Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 211 of 313
Found at i:64792105 original size:18 final size:18
Alignment explanation
Indices: 64792082--64792119 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
64792072 CCAATCGAGC
64792082 ATTGAGCAGCCCAAAACA
1 ATTGAGCAGCCCAAAACA
64792100 ATTGAGCAGCCCAAAACA
1 ATTGAGCAGCCCAAAACA
64792118 AT
1 AT
64792120 CCCACAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (18 bp):
ATTGAGCAGCCCAAAACA
Found at i:64796217 original size:27 final size:27
Alignment explanation
Indices: 64796187--64796238 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
64796177 CAATACGAAC
64796187 AAATACATGT-ATATAT-GAAATACATTG
1 AAAT-CATGTGATATATGGAAA-ACATTG
*
64796214 AAATGATGTGATATATGGAAAACAT
1 AAATCATGTGATATATGGAAAACAT
64796239 GTTATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 4 0.18
27 14 0.64
28 4 0.18
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (27 bp):
AAATCATGTGATATATGGAAAACATTG
Found at i:64796745 original size:20 final size:20
Alignment explanation
Indices: 64796702--64796743 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
64796692 TAAAGAAAGT
64796702 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
64796722 AAATGCAAAT-GAAAGTAA-G
1 AAATGC-AATGGAAAGTAATG
64796741 AAA
1 AAA
64796744 ATTTTGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:64803650 original size:28 final size:27
Alignment explanation
Indices: 64803606--64803663 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
64803596 TTATTCAGTA
64803606 ACAGTACAGTGTGGGCCTTAGCCCAAT
1 ACAGTACAGTGTGGGCCTTAGCCCAAT
*
64803633 ACAGTAACAGTGTGGGCCTTAGCCCAGT
1 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
64803661 ACA
1 ACA
64803664 AAATTAGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTTAGCCCAAT
Found at i:64803803 original size:26 final size:26
Alignment explanation
Indices: 64803774--64803854 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
64803764 AACACACCAA
*
64803774 TATCGTAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* *
64803800 TATCGCAACAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* *
64803826 TATCGCAGCAAAGCTACCAGAAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
64803852 TAT
1 TAT
64803855 ACTTCCTCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:64804032 original size:27 final size:27
Alignment explanation
Indices: 64804000--64804206 Score: 224
Period size: 27 Copynumber: 7.7 Consensus size: 27
64803990 TTTCATCTCC
* *
64804000 TAGGGGTATATCAATCATTTTACCCTA
1 TAGGGGTATTTCGATCATTTTACCCTA
*
64804027 TGGGGGTATTTCGATCATTTTACCCTA
1 TAGGGGTATTTCGATCATTTTACCCTA
* * *
64804054 TAAGGGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCGATCATTTTACCCTA
** *
64804081 T-GGGGTATTTTAATTATTTTACCCTA
1 TAGGGGTATTTCGATCATTTTACCCTA
*
64804107 TAGGGCTATTTC-AGTCATTTTACCCTA
1 TAGGGGTATTTCGA-TCATTTTACCCTA
* * *
64804134 T-GAGGTATTTCGGTCATTTTATCCTA
1 TAGGGGTATTTCGATCATTTTACCCTA
* *
64804160 T-GGCGGTATTTTGGTCATTTTACCCTA
1 TAGG-GGTATTTCGATCATTTTACCCTA
*
64804187 TAGAGGTATTTCGATCATTT
1 TAGGGGTATTTCGATCATTT
64804207 ATTGACCTCT
Statistics
Matches: 151, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 45 0.30
27 105 0.70
28 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (27 bp):
TAGGGGTATTTCGATCATTTTACCCTA
Found at i:64804106 original size:80 final size:79
Alignment explanation
Indices: 64803998--64804206 Score: 278
Period size: 80 Copynumber: 2.6 Consensus size: 79
64803988 CATTTCATCT
* * *
64803998 CCTA-GGGGTATATCAATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTA
1 CCTATGGGGTATTTTAATCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAA-GGTA
*
64804062 TTTTGGTCATTTTAC
65 TTTCGGTCATTTTAC
* * *
64804077 CCTATGGGGTATTTTAATTATTTTACCCTATAGGGCTATTTC-AGTCATTTTACCCTATGAGGTA
1 CCTATGGGGTATTTTAATCATTTTACCCTATAGGGGTATTTCGA-TCATTTTACCCTATAAGGTA
*
64804141 TTTCGGTCATTTTAT
65 TTTCGGTCATTTTAC
** *
64804156 CCTATGGCGGTATTTTGGTCATTTTACCCTATAGAGGTATTTCGATCATTT
1 CCTATGG-GGTATTTTAATCATTTTACCCTATAGGGGTATTTCGATCATTT
64804207 ATTGACCTCT
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 29 0.26
80 83 0.73
81 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (79 bp):
CCTATGGGGTATTTTAATCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGGTAT
TTCGGTCATTTTAC
Found at i:64804208 original size:53 final size:53
Alignment explanation
Indices: 64804014--64804206 Score: 253
Period size: 53 Copynumber: 3.6 Consensus size: 53
64804004 GGTATATCAA
* *
64804014 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTGG
1 TCATTTTACCCTAT-GAGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGG
* ** * * **
64804068 TCATTTTACCCTATGGGGTATTTTAATTATTTTACCCTATAGGGCTATTTCAG
1 TCATTTTACCCTATGAGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGG
* *
64804121 TCATTTTACCCTATGAGGTATTTCGGTCATTTTATCCTAT-GGCGGTATTTTGG
1 TCATTTTACCCTATGAGGTATTTCGATCATTTTACCCTATAGG-GGTATTTTGG
64804174 TCATTTTACCCTATAGAGGTATTTCGATCATTT
1 TCATTTTACCCTAT-GAGGTATTTCGATCATTT
64804207 ATTGACCTCT
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
52 2 0.02
53 87 0.73
54 31 0.26
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.45
Consensus pattern (53 bp):
TCATTTTACCCTATGAGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGG
Found at i:64804434 original size:19 final size:19
Alignment explanation
Indices: 64804399--64804436 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
64804389 GTGTGGGGCC
*
64804399 CACGAGCCCATTGAGCCCA
1 CACGAGCCCATTCAGCCCA
64804418 CACG-GCCCATGTCAGCCCA
1 CACGAGCCCAT-TCAGCCCA
64804437 ATGTGAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.24, C:0.45, G:0.21, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTCAGCCCA
Found at i:64808167 original size:8 final size:8
Alignment explanation
Indices: 64808154--64808189 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
64808144 AAAAGTCATT
64808154 ATTTGTGA
1 ATTTGTGA
64808162 ATTTGTGA
1 ATTTGTGA
*
64808170 ATTTGTGG
1 ATTTGTGA
64808178 ATTTGTGA
1 ATTTGTGA
64808186 ATTT
1 ATTT
64808190 TGCATTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (8 bp):
ATTTGTGA
Found at i:64808198 original size:16 final size:16
Alignment explanation
Indices: 64808154--64808196 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
64808144 AAAAGTCATT
*
64808154 ATTTGTGAATTTGTGA
1 ATTTGTGCATTTGTGA
*
64808170 ATTTGTGGATTTGTGA
1 ATTTGTGCATTTGTGA
64808186 ATTT-TGCATTT
1 ATTTGTGCATTT
64808197 TGGTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.53
Consensus pattern (16 bp):
ATTTGTGCATTTGTGA
Found at i:64815877 original size:3 final size:3
Alignment explanation
Indices: 64815862--64815902 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
64815852 CTAGGATCCC
*
64815862 GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
64815903 TCCCACAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:64819931 original size:15 final size:15
Alignment explanation
Indices: 64819913--64819954 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
64819903 TGAAAAGTTT
64819913 AATATTTATTTACTA
1 AATATTTATTTACTA
* *
64819928 AATATTTAATTATTA
1 AATATTTATTTACTA
*
64819943 AATATGTATTTA
1 AATATTTATTTA
64819955 GTTTAGATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
AATATTTATTTACTA
Found at i:64827130 original size:21 final size:21
Alignment explanation
Indices: 64827073--64827131 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
64827063 ACGGCCGGAT
* * *
64827073 CACACGGCTATGTCCCTAGGT
1 CACACGGCTGTGTGCCTAGGC
* *
64827094 CACACGGGC-GTATGCCTTGGC
1 CACAC-GGCTGTGTGCCTAGGC
64827115 CACACGGCTGTGTGCCT
1 CACACGGCTGTGTGCCT
64827132 CCTTCCACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.15, C:0.34, G:0.29, T:0.22
Consensus pattern (21 bp):
CACACGGCTGTGTGCCTAGGC
Found at i:64830255 original size:14 final size:14
Alignment explanation
Indices: 64830236--64830263 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64830226 TTTCTTCTTA
64830236 CTTAGTTTTTAATC
1 CTTAGTTTTTAATC
64830250 CTTAGTTTTTAATC
1 CTTAGTTTTTAATC
64830264 ATCTTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
CTTAGTTTTTAATC
Found at i:64842926 original size:20 final size:20
Alignment explanation
Indices: 64842901--64842972 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
64842891 TGTGGTTCAA
64842901 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
* *
64842921 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTTAG
* * *
64842941 CTCATTCAAGCTCAATTTAA
1 CTCATTCGAGCTCAAGTTAG
64842961 CTCATT-GAGCTC
1 CTCATTCGAGCTC
64842973 GTTATTAGCT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 5 0.11
20 39 0.89
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTTAG
Found at i:64845668 original size:45 final size:45
Alignment explanation
Indices: 64845604--64845733 Score: 206
Period size: 45 Copynumber: 2.9 Consensus size: 45
64845594 NNNNNNNNNN
64845604 CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGA
1 CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGA
* *
64845649 CCAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGG
1 CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGA
* * * *
64845694 CCAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
64845734 CCATGGCCGA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGA
Found at i:64855009 original size:6 final size:6
Alignment explanation
Indices: 64854973--64855001 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
64854963 TATCTTAGGT
64854973 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
64855002 TTGATTTTAG
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:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:64865165 original size:23 final size:23
Alignment explanation
Indices: 64865135--64865186 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
64865125 TTTCCCCAAA
64865135 ATCTCTCCACTCTCTTGTCGTTT
1 ATCTCTCCACTCTCTTGTCGTTT
*
64865158 ATCTCTCCAGTCTCTTGTCGTTT
1 ATCTCTCCACTCTCTTGTCGTTT
*
64865181 TTCTCT
1 ATCTCT
64865187 TCATTGCTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.33, G:0.10, T:0.50
Consensus pattern (23 bp):
ATCTCTCCACTCTCTTGTCGTTT
Found at i:64867433 original size:17 final size:17
Alignment explanation
Indices: 64867392--64867435 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
64867382 ACTTTATCCC
64867392 TCATCCCT-T-ATCTCA
1 TCATCCCTCTCATCTCA
