Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 235 of 325
Found at i:74119296 original size:41 final size:43
Alignment explanation
Indices: 74119189--74119343 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
74119179 ATATCGTACA
** ** **
74119189 ATGCCAACATCCCAGACATGGTCTTACATATAATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * * *
74119232 ATACCACTGTCCCAGACAAGGTCTTACACG-AATTAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* *
74119273 ATGCCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * *
74119316 ATGCCAACGTTCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
74119344 TGAGAACACA
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
41 28 0.31
42 13 0.14
43 49 0.54
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:74135161 original size:43 final size:41
Alignment explanation
Indices: 74135113--74135227 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 41
74135103 ATGTCGTACA
* **
74135113 ATGCCAATGTCCCAAACGTGATCTTACATGTAATCTCATATCG
1 ATGCCAATGTCCCAAACGTGGTCTTACATG-AATCAAATA-CG
* * *
74135156 ATGCCACTGTCTCAAACAG-GGTCTTACACGAATCAAATACG
1 ATGCCAATGTCCCAAAC-GTGGTCTTACATGAATCAAATACG
** *
74135197 ATGCCAACATCCCAGACGTGGTCTTACATGA
1 ATGCCAATGTCCCAAACGTGGTCTTACATGA
74135228 GAACACATAT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
40 1 0.02
41 25 0.43
42 7 0.12
43 24 0.41
44 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (41 bp):
ATGCCAATGTCCCAAACGTGGTCTTACATGAATCAAATACG
Found at i:74136377 original size:14 final size:15
Alignment explanation
Indices: 74136360--74136388 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
74136350 TCACGAAAAT
74136360 TTCACACAT-ATAAA
1 TTCACACATAATAAA
74136374 TTCACACATAATAAA
1 TTCACACATAATAAA
74136389 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:74137287 original size:26 final size:25
Alignment explanation
Indices: 74137265--74137346 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 25
74137255 GCCATGATCG
*
74137265 GTAAGCTCCTTTTGAGCTAATGAACA
1 GTAAGCT-CTATTGAGCTAATGAACA
* *
74137291 GTAAGCTCTATTGAGCTGA--AACG
1 GTAAGCTCTATTGAGCTAATGAACA
* *
74137314 GTAAACTCTATCGAGC---TGAACA
1 GTAAGCTCTATTGAGCTAATGAACA
74137336 GTAAGCTCTAT
1 GTAAGCTCTAT
74137347 CGAGGTGGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
22 13 0.28
23 17 0.36
25 10 0.21
26 7 0.15
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (25 bp):
GTAAGCTCTATTGAGCTAATGAACA
Found at i:74137344 original size:22 final size:22
Alignment explanation
Indices: 74137285--74137366 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 22
74137275 TTTGAGCTAA
*
74137285 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCGAGC
* *
74137307 TGAAACGGTAAACTCTATCGAGC
1 TG-AACAGTAAGCTCTATCGAGC
*
74137330 TGAACAGTAAGCTCTATCGAGG
1 TGAACAGTAAGCTCTATCGAGC
*
74137352 TGGAACGGTAAGCTC
1 T-GAACAGTAAGCTC
74137367 CAATGAGCTA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 20 0.39
23 31 0.61
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:74137375 original size:45 final size:45
Alignment explanation
Indices: 74137285--74137375 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
74137275 TTTGAGCTAA
* *
74137285 TGAACAGTAAGCTCTATTGAGCTGAAACGGTAAACTCTATCGAGC
1 TGAACAGTAAGCTCTATCGAGCTGAAACGGTAAACTCAATCGAGC
* * *
74137330 TGAACAGTAAGCTCTATCGAGGTGGAACGGTAAGCTCCAAT-GAGC
1 TGAACAGTAAGCTCTATCGAGCTGAAACGGTAAACT-CAATCGAGC
74137375 T
1 T
74137376 AAAAACAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 37 0.93
46 3 0.08
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATCGAGCTGAAACGGTAAACTCAATCGAGC
Found at i:74142069 original size:28 final size:28
Alignment explanation
Indices: 74142027--74142101 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
74142017 ATCTTCGATG
74142027 TCTCGCACACTAAGTGCCATACTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
* * *
74142055 TCTCGCACACCAAGTTCCATTCTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
*
74142083 TTTCGCACACTAAGTGCCA
1 TCTCGCACACTAAGTGCCA
74142102 CATATATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTCAATA
Found at i:74168975 original size:14 final size:14
Alignment explanation
Indices: 74168953--74168982 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
74168943 GATAAATACT
*
74168953 TTATTTGTTCTTAA
1 TTATGTGTTCTTAA
74168967 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
74168981 TT
1 TT
74168983 CTTGCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (14 bp):
TTATGTGTTCTTAA
Found at i:74170306 original size:24 final size:24
Alignment explanation
Indices: 74170278--74170325 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
74170268 CAACCATCGC
*
74170278 CCCTCCCTTGGCCCTTTCGTCCCT
1 CCCTCCCTTGGCCCTTTCATCCCT
74170302 CCCTCCCTTGGCCCTTTCATCCCT
1 CCCTCCCTTGGCCCTTTCATCCCT
74170326 TTCCTTCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.02, C:0.54, G:0.10, T:0.33
Consensus pattern (24 bp):
CCCTCCCTTGGCCCTTTCATCCCT
Found at i:74170709 original size:40 final size:38
Alignment explanation
Indices: 74170648--74170753 Score: 94
Period size: 40 Copynumber: 2.8 Consensus size: 38
74170638 TCTTTATTTA
*
74170648 ATTAATTATTTATTTAATTC-TTATCTATTA-TAGTTATT
1 ATTAGTTATTTATTTAATTCTTTAT-TATTAGTA-TTATT
* *
74170686 ATTAGTTATATTATTTTATTTCTTTATTATTAGTATTTTT
1 ATTAGTTAT-TTA-TTTAATTCTTTATTATTAGTATTATT
* *
74170726 ATAAGTTATTT-TTTCATT-TTCTATTATT
1 ATTAGTTATTTATTTAATTCTT-TATTATT
74170754 TTGTTATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
36 2 0.04
37 12 0.21
38 8 0.14
39 5 0.09
40 24 0.42
41 6 0.11
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (38 bp):
ATTAGTTATTTATTTAATTCTTTATTATTAGTATTATT
Found at i:74172411 original size:12 final size:11
Alignment explanation
Indices: 74172371--74172428 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
74172361 ATTGAGTTCA
74172371 TTTA-TTTTA-
1 TTTATTTTTAT
74172380 TTT-TTTTTAGT
1 TTTATTTTTA-T
*
74172391 TTTAGTTTTAT
1 TTTATTTTTAT
74172402 TTCTATTTTTAT
1 TT-TATTTTTAT
*
74172414 GTTTATTGTTAT
1 -TTTATTTTTAT
74172426 TTT
1 TTT
74172429 CTTAGACTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.20
11 9 0.22
12 21 0.52
13 2 0.05
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.76
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:74174999 original size:131 final size:130
Alignment explanation
Indices: 74174837--74175184 Score: 358
Period size: 131 Copynumber: 2.7 Consensus size: 130
74174827 AATCATTGAA
* ** * * * * * * *
74174837 CAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCGAATTG-TCAAATGCCGAATGTT
1 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCGCGAATTGCT-AAATACCGAATCTC
* * * * *
74174901 GCCTTCGTTTTAAATAATTTTTAGAAGATATGAATGAAGTTTTGAAAG-GATACTCGATTACTTT
65 GCCTTCGTTTTAAAGAA-TTTTAAAAGACATGAATGAA-ATTTCAAAGTGATACTCGATTACTTT
74174965 AAG
128 AAG
* *
74174968 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCTAAGTATCGAATCTC
1 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATT-CGCGAATTGCTAAATACCGAATCTC
* * * * * * * *
74175033 GTCTTCGTTTTGAAGAATTTTAAAAGACGTGAGTGAAATTTCAAAGTGCTATTCGATTATTTTGA
65 GCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTCAAAGTGATACTCGATTACTTTAA
74175098 G
130 G
* * * *
74175099 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGTGAATTGCCAAACATCGAATCTC
1 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATT-CGCGAATTGCTAAATACCGAATCTC
* *
74175164 GTCTTCGTTTTGAAGAATTTT
65 GCCTTCGTTTTAAAGAATTTT
74175185 TGAATGAATA
Statistics
Matches: 185, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
130 7 0.04
131 146 0.79
132 31 0.17
133 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (130 bp):
CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCGCGAATTGCTAAATACCGAATCTCG
CCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTCAAAGTGATACTCGATTACTTTAAG
Found at i:74190630 original size:16 final size:16
Alignment explanation
Indices: 74190605--74190637 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
74190595 TTATTTATAT
*
74190605 TTATTCATATAATAAA
1 TTATTAATATAATAAA
74190621 TTATTAATATAATAAA
1 TTATTAATATAATAAA
74190637 T
1 T
74190638 ATAATTTATT
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:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:74190717 original size:16 final size:17
Alignment explanation
Indices: 74190681--74190717 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
74190671 AATTTTACTT
74190681 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
74190698 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
74190713 TAATA
1 TAATA
74190718 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:74190770 original size:15 final size:15
Alignment explanation
Indices: 74190750--74190806 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
74190740 ATTCAATATT
74190750 AATATTTTAATAATA
1 AATATTTTAATAATA
*
74190765 AATATTTATTGCAATTATA
1 AATA-TT-TT--AATAATA
*
74190784 AATATATTAATAATA
1 AATATTTTAATAATA
74190799 AATATTTT
1 AATATTTT
