Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 282 of 297
Found at i:95989013 original size:18 final size:18
Alignment explanation
Indices: 95988992--95989028 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
95988982 AAATAAGAGT
95988992 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
95989010 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
95989028 A
1 A
95989029 TGATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AATAATAGTAATAATAAA
Found at i:96002796 original size:17 final size:17
Alignment explanation
Indices: 96002770--96002807 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
96002760 TATATATTGT
*
96002770 ATATTTAACACAAATAA
1 ATATTCAACACAAATAA
96002787 ATATTCAACACAAATAA
1 ATATTCAACACAAATAA
96002804 ATAT
1 ATAT
96002808 CAAAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATTCAACACAAATAA
Found at i:96003170 original size:24 final size:24
Alignment explanation
Indices: 96003143--96003188 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
96003133 TACTCATACA
*
96003143 TTGCTTTGTTCCATCATCTCAACT
1 TTGCCTTGTTCCATCATCTCAACT
**
96003167 TTGCCTTGTTTTATCATCTCAA
1 TTGCCTTGTTCCATCATCTCAA
96003189 AATATCTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.26, G:0.09, T:0.48
Consensus pattern (24 bp):
TTGCCTTGTTCCATCATCTCAACT
Found at i:96009293 original size:84 final size:84
Alignment explanation
Indices: 96009188--96009353 Score: 305
Period size: 84 Copynumber: 2.0 Consensus size: 84
96009178 TAATTGTTAG
*
96009188 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTTGTTTATTCAATGAC
1 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
96009253 GGCCATAAGGTAATTAGAC
66 GGCCATAAGGTAATTAGAC
* *
96009272 AAGTGTATTATGAAAATGTTGATATATCAAGACTTGCTGTCCTTGATTTTCGTTTATTCAATGAC
1 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
96009337 GGCCATAAGGTAATTAG
66 GGCCATAAGGTAATTAG
96009354 CCCTTGTCTA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (84 bp):
AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
GGCCATAAGGTAATTAGAC
Found at i:96013057 original size:17 final size:18
Alignment explanation
Indices: 96013035--96013080 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
96013025 GGCTGTTCTA
96013035 GTGAGCTTGCA-GTCTTG
1 GTGAGCTTGCATGTCTTG
* * *
96013052 GTGAGCTCGCATTTTTTG
1 GTGAGCTTGCATGTCTTG
96013070 GTGAGCTTGCA
1 GTGAGCTTGCA
96013081 CATTGGGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.13, C:0.17, G:0.33, T:0.37
Consensus pattern (18 bp):
GTGAGCTTGCATGTCTTG
Found at i:96018044 original size:15 final size:15
Alignment explanation
Indices: 96018012--96018040 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
96018002 ATTTTCTGTG
96018012 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
96018027 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
96018041 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:96020003 original size:22 final size:23
Alignment explanation
Indices: 96019978--96020037 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
96019968 TGGACTGAAT
96019978 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
96020000 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
96020022 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
96020038 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:96020005 original size:4 final size:4
Alignment explanation
Indices: 96019987--96020020 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
96019977 TATAAAAATT
96019987 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
96020021 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:96025620 original size:23 final size:24
Alignment explanation
Indices: 96025594--96025644 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
96025584 AAATGGAAAG
96025594 AAGGAAAT-AAGGGA-AGAAAAGAA
1 AAGGAAATCAAGGGAGA-AAAAGAA
*
96025617 AAGG-AATCAATGGAGAAAAAGAA
1 AAGGAAATCAAGGGAGAAAAAGAA
96025640 AAGGA
1 AAGGA
96025645 TGGGGGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.12
23 20 0.83
24 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.29, T:0.06
Consensus pattern (24 bp):
AAGGAAATCAAGGGAGAAAAAGAA
Found at i:96033332 original size:30 final size:30
Alignment explanation
Indices: 96033276--96033333 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
96033266 CACGGCTAGG
* *
96033276 ACACACGAGCGTGTGCTTTACCCGTGTGTC
1 ACACACGAGCGTGTGCATCACCCGTGTGTC
* *
96033306 ACACACGAGCGTGTGGATCACTCGTGTG
1 ACACACGAGCGTGTGCATCACCCGTGTG
96033334 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (30 bp):
ACACACGAGCGTGTGCATCACCCGTGTGTC
Found at i:96038209 original size:17 final size:17
Alignment explanation
Indices: 96038187--96038228 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
96038177 AGAGCTCGCA
*
96038187 GGTGAGCTC-TCATGCTT
1 GGTGAGCTCGTAATG-TT
*
96038204 GGTGAGTTCGTAATGTT
1 GGTGAGCTCGTAATGTT
96038221 GGTGAGCT
1 GGTGAGCT
96038229 GTCCTGGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.14, C:0.14, G:0.36, T:0.36
Consensus pattern (17 bp):
GGTGAGCTCGTAATGTT
Found at i:96038282 original size:17 final size:15
Alignment explanation
Indices: 96038260--96038302 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
96038250 GTAGTTTGTA
96038260 GGTGAGCTCACAGTCTT
1 GGTGAGCTCACA-T-TT
96038277 GGTGAGCTTGCACATTT
1 GGTGAGC-T-CACATTT
96038294 GGTGAGCTC
1 GGTGAGCTC
96038303 GTAGTTCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 1 0.04
17 16 0.67
18 2 0.08
19 4 0.17
ACGTcount: A:0.16, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
GGTGAGCTCACATTT
Found at i:96038325 original size:60 final size:60
Alignment explanation
Indices: 96038233--96038380 Score: 190
Period size: 61 Copynumber: 2.5 Consensus size: 60
96038223 TGAGCTGTCC
* * * * *
96038233 TGGTGAGCTTGCAGTTCGTAGTTTGTAGGTGAGCTCACAGTC-TTGGTGAGCTTGCACATT
1 TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACA-TCTTTGGTGAGCTTGCACATT
* * *
96038293 TGGTGAGCTCGTAGTTCGCAGTTAGCAAGTGAGCTCGCATCTTTTGGTGAGCTTTCACATT
1 TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACATC-TTTGGTGAGCTTGCACATT
*
96038354 TGGTGAGCTCACAGTTCGCAGTTAGCA
1 TGGTGAGCTCGCAGTTCGCAGTTAGCA
96038381 GGGATGGTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
59 2 0.03
60 32 0.42
61 42 0.55
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (60 bp):
TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACATCTTTGGTGAGCTTGCACATT
Found at i:96038344 original size:18 final size:17
Alignment explanation
Indices: 96038321--96038363 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
96038311 CAGTTAGCAA
*
96038321 GTGAGCTCGCATCTTTTG
1 GTGAGCTCGCA-CATTTG
**
96038339 GTGAGCTTTCACATTTG
1 GTGAGCTCGCACATTTG
96038356 GTGAGCTC
1 GTGAGCTC
96038364 ACAGTTCGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.14, C:0.21, G:0.28, T:0.37
Consensus pattern (17 bp):
GTGAGCTCGCACATTTG
Found at i:96039061 original size:27 final size:23
Alignment explanation
Indices: 96039031--96039087 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 23
96039021 GACAAACAAT
96039031 ATAAATTTAAGAGTTAAAAAAGATAAA
1 ATAAATTTAA-A--TAAAAAA-ATAAA
*
96039058 ATAAA-TTAAATAAAAAATTAAA
1 ATAAATTTAAATAAAAAAATAAA
96039080 ATAAATTT
1 ATAAATTT
96039088 TTTATAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.32
23 9 0.32
25 1 0.04
26 4 0.14
27 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (23 bp):
ATAAATTTAAATAAAAAAATAAA
Found at i:96052813 original size:29 final size:27
Alignment explanation
Indices: 96052754--96052842 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 27
96052744 ATAGCCATAG
* *
96052754 AGGC-TTCCTTTACAGAGATTGCTACAG
1 AGGCTTTCCTTTA-AGAGATTGCCACAA
*
96052781 AGGCTTTCCTTTGATAGAGATTACCACAA
1 AGGCTTTCCTTT-A-AGAGATTGCCACAA
96052810 AGGCGTTTCCTTTAAGAGATTTGCCACAA
1 AGGC-TTTCCTTTAAGAGA-TTGCCACAA
96052839 AGGC
1 AGGC
96052843 ATTCTTAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 4 0.08
28 12 0.23
29 29 0.55
30 8 0.15
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (27 bp):
AGGCTTTCCTTTAAGAGATTGCCACAA
Found at i:96052982 original size:22 final size:22
Alignment explanation
Indices: 96052939--96052982 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
96052929 GCTTTCCTTT
* *
96052939 ACATCCAGTATTCGACATAAAG
1 ACATCCAGTACTCGACACAAAG
96052961 ACATCCAGTACTC-ACCACAAAG
1 ACATCCAGTACTCGA-CACAAAG
96052983 GCTTTCCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.18
Consensus pattern (22 bp):
ACATCCAGTACTCGACACAAAG
Found at i:96057455 original size:14 final size:15
