139 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
64078 GTCATTAGTT
64088 TTCTGGAAATTGAA
1 TTCTGGAAATTGAA
*
64102 TTCTGGAAAATGAA
1 TTCTGGAAATTGAA
*
64116 TTACTGGAATTTGAA
1 TT-CTGGAAATTGAA
64131 TTCTGGAAA
1 TTCTGGAAA
64140 ACGAATTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (14 bp):
TTCTGGAAATTGAA
Found at i:64132 original size:29 final size:29
Alignment explanation
Indices: 64090--64148 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
64080 CATTAGTTTT
*
64090 CTGGAAATTGAATTCTGGAAAATGAATTA
1 CTGGAAATTGAATTCTGGAAAACGAATTA
*
64119 CTGGAATTTGAATTCTGGAAAACGAATTA
1 CTGGAAATTGAATTCTGGAAAACGAATTA
64148 C
1 C
64149 ATTTCTGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (29 bp):
CTGGAAATTGAATTCTGGAAAACGAATTA
Found at i:64145 original size:14 final size:14
Alignment explanation
Indices: 64088--64146 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
64078 GTCATTAGTT
*
64088 TTCTGGAAATTGAA
1 TTCTGGAAAATGAA
64102 TTCTGGAAAATGAA
1 TTCTGGAAAATGAA
**
64116 TTACTGGAATTTGAA
1 TT-CTGGAAAATGAA
*
64131 TTCTGGAAAACGAA
1 TTCTGGAAAATGAA
64145 TT
1 TT
64147 ACATTTCTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 26 0.68
15 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (14 bp):
TTCTGGAAAATGAA
Found at i:64466 original size:32 final size:30
Alignment explanation
Indices: 64390--64467 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 30
64380 TATTTTTATA
*
64390 ATTTTA-TTAATAAAAATATTAATATGGTAT
1 ATTTTATTTAATAAAAATATTAAAAT-GTAT
*
64420 ATTTTATTGAAATAAAAATATTATAAAT-TAT
1 ATTTTATT-TAATAAAAATATTA-AAATGTAT
64451 ATTAATTATTTAATAAA
1 ATT--TTATTTAATAAA
64468 GTAATAGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 6 0.15
31 7 0.17
32 19 0.47
33 8 0.20
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (30 bp):
ATTTTATTTAATAAAAATATTAAAATGTAT
Found at i:64533 original size:23 final size:23
Alignment explanation
Indices: 64484--64534 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
64474 GTGTTATATT
**
64484 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
64507 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
64530 ATATT
1 ATATT
64535 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:64602 original size:18 final size:18
Alignment explanation
Indices: 64559--64679 Score: 52
Period size: 20 Copynumber: 6.5 Consensus size: 18
64549 TTAATATTAA
* *
64559 ATATATAAATAATACTATT
1 ATATATTAATAAT-TTATT
64578 CAT-TATTAATAATTTATT
1 -ATATATTAATAATTTATT
* * *
64596 ATATATTATTAA--AATA
1 ATATATTAATAATTTATT
* *
64612 ATATATT-ATATTATTATA
1 ATATATTAATAAT-TTATT
* *
64630 ATATAATTGATTATTTTATT
1 ATAT-ATT-AATAATTTATT
*
64650 ATAATATTAAAAATTATATT
1 AT-ATATTAATAATT-TATT
64670 ATATTATTAA
1 ATA-TATTAA
64680 AAATATTAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
15 2 0.03
16 9 0.12
17 2 0.03
18 19 0.24
19 17 0.22
20 23 0.29
21 6 0.08
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (18 bp):
ATATATTAATAATTTATT
Found at i:64611 original size:23 final size:23
Alignment explanation
Indices: 64585--64655 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
64575 ATTCATTATT
64585 AATAATTTATTATATATTATTAA
1 AATAATTTATTATATATTATTAA
*
64608 AATAATATATTATATTATTA-TAA
1 AATAATTTATTATA-TATTATTAA
* * *
64631 TATAATTGATTAT-T-TTATTAT
1 AATAATTTATTATATATTATTAA
64652 AATA
1 AATA
64656 TTAAAAATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 3 0.08
21 6 0.15
23 26 0.65
24 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (23 bp):
AATAATTTATTATATATTATTAA
Found at i:64665 original size:23 final size:22
Alignment explanation
Indices: 64616--64683 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
64606 AAAATAATAT
**
64616 ATTATATTATTATAATA-TAATTG
1 ATTAT-TTATTATAATATTAA-AA
64639 ATTATTTTATTATAATATTAAAA
1 ATTA-TTTATTATAATATTAAAA
*
64662 ATTA--TATTATATTATTAAAA
1 ATTATTTATTATAATATTAAAA
64682 AT
1 AT
64684 ATTAATAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 17 0.43
23 19 0.47
24 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
ATTATTTATTATAATATTAAAA
Found at i:64671 original size:20 final size:20
Alignment explanation
Indices: 64646--64683 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
64636 TTGATTATTT
64646 TATTATAATATTAAAAATTA
1 TATTATAATATTAAAAATTA
*
64666 TATTATATTATTAAAAAT
1 TATTATAATATTAAAAAT
64684 ATTAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTATAATATTAAAAATTA
Found at i:64696 original size:29 final size:28
Alignment explanation
Indices: 64602--64698 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 28
64592 TATTATATAT
*
64602 TATTAAAATAATATATTATATTATTATAA
1 TATTAAAA-AATATATTATATTATTAAAA
* *
64631 TA-T----AAT-TGATTATTTTATTATAA
1 TATTAAAAAATAT-ATTATATTATTAAAA
*
64654 TATTAAAAATTATATTATATTATTAAAAA
1 TATTAAAAAATATATTATATTATT-AAAA
*
64683 TATTAATAAATATATT
1 TATTAAAAAATATATT
64699 TGAAATATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
22 1 0.02
23 19 0.35
24 1 0.02
28 13 0.24
29 20 0.37
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TATTAAAAAATATATTATATTATTAAAA
Found at i:64698 original size:21 final size:21
Alignment explanation
Indices: 64653--64707 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
64643 TTTTATTATA
* *
64653 ATATTAAAAAT-TATATTATAT
1 ATATTAAAAATAT-TAATAAAT
64674 -TATTAAAAATATTAATAAAT
1 ATATTAAAAATATTAATAAAT
**
64694 ATATTTGAAATATT
1 ATATTAAAAATATT
64708 TTAATAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATTAAAAATATTAATAAAT
Found at i:64968 original size:42 final size:42
Alignment explanation
Indices: 64921--65010 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
64911 TTCCTCCAAC
*
64921 CAAACACTGAAAAACATTTTCCGGAAAACGAATTACATGAAA
1 CAAACACGGAAAAACATTTTCCGGAAAACGAATTACATGAAA
* * * *
64963 CAAACACGGGAAAACATTTTCTGGAAAATGAATTACGTGAAA
1 CAAACACGGAAAAACATTTTCCGGAAAACGAATTACATGAAA
65005 CAAACA
1 CAAACA
65011 AGGGATTTCG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.19
Consensus pattern (42 bp):
CAAACACGGAAAAACATTTTCCGGAAAACGAATTACATGAAA
Found at i:70637 original size:27 final size:27
Alignment explanation
Indices: 70606--70672 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
70596 GTTCTGCTTG
** **
70606 GTTTGGTTCTTCTGAC-TAGTTTGGTGT
1 GTTTGGTTCAGCTGACTTA-TTTGGTTA
70633 GTTTGGTTCAGCTGACTTATTTGGTTA
1 GTTTGGTTCAGCTGACTTATTTGGTTA
70660 GTTTGGTTCAGCT
1 GTTTGGTTCAGCT
70673 TGATGTTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.10, C:0.12, G:0.28, T:0.49
Consensus pattern (27 bp):
GTTTGGTTCAGCTGACTTATTTGGTTA
Found at i:73777 original size:19 final size:19
Alignment explanation
Indices: 73753--73791 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
73743 GTGCTAGAGG
*
73753 GGTGCATGAGCTCTGAGAT
1 GGTGCATGAGCTCCGAGAT
*
73772 GGTGCATGATCTCCGAGAT
1 GGTGCATGAGCTCCGAGAT
73791 G
1 G
73792 CAGAATCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.36, T:0.26
Consensus pattern (19 bp):
GGTGCATGAGCTCCGAGAT
Found at i:79456 original size:3 final size:3
Alignment explanation
Indices: 79448--79485 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
79438 TCTGTTGGAT
79448 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
79486 TTATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:79490 original size:3 final size:3
Alignment explanation
Indices: 79484--79571 Score: 149
Period size: 3 Copynumber: 29.3 Consensus size: 3
79474 ATAATAATAA
79484 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
79532 TAT TAT TAG TAT TAG TAT TAT TAT TAT TAG TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