74190807 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:74191258 original size:20 final size:21
Alignment explanation
Indices: 74191235--74191283 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
74191225 TCAAAACACC
74191235 AAAAAATATTAATT-TTTTTT
1 AAAAAATATTAATTATTTTTT
*
74191255 AAAAAGTA--AATTATTTTTT
1 AAAAAATATTAATTATTTTTT
*
74191274 AAAAATTATT
1 AAAAAATATT
74191284 TTCTGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAAAAATATTAATTATTTTTT
Found at i:74191281 original size:14 final size:14
Alignment explanation
Indices: 74191262--74191300 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
74191252 TTTAAAAAGT
74191262 AAATTATTTTTTAA
1 AAATTATTTTTTAA
* *
74191276 AAATTATTTTCTGA
1 AAATTATTTTTTAA
*
74191290 AAGTTATTTTT
1 AAATTATTTTT
74191301 AGTAAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (14 bp):
AAATTATTTTTTAA
Found at i:74191947 original size:23 final size:21
Alignment explanation
Indices: 74191917--74191958 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
74191907 GTTCATATAT
74191917 TCCATAATAAATAATTAAATTTA
1 TCCATAATAAA-AA-TAAATTTA
74191940 TCCATAATAAAAATAAATT
1 TCCATAATAAAAATAAATT
74191959 GACGCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (21 bp):
TCCATAATAAAAATAAATTTA
Found at i:74192249 original size:29 final size:29
Alignment explanation
Indices: 74192197--74192265 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
74192187 GATGACTATA
*
74192197 TAAAAAAT-ATATAAAATTATT-AAATAT
1 TAAAAAATAATATAAAATTATTAAAAAAT
*
74192224 TAAAAAATAATATAAATATTTTTAAAAAAT
1 TAAAAAATAATATAAA-ATTATTAAAAAAT
74192254 T-AAAAATAATAT
1 TAAAAAATAATAT
74192266 GGAGGGCCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 8 0.22
28 7 0.19
29 16 0.43
30 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
TAAAAAATAATATAAAATTATTAAAAAAT
Found at i:74206832 original size:31 final size:29
Alignment explanation
Indices: 74206762--74206835 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 29
74206752 ACCTTAAATT
*
74206762 ACATTTTAGTCACTTATATTTGAAGTGTT
1 ACATTTTAGTCACTTATATTTGAAGTGTA
* * * *
74206791 ACGTTTTAGTCACTTATGTTATTGCATTGTA
1 ACATTTTAGTCACTTAT-AT-TTGAAGTGTA
74206822 ACATTTTAGTCACT
1 ACATTTTAGTCACT
74206836 GAGCCGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 16 0.43
30 1 0.03
31 20 0.54
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATATTTGAAGTGTA
Found at i:74207239 original size:15 final size:15
Alignment explanation
Indices: 74207221--74207273 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
74207211 AATAGAGAGA
74207221 GAAAAAAAAGAAAAT
1 GAAAAAAAAGAAAAT
*
74207236 GAAAAAAAAGAAAGT
1 GAAAAAAAAGAAAAT
* * *
74207251 TAAAAGAAATAAAA-
1 GAAAAAAAAGAAAAT
74207265 GAAAAAAAA
1 GAAAAAAAA
74207274 CTAAATTGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 7 0.23
15 24 0.77
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (15 bp):
GAAAAAAAAGAAAAT
Found at i:74209775 original size:27 final size:27
Alignment explanation
Indices: 74209742--74209796 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
74209732 TGAAAGTACA
74209742 CAAATTCTAGTAGTTGAACTAGGCACT
1 CAAATTCTAGTAGTTGAACTAGGCACT
74209769 CAAATTCTAGTAGTTGAACTAGGCACT
1 CAAATTCTAGTAGTTGAACTAGGCACT
74209796 C
1 C
74209797 TCCACTCGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (27 bp):
CAAATTCTAGTAGTTGAACTAGGCACT
Found at i:74213737 original size:7 final size:7
Alignment explanation
Indices: 74213724--74213757 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
74213714 TAAATTTTAT
74213724 ATAAAAA
1 ATAAAAA
74213731 CAT-AAAA
1 -ATAAAAA
74213738 ATAAAAA
1 ATAAAAA
74213745 ATAAAAA
1 ATAAAAA
74213752 ATAAAA
1 ATAAAA
74213758 CTACCTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:74218061 original size:25 final size:25
Alignment explanation
Indices: 74218027--74218076 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
74218017 TTTAAACATT
*
74218027 TTAATTCATATTATAACACCGCTTA
1 TTAATTCATATTATAACACCCCTTA
74218052 TTAATTCATATTATAACACCCCTTA
1 TTAATTCATATTATAACACCCCTTA
74218077 GCCGTATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAATTCATATTATAACACCCCTTA
Found at i:74220183 original size:28 final size:28
Alignment explanation
Indices: 74220143--74220212 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
74220133 ATAGTAAGTC
*
74220143 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
74220171 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
74220199 CGCACACTTAGTGC
1 CGCACACTTAGTGC
74220213 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:74226669 original size:17 final size:17
Alignment explanation
Indices: 74226644--74226677 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
74226634 GGTCGAACTA
* *
74226644 GGCCGTGTGGGCTCCAC
1 GGCCATGTGGGCCCCAC
74226661 GGCCATGTGGGCCCCAC
1 GGCCATGTGGGCCCCAC
74226678 TCGAGTAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.38, G:0.38, T:0.15
Consensus pattern (17 bp):
GGCCATGTGGGCCCCAC
Found at i:74226916 original size:27 final size:27
Alignment explanation
Indices: 74226886--74226938 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
74226876 GAGCCCTAAC
74226886 TGATAAAATGACTATGATGCCCCTATG
1 TGATAAAATGACTATGATGCCCCTATG
* *
74226913 TGATAAAATGACTGTTATGCCCCTAT
1 TGATAAAATGACTATGATGCCCCTAT
74226939 AAGATGTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (27 bp):
TGATAAAATGACTATGATGCCCCTATG
Found at i:74231681 original size:40 final size:40
Alignment explanation
Indices: 74231623--74231730 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
74231613 GTGTGCTAGA
* * * *
74231623 TCGGCTATACATGACACTTAGTGTGCGATTCGATATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCC
* ** *
74231663 TCGGCTATATATGGCACTTACTGTGTAATTTGAGATAGCC
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCC
* * *
74231703 TCGACTATGTACGGCACTTAGTGTGCGA
1 TCGGCTATATATGGCACTTAGTGTGCGA
74231731 GATATCGAGT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTCGAGATAGCC
Found at i:74245390 original size:43 final size:43
Alignment explanation
Indices: 74245342--74245446 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
74245332 TGGCCCAACT
*
74245342 ATGGTCTTGCACGA-AATCAAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACAC-ATAATCAAATAACGATGCCAATGTCCCAGAC
* * * * *
74245385 CTGGTCTTACACATAATCACATAATGATGCCAATTTCCTAGAC
1 ATGGTCTTACACATAATCAAATAACGATGCCAATGTCCCAGAC
74245428 ATGGTCTTACACATAATCA
1 ATGGTCTTACACATAATCA
74245447 TATCTCGTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCAAATAACGATGCCAATGTCCCAGAC
Found at i:74249309 original size:42 final size:41
Alignment explanation
Indices: 74249243--74249321 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 41
74249233 CATATAATCA
74249243 AATATCGATGCAACTGTCCCAGATAGGGTCTTACACGGAAT
1 AATATCGATGCAACTGTCCCAGATAGGGTCTTACACGGAAT
* *
74249284 AATATACGATGCCAA-TGTCCTAGATATGGTCTTACACG
1 AATAT-CGATG-CAACTGTCCCAGATAGGGTCTTACACG
74249322 TAAATCTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
41 5 0.15
42 26 0.76
43 3 0.09
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (41 bp):
AATATCGATGCAACTGTCCCAGATAGGGTCTTACACGGAAT
Found at i:74250399 original size:32 final size:32
Alignment explanation
Indices: 74250358--74250428 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
74250348 AATTGACACA
74250358 GCCGTGTGGTCTGCCTGTGTGAGGAAGTCCAG
1 GCCGTGTGGTCTGCCTGTGTGAGGAAGTCCAG
*
74250390 GCCGTGTGGTCTGCCTGTGTGAGGATGTCCAG
1 GCCGTGTGGTCTGCCTGTGTGAGGAAGTCCAG
74250422 GCCGTGT
1 GCCGTGT
74250429 TGATTTCGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.10, C:0.23, G:0.41, T:0.27
Consensus pattern (32 bp):
GCCGTGTGGTCTGCCTGTGTGAGGAAGTCCAG
Found at i:74254554 original size:47 final size:47
Alignment explanation
Indices: 74254491--74254610 Score: 186
Period size: 47 Copynumber: 2.6 Consensus size: 47
74254481 GTGAACGTCT
* * * *
74254491 GAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTACCTAGGCATCC
1 GAACTCATTGAGTTGAGTCCGAGTTCGAGAAATGTACCTAGGCATCC
*
74254538 GAACTCATTGAGTTGAGTCCGAGTTTGAGAAATGTACCTAGGCATCC
1 GAACTCATTGAGTTGAGTCCGAGTTCGAGAAATGTACCTAGGCATCC
*
74254585 TAACTCATTGAGTTGAGTCCGAGTTC
1 GAACTCATTGAGTTGAGTCCGAGTTC
74254611 ACTTATGGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (47 bp):
GAACTCATTGAGTTGAGTCCGAGTTCGAGAAATGTACCTAGGCATCC
Found at i:74257675 original size:30 final size:29
Alignment explanation
Indices: 74257639--74257695 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
74257629 ATATTATCGT
*
74257639 ATCTTGGGTTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
*
74257669 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
74257696 TATTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.11, C:0.16, G:0.18, T:0.56
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:74260479 original size:46 final size:46
Alignment explanation
Indices: 74260409--74260625 Score: 262
Period size: 46 Copynumber: 4.7 Consensus size: 46
74260399 TTGGGCATCG
*