Alignment explanation
Indices: 96057426--96057565 Score: 67
Period size: 16 Copynumber: 9.1 Consensus size: 15
96057416 ATTAGTAAAA
96057426 AAGAATATATACATAAT
1 AAGAATATAT--ATAAT
96057443 AA-AATATATATAA-
1 AAGAATATATATAAT
96057456 AAGAATATATA-AGA-
1 AAGAATATATATA-AT
* *
96057470 AA-AATAAATATTAT
1 AAGAATATATATAAT
*
96057484 AAGGAATGTTATATAAT
1 AA-GAAT-ATATATAAT
*
96057501 AAGATATAGTATGTAAT
1 AAGA-ATA-TATATAAT
*
96057518 AA-AATATAAATAAT
1 AAGAATATATATAAT
* * *
96057532 TATAATGAAATATAAT
1 AAGAAT-ATATATAAT
* *
96057548 ATGGTATATATATAAT
1 A-AGAATATATATAAT
96057564 AA
1 AA
96057566 TAGTAATAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
13 11 0.12
14 24 0.26
15 6 0.06
16 29 0.31
17 23 0.25
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.33
Consensus pattern (15 bp):
AAGAATATATATAAT
Found at i:96057465 original size:16 final size:16
Alignment explanation
Indices: 96057424--96057466 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
96057414 TAATTAGTAA
96057424 AAAAGAATATATACAT
1 AAAAGAATATATACAT
96057440 AATAA-AATATAT--AT
1 AA-AAGAATATATACAT
96057454 AAAAGAATATATA
1 AAAAGAATATATA
96057467 AGAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.08
14 11 0.46
16 9 0.38
17 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (16 bp):
AAAAGAATATATACAT
Found at i:96058034 original size:23 final size:23
Alignment explanation
Indices: 96058008--96058052 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
96057998 TCAACACGCG
96058008 GATTCTAAGCCTTCAAACGACGT
1 GATTCTAAGCCTTCAAACGACGT
* * *
96058031 GATTCTGAGTCTTGAAACGACG
1 GATTCTAAGCCTTCAAACGACG
96058053 CCGTTTCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
GATTCTAAGCCTTCAAACGACGT
Found at i:96058575 original size:51 final size:51
Alignment explanation
Indices: 96058506--96058603 Score: 196
Period size: 51 Copynumber: 1.9 Consensus size: 51
96058496 TAGATCAAAG
96058506 AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATCAAGC
1 AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATCAAGC
96058557 AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATC
1 AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATC
96058604 CTTGATTTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (51 bp):
AAAAAGGCTTTATAACCTCAGTCTATTACATATTTTGGAAAGAAATCAAGC
Found at i:96060690 original size:18 final size:19
Alignment explanation
Indices: 96060667--96060707 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
96060657 GCCTCTCCAT
*
96060667 TTTTCTCTTTTTT-TTTTA
1 TTTTCTATTTTTTGTTTTA
*
96060685 TTTTCTATTTTTTGTTTTC
1 TTTTCTATTTTTTGTTTTA
96060704 TTTT
1 TTTT
96060708 GATTTTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTCTATTTTTTGTTTTA
Found at i:96060695 original size:25 final size:25
Alignment explanation
Indices: 96060667--96060714 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
96060657 GCCTCTCCAT
* *
96060667 TTTTCTCTTTTTTTTTTATTTTCTA
1 TTTTCTCTTTTCTTTTGATTTTCTA
* *
96060692 TTTTTTGTTTTCTTTTGATTTTC
1 TTTTCTCTTTTCTTTTGATTTTC
96060715 GAAACCTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.79
Consensus pattern (25 bp):
TTTTCTCTTTTCTTTTGATTTTCTA
Found at i:96065800 original size:39 final size:40
Alignment explanation
Indices: 96065690--96065873 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
96065680 GCTCCTCGTT
* * * *
96065690 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
96065730 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
96065770 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
96065809 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
96065850 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
96065874 CAACATTCAA
Statistics
Matches: 128, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 50 0.39
40 66 0.52
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:96065801 original size:79 final size:82
Alignment explanation
Indices: 96065690--96065873 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 82
96065680 GCTCCTCGTT
* *
96065690 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACACAAATGCCTTCGGGA-CTTAGCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCACACAAATGCCTTC-GGATCTTAGCC
*
96065752 CGGAT-TTAGTAAC-TCGCA
64 CGGATATT-GTAACTTAGCA
* *
96065770 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCACACAAATGCCTTCGGATCTTAGCCCG
*
96065833 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
96065850 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
96065874 CAACATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCACACAAATGCCTTCGGATCTTAGCCCG
GATATTGTAACTTAGCA
Found at i:96073901 original size:12 final size:12
Alignment explanation
Indices: 96073886--96073928 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
96073876 TTCTTTTTGC
96073886 TTTTCAAAGGCT
1 TTTTCAAAGGCT
96073898 TTTTCAAAGGCT
1 TTTTCAAAGGCT
96073910 TTTTCAAAGGCT
1 TTTTCAAAGGCT
96073922 TTTTCAA
1 TTTTCAA
96073929 TTTCTCTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:96074005 original size:6 final size:6
Alignment explanation
Indices: 96073989--96074038 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
96073979 TTTCTTTTTA
*
96073989 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
96074038 T
1 T
96074039 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:96074021 original size:37 final size:37
Alignment explanation
Indices: 96073978--96074048 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
96073968 CTTGCCTCTC
96073978 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
96074015 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
96074049 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:96074049 original size:16 final size:16
Alignment explanation
Indices: 96073974--96074034 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
96073964 GCCTCTTGCC
*
96073974 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
96073990 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
96074006 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
96074022 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
96074035 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:96076748 original size:30 final size:30
Alignment explanation
Indices: 96076714--96076810 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
96076704 TAAACTAAAA
*
96076714 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
96076744 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
96076774 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
96076803 ATGAGCTA
1 -TGAGCTA
96076811 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:96078021 original size:75 final size:75
Alignment explanation
Indices: 96077903--96078633 Score: 1214
Period size: 75 Copynumber: 9.7 Consensus size: 75
96077893 TGATATTTTT
* * * *
96077903 ATTTCTGTTTTTCAAAAAAATTAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGTCACACGCC
1 ATTTCTGTTTTTC--AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCC
*
96077968 AAGGTATTTTCA
64 GAGGTATTTTCA
96077980 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
96078045 GGTATTTTCA
66 GGTATTTTCA
96078055 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
96078120 GGTATTTTCA
66 GGTATTTTCA
96078130 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
96078195 GGTATTTTCA
66 GGTATTTTCA
96078205 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
96078270 GGTATTTTCA
66 GGTATTTTCA
96078280 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
96078345 GGTATTTTCA
66 GGTATTTTCA
96078355 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
96078420 GGTATTTTCA
66 GGTATTTTCA
* * *
96078430 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
96078495 GGTATCTTT-A
66 GGTAT-TTTCA
** * * * *
96078505 A-TTCATGTTTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGTCACGCACT
1 ATTTC-TGTTTTTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCC
*
96078569 GAGATATTTTCA
64 GAGGTATTTTCA
* * *
96078581 ATTTATGTTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 ATTTCTG-TTTTTC--AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
96078634 TTTAGTCTCT
Statistics
Matches: 630, Mismatches: 17, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
74 3 0.00
75 512 0.81
76 58 0.09
77 21 0.03
78 36 0.06
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (75 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGA
GGTATTTTCA
Found at i:96079798 original size:11 final size:11
Alignment explanation