79572 GAAGTTGACG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:80924 original size:23 final size:23
Alignment explanation
Indices: 80893--80939 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
80883 TCTAAGAGTG
80893 AATTAGAGTAT-GTTGATAATGCTC
1 AATTAGAGTATCG--GATAATGCTC
80917 AATT-GAGTATCGGATAATGCTC
1 AATTAGAGTATCGGATAATGCTC
80939 A
1 A
80940 TTCAACTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.50
23 6 0.27
24 5 0.23
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (23 bp):
AATTAGAGTATCGGATAATGCTC
Found at i:81026 original size:74 final size:74
Alignment explanation
Indices: 80905--81161 Score: 448
Period size: 74 Copynumber: 3.5 Consensus size: 74
80895 TTAGAGTATG
80905 TTGATAATGCTCAA--TTGAGT-ATCGGATAATGCTCATTCAACTAGCATTGTAAATATGCTCAA
1 TTGATAATGCTCAATTTTGA-TAAT--GATAATGCTCATTCAACTAGCATTGTAAATATGCTCAA
80967 AATTGTCATTTC
63 AATTGTCATTTC
* *
80979 TTGATAATGCTCAATGTTGATAAAGATAATGCTCATTCAACTAGCATTGTAAATATGCTCAAAAT
1 TTGATAATGCTCAATTTTGATAATGATAATGCTCATTCAACTAGCATTGTAAATATGCTCAAAAT
81044 TGTCATTTC
66 TGTCATTTC
81053 TTGATAATGCTCAATTTTGATAATGATAATGCTCATTCAACTAGCATTGTAAATATGCTCAAAAT
1 TTGATAATGCTCAATTTTGATAATGATAATGCTCATTCAACTAGCATTGTAAATATGCTCAAAAT
81118 TGTCATTTC
66 TGTCATTTC
81127 TTGATAATGCTCAATTTTGATAATGATAATGCTCA
1 TTGATAATGCTCAATTTTGATAATGATAATGCTCA
81162 AATTAGGTTA
Statistics
Matches: 177, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
74 171 0.97
75 1 0.01
76 5 0.03
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (74 bp):
TTGATAATGCTCAATTTTGATAATGATAATGCTCATTCAACTAGCATTGTAAATATGCTCAAAAT
TGTCATTTC
Found at i:81313 original size:16 final size:16
Alignment explanation
Indices: 81289--81341 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
81279 CTCCTATCTT
81289 TTGAGTGTTGTTTGAG
1 TTGAGTGTTGTTTGAG
*
81305 TTGATTGTTGTTTGAG
1 TTGAGTGTTGTTTGAG
81321 TTGAGTGTTGTTTGAG
1 TTGAGTGTTGTTTGAG
81337 TTGAG
1 TTGAG
81342 AGAAGAGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (16 bp):
TTGAGTGTTGTTTGAG
Found at i:86664 original size:74 final size:74
Alignment explanation
Indices: 86496--86674 Score: 274
Period size: 74 Copynumber: 2.4 Consensus size: 74
86486 TAGGGTAATG
* * *
86496 TTGATAATGCTCAA--TTGAGTATTGGATAATGCTCATTCAACTAGCATTGTAAATATGCTCAAA
1 TTGATAATGCTCAATGTTGA-TAAT-GATAATGATCATTCAACTAGCATTATAAATATGCTCAAA
86559 ATTGTCATTTC
64 ATTGTCATTTC
86570 TTGATAATGCTCAATGTTGATAAAT-ATAATGATCATTCAACTAGCATTATAAATATGCTCAAAA
1 TTGATAATGCTCAATGTTGAT-AATGATAATGATCATTCAACTAGCATTATAAATATGCTCAAAA
86634 TTGTCATTTC
65 TTGTCATTTC
*
86644 TTGATAATGCTCAATTTTGATAATGATAATG
1 TTGATAATGCTCAATGTTGATAATGATAATG
86675 CTCAAATTAG
Statistics
Matches: 97, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
73 3 0.03
74 87 0.90
75 1 0.01
76 6 0.06
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (74 bp):
TTGATAATGCTCAATGTTGATAATGATAATGATCATTCAACTAGCATTATAAATATGCTCAAAAT
TGTCATTTC
Found at i:88367 original size:6 final size:6
Alignment explanation
Indices: 88352--88393 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
88342 AGTGGAACTC
* *
88352 AAATTG AAATTA AAATTA AAATTA AAATTG AAATTGA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATT-A AAATT
88394 GCATAATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:88373 original size:12 final size:12
Alignment explanation
Indices: 88352--88394 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
88342 AGTGGAACTC
88352 AAATTGAAATTA
1 AAATTGAAATTA
*
88364 AAATTAAAATTA
1 AAATTGAAATTA
88376 AAATTGAAATTGA
1 AAATTGAAATT-A
88389 AAATTG
1 AAATTG
88395 CATAATTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (12 bp):
AAATTGAAATTA
Found at i:88734 original size:15 final size:15
Alignment explanation
Indices: 88710--88739 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88700 TAAACCAAAC
88710 ATACAAAACAATGTT
1 ATACAAAACAATGTT
*
88725 ATACATAACAATGTT
1 ATACAAAACAATGTT
88740 CTAATAGTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (15 bp):
ATACAAAACAATGTT
Found at i:89688 original size:23 final size:23
Alignment explanation
Indices: 89634--89689 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
89624 CACCGAAGTG
* * *
89634 CCACATAGATTTGTCTCGAAGGA
1 CCACATAGAATTGTCCCAAAGGA
* * *
89657 TCGCGTAGAATTGTCCCAAAGGA
1 CCACATAGAATTGTCCCAAAGGA
89680 CCACATAGAA
1 CCACATAGAA
89690 ACCCCCGACT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (23 bp):
CCACATAGAATTGTCCCAAAGGA
Found at i:90249 original size:18 final size:18
Alignment explanation
Indices: 90226--90267 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
90216 TATGGTATTA
90226 ATACCTACCTCAGTA-CTG
1 ATACCTACCTCAGTATC-G
90244 ATACCTACCTCAGTATCG
1 ATACCTACCTCAGTATCG
90262 ATACCT
1 ATACCT
90268 GATAACTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (18 bp):
ATACCTACCTCAGTATCG
Found at i:94740 original size:18 final size:18
Alignment explanation
Indices: 94719--94753 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94709 GGTTAGAATC
94719 CCTTAGTTGAAAAGAAGA
1 CCTTAGTTGAAAAGAAGA
* *
94737 CCTTGGTTGAGAAGAAG
1 CCTTAGTTGAAAAGAAG
94754 GTTTTGATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (18 bp):
CCTTAGTTGAAAAGAAGA
Found at i:95584 original size:199 final size:200
Alignment explanation
Indices: 95226--96137 Score: 1258
Period size: 199 Copynumber: 4.6 Consensus size: 200
95216 TTAGATTGAT
* * * *
95226 AGTATTGATACCTATACAAAAAGTATTGATACTTTATGTTTACGCCTATTATCATTAAACTGGTA
1 AGTATTGATACATATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTA
*
95291 GATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAG
66 GATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAG
* * * * * ** *
95356 TATCGATACTTGTGACATGTGTGTCGATACTTTCTGCATGCATGTTGTTTGAGAAGCATGCTGGA
131 TATCGATACTTGTGATACGTGTATCGATACTTTTTGCGTGCAAATTGTTTGAGAAGCATACTGGA
95421 CTAAA
196 CTAAA
** *
95426 AGTATTGATACATATACAAAGAGTATCGATACTTTATGTTTACAACTATTATCATTAAACCGATA
1 AGTATTGATACATATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTA
* *
95491 -TTTTTTACCGTTTGCATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAG
66 GATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAG
* * * * ***
95555 TATTGGTACATGTGATACGTATATCGATACTTTTTGCGTGCGTGTTGTTTGAGAAGCATACTGGA
131 TATCGATACTTGTGATACGTGTATCGATACTTTTTGCGTGCAAATTGTTTGAGAAGCATACTGGA
95620 CTAAA
196 CTAAA
** * *
95625 AGTATCAATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCTGTA
1 AGTATTGATACATATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTA
*
95690 GATTTTTACCGTTTACATTGTAAATTTACTTATTACTTTAAAGTAATCA-GTTTCAAAATTATAA
66 GATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAAT-AGGTTTCAAAATTATAA
* * * * *
95754 GTATCGATACTTGTTATACATGTATCAATA-TTTTGTGTGTGCAAATTG-TTGAGAATCATACTG
130 GTATCGATACTTGTGATACGTGTATCGATACTTTT-TGCGTGCAAATTGTTTGAGAAGCATACTG
95817 GACTAAA
194 GACTAAA
* *
95824 AGTATTTATACATATACAAAGAGTATCGATACTTTATGTATAC-CCTATTATCATTAAACCGGTA
1 AGTATTGATACATATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTA
** ** *
95888 GATTTTTACAATTTTGATTGTAAAATTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAG
66 GATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAG
* * * * * *
95953 TATTGATACTTGTTATACGTGTATCGATACTTTTTTGCGTGCAAATTGTTTCAGATGCACACTAG
131 TATCGATACTTGTGATACGTGTATCGATAC-TTTTTGCGTGCAAATTGTTTGAGAAGCATACTGG
*
96018 AATAAA
195 ACTAAA
* * *
96024 AGTAGTGATACGTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTTTCATTAAACCGGTA
1 AGTATTGATACATATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTA
* * *
96089 GATTTTTATCGTTTTCATTGTAAATTTACATATTACTTTTAAAGTAATA
66 GATTTTTACCGTTTACATTGTAAATTTACCTATTAC-TTTAAAGTAATA
96138 AAAGTATCGA
Statistics
Matches: 628, Mismatches: 75, Indels: 16
0.87 0.10 0.02
Matches are distributed among these distances:
197 1 0.00
198 103 0.16
199 254 0.40
200 207 0.33
201 51 0.08
202 12 0.02
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (200 bp):
AGTATTGATACATATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTA
GATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAG
TATCGATACTTGTGATACGTGTATCGATACTTTTTGCGTGCAAATTGTTTGAGAAGCATACTGGA
CTAAA
Found at i:95994 original size:399 final size:399
Alignment explanation
Indices: 95233--96137 Score: 1300
Period size: 399 Copynumber: 2.3 Consensus size: 399
95223 GATAGTATTG
* *
95233 ATACCTATACAAAAAGTATTGATACTTTATGTTTACGCCTATTATCATTAAA-CTGGTAGATTTT
1 ATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCT-GTAGATTTT
* *
95297 TACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGA
65 TACCGTTTACATTGTAAATTTACATATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGA
** * * ** *
95362 TACTTGTGACATGTGTGTCGATACTTTCTGCATGCATGTTGTTTGAGAAGCATGCTGGACTAAAA
130 TACTTGTGACACATGTATCAATACTTTCTGCATGCAAATTGTTTGAGAAGCATACTGGACTAAAA
* *
95427 GTATTGATACATATACAAAGAGTATCGATACTTTATGTTTACAACTATTATCATTAAACCGATAT
195 GTATTGATACATATACAAAGAGTATCGATACTTTATGTATACAACTATTATCATTAAACCGATAA
* *
95492 TTTTTACCGTTTGCATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTA
260 TTTTTACAGTTTGCATTGTAAAATTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTA
* *** * * * *
95557 TTGGTACATGTGATACGTATATCGATACTTTTTGCGTGCGTGTTGTTTGAGAAGCATACTGGACT
325 TTGATACATGTGATACGTATATCGATACTTTTTGCGTGCAAATTGTTTCAGAAGCACACTAGAAT
95622 AAAAGTA-TCA
390 AAAAGTAGT-A
95632 ATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCTGTAGATTTTT
1 ATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCTGTAGATTTTT
*
95697 ACCGTTTACATTGTAAATTTACTTATTACTTTAAAGTAATCA-GTTTCAAAATTATAAGTATCGA
66 ACCGTTTACATTGTAAATTTACATATTACTTTAAAGTAAT-AGGTTTCAAAATTATAAGTATCGA
* * * * ** *
95761 TACTTGTTATACATGTATCAATATTTTGTGTGTGCAAATTG-TTGAGAATCATACTGGACTAAAA
130 TACTTGTGACACATGTATCAATACTTTCTGCATGCAAATTGTTTGAGAAGCATACTGGACTAAAA
* * *
95825 GTATTTATACATATACAAAGAGTATCGATACTTTATGTATAC-CCTATTATCATTAAACCGGTAG
195 GTATTGATACATATACAAAGAGTATCGATACTTTATGTATACAACTATTATCATTAAACCGATA-
*
95889 ATTTTTACAATTTTG-ATTGTAAAATTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAG
259 ATTTTTAC-AGTTTGCATTGTAAAATTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAG
* * * *
95953 TATTGATACTTGTTATACGTGTATCGATACTTTTTTGCGTGCAAATTGTTTCAGATGCACACTAG
323 TATTGATACATGTGATACGTATATCGATAC-TTTTTGCGTGCAAATTGTTTCAGAAGCACACTAG
*
96018 AATAAAAGTAGTG
387 AATAAAAGTAGTA
* * *
96031 ATACGTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTTTCATTAAACCGGTAGATTTTT
1 ATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCTGTAGATTTTT
* *
96096 ATCGTTTTCATTGTAAATTTACATATTACTTTTAAAGTAATA
66 ACCGTTTACATTGTAAATTTACATATTAC-TTTAAAGTAATA
96138 AAAGTATCGA
Statistics
Matches: 454, Mismatches: 45, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
397 19 0.04
398 142 0.31
399 278 0.61
400 15 0.03
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (399 bp):
ATACCTATACAAAGAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCTGTAGATTTTT
ACCGTTTACATTGTAAATTTACATATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGAT
ACTTGTGACACATGTATCAATACTTTCTGCATGCAAATTGTTTGAGAAGCATACTGGACTAAAAG
TATTGATACATATACAAAGAGTATCGATACTTTATGTATACAACTATTATCATTAAACCGATAAT
TTTTACAGTTTGCATTGTAAAATTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTAT
TGATACATGTGATACGTATATCGATACTTTTTGCGTGCAAATTGTTTCAGAAGCACACTAGAATA
AAAGTAGTA
Found at i:99351 original size:19 final size:20
Alignment explanation
Indices: 99309--99356 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
99299 GAAAAATCAG
* *
99309 ATTCCCCCCAGGGTGAACAG
1 ATTCCCCCCAGGGGGAACAC
*
99329 ATTCCCCCCAGGGGGTAC-C
1 ATTCCCCCCAGGGGGAACAC
99348 ATTCCCCCC
1 ATTCCCCCC
99357 TGTCTAACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.17
Consensus pattern (20 bp):
ATTCCCCCCAGGGGGAACAC
Found at i:102753 original size:21 final size:21
Alignment explanation
Indices: 102729--102809 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 21
102719 AATCAGATTG
*
102729 CCCA-GGGGTACAGATTCCCCC
1 CCCAGGGGGTACCGATT-CCCC
102750 CCCAGGGGGTACCGATT-CCC
1 CCCAGGGGGTACCGATTCCCC
* *
102770 CCCA-GGGGAACCGATTCTCC
1 CCCAGGGGGTACCGATTCCCC
*
102790 CCCATGGGGTACCGATTCCC
1 CCCAGGGGGTACCGATTCCC
102810 TGTCTAACGG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
19 11 0.21
20 13 0.25
21 17 0.33
22 11 0.21
ACGTcount: A:0.17, C:0.41, G:0.26, T:0.16
Consensus pattern (21 bp):
CCCAGGGGGTACCGATTCCCC
Found at i:102803 original size:40 final size:41
Alignment explanation
Indices: 102729--102809 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
102719 AATCAGATTG
*
102729 CCCAGGGGTACAGATTCCCCCCCCAGGGGGTACCGATTCCC
1 CCCAGGGGAACAGATTCCCCCCCCAGGGGGTACCGATTCCC
* * *
102770 CCCAGGGGAACCGATT-CTCCCCCATGGGGTACCGATTCCC
1 CCCAGGGGAACAGATTCCCCCCCCAGGGGGTACCGATTCCC
102810 TGTCTAACGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 22 0.61
41 14 0.39
ACGTcount: A:0.17, C:0.41, G:0.26, T:0.16
Consensus pattern (41 bp):
CCCAGGGGAACAGATTCCCCCCCCAGGGGGTACCGATTCCC
Found at i:105181 original size:9 final size:9
Alignment explanation
Indices: 105152--105188 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
105142 TACCTTCTCT
105152 TCTTCCTCC
1 TCTTCCTCC
*
105161 TCCTCCTCC
1 TCTTCCTCC
105170 TCTTCCTCC
1 TCTTCCTCC
*
105179 TCTACCTCC
1 TCTTCCTCC
105188 T
1 T
105189 TGCCAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.03, C:0.57, G:0.00, T:0.41
Consensus pattern (9 bp):
TCTTCCTCC
Found at i:107721 original size:200 final size:199
Alignment explanation
Indices: 107174--107748 Score: 580
Period size: 200 Copynumber: 2.9 Consensus size: 199
107164 ATATATTACC
* * * * ** *
107174 CAAGTCTCGATACTTTTGTGTAAGGTATCGATACTTTCGATACATTTTCATTTTTTTCATTTCTT
1 CAAGTATCGATACATGTGTATAAGGTATCGATACTTTTAAGACATTTTC-TTTTTTTCATTTCTT
* * * *
107239 TTCAATTCCTAAAGTACTGATA-TTATTATATATATACTTATAAAAGTATCGAT---AATGTCAA
65 TTAAATTCCTAAAGTACTGATACTT-TGATACATATACTTATAAAAGTATCGATACAAATTTCAA
* ** * * * *
107300 CATATCCT-GTAGCGTTTTACCCTTTTTGTCATATTGAAACCGATTTTGTCAAATTTTAACATGT
129 CA-ATTCTGGTAGC-TTTTACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAAACTTCAACATGT
107364 TATATTGT
192 TATATTGT
* * * * * * * * * *
107372 CATA-TATCGATACATGTGTCTCATGTATCAATAC-TTTATAG--GTGTT-ATTATTGCAATTCT
1 CA-AGTATCGATACATGTGTATAAGGTATCGATACTTTTA-AGACATTTTCTTTTTTTCATTTCT
* * * * *
107432 TTTAAATTTCTAAAGTA-TCGATACTTTGGTGCTTATACTTATAAAAGTATCAATACAAATTTCA
64 TTTAAATTCCTAAAGTACT-GATACTTTGATACATATACTTATAAAAGTATCGATACAAATTTCA
* * * * *
107496 ATC-ATTCTGATATCTATTTACCGGTTTTGTCAAACTGAAATCGGTTTTGTCAAACTTCAACCTG
128 A-CAATTCTGGTAGCT-TTTACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAAACTTCAACATG
107560 TTATATTGT
191 TTATATTGT
107569 CAAGTATCGATACATGTGTATAAGGTATCGATACTTTTAAGACATTTTCTTTTTTTCATTTCTTT
1 CAAGTATCGATACATGTGTATAAGGTATCGATACTTTTAAGACATTTTCTTTTTTTCATTTCTTT
* * * *
107634 TAAATTCCTATAGTACTAATACTTTGATACATATACTTATACATGTATCGATACAAATTTCAACA
66 TAAATTCCTAAAGTACTGATACTTTGATACATATACTTATAAAAGTATCGATACAAATTTCAACA
* *
107699 ATTTTGGTAGCTCTTTACCGGTTTTCTCAAATTGAAACCGGTTTTGTCAA
131 ATTCTGGTAGCT-TTTACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAA
107749 TTTTCAATCG
Statistics
Matches: 297, Mismatches: 63, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
193 1 0.00
194 51 0.17
195 2 0.01
196 9 0.03
197 90 0.30
198 31 0.10
199 5 0.02
200 107 0.36
201 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (199 bp):
CAAGTATCGATACATGTGTATAAGGTATCGATACTTTTAAGACATTTTCTTTTTTTCATTTCTTT
TAAATTCCTAAAGTACTGATACTTTGATACATATACTTATAAAAGTATCGATACAAATTTCAACA
ATTCTGGTAGCTTTTACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAAACTTCAACATGTTATA
TTGT
Found at i:107738 original size:20 final size:20
Alignment explanation
Indices: 107715--107812 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
107705 GTAGCTCTTT
*
107715 ACCGGTTTTCTCAAATTGAA
1 ACCGGTTTTGTCAAATTGAA
* **
107735 ACCGGTTTTGTCAATTTTCA
1 ACCGGTTTTGTCAAATTGAA
* **
107755 ATCGGTTTTGTCAAATTCGTT
1 ACCGGTTTTGTCAAATT-GAA
** *
107776 ACTTGTTTTGTCAACTTGAA
1 ACCGGTTTTGTCAAATTGAA
* *
107796 ACCGGATTTCTCAAATT
1 ACCGGTTTTGTCAAATT
107813 TCAACCTGTT
Statistics
Matches: 57, Mismatches: 20, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
20 44 0.77
21 13 0.23
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (20 bp):
ACCGGTTTTGTCAAATTGAA
Found at i:115040 original size:21 final size:21
Alignment explanation
Indices: 115016--115061 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
115006 TTATGAATCT
* *
115016 TAAACCCTATACATTAAACTC
1 TAAACCCTAAACACTAAACTC
* *
115037 TAAACCTTAAACACTCAACTC
1 TAAACCCTAAACACTAAACTC
115058 TAAA
1 TAAA
115062 TCATATCATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACACTAAACTC
Found at i:115076 original size:55 final size:55
Alignment explanation
Indices: 115017--115128 Score: 179
Period size: 55 Copynumber: 2.0 Consensus size: 55
115007 TATGAATCTT
** * * *
115017 AAACCCTATACATTAAACTCTAAACCTTAAACACTCAACTCTAAATCATATCATA
1 AAACCCTATACACAAAACTATAAACCTTAAACACTAAACTCTAAACCATATCATA
115072 AAACCCTATACACAAAACTATAAACCTTAAACACTAAACTCTAAACCATATCATA
1 AAACCCTATACACAAAACTATAAACCTTAAACACTAAACTCTAAACCATATCATA
115127 AA
1 AA
115129 GGAAAAGGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (55 bp):
AAACCCTATACACAAAACTATAAACCTTAAACACTAAACTCTAAACCATATCATA
Found at i:115097 original size:21 final size:21
Alignment explanation
Indices: 115072--115118 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
115062 TCATATCATA
*
115072 AAACCCTATACACAAAACTAT
1 AAACCCTAAACACAAAACTAT
* * *
115093 AAACCTTAAACACTAAACTCT
1 AAACCCTAAACACAAAACTAT
115114 AAACC
1 AAACC
115119 ATATCATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACCCTAAACACAAAACTAT
Found at i:117348 original size:31 final size:31
Alignment explanation
Indices: 117297--117371 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
117287 AATTTCCAAT
117297 TAGATTTTGTAAG--TTTTTTTTTTGAACAA
1 TAGATTTTGTAAGTTTTTTTTTTTTGAACAA
117326 TAGATTTTGTAAGTTTTTTTTTTTTGAACAA
1 TAGATTTTGTAAGTTTTTTTTTTTTGAACAA
117357 TAGATTTTGTAAGTT
1 TAGATTTTGTAAGTT
117372 CATGTGTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 13 0.30
31 31 0.70
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.56
Consensus pattern (31 bp):
TAGATTTTGTAAGTTTTTTTTTTTTGAACAA
Found at i:120698 original size:3 final size:3
Alignment explanation
Indices: 120690--120719 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
120680 ACAAAATATG
120690 TAA TAA TAA TAA TAA GTAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TA
120720 CTTATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:120708 original size:16 final size:16
Alignment explanation
Indices: 120684--120719 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
120674 GGTGCTACAA
*
120684 AATATGTAATAATAAT
1 AATAAGTAATAATAAT
120700 AATAAGTAATAATAAT
1 AATAAGTAATAATAAT
120716 AATA
1 AATA
120720 CTTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
AATAAGTAATAATAAT
Found at i:120709 original size:13 final size:13
Alignment explanation
Indices: 120693--120717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120683 AAATATGTAA
120693 TAATAATAATAAG
1 TAATAATAATAAG
120706 TAATAATAATAA
1 TAATAATAATAA
120718 TACTTATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TAATAATAATAAG
Found at i:121114 original size:113 final size:114
Alignment explanation
Indices: 120917--121457 Score: 831
Period size: 113 Copynumber: 4.8 Consensus size: 114
120907 CTATTCCATA
* * * * *
120917 TGAAGGGAATATCAAATCTTTGAGAAGAGAGACATGTT-CGTTTACTCTGAAGGGACTATCAGAT
1 TGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATAT
* *
120981 CTGGGGAAGTTGATCCATTGAATCGAAG-CAGACTTGTTCCACTTACTC
66 CTGGGGGAGTTGATCCATTGAATCGAAGATAGACTTGTTCCACTTACTC
*
121029 TGAAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATAT
1 TGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATAT
* *
121094 CTGGGGGAGTTAATCCATTGAATCGAAGA-AGACTTGCTCCACTTACTC
66 CTGGGGGAGTTGATCCATTGAATCGAAGATAGACTTGTTCCACTTACTC
* *
121142 TGAAGGGAATATCAAATCTTAGAAAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATGT
1 TGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATAT
*
121207 CTGGGGGAGTTGATCCATTGAATC-AAGATAGACTTATTCCACTTACTC
66 CTGGGGGAGTTGATCCATTGAATCGAAGATAGACTTGTTCCACTTACTC
*
121255 TGAAGGGAATATCAAATCTTAGAAAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATAT
1 TGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATAT
* *
121320 CTGGGGGAGTTAATCCATTGAATC-AGGATAGACTTGTTCCACTTACTC
66 CTGGGGGAGTTGATCCATTGAATCGAAGATAGACTTGTTCCACTTACTC
* * * * *
121368 TGAACGGAATATCAAATCTTGGATAAGAGAGACATGTTTCGCTTACTCTGAAGGGAATATCAGAT
1 TGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATAT
* * *
121433 CAGGAGGAATTGATCCATTGAATCG
66 CTGGGGGAGTTGATCCATTGAATCG
121458 GGATCGAACC
Statistics
Matches: 397, Mismatches: 28, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
112 40 0.10
113 357 0.90
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (114 bp):
TGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATAT
CTGGGGGAGTTGATCCATTGAATCGAAGATAGACTTGTTCCACTTACTC
Found at i:122600 original size:22 final size:24
Alignment explanation
Indices: 122565--122617 Score: 83
Period size: 22 Copynumber: 2.2 Consensus size: 24
122555 CCCTCCTTTT
122565 ATTTTTTTCTTTTCTTTTTTC-TC
1 ATTTTTTTCTTTTCTTTTTTCTTC
122588 ATTTTTTTC-TTTCTTTTTTCTTTC
1 ATTTTTTTCTTTTCTTTTTTC-TTC
122612 ATTTTT
1 ATTTTT
122618 CATTTTTGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 11 0.39
23 9 0.32
24 8 0.29
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (24 bp):
ATTTTTTTCTTTTCTTTTTTCTTC
Found at i:122604 original size:11 final size:11
Alignment explanation
Indices: 122567--122618 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
122557 CTCCTTTTAT
122567 TTTTTTCTTTTC
1 TTTTTTC-TTTC
*
122579 TTTTTTCTCAT-
1 TTTTTTCT-TTC
122590 TTTTTTCTTTC
1 TTTTTTCTTTC
122601 TTTTTTCTTTC
1 TTTTTTCTTTC
*
122612 ATTTTTC
1 TTTTTTC
122619 ATTTTTGTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 1 0.03
11 26 0.74
12 8 0.23
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:122611 original size:15 final size:16
Alignment explanation
Indices: 122574--122638 Score: 57
Period size: 15 Copynumber: 4.2 Consensus size: 16
122564 TATTTTTTTC
122574 TTTTCTTT-TTTCTCA
1 TTTTCTTTCTTTCTCA
*
122589 TTTT-TTTCTTTCT-T
1 TTTTCTTTCTTTCTCA
*
122603 TTTTCTTTCATTTTTCA
1 TTTTCTTTC-TTTCTCA
* *
122620 TTTT-TGTCTTTTTCA
1 TTTTCTTTCTTTCTCA
122635 TTTT
1 TTTT
122639 TTCAGGCGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.17
15 24 0.57
16 7 0.17
17 4 0.10
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTCTTTCTTTCTCA
Found at i:122618 original size:22 final size:23
Alignment explanation
Indices: 122568--122639 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 23
122558 TCCTTTTATT
*
122568 TTTTTCTTTTCTTTTTTC--TCA
1 TTTTTCATTTCTTTTTTCTTTCA
122589 TTTTTTTC-TTTCTTTTTTCTTTCA
1 --TTTTTCATTTCTTTTTTCTTTCA
*
122613 TTTTTCATTT-TTGTCTT-TTTCA
1 TTTTTCATTTCTT-TTTTCTTTCA
122635 TTTTT
1 TTTTT
122640 TCAGGCGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 29 0.66
23 12 0.27
24 3 0.07
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (23 bp):
TTTTTCATTTCTTTTTTCTTTCA
Found at i:126203 original size:4 final size:4
Alignment explanation
Indices: 126163--126216 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
126153 TCCCATATCA
* *
126163 AAAT AGAAT GAAAT -AAT -AAT ATAT AAA- AAAG AAAT AAAT AAAT AAAT
1 AAAT A-AAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
126210 AAAT AAA
1 AAAT AAA
126217 AAAGAATGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
3 9 0.21
4 27 0.63
5 6 0.14
6 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:126220 original size:27 final size:25
Alignment explanation
Indices: 126173--126222 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
126163 AAATAGAATG
*
126173 AAATAATAATATATAAAAAAGAAAT
1 AAATAATAATAAATAAAAAAGAAAT
126198 AAATAAATAAATAAATAAAAAAGAA
1 AAAT-AAT-AATAAATAAAAAAGAA
126223 TGGAAGGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 3 0.14
27 15 0.68
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (25 bp):
AAATAATAATAAATAAAAAAGAAAT
Found at i:129821 original size:11 final size:11
Alignment explanation
Indices: 129807--129836 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
129797 TACAATGTAG
129807 ATGCAATATGA
1 ATGCAATATGA
*
129818 ATGCAAGATGA
1 ATGCAATATGA
129829 ATGCAATA
1 ATGCAATA
129837 CGAGGTGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (11 bp):
ATGCAATATGA
Found at i:135623 original size:3 final size:3
Alignment explanation
Indices: 135615--135644 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
135605 GCAAAATACT
135615 TAA TAA TAA TAA GTAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
135645 CTTATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:138174 original size:338 final size:335
Alignment explanation
Indices: 137521--138347 Score: 1319
Period size: 338 Copynumber: 2.5 Consensus size: 335
137511 TATATTTTGA
* *
137521 AAAAATTATTGAATAATAATTTATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
*
137586 TTATATTTTTAAACAATTAATTTTAAAAGGCAATAATTTTTTCAAAAATATATGAAATTTATAAT
66 TTATATTTTTAAACAATTAATTTTAAAA-GAAATAATTTTTTCAAAAATATATGAAATTTATAAT
* *
137651 TTTTTAAATTAT-AAAA--TA-T-TTATCATCATCATCATTTTGTAAAATAAATACTAGTTATAA
130 TTTTAAAATTATAAAAATTTATTATTATCATCATCATCATTTTGTAAAAGAAATACTAGTTATAA
* * *
137711 AACTTTTATAAAATTATTCATATTTTAAAATACATATCTCAAAGTTTTTATATACTAGATTATAT
195 AACTTTTATAAAATTATTCATATTTTAAAATACATACCTCAAAGTTTTCATATACTAGATTATAC
* * * *
137776 GTATTGTGTAATTTTAATGCAAATTTTAAATAATTTTATTAAAAATGAATAAATATTATT-AATG
260 GTATTGTGTAATTTTAATGCAAAATTAAAATAATTTTATTAAAAATAAATAAACATTATTAAATG
137840 TTGTTAAAAATT
325 TTGTTAAAAA-T
*
137852 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTATAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATA-TTT
* *
137917 TTTATATTTTTAAACAATTAATTTTAAAATGTAATAATTTTTTCAAAAATATATAAAATTTATAA
65 TTTATATTTTTAAACAATTAATTTTAAAA-GAAATAATTTTTTCAAAAATATATGAAATTTATAA
137982 TTTTTAAAATTATAAAATATTTATTATTATCATCATCATCATTTTGTAAAAGAAATACTAGTTAT
129 TTTTTAAAATTATAAAA-ATTTATTATTATCATCATCATCATTTTGTAAAAGAAATACTAGTTAT
** *
138047 AAAACTTTTATAAAATTATTCATATTTTAAAAT-GTTACCTCAAAGTTTTCCTATACTAGATTAT
193 AAAACTTTTATAAAATTATTCATATTTTAAAATACATACCTCAAAGTTTTCATATACTAGATTAT
138111 ACGTATTGTGTAATTTTAATGCAAAAATTAAAATAATTTTATTAAAAATAAATAAACATTATTAA
258 ACGTATTGTGTAATTTTAATGC-AAAATTAAAATAATTTTATTAAAAATAAATAAACATTATTAA
138176 ATGTTGTTAAAAAT
322 ATGTTGTTAAAAAT
* * * *
138190 AAAAATTAAAGAATAATAATTCACTTAATCCCTTAATTGTAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
*
138255 TTATATTTTTAAACAATTAATTTTAAAAGAAAATAAATTTTTC-AAAATATATGAAATTTATAAT
66 TTATATTTTTAAACAATTAATTTTAAAAG-AAATAATTTTTTCAAAAATATATGAAATTTATAAT
138319 TTTTAAAATTATAAAAAATTTATTATTAT
130 TTTTAAAATTAT-AAAAATTTATTATTAT
138348 AAAAAATAAA
Statistics
Matches: 459, Mismatches: 26, Indels: 17
0.91 0.05 0.03
Matches are distributed among these distances:
331 58 0.13
332 77 0.17
333 3 0.01
334 1 0.00
336 47 0.10
337 95 0.21
338 164 0.36
339 14 0.03
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (335 bp):
AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTT
TTATATTTTTAAACAATTAATTTTAAAAGAAATAATTTTTTCAAAAATATATGAAATTTATAATT
TTTAAAATTATAAAAATTTATTATTATCATCATCATCATTTTGTAAAAGAAATACTAGTTATAAA
ACTTTTATAAAATTATTCATATTTTAAAATACATACCTCAAAGTTTTCATATACTAGATTATACG
TATTGTGTAATTTTAATGCAAAATTAAAATAATTTTATTAAAAATAAATAAACATTATTAAATGT
TGTTAAAAAT
Found at i:138319 original size:26 final size:26
Alignment explanation
Indices: 138290--138341 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
138280 AAAGAAAATA
**
138290 AATTTTTCAAAA-TATATGAAATTTAT
1 AATTTTT-AAAATTATAAAAAATTTAT
138316 AATTTTTAAAATTATAAAAAATTTAT
1 AATTTTTAAAATTATAAAAAATTTAT
138342 TATTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
AATTTTTAAAATTATAAAAAATTTAT
Found at i:138787 original size:19 final size:19
Alignment explanation
Indices: 138752--138788 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
138742 CGTTATATAA
138752 TAATTAAAAGTACTTAATT
1 TAATTAAAAGTACTTAATT
138771 TAATATAAAAGTA-TTAAT
1 TAAT-TAAAAGTACTTAAT
138789 GTAAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (19 bp):
TAATTAAAAGTACTTAATT
Found at i:140213 original size:75 final size:76
Alignment explanation
Indices: 140126--140290 Score: 235
Period size: 76 Copynumber: 2.2 Consensus size: 76
140116 AAAAAATAAT
*
140126 ATAATATTCTAAATCCTAATTAAAATACTAAA-ACATATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAACACATATTTAAACTAAAATACAAAGATAAA-AT
140190 AAAAT-ATAAAA
65 AAAATGATAAAA
* * *
140201 ATAATATCCTAAAACTTAATTAAAATACTAAACACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAACACATATTTAAACTAAAATACAAAGATAAAATA
* * *
140266 TAATGTTTAAA
66 AAATGATAAAA
*
140277 ATATTATCCTAAAT
1 ATAATATCCTAAAT
140291 TTGAGTTTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 35 0.44
76 44 0.56
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAACACATATTTAAACTAAAATACAAAGATAAAATA
AAATGATAAAA
Found at i:145905 original size:15 final size:15
Alignment explanation
Indices: 145883--145923 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
145873 GACCCGAAGT
145883 TCCGGGTACCCAGAAA
1 TCCGGGTACCCA-AAA
*
145899 T-CGGGTACCGAAAA
1 TCCGGGTACCCAAAA
145913 TCCGGGTACCC
1 TCCGGGTACCC
145924 GATTTGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 4 0.18
15 17 0.77
16 1 0.05
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.15
Consensus pattern (15 bp):
TCCGGGTACCCAAAA
Found at i:148380 original size:15 final size:16
Alignment explanation
Indices: 148346--148390 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 16
148336 GTTGTGGTTA
148346 AAATAAAAAATAAGAATT
1 AAATAAAAAAT-A-AATT
148364 AAATAAAAAAT-AATT
1 AAATAAAAAATAAATT
148379 AAATAAACAAAT
1 AAATAAA-AAAT
148391 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.42
16 4 0.15
18 11 0.42
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (16 bp):
AAATAAAAAATAAATT
Found at i:149116 original size:75 final size:74
Alignment explanation
Indices: 149029--149191 Score: 202