74260409 GAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * *
74260455 GAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTGGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* *
74260502 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* *
74260548 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* *
74260594 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
74260626 AGGTGGGTTA
Statistics
Matches: 146, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
42 3 0.02
43 4 0.03
45 3 0.02
46 98 0.67
47 29 0.20
48 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:74260559 original size:93 final size:93
Alignment explanation
Indices: 74260400--74260573 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
74260390 TTCAGATATT
* *
74260400 TGGGCATCGGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCCGAACTCGTTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCCGAACTCATTG
*
74260465 AGTTGAGTCTGAGTTCGTGAGATGTAAC
66 AGTTGAGTCCGAGTTCGTGAGATGTAAC
* * *
74260493 TGGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCATTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCCGAACTCATTG
74260558 AGTTGAGTCCGAGTTC
66 AGTTGAGTCCGAGTTC
74260574 ACTTATGGAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (93 bp):
TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGTCCGAACTCATTG
AGTTGAGTCCGAGTTCGTGAGATGTAAC
Found at i:74263440 original size:25 final size:23
Alignment explanation
Indices: 74263384--74263440 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
74263374 GTAAATTAAT
* *
74263384 AAATAATAATAAAAAAGAAAAATT
1 AAAT-ATAATAAAAAAAAAAAATA
74263408 AAAT-TAATAAATAATAAAAAAATA
1 AAATATAATAAA-AA-AAAAAAATA
74263432 AAATATAAT
1 AAATATAAT
74263441 TAACTTGCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 7 0.25
23 2 0.07
24 15 0.54
25 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
AAATATAATAAAAAAAAAAAATA
Found at i:74263443 original size:29 final size:32
Alignment explanation
Indices: 74263365--74263429 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
74263355 ATTCCAAGAG
*
74263365 AAAGAAAAAGTAAATTAATAAATAATAATAAA
1 AAAGAAAAATTAAATTAATAAATAATAATAAA
74263397 AAAGAAAAATTAAATTAATAAATAATAA-AAA
1 AAAGAAAAATTAAATTAATAAATAATAATAAA
74263428 AA
1 AA
74263430 TAAAATATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (32 bp):
AAAGAAAAATTAAATTAATAAATAATAATAAA
Found at i:74265734 original size:24 final size:25
Alignment explanation
Indices: 74265698--74265774 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
74265688 AGACCAGTAT
* *
74265698 GCTCTTACGAGCTGTA-AACGGTAA
1 GCTCTTACAAGCTGAATAACGGTAA
* *
74265722 GCTCTTTCAAGCTGAATAATGGTAA
1 GCTCTTACAAGCTGAATAACGGTAA
* * *
74265747 GCTCCT-CTGAGCTGAATAACAGTAA
1 GCTCTTAC-AAGCTGAATAACGGTAA
74265772 GCT
1 GCT
74265775 TATGCGAGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
24 14 0.33
25 29 0.67
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
GCTCTTACAAGCTGAATAACGGTAA
Found at i:74267782 original size:22 final size:22
Alignment explanation
Indices: 74267757--74267802 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
74267747 CTATAGATGA
74267757 AAGAAAGAAAATGAAGTAATAT
1 AAGAAAGAAAATGAAGTAATAT
74267779 AAGAAAGAAAATGAAGTAATAT
1 AAGAAAGAAAATGAAGTAATAT
74267801 AA
1 AA
74267803 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (22 bp):
AAGAAAGAAAATGAAGTAATAT
Found at i:74267811 original size:22 final size:22
Alignment explanation
Indices: 74267760--74267812 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
74267750 TAGATGAAAG
*
74267760 AAAGAAAATGAAGTAATATAAG
1 AAAGAAAATGAAGTAATATAAC
74267782 AAAGAAAATGAAGTAATATAAC
1 AAAGAAAATGAAGTAATATAAC
74267804 ATAA-AAAAT
1 A-AAGAAAAT
74267813 TAAAAGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.13, T:0.19
Consensus pattern (22 bp):
AAAGAAAATGAAGTAATATAAC
Found at i:74270491 original size:20 final size:20
Alignment explanation
Indices: 74270441--74270494 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
74270431 CATAGCCTAC
*
74270441 CCACACGGGCATGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
74270461 CCACATGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
74270481 CCACACGGGCGTGT
1 CCACACGGGCGTGT
74270495 GACCCCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.37, G:0.30, T:0.13
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:74271846 original size:18 final size:17
Alignment explanation
Indices: 74271823--74271894 Score: 72
Period size: 18 Copynumber: 4.1 Consensus size: 17
74271813 CTTGGCCCAT
*
74271823 TGCAGTAACAGTAAGTAG
1 TGCAGTAACAGTAA-CAG
*
74271841 TGCAGTAACAATAACAG
1 TGCAGTAACAGTAACAG
* * *
74271858 TGCAATAATAGTAAACAA
1 TGCAGTAACAGT-AACAG
74271876 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGT-AACAG
74271894 T
1 T
74271895 ATGCAACTCC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.25
18 33 0.75
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (17 bp):
TGCAGTAACAGTAACAG
Found at i:74272448 original size:27 final size:27
Alignment explanation
Indices: 74272205--74272435 Score: 264
Period size: 27 Copynumber: 8.6 Consensus size: 27
74272195 AAACATACAT
* * * *
74272205 CACATAGGGGTAAAATAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
74272232 TATAAAAGGGCAAAACATTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
74272259 CACATAAGGGCAAAACAGTAATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
74272286 CTCCTAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
74272313 CACTTAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
74272340 CACATAAGGGTAAAACAGTCCTTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
74272367 CTCATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
74272394 CTCATAAGGGCAAAACTGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
74272421 CCCATAAGGGAAAAA
1 CACATAAGGGCAAAA
74272436 TAATCACTTT
Statistics
Matches: 172, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 172 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:74272696 original size:17 final size:17
Alignment explanation
Indices: 74272674--74272718 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
74272664 GTTTACCAAT
74272674 ATGGGGCCCATGTGCCC
1 ATGGGGCCCATGTGCCC
74272691 ATGGGGCCCATGTGCCC
1 ATGGGGCCCATGTGCCC
74272708 ATGGGGCCCAT
1 ATGGGGCCCAT
74272719 ACTGCCCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.13, C:0.33, G:0.36, T:0.18
Consensus pattern (17 bp):
ATGGGGCCCATGTGCCC
Found at i:74272701 original size:9 final size:9
Alignment explanation
Indices: 74272674--74272718 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
74272664 GTTTACCAAT
74272674 ATGGGGCCC
1 ATGGGGCCC
*
74272683 AT-GTGCCC
1 ATGGGGCCC
74272691 ATGGGGCCC
1 ATGGGGCCC
*
74272700 AT-GTGCCC
1 ATGGGGCCC
74272708 ATGGGGCCC
1 ATGGGGCCC
74272717 AT
1 AT
74272719 ACTGCCCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 14 0.47
9 16 0.53
ACGTcount: A:0.13, C:0.33, G:0.36, T:0.18
Consensus pattern (9 bp):
ATGGGGCCC
Found at i:74273331 original size:21 final size:21
Alignment explanation
Indices: 74273307--74273346 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
74273297 GGAACCAGTT
*
74273307 AAGAGAAAGGGGAG-AAGAGAA
1 AAGA-AAAAGGGAGCAAGAGAA
74273328 AAGAAAAAGGGAGCAAGAG
1 AAGAAAAAGGGAGCAAGAG
74273347 GCAAGGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.03, G:0.40, T:0.00
Consensus pattern (21 bp):
AAGAAAAAGGGAGCAAGAGAA
Found at i:74275858 original size:56 final size:56
Alignment explanation
Indices: 74275767--74275889 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
74275757 GAGATTGGCG
* * *
74275767 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
74275824 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
74275879 CTGAGTGTGCG
1 CTAAGTGTGCG
74275890 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:74275876 original size:27 final size:28
Alignment explanation
Indices: 74275767--74275889 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
74275757 GAGATTGGCG
* * * *
74275767 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
74275796 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
74275824 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
74275852 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
74275879 CTGAGTGTGCG
1 CTAAGTGTGCG
74275890 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:74275900 original size:27 final size:27
Alignment explanation
Indices: 74275792--74275902 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
74275782 TAAATTGTAC
* * *
74275792 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
74275820 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
74275848 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
74275875 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
74275902 A
1 A
74275903 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:74281541 original size:46 final size:46
Alignment explanation