Indices: 96079778--96079808 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
96079768 CATACATTTT
96079778 AAAAAT-ATAA
1 AAAAATAATAA
96079788 AAAAATAATAA
1 AAAAATAATAA
96079799 AAAAATAATA
1 AAAAATAATA
96079809 CCTTTTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:96080521 original size:3 final size:3
Alignment explanation
Indices: 96080460--96080591 Score: 125
Period size: 3 Copynumber: 45.7 Consensus size: 3
96080450 TTGTATATAG
* * *
96080460 TAT TAT T-T T-T TAT TAC T-T TAT T-T TAA TAT TTT TAT TA- TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
96080502 TCT TTT GTAT T-T TAT TAT TAC TAC TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96080547 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
96080592 GTGTATACTT
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
2 13 0.12
3 93 0.84
4 5 0.05
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:96089651 original size:20 final size:20
Alignment explanation
Indices: 96089626--96089666 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
96089616 TTTTTTAAAA
*
96089626 TTAAAAATCATTAAAAT-TAT
1 TTAAAAAT-ATAAAAATATAT
96089646 TTAAAAATATAAAAATATAT
1 TTAAAAATATAAAAATATAT
96089666 T
1 T
96089667 CTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAAATATAAAAATATAT
Found at i:96090331 original size:23 final size:23
Alignment explanation
Indices: 96090274--96090331 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
96090264 CATTTTAATT
*
96090274 TTTATTATGTATATTTTATTACC
1 TTTATTATTTATATTTTATTACC
* *
96090297 TTTATCAATTATATATTTATATA-C
1 TTTATTATTTATAT-TTTAT-TACC
96090321 -TTATTATTTAT
1 TTTATTATTTAT
96090332 TAAGGATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 20 0.71
24 6 0.21
25 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTATTATTTATATTTTATTACC
Found at i:96090788 original size:30 final size:29
Alignment explanation
Indices: 96090749--96090808 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
96090739 GACATTCTTA
*
96090749 ATTAATTTTAAAC-TATATGTTTTATTATTT
1 ATTAATTTTAAACACATAT-TTTTATT-TTT
*
96090779 ATTATTTTTAAACACATATTTTTATTTTT
1 ATTAATTTTAAACACATATTTTTATTTTT
96090808 A
1 A
96090809 ATTTATTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 4 0.15
30 19 0.70
31 4 0.15
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (29 bp):
ATTAATTTTAAACACATATTTTTATTTTT
Found at i:96091177 original size:23 final size:23
Alignment explanation
Indices: 96091151--96091195 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
96091141 AAAAAAAACT
96091151 TAGGAAAAGTCTTTTGAAAGATA
1 TAGGAAAAGTCTTTTGAAAGATA
96091174 TAGGAAAAGTCTTTTGAAAGAT
1 TAGGAAAAGTCTTTTGAAAGAT
96091196 CTGATCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.31
Consensus pattern (23 bp):
TAGGAAAAGTCTTTTGAAAGATA
Found at i:96093799 original size:44 final size:44
Alignment explanation
Indices: 96093736--96093826 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
96093726 AACTTTGTTT
*
96093736 TTAGTTTACCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTACCACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
* * * *
96093780 TTAGTTTCCCATTTAAACTCTAATTAGTGTATGTTCTTTTAATA
1 TTAGTTTACCACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
96093824 TTA
1 TTA
96093827 TTTGACCTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (44 bp):
TTAGTTTACCACTTAAACTCTAATTAGTGTAGGTTATTTTAATA
Found at i:96098507 original size:11 final size:11
Alignment explanation
Indices: 96098434--96098509 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
96098424 ATTTCAAAGA
*
96098434 TAATATTATTT
1 TAATATTAATT
96098445 TAATAGTTTAATAT
1 TAATA--TTAAT-T
96098459 TAA-ATTTAATT
1 TAATA-TTAATT
*
96098470 TAATATTTATCT
1 TAATATTAAT-T
*
96098482 TAATAAT-ATT
1 TAATATTAATT
96098492 T--TATTAATT
1 TAATATTAATT
96098501 TAATATTAA
1 TAATATTAA
96098510 ATTGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:96098530 original size:68 final size:67
Alignment explanation
Indices: 96098451--96098657 Score: 191
Period size: 68 Copynumber: 3.1 Consensus size: 67
96098441 ATTTTAATAG
96098451 TTTAATATTAAATTTAATTTAATATTTATCTTAAT-AATATTTTATTAATTTAATATTAAATTGA
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTTTATTAATTTAATATTAAA-TGA
96098515 TTA
65 TTA
* * * * *
96098518 TCTTCATATTAAATTAAATTTAATGA-TTATCTTATAGATAAACATTTTGTT-ATTT--TAAT-A
1 T-TTAATATTAAATTTAATTTAAT-ATTTATC-T-TA-ATAAATATTTTATTAATTTAATATTAA
96098578 A-G---A
61 ATGATTA
* * *
96098581 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGA
1 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTTTATTAATTTAATATTAAA-TGA
96098646 TTA
65 TTA
96098649 GGTTTAATA
1 --TTTAATA
96098658 ATAGTTGAAC
Statistics
Matches: 109, Mismatches: 13, Indels: 33
0.70 0.08 0.21
Matches are distributed among these distances:
59 11 0.10
60 5 0.05
61 2 0.02
62 27 0.25
63 4 0.04
65 1 0.01
66 1 0.01
67 1 0.01
68 28 0.26
69 5 0.05
70 9 0.08
71 6 0.06
72 9 0.08
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (67 bp):
TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTTTATTAATTTAATATTAAATGAT
TA
Found at i:96099898 original size:48 final size:48
Alignment explanation
Indices: 96099828--96099973 Score: 274
Period size: 48 Copynumber: 3.0 Consensus size: 48
96099818 TACACTAATT
* *
96099828 AAAAAATTACTACATCCGTTTATTATCTAGTTAATGGTAGATAATGGA
1 AAAAAATTATTACATCCTTTTATTATCTAGTTAATGGTAGATAATGGA
96099876 AAAAAATTATTACATCCTTTTATTATCTAGTTAATGGTAGATAATGGA
1 AAAAAATTATTACATCCTTTTATTATCTAGTTAATGGTAGATAATGGA
96099924 AAAAAATTATTACATCCTTTTATTATCTAGTTAATGGTAGATAATGGA
1 AAAAAATTATTACATCCTTTTATTATCTAGTTAATGGTAGATAATGGA
96099972 AA
1 AA
96099974 TGGATTCAAA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (48 bp):
AAAAAATTATTACATCCTTTTATTATCTAGTTAATGGTAGATAATGGA
Found at i:96100525 original size:19 final size:19
Alignment explanation
Indices: 96100488--96100548 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 19
96100478 AAAATATAAA
96100488 TTTTGAAAATTTTATAAATTT
1 TTTTG-AAATTTTA-AAATTT
96100509 TTTTGAAATTTTAAAATTAT
1 TTTTGAAATTTTAAAATT-T
96100529 TTTT--AATATTTAAAATTT
1 TTTTGAAAT-TTTAAAATTT
96100547 TT
1 TT
96100549 GTTGTGAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.16
19 14 0.37
20 13 0.34
21 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTGAAATTTTAAAATTT
Found at i:96104481 original size:16 final size:16
Alignment explanation
Indices: 96104460--96104492 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
96104450 TAGAATCTAG
96104460 ACTTAAAATCCAATGC
1 ACTTAAAATCCAATGC
*
96104476 ACTTAAAATCCTATGC
1 ACTTAAAATCCAATGC
96104492 A
1 A
96104493 TCAATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (16 bp):
ACTTAAAATCCAATGC
Found at i:96108613 original size:17 final size:19
Alignment explanation
Indices: 96108582--96108619 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
96108572 CAAATAGTCG
96108582 AAGAAGAACAATGAAA-AA
1 AAGAAGAACAATGAAAGAA
*
96108600 AAGAA-AACACTGAAAGAA
1 AAGAAGAACAATGAAAGAA
96108618 AA
1 AA
96108620 TATAGCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.71, C:0.08, G:0.16, T:0.05
Consensus pattern (19 bp):
AAGAAGAACAATGAAAGAA
Found at i:96109854 original size:15 final size:14
Alignment explanation
Indices: 96109821--96109866 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
96109811 TAATTAATAA
96109821 TATAT-TTTTTAAT
1 TATATCTTTTTAAT
96109834 TA-ATCTTTTTAAT
1 TATATCTTTTTAAT
*
96109847 TAATATCTCTTTTATT
1 T-ATATCT-TTTTAAT
96109863 TATA
1 TATA
96109867 AAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 2 0.07
13 11 0.39
14 1 0.04
15 7 0.25
16 7 0.25
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATCTTTTTAAT
Found at i:96110362 original size:13 final size:13
Alignment explanation
Indices: 96110329--96110363 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
96110319 TAAGTTATTT
96110329 TTATTATTTTTAA
1 TTATTATTTTTAA
*
96110342 TTAATATTTTTAA
1 TTATTATTTTTAA
*
96110355 TTTTTATTT
1 TTATTATTT
96110364 CACGTCGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTTTTAA
Found at i:96111095 original size:31 final size:31
Alignment explanation
Indices: 96111057--96111116 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
96111047 ACCCACTTAA
* *
96111057 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
1 GAAAAAGTGTCAAGCTTAGGAACCAAATTAG
*
96111088 GAAAAAGTGTTAAGCTTAGGAACCAAATT
1 GAAAAAGTGTCAAGCTTAGGAACCAAATT
96111117 GGACTACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (31 bp):
GAAAAAGTGTCAAGCTTAGGAACCAAATTAG
Found at i:96112231 original size:17 final size:17