64867407 TCATCCCTCTCATCTC-
1 TCATCCCTCTCATCTCA
64867423 TCATCCTCTCTCA
1 TCATCC-CTCTCA
64867436 CGCCTATCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.31
16 7 0.27
17 11 0.42
ACGTcount: A:0.16, C:0.45, G:0.00, T:0.39
Consensus pattern (17 bp):
TCATCCCTCTCATCTCA
Found at i:64868229 original size:20 final size:22
Alignment explanation
Indices: 64868187--64868229 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
64868177 GTCCTAATTT
**
64868187 ATTGATGTTATAATTTTTGTAA
1 ATTGATGTTATAATTTTACTAA
64868209 ATTG-TGTT-TAATTTTACTAA
1 ATTGATGTTATAATTTTACTAA
64868229 A
1 A
64868230 ATCTATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (22 bp):
ATTGATGTTATAATTTTACTAA
Found at i:64882722 original size:20 final size:20
Alignment explanation
Indices: 64882697--64882734 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64882687 GTTTTTCTAG
64882697 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
64882717 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
64882735 TAAAGGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:64888982 original size:21 final size:21
Alignment explanation
Indices: 64888939--64888981 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
64888929 AATTCTCATA
64888939 TTATTTAGATTATTATTGATT
1 TTATTTAGATTATTATTGATT
* *
64888960 TTATTTTGATTCTTA-TGATT
1 TTATTTAGATTATTATTGATT
64888980 TT
1 TT
64888982 TTTTCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.65
Consensus pattern (21 bp):
TTATTTAGATTATTATTGATT
Found at i:64889379 original size:15 final size:15
Alignment explanation
Indices: 64889355--64889387 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
64889345 TTTTTAATTG
64889355 ATTGTGTTCTTTTCA
1 ATTGTGTTCTTTTCA
*
64889370 ATTGTTTTCTTTTCA
1 ATTGTGTTCTTTTCA
64889385 ATT
1 ATT
64889388 TCCTCTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.64
Consensus pattern (15 bp):
ATTGTGTTCTTTTCA
Found at i:64892337 original size:26 final size:26
Alignment explanation
Indices: 64892301--64892354 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
64892291 AGTCCTCCTG
64892301 TTAAAGAAATAAATAAAATGTAATAT
1 TTAAAGAAATAAATAAAATGTAATAT
64892327 TTAAAGAAATAAATAAAATGTAATAT
1 TTAAAGAAATAAATAAAATGTAATAT
64892353 TT
1 TT
64892355 GTTAAGCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (26 bp):
TTAAAGAAATAAATAAAATGTAATAT
Found at i:64893475 original size:5 final size:5
Alignment explanation
Indices: 64893465--64893566 Score: 84
Period size: 5 Copynumber: 19.6 Consensus size: 5
64893455 AAAAAAAATA
* * *
64893465 ATTAT ATTAT ATTA- ATTTTT ATTAT ATTTCAT ATAATT ATT-T GCTTAT
1 ATTAT ATTAT ATTAT A-TTAT ATTAT A-TT-AT ATTA-T ATTAT -ATTAT
*
64893513 ATCT-T ATTAT ATTAT ATATTT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 AT-TAT ATTAT ATTAT AT-TAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
64893564 ATT
1 ATT
64893567 TACGCATCAT
Statistics
Matches: 79, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
4 3 0.04
5 60 0.76
6 13 0.16
7 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:64893524 original size:26 final size:26
Alignment explanation
Indices: 64893484--64893566 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
64893474 TATTAATTTT
*
64893484 TATTATATTTCATATAAT-TATTTGCTTA
1 TATTATA-TT-ATATAATATATTT-ATTA
*
64893512 TATCT-TATTATATTATATATTTATTA
1 TAT-TATATTATATAATATATTTATTA
64893538 TATTATATTATAT--TATATTATATTA
1 TATTATATTATATAATATATT-TATTA
64893563 TATT
1 TATT
64893567 TACGCATCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.12
25 10 0.20
26 20 0.41
27 7 0.14
28 5 0.10
29 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (26 bp):
TATTATATTATATAATATATTTATTA
Found at i:64893536 original size:31 final size:30
Alignment explanation
Indices: 64893469--64893560 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
64893459 AAAATAATTA
*
64893469 TATTATATTAATTTTTATTATATTTCATATAAT
1 TATTATATT-ATATTTATTATA-TT-ATATAAT
* *
64893502 TATT-TGCTTATATCTTATTATATTATATATT
1 TATTAT-ATTATAT-TTATTATATTATATAAT
64893533 TATTATATTATATTATATTATATTATAT
1 TATTATATTATATT-TATTATATTATAT
64893561 TATATTTACG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
30 1 0.02
31 29 0.57
32 7 0.14
33 14 0.27
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (30 bp):
TATTATATTATATTTATTATATTATATAAT
Found at i:64897485 original size:27 final size:27
Alignment explanation
Indices: 64897455--64897632 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64897445 ATATTGAGTC
* * * *
64897455 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
64897482 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64897509 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
64897537 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
64897564 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
64897591 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64897618 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64897633 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:64897594 original size:82 final size:81
Alignment explanation
Indices: 64897476--64897631 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64897466 TGCTATATAA
* *
64897476 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64897541 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64897558 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64897622 CACTTAGTGC
65 CACTTAGTGC
64897632 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64907602 original size:27 final size:27
Alignment explanation
Indices: 64907563--64907740 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
64907553 ATATTGAGTC
* * *
64907563 CGCACACTCAGTGCTATATAATCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
* * * *
64907590 CACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAATT
*
64907617 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AATT
** *
64907645 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
* *
64907672 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAATT
* *
64907699 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAATT
64907726 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64907741 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAATT
Found at i:64907702 original size:82 final size:81
Alignment explanation
Indices: 64907584--64907739 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64907574 TGCTATATAA
* *
64907584 TCAATTCACACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAATTCACACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64907649 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64907666 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAATTCACACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64907730 CACTTAGTGC
65 CACTTAGTGC
64907740 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAATTCACACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64915957 original size:6 final size:6
Alignment explanation
Indices: 64915946--64915970 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
64915936 GTCAAAACCA
64915946 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
64915971 ACATTGTCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:64918171 original size:50 final size:50
Alignment explanation
Indices: 64918070--64918257 Score: 171
Period size: 50 Copynumber: 3.6 Consensus size: 50
64918060 TCTTGTACTT
* * * * ** * *
64918070 CCAATGCCATATCCCATATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTG
* * *
64918120 CCCATGCTATGTTCCAGACATGGTCTTACGA-GAGACCTCTCATCTCAGTG
1 CCAATGCCATGTCCCAGACATGGTCTTAC-ATGAGACCTCTCATCTCAGTG
* * * *
64918170 CCAACGCCATATCCCAAACATGGTCTTACATGCGACCTCTACTAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT-C--ATCTC-A-G-TG
64918226 CCAATGCCATGTCCCAGACATGGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
64918258 GGATCTCTTT
Statistics
Matches: 109, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 1 0.01
50 68 0.62
51 2 0.02
53 5 0.05
54 1 0.01
55 1 0.01
56 31 0.28
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTG
Found at i:64925127 original size:56 final size:50
Alignment explanation
Indices: 64924917--64925163 Score: 208
Period size: 50 Copynumber: 4.8 Consensus size: 50
64924907 GATAATAACA
* * ** * * * *
64924917 TGCCAATGCCATGTCCCATACATGGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * * * ** * *
64924966 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * * * **
64925016 TGCCCATGCTATGTTCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
64925066 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G
* * *
64925121 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
64925164 TTACCCAAAT
Statistics
Matches: 161, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 38 0.24
50 77 0.48
53 5 0.03
54 1 0.01
55 1 0.01
56 39 0.24
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:64927709 original size:9 final size:9
Alignment explanation
Indices: 64927697--64927735 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
64927687 GTGAGAGCTA
*
64927697 AGAGAGTTG
1 AGAGAGATG
*
64927706 AGAGAGAGG
1 AGAGAGATG
64927715 ATGAGAGATG
1 A-GAGAGATG
64927725 AGAGAGATG
1 AGAGAGATG
64927734 AG
1 AG
64927736 GGATGATGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.46, T:0.13
Consensus pattern (9 bp):
AGAGAGATG
Found at i:64927735 original size:16 final size:17
Alignment explanation
Indices: 64927707--64927741 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
64927697 AGAGAGTTGA
64927707 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
64927724 GAGAGA-GATGAGGGAT
1 GAGAGAGGATGAGAGAT
64927740 GA
1 GA
64927742 TGGATAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:64929647 original size:15 final size:15
Alignment explanation
Indices: 64929623--64929652 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64929613 AAAGAAACGA
*
64929623 TGTAAGTAATGAAAT
1 TGTAAATAATGAAAT
64929638 TGTAAATAATGAAAT
1 TGTAAATAATGAAAT
64929653 ATAATAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (15 bp):
TGTAAATAATGAAAT
Found at i:64931638 original size:56 final size:50
Alignment explanation
Indices: 64931528--64931761 Score: 199
Period size: 50 Copynumber: 4.6 Consensus size: 50
64931518 CGATCTTGTA
*** *
64931528 TAAGACCATGTCTAGGACATGGCATCAACATC-GATATGTGA-G--CCAGTG
1 TAAGACCATGTCTAGGACATGGCATTGGCA-CAGATATGAGAGGTCCCA-TG