Indices: 74281488--74281663 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
74281478 TGGTTGAGCA
*
74281488 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
74281534 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
74281581 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
74281627 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
74281664 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:74281644 original size:93 final size:93
Alignment explanation
Indices: 74281485--74281655 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
74281475 GGATGGTTGA
* * *
74281485 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
74281550 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
74281578 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
74281643 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
74281656 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:74288242 original size:14 final size:15
Alignment explanation
Indices: 74288223--74288252 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
74288213 ATTTATTATA
74288223 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
74288237 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
74288252 T
1 T
74288253 CTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:74290045 original size:43 final size:43
Alignment explanation
Indices: 74289916--74290079 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 43
74289906 AATGTGATAT
* * * * *
74289916 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-A-AATAATA
* *
74289959 TCGGGCTTTGGGCCTAGCAGGCT-TAATGCCGGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* *
74290001 TCGGGCTTCGGGCCTAGTAGGCTATAATGCCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
** * *
74290044 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCAGTGAA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
74290080 TGAGTTCAGA
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 37 0.36
43 48 0.47
44 18 0.17
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:74312048 original size:71 final size:70
Alignment explanation
Indices: 74311959--74312127 Score: 166
Period size: 71 Copynumber: 2.4 Consensus size: 70
74311949 ATGTGTTGAG
* * *
74311959 CCATAGCTTGTCTGTGGCACGACACGATGCCCTAA-CATCACCT-ATTTTTGCTTAGAAGTGCT-
1 CCATAGCTTGTC-ATGGCACGACACGAT-ACCTAATCATCA-ATAATTTTTGCTTAGAAGTG-TA
74312021 TATGTCGTA
62 TATGTCGTA
* * * * *
74312030 CCATAGCTTGTGCATGGCACGACTCGATACTTAATCATCAATAATTTTTTCTTCGAAGTGTATGT
1 CCATAGCTTGT-CATGGCACGACACGATACCTAATCATCAATAATTTTTGCTTAGAAGTGTATAT
74312095 GTCGTA
65 GTCGTA
*
74312101 CCATGGCCTAT-TCATGGCACGACACGA
1 CCATAG-CT-TGTCATGGCACGACACGA
74312128 CATTTCTCCT
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
70 6 0.07
71 71 0.87
72 4 0.05
73 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (70 bp):
CCATAGCTTGTCATGGCACGACACGATACCTAATCATCAATAATTTTTGCTTAGAAGTGTATATG
TCGTA
Found at i:74313882 original size:42 final size:41
Alignment explanation
Indices: 74313755--74313886 Score: 151
Period size: 41 Copynumber: 3.2 Consensus size: 41
74313745 GTTAGGCATG
* *
74313755 AAGCCT-AGTATAATACACTGGCACAGAGCCTGCTAGGTAAT
1 AAGCCTGAG-ATAATACACTGGCATAAAGCCTGCTAGGTAAT
* * ** *
74313796 AAACCTGAGTTAATACACTGGCATAAAGCCTGCTAGACATT
1 AAGCCTGAGATAATACACTGGCATAAAGCCTGCTAGGTAAT
*
74313837 AAGCCTGAGATCATACA-TCGGCATCAAAGCCTGCTAGGTAAT
1 AAGCCTGAGATAATACACT-GGCAT-AAAGCCTGCTAGGTAAT
74313879 AAGCCTGA
1 AAGCCTGA
74313887 TATTATATCA
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.01
41 50 0.67
42 24 0.32
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
AAGCCTGAGATAATACACTGGCATAAAGCCTGCTAGGTAAT
Found at i:74315363 original size:20 final size:20
Alignment explanation
Indices: 74315326--74315364 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
74315316 CCACCACATG
* *
74315326 CCTTCCAATTATCTCCATTC
1 CCTTCCAAATATCGCCATTC
*
74315346 CCTTCCAAATCTCGCCATT
1 CCTTCCAAATATCGCCATT
74315365 TGTCTCGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.41, G:0.03, T:0.36
Consensus pattern (20 bp):
CCTTCCAAATATCGCCATTC
Found at i:74318589 original size:30 final size:30
Alignment explanation
Indices: 74318529--74318589 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
74318519 TCCTTAACTC
*
74318529 AAACTTTTGCAAAATTACAATTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
74318559 AAACTTTTGCATATTTACACTTTTGGCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
74318589 A
1 A
74318590 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:74319660 original size:21 final size:21
Alignment explanation
Indices: 74319621--74319659 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
74319611 GAACTAAGTC
74319621 GAAAACCTTAGAAAGTTTTGG
1 GAAAACCTTAGAAAGTTTTGG
*
74319642 GAAAA-CTTAGAAAATTTT
1 GAAAACCTTAGAAAGTTTT
74319660 TCCATGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (21 bp):
GAAAACCTTAGAAAGTTTTGG
Found at i:74321483 original size:49 final size:49
Alignment explanation
Indices: 74321430--74321737 Score: 234
Period size: 49 Copynumber: 6.5 Consensus size: 49
74321420 AAGTCAATGT
74321430 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGC
* * * * *
74321479 CATGTCCCAGACAGGTCTTACACTGGA-TCTCATCTATC-GGTGTCGATGT
1 CATGTCCCAGACAGGTCTTACACT-GACTTTCATATATCAAG-GCCGATGC
* *
74321528 CATGTCCCAGACAGGTCTTACACTGA----CACATGTCAA-GCCGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGC
* * * * * *
74321572 CGTGTCCCAGATAGGTTTTACACT-AGCTTGCATATCTCGAGGCCGATG-
1 CATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCAAGGCCGATGC
* * * *
74321620 CATGTCCCAGACATGTCTTACACT-AGCTCTT-ATCT-T-AATGCTGATGC
1 CATGTCCCAGACAGGTCTTACACTGA-CT-TTCATATATCAAGGCCGATGC
* * * ** *
74321667 CATGTCCCAGACATGATCTTACACTGGCTCTCATA-AT-GTGGCTGATG-
1 CATGTCCCAGACA-GGTCTTACACTGACTTTCATATATCAAGGCCGATGC
*
74321714 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
74321738 AGCACACATC
Statistics
Matches: 208, Mismatches: 36, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 27 0.13
45 5 0.02
46 16 0.08
47 28 0.13
48 58 0.28
49 71 0.34
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATGC
Found at i:74321740 original size:94 final size:92
Alignment explanation
Indices: 74321430--74321737 Score: 295
Period size: 93 Copynumber: 3.3 Consensus size: 92
74321420 AAGTCAATGT
74321430 CATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCAAGGCCGATGCCATGTCCCAGACAGG
1 CATGTCCCAGACAGGTCTTACACTGACTCTT-ATAT-T-AA-GCCGATGCCATGTCCCAGACAGG
* * *
74321494 TCTTACACTGGATCTCATCTATCGGTGTCGATG
62 TCTTACACTGGCTCTCAT-AATC-GTGGCGATG
* * * * * *
74321527 TCATGTCCCAGACAGGTCTTACACTGACAC--ATGTCAAGCCGATGCCGTGTCCCAGATAGGTTT
1 -CATGTCCCAGACAGGTCTTACACTGACTCTTATATTAAGCCGATGCCATGTCCCAGACAGGTCT
* * *
74321590 TACACTAGCT-TGCATATCTCGAGGCCGATG
65 TACACTGGCTCT-CATA-ATCGTGG-CGATG
* * * *
74321620 CATGTCCCAGACATGTCTTACACT-AGCTCTTATCTTAATGCTGATGCCATGTCCCAGACATGAT
1 CATGTCCCAGACAGGTCTTACACTGA-CTCTTATATTAA-GCCGATGCCATGTCCCAGACA-GGT
74321684 CTTACACTGGCTCTCATAAT-GTGGCTGATG
63 CTTACACTGGCTCTCATAATCGTGGC-GATG
*
74321714 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
74321738 AGCACACATC
Statistics
Matches: 175, Mismatches: 24, Indels: 26
0.78 0.11 0.12
Matches are distributed among these distances:
91 1 0.01
92 28 0.16
93 42 0.24
94 38 0.22
95 19 0.11
96 19 0.11
97 1 0.01
98 27 0.15
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTTATATTAAGCCGATGCCATGTCCCAGACAGGTCTT
ACACTGGCTCTCATAATCGTGGCGATG
Found at i:74321740 original size:142 final size:142
Alignment explanation
Indices: 74321430--74321692 Score: 329
Period size: 142 Copynumber: 1.9 Consensus size: 142
74321420 AAGTCAATGT
*
74321430 CATGTCCCAGACAGGTCTTACACT-GACTTTCATATATCAAGGCCGATGCCATGTCCCAGACAGG
1 CATGTCCCAGACAGGTCTTACACTAG-CTTGCATATATCAAGGCCGATGCCATGTCCCAGACAGG
* ** * *
74321494 TCTTACACTGGATCTCATCTATCGGTGTCGATGTCATGTCCCAGACAGGTCTTACACTGACACAT
65 TCTTACACTAGATCTCATCTATCAATGTCGATGCCATGTCCCAGACAGATCTTACACTGACACAT
*
74321559 GTCAAGCCGATGC
130 ATCAAGCCGATGC
* * * * * *
74321572 CGTGTCCCAGATAGGTTTTACACTAGCTTGCATATCTCGAGGCCGATG-CATGTCCCAGACATGT
1 CATGTCCCAGACAGGTCTTACACTAGCTTGCATATATCAAGGCCGATGCCATGTCCCAGACAGGT
* *
74321636 CTTACACTAGCTCTTATCT-T-AATG-CTGATGCCATGTCCCAGACATGATCTTACACTG
66 CTTACACTAGATCTCATCTATCAATGTC-GATGCCATGTCCCAGACA-GATCTTACACTG
74321693 GCTCTCATAA
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 12 0.12
141 31 0.30
142 40 0.38
143 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (142 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTGCATATATCAAGGCCGATGCCATGTCCCAGACAGGT
CTTACACTAGATCTCATCTATCAATGTCGATGCCATGTCCCAGACAGATCTTACACTGACACATA
TCAAGCCGATGC
Found at i:74325800 original size:25 final size:25
Alignment explanation
Indices: 74325772--74325821 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
74325762 ATAAAAACTG
*
74325772 ACATTCATATTCGTTTTATGCCAAC
1 ACATTCATATTCGTTTTACGCCAAC
*
74325797 ACATTCATATTCTTTTTACGCCAAC
1 ACATTCATATTCGTTTTACGCCAAC