Period size: 76 Copynumber: 2.2 Consensus size: 74
149019 AAAAAATAAT
*
149029 ATAATATTCTAAATCCTAATTAAAAAACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAAAACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
149093 AAAATATAAAA
65 AAAAT-TAAAA
* * * * * *
149104 ATAATATCCTAAAACTTAATTATAATACTAAAAACTTATTTAAACTAAATTACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAAAACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
** *
149169 ATGTTTAAA
66 AAATTAAAA
*
149178 ATATTATCCTAAAT
1 ATAATATCCTAAAT
149192 TTGAGTTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
74 16 0.21
75 29 0.39
76 30 0.40
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (74 bp):
ATAATATCCTAAATCCTAATTAAAAAACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
AAATTAAAA
Found at i:149139 original size:20 final size:17
Alignment explanation
Indices: 149114--149152 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
149104 ATAATATCCT
149114 AAAACTTAATTATAATACTA
1 AAAACTT-ATT-TAA-ACTA
149134 AAAACTTATTTAAACTA
1 AAAACTTATTTAAACTA
149151 AA
1 AA
149153 TTACAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 3 0.16
20 7 0.37
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAACTTATTTAAACTA
Found at i:150696 original size:20 final size:19
Alignment explanation
Indices: 150673--150719 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
150663 CGATATAACA
150673 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
150693 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
150713 GGTAAAA
1 GGTAAAA
150720 TGATACCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:150706 original size:180 final size:182
Alignment explanation
Indices: 150281--150752 Score: 680
Period size: 180 Copynumber: 2.6 Consensus size: 182
150271 GATCCAAATT
* * * * **
150281 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTACGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
150346 AAACTGGTAAAGCGCTACC-GAATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
66 AAACCGGTAAAACGATACCAG-ATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
*
150410 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
* *
150463 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCCGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
150528 AAACCCGTAAAACGTTACCAGATATATTGAAAGTATCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
150592 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATAC-TTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
* *
150643 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
150708 AAACCGGTAAAATGATACCAGATATATTGAAAATGTCGATACTTT
66 AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTT
150753 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
180 105 0.41
181 61 0.24
182 92 0.36
183 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
Found at i:150721 original size:17 final size:19
Alignment explanation
Indices: 150682--150724 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
150672 AGGTAAAAAT
150682 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
150702 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
150719 ATGATA
1 ATGATA
150725 CCAGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:152970 original size:21 final size:21
Alignment explanation
Indices: 152944--153008 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
152934 AAGACAATCA
*
152944 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
152965 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
152986 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
153007 AG
1 AG
153009 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:153084 original size:33 final size:33
Alignment explanation
Indices: 153042--153107 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
153032 AAATAGATGG
*
153042 AGTGGTGAAAGAAG-TAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGAT-GAGGTGTTAAGGGGTGA
*
153075 AGTGGTGAAAGAAGATGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGATGAGGTGTTAAGGGGTGA
153108 TATTAAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.21
Consensus pattern (33 bp):
AGTGGTGAAAGAAGATGAGGTGTTAAGGGGTGA
Found at i:154922 original size:19 final size:19
Alignment explanation
Indices: 154898--154946 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
154888 AATATAGGGT
154898 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
154917 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
154936 TAATTTTGTAT
1 TAATTTTGTAT
154947 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:157033 original size:6 final size:6
Alignment explanation
Indices: 156922--157029 Score: 105
Period size: 6 Copynumber: 18.5 Consensus size: 6
156912 AAGATGAAGC
* * * *
156922 TGACGA TGAAGC TGACGA TGAAGA TGACGA TGACGA TGACGA TGATGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA
* * * *
156970 TGACGA TGAAGC TGACGA TGAAGA TGACGA TGA--A -GATGA TGACGA
1 TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA TGACGA
* *
157015 TGATGA TGATGA TGA
1 TGACGA TGACGA TGA
157030 TGATCCAAAC
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
3 2 0.02
4 1 0.01
5 1 0.01
6 79 0.95
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.20
Consensus pattern (6 bp):
TGACGA
Found at i:157033 original size:12 final size:12
Alignment explanation
Indices: 156909--157032 Score: 149
Period size: 12 Copynumber: 10.3 Consensus size: 12
156899 CAAGCGGTCA
*
156909 ATGAAGATGAAG
1 ATGACGATGAAG
*
156921 CTGACGATGAAG
1 ATGACGATGAAG
*
156933 CTGACGATGAAG
1 ATGACGATGAAG
*
156945 ATGACGATGACG
1 ATGACGATGAAG
*
156957 ATGACGATGATG
1 ATGACGATGAAG
156969 ATGACGATGAAG
1 ATGACGATGAAG
*
156981 CTGACGATGAAG
1 ATGACGATGAAG
156993 ATGACGATGAAG
1 ATGACGATGAAG
* * *
157005 ATGATGACGATG
1 ATGACGATGAAG
* *
157017 ATGATGATGATG
1 ATGACGATGAAG
157029 ATGA
1 ATGA
157033 TCCAAACAAG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 100 1.00
ACGTcount: A:0.37, C:0.10, G:0.33, T:0.20
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:158556 original size:183 final size:183
Alignment explanation
Indices: 158242--159186 Score: 1748
Period size: 183 Copynumber: 5.2 Consensus size: 183
158232 ACAAAGTTTT
*
158242 GACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
158307 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
158372 TATA-CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
131 TA-ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
** *
158425 GACACTTTTTAATATTGTGTCTATACTTTATGTCCAGAATGGAAGAAAAATGTATCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
*
158490 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTATAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
158555 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAAGTCTACAACCTATATC
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
* *
158608 GACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
* * *
158673 TCAAAAAGTGTCGACATTTACACATCGAAACCCAAAATTGTAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
158738 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
*
158791 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
158856 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
158921 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
*
158974 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTG
1 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
159039 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