* *
64931576 TAAGACCATGTCTAGGATATTGCATTGGCATCATTGAGATTATGAGAGGTCCCATG
1 TAAGACCATGTCTAGGACATGGCATTGGCA-C----AGA-TATGAGAGGTCCCATG
* * *
64931632 TAAGACCATGTCTGGGACATGGCGTTGGCACCGATATGAGAGGTCCCATG
1 TAAGACCATGTCTAGGACATGGCATTGGCACAGATATGAGAGGTCCCATG
* ** * * **
64931682 TAAGACCATGTCTGGGACATGGTGTTGGGACCA-AGATGAGAGGTCCCCCG
1 TAAGACCATGTCTAGGACATGGCATTGGCA-CAGATATGAGAGGTCCCATG
*
64931732 TAAGACCATGTCTGGGACATGGCATTGGCA
1 TAAGACCATGTCTAGGACATGGCATTGGCA
64931762 GTACAGAAAA
Statistics
Matches: 156, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
48 27 0.17
50 85 0.54
51 3 0.02
53 2 0.01
54 6 0.04
55 2 0.01
56 28 0.18
57 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTCTAGGACATGGCATTGGCACAGATATGAGAGGTCCCATG
Found at i:64931674 original size:50 final size:50
Alignment explanation
Indices: 64931616--64931761 Score: 229
Period size: 50 Copynumber: 2.9 Consensus size: 50
64931606 TCATTGAGAT
*
64931616 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAA
* *
64931666 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGGACCAA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAA
* ** *
64931716 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
64931762 GTACAGAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 87 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAA
Found at i:64933538 original size:31 final size:31
Alignment explanation
Indices: 64933480--64933538 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
64933470 AGTAAATACT
* * *
64933480 CAAAATTTGAGGGATTAAAGTGTAAATACAA
1 CAAAATTTGAAGGACTAAAGTGCAAATACAA
64933511 CAAAA-TTGAAGGACTAATAGTGCAAATA
1 CAAAATTTGAAGGACTAA-AGTGCAAATA
64933539 TTTTAAGCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (31 bp):
CAAAATTTGAAGGACTAAAGTGCAAATACAA
Found at i:64933802 original size:11 final size:13
Alignment explanation
Indices: 64933778--64933809 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64933768 TAGTTTATTA
64933778 ATATTTTAATATG
1 ATATTTTAATATG
64933791 AT-TTTTAA-ATG
1 ATATTTTAATATG
64933802 ATATTTTA
1 ATATTTTA
64933810 TTATTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:64940724 original size:10 final size:10
Alignment explanation
Indices: 64940675--64940722 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
64940665 TAAATTCCCA
64940675 AAAGATAAAT
1 AAAGATAAAT
* * *
64940685 ACAGTTAATT
1 AAAGATAAAT
64940695 AAAGATAAAT
1 AAAGATAAAT
64940705 AAAGATAAAT
1 AAAGATAAAT
64940715 AAA-ATAAA
1 AAAGATAAA
64940723 ATCCTAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 5 0.16
10 27 0.84
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:64940767 original size:15 final size:15
Alignment explanation
Indices: 64940747--64940778 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64940737 TAATTCTTAA
*
64940747 TAATTATCTTAATAT
1 TAATTATCCTAATAT
64940762 TAATTATCCTAATAT
1 TAATTATCCTAATAT
64940777 TA
1 TA
64940779 TTAAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:64946239 original size:11 final size:11
Alignment explanation
Indices: 64946223--64946254 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
64946213 TACATTTAAT
64946223 TAAAGATAAAA
1 TAAAGATAAAA
64946234 TAAAGAT-AAA
1 TAAAGATAAAA
64946244 TAAA-ATAAAA
1 TAAAGATAAAA
64946254 T
1 T
64946255 CCTACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.10
10 11 0.55
11 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (11 bp):
TAAAGATAAAA
Found at i:64946297 original size:15 final size:14
Alignment explanation
Indices: 64946276--64946311 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
64946266 ATAATTCTTA
*
64946276 ATAATTATCTTAAT
1 ATAATTATCCTAAT
64946290 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
64946305 ATAATTA
1 ATAATTA
64946312 AAATAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:64947036 original size:11 final size:11
Alignment explanation
Indices: 64947020--64947048 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
64947010 TCTTATATAT
64947020 ATAATAATAAA
1 ATAATAATAAA
64947031 ATAATAATAAA
1 ATAATAATAAA
64947042 ATAATAA
1 ATAATAA
64947049 AATATCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:64955229 original size:19 final size:18
Alignment explanation
Indices: 64955201--64955246 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
64955191 TGAGAGCTAA
*
64955201 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGA-AGGAT
64955220 GAGAGAT--GAGAAGGAT
1 GAGAGATGAGAGAAGGAT
64955236 GATGAGATGAG
1 GA-GAGATGAG
64955247 GGATGAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 7 0.30
17 9 0.39
19 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.46, T:0.15
Consensus pattern (18 bp):
GAGAGATGAGAGAAGGAT
Found at i:64955242 original size:17 final size:16
Alignment explanation
Indices: 64955207--64955252 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
64955197 CTAAGAGAGT
64955207 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
64955222 -GAGATGAGAAGGATGA
1 TGAGATGAG-AGGATGA
64955238 TGAGATGAG-GGATGA
1 TGAGATGAGAGGATGA
64955253 GGGATAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.14
15 9 0.32
16 7 0.25
17 8 0.29
ACGTcount: A:0.39, C:0.00, G:0.46, T:0.15
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:64959269 original size:27 final size:28
Alignment explanation
Indices: 64959226--64959649 Score: 314
Period size: 27 Copynumber: 15.5 Consensus size: 28
64959216 GGTCACCGAG
*
64959226 ACCCC-CGATTTGTAAAATTATCGAAAT
1 ACCCCTCGATTTGAAAAATTATCGAAAT
*
64959253 ACCCCTC-ACTTGAAAAAATTA-CTGAAAT
1 ACCCCTCGATTTG-AAAAATTATC-GAAAT
* * *
64959281 ACCCC-CAATTTGTAAAATTA-CTAAAAT
1 ACCCCTCGATTTGAAAAATTATC-GAAAT
* *
64959308 ACGCC-CGATTTGCAAAATTATCGAAAT
1 ACCCCTCGATTTGAAAAATTATCGAAAT
* **
64959335 ACCCCT-AATTTGGAAAAATTATTAAAAT
1 ACCCCTCGATTT-GAAAAATTATCGAAAT
* * *
64959363 ACCCCTAG-TTTGTAAAATTACCGAAAT
1 ACCCCTCGATTTGAAAAATTATCGAAAT
* ** *
64959390 ACCCC-CAATTTTCAAAATTATCAAAAT
1 ACCCCTCGATTTGAAAAATTATCGAAAT
*
64959417 A-CCCTCGATTTGTAAAATTATCGAAAT
1 ACCCCTCGATTTGAAAAATTATCGAAAT
* *
64959444 ATCCCT-GATTTGCAAAAAATTATTGAAAT
1 ACCCCTCGATTTG--AAAAATTATCGAAAT
*
64959473 A-CCCTCGATTTGCAAAAATTA-CTAAAAT
1 ACCCCTCGATTTG-AAAAATTATC-GAAAT
* **
64959501 ACCCCT-AATTTTCAAAATTA-CTGAAAT
1 ACCCCTCGATTTGAAAAATTATC-GAAAT
*
64959528 ACCCC-CGATTTGCAAAATTATCGAAAT
1 ACCCCTCGATTTGAAAAATTATCGAAAT
*
64959555 A-CCCTCGATTTGTAAAAATTA-CTAAAAT
1 ACCCCTCGATTTG-AAAAATTATC-GAAAT
* *
64959583 ACCCC-CAATTTGCAAAATTATCGAAAT
1 ACCCCTCGATTTGAAAAATTATCGAAAT
* * *
64959610 A-CCCTCAATATGTAAAAATTATCAAAAT
1 ACCCCTCGATTTG-AAAAATTATCGAAAT
64959638 A-CCCTCGATTTG
1 ACCCCTCGATTTG
64959650 TGAAATGACT
Statistics
Matches: 322, Mismatches: 50, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
26 9 0.03
27 173 0.54
28 113 0.35
29 27 0.08
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (28 bp):
ACCCCTCGATTTGAAAAATTATCGAAAT
Found at i:64959353 original size:55 final size:54
Alignment explanation
Indices: 64959267--64959710 Score: 390
Period size: 55 Copynumber: 8.1 Consensus size: 54
64959257 CTCACTTGAA
*
64959267 AAAATTA-CTGAAATACCCCCAATTTGT-AAAATTACTAAAATACGCCCGATTTGC
1 AAAATTATC-GAAATACCCCTAATTTGTAAAAATTACTAAAATAC-CCCGATTTGC
* * * *
64959321 AAAATTATCGAAATACCCCTAATTTGGAAAAATTATTAAAATACCCCTAGTTTGT
1 AAAATTATCGAAATACCCCTAATTTGTAAAAATTACTAAAATACCCCGA-TTTGC
* * * *
64959376 AAAATTACCGAAATACCCCCAATTT-TCAAAATTA-TCAAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCCTAATTTGTAAAAATTACT-AAAATACCC-CGATTTGC
* * * * *
64959430 AAAATTATCGAAATATCCCTGATTTGCAAAAAATTATTGAAATACCCTCGATTTGC
1 AAAATTATCGAAATACCCCTAATTTG-TAAAAATTACTAAAATACCC-CGATTTGC
* * *
64959486 AAAAATTA-CTAAAATACCCCTAATTT-TCAAAATTACTGAAATACCCCCGATTTGC
1 -AAAATTATC-GAAATACCCCTAATTTGTAAAAATTACTAAAATA-CCCCGATTTGC
* *
64959541 AAAATTATCGAAATA-CCCTCGATTTGTAAAAATTACTAAAATACCCCCAATTTGC
1 AAAATTATCGAAATACCCCT-AATTTGTAAAAATTACTAAAATA-CCCCGATTTGC
* *
64959596 AAAATTATCGAAATA-CCCTCAATATGTAAAAATTA-TCAAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCCT-AATTTGTAAAAATTACT-AAAATACCC-CGATTTGC
* * * * * * * *
64959651 GAAATGA-CTAAATA-ACCTCAGTTTGT-AAAATTACCAAAATACCTTCGATTTAC
1 AAAATTATCGAAATACCCCT-AATTTGTAAAAATTACTAAAATACC-CCGATTTGC
64959704 AAAATTA
1 AAAATTA
64959711 CTAAAATACC
Statistics
Matches: 327, Mismatches: 45, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
53 31 0.09
54 104 0.32
55 144 0.44
56 27 0.08
57 21 0.06
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTATCGAAATACCCCTAATTTGTAAAAATTACTAAAATACCCCGATTTGC
Found at i:64959366 original size:82 final size:80
Alignment explanation
Indices: 64959226--64959649 Score: 370
Period size: 82 Copynumber: 5.2 Consensus size: 80
64959216 GGTCACCGAG
* * * * * *
64959226 ACCCCCGATTTGTAAAATTATCGAAATACCCCTCACTTGAAAAAATTACTGAAATACCCCCAATT
1 ACCCTCGATTTGCAAAATTATCAAAATACCCCTAATTTG-AAAAATTATTGAAATACCCCCAATT
*
64959291 TGTAAAATTACTAAAAT
65 TGTAAAATTA-TGAAAT
* * * *
64959308 ACGCC-CGATTTGCAAAATTATCGAAATACCCCTAATTTGGAAAAATTATTAAAATACCCCTAGT
1 AC-CCTCGATTTGCAAAATTATCAAAATACCCCTAATTT-GAAAAATTATTGAAATACCCCCAAT
*
64959372 TTGTAAAATTACCGAAAT
64 TTGTAAAATTA-TGAAAT
* * * * * * * **
64959390 ACCCCCAATTTTCAAAATTATCAAAATA-CCCTCGATTTGTAAAATTATCGAAATATCCCTGATT
1 ACCCTCGATTTGCAAAATTATCAAAATACCCCT-AATTTGAAAAATTATTGAAATACCCCCAATT
*
64959454 TGCAAAAAATTATTGAAAT
65 TG--TAAAATTA-TGAAAT
** * *
64959473 ACCCTCGATTTGCAAAAATTA-CTAAAATACCCCTAATTTTCAAAATTACTGAAATACCCCCGAT
1 ACCCTCGATTTGC-AAAATTATC-AAAATACCCCTAATTTGAAAAATTATTGAAATACCCCCAAT
*
64959537 TTGCAAAATTATCGAAAT
64 TTGTAAAATTAT-GAAAT
* * * * *
64959555 ACCCTCGATTTGTAAAAATTA-CTAAAATACCCCCAATTTGCAAAATTATCGAAATACCCTCAAT
1 ACCCTCGATTTG-CAAAATTATC-AAAATACCCCTAATTTGAAAAATTATTGAAATACCCCCAAT
* *
64959619 ATGTAAAAATTATCAAAAT
64 TTGT-AAAATTAT-GAAAT
64959638 ACCCTCGATTTG
1 ACCCTCGATTTG
64959650 TGAAATGACT
Statistics
Matches: 287, Mismatches: 43, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
81 29 0.10
82 164 0.57
83 51 0.18
84 39 0.14
85 4 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
ACCCTCGATTTGCAAAATTATCAAAATACCCCTAATTTGAAAAATTATTGAAATACCCCCAATTT
GTAAAATTATGAAAT
Found at i:64959707 original size:27 final size:27
Alignment explanation
Indices: 64959226--64959722 Score: 290
Period size: 27 Copynumber: 18.2 Consensus size: 27
64959216 GGTCACCGAG
* * * *
64959226 ACCCCCGATTTGTAAAATTATCGAAAT
1 ACCCTCGATTTGCAAAATTACCAAAAT