74325822 TGTAACACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.40
Consensus pattern (25 bp):
ACATTCATATTCGTTTTACGCCAAC
Found at i:74326494 original size:18 final size:18
Alignment explanation
Indices: 74326448--74326495 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
74326438 TAACCCATTA
* **
74326448 CAGAATAAGAAACATTAT
1 CAGAATAAGAATCAAAAT
74326466 CAGAACT-AGAATCAAAAT
1 CAGAA-TAAGAATCAAAAT
74326484 CAGAATAAGAAT
1 CAGAATAAGAAT
74326496 TAGGTGACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.19
Consensus pattern (18 bp):
CAGAATAAGAATCAAAAT
Found at i:74326512 original size:6 final size:6
Alignment explanation
Indices: 74326464--74326583 Score: 59
Period size: 6 Copynumber: 19.3 Consensus size: 6
74326454 AAGAAACATT
* * * *
74326464 ATCAGA A-CTAGA ATCAAA ATCAGA ATAAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
74326513 ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
74326564 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
74326584 ATGAATGCAA
Statistics
Matches: 85, Mismatches: 17, Indels: 24
0.67 0.13 0.19
Matches are distributed among these distances:
5 6 0.07
6 62 0.73
7 14 0.16
8 3 0.04
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:74326516 original size:31 final size:31
Alignment explanation
Indices: 74326473--74326589 Score: 144
Period size: 31 Copynumber: 3.7 Consensus size: 31
74326463 TATCAGAACT
* *
74326473 AGAATCAAAATCAGAATAAGAATTAGGTGAC
1 AGAATCAAAATCAGAATAAGAATCAGGTAAC
* * * *
74326504 AGAATCAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATAAGAATCAGGTAAC
* *
74326535 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATAAGAATCAGGTAAC
*
74326566 AGAATCAAAAATCAGAATATGAAT
1 AGAATC-AAAATCAGAATAAGAAT
74326590 GCAATCCCAA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
31 60 0.81
32 14 0.19
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATAAGAATCAGGTAAC
Found at i:74326763 original size:27 final size:26
Alignment explanation
Indices: 74326720--74326821 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
74326710 GCTCAGTTAT
** *
74326720 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
74326747 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
74326773 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
74326801 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
74326822 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 52 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:74327010 original size:22 final size:22
Alignment explanation
Indices: 74326980--74327044 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
74326970 GCAAATACGT
74326980 TTGGCACACAGCCATAATCAGG
1 TTGGCACACAGCCATAATCAGG
* *
74327002 TTGGTACACAGCCAT-ATGTAGG
1 TTGGCACACAGCCATAAT-CAGG
* *
74327024 TTGACACAAAGCCATAATCAG
1 TTGGCACACAGCCATAATCAG
74327045 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACACAGCCATAATCAGG
Found at i:74328066 original size:27 final size:27
Alignment explanation
Indices: 74327471--74328063 Score: 756
Period size: 27 Copynumber: 22.0 Consensus size: 27
74327461 GGGGTAAAAT
* * *
74327471 GGTAATTTTACCCTACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
74327497 GGTAATTCCACCCTGCAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
74327524 AGTAATTCTACCCTACAGGAGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
74327551 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
74327578 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
74327605 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
***
74327632 AAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74327659 GATGATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
74327686 GGTCATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74327713 GGTGATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74327740 GGTGATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74327767 GGTGATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
74327794 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
74327821 GGTAATTCTACTTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
74327848 AGTAATTCTACCCTACAGGGATATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
74327875 GGTAATTCTACCTTATAAGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
74327902 AGTAATTCTAACTTAAAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74327929 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
74327956 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74327983 GATATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
74328010 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
74328037 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
74328064 AATCATTTTG
Statistics
Matches: 501, Mismatches: 65, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
26 14 0.03
27 487 0.97
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:74328212 original size:27 final size:27
Alignment explanation
Indices: 74328090--74328287 Score: 159
Period size: 27 Copynumber: 7.3 Consensus size: 27
74328080 GAGGGTAAAA
* * * *
74328090 TGGTAATTCTATAAATTAGGGGTACTT
1 TGGTAATTTTACAAATCAGGGGTATTT
*
74328117 TGGTAATTTTACAAGTC-GAGGGTATTT
1 TGGTAATTTTACAAATCAG-GGGTATTT
*** ** *
74328144 CAATAATTTTACAGGT-TGAGGGTATTT
1 TGGTAATTTTACAAATCAG-GGGTATTT
*** *
74328171 CAATAATTTCACAAATCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
*
74328198 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
* ** *
74328225 TGATAATTTTGTAAA-CTATGGGTATTT
1 TGGTAATTTTACAAATC-AGGGGTATTT
*
74328252 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
74328279 TGGTAATTT
1 TGGTAATTT
74328288 GGTAAACTAA
Statistics
Matches: 140, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 136 0.97
28 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACAAATCAGGGGTATTT
Found at i:74328221 original size:81 final size:81
Alignment explanation
Indices: 74328102--74328287 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 81
74328092 GTAATTCTAT
* * ** ***
74328102 AAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTTGA-GGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAATAATTTTACAAACT-ATGGG
74328166 TATTTCAATAATTTCAC
65 TATTTCAATAATTTCAC
** **
74328183 AAATCAGGGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTGATAATTTTGTAAACTATGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTCAATAATTTTACAAACTATGGG
*** *
74328247 TATTTTGGTAATTTTAC
65 TATTTCAATAATTTCAC
*
74328264 AAACCAGGGGTATTTTGGTAATTT
1 AAATCAGGGGTATTTTGGTAATTT
74328288 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 2 0.02
81 85 0.98
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAATAATTTTACAAACTATGGGT
ATTTCAATAATTTCAC
Found at i:74328279 original size:54 final size:54
Alignment explanation
Indices: 74328190--74328296 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
74328180 CACAAATCAG
*
74328190 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTGTAAACTAT
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTGGTAAACTAT
*
74328244 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTGGTAAACTA
74328297 AAATATTCTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTGGTAAACTAT
Found at i:74328294 original size:27 final size:27
Alignment explanation
Indices: 74328174--74328287 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
74328164 GGTATTTCAA
* *
74328174 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
74328201 TAATTTTACAAACCAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
** * *
74328228 TAATTTTGTAAACTATGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
74328255 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
74328282 TAATTT
1 TAATTT
74328288 GGTAAACTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:74333230 original size:49 final size:49
Alignment explanation
Indices: 74333165--74333297 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 49
74333155 ATACATCTAA
* * * *
74333165 GTCAATGTCATGTCCCAGATAGGTCTTACACTGACTTTCA-CATATCGAG-
1 GTCAATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATC-TATCG-GT
*
74333214 G-CTAATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCATCTATCGGT
1 GTC-AATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATCTATCGGT
*
74333263 GTCGATGCCATGTCCCAGACAAGTCTTACACTGAC
1 GTCAATGCCATGTCCCAGACAAGTCTTACACTGAC
74333298 ACATGTCAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
48 2 0.03
49 69 0.95
50 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GTCAATGCCATGTCCCAGACAAGTCTTACACTGACTCTCATCTATCGGT
Found at i:74334633 original size:56 final size:56
Alignment explanation
Indices: 74334547--74334666 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
74334537 ACAAGGGATG
74334547 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
74334603 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
74334659 ATGGGCAA
1 ATGGGCAA
74334667 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:74336587 original size:96 final size:95