159104 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTATACAACCTATATC
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
159157 GACACTTTTTAATATTGTGTCGGTACTTTA
1 GACACTTTTTAATATTGTGTCGGTACTTTA
159187 CAATAGGAGT
Statistics
Matches: 742, Mismatches: 19, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
182 1 0.00
183 741 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATC
Found at i:167008 original size:28 final size:28
Alignment explanation
Indices: 166968--167024 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
166958 ATGTGAAAAT
166968 AAGCCATTCTGGAAAGTGGTAAAGTTTA
1 AAGCCATTCTGGAAAGTGGTAAAGTTTA
166996 AAGCCATTCTGGAAAGTGGTAAAGTTTA
1 AAGCCATTCTGGAAAGTGGTAAAGTTTA
167024 A
1 A
167025 GTACAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.28
Consensus pattern (28 bp):
AAGCCATTCTGGAAAGTGGTAAAGTTTA
Found at i:167832 original size:53 final size:53
Alignment explanation
Indices: 167519--167825 Score: 488
Period size: 53 Copynumber: 5.8 Consensus size: 53
167509 TCGTGTCAGT
* *
167519 ACTATGTGTGCATCCATTGTATTCATAATGAGTTTGTGAATTATCATTTCGAC
1 ACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGAC
* * * *
167572 ACTATTTGTGCATCCATAGTATTCATAATGAGTTTGTGAATTACTATTTCGGC
1 ACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGAC
*
167625 ACTATGTGTGCATCAATGGTATTCATAATGAGTTTGTGAATTACCATTTCGAC
1 ACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGAC
*
167678 ACTATGTGTGCATCCATGATATTCATAATGAGTTTGTGAATTACCATTTCGAC
1 ACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGAC
* * * * *
167731 ACTATGTCTACATTCATGGTATTCATAACGAGTTTGTGAATTACCATTTCGGC
1 ACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGAC
*
167784 ACTATGTGTGCATCCATGGTATTCATAATGAGTATGTGAATT
1 ACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATT
167826 TTCATTTTGT
Statistics
Matches: 231, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 231 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (53 bp):
ACTATGTGTGCATCCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGAC
Found at i:169131 original size:13 final size:13
Alignment explanation
Indices: 169113--169140 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
169103 CTGACAGTTC
169113 TTTCAGGATGAAT
1 TTTCAGGATGAAT
169126 TTTCAGGATGAAT
1 TTTCAGGATGAAT
169139 TT
1 TT
169141 AAGAACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (13 bp):
TTTCAGGATGAAT
Found at i:171755 original size:15 final size:15
Alignment explanation
Indices: 171737--171780 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
171727 TTTAAAAACA
171737 ATTTTAAGAAAAATC
1 ATTTTAAGAAAAATC
*
171752 ATTTTAAGACAAATC
1 ATTTTAAGAAAAATC
171767 ATTTTAAGACAAAA
1 ATTTTAAGA-AAAA
171781 ATTGGTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 23 0.88
16 3 0.12
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (15 bp):
ATTTTAAGAAAAATC
Found at i:174070 original size:3 final size:3
Alignment explanation
Indices: 174049--174135 Score: 85
Period size: 3 Copynumber: 29.3 Consensus size: 3
174039 CAAATATGTA
* *
174049 AAT AA- AAT GAT ATT AAT AAT AAT AAT AAT AAT AA- ATAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
174093 AA- ATAT AAT AAT AA- ATAT AAT AAT AAT AA- ATAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT A
174136 TTTTTTTAAG
Statistics
Matches: 71, Mismatches: 4, Indels: 18
0.76 0.04 0.19
Matches are distributed among these distances:
2 6 0.08
3 61 0.86
4 4 0.06
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:174094 original size:24 final size:24
Alignment explanation
Indices: 174062--174130 Score: 106
Period size: 24 Copynumber: 2.9 Consensus size: 24
174052 AAAATGATAT
174062 TAATAATAATAATAATAATAAATA
1 TAATAATAATAATAATAATAAATA
174086 TAATAATAA-ATATAATAATAAATA
1 TAATAATAATA-ATAATAATAAATA
174110 TAATAATAATAA-ATATAATAA
1 TAATAATAATAATA-ATAATAA
174131 TAATATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
23 2 0.05
24 39 0.93
25 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
TAATAATAATAATAATAATAAATA
Found at i:174505 original size:43 final size:42
Alignment explanation
Indices: 174448--174531 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
174438 CATTTGAAAA
* *
174448 CATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACG
1 CATCATGCACTGAA-GACTTATGGATGGCCCGAAGGACTTACG
* * *
174491 CATCATGCTCTGAAGACTTATTGATGGCCCGGAGGACTTAC
1 CATCATGCACTGAAGACTTATGGATGGCCCGAAGGACTTAC
174532 AAATCAAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 24 0.67
43 12 0.33
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (42 bp):
CATCATGCACTGAAGACTTATGGATGGCCCGAAGGACTTACG
Found at i:174566 original size:132 final size:132
Alignment explanation
Indices: 174309--174843 Score: 847
Period size: 132 Copynumber: 4.1 Consensus size: 132
174299 AATGGAAATG
* * * * * *
174309 TTGAAAACATCCAGCACTGAAGGTCTTACGGATGGCCCAAAGGACTTA-TCATCTTGCTCGAAAG
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAG
* * * * * * * *
174373 ACTTATAGATGACCCGAATGATTTAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAAATCT
66 ACTTATTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTC-TAAAATAT
174438 CAT
130 CAT
*
174441 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCTGAAG
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAG
174506 ACTTATTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATC
66 ACTTATTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATC
174571 AT
131 AT
* *
174573 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGGAGGACTTACACATCATGCTCGGAAG
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAG
* *
174638 ACTTACTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTTTAAAATATC
66 ACTTATTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATC
174703 AT
131 AT
* *
174705 TTGAAAACATCCTGCACTGAAGGTCTTAAGGATGGCCCGGAGGACTTACGCATCATGCTCGGAAG
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAG
* *
174770 ACTTATTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCGAAGGGTTAGTTTCTAAAATATC
66 ACTTATTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATC
174835 AT
131 AT
174837 TTGAAAA
1 TTGAAAA
174844 TATCATGTTA
Statistics
Matches: 376, Mismatches: 26, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
132 315 0.84
133 61 0.16
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (132 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTACGCATCATGCTCGGAAG
ACTTATTGATGGCCCGGAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATATC
AT
Found at i:174660 original size:20 final size:21
Alignment explanation
Indices: 174603--174664 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
174593 AGGTCTTATG
174603 GATGGCCCGGAGGACTTACACAT
1 GATGGCCCGGAGGACTT--ACAT
* * *
174626 CAT-GCTCGGAAGACTTAC-T
1 GATGGCCCGGAGGACTTACAT
174645 GATGGCCCGGAGGACTTACA
1 GATGGCCCGGAGGACTTACA
174665 AATCAAGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
19 3 0.10
20 15 0.48
22 11 0.35
23 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (21 bp):
GATGGCCCGGAGGACTTACAT
Found at i:176816 original size:1 final size:1
Alignment explanation
Indices: 176812--176879 Score: 73
Period size: 1 Copynumber: 68.0 Consensus size: 1
176802 TCTTTTTTCA
** * * * * *
176812 TTTTTTTTCATTTTTTTTTTTTTTTCTTTTTCTTTTCTTTCTTTTTTTCTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
176877 TTT
1 TTT
176880 CTCTCTGATG
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.01, C:0.09, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:176819 original size:10 final size:10