Alignment explanation
Indices: 96112209--96112258 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 17
96112199 AATAAAAGAG
96112209 ATATTAATTAAAAATAT
1 ATATTAATTAAAAATAT
96112226 GA-ATTAAATATAAAAATAT
1 -ATATT-AAT-TAAAAATAT
96112245 ATATTAATTAAAAA
1 ATATTAATTAAAAA
96112259 AACTTGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.31
18 8 0.28
19 12 0.41
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATTAATTAAAAATAT
Found at i:96112932 original size:27 final size:27
Alignment explanation
Indices: 96112879--96112932 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
96112869 CTTATAAAAA
* *
96112879 AAATCATATAATAAACTTTTCCCTATT
1 AAATCATATAATAAACTTTTACATATT
*
96112906 AAATCTTATAAT-AACTTTTTACATATT
1 AAATCATATAATAAAC-TTTTACATATT
96112933 GATAAGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATCATATAATAAACTTTTACATATT
Found at i:96113609 original size:19 final size:21
Alignment explanation
Indices: 96113579--96113624 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
96113569 TTTTAGTACT
*
96113579 TTTTTTAGTATTTTCTCAT-A
1 TTTTTTAGTATTCTCTCATAA
*
96113599 TTTTTTA-TATTCTCTCGTAA
1 TTTTTTAGTATTCTCTCATAA
96113619 TTTTTT
1 TTTTTT
96113625 TTGTACATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.17, C:0.11, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTTAGTATTCTCTCATAA
Found at i:96113811 original size:20 final size:20
Alignment explanation
Indices: 96113788--96113872 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
96113778 TTTATTATAT
*
96113788 TTTTTGGTATTTCCTCGTAA
1 TTTTTGGTATTTCCTCATAA
* **
96113808 TTTTTGATACATCCTCATAA
1 TTTTTGGTATTTCCTCATAA
*
96113828 GTTTTGGTATTTCCTCATTAA
1 TTTTTGGTATTTCCTCA-TAA
* * *
96113849 -TCTTGGTATTTCCTTATAG
1 TTTTTGGTATTTCCTCATAA
96113868 TTTTT
1 TTTTT
96113873 CATACTTTCT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 2 0.04
20 46 0.90
21 3 0.06
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (20 bp):
TTTTTGGTATTTCCTCATAA
Found at i:96114245 original size:19 final size:19
Alignment explanation
Indices: 96114198--96114247 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
96114188 AGTATTATCG
*
96114198 CATAATTTTTGGTATTTCCT
1 CATAATTTTT-GTATTCCCT
**
96114218 CATTTTTTTTGTATTCCCT
1 CATAATTTTTGTATTCCCT
*
96114237 TATAATTTTTG
1 CATAATTTTTG
96114248 ATACTTCCTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.60
Consensus pattern (19 bp):
CATAATTTTTGTATTCCCT
Found at i:96114305 original size:25 final size:27
Alignment explanation
Indices: 96114263--96114314 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
96114253 TCCTAAAAAA
* *
96114263 TTTTTGGTACTTTTCTTAT-ATTTTTG
1 TTTTTGATACTTTCCTTATAATTTTTG
96114289 TTTTTGATA-TTTCCTTATAATTTTTG
1 TTTTTGATACTTTCCTTATAATTTTTG
96114315 GTGGTTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.67
Consensus pattern (27 bp):
TTTTTGATACTTTCCTTATAATTTTTG
Found at i:96114314 original size:20 final size:20
Alignment explanation
Indices: 96114199--96114314 Score: 63
Period size: 20 Copynumber: 5.5 Consensus size: 20
96114189 GTATTATCGC
* *
96114199 ATAATTTTTGGTATTTCCTC
1 ATAATTTTTGATATTTCCTT
** *
96114219 ATTTTTTTTG-TATTCCCTT
1 ATAATTTTTGATATTTCCTT
* *
96114238 ATAATTTTTGATACTTCCTAA
1 ATAATTTTTGATATTTCCT-T
* * *
96114259 AAAATTTTTGGTACTTTTCTT
1 ATAATTTTTGATA-TTTCCTT
*
96114280 ATATTTTTGTTTTTGATATTTCCTT
1 ATA-----ATTTTTGATATTTCCTT
96114305 ATAATTTTTG
1 ATAATTTTTG
96114315 GTGGTTCTTC
Statistics
Matches: 69, Mismatches: 19, Indels: 16
0.66 0.18 0.15
Matches are distributed among these distances:
19 15 0.22
20 20 0.29
21 13 0.19
22 4 0.06
25 9 0.13
26 8 0.12
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.59
Consensus pattern (20 bp):
ATAATTTTTGATATTTCCTT
Found at i:96114334 original size:47 final size:47
Alignment explanation
Indices: 96114242--96114334 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 47
96114232 TCCCTTATAA
*
96114242 TTTTTGATACTTCCTAAAAAATTTTTGGTACTTTTCTTATATTTTTG
1 TTTTTGATACTTCCTAAAAAATTTTTGGTACTTTTCATATATTTTTG
* * * ** *
96114289 TTTTTGATATTTCCT-TATAATTTTTGGTGGTTCTTCATATTTTTTT
1 TTTTTGATACTTCCTAAAAAATTTTTGGTACTT-TTCATATATTTTT
96114335 TGGCACTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 13 0.34
47 25 0.66
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.61
Consensus pattern (47 bp):
TTTTTGATACTTCCTAAAAAATTTTTGGTACTTTTCATATATTTTTG
Found at i:96114373 original size:20 final size:20
Alignment explanation
Indices: 96114350--96114393 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
96114340 CTTTCTTATA
*
96114350 TTTTTATATTCTCT-CATAAT
1 TTTTTATATTCCCTCCA-AAT
96114370 TTTTTATATTCCCTCCAAAT
1 TTTTTATATTCCCTCCAAAT
96114390 TTTT
1 TTTT
96114394 GATGCTTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.23, C:0.18, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTATATTCCCTCCAAAT
Found at i:96114745 original size:20 final size:21
Alignment explanation
Indices: 96114693--96114746 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
96114683 ATATTCCCTC
96114693 ATATTTTTTGGTACTTCTTAAT
1 ATATTTTTT-GTACTTCTTAAT
* *
96114715 ATTTTTTTTGTACTTCTTTAT
1 ATATTTTTTGTACTTCTTAAT
96114736 A-ATTTTTTGTA
1 ATATTTTTTGTA
96114747 GTACCTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.31
21 12 0.41
22 8 0.28
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.65
Consensus pattern (21 bp):
ATATTTTTTGTACTTCTTAAT
Found at i:96114762 original size:21 final size:21
Alignment explanation
Indices: 96114670--96114762 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 21
96114660 TTGGTATCTT
*
96114670 TCATAATTTTTTTATA-TTCCC
1 TCATAATTTTTTTGTACTT-CC
* *
96114691 TCAT-ATTTTTTGGTACTTCT
1 TCATAATTTTTTTGTACTTCC
* * *
96114711 TAATATTTTTTTTGTACTTCT
1 TCATAATTTTTTTGTACTTCC
* * *
96114732 TTATAA-TTTTTTGTAGTACC
1 TCATAATTTTTTTGTACTTCC
96114752 TCATAATTTTT
1 TCATAATTTTT
96114763 GGAGTATTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
20 29 0.51
21 28 0.49
ACGTcount: A:0.22, C:0.13, G:0.05, T:0.60
Consensus pattern (21 bp):
TCATAATTTTTTTGTACTTCC
Found at i:96114797 original size:21 final size:21
Alignment explanation
Indices: 96114771--96114816 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
96114761 TTGGAGTATT
*
96114771 AAAAAACATGAGG-GAATACC
1 AAAAAAAATGAGGTGAATACC
*
96114791 AAAAAAAATGAGGTGAGTACC
1 AAAAAAAATGAGGTGAATACC
96114812 AAAAA
1 AAAAA
96114817 TTATAAGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.59, C:0.11, G:0.20, T:0.11
Consensus pattern (21 bp):
AAAAAAAATGAGGTGAATACC
Found at i:96117010 original size:42 final size:42
Alignment explanation
Indices: 96116951--96117069 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 42
96116941 TTAAGGTTAC
96116951 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
* * * *
96116993 TGAGATTTCGTGTAAGACCATAGCTAGGCA-ATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCT-GGGATA-TGGAATCGATA
* *
96117036 CGAGATTACATGTAAGACCATATCTGGGATATGG
1 TGAGATTACGTGTAAGACCATATCTGGGATATGG
96117070 CATTGGTACA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
Found at i:96125125 original size:20 final size:20
Alignment explanation
Indices: 96125036--96125145 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
96125026 TTTTAGTGGC
*
96125036 ATACCAAAAATAATG-AGAGA
1 ATACCAAAAATTATGAAG-GA
* * *
96125056 ACACTAAAAATTATGAGGGA
1 ATACCAAAAATTATGAAGGA
* * *
96125076 TTACCAATAATTATGAAGGT
1 ATACCAAAAATTATGAAGGA
* *
96125096 GTACCCAAAATTATGAAGGA
1 ATACCAAAAATTATGAAGGA
* * *
96125116 ATAACAAAAAATAT-TAGAGA
1 ATACCAAAAATTATGAAG-GA
96125136 ATACCAAAAA
1 ATACCAAAAA
96125146 AATATGAGGT
Statistics
Matches: 68, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
19 2 0.03
20 65 0.96
21 1 0.01
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.21
Consensus pattern (20 bp):
ATACCAAAAATTATGAAGGA
Found at i:96127450 original size:56 final size:56
Alignment explanation
Indices: 96127390--96127532 Score: 216
Period size: 56 Copynumber: 2.6 Consensus size: 56
96127380 AATGCCTTGT
* *
96127390 GTCTTAACCACATGGTCTTACATACATTCATTCAGTTATATCAGATCTTGCCAT-A
1 GTCTTAACCTCATGGTCTTACATACATTCATTCAGTCATATCAGATCTTGCCATGA
* *
96127445 GGTCTTAACCTCATGGTCTTACATACATTCATTTAGTCATATTAGATCTTGCCATGA
1 -GTCTTAACCTCATGGTCTTACATACATTCATTCAGTCATATCAGATCTTGCCATGA
* *
96127502 GTTTTAACCTCATGGTCATACATACATTCAT
1 GTCTTAACCTCATGGTCTTACATACATTCAT
96127533 GTATTGCGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
56 79 0.99
57 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (56 bp):