Alignment explanation
Indices: 74336524--74336943 Score: 630
Period size: 96 Copynumber: 4.4 Consensus size: 95
74336514 GATTTAGGAT
74336524 CCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
74336588 AAAGTGTATATATGTGATAAGGCCTAATGG
66 AAAGTGTATATATATGATAAGGACTAATGG
*
74336618 CCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGCCTAATGGCCGATGTGATGAATGT
1 CCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
74336683 GAAAGTGTATATATGTGATAAGGCCTAATGG
65 GAAAGTGTATATATATGATAAGGACTAATGG
74336714 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 CCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
74336779 GAAAGTGTATATATATGTGATAAGGCCTAATGG
65 GAAAGTGTATATATA--TGATAAGGACTAATGG
*
74336812 CCGATGTGATGAATGTGAAAGTG-TACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * *
74336876 AAAGTGTATATATGTGACAGGGCCGAGTGG
66 AAAGTGTATATATATGATAAGGACTAATGG
* * * *
74336906 CCAACGTGATGGATGTGAAAGTG-TATAAATGTGATAAG
1 CCGATGTGATGAATGTGAAAGTGATATATATGTGATAAG
74336944 TCCCGAAGGG
Statistics
Matches: 308, Mismatches: 14, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
94 68 0.22
96 201 0.65
98 39 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (95 bp):
CCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATATATGATAAGGACTAATGG
Found at i:74336666 original size:49 final size:47
Alignment explanation
Indices: 74336524--74336943 Score: 696
Period size: 47 Copynumber: 8.8 Consensus size: 47
74336514 GATTTAGGAT
74336524 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
74336571 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
74336618 CCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
74336667 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
74336714 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
74336763 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
*
74336812 CCGATGTGATGAATGTGAAAGTGTACATATGTGATAAGGCCTAATGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
74336859 CCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
* * * *
74336906 CCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
74336944 TCCCGAAGGG
Statistics
Matches: 355, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 213 0.60
49 142 0.40
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
Found at i:74336821 original size:22 final size:22
Alignment explanation
Indices: 74336793--74336868 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
74336783 GTGTATATAT
74336793 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** * **
74336815 ATGTGATGAATGTGAAAGTGTACAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
74336840 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
74336862 ATGTGAT
1 ATGTGAT
74336869 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:74337118 original size:37 final size:37
Alignment explanation
Indices: 74337062--74337140 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
74337052 CCGAGCTCTA
* * *
74337062 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
74337099 AAGACCCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
74337136 AAGAC
1 AAGAC
74337141 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:74341499 original size:19 final size:20
Alignment explanation
Indices: 74341475--74341521 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
74341465 TTTATGTTCT
74341475 TTTTTAATTTTATAA-GTGA
1 TTTTTAATTTTATAATGTGA
* *
74341494 TTTTT-ATATTATAATGTTA
1 TTTTTAATTTTATAATGTGA
*
74341513 TTATTAATT
1 TTTTTAATT
74341522 GAAAAAGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTATAATGTGA
Found at i:74341555 original size:23 final size:23
Alignment explanation
Indices: 74341529--74341573 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
74341519 ATTGAAAAAG
*
74341529 ATAAAATAA-AGAAATAAAGGTTA
1 ATAAAATAATA-AAACAAAGGTTA
74341552 ATAAAATAATAAAACAAAGGTT
1 ATAAAATAATAAAACAAAGGTT
74341574 TTCTTCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.22
Consensus pattern (23 bp):
ATAAAATAATAAAACAAAGGTTA
Found at i:74342530 original size:24 final size:25
Alignment explanation
Indices: 74342429--74342511 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
74342419 TAGCTCGTAT
* *
74342429 GAGCTTACCATTATTCAGCTC-GCAC
1 GAGCTTACCGTTATTCAGCTCAG-AA
* **
74342454 GACCTTACCGTTATTCAGCTTGGAA
1 GAGCTTACCGTTATTCAGCTCAGAA
74342479 GAGCTTACCGTTATTCAGCTCAGAA
1 GAGCTTACCGTTATTCAGCTCAGAA
74342504 GAGCTTAC
1 GAGCTTAC
74342512 TGTTTATAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 49 0.98
26 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTCAGAA
Found at i:74349623 original size:15 final size:17
Alignment explanation
Indices: 74349593--74349624 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
74349583 TTGATACTTG
74349593 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
74349610 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
74349625 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:74349937 original size:158 final size:158
Alignment explanation
Indices: 74349649--74349965 Score: 535
Period size: 158 Copynumber: 2.0 Consensus size: 158
74349639 AAATATGTTA
* * *
74349649 AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGGATGTTTTCGTTGCTTAAACATGTTA
1 AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGAATGTTTTCGTTGCTAAAACATGTCA
** * * *
74349714 TGGATTATTGCATTGAATTTGTGTGTATGTAGGTGTAAAAGAGGGTGACAAATGGCTTGGTAAAT
66 TGGATTATTGCATTGAATTTGTGTGTATACAGGGGTAAAAGAGGGTGACAAATGGCTCGATAAAT
*
74349779 AGCATTTATTTTGTCCACACGAGCAGAC
131 AGCATTTATTTTGTCCACACAAGCAGAC
74349807 AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGAATGTTTTCGTTGCTAAAACATGTCA
1 AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGAATGTTTTCGTTGCTAAAACATGTCA
74349872 TGGATTATTGCATTGAATTTGTGTGTATACAGGGGTAAAAGAGGGTGACAAATGGCTCGATAAAT
66 TGGATTATTGCATTGAATTTGTGTGTATACAGGGGTAAAAGAGGGTGACAAATGGCTCGATAAAT
* *
74349937 AGCCTTTATTTTGTCCACACAAGTAGAC
131 AGCATTTATTTTGTCCACACAAGCAGAC
74349965 A
1 A
74349966 CACGGTCGTG
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 148 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (158 bp):
AGTGTTGGTAATGAATGATATGATTTAGCCTTGTTTATGAATGTTTTCGTTGCTAAAACATGTCA
TGGATTATTGCATTGAATTTGTGTGTATACAGGGGTAAAAGAGGGTGACAAATGGCTCGATAAAT
AGCATTTATTTTGTCCACACAAGCAGAC
Found at i:74353103 original size:57 final size:58
Alignment explanation
Indices: 74353010--74353148 Score: 156
Period size: 57 Copynumber: 2.4 Consensus size: 58
74353000 GTATAAAATA
** ** *
74353010 GGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAAAAG-CTT-GATCT
1 GGATTACCAGTCCAGGCTAAATCCAATCAATAACATATGCTC-AAAAAGACTTAGATCT
* * * * * *
74353067 GGATTACCTGTCCGGGCTAAATCCAATCAATAACATATGCTCGAGAGGACTTATATCT
1 GGATTACCAGTCCAGGCTAAATCCAATCAATAACATATGCTCAAAAAGACTTAGATCT
74353125 GGATTACCAGTCCAGGCTAAATCC
1 GGATTACCAGTCCAGGCTAAATCC
74353149 TTTTTTTAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
56 3 0.04
57 38 0.57
58 26 0.39
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (58 bp):
GGATTACCAGTCCAGGCTAAATCCAATCAATAACATATGCTCAAAAAGACTTAGATCT
Found at i:74354204 original size:15 final size:17
Alignment explanation
Indices: 74354178--74354211 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
74354168 TATTTAATTA
74354178 TTTATCATCTTT-TAAT
1 TTTATCATCTTTCTAAT
74354194 TTTATCA-CTTTCTAAT
1 TTTATCATCTTTCTAAT
74354210 TT
1 TT
74354212 AGTCCTTAGC
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:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTCTAAT
Found at i:74354613 original size:25 final size:25
Alignment explanation
Indices: 74354585--74354690 Score: 117
Period size: 25 Copynumber: 4.2 Consensus size: 25
74354575 CAGATCATAT
*
74354585 GAGCTTACAGTTATTCAGCTCGGAG
1 GAGCTTACCGTTATTCAGCTCGGAG
* **
74354610 GAGCTTACCGTGATTCAGCTCACATG
1 GAGCTTACCGTTATTCAGCTCGGA-G
* * *
74354636 G-GGTCATCGTTATTCAGCT-GAGAG
1 GAGCTTACCGTTATTCAGCTCG-GAG
74354660 GAGCTTACCGTTATTCAGCTCGGAG
1 GAGCTTACCGTTATTCAGCTCGGAG
74354685 GAGCTT
1 GAGCTT
74354691 TCTGTTTATA
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
24 2 0.03
25 59 0.92
26 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTCGGAG
Found at i:74354892 original size:9 final size:9
Alignment explanation
Indices: 74354878--74354907 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
74354868 ATATAGGTAT
74354878 ATACATGAA
1 ATACATGAA
74354887 ATACATGAA
1 ATACATGAA
74354896 ATACATGGAA
1 ATACAT-GAA
74354906 AT
1 AT
74354908 GATGGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.23
Consensus pattern (9 bp):
ATACATGAA
Found at i:74363502 original size:11 final size:11
Alignment explanation
Indices: 74363488--74363563 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
74363478 CAATATTATT
74363488 ATGATATGCAC
1 ATGATATGCAC
*
74363499 ATGATATG--T
1 ATGATATGCAC
74363508 ATGATATGCAC
1 ATGATATGCAC
*
74363519 ATGATATGTAC
1 ATGATATGCAC
74363530 --GATATGCAC
1 ATGATATGCAC
*
74363539 ATGATATG--T
1 ATGATATGCAC