Alignment explanation
Indices: 176804--176881 Score: 81
Period size: 10 Copynumber: 7.8 Consensus size: 10
176794 ATTTAATTTC
*
176804 TTTTTTCATT
1 TTTTTTCTTT
*
176814 TTTTTTC--A
1 TTTTTTCTTT
176822 TTTTTT-TTT
1 TTTTTTCTTT
176831 TTTTTTCTTT
1 TTTTTTCTTT
176841 TTCTTTTCTTTCT
1 TT-TTTTC-TT-T
176854 TTTTTTCTTT
1 TTTTTTCTTT
*
176864 TTTTTTTTTT
1 TTTTTTCTTT
176874 TTTTTTCT
1 TTTTTTCT
176882 CTCTGATGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
8 6 0.10
9 6 0.10
10 29 0.50
11 7 0.12
12 7 0.12
13 3 0.05
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:176820 original size:17 final size:16
Alignment explanation
Indices: 176800--176879 Score: 94
Period size: 17 Copynumber: 5.0 Consensus size: 16
176790 TTCAATTTAA
176800 TTTCTTTTTTCATTTTT
1 TTTCTTTTTTC-TTTTT
*
176817 TTTCATTTTTTTTTTTT
1 TTTC-TTTTTTCTTTTT
*
176834 TTTC-TTTTTCTTTTC
1 TTTCTTTTTTCTTTTT
176849 TTTCTTTTTTTCTTTTT
1 TTTC-TTTTTTCTTTTT
176866 TTT-TTTTTT-TTTTT
1 TTTCTTTTTTCTTTTT
176880 CTCTCTGATG
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.09
15 19 0.34
17 26 0.46
18 6 0.11
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTCTTTTTTCTTTTT
Found at i:179184 original size:20 final size:20
Alignment explanation
Indices: 179153--179205 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
179143 CTCAGAGGGA
179153 ACCGATTCCCCCCAAGGGGGT
1 ACCGA-TCCCCCCAAGGGGGT
179174 ACCGATCCCCCCAAGGGGGT
1 ACCGATCCCCCCAAGGGGGT
179194 ACCGATCCCCCC
1 ACCGATCCCCCC
179206 TGAATGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 27 0.84
21 5 0.16
ACGTcount: A:0.19, C:0.45, G:0.25, T:0.11
Consensus pattern (20 bp):
ACCGATCCCCCCAAGGGGGT
Found at i:185049 original size:20 final size:22
Alignment explanation
Indices: 185026--185106 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
185016 TTGGTGCAGA
185026 GGGAATCGAT-CCCCCCATGA-
1 GGGAATCGATACCCCCCATGAG
* * **
185046 GGGAACCGAT-TCCCCTTTGAAG
1 GGGAATCGATACCCCCCATG-AG
*
185068 GGGAATCGATTACCCCCCA-CAG
1 GGGAATCGA-TACCCCCCATGAG
185090 GGGAATCGATACCCCCC
1 GGGAATCGATACCCCCC
185107 TGGGGTTCTG
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
20 15 0.31
21 9 0.19
22 19 0.40
23 1 0.02
24 4 0.08
ACGTcount: A:0.25, C:0.35, G:0.25, T:0.16
Consensus pattern (22 bp):
GGGAATCGATACCCCCCATGAG
Found at i:185104 original size:21 final size:22
Alignment explanation
Indices: 185066--185106 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
185056 TCCCCTTTGA
185066 AGGGGAATCGATTACCCCCCAC
1 AGGGGAATCGATTACCCCCCAC
185088 AGGGGAATCGA-TACCCCCC
1 AGGGGAATCGATTACCCCCC
185107 TGGGGTTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.27, C:0.37, G:0.24, T:0.12
Consensus pattern (22 bp):
AGGGGAATCGATTACCCCCCAC
Found at i:207618 original size:25 final size:25
Alignment explanation
Indices: 207584--207636 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
207574 AATACTTTTA
207584 CATTAACACTTTTTTTATTAGTTTG
1 CATTAACACTTTTTTTATTAGTTTG
207609 CATTAACACTTTTTTTATTAGTTTG
1 CATTAACACTTTTTTTATTAGTTTG
207634 CAT
1 CAT
207637 AAATTACAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.13, G:0.08, T:0.55
Consensus pattern (25 bp):
CATTAACACTTTTTTTATTAGTTTG
Found at i:210261 original size:20 final size:21
Alignment explanation
Indices: 210236--210282 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
210226 ATAGTCGGGG
*
210236 CAATATCGATACTCTAAGG-C
1 CAATATCGATACTCAAAGGAC
*
210256 CAATATCGATACTGAAAGGAC
1 CAATATCGATACTCAAAGGAC
210277 CAATAT
1 CAATAT
210283 AGGTATTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (21 bp):
CAATATCGATACTCAAAGGAC
Found at i:210603 original size:22 final size:23
Alignment explanation
Indices: 210578--210627 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
210568 CAGTGTTAAT
*
210578 GCACTTTTA-TATTAGTGCCGAG
1 GCACTTTTAGTATTAGTGCCAAG
*
210600 GCAC-TTTAGTATTAGTGCTAAG
1 GCACTTTTAGTATTAGTGCCAAG
210622 GCACTT
1 GCACTT
210628 CCGTGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 19 0.79
23 1 0.04
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
GCACTTTTAGTATTAGTGCCAAG
Found at i:222823 original size:20 final size:19
Alignment explanation
Indices: 222786--222825 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
222776 TTGATGGATA
*
222786 TTTTATTTACATGCTGATT
1 TTTTATTTAAATGCTGATT
*
222805 TTTTAGTTTAAATGTTGATT
1 TTTTA-TTTAAATGCTGATT
222825 T
1 T
222826 GGGATCAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (19 bp):
TTTTATTTAAATGCTGATT
Found at i:230064 original size:13 final size:13
Alignment explanation
Indices: 230046--230089 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
230036 ATAAATAATA
*
230046 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
230059 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
230072 AAACAACTACAAT
1 AAAAAACTACAAT
230085 AAAAA
1 AAAAA
230090 GTACTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:232344 original size:9 final size:9
Alignment explanation
Indices: 232314--232365 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
232304 ATATGCAAAA
*
232314 AAATTAATT
1 AAATTAAAT
232323 AAA-TAAA-
1 AAATTAAAT
*
232330 ATATTAAAT
1 AAATTAAAT
232339 AAATTAAAT
1 AAATTAAAT
*
232348 -ACTTAAAT
1 AAATTAAAT
232356 AAATTAAAT
1 AAATTAAAT
232365 A
1 A
232366 CAAAATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 2 0.06
8 14 0.40
9 19 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTAAAT
Found at i:232346 original size:17 final size:17
Alignment explanation
Indices: 232311--232363 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
232301 TATATATGCA
* *
232311 AAAAAATTAATTAAA-T
1 AAAATATTAAATAAATT
232327 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
232344 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
232361 AAA
1 AAA
232364 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 18 0.56
17 12 0.38
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:232364 original size:17 final size:17
Alignment explanation
Indices: 232317--232366 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
232307 TGCAAAAAAA
* *
232317 TTAATTAAATAAAATA-
1 TTAAATAAATTAAATAC
232333 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
232350 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
232367 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:235535 original size:14 final size:14
Alignment explanation
Indices: 235516--235545 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
235506 TTTGGTAAAG
235516 AATTAAAGTGTCTA
1 AATTAAAGTGTCTA
235530 AATTAAAGTGTCTA
1 AATTAAAGTGTCTA
235544 AA
1 AA
235546 CTTTAGTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (14 bp):
AATTAAAGTGTCTA
Found at i:237959 original size:2 final size:2
Alignment explanation
Indices: 237952--237977 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
237942 CTGATAGAAA
237952 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
237978 TTGCTTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:239783 original size:23 final size:23
Alignment explanation
Indices: 239757--239820 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 23
239747 GTCTGTTATG
239757 TTTTAGGATCAGAAATAGA-AGAA
1 TTTTAGGATCAGAAATAGAGAG-A
239780 TTTTAGGGATTTCAGAAATAGAGAGA
1 TTTTA-GGA--TCAGAAATAGAGAGA
239806 TTTTAGG-TACAGAAA
1 TTTTAGGAT-CAGAAA
239821 ACGTTCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
22 1 0.03
23 11 0.31
24 3 0.08
25 2 0.06
26 17 0.47
27 2 0.06
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (23 bp):
TTTTAGGATCAGAAATAGAGAGA
Done.