GTCTTAACCTCATGGTCTTACATACATTCATTCAGTCATATCAGATCTTGCCATGA
Found at i:96128959 original size:18 final size:18
Alignment explanation
Indices: 96128920--96128959 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
96128910 GAAAATTTCG
* *
96128920 AAAACATGTATTTTTTTT
1 AAAACATGAATTTTTTTA
96128938 AAAACATGAATTTTTTTA
1 AAAACATGAATTTTTTTA
96128956 AAAA
1 AAAA
96128960 AACACGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (18 bp):
AAAACATGAATTTTTTTA
Found at i:96129021 original size:18 final size:18
Alignment explanation
Indices: 96128828--96129061 Score: 111
Period size: 17 Copynumber: 12.6 Consensus size: 18
96128818 ACGATATTTT
96128828 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
96128846 -TTTTCAAAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
* **
96128863 TTTTTG-AAACAAGAGGA
1 TTTTTGAAAACACGAAAA
*
96128880 TTTTTG-AAATACGAAAA
1 TTTTTGAAAACACGAAAA
*
96128897 ATTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * **
96128915 -TTTCGAAAACATGTATT
1 TTTTTGAAAACACGAAAA
* * **
96128932 TTTTTTAAAACATGAATT
1 TTTTTGAAAACACGAAAA
* *
96128950 TTTTTAAAAAAACACGAGAATT
1 TTTTT--GAAAACACGA-AA-A
96128972 TTTTTGAAAACACGAAAACA
1 TTTTTGAAAACACG-AAA-A
96128992 TGAAAATTTTGAAAACACGAAAA
1 T-----TTTTGAAAACACGAAAA
*
96129015 TTTTTG-AAACACAAAAA
1 TTTTTGAAAACACGAAAA
* *
96129032 TTTTTAGAAGACACTAAAAA
1 TTTTT-GAAAACAC-GAAAA
*
96129052 TTTTGGAAAA
1 TTTTTGAAAA
96129062 TGGATTTTTT
Statistics
Matches: 169, Mismatches: 29, Indels: 35
0.73 0.12 0.15
Matches are distributed among these distances:
16 1 0.01
17 64 0.38
18 41 0.24
19 9 0.05
20 28 0.17
21 2 0.01
22 6 0.04
23 2 0.01
24 3 0.02
25 13 0.08
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:96129272 original size:20 final size:19
Alignment explanation
Indices: 96129234--96129280 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
96129224 ATATATATTT
96129234 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
96129254 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
96129273 -TTTTGAAA
1 TTTTTGAAA
96129281 AATAGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:96144435 original size:3 final size:3
Alignment explanation
Indices: 96144429--96144487 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
96144419 TTCTTTTTTT
96144429 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
96144476 TTC TTC TTC TTC
1 TTC TTC TTC TTC
96144488 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 37 0.71
4 14 0.27
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:96144444 original size:10 final size:10
Alignment explanation
Indices: 96144419--96144487 Score: 74
Period size: 10 Copynumber: 7.3 Consensus size: 10
96144409 NNNNTTTTTT
* *
96144419 TTCTTTTTTT
1 TTCTTCTTTC
96144429 TTCTTCTTTC
1 TTCTTCTTTC
*
96144439 TTCTTCTCTC
1 TTCTTCTTTC
96144449 -T-TTCTTTC
1 TTCTTCTTTC
96144457 TTCTTC-TTC
1 TTCTTCTTTC
*
96144466 TTCTTCCTTC
1 TTCTTCTTTC
96144476 TTCTTC-TTC
1 TTCTTCTTTC
96144485 TTC
1 TTC
96144488 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
8 6 0.12
9 17 0.33
10 29 0.56
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:96144475 original size:13 final size:13
Alignment explanation
Indices: 96144429--96144484 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
96144419 TTCTTTTTTT
*
96144429 TTCTTCTTTCTTC
1 TTCTTCCTTCTTC
*
96144442 TTCTCTCTTTC-T-
1 TTCT-TCCTTCTTC
96144454 TTCTT-CTTCTTC
1 TTCTTCCTTCTTC
96144466 TTCTTCCTTCTTC
1 TTCTTCCTTCTTC
96144479 TTCTTC
1 TTCTTC
96144485 TTCAAAACCG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 3 0.08
11 2 0.05
12 9 0.24
13 18 0.47
14 6 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTCTTCCTTCTTC
Found at i:96144899 original size:99 final size:99
Alignment explanation
Indices: 96144728--96144924 Score: 385
Period size: 99 Copynumber: 2.0 Consensus size: 99
96144718 AGGAGCAGCC
96144728 ACCCATGTTTGTGGCCTGAAAATCTGGGAACTGGGTGCCCCAAATCACGTAACCTGTCTGAAGGA
1 ACCCATGTTTGTGGCCTGAAAATCTGGGAACTGGGTGCCCCAAATCACGTAACCTGTCTGAAGGA
96144793 CCAAATCACAAATGCAGCAAAACTTCTGGGGCTG
66 CCAAATCACAAATGCAGCAAAACTTCTGGGGCTG
*
96144827 ACCCATGTTTGTGGCCTGAAAATCTGGGAAGTGGGTGCCCCAAATCACGTAACCTGTCTGAAGGA
1 ACCCATGTTTGTGGCCTGAAAATCTGGGAACTGGGTGCCCCAAATCACGTAACCTGTCTGAAGGA
96144892 CCAAATCACAAATGCAGCAAAACTTCTGGGGCT
66 CCAAATCACAAATGCAGCAAAACTTCTGGGGCT
96144925 AAATGTAATT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (99 bp):
ACCCATGTTTGTGGCCTGAAAATCTGGGAACTGGGTGCCCCAAATCACGTAACCTGTCTGAAGGA
CCAAATCACAAATGCAGCAAAACTTCTGGGGCTG
Found at i:96144993 original size:30 final size:30
Alignment explanation
Indices: 96144938--96145054 Score: 139
Period size: 30 Copynumber: 3.9 Consensus size: 30
96144928 TGTAATTTTT
* *
96144938 AGAAAATTTA-GGGTTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
96144967 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
*
96144997 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
96145026 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
96145055 TTATTTTTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.14
30 64 0.86
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:96145054 original size:60 final size:59
Alignment explanation
Indices: 96144938--96145054 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 59
96144928 TGTAATTTTT
* * * *
96144938 AGAAAATTTAGGGTTAAAATGAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
96144997 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
96145055 TTATTTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 10 0.20
60 40 0.80
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:96145453 original size:101 final size:101
Alignment explanation
Indices: 96145274--96145482 Score: 411
Period size: 101 Copynumber: 2.1 Consensus size: 101
96145264 GAATTGACTC
96145274 TTTA-AAACTAGACATTAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTC
1 TTTACAAACTAGACATTAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTC
96145338 ACTTCTCGCAATATAAGTTGATTTTTGAAAACAGAA
66 ACTTCTCGCAATATAAGTTGATTTTTGAAAACAGAA
96145374 TTTACAAACTAGACATTAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTC
1 TTTACAAACTAGACATTAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTC
96145439 ACTTCTCGCAATATAAGTTGATTTTTGAAAACAGAA
66 ACTTCTCGCAATATAAGTTGATTTTTGAAAACAGAA
96145475 TTTACAAA
1 TTTACAAA
96145483 AGGCTCAACT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 4 0.04
101 104 0.96
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (101 bp):
TTTACAAACTAGACATTAAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTC
ACTTCTCGCAATATAAGTTGATTTTTGAAAACAGAA
Found at i:96145559 original size:54 final size:55
Alignment explanation
Indices: 96145427--96145593 Score: 257
Period size: 54 Copynumber: 3.1 Consensus size: 55
96145417 CACGTGAGCC
* * *
96145427 AAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTG-AAAACAGAATTTACAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTA-AA
* *
96145482 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
96145536 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
96145591 AAG
1 AAG
96145594 TAGAAATTGA
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
54 52 0.50
55 41 0.40
56 10 0.10
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:96145591 original size:14 final size:14
Alignment explanation
Indices: 96145572--96145606 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
96145562 GAGTTGATTT
96145572 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
96145586 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
96145600 TTGAAAA
1 TTGAAAA
96145607 TATCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:96145695 original size:15 final size:16
Alignment explanation
Indices: 96145662--96145695 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96145652 TTGATTTTTG
* *
96145662 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
96145678 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
96145694 AA
1 AA
96145696 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:96145738 original size:91 final size:87
Alignment explanation
Indices: 96145537--96145769 Score: 308
Period size: 91 Copynumber: 2.6 Consensus size: 87
96145527 AGAAATTAAA
**
96145537 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATT
*
96145602 GAAAATATCTCAGCGTGCCCTG
66 GAAAATACCTCAGCGTGCCCTG
* * * * *
96145624 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATAGATTGAAAAAAACATAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG--AAAAACAGAAA
*
96145689 TTGAAAATACCTCAGCATGTGAGCC-G