* * **
64959253 ACCCCTC-ACTTGAAAAAATTACTGAAAT
1 A-CCCTCGATTTG-CAAAATTACCAAAAT
* * * *
64959281 ACCCCCAATTTGTAAAATTACTAAAAT
1 ACCCTCGATTTGCAAAATTACCAAAAT
* *
64959308 ACGCC-CGATTTGCAAAATTATCGAAAT
1 AC-CCTCGATTTGCAAAATTACCAAAAT
* * **
64959335 ACCC-CTAATTTGGAAAAATTATTAAAAT
1 ACCCTC-GATTT-GCAAAATTACCAAAAT
* * *
64959363 ACCC-CTAGTTTGTAAAATTACCGAAAT
1 ACCCTCGA-TTTGCAAAATTACCAAAAT
* * * *
64959390 ACCCCCAATTTTCAAAATTATCAAAAT
1 ACCCTCGATTTGCAAAATTACCAAAAT
* * *
64959417 ACCCTCGATTTGTAAAATTATCGAAAT
1 ACCCTCGATTTGCAAAATTACCAAAAT
***
64959444 ATCCCT-GATTTGCAAAAAATTATTGAAAT
1 A-CCCTCGATTTGC--AAAATTACCAAAAT
*
64959473 ACCCTCGATTTGCAAAAATTACTAAAAT
1 ACCCTCGATTTGC-AAAATTACCAAAAT
* * **
64959501 ACCC-CTAATTTTCAAAATTACTGAAAT
1 ACCCTC-GATTTGCAAAATTACCAAAAT
* * *
64959528 ACCCCCGATTTGCAAAATTATCGAAAT
1 ACCCTCGATTTGCAAAATTACCAAAAT
* *
64959555 ACCCTCGATTTGTAAAAATTACTAAAAT
1 ACCCTCGATTTG-CAAAATTACCAAAAT
* * * *
64959583 ACCCCCAATTTGCAAAATTATCGAAAT
1 ACCCTCGATTTGCAAAATTACCAAAAT
* * * *
64959610 ACCCTCAATATGTAAAAATTATCAAAAT
1 ACCCTCGATTTG-CAAAATTACCAAAAT
** * *
64959638 ACCCTCGATTTGTGAAATGA-CTAAAT
1 ACCCTCGATTTGCAAAATTACCAAAAT
* *
64959664 AACCTC-AGTTTGTAAAATTACCAAAAT
1 ACCCTCGA-TTTGCAAAATTACCAAAAT
* * *
64959691 ACCTTCGATTTACAAAATTACTAAAAT
1 ACCCTCGATTTGCAAAATTACCAAAAT
64959718 ACCCT
1 ACCCT
64959723 TATAGGGTAA
Statistics
Matches: 376, Mismatches: 75, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.00
26 23 0.06
27 209 0.56
28 122 0.32
29 21 0.06
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
ACCCTCGATTTGCAAAATTACCAAAAT
Found at i:64960189 original size:28 final size:28
Alignment explanation
Indices: 64960157--64960215 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
64960147 CATACTGCAT
*
64960157 ATTGTTTCTGTATTGGGCTAAGGCCCAC
1 ATTGTTTCTGTATTGGGCTAAAGCCCAC
64960185 ATTGTTTCTGTATTGGGCTAAAGCCCAC
1 ATTGTTTCTGTATTGGGCTAAAGCCCAC
64960213 ATT
1 ATT
64960216 ATTCTGTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (28 bp):
ATTGTTTCTGTATTGGGCTAAAGCCCAC
Found at i:64976228 original size:19 final size:20
Alignment explanation
Indices: 64976184--64976228 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
64976174 ATCATGTTCA
*
64976184 TATTTTTAACATAATTTGAT
1 TATTTTTAACATAATTTAAT
64976204 TA-TTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
64976222 TATTTTT
1 TATTTTT
64976229 CGAAAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:64976490 original size:50 final size:50
Alignment explanation
Indices: 64976377--64976491 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 50
64976367 CCCATATATG
** * * *
64976377 GTCTTACATGGGAGTTCTAATATCGGTGCCCATGCCATGTCCTAAACATG
1 GTCTTACATGGGACCTCTAATATCGGTGCCAACGCCATGTCCTAAACATA
** * * *
64976427 GTCTTACGGGGGACCTCTTATCTCGGTGCCAACGCCATGTACC-AGACATA
1 GTCTTACATGGGACCTCTAATATCGGTGCCAACGCCATGT-CCTAAACATA
64976477 GTCTTACATGGGACC
1 GTCTTACATGGGACC
64976492 ACTCATAACC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 50 0.96
51 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
GTCTTACATGGGACCTCTAATATCGGTGCCAACGCCATGTCCTAAACATA
Found at i:64994409 original size:23 final size:23
Alignment explanation
Indices: 64994356--64994454 Score: 85
Period size: 23 Copynumber: 4.3 Consensus size: 23
64994346 AACATGGTTG
* *
64994356 CCAAACACAA-CTAATTTACCCT
1 CCAAACACAACCAAATATACCCT
*
64994378 CCAAACACAACCAAATATACGCT
1 CCAAACACAACCAAATATACCCT
* * *
64994401 TCAAACACAACTATATATATAACCT
1 CCAAACACAACCA-A-ATATACCCT
* *
64994426 CTGAAA-ACAACCAAGTATACCCT
1 C-CAAACACAACCAAATATACCCT
64994449 CCAAAC
1 CCAAAC
64994455 GTAACCAATA
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
22 13 0.22
23 28 0.47
24 2 0.03
25 13 0.22
26 3 0.05
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.19
Consensus pattern (23 bp):
CCAAACACAACCAAATATACCCT
Found at i:64995398 original size:345 final size:345
Alignment explanation
Indices: 64994767--64995456 Score: 1362
Period size: 345 Copynumber: 2.0 Consensus size: 345
64994757 AACACTTAGT
*
64994767 CATGGAACTTAGTATATATGATTAGGCTACCTAAGCTCCCCTTTAATGCTTTGATTTGTGCATAA
1 CATGGAACTTAGTATATATAATTAGGCTACCTAAGCTCCCCTTTAATGCTTTGATTTGTGCATAA
64994832 TTGTAGCACACCAAACCACTCACCTTGCAACCTTGACTTTAATGGCAAAAGCCCAAATAAGCATT
66 TTGTAGCACACCAAACCACTCACCTTGCAACCTTGACTTTAATGGCAAAAGCCCAAATAAGCATT
64994897 TGTTTGCCTTTTTCTTTGCATGTAAGACATCCCAACGAGTCTGACACTTTGCATTCACATTAAAT
131 TGTTTGCCTTTTTCTTTGCATGTAAGACATCCCAACGAGTCTGACACTTTGCATTCACATTAAAT
64994962 ACATTACAAACACATTATAAAGAACCTAAAACACATTTAAATCATATAAAAATGCATACCACAAA
196 ACATTACAAACACATTATAAAGAACCTAAAACACATTTAAATCATATAAAAATGCATACCACAAA
64995027 TCATCTATCATACATACTTAAAACTAGCTAGATTTGCCGAAAATGTGATTTCACCACACCAATCT
261 TCATCTATCATACATACTTAAAACTAGCTAGATTTGCCGAAAATGTGATTTCACCACACCAATCT
64995092 AGTGTGTAAACCTTAATTTC
326 AGTGTGTAAACCTTAATTTC
64995112 CATGGAACTTAGTATATATAATTAGGCTACCTAAGCTCCCCTTTAATGCTTTGATTTGTGCATAA
1 CATGGAACTTAGTATATATAATTAGGCTACCTAAGCTCCCCTTTAATGCTTTGATTTGTGCATAA
64995177 TTGTAGCACACCAAACCACTCACCTTGCAACCTTGACTTTAATGGCAAAAGCCCAAATAAGCATT
66 TTGTAGCACACCAAACCACTCACCTTGCAACCTTGACTTTAATGGCAAAAGCCCAAATAAGCATT
*
64995242 TGTTTGCCTTTTTCTTTGCATGTAGGACATCCCAACGAGTCTGACACTTTGCATTCACATTAAAT
131 TGTTTGCCTTTTTCTTTGCATGTAAGACATCCCAACGAGTCTGACACTTTGCATTCACATTAAAT
64995307 ACATTACAAACACATTATAAAGAACCTAAAACACATTTAAATCATATAAAAATGCATACCACAAA
196 ACATTACAAACACATTATAAAGAACCTAAAACACATTTAAATCATATAAAAATGCATACCACAAA
64995372 TCATCTATCATACATACTTAAAACTAGCTAGATTTGCCGAAAATGTGATTTCACCACACCAATCT
261 TCATCTATCATACATACTTAAAACTAGCTAGATTTGCCGAAAATGTGATTTCACCACACCAATCT
64995437 AGTGTGTAAACCTTAATTTC
326 AGTGTGTAAACCTTAATTTC
64995457 AATTCCAAAC
Statistics
Matches: 343, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
345 343 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (345 bp):
CATGGAACTTAGTATATATAATTAGGCTACCTAAGCTCCCCTTTAATGCTTTGATTTGTGCATAA
TTGTAGCACACCAAACCACTCACCTTGCAACCTTGACTTTAATGGCAAAAGCCCAAATAAGCATT
TGTTTGCCTTTTTCTTTGCATGTAAGACATCCCAACGAGTCTGACACTTTGCATTCACATTAAAT
ACATTACAAACACATTATAAAGAACCTAAAACACATTTAAATCATATAAAAATGCATACCACAAA
TCATCTATCATACATACTTAAAACTAGCTAGATTTGCCGAAAATGTGATTTCACCACACCAATCT
AGTGTGTAAACCTTAATTTC
Found at i:65005756 original size:106 final size:106
Alignment explanation
Indices: 65005566--65005773 Score: 362
Period size: 106 Copynumber: 2.0 Consensus size: 106
65005556 AAATGCATTA
*
65005566 TGTCACATTATGTTATCATAGCAACCCAGACAATATCAAATCGTTTAATCAAATAACTTGGCATT
1 TGTCACATTATGTTATCATAGCAACCCAGACAATATCAAATCATTTAATCAAATAACTTGGCATT
* *
65005631 TAGTCATAATACATTTCACACATTCACAATTATAAGCCTGG
66 CAGTCATAATACATTTCACACATACACAATTATAAGCCTGG
* * *
65005672 TGTCTCATTATGTTATCATAGCAACCCAGACTATATCAATTCATTTAATCAAATAACTTGGCATT
1 TGTCACATTATGTTATCATAGCAACCCAGACAATATCAAATCATTTAATCAAATAACTTGGCATT
65005737 CAGTCATAATACATTTCACACATACACAATTATAAGC
66 CAGTCATAATACATTTCACACATACACAATTATAAGC
65005774 ATAAACGTGA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (106 bp):
TGTCACATTATGTTATCATAGCAACCCAGACAATATCAAATCATTTAATCAAATAACTTGGCATT
CAGTCATAATACATTTCACACATACACAATTATAAGCCTGG
Found at i:65008007 original size:38 final size:38
Alignment explanation
Indices: 65007865--65008040 Score: 163
Period size: 38 Copynumber: 4.6 Consensus size: 38
65007855 ATACACTAGA
* * *
65007865 ACAAAGCCTGCTAGGCACAGAGCCCGAATAACACCAGA
1 ACAAAGCCTGCTAGGCACAGAGCCCGAATATCACCGGC
* ** * *
65007903 ACACAGCCTGCTAGGCACATTGCCCAAATATCACCTGC
1 ACAAAGCCTGCTAGGCACAGAGCCCGAATATCACCGGC
* ** * * ** *
65007941 ACAAATCCTATTAGACACATAGTTCGAATATCAACGGC
1 ACAAAGCCTGCTAGGCACAGAGCCCGAATATCACCGGC
* * * *
65007979 ACAAAGCCTACTAGGCATAGAGCCCGAATATTATCGGC
1 ACAAAGCCTGCTAGGCACAGAGCCCGAATATCACCGGC
*
65008017 ACAAAGCCTGCTAGGCACATAGCC
1 ACAAAGCCTGCTAGGCACAGAGCC
65008041 TAAATAACAT
Statistics
Matches: 108, Mismatches: 30, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
38 108 1.00
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.16
Consensus pattern (38 bp):
ACAAAGCCTGCTAGGCACAGAGCCCGAATATCACCGGC
Found at i:65011065 original size:42 final size:43
Alignment explanation
Indices: 65011010--65011107 Score: 155
Period size: 42 Copynumber: 2.3 Consensus size: 43
65011000 ATATGAACGA
*
65011010 CACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAA-TGGG
1 CACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACAGGG
* *
65011052 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACAGGG
1 CACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACAGGG
65011095 -ACTAAGTGTGCGA
1 CACTAAGTGTGCGA
65011108 TATCGAGAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 49 0.94
43 3 0.06
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (43 bp):
CACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACAGGG
Found at i:65014348 original size:71 final size:71
Alignment explanation
Indices: 65014270--65014425 Score: 231
Period size: 71 Copynumber: 2.2 Consensus size: 71
65014260 CACCATAGAC
* * *
65014270 AGTGTGGTGTGTTTAGAGTTTGTGAGCATATGTGCTACACTTACATGGAGATAGCGTACAACTTT
1 AGTGTGGTGTGTTTAGAGATTGTGAGCATACGTGCTACACTTACATGGAGATAGCGTACAACTTA
65014335 ATGAGT
66 ATGAGT
* * * * *
65014341 AGTGTGGTGTCTTTGGAGATTGTGAGCATACGTGCTAGACTTACATGGAGATAGTGTACGACTTA
1 AGTGTGGTGTGTTTAGAGATTGTGAGCATACGTGCTACACTTACATGGAGATAGCGTACAACTTA
65014406 ATGAGT
66 ATGAGT
*
65014412 TGTGTGGTGTGTTT
1 AGTGTGGTGTGTTT
65014426 TGGAGATTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.23, C:0.10, G:0.31, T:0.36
Consensus pattern (71 bp):
AGTGTGGTGTGTTTAGAGATTGTGAGCATACGTGCTACACTTACATGGAGATAGCGTACAACTTA
ATGAGT
Found at i:65017911 original size:39 final size:39
Alignment explanation
Indices: 65017794--65018094 Score: 398
Period size: 39 Copynumber: 7.6 Consensus size: 39
65017784 GCTCCTCGTT
* *
65017794 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
65017834 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
65017874 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
65017913 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
65017952 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
65017991 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
65018030 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
65018071 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
65018095 CATCATTCAA
Statistics
Matches: 241, Mismatches: 13, Indels: 15
0.90 0.05 0.06
Matches are distributed among these distances:
39 169 0.70