74363548 ATGATATGCAC
1 ATGATATGCAC
74363559 ATGAT
1 ATGAT
74363564 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:74363512 original size:20 final size:20
Alignment explanation
Indices: 74363487--74363563 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
74363477 ACAATATTAT
74363487 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
74363507 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
74363527 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
74363547 TATGATATGCACATGAT
1 TATGATATGCACATGAT
74363564 GTATTCATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:74363513 original size:9 final size:9
Alignment explanation
Indices: 74363499--74363555 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
74363489 TGATATGCAC
74363499 ATGATATGT
1 ATGATATGT
*
74363508 ATGATATGCAC
1 ATGATATG--T
74363519 ATGATATGT
1 ATGATATGT
* *
74363528 ACGATATGCAC
1 ATGATATG--T
74363539 ATGATATGT
1 ATGATATGT
74363548 ATGATATG
1 ATGATATG
74363556 CACATGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:74363642 original size:26 final size:26
Alignment explanation
Indices: 74363613--74363685 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
74363603 GAGGAAGTGC
74363613 AAAAGGGCTTATGCCCCAGTTTAACG
1 AAAAGGGCTTATGCCCCAGTTTAACG
* *
74363639 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTAACG
*
74363665 AAAAGGGGTTATGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
74363686 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTAACG
Found at i:74363945 original size:31 final size:33
Alignment explanation
Indices: 74363907--74364023 Score: 121
Period size: 38 Copynumber: 3.3 Consensus size: 33
74363897 CGTTTATAGT
*
74363907 AAAGGCTTCGGCCC-A-GAAATATGAAATATGA
1 AAAGGCTTCGCCCCTATGAAATATGAAATATGA
74363938 AAAGGCTTCGACCCAGTCTTATGAAATATGAAATATGA
1 AAAGGCTTCG-CCC---C-TATGAAATATGAAATATGA
74363976 AAAGGCTTCGCCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGCCCC-----TATGAAATATGAAATATGA
74364014 AAAGGCTTCG
1 AAAGGCTTCG
74364024 GCCCAGTATA
Statistics
Matches: 74, Mismatches: 1, Indels: 15
0.82 0.01 0.17
Matches are distributed among these distances:
31 10 0.14
32 2 0.03
34 1 0.01
35 1 0.01
37 4 0.05
38 56 0.76
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (33 bp):
AAAGGCTTCGCCCCTATGAAATATGAAATATGA
Found at i:74363973 original size:38 final size:38
Alignment explanation
Indices: 74363922--74364030 Score: 191
Period size: 38 Copynumber: 2.9 Consensus size: 38
74363912 CTTCGGCCCA
74363922 GAAATATGAAATATGAAAAGGCTTCGACCCAGTCTTAT
1 GAAATATGAAATATGAAAAGGCTTCGACCCAGTCTTAT
* *
74363960 GAAATATGAAATATGAAAAGGCTTCGCCCCAGTGTTAT
1 GAAATATGAAATATGAAAAGGCTTCGACCCAGTCTTAT
*
74363998 GAAATATGAAATATGAAAAGGCTTCGGCCCAGT
1 GAAATATGAAATATGAAAAGGCTTCGACCCAGT
74364031 ATACGCTGAG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (38 bp):
GAAATATGAAATATGAAAAGGCTTCGACCCAGTCTTAT
Found at i:74366361 original size:3 final size:3
Alignment explanation
Indices: 74366355--74366458 Score: 59
Period size: 3 Copynumber: 34.0 Consensus size: 3
74366345 TAAAAAAGGA
** * * * *
74366355 AAT AAT AAT -AT GTT AAT AAG AAT AAT AGT AGT AGT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * * *
74366400 AAT GAT AAT AAA AAT ACATT AGAT AAT AAT AGT AA- AAC AAT AAT AGT
1 AAT AAT AAT AAT AAT A-A-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT
74366447 AAT AAT AAT AAT
1 AAT AAT AAT AAT
74366459 TGTTAATAAC
Statistics
Matches: 79, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
2 4 0.05
3 66 0.84
4 6 0.08
5 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:74366443 original size:14 final size:15
Alignment explanation
Indices: 74366424--74366470 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
74366414 TACATTAGAT
74366424 AATAATAGTAA-AAC
1 AATAATAGTAATAAC
*
74366438 AATAATAGTAATAAT
1 AATAATAGTAATAAC
*
74366453 AATAATTGTTAATAAC
1 AATAATAG-TAATAAC
74366469 AA
1 AA
74366471 CGATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 11 0.39
15 9 0.32
16 8 0.29
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (15 bp):
AATAATAGTAATAAC
Found at i:74366562 original size:3 final size:3
Alignment explanation
Indices: 74366532--74366677 Score: 52
Period size: 3 Copynumber: 48.3 Consensus size: 3
74366522 GTTACTAAAA
* * * *
74366532 AAT AGT AAT AAT -AT ATT AAT AAG GAT AAT AAT AAT AAT AAT GAA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * *
74366576 AAT GAA- AGT AAT AAT AAT AAT ACATT AAGT TAC AAT AGT AA- AGT AAT
1 AAT -AAT AAT AAT AAT AAT AAT A-A-T AA-T AAT AAT AAT AAT AAT AAT
* * * * * *
74366623 AAT AGT GAT AAT GAT AA- CAT ATT AGAT AAT AAT AGT AA- AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT
74366668 AAT AAT AAT A
1 AAT AAT AAT A
74366678 GATTAAATTA
Statistics
Matches: 100, Mismatches: 31, Indels: 24
0.65 0.20 0.15
Matches are distributed among these distances:
2 9 0.09
3 76 0.76
4 13 0.13
5 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:74366684 original size:18 final size:18
Alignment explanation
Indices: 74366643--74366685 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
74366633 ATGATAACAT
* *
74366643 ATTAGATAATAATAGTAA
1 ATTAAATAATAATAATAA
* *
74366661 AATAAATAATAATAATAG
1 ATTAAATAATAATAATAA
74366679 ATTAAAT
1 ATTAAAT
74366686 TAATTAATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
ATTAAATAATAATAATAA
Found at i:74372604 original size:50 final size:50
Alignment explanation
Indices: 74372502--74372611 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
74372492 GTGGCTTGCC
* * *
74372502 CGTGTGACCCAAATCTGAAATCAGTGAGCTACACGGCCTCGACACACGCT
1 CGTGTGACCCAAATCTCAAATCAGTGAGCTACACAGCCTCGACACACACT
* * * * *
74372552 CGTGTAACCCAAATC-CAAAGTCAGTGAGTTACACAGCCTGGGCACGCACT
1 CGTGTGACCCAAATCTCAAA-TCAGTGAGCTACACAGCCTCGACACACACT
74372602 CGTGTGACCC
1 CGTGTGACCC
74372612 CTGCACCGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 3 0.06
50 47 0.94
ACGTcount: A:0.27, C:0.32, G:0.23, T:0.18
Consensus pattern (50 bp):
CGTGTGACCCAAATCTCAAATCAGTGAGCTACACAGCCTCGACACACACT
Found at i:74376349 original size:40 final size:41
Alignment explanation
Indices: 74376294--74376484 Score: 217
Period size: 40 Copynumber: 4.7 Consensus size: 41
74376284 TTGACGATAA
*
74376294 TTCGGCTATGTATGGCACTTAGTGTTCGA-TTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGTTCGAGATAGC
* * *
74376334 TTCGGCTATGTATGGCACTTAGTGTGTGATTTTG-GATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGTTCGAGATAGC
* * * *
74376374 TTCGGCTATATATGGAACTTAGTGTGCGAGATCGAGTTAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGTTCGAGATAGC
* * * *
74376415 TTCGGCTATGTAAGGCACTTAATGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAG-TTCGAGATAGC
**
74376456 TTCAACTATGTATTGGCACTTAGTGTGCG
1 TTCGGCTATGTA-TGGCACTTAGTGTGCG
74376485 TGATATCGAG
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 61 0.49
41 49 0.39
42 15 0.12
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (41 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGAGTTCGAGATAGC
Found at i:74382697 original size:33 final size:33
Alignment explanation
Indices: 74382658--74382726 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
74382648 TTAATGGAAG
74382658 ATAGTAGGTAATATTTATGGTTTTTTAAGGTTA
1 ATAGTAGGTAATATTTATGGTTTTTTAAGGTTA
*
74382691 ATAGTAGGTAATATTTATGGTTTTTTAGGGTTA
1 ATAGTAGGTAATATTTATGGTTTTTTAAGGTTA
74382724 ATA
1 ATA
74382727 CATACTTAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (33 bp):
ATAGTAGGTAATATTTATGGTTTTTTAAGGTTA
Found at i:74383579 original size:10 final size:9
Alignment explanation
Indices: 74383556--74383598 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
74383546 ATTTCTCTCT
74383556 TTTTTATAA
1 TTTTTATAA
74383565 TTTTTATAA
1 TTTTTATAA
74383574 TGTTTTATAAA
1 T-TTTTAT-AA
* *
74383585 ATTTAATAA
1 TTTTTATAA
74383594 TTTTT
1 TTTTT
74383599 TTAAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 15 0.54
10 11 0.39
11 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:74383589 original size:19 final size:18
Alignment explanation
Indices: 74383556--74383614 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
74383546 ATTTCTCTCT
**
74383556 TTTTTATAATTTTTATAA
1 TTTTTATAAAATTTATAA
74383574 TGTTTTATAAAATTTAATAA
1 T-TTTTATAAAATTT-ATAA
* *
74383594 TTTTTTTAAATATATATAA
1 TTTTTATAAA-ATTTATAA
74383613 TT
1 TT
74383615 AGTTTAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.03
19 25 0.74
20 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTTATAAAATTTATAA
Found at i:74387238 original size:21 final size:22
Alignment explanation
Indices: 74387214--74387254 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
74387204 ATATTATTAC
*
74387214 TTTAATATTT-AATAAGAATAT
1 TTTAACATTTGAATAAGAATAT
74387235 TTTAACATTTGAATAAGAAT
1 TTTAACATTTGAATAAGAAT
74387255 TGGAGGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
TTTAACATTTGAATAAGAATAT
Found at i:74388686 original size:20 final size:20
Alignment explanation