64 TTGAAAATACCTCAGC--GTG-CCCTG
* *
96145715 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATT-AAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
96145770 GGCTTAACTC
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
87 48 0.38
88 4 0.03
89 23 0.18
91 50 0.39
92 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAACAGAAATT
GAAAATACCTCAGCGTGCCCTG
Found at i:96145927 original size:30 final size:30
Alignment explanation
Indices: 96145891--96145949 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
96145881 CATAGATTGG
96145891 AAATTTAA-AGAAAGTTTAAGGGTCAAAATA
1 AAATTTAAGA-AAAGTTTAAGGGTCAAAATA
* *
96145921 AAATTTAGGAAAAGTTTAGGGGTCAAAAT
1 AAATTTAAGAAAAGTTTAAGGGTCAAAAT
96145950 GCAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.27
Consensus pattern (30 bp):
AAATTTAAGAAAAGTTTAAGGGTCAAAATA
Found at i:96145977 original size:14 final size:15
Alignment explanation
Indices: 96145952--96145986 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
96145942 GTCAAAATGC
96145952 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
96145967 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
96145981 AATTTT
1 AATTTT
96145987 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:96154699 original size:18 final size:20
Alignment explanation
Indices: 96154661--96154700 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
96154651 AGTAAAATTG
*
96154661 TTATTCCTAGAAAATAGAAT
1 TTATTCCTAAAAAATAGAAT
96154681 TTATT-CTAAAAAATA-AAT
1 TTATTCCTAAAAAATAGAAT
96154699 TT
1 TT
96154701 CCACTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
TTATTCCTAAAAAATAGAAT
Found at i:96154879 original size:61 final size:61
Alignment explanation
Indices: 96154807--96154929 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
96154797 TGAAATCATT
96154807 GTTGAATTAGTAGAATGCATTTAATGTCTATTTAATAGAAAAAAATCCCCTAGTTGAACTA
1 GTTGAATTAGTAGAATGCATTTAATGTCTATTTAATAGAAAAAAATCCCCTAGTTGAACTA
96154868 GTTGAATTAGTAGAATGCATTTAATGTCTATTTAATAGAAAAAAATCCCCTAGTTGAACTA
1 GTTGAATTAGTAGAATGCATTTAATGTCTATTTAATAGAAAAAAATCCCCTAGTTGAACTA
96154929 G
1 G
96154930 GAGAGAGAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (61 bp):
GTTGAATTAGTAGAATGCATTTAATGTCTATTTAATAGAAAAAAATCCCCTAGTTGAACTA
Found at i:96154937 original size:2 final size:2
Alignment explanation
Indices: 96154930--96154976 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
96154920 GTTGAACTAG
96154930 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
96154972 GA GA G
1 GA GA G
96154977 GCTAATAGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:96157712 original size:25 final size:25
Alignment explanation
Indices: 96157650--96157712 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
96157640 GTCATTAGGG
*
96157650 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGATATTCAGCTCATATGAGC
*
96157674 TTACCGATACTCAGCTCATATGAGC
1 TTACCGATATTCAGCTCATATGAGC
* *
96157699 TTATCGTTATTCAG
1 TTACCGATATTCAG
96157713 TTGGAGGAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
24 8 0.24
25 25 0.76
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (25 bp):
TTACCGATATTCAGCTCATATGAGC
Found at i:96157732 original size:24 final size:25
Alignment explanation
Indices: 96157670--96157755 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
96157660 CAGCTCTTAT
* * *
96157670 GAGCTTACCGA-TACTCAGCTCATAT
1 GAGCTTACC-ATTATTCAGCTCAGAG
* * **
96157695 GAGCTTATCGTTATTCAG-TTGGAG
1 GAGCTTACCATTATTCAGCTCAGAG
*
96157719 GAGCTTACCATTATTTAGCTCAGAG
1 GAGCTTACCATTATTCAGCTCAGAG
96157744 GAGCTTACCATT
1 GAGCTTACCATT
96157756 TACAGCTAGT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 17 0.36
25 30 0.64
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTCAGAG
Found at i:96159400 original size:15 final size:17
Alignment explanation
Indices: 96159375--96159408 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
96159365 ACCAGGAACT
96159375 AAATTAGAAAG-TGATA
1 AAATTAGAAAGATGATA
96159391 AAATTA-AAAGATGATA
1 AAATTAGAAAGATGATA
96159407 AA
1 AA
96159409 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTAGAAAGATGATA
Found at i:96160907 original size:16 final size:17
Alignment explanation
Indices: 96160875--96160907 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
96160865 AAATAAGAAG
96160875 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
96160893 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
96160908 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:96167710 original size:23 final size:22
Alignment explanation
Indices: 96167684--96167743 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
96167674 TTTAATTAGA
96167684 TAATTATTATTTATTTAATATTT
1 TAATTA-TATTTATTTAATATTT
* *
96167707 TAATAAGATATTTA-TTATTATTT
1 TAAT--TATATTTATTTAATATTT
96167730 T-ATTAT-TTTATTTA
1 TAATTATATTTATTTA
96167744 GTATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
22 2 0.06
23 13 0.42
24 6 0.19
25 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTATATTTATTTAATATTT
Found at i:96167716 original size:31 final size:31
Alignment explanation
Indices: 96167674--96167739 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
96167664 TTTATAATTA
*
96167674 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
* *
96167705 TTTAATAAGATATTTATTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
96167736 TTTA
1 TTTA
96167740 TTTAGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:96179870 original size:41 final size:40
Alignment explanation
Indices: 96179726--96179968 Score: 355
Period size: 40 Copynumber: 6.0 Consensus size: 40
96179716 AAAATCGAAT
** *
96179726 AGATCGAGCATTAGCGGCGTTTTTAACAAAGCGCTGCTAA
1 AGATCGAGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAA
**
96179766 AGATCGAGCATTAGCGGCGTTTTTAACAAAGCGCCGCTAA
1 AGATCGAGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAA
*
96179806 AGATCGAGCATTAGCTGCGTTTTTAGGAAAGCGCCGCTAA
1 AGATCGAGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAA
*
96179846 AGATCTGAGCATTAGCGGCATTTTTAGGAAAGCGCCGCTAA
1 AGATC-GAGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAA
*
96179887 AGATCTGAGCATTAGCGCCGTTTTTAGGAAAGCGCCGCTAA
1 AGATC-GAGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAA
*
96179928 AGATCGAGCATTAGCGGCGCTTTTTTA--AAAACGCCGCTAA
1 AGATCGAGCATTAGCGGCG--TTTTTAGGAAAGCGCCGCTAA
96179968 A
1 A
96179969 AGATTAAGCA
Statistics
Matches: 190, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
40 107 0.56
41 77 0.41
42 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (40 bp):
AGATCGAGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAA
Found at i:96179937 original size:81 final size:79
Alignment explanation
Indices: 96179726--96179968 Score: 346
Period size: 81 Copynumber: 3.0 Consensus size: 79
96179716 AAAATCGAAT
** * *
96179726 AGATCGAGCATTAGCGGCGTTTTTAACAAAGCGCTGCTAAAGATCGAGCATTAGCGGCGTTTTTA
1 AGATCGAGCATTAGC-GCGTTTTTAGGAAAGCGCCGCTAAAGATCGAGCATTAGCGGCATTTTTA
96179791 ACAAAGCGCCGCTAA
65 ACAAAGCGCCGCTAA
96179806 AGATCGAGCATTAGCTGCGTTTTTAGGAAAGCGCCGCTAAAGATCTGAGCATTAGCGGCATTTTT
1 AGATCGAGCATTAGC-GCGTTTTTAGGAAAGCGCCGCTAAAGATC-GAGCATTAGCGGCATTTTT
**
96179871 AGGAAAGCGCCGCTAA
64 AACAAAGCGCCGCTAA
*
96179887 AGATCTGAGCATTAGCGCCGTTTTTAGGAAAGCGCCGCTAAAGATCGAGCATTAGCGGCGCTTTT
1 AGATC-GAGCATTAGCG-CGTTTTTAGGAAAGCGCCGCTAAAGATCGAGCATTAGC-G-GCATTT
96179952 TTAA-AAA-CGCCGCTAA
62 TTAACAAAGCGCCGCTAA
96179968 A
1 A
96179969 AGATTAAGCA
Statistics
Matches: 149, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
80 41 0.28
81 58 0.39
82 42 0.28
83 8 0.05
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
AGATCGAGCATTAGCGCGTTTTTAGGAAAGCGCCGCTAAAGATCGAGCATTAGCGGCATTTTTAA
CAAAGCGCCGCTAA
Found at i:96180552 original size:15 final size:15
Alignment explanation
Indices: 96180524--96180553 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96180514 ACTATTTAAA
*
96180524 GGTTTAGGGTTTATG
1 GGTTTAGGGATTATG
96180539 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
96180554 TTTACGGCTT
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:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:96180582 original size:13 final size:13
Alignment explanation
Indices: 96180566--96180590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96180556 TACGGCTTAT
96180566 GGTTTAAGGGTTG
1 GGTTTAAGGGTTG
96180579 GGTTTAAGGGTT
1 GGTTTAAGGGTT
96180591 ATGGGCTAGT
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:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
GGTTTAAGGGTTG