40 61 0.25
41 11 0.05
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:65025889 original size:27 final size:27
Alignment explanation
Indices: 65025859--65026036 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65025849 ATATTGAGTC
* * * *
65025859 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65025886 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65025913 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65025941 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65025968 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65025995 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65026022 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65026037 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65025998 original size:82 final size:81
Alignment explanation
Indices: 65025880--65026035 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65025870 TGCTATATAA
* *
65025880 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65025945 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65025962 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65026026 CACTTAGTGC
65 CACTTAGTGC
65026036 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65029594 original size:21 final size:21
Alignment explanation
Indices: 65029564--65029620 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
65029554 TGTGGAGGCC
**
65029564 CACACACCCGTGTGGTGGAGA
1 CACACACCCGTGTGAAGGAGA
**
65029585 CACATGCCCGTGTGAAGGAGA
1 CACACACCCGTGTGAAGGAGA
65029606 CACACACCCGTGTGA
1 CACACACCCGTGTGA
65029621 TCGAGTTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (21 bp):
CACACACCCGTGTGAAGGAGA
Found at i:65030322 original size:6 final size:7
Alignment explanation
Indices: 65030296--65030321 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
65030286 AGAGAAAGTA
65030296 AAAAAAT
1 AAAAAAT
65030303 AAAAAAT
1 AAAAAAT
65030310 AAAAAAT
1 AAAAAAT
65030317 AAAAA
1 AAAAA
65030322 TCTAATCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:65037250 original size:23 final size:23
Alignment explanation
Indices: 65037223--65037419 Score: 98
Period size: 23 Copynumber: 8.6 Consensus size: 23
65037213 ACAAGTATTT
*
65037223 TACCCTTCGAACACAACCAAATG
1 TACCCTTCGAACACAACCAAATA
* *
65037246 TACCCTCCTAACACAACCATATATA
1 TACCCTTCGAACACAACCA-A-ATA
* * * *
65037271 TAACCTCCTAACACAACCAAGTA
1 TACCCTTCGAACACAACCAAATA
* * *
65037294 TA-CCTTCCAAACACAGCCAAGT-
1 TACCCTT-CGAACACAACCAAATA
* * * * * *
65037316 TACCCTTTGAA-AAAAACTATTT
1 TACCCTTCGAACACAACCAAATA
*
65037338 TACCCTTCGAACACAACCAAATG
1 TACCCTTCGAACACAACCAAATA
* * *
65037361 TATCCTCCAAACACAACCATATATA
1 TACCCTTCGAACACAACCA-A-ATA
* * *
65037386 TAACCTCCTAACACAACC-AATA
1 TACCCTTCGAACACAACCAAATA
*
65037408 TACACTT-GAACA
1 TACCCTTCGAACA
65037420 TATCCACTTA
Statistics
Matches: 135, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
21 9 0.07
22 24 0.18
23 61 0.45
24 3 0.02
25 38 0.28
ACGTcount: A:0.41, C:0.32, G:0.05, T:0.22
Consensus pattern (23 bp):
TACCCTTCGAACACAACCAAATA
Found at i:65037374 original size:115 final size:112
Alignment explanation
Indices: 65037166--65037410 Score: 382
Period size: 115 Copynumber: 2.1 Consensus size: 112
65037156 TTACCGTCCA
* * * *
65037166 AACACAACCAAACATAGCCTCTAAACACAACCAAGTTACCCTTTGAAACAAGTATTTTACCCTTC
1 AACACAACC-AATATA-CCTCCAAACACAACCAAGTTACCCTTTGAAAAAACTATTTTACCCTTC
*
65037231 GAACACAACCAAATGTACCCTCCTAACACAACCATATATATAACCTCCT
64 GAACACAACCAAATGTACCCTCCAAACACAACCATATATATAACCTCCT
*
65037280 AACACAACCAAGTATACCTTCCAAACACAGCCAAGTTACCCTTTGAAAAAAACTATTTTACCCTT
1 AACACAACCAA-TATACC-TCCAAACACAACCAAGTTACCCTTTG-AAAAAACTATTTTACCCTT
*
65037345 CGAACACAACCAAATGTATCCTCCAAACACAACCATATATATAACCTCCT
63 CGAACACAACCAAATGTACCCTCCAAACACAACCATATATATAACCTCCT
65037395 AACACAACCAATATAC
1 AACACAACCAATATAC
65037411 ACTTGAACAT
Statistics
Matches: 121, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
113 4 0.03
114 41 0.34
115 76 0.63
ACGTcount: A:0.42, C:0.32, G:0.05, T:0.22
Consensus pattern (112 bp):
AACACAACCAATATACCTCCAAACACAACCAAGTTACCCTTTGAAAAAACTATTTTACCCTTCGA
ACACAACCAAATGTACCCTCCAAACACAACCATATATATAACCTCCT
Found at i:65040250 original size:11 final size:11
Alignment explanation
Indices: 65040234--65040258 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65040224 CCTTATGGAC
65040234 TAATTACTTCA
1 TAATTACTTCA
65040245 TAATTACTTCA
1 TAATTACTTCA
65040256 TAA
1 TAA
65040259 GTCCTCTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATTACTTCA
Found at i:65044071 original size:34 final size:36
Alignment explanation
Indices: 65044018--65044093 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
65044008 TAACATAATT
65044018 GATACATAACAACCATACC-ATTTTGGCCATTTAAA
1 GATACATAACAACCATACCAATTTTGGCCATTTAAA
*
65044053 GATACATTAAC-A-CATACCAATTTTGGTCATTT-AA
1 GATACA-TAACAACCATACCAATTTTGGCCATTTAAA
65044087 GA-ACATA
1 GATACATA
65044094 CACCAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 2 0.05
33 3 0.08
34 10 0.26
35 19 0.50
36 4 0.11
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (36 bp):
GATACATAACAACCATACCAATTTTGGCCATTTAAA
Found at i:65046273 original size:21 final size:22
Alignment explanation
Indices: 65046240--65046280 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
65046230 ACATTTTGTT
*
65046240 TTTTTTTTGTATTTTATTAACC
1 TTTTATTTGTATTTTATTAACC
65046262 TTTTATTT-TATTTTATTAA
1 TTTTATTTGTATTTTATTAA
65046281 ATAAATAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATTTGTATTTTATTAACC
Found at i:65050957 original size:40 final size:39
Alignment explanation
Indices: 65050900--65051206 Score: 296
Period size: 40 Copynumber: 7.8 Consensus size: 39
65050890 AATTATTGTA
* *
65050900 TGAATGCACATGCGTGCCCCTATTTGTACTTCGGTACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
65050939 GTAAATGCACATGCGTGCCCTTATTTGTACTTCGGTACACC
1 -TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTAC-CC
* * * *
65050980 TGAATGCACATAAGTGCCCCTGTTTCTGCCTCGGTATCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCC
* * *
65051020 TAAATGCACATACATG-CCCTGTTTGTACTTCGATACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
65051058 TTGAATGCACATACATGCCCATGTTTGTACTTCGGTACCC
1 -TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * * **
65051098 ATGAAGGCACATACGTACCCCTATTTGTACTTTGACATCCC
1 -TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCC
* **
65051139 TGAATGCACATACGTGCCCCTGGTTGTAC-TCGGTACTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
65051177 TGAATGCACTTTA-GTGCCCCTGTTTATACT
1 TGAATGCAC-ATACGTGCCCCTGTTTGTACT
65051207 CCGATAACTC
Statistics
Matches: 219, Mismatches: 41, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
38 27 0.12
39 35 0.16
40 151 0.69
41 6 0.03
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.32
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:65051077 original size:119 final size:120
Alignment explanation
Indices: 65050902--65051185 Score: 324
Period size: 119 Copynumber: 2.4 Consensus size: 120
65050892 TTATTGTATG
* * * * * * *
65050902 AATGCACATGCGTGCCCCTATTTGTACTTCGGTACCCGTAAATGCACATGCGTGCCCTTATTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATGCACATACATGCCCATATTTGT
* * * * **
65050967 ACTTCGGTACACC-TGAATGCACATAAGTGCCCCTGTTTCTGCCTCGGTATCCCTA
66 ACTTCGGTAC-CCATGAAGGCACATAAGTACCCCTATTTCTACCTCGACATCCCTA
* * *
65051022 AATGCACATACATG-CCCTGTTTGTACTTCGATACCCTTGAATGCACATACATGCCCATGTTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATGCACATACATGCCCATATTTGT
* * * * *
65051086 ACTTCGGTACCCATGAAGGCACATACGTACCCCTATTTGTACTTTGACATCCCTG
66 ACTTCGGTACCCATGAAGGCACATAAGTACCCCTATTTCTACCTCGACATCCCTA
* *
65051141 AATGCACATACGTGCCCCTGGTTGTAC-TCGGTA-CTTTGAATGCAC
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATGCAC
65051186 TTTAGTGCCC
Statistics
Matches: 137, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
118 13 0.09
119 101 0.74
120 23 0.17
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (120 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGAATGCACATACATGCCCATATTTGT
ACTTCGGTACCCATGAAGGCACATAAGTACCCCTATTTCTACCTCGACATCCCTA
Found at i:65059338 original size:56 final size:56
Alignment explanation
Indices: 65059276--65059421 Score: 181
Period size: 56 Copynumber: 2.6 Consensus size: 56
65059266 TTGGCGCTAC
*
65059276 GTGTGCGGGTTTAAAT-TGTGCAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAA
1 GTGTGCGAGTTTAAATATGT--AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAA
* * *
65059332 GTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAA
1 GTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAGATTGACTATGTAGCACTAA
* * * *
65059388 GTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 GTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCG
65059422 GACTTAATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
55 38 0.47
56 40 0.49
57 3 0.04
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.32
Consensus pattern (56 bp):
GTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAGATTGACTATGTAGCACTAA
Found at i:65059354 original size:28 final size:28
Alignment explanation
Indices: 65059297--65059421 Score: 200
Period size: 28 Copynumber: 4.5 Consensus size: 28
65059287 TAAATTGTGC
*
65059297 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
65059324 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
65059352 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
65059380 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
65059407 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65059422 GACTTAATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 38 0.41
28 55 0.59
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:65059361 original size:55 final size:55
Alignment explanation
Indices: 65059297--65059421 Score: 198
Period size: 55 Copynumber: 2.3 Consensus size: 55
65059287 TAAATTGTGC
*
65059297 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATAT
* *
65059352 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
*
65059407 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65059422 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
55 38 0.58
56 27 0.42
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:65064823 original size:16 final size:16
Alignment explanation
Indices: 65064802--65064875 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 16
65064792 CCACGAATGC