Indices: 74388661--74388703 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
74388651 TAAGATGGAA
74388661 TAAAAATGGAGATGGAAATG
1 TAAAAATGGAGATGGAAATG
74388681 TAAAAATGGAGATGGAAATG
1 TAAAAATGGAGATGGAAATG
74388701 TAA
1 TAA
74388704 GATGAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.28, T:0.21
Consensus pattern (20 bp):
TAAAAATGGAGATGGAAATG
Found at i:74405604 original size:48 final size:46
Alignment explanation
Indices: 74405501--74405667 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 46
74405491 TATGTGTGCT
* * * * *
74405501 AGTGTAAGACATATCTGAGACATGCATCGGCCAC-ATTACGGGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTAC-GAAGCC
*
74405547 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-TACG-AAGCC
* * * *
74405595 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAG-ACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTACGA-AGCC
74405641 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
74405668 TTGGGACATG
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.01
46 63 0.59
47 2 0.02
48 40 0.38
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGTACGAAGCC
Found at i:74405753 original size:49 final size:49
Alignment explanation
Indices: 74405697--74405869 Score: 172
Period size: 49 Copynumber: 3.6 Consensus size: 49
74405687 TGTTGTGTGT
* * * * *
74405697 CAGTGTAAGACTTGTCTGGGGCATGGCATTGACAC-CTATAAATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAAATGAAAGC
* * * *
74405746 CAGTGTAAGACCTGTCTTGGACATGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
* * * ** *
74405795 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT--GTGCTATC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
74405842 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
74405870 GTCGGCATCT
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
47 15 0.14
48 16 0.15
49 73 0.70
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
Found at i:74409845 original size:28 final size:27
Alignment explanation
Indices: 74409805--74409857 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
74409795 ATACTGTAAA
*
74409805 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTAAGGCCCAG-TTAATATTGATAT
74409833 GGGCTAAGGCCCAGTTAATATTGAT
1 GGGCTAAGGCCCAGTTAATATTGAT
74409858 TTCTGAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAATATTGATAT
Found at i:74410541 original size:16 final size:17
Alignment explanation
Indices: 74410509--74410541 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
74410499 CATCAAGAAG
74410509 GGTTTTTAATGAAAACAT
1 GGTTTTTAA-GAAAACAT
74410527 GGTTTTTAA-AAAACA
1 GGTTTTTAAGAAAACA
74410542 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:0.06, G:0.15, T:0.36
Consensus pattern (17 bp):
GGTTTTTAAGAAAACAT
Found at i:74414958 original size:16 final size:16
Alignment explanation
Indices: 74414939--74414969 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74414929 ACTCATACCT
*
74414939 ACATACATTCATAAAC
1 ACATACATACATAAAC
74414955 ACATACATACATAAA
1 ACATACATACATAAA
74414970 GAAAAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATACATACATAAAC
Found at i:74417492 original size:6 final size:6
Alignment explanation
Indices: 74417480--74417536 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
74417470 TTTTTAACTA
* * * **
74417480 ATAATT GTAATT GTAATT ATAATT ATAATT ATAATT ATTTATT ATAACC
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT A-TAATT ATAATT
74417529 ATAATT AT
1 ATAATT AT
74417537 CAGAATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:74418570 original size:21 final size:20
Alignment explanation
Indices: 74418529--74418571 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
74418519 AGGCCTGCTC
*
74418529 AAAATGTCAATCCAATGAAT
1 AAAATGTCAATCCAATAAAT
74418549 AAAAGTGTCAAGTCC-ATAAAT
1 AAAA-TGTCAA-TCCAATAAAT
74418570 AA
1 AA
74418572 TGGAGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (20 bp):
AAAATGTCAATCCAATAAAT
Found at i:74423035 original size:6 final size:6
Alignment explanation
Indices: 74423024--74423052 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
74423014 AGGGAGGAAT
74423024 CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAA
74423053 TCATGAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.17, G:0.14, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:74423680 original size:18 final size:19
Alignment explanation
Indices: 74423643--74423683 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
74423633 ATTTATATAA
* *
74423643 AAATTTTAAATTAAATATT
1 AAATATTAAATTAAAAATT
74423662 AAATATTAAA-TAAAAATT
1 AAATATTAAATTAAAAATT
74423680 AAAT
1 AAAT
74423684 TAAATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATATTAAATTAAAAATT
Found at i:74423789 original size:20 final size:20
Alignment explanation
Indices: 74423750--74423790 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
74423740 ATTCCTTCGT
*
74423750 TTTCATCTTCTCGCTCCCTC
1 TTTCATCTTCACGCTCCCTC
74423770 TTTCATCTTCAC-CTCTCCTC
1 TTTCATCTTCACGCTC-CCTC
74423790 T
1 T
74423791 CCTCCCTCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.07, C:0.44, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTCATCTTCACGCTCCCTC
Found at i:74430955 original size:15 final size:16
Alignment explanation
Indices: 74430920--74430958 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
74430910 CTACCTCATT
74430920 TAAGTGATAAGTGAAC
1 TAAGTGATAAGTGAAC
*
74430936 T-AGTGA-AAGTGTAC
1 TAAGTGATAAGTGAAC
74430950 TAAGTGATA
1 TAAGTGATA
74430959 CTTGATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.41, C:0.05, G:0.26, T:0.28
Consensus pattern (16 bp):
TAAGTGATAAGTGAAC
Found at i:74432675 original size:13 final size:13
Alignment explanation
Indices: 74432659--74432683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74432649 GGGAAAACGT
74432659 GAAAGAAAAAAGG
1 GAAAGAAAAAAGG
74432672 GAAAGAAAAAAG
1 GAAAGAAAAAAG
74432684 TCAAAAAATT
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAAGG
Found at i:74435408 original size:155 final size:155
Alignment explanation
Indices: 74435197--74435505 Score: 582
Period size: 155 Copynumber: 2.0 Consensus size: 155
74435187 GAATTATGAA
* *
74435197 ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGGATTTTAATGACTACTATGTG
1 ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGAATTTTAATGACTAATATGTG
74435262 GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAAATA
66 GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAAATA
74435327 TCAAAACTTAACTTAATGAATTTAC
131 TCAAAACTTAACTTAATGAATTTAC
*
74435352 ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGAATTTTAGTGACTAATATGTG
1 ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGAATTTTAATGACTAATATGTG
*
74435417 GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAACTA
66 GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAAATA
74435482 TCAAAACTTAACTTAATGAATTTA
131 TCAAAACTTAACTTAATGAATTTA
74435506 ACAATTATCA
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
155 150 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (155 bp):
ATTTTAGTGTTGACGCAAATGACAATTGTTAATCCATTAACTGGAATTTTAATGACTAATATGTG
GAAATAATAAGATGATATGCATTACACATATGATAATATGTCTGCTGCATCAAATTTTGGAAATA
TCAAAACTTAACTTAATGAATTTAC
Found at i:74453488 original size:42 final size:43
Alignment explanation
Indices: 74453372--74453493 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
74453362 GTCTGAGACA
* * *
74453372 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGAT-TGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATATCAGATT
* * * **
74453414 TACGTATAAGACTATGTCTGGGACATC-TGCATC-ATATCTTATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCGATATCAGATT
* *
74453457 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATAT
74453494 TGAATTACAT
Statistics
Matches: 62, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
42 28 0.45
43 33 0.53
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATATCAGATT
Found at i:74456896 original size:21 final size:20
Alignment explanation
Indices: 74456868--74456906 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
74456858 CAAAACTTGT
74456868 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
74456888 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
74456907 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:74458708 original size:43 final size:43
Alignment explanation
Indices: 74458661--74458775 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
74458651 TATTACATAT
* * *
74458661 CGATGCCACTGTCCCAGACAGGGTCTTACACGA-AATC-GATTAA
1 CGATGCCAATGTCCCAGACAGGGTCTTACAC-ATAATCACAAT-A
74458704 CGATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATA
1 CGATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATA
* *
74458747 CAATGCCAATGTCCCAGACATGGTCTTAC
1 CGATGCCAATGTCCCAGACAGGGTCTTAC
74458776 TTGTAATCAC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.02
43 62 0.95
44 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACAGGGTCTTACACATAATCACAATA
Done.