Found at i:96180614 original size:22 final size:22
Alignment explanation
Indices: 96180577--96180639 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
96180567 GTTTAAGGGT
*
96180577 TGGGTTTAAGGG-TTATGGGCTA
1 TGGG-TTAAGGGTTTATAGGCTA
*
96180599 -GTGGTTAAGGGTTTATAGGTTA
1 TG-GGTTAAGGGTTTATAGGCTA
*
96180621 TGGGTTAATGGTTTATAGG
1 TGGGTTAAGGGTTTATAGG
96180640 TTAATGCTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 8 0.23
22 26 0.74
23 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.38, T:0.40
Consensus pattern (22 bp):
TGGGTTAAGGGTTTATAGGCTA
Found at i:96180619 original size:29 final size:29
Alignment explanation
Indices: 96180578--96180633 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
96180568 TTTAAGGGTT
*
96180578 GGGTTTAAGGGTTATGGGCTAGTGGTTAA
1 GGGTTTAAGGGTTATGGGCTAATGGTTAA
*
96180607 GGGTTTATA-GGTTATGGGTTAATGGTT
1 GGGTTTA-AGGGTTATGGGCTAATGGTT
96180634 TATAGGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.20, C:0.02, G:0.39, T:0.39
Consensus pattern (29 bp):
GGGTTTAAGGGTTATGGGCTAATGGTTAA
Found at i:96180640 original size:22 final size:22
Alignment explanation
Indices: 96180601--96180642 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
96180591 ATGGGCTAGT
96180601 GGTTAAGGGTTTATAGGTTATG
1 GGTTAAGGGTTTATAGGTTATG
*
96180623 GGTTAATGGTTTATAGGTTA
1 GGTTAAGGGTTTATAGGTTA
96180643 ATGCTTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (22 bp):
GGTTAAGGGTTTATAGGTTATG
Found at i:96180655 original size:22 final size:22
Alignment explanation
Indices: 96180582--96180656 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
96180572 AGGGTTGGGT
* *
96180582 TTAAGGG-TTATGGGCTAGTGG-
1 TTAAGGGTTTATAGGTTA-TGGC
*
96180603 TTAAGGGTTTATAGGTTATGGG
1 TTAAGGGTTTATAGGTTATGGC
*
96180625 TTAATGGTTTATAGGTTAAT-GC
1 TTAAGGGTTTATAGGTT-ATGGC
*
96180647 TTAGGGGTTT
1 TTAAGGGTTT
96180657 TTATTTTGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 10 0.22
22 33 0.73
23 2 0.04
ACGTcount: A:0.21, C:0.03, G:0.35, T:0.41
Consensus pattern (22 bp):
TTAAGGGTTTATAGGTTATGGC
Found at i:96180693 original size:14 final size:14
Alignment explanation
Indices: 96180674--96180719 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
96180664 GTGGTTTAAG
96180674 GTTTAGGGGATATA
1 GTTTAGGGGATATA
* *
96180688 GTTTAGGGTACTTTA
1 GTTTAGGGGA-TATA
96180703 G--TAGGGGATATA
1 GTTTAGGGGATATA
96180715 GTTTA
1 GTTTA
96180720 ATGGTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 4 0.16
13 6 0.24
14 11 0.44
15 4 0.16
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.39
Consensus pattern (14 bp):
GTTTAGGGGATATA
Found at i:96180877 original size:20 final size:21
Alignment explanation
Indices: 96180848--96180888 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
96180838 GTATTTTATG
*
96180848 GTTTATGG-TTAGAGGATATA
1 GTTTAGGGTTTAGAGGATATA
*
96180868 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAGAGGATATA
96180889 TATACTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGGATATA
Found at i:96180879 original size:49 final size:49
Alignment explanation
Indices: 96180825--96180985 Score: 189
Period size: 49 Copynumber: 3.2 Consensus size: 49
96180815 TTGTGGTTAA
* * *
96180825 GGTTTAAGGGTTAGTATTTTATGGTTTATGGTTAGA-GGATATAGTTTAG
1 GGTTTAAGGGTTA-TATTTTAGGGTTTAAGGTTATAGGGATATAGTTTAG
* *
96180874 GGTTTAGGGGATATATATACTTTAGGGTTTAAGGTTATAGGGATATAATTTAG
1 GGTTTAAGGG-T-TATAT--TTTAGGGTTTAAGGTTATAGGGATATAGTTTAG
* * *
96180927 GGTTTAGGGGATATATTTTAGGGTTTAAGGTTATAGGGATATAGTTTAAT
1 GGTTTAAGGGTTATATTTTAGGGTTTAAGGTTATAGGGATATAGTTT-AG
96180977 GGTTTAAGG
1 GGTTTAAGG
96180986 TTTACAGTTT
Statistics
Matches: 97, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
49 39 0.40
50 13 0.13
51 7 0.07
52 16 0.16
53 22 0.23
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (49 bp):
GGTTTAAGGGTTATATTTTAGGGTTTAAGGTTATAGGGATATAGTTTAG
Found at i:96180925 original size:21 final size:21
Alignment explanation
Indices: 96180913--96180953 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
96180903 TAAGGTTATA
96180913 GGGATATAATTTAGGGTTTAG
1 GGGATATAATTTAGGGTTTAG
*
96180934 GGGATATATTTTAGGGTTTA
1 GGGATATAATTTAGGGTTTA
96180954 AGGTTATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (21 bp):
GGGATATAATTTAGGGTTTAG
Found at i:96180927 original size:28 final size:28
Alignment explanation
Indices: 96180888--96180987 Score: 106
Period size: 28 Copynumber: 3.8 Consensus size: 28
96180878 TAGGGGATAT
*
96180888 ATATACTTTAGGGTTTAAGGTTATAGGG
1 ATATAATTTAGGGTTTAAGGTTATAGGG
96180916 ATATAATTTAGGGTTT-A-G-----GGG
1 ATATAATTTAGGGTTTAAGGTTATAGGG
*
96180937 ATATATTTTAGGGTTTAAGGTTATAGGG
1 ATATAATTTAGGGTTTAAGGTTATAGGG
* *
96180965 ATATAGTTTAATGGTTTAAGGTT
1 ATATAATTT-AGGGTTTAAGGTT
96180988 TACAGTTTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
21 18 0.30
22 1 0.02
23 1 0.02
26 1 0.02
27 1 0.02
28 26 0.43
29 12 0.20
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (28 bp):
ATATAATTTAGGGTTTAAGGTTATAGGG
Found at i:96181141 original size:21 final size:21
Alignment explanation
Indices: 96181104--96181165 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
96181094 TTGTTTTGTG
* *
96181104 GTTTATGG-TTAGGGGATATA
1 GTTTAGGGTTTAGAGGATATA
96181124 GTTTAGGGTTTAGAGGATATA
1 GTTTAGGGTTTAGAGGATATA
* *
96181145 TTTTAGGGTTTA-AGGTTATA
1 GTTTAGGGTTTAGAGGATATA
96181165 G
1 G
96181166 GGATATAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGAGGATATA
Found at i:96181161 original size:28 final size:29
Alignment explanation
Indices: 96181124--96181195 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
96181114 AGGGGATATA
* *
96181124 GTTTAGGGTTTAGAGGATATA-TTTTAGG
1 GTTTAAGGTTTAGAGGATATAGTTTAAGG
*
96181152 GTTTAAGGTTATAG-GGATATAGTTTAATG
1 GTTTAAGGTT-TAGAGGATATAGTTTAAGG
96181181 GTTTAAGGTTTAGAG
1 GTTTAAGGTTTAGAG
96181196 TTTTGATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 19 0.50
29 19 0.50
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.42
Consensus pattern (29 bp):
GTTTAAGGTTTAGAGGATATAGTTTAAGG
Found at i:96183721 original size:14 final size:13
Alignment explanation
Indices: 96183698--96183727 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
96183688 ATTACTATAA
96183698 TAATTATATGAAG
1 TAATTATATGAAG
96183711 TAATATATATGAAG
1 TAAT-TATATGAAG
96183725 TAA
1 TAA
96183728 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:96184106 original size:183 final size:184
Alignment explanation
Indices: 96183798--96184167 Score: 688
Period size: 183 Copynumber: 2.0 Consensus size: 184
96183788 GATATAGTTC
*
96183798 CATGTGTCTGTACTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTGTACTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCAGCA
* *
96183863 ACTATTGTTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTGATATAGATAAA
66 ACTATCGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTGATATAGATAAA
*
96183928 G-TTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTTTTATAATCTTA
131 GTTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
*
96183981 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCAGCA
1 CATGTGTCTGTACTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCAGCA
96184046 ACTATCGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTGATATAGATAAA
66 ACTATCGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTGATATAGATAAA
96184111 GTTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
96184165 CAT
1 CAT
96184168 CTATTCTAGG
Statistics
Matches: 181, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
183 127 0.70
184 54 0.30
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (184 bp):
CATGTGTCTGTACTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCAGCA
ACTATCGGTTCAACTGAAGCTGCCATTTAATCTTCAAATTAATATTTGGTACTGATATAGATAAA
GTTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
Found at i:96186232 original size:18 final size:18
Alignment explanation
Indices: 96186211--96186323 Score: 102
Period size: 18 Copynumber: 6.1 Consensus size: 18
96186201 ATTGATCATT
* *
96186211 ACTTAAATAAATCACATA
1 ACTTACATAACTCACATA
* *
96186229 ACTTAAATAACTCATATA
1 ACTTACATAACTCACATA
* *
96186247 ACTTACATAATTTACATAACA
1 ACTTACATAACTCACAT---A
96186268 ACTTACATAACTCACATA
1 ACTTACATAACTCACATA
* *
96186286 ACTTACATAATTTACATA
1 ACTTACATAACTCACATA
*
96186304 ACTCACATAACGT-ACATA
1 ACTTACATAAC-TCACATA
96186322 AC
1 AC
96186324 AACTTACATA
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
18 62 0.78
19 1 0.01
21 16 0.20
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (18 bp):
ACTTACATAACTCACATA