65064802 ATTCATAAGGACTCAT
1 ATTCATAAGGACTCAT
65064818 ATTCATTATGAGGACTCAT
1 ATTCA-TA--AGGACTCAT
* ** * *
65064837 ATTTATTTTGG-CTGACC
1 ATTCA-TAAGGACTCA-T
65064854 ATTCATAAGGACTCAT
1 ATTCATAAGGACTCAT
65064870 ATTCAT
1 ATTCAT
65064876 TTTGTAAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
16 17 0.40
17 11 0.26
19 15 0.35
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (16 bp):
ATTCATAAGGACTCAT
Found at i:65068628 original size:40 final size:40
Alignment explanation
Indices: 65068584--65068738 Score: 220
Period size: 40 Copynumber: 3.9 Consensus size: 40
65068574 TTATTGTATG
* * *
65068584 AATGCACATACGTGCCCTTGTTTGTACTTCGATTCCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
65068624 AATGCACATACGCGCCCCTGTTTGTACTTTGGTACCCTTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* *
65068664 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* *
65068704 AATGCACATACGTGCCCCTGGTTGTACTTCAGTAC
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTAC
65068739 TTTGAATGCA
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:65070334 original size:260 final size:262
Alignment explanation
Indices: 65069846--65070368 Score: 906
Period size: 260 Copynumber: 2.0 Consensus size: 262
65069836 AGATGCCGCA
*
65069846 GATGTTATCACTAGTATGTTTTTCATTAATATTGTTCCATACTTTGCATTGACAAACATAGGATC
1 GATGTTATCACTAGTATGTTTTTCATTAATATTGTTCCATACTTTGCATTAACAAACATAGGATC
*
65069911 AACACATTTCTATATAGCTAGCTTCGTTTCTATCAACTTAGGTATTTTTGTTAAGAACACTTCTG
66 AACACATTCCTATATAGCTAGCTTCGTTTCTATCAACTTAGGTATTTTTGTTAAGAACACTTCTG
* *
65069976 GTGAGCTTACTATCATTAGTCCACTGGGTCAGTCAGTTCGGGTTGATAGGATTTATAGGAGTGAC
131 GTGAGCTTACTATCATCAGTCCACTGGGTCAATCAGTTCGGGTTGATAGGATTTATAGGAGTGAC
65070041 AGCCCATTTTCAGTGAAATCAGAACAATGGTTTCAAGACCACAATTTTGATGAGTAAATTATTAT
196 AGCCCATTTTCAGTGAAATCAGAACAATGGTTTCAAGACCACAATTTTGATGAGTAAATTATTAT
65070106 TT
261 TT
* *
65070108 GATGTTATCACTGGTATGTTTTTCATTAATATTGTTCCGTACTTTGCATTAACAAACATAGGATC
1 GATGTTATCACTAGTATGTTTTTCATTAATATTGTTCCATACTTTGCATTAACAAACATAGGATC
* * *
65070173 AACACATTCCTATATAGCTAGCTTTGTTTCTGTCAACTTAGGTATTTTT-TT-AGAGCACTTCTG
66 AACACATTCCTATATAGCTAGCTTCGTTTCTATCAACTTAGGTATTTTTGTTAAGAACACTTCTG
* *
65070236 GTGAGGTTACTATCATCAGTCCACTGGGTCAATCAGTTCGGGTTGATAGGATTTATAGGTGTGAC
131 GTGAGCTTACTATCATCAGTCCACTGGGTCAATCAGTTCGGGTTGATAGGATTTATAGGAGTGAC
* * *
65070301 AGCCCATTTTCAGTGAAATCAGAACCATGGTTTCAAGACCATAATTTTGATGTGTAAATTATTAT
196 AGCCCATTTTCAGTGAAATCAGAACAATGGTTTCAAGACCACAATTTTGATGAGTAAATTATTAT
65070366 TT
261 TT
65070368 G
1 G
65070369 TTTATTATTT
Statistics
Matches: 247, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
260 137 0.55
261 2 0.01
262 108 0.44
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (262 bp):
GATGTTATCACTAGTATGTTTTTCATTAATATTGTTCCATACTTTGCATTAACAAACATAGGATC
AACACATTCCTATATAGCTAGCTTCGTTTCTATCAACTTAGGTATTTTTGTTAAGAACACTTCTG
GTGAGCTTACTATCATCAGTCCACTGGGTCAATCAGTTCGGGTTGATAGGATTTATAGGAGTGAC
AGCCCATTTTCAGTGAAATCAGAACAATGGTTTCAAGACCACAATTTTGATGAGTAAATTATTAT
TT
Found at i:65072894 original size:50 final size:50
Alignment explanation
Indices: 65072791--65072983 Score: 210
Period size: 50 Copynumber: 3.7 Consensus size: 50
65072781 GGGAATGAGA
*
65072791 TCCCATGTAAGACCATGTCTAGGG-CATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
*
65072847 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * **
65072897 TTCCC-CGTAAGACCATGTCTGGGACATGACATGGGCACCGATATGAGAAC
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
65072947 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
65072984 GTACAGAAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 4 0.03
50 73 0.61
51 4 0.03
53 3 0.03
55 4 0.03
56 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:65082055 original size:24 final size:24
Alignment explanation
Indices: 65082028--65082073 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
65082018 GTTTAAGTTA
65082028 AATAAAAGAAATCAAATTAAAACT
1 AATAAAAGAAATCAAATTAAAACT
**
65082052 AATAATTGAAATCAAATTAAAA
1 AATAAAAGAAATCAAATTAAAA
65082074 TAACACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (24 bp):
AATAAAAGAAATCAAATTAAAACT
Found at i:65088151 original size:13 final size:13
Alignment explanation
Indices: 65088133--65088178 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
65088123 GTTAACACTT
65088133 TGAAATGGCTATA
1 TGAAATGGCTATA
65088146 TGAAATGGCTATA
1 TGAAATGGCTATA
* *
65088159 TGAATTGGTTATA
1 TGAAATGGCTATA
65088172 TGGAAAT
1 T-GAAAT
65088179 AATTATATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 25 0.86
14 4 0.14
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (13 bp):
TGAAATGGCTATA
Found at i:65088185 original size:27 final size:26
Alignment explanation
Indices: 65088155--65088216 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
65088145 ATGAAATGGC
*
65088155 TATATGAATTGGTTATATGGAAATAAT
1 TATATGAATTGGTTATACGG-AATAAT
* * **
65088182 TATATGAAGTGTTTATACGGAATGTT
1 TATATGAATTGGTTATACGGAATAAT
65088208 TATATGAAT
1 TATATGAAT
65088217 AAATATGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (26 bp):
TATATGAATTGGTTATACGGAATAAT
Found at i:65093661 original size:37 final size:37
Alignment explanation
Indices: 65093611--65093689 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
65093601 TTATTATGAA
* *
65093611 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTCT-CACACGAAGTCATCGG
*
65093648 GTCTTACCCGGACAAAATTCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
65093685 GTCTT
1 GTCTT
65093690 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
Found at i:65093886 original size:47 final size:47
Alignment explanation
Indices: 65093808--65094238 Score: 682
Period size: 47 Copynumber: 9.1 Consensus size: 47
65093798 CCCTTCGGGA
* * * * * * *
65093808 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
65093855 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65093902 CTTATCACATATATACATTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65093949 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65093996 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65094043 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65094090 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65094137 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65094186 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65094235 CTTA
1 CTTA
65094239 CTATCATTTC
Statistics
Matches: 359, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 267 0.74
49 92 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65107760 original size:47 final size:47
Alignment explanation
Indices: 65107695--65107795 Score: 186
Period size: 47 Copynumber: 2.2 Consensus size: 47
65107685 TTTCTTTATT
*
65107695 CTTTTC-TCCCTATTTCCTATTTTTTCTTAATGTGAGCTGAATTCAA
1 CTTTTCTTCCCTATTTCCTATTTTTTCTTAATGTGAGCAGAATTCAA
65107741 CTTTTCTTCCCTATTTCCTATTTTTTCTTAATGTGAGCAGAATTCAA
1 CTTTTCTTCCCTATTTCCTATTTTTTCTTAATGTGAGCAGAATTCAA
65107788 CTTTTCTT
1 CTTTTCTT
65107796 TCTCCGCCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 6 0.11
47 47 0.89
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (47 bp):
CTTTTCTTCCCTATTTCCTATTTTTTCTTAATGTGAGCAGAATTCAA
Found at i:65109091 original size:27 final size:26
Alignment explanation
Indices: 65109036--65109151 Score: 90
Period size: 27 Copynumber: 4.4 Consensus size: 26
65109026 CCTAATATTT
*
65109036 GTAAAATGACCTTAATACCCTATAGG
1 GTAAAATGACCGTAATACCCTATAGG
* * *
65109062 GTAAATTGACCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATA-CCCTATAGG
* * ** * *
65109089 GTAAAACGATCAAAAAACCCCCATAGG
1 GTAAAATGACCGTAATA-CCCTATAGG
* *
65109116 GTAAAATGACCGTAATGCCCCTAGAGG
1 GTAAAATGACCGTAAT-ACCCTATAGG
65109143 GT-AAATGAC
1 GTAAAATGAC
65109152 TATTTTACCC
Statistics
Matches: 67, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
26 22 0.33
27 45 0.67
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (26 bp):
GTAAAATGACCGTAATACCCTATAGG
Found at i:65109199 original size:24 final size:24
Alignment explanation
Indices: 65109168--65109226 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
65109158 ACCCCTCGAG
*
65109168 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGACTGATTTGTCCGTGA
*
65109192 TGTAAATGACTGATTTGTCTGTGA
1 TGTAAATGACTGATTTGTCCGTGA
*
65109216 TTTAAATGACT
1 TGTAAATGACT
65109227 TATTCTAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (24 bp):
TGTAAATGACTGATTTGTCCGTGA
Found at i:65109335 original size:27 final size:27
Alignment explanation
Indices: 65109299--65109364 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
65109289 GGAAGTATTG
*
65109299 TACTGATGGCTCT-GCCACA-ATCACTAT
1 TACTGGTGGCT-TAGCCACATAT-ACTAT
65109326 TACTGGTGGCTTAGCCACATATACTAT
1 TACTGGTGGCTTAGCCACATATACTAT
* *
65109353 TATTGGTAGCTT
1 TACTGGTGGCTT
65109365 TGCTGCGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.91
28 2 0.06
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
TACTGGTGGCTTAGCCACATATACTAT
Found at i:65109480 original size:31 final size:32
Alignment explanation
Indices: 65109399--65109481 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
65109389 TTTGCTGTGA
* * *
65109399 GCTACTAATAGCTTTGTGCCGGTCATATTATC
1 GCTACTGATGGCTTTGTGCCGGTCATATCATC
* *
65109431 GTTACTGATGGCTGTGTGCCGGTCATATCA-C
1 GCTACTGATGGCTTTGTGCCGGTCATATCATC
*
65109462 TGCTA-TGATGGGTTTGTGCC
1 -GCTACTGATGGCTTTGTGCC
65109482 AATCATATTG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 14 0.33
32 28 0.67
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (32 bp):
GCTACTGATGGCTTTGTGCCGGTCATATCATC
Found at i:65109853 original size:33 final size:32
Alignment explanation
Indices: 65109778--65109854 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 32
65109768 TCTGTTTCTA
*
65109778 ATTCTGATACTGTATGGGCTAAGGCCCACACT
1 ATTCTGTTACTGTATGGGCTAAGGCCCACACT
** * * *
65109810 ACACTTTTACTGTTTTGGGCTAAGGCCCACATT
1 ATTCTGTTACTG-TATGGGCTAAGGCCCACACT
*
65109843 GTTCTGTTACTG
1 ATTCTGTTACTG
65109855 AAAAGGGCTC
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (32 bp):
ATTCTGTTACTGTATGGGCTAAGGCCCACACT
Found at i:65115510 original size:109 final size:109
Alignment explanation
Indices: 65114934--65115466 Score: 1039
Period size: 109 Copynumber: 4.9 Consensus size: 109
65114924 AAGTAAAAAC
65114934 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
1 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