Found at i:96186238 original size:9 final size:9
Alignment explanation
Indices: 96186224--96186338 Score: 104
Period size: 9 Copynumber: 12.1 Consensus size: 9
96186214 TAAATAAATC
96186224 ACATAACTT
1 ACATAACTT
* *
96186233 AAATAACTC
1 ACATAACTT
*
96186242 ATATAACTT
1 ACATAACTT
*
96186251 ACATAATTT
1 ACATAACTT
96186260 ACATAACAACTT
1 ACAT---AACTT
*
96186272 ACATAACTC
1 ACATAACTT
96186281 ACATAACTT
1 ACATAACTT
*
96186290 ACATAATTT
1 ACATAACTT
*
96186299 ACATAACTC
1 ACATAACTT
*
96186308 ACATAACGT
1 ACATAACTT
96186317 ACATAACAACTT
1 ACAT---AACTT
96186329 ACATAACTT
1 ACATAACTT
96186338 A
1 A
96186339 ACTAATACAT
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
9 69 0.81
12 16 0.19
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.30
Consensus pattern (9 bp):
ACATAACTT
Found at i:96186279 original size:39 final size:39
Alignment explanation
Indices: 96186228--96186305 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
96186218 TAAATCACAT
*
96186228 AACTTAAATAACTCATATAACTTACATAATTTACATAAC
1 AACTTAAATAACTCACATAACTTACATAATTTACATAAC
*
96186267 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTAAATAACTCACATAACTTACATAATTTACATAAC
96186306 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTAAATAACTCACATAACTTACATAATTTACATAAC
Found at i:96186285 original size:57 final size:57
Alignment explanation
Indices: 96186211--96186336 Score: 171
Period size: 57 Copynumber: 2.2 Consensus size: 57
96186201 ATTGATCATT
* * * * **
96186211 ACTTAAATAAATCACATAACTTAAATAACTCATATAACTTACATAATTTACATAACA
1 ACTTACATAACTCACATAACTTAAATAACTCACATAACTCACATAACGTACATAACA
* * *
96186268 ACTTACATAACTCACATAACTTACATAATTTACATAACTCACATAACGTACATAACA
1 ACTTACATAACTCACATAACTTAAATAACTCACATAACTCACATAACGTACATAACA
96186325 ACTTACATAACT
1 ACTTACATAACT
96186337 TAACTAATAC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (57 bp):
ACTTACATAACTCACATAACTTAAATAACTCACATAACTCACATAACGTACATAACA
Found at i:96186334 original size:39 final size:37
Alignment explanation
Indices: 96186235--96186323 Score: 119
Period size: 39 Copynumber: 2.4 Consensus size: 37
96186225 CATAACTTAA
* *
96186235 ATAACTCATATAACTTACATAATTTACATAACAACTTAC
1 ATAACTCACATAACTTACATAATTTACAT-A-AACTCAC
96186274 ATAACTCACATAACTTACATAATTTACAT-AACTCAC
1 ATAACTCACATAACTTACATAATTTACATAAACTCAC
96186310 ATAACGT-ACATAAC
1 ATAAC-TCACATAAC
96186324 AACTTACATA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
36 18 0.38
37 1 0.02
39 28 0.60
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.30
Consensus pattern (37 bp):
ATAACTCACATAACTTACATAATTTACATAAACTCAC
Found at i:96188188 original size:12 final size:12
Alignment explanation
Indices: 96188171--96188196 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
96188161 ACGATCGAGG
96188171 GATGAATCTGAT
1 GATGAATCTGAT
96188183 GATGAATCTGAT
1 GATGAATCTGAT
96188195 GA
1 GA
96188197 GGAGGATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:96191914 original size:21 final size:21
Alignment explanation
Indices: 96191888--96191935 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
96191878 TCAACTTAGA
*
96191888 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
*
96191909 GCGGAGGCAGTAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
96191930 GCGGAG
1 GCGGAG
96191936 CAGAACAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.58, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:96192381 original size:42 final size:42
Alignment explanation
Indices: 96192229--96192416 Score: 272
Period size: 41 Copynumber: 4.5 Consensus size: 42
96192219 ACTGGGCAAA
*
96192229 TTAGCGGCGTTTTTTTTAAAAGCGCCGTTAAAAGTCCTGGTCT
1 TTAGCGGCG-TTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
*
96192272 TTAGCGGCG-TTTTCTAAAAGCGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
*
96192313 TTAGTGGCG-TTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
* * * *
96192354 TTTGCGGTGTTTTTTTAAAAGCGCCGCTAAAAGTTCTGGTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
*
96192396 TTAGCGGCGCTTTTTTCAAAA
1 TTAGCGGCG-TTTTTTTAAAA
96192417 AAACGCCGCT
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
41 75 0.57
42 37 0.28
43 19 0.15
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTCCTGGTCT
Found at i:96198648 original size:27 final size:27
Alignment explanation
Indices: 96198592--96198657 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
96198582 AAATTACTGA
* * *
96198592 AATACCCTTGTAGTGTAAAATGATCGT
1 AATACCCATGTAGGGTAAAATGATCAT
*
96198619 AATGCCCATGTAGGGTAAAATGA-CTAT
1 AATACCCATGTAGGGTAAAATGATC-AT
*
96198646 AATACCCCTGTA
1 AATACCCATGTA
96198658 TGGTTGAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (27 bp):
AATACCCATGTAGGGTAAAATGATCAT
Found at i:96199132 original size:26 final size:26
Alignment explanation
Indices: 96199084--96199136 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
96199074 TGCATCTGAT
* *
96199084 ACTGATTTTGTACTGGGCTTAGGCCC
1 ACTGATTGTGTAATGGGCTTAGGCCC
96199110 ACTGATTGTGTTAATGGGC-TAGGCCC
1 ACTGATTGTG-TAATGGGCTTAGGCCC
96199136 A
1 A
96199137 ACTATTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (26 bp):
ACTGATTGTGTAATGGGCTTAGGCCC
Found at i:96203550 original size:27 final size:27
Alignment explanation
Indices: 96203512--96203688 Score: 169
Period size: 27 Copynumber: 6.5 Consensus size: 27
96203502 TATTGAGCCT
* * *
96203512 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAACTC
* * *
96203539 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAACTC
*
96203566 GCACACTTAGTGCCACATAGTCCAACTC
1 GCACACTTAGTGCTACATAGT-CAACTC
** * *
96203594 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAACTC
* **
96203621 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAACTC
*
96203648 GCACACTTAGTGCAACATAGTCGAA-TC
1 GCACACTTAGTGCTACATAGTC-AACTC
*
96203675 GCACCCTTAGTGCT
1 GCACACTTAGTGCT
96203689 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
27 101 0.80
28 26 0.20
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAACTC
Found at i:96203650 original size:82 final size:81
Alignment explanation
Indices: 96203532--96203687 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
96203522 TGCTATATAA
* *
96203532 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCCAA-TCGCA
96203597 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
96203614 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCCAATCGCA
*
96203678 CCCTTAGTGC
65 CACTTAGTGC
96203688 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCCAATCGCAC
ACTTAGTGCCGCATGG
Found at i:96207116 original size:19 final size:19
Alignment explanation
Indices: 96207092--96207129 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
96207082 TGGGCCACGT
96207092 TGGGCCTAGATGGG-TCGTG
1 TGGGCCTA-ATGGGCTCGTG
96207111 TGGGCCTAATGGGCTCGTG
1 TGGGCCTAATGGGCTCGTG
96207130 GCCCCACACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.11, C:0.18, G:0.45, T:0.26
Consensus pattern (19 bp):
TGGGCCTAATGGGCTCGTG
Found at i:96207401 original size:26 final size:26
Alignment explanation
Indices: 96207354--96207460 Score: 72
Period size: 27 Copynumber: 4.0 Consensus size: 26
96207344 CCCTAATATT
* * * *
96207354 TGTAAAATTACGAAAATACCCTTATG
1 TGTAAAATGACCATAATGCCCTTATG
*
96207380 TGTAAAATGACCATAATGCCCTTGTAG
1 TGTAAAATGACCATAATGCCCTTAT-G
* * *
96207407 GGTAAAATGACCATTATACCCCTGTATG
1 TGTAAAATGACCATAAT-GCCCT-TATG
* ** *
96207435 -GTAGAATGATGATTATGCCCTTATG
1 TGTAAAATGACCATAATGCCCTTATG
96207460 T
1 T
96207461 TCCGTATGAC
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
25 4 0.06
26 24 0.38
27 29 0.45
28 5 0.08
29 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (26 bp):
TGTAAAATGACCATAATGCCCTTATG
Found at i:96207413 original size:27 final size:27
Alignment explanation
Indices: 96207381--96207443 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
96207371 ACCCTTATGT
* *
96207381 GTAAAATGACCATAATGCCCTTGTAGG
1 GTAAAATGACCATAATACCCCTGTAGG
* *
96207408 GTAAAATGACCATTATACCCCTGTATG
1 GTAAAATGACCATAATACCCCTGTAGG
*
96207435 GTAGAATGA
1 GTAAAATGA
96207444 TGATTATGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCATAATACCCCTGTAGG
Found at i:96207725 original size:22 final size:22
Alignment explanation
Indices: 96207700--96207742 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
96207690 CCGTCCTGAC
*
96207700 TACGGCGTTGAGCCATCCTGTG
1 TACGGCATTGAGCCATCCTGTG
96207722 TACGGCATTGAGCCATCCTGT
1 TACGGCATTGAGCCATCCTGT
96207743 TGACTTTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (22 bp):
TACGGCATTGAGCCATCCTGTG
Done.