65114999 CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
66 CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
65115043 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
1 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
65115108 CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
66 CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
* * *
65115152 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGGAATTGGAATTGTTTTATAT
1 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
65115217 CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
66 CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
65115261 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
1 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
65115326 CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
66 CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
65115370 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
1 ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
65115435 CAATAAAATATAATTAATATAGATAATAAAGT
66 CAATAAAATATAATTAATATAGATAATAAAGT
65115467 AATTACCATG
Statistics
Matches: 418, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 418 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (109 bp):
ATATATTATAAGACATCTAAAAAGTATTTATGATCAAATTAAATGAAACTGCAATTGTTTTATAT
CAATAAAATATAATTAATATAGATAATAAAGTTGACGTACAAAT
Found at i:65115762 original size:25 final size:25
Alignment explanation
Indices: 65115725--65115773 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
65115715 TCTCTCTCTC
65115725 TTTTTTTTCTTCTCTTTTTCCTTCG
1 TTTTTTTTCTTCTCTTTTTCCTTCG
65115750 TTTTTCTTT-TTCTCTTTTTCCTTC
1 TTTTT-TTTCTTCTCTTTTTCCTTC
65115774 ACCCCACGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTTTTTCTTCTCTTTTTCCTTCG
Found at i:65116117 original size:5 final size:5
Alignment explanation
Indices: 65116102--65116148 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
65116092 CATTATTTGC
* *
65116102 TTATA TCATA TTATA TTATA TTTTAA TTATA TT-TA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA TTATA TT
65116149 TACACATCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 4 0.11
5 28 0.78
6 4 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:65122415 original size:30 final size:31
Alignment explanation
Indices: 65122358--65122424 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 31
65122348 TTACAAGTTG
**
65122358 GTCACTAAACTATTCGAAATTTTTTATTTAA
1 GTCACTAAACTATTCGAAAAGTTTTATTTAA
65122389 GTCACTAAACTATTC-AAAAGTTTTATTTAA
1 GTCACTAAACTATTCGAAAAGTTTTATTTAA
65122419 GTCACT
1 GTCACT
65122425 GGGTTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (31 bp):
GTCACTAAACTATTCGAAAAGTTTTATTTAA
Found at i:65123083 original size:22 final size:22
Alignment explanation
Indices: 65123057--65123100 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
65123047 ACAAAGCCTA
65123057 ATATTAAATAATGCTAAAATAT
1 ATATTAAATAATGCTAAAATAT
65123079 ATATTAAATAATGCTAAAATAT
1 ATATTAAATAATGCTAAAATAT
65123101 GATGTTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
ATATTAAATAATGCTAAAATAT
Found at i:65124530 original size:36 final size:36
Alignment explanation
Indices: 65124482--65124662 Score: 117
Period size: 36 Copynumber: 5.0 Consensus size: 36
65124472 TTAAATAGCC
*
65124482 TATATTTAAGTGTATTAAGGTATGTAAATGGTAGAA
1 TATATTAAAGTGTATTAAGGTATGTAAATGGTAGAA
* * * **
65124518 TATA-TAAGAGTG---TAAGTTTTGGTAATTTGAGTAGCT
1 TATATTAA-AGTGTATTAAGGTAT-GTAA-ATG-GTAGAA
*
65124554 TATATTTAAGTGTATTAAGGTATGTAAATGGTAGAA
1 TATATTAAAGTGTATTAAGGTATGTAAATGGTAGAA
* * * **
65124590 TATA-TAAGAGTG---TAAGTTTTGGTAATTTGAGTAGCT
1 TATATTAA-AGTGTATTAAGGTAT-GTAA-ATG-GTAGAA
*
65124626 TATATTTAAGTGTATTAAGGTATGTAAATGGTAGAA
1 TATATTAAAGTGTATTAAGGTATGTAAATGGTAGAA
65124662 T
1 T
65124663 TGTTGTGATG
Statistics
Matches: 105, Mismatches: 24, Indels: 32
0.65 0.15 0.20
Matches are distributed among these distances:
33 12 0.11
34 8 0.08
35 8 0.08
36 49 0.47
37 8 0.08
38 8 0.08
39 12 0.11
ACGTcount: A:0.35, C:0.01, G:0.23, T:0.40
Consensus pattern (36 bp):
TATATTAAAGTGTATTAAGGTATGTAAATGGTAGAA
Found at i:65124568 original size:72 final size:72
Alignment explanation
Indices: 65124462--65124662 Score: 366
Period size: 72 Copynumber: 2.8 Consensus size: 72
65124452 TGTAATTGAA
* * * *
65124462 TTTTGGTCATTTAAATAGCCTATATTTAAGTGTATTAAGGTATGTAAATGGTAGAATATATAAGA
1 TTTTGGTAATTTGAGTAGCTTATATTTAAGTGTATTAAGGTATGTAAATGGTAGAATATATAAGA
65124527 GTGTAAG
66 GTGTAAG
65124534 TTTTGGTAATTTGAGTAGCTTATATTTAAGTGTATTAAGGTATGTAAATGGTAGAATATATAAGA
1 TTTTGGTAATTTGAGTAGCTTATATTTAAGTGTATTAAGGTATGTAAATGGTAGAATATATAAGA
65124599 GTGTAAG
66 GTGTAAG
65124606 TTTTGGTAATTTGAGTAGCTTATATTTAAGTGTATTAAGGTATGTAAATGGTAGAAT
1 TTTTGGTAATTTGAGTAGCTTATATTTAAGTGTATTAAGGTATGTAAATGGTAGAAT
65124663 TGTTGTGATG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 125 1.00
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.41
Consensus pattern (72 bp):
TTTTGGTAATTTGAGTAGCTTATATTTAAGTGTATTAAGGTATGTAAATGGTAGAATATATAAGA
GTGTAAG
Found at i:65125990 original size:24 final size:24
Alignment explanation
Indices: 65125962--65126017 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
65125952 TATAAAACTT
*
65125962 ATAAACAATTTT-TGTAAAAATTAA
1 ATAAA-AATTTTATATAAAAATTAA
* *
65125986 ATAAAAATTTTATATTAATATTAA
1 ATAAAAATTTTATATAAAAATTAA
65126010 ATAAAAAT
1 ATAAAAAT
65126018 AATTATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATAAAAATTTTATATAAAAATTAA
Found at i:65126032 original size:24 final size:23
Alignment explanation
Indices: 65125979--65126033 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
65125969 ATTTTTGTAA
*
65125979 AAATTAAATAAAAATTTTATATT
1 AAATTAAATAAAAATATTATATT
65126002 AATATTAAATAAAAATAATTATATT
1 AA-ATTAAATAAAAAT-ATTATATT
65126027 AAATTAA
1 AAATTAA
65126034 TTTTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 18 0.62
25 9 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTAAATAAAAATATTATATT
Found at i:65129698 original size:20 final size:21
Alignment explanation
Indices: 65129675--65129714 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
65129665 TTTTCGTTGG
65129675 GCTTA-AAATATAAAA-AAAAT
1 GCTTATAAAT-TAAAACAAAAT
65129695 GCTTATAAATTAAAACAAAA
1 GCTTATAAATTAAAACAAAA
65129715 CCTATTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.25
Consensus pattern (21 bp):
GCTTATAAATTAAAACAAAAT
Found at i:65129920 original size:19 final size:19
Alignment explanation
Indices: 65129896--65129981 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 19
65129886 CTTTTTTTAA
65129896 ATAAAAATTATTAAAAAAT
1 ATAAAAATTATTAAAAAAT
*
65129915 ATAAAAATTGA--AAAAAAC
1 ATAAAAATT-ATTAAAAAAT
** *
65129933 ATAAAAAAACATAAAAAAAT
1 AT-AAAAATTATTAAAAAAT
*
65129953 ATTTTAAAAATTATTAAAAATT
1 A---TAAAAATTATTAAAAAAT
65129975 ATAAAAA
1 ATAAAAA
65129982 GTTGTAAACA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
18 9 0.17
19 20 0.38
20 8 0.15
22 14 0.27
23 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (19 bp):
ATAAAAATTATTAAAAAAT
Found at i:65130248 original size:12 final size:13
Alignment explanation
Indices: 65130231--65130259 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
65130221 GTTTAATAGT
65130231 AAAAACAAAA-AA
1 AAAAACAAAACAA
65130243 AAAAACAAAACAA
1 AAAAACAAAACAA
65130256 AAAA
1 AAAA
65130260 TACACAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAACAA
Found at i:65133705 original size:109 final size:109
Alignment explanation
Indices: 65133511--65133817 Score: 476
Period size: 110 Copynumber: 2.8 Consensus size: 109
65133501 AAAATTCAAG
* * * * *
65133511 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACGTTCCTCG
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACTTTTCTCG
**
65133574 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAA-TTTTTGGA
66 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
*
65133617 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACTCAGCACATTAGGGCACATTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCAC-TTTTCTC
*
65133682 GAATTGCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
65 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
*
65133727 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCAC-TTTTCTC
*
65133792 GGATTTCCAAACGCAAAACATTGCCT
65 GAATTTCCAAACGCAAAACATTGCCT
65133818 CAATTAGAAA
Statistics
Matches: 183, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
106 25 0.14
108 26 0.14
109 40 0.22
110 92 0.50
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (109 bp):
AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACTTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
Found at i:65133911 original size:17 final size:17
Alignment explanation
Indices: 65133868--65133914 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
65133858 TGCATAATGG
*
65133868 AATAATAAATAAAATAAT
1 AATAATAAA-AAAAGAAT
*
65133886 -ATGAGTAAAAAAAGAAT
1 AAT-AATAAAAAAAGAAT
65133903 AATAATAAAAAA
1 AATAATAAAAAA
65133915 GAACAAATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AATAATAAAAAAAGAAT
Found at i:65134350 original size:3 final size:3
Alignment explanation
Indices: 65134342--65134401 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
65134332 ATATTATCAC
* *
65134342 AAT AAT AAT GAAT AAAT AA- AAT AAA AAT AA- AACT AAT AAT GAT CAAT
1 AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT
65134389 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
65134402 TGAAATTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
2 4 0.09
3 33 0.70
4 10 0.21
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:65153900 original size:21 final size:21
Alignment explanation
Indices: 65153860--65153920 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
65153850 AACAAGTAAG
*
65153860 GAAAAATAAAAAG-G-AGAAGA
1 GAAAAAT-AAAAGTGAAAAAGA
65153880 GAAAAATAAAAGTGAAAAAGA
1 GAAAAATAAAAGTGAAAAAGA
65153901 -AGAAAATAAAAGTGAAAAAG
1 GA-AAAATAAAAGTGAAAAAG
65153921 GCGAAAGGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 5 0.14
20 9 0.24
21 23 0.62
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.08
Consensus pattern (21 bp):
GAAAAATAAAAGTGAAAAAGA
Found at i:65159789 original size:12 final size:12
Alignment explanation
Indices: 65159772--65159796 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65159762 TCTCTTATTC
65159772 TTCTTTTTTTTT
1 TTCTTTTTTTTT
65159784 TTCTTTTTTTTT
1 TTCTTTTTTTTT
65159796 T
1 T
65159797 CATTTTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:65172031 original size:18 final size:18
Alignment explanation
Indices: 65172002--65172049 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
65171992 AAAAAGACGT
*
65172002 TTTGAAATTGAATAACGA
1 TTTGAAAATGAATAACGA
* * *
65172020 TTTGTAAATGAATAATGT
1 TTTGAAAATGAATAACGA
65172038 TTTGAAAATGAA
1 TTTGAAAATGAA
65172050 CGACGGGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGAAAATGAATAACGA
Found at i:65179059 original size:6 final size:6
Alignment explanation
Indices: 65179048--65179074 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
65179038 CTTTTCTACC
65179048 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
65179075 GGGTAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:65180216 original size:281 final size:279
Alignment explanation
Indices: 65179708--65180570 Score: 1153
Period size: 281 Copynumber: 3.0 Consensus size: 279
65179698 GAATTATAAA
*
65179708 AACTTTTACCATCAACGGCCTATCTACATGATTTTCCTGATAATTATGAAAAAAAAAGAGAAAAA
1 AACTTCTACCATCAAC-GCCTATCTACATGATTTTCCTGATAATTATGAAAAAAAAAGAGAAAAA
* *
65179773 AATTCTATTTGCTTTCCACTATTGATGAGCACATTCAATCACATCAACTA-TTTCATATTGTTTT
65 AATTCTATTTGTTTTCCACTATTGATGAGCACCTTCAATCACATCAACTACTTT-ATATTGTTTT
65179837 ACTCACAAATTA-TTTTACAATTTTTTTTCTCAAAGCCTTAAAAGCTCTAGCAAAATGCATCTCA
129 ACTCACAAA-TAGTTTTACAATTTTTTTTCTCAAAGCCTTAAAAGCTCTAGCAAAATGCATCTCA
* * *
65179901 ATGTAAGGTTTGTATTTCACTATTTAACCAATTGTTGTTGCTTGAAGTTTCAAGAAGC-AAATCT
193 ATGTAAGG-TTGTATTTCACTATTAAACCAATTGTTGTTGCTTGAATTTTCAAGAAACAAAATCT
65179965 AAGCTTGCAACATTACTTTGATT
257 AAGCTTGCAACATTACTTTGATT
* *
65179988 AACTTCTACCATCAACGCCCTACCTACATGATTTTCCTGTTAATTATGAAAAAAACAA-A-AAGA
1 AACTTCTACCATCAACG-CCTATCTACATGATTTTCCTGATAATTATGAAAAAAA-AAGAGAA-A
* *
65180051 AAAACTTCTATTTGTTTTCCACTATTGAAGAGAACCTTCAATCACATCAACTACTTTATATTGTT
63 AAAA-TTCTATTTGTTTTCCACTATTGATGAGCACCTTCAATCACATCAACTACTTTATATTGTT
** *
65180116 TTACTCACAAATAGTTTTACGGTTTTTTTTCTCAAAGCCTTAAAAGCTCTAGCAAAATGCGTCTC
127 TTACTCACAAATAGTTTTACAATTTTTTTTCTCAAAGCCTTAAAAGCTCTAGCAAAATGCATCTC
* *
65180181 AATGTAAGGCTTGTATTTGATTATTAAACCAATTGTTGCTT-CTTGAATTTTCAAGAAACAAAAT
192 AATGTAAGG-TTGTATTTCACTATTAAACCAATTGTTG-TTGCTTGAATTTTCAAGAAACAAAAT
*
65180245 CTATGCTTGCAACATTACTTTGATTCTTGAGAATCAT
255 CTAAGCTTGCAACATTAC------T-TT--G-AT--T
*
65180282 AAAAACTTCTACCATCAACAGCCTATCTACATGATTTTCTTGATAATTATGAAAAAAATAATAGA
1 ---AACTTCTACCATCAAC-GCCTATCTACATGATTTTCCTGATAATTATG-AAAAAA-AA-AGA
* * *
65180347 AAAAAAAATTCTATTTGTTTTCCACTATTGATGAGCACCTTCAATGACATCAACTACTTCATATT
59 GAAAAAAATTCTATTTGTTTTCCACTATTGATGAGCACCTTCAATCACATCAACTACTTTATATT
* * *
65180412 GTTTTACTCACAAATTGTTTTACAACTTTTTTTTCGCAAAGCCTTAATAGCTCTAGCAAAATGCA
124 GTTTTACTCACAAATAGTTTTACAA-TTTTTTTTCTCAAAGCCTTAAAAGCTCTAGCAAAATGCA
* * * * *
65180477 TCTCAATGAAAGGTCTGTATTTCACCATTAAACCAATTATTGCTGCTTGAATTTTCAAGAAACGA
188 TCTCAATGTAAGGT-TGTATTTCACTATTAAACCAATTGTTGTTGCTTGAATTTTCAAGAAACAA
65180542 AATCTAAGCTTGCAACATTACTTTGATT
252 AATCTAAGCTTGCAACATTACTTTGATT
65180570 A
1 A
65180571 TTGAGAATCA
Statistics
Matches: 513, Mismatches: 38, Indels: 59
0.84 0.06 0.10
Matches are distributed among these distances:
279 3 0.01
280 58 0.11
281 163 0.32
282 26 0.05
285 1 0.00
288 2 0.00
289 2 0.00
290 2 0.00
291 2 0.00
292 2 0.00
293 2 0.00
294 2 0.00
297 43 0.08
298 8 0.02
299 79 0.15
300 116 0.23
301 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (279 bp):
AACTTCTACCATCAACGCCTATCTACATGATTTTCCTGATAATTATGAAAAAAAAAGAGAAAAAA
ATTCTATTTGTTTTCCACTATTGATGAGCACCTTCAATCACATCAACTACTTTATATTGTTTTAC
TCACAAATAGTTTTACAATTTTTTTTCTCAAAGCCTTAAAAGCTCTAGCAAAATGCATCTCAATG
TAAGGTTGTATTTCACTATTAAACCAATTGTTGTTGCTTGAATTTTCAAGAAACAAAATCTAAGC
TTGCAACATTACTTTGATT
Found at i:65180650 original size:300 final size:298
Alignment explanation
Indices: 65179988--65180639 Score: 986
Period size: 300 Copynumber: 2.2 Consensus size: 298
65179978 TACTTTGATT
* * * * *
65179988 AACTTCTACCATCAACGCCCTACCTACATGATTTTCCTGTTAATTATGAAAAAAACAAA-AAGAA
1 AACTTCTACCATCAAAGGCCTATCTACATGATTTTCCTGATAATTATGAAAAAAACAAAGAAAAA
* *
65180052 AAACTTCTATTTGTTTTCCACTATTGAAGAGAACCTTCAATCACATCAACTACTTTATATTGTTT
66 AAAATTCTATTTGTTTTCCACTATTGAAGAGAACCTTCAATCACATCAACTACTTCATATTGTTT
** * *
65180117 TACTCACAAATAGTTTTACGGTTTTTTTTCTCAAAGCCTTAAAAGCTCTAGCAAAATGCGTCTCA
131 TACTCACAAATAGTTTTACACTTTTTTTTCGCAAAGCCTTAAAAGCTCTAGCAAAATGCATCTCA
* * ** * *
65180182 ATGTAAGGCTTGTATTTGATTATTAAACCAATTGTTGCTTCTTGAATTTTCAAGAAACAAAATCT
196 ATGAAAGGCTTGTATTTCACCATTAAACCAATTATTGCTGCTTGAATTTTCAAGAAACAAAATCT
* *
65180247 ATGCTTGCAACATTACTTTGATTCTTGAGAATCATAAA
261 AAGCTTGCAACATTACTTTGATTATTGAGAATCATAAA
* *
65180285 AACTTCTACCATCAACA-GCCTATCTACATGATTTTCTTGATAATTATGAAAAAAATAATAGAAA
1 AACTTCTACCATCAA-AGGCCTATCTACATGATTTTCCTGATAATTATGAAAAAAACAA-AGAAA
* * *
65180349 AAAAAATTCTATTTGTTTTCCACTATTGATGAGCACCTTCAATGACATCAACTACTTCATATTGT
64 AAAAAATTCTATTTGTTTTCCACTATTGAAGAGAACCTTCAATCACATCAACTACTTCATATTGT
* *
65180414 TTTACTCACAAATTGTTTTACAACTTTTTTTTCGCAAAGCCTTAATAGCTCTAGCAAAATGCATC
129 TTTACTCACAAATAGTTTTAC-ACTTTTTTTTCGCAAAGCCTTAAAAGCTCTAGCAAAATGCATC
*
65180479 TCAATGAAAGG-TCTGTATTTCACCATTAAACCAATTATTGCTGCTTGAATTTTCAAGAAACGAA
193 TCAATGAAAGGCT-TGTATTTCACCATTAAACCAATTATTGCTGCTTGAATTTTCAAGAAACAAA
65180543 ATCTAAGCTTGCAACATTACTTTGATTATTGAGAATCATAAA
257 ATCTAAGCTTGCAACATTACTTTGATTATTGAGAATCATAAA
* *
65180585 AACTTCTATCATCAAAGGCCTATCTACATGATTTTCCTAATAATTATGAAAAAAA
1 AACTTCTACCATCAAAGGCCTATCTACATGATTTTCCTGATAATTATGAAAAAAA
65180640 AGAGAGAAAA
Statistics
Matches: 319, Mismatches: 30, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
297 51 0.16
298 1 0.00
299 84 0.26
300 183 0.57
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (298 bp):
AACTTCTACCATCAAAGGCCTATCTACATGATTTTCCTGATAATTATGAAAAAAACAAAGAAAAA
AAAATTCTATTTGTTTTCCACTATTGAAGAGAACCTTCAATCACATCAACTACTTCATATTGTTT
TACTCACAAATAGTTTTACACTTTTTTTTCGCAAAGCCTTAAAAGCTCTAGCAAAATGCATCTCA
ATGAAAGGCTTGTATTTCACCATTAAACCAATTATTGCTGCTTGAATTTTCAAGAAACAAAATCT
AAGCTTGCAACATTACTTTGATTATTGAGAATCATAAA
Found at i:65182803 original size:23 final size:23
Alignment explanation
Indices: 65182740--65182821 Score: 87
Period size: 23 Copynumber: 3.5 Consensus size: 23
65182730 ACATTGTTTG
65182740 TGAACATGTT-GAATTATATGTTCA
1 TGAACATGTTCG-ATTA-ATGTTCA
* * *
65182764 TGAACATGTTAGTTTAATGTTCG
1 TGAACATGTTCGATTAATGTTCA
*
65182787 TGAACATGTTCGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-CA
65182810 TGAACATGTTCG
1 TGAACATGTTCG
65182822 TGAACATTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.06
23 33 0.66
24 13 0.26
25 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTCA
Found at i:65182831 original size:23 final size:23
Alignment explanation
Indices: 65182787--65182832 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
65182777 TTAATGTTCG
* *
65182787 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
65182810 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
65182833 CAAATGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:65183947 original size:21 final size:23
Alignment explanation
Indices: 65183909--65183956 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
65183899 AATCATTCTA
65183909 ATTAAAACAATTATTAGT-TGAC
1 ATTAAAACAATTATTAGTGTGAC
*
65183931 TATTAAAA-ATTTA-TAGTGTGAC
1 -ATTAAAACAATTATTAGTGTGAC
65183953 ATTA
1 ATTA
65183957 GCTAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 8 0.35
22 8 0.35
23 7 0.30
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (23 bp):
ATTAAAACAATTATTAGTGTGAC
Found at i:65185916 original size:30 final size:29
Alignment explanation
Indices: 65185882--65185943 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
65185872 AAAAAGTCGT
65185882 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTTCAAAATTTACCGAAATGGGCC-A
* ** *
65185912 -TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTTCAAAATTTACCGAAATGGGCCA
65185940 TTTT
1 TTTT
65185944 CCGGGAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (29 bp):
TTTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:65186393 original size:124 final size:125
Alignment explanation
Indices: 65186164--65186514 Score: 571
Period size: 124 Copynumber: 2.8 Consensus size: 125
65186154 TTATTTCGAG
* *
65186164 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
* * *
65186228 GAAATCGCGCCCTCGTGGACACAATTTTGCTATAGTTGGTCATGTAAGAAAT-AATTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTATAGTAGGTCATGTAAGAAATCAATTTTTT
* *
65186288 TTGACGTTTCTGAGCAAATAGTAAAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAGATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* **
65186353 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATCTTTTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTATAGTAGGTCATGTAAGAAATCAATTTTTT
*
65186413 TTGACGTTTCTGAGAAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
65186478 AAATTGCGCCCTCGTGGACGCGATTTTGCTATAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTATAGTAG
65186515 CAAGTTTGGG
Statistics
Matches: 210, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
124 106 0.50
125 104 0.50
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTATAGTAGGTCATGTAAGAAATCAATTTTTT
Found at i:65189640 original size:10 final size:10
Alignment explanation
Indices: 65189625--65189649 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65189615 CAAATCTAAC
65189625 ATTATGTAAA
1 ATTATGTAAA
65189635 ATTATGTAAA
1 ATTATGTAAA
65189645 ATTAT
1 ATTAT
65189650 TAAGTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:65189692 original size:55 final size:55
Alignment explanation
Indices: 65189633--65189869 Score: 361
Period size: 55 Copynumber: 4.3 Consensus size: 55
65189623 ACATTATGTA
* *
65189633 AAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*** **
65189688 AAATTATGTAAAATTATTAAG-CCAAAAAAAAT-TTAATTAAATTAGATAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAA-T-GGTTAG-TAAAATTATC
65189744 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
65189799 AAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
65189854 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
65189870 GGTTAGGGTT
Statistics
Matches: 165, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
53 4 0.02
54 8 0.05
55 105 0.64
56 35 0.21
57 9 0.05
58 4 0.02
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